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{"_key":"60c20a7b7723bebd86645346","_id":"references/60c20a7b7723bebd86645346","_rev":"_cfFkzFG---","tei":"\n\t\n\t\tTaxIt: An Iterative Computational Pipeline for Untargeted Strain-Level Identification Using MS/MS Spectra from Pathogenic Single-Organism Samples\n\t\t\n\t\t\tMKuhring\n\t\t\n\t\t10.1021/acs.jproteome.9b00714\n\t\n\t\n\t\tJ. Proteome Res\n\t\t\n\t\t\t19\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c20a7b7723bebd86645345"},"refKey":28},
{"_key":"60c20a7b7723bebd86645347","_id":"references/60c20a7b7723bebd86645347","_rev":"_cfFkzFS---","tei":"\n\t\n\t\tSkyline: an open source document editor for creating and analyzing targeted proteomics experiments\n\t\t\n\t\t\tBrendanMaclean\n\t\t\n\t\t\n\t\t\tDanielaMTomazela\n\t\t\n\t\t\n\t\t\tNicholasShulman\n\t\t\n\t\t\n\t\t\tMatthewChambers\n\t\t\n\t\t\n\t\t\tGregoryLFinney\n\t\t\n\t\t\n\t\t\tBarbaraFrewen\n\t\t\n\t\t\n\t\t\tRandallKern\n\t\t\n\t\t\n\t\t\tDavidLTabb\n\t\t\n\t\t\n\t\t\tDanielCLiebler\n\t\t\n\t\t\n\t\t\tMichaelJMaccoss\n\t\t\n\t\t10.1093/bioinformatics/btq054\n\t\t20147306\n\t\tPMC2844992\n\t\tark:/67375/HXZ-TW4HTQ9Q-9\n\t\tC817443FF3E643C0B243A311BDCE7D7F4B792E3A\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c20a7b7723bebd86645345"},"refKey":29},
{"_key":"60c20a827723bebd86645356","_id":"references/60c20a827723bebd86645356","_rev":"_cfFkzFe---","tei":"\n\t\n\t\tPySAT: A Python Toolkit for Prototyping with SAT Oracles\n\t\t\n\t\t\tAlexeyIgnatiev\n\t\t\n\t\t\n\t\t\tAntonioMorgado\n\t\t\n\t\t\n\t\t\tJoaoMarques-Silva\n\t\t\n\t\t10.1007/978-3-319-94144-8_26\n\t\t\n\t\n\t\n\t\tTheory and Applications of Satisfiability Testing – SAT 2018\n\t\t\t\t\n\t\t\tOBeyersdorff\n\t\t\tCMWintersteiger\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t10929\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c20a827723bebd86645355"},"refKey":9},
{"_key":"60c20ad27723bebd8664538f","_id":"references/60c20ad27723bebd8664538f","_rev":"_cfFkzFq---","tei":"\n\t\n\t\tPackage 'Partiallyoverlapping': Partially Overlapping Samples Tests\n\t\t\n\t\t\tBDerrick\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\t2.0 ed.\n\n","document":{"$oid":"60c20ad27723bebd8664538e"},"refKey":41},
{"_key":"60c20ae57723bebd8664539f","_id":"references/60c20ae57723bebd8664539f","_rev":"_cfFkzF2---","tei":"\n\t\n\t\tABGD, Automatic Barcode Gap Discovery for primary species delimitation\n\t\t\n\t\t\tNPuillandre\n\t\t\n\t\t\n\t\t\tALambert\n\t\t\n\t\t\n\t\t\tSBrouillet\n\t\t\n\t\t\n\t\t\tGAchaz\n\t\t\n\t\t10.1111/j.1365-294x.2011.05239.x\n\t\t21883587\n\t\tark:/67375/WNG-93L5RXJL-G\n\t\t80057509CD1C762CDAF3EFD2A95F254CCA60939D\n\t\t\n\t\n\t\n\t\tMolecular Ecology\n\t\t0962-1083\n\t\t\n\t\t\t21\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c20ae57723bebd8664539e"},"refKey":62},
{"_key":"60c20ae57723bebd866453a0","_id":"references/60c20ae57723bebd866453a0","_rev":"_cfFkzGC---","tei":"\n\t\n\t\tBayesian phylogenetics with BEAUti and the BEAST 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t10.1093/molbev/mss075\n\t\t22367748\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPLOS ONE\n\n","document":{"$oid":"60c20ae57723bebd8664539e"},"refKey":52},
{"_key":"60c20ae57723bebd866453a1","_id":"references/60c20ae57723bebd866453a1","_rev":"_cfFkzGO---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c20ae57723bebd8664539e"},"refKey":44},
{"_key":"60c20ae57723bebd866453a2","_id":"references/60c20ae57723bebd866453a2","_rev":"_cfFkzGa---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tLogCombiner v1. 8.2.\n\n","document":{"$oid":"60c20ae57723bebd8664539e"},"refKey":51},
{"_key":"60c20ae57723bebd866453a3","_id":"references/60c20ae57723bebd866453a3","_rev":"_cfFkzGm---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c20ae57723bebd8664539e"},"refKey":48},
{"_key":"60c20ae57723bebd866453a4","_id":"references/60c20ae57723bebd866453a4","_rev":"_cfFkzGy---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c20ae57723bebd8664539e"},"refKey":54},
{"_key":"60c20ae57723bebd866453a5","_id":"references/60c20ae57723bebd866453a5","_rev":"_cfFkzH----","tei":"\n\t\n\t\tiNEXT: an R package for rarefaction and extrapolation of species diversity (Hill numbers)\n\t\t\n\t\t\tTCHsieh\n\t\t\n\t\t\n\t\t\tKHMa\n\t\t\n\t\t\n\t\t\tAnneChao\n\t\t\n\t\t10.1111/2041-210x.12613\n\t\t\n\t\n\t\n\t\tMethods in Ecology and Evolution\n\t\tMethods Ecol Evol\n\t\t2041-210X\n\t\t\n\t\t\t7\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tMethods in Ecology and Evolution\n\n","document":{"$oid":"60c20ae57723bebd8664539e"},"refKey":65},
{"_key":"60c20b287723bebd866453e1","_id":"references/60c20b287723bebd866453e1","_rev":"_cfFkzHK---","tei":"\n\t\n\t\tTANDEM: matching proteins with tandem mass spectra\n\t\t\n\t\t\tRCraig\n\t\t\n\t\t\n\t\t\tRCBeavis\n\t\t\n\t\t10.1093/bioinformatics/bth092\n\t\t14976030\n\t\tark:/67375/HXZ-Q6QW2SFN-P\n\t\t3F31815812C554F44556E5B8433D2BE05C949105\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c20b287723bebd866453e0"},"refKey":35},
{"_key":"60c20b287723bebd866453e2","_id":"references/60c20b287723bebd866453e2","_rev":"_cfFkzHW---","tei":"\n\t\n\t\tSearchGUI: A Highly Adaptable Common Interface for Proteomics Search and de Novo Engines\n\t\t\n\t\t\tHaraldBarsnes\n\t\t\n\t\t\n\t\t\tMarcVaudel\n\t\t\t0000-0003-1179-9578\n\t\t\n\t\t10.1021/acs.jproteome.8b00175\n\t\t29774740\n\t\t\n\t\n\t\n\t\tJournal of Proteome Research\n\t\tJ. Proteome Res.\n\t\t1535-3893\n\t\t1535-3907\n\t\t\n\t\t\t17\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c20b287723bebd866453e0"},"refKey":31},
{"_key":"60c20b287723bebd866453e3","_id":"references/60c20b287723bebd866453e3","_rev":"_cfFkzHi---","tei":"\n\t\n\t\tMS-GF+ makes progress towards a universal database search tool for proteomics\n\t\t\n\t\t\tSangtaeKim\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1038/ncomms6277\n\t\t25358478\n\t\tPMC5036525\n\t\t\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c20b287723bebd866453e0"},"refKey":36},
{"_key":"60c20b287723bebd866453e4","_id":"references/60c20b287723bebd866453e4","_rev":"_cfFkzHq---","tei":"\n\t\n\t\tOpen Mass Spectrometry Search Algorithm\n\t\t\n\t\t\tLewisYGeer\n\t\t\n\t\t\n\t\t\tSanfordPMarkey\n\t\t\n\t\t\n\t\t\tJeffreyAKowalak\n\t\t\n\t\t\n\t\t\tLukasWagner\n\t\t\n\t\t\n\t\t\tMingXu\n\t\t\n\t\t\n\t\t\tDawnMMaynard\n\t\t\n\t\t\n\t\t\tXiaoyuYang\n\t\t\n\t\t\n\t\t\tWenyaoShi\n\t\t\n\t\t\n\t\t\tStephenHBryant\n\t\t\n\t\t10.1021/pr0499491\n\t\t15473683\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Proteome Research\n\t\tJ. Proteome Res.\n\t\t1535-3893\n\t\t1535-3907\n\t\t\n\t\t\t3\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c20b287723bebd866453e0"},"refKey":34},
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{"_key":"60c20b287723bebd866453e6","_id":"references/60c20b287723bebd866453e6","_rev":"_cfFkzIC---","tei":"\n\t\n\t\tIntegrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration\n\t\t\n\t\t\tHThorvaldsdottir\n\t\t\n\t\t\n\t\t\tJTRobinson\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1093/bib/bbs017\n\t\t22517427\n\t\tPMC3603213\n\t\t\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t14\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c20b287723bebd866453e0"},"refKey":56},
{"_key":"60c20b3f7723bebd8664541e","_id":"references/60c20b3f7723bebd8664541e","_rev":"_cfFkzIO---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c20b3f7723bebd8664541d"},"refKey":42},
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{"_key":"60c20b467723bebd8664542b","_id":"references/60c20b467723bebd8664542b","_rev":"_cfFkzIm---","tei":"\n\t\n\t\tMining in Anticipation for Concept Change: Proactive-Reactive Prediction in Data Streams\n\t\t\n\t\t\tYingYang\n\t\t\n\t\t\n\t\t\tXindongWu\n\t\t\n\t\t\n\t\t\tXingquanZhu\n\t\t\n\t\t10.1007/s10618-006-0050-x\n\t\tark:/67375/VQC-PNWTZXFB-B\n\t\tBE4A3AFFA7732EE24D7CEA9FF71C643274D636F7\n\t\n\t\n\t\tData Mining and Knowledge Discovery\n\t\tData Min Knowl Disc\n\t\t1384-5810\n\t\t1573-756X\n\t\t\n\t\t\t13\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c20b467723bebd8664542a"},"refKey":13},
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{"_key":"60c20cfb7723bebd866455ec","_id":"references/60c20cfb7723bebd866455ec","_rev":"_cfFkzPG---","tei":"\n\t\n\t\tParallel and distributed architecture of genetic algorithm on apache Hadoop and spark\n\t\t\n\t\t\tHCLu\n\t\t\n\t\t\n\t\t\tFJHwang\n\t\t\n\t\t\n\t\t\tYHHuang\n\t\t\n\t\t10.1016/j.asoc.2020.106497\n\t\t\n\t\n\t\n\t\tAppl Soft Comput\n\t\t\n\t\t\t95\n\t\t\t106497\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c20cfb7723bebd866455ea"},"refKey":21},
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{"_key":"60c20e5e7723bebd86645849","_id":"references/60c20e5e7723bebd86645849","_rev":"_cfFkzTe---","tei":"\n\t\n\t\tSWISS-MODEL: Homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c20e5e7723bebd86645848"},"refKey":10},
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{"_key":"60c20e757723bebd86645869","_id":"references/60c20e757723bebd86645869","_rev":"_cfFkzT2---","tei":"\n\t\n\t\tPrimer-BLAST: A tool to design target-specific primers for polymerase chain reaction\n\t\t\n\t\t\tJianYe\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tIrenaZaretskaya\n\t\t\n\t\t\n\t\t\tIoanaCutcutache\n\t\t\n\t\t\n\t\t\tSteveRozen\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-13-134\n\t\t22708584\n\t\tPMC3412702\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\t1\n\t\t\t134\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c20e757723bebd86645868"},"refKey":92},
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{"_key":"60c20e757723bebd8664586b","_id":"references/60c20e757723bebd8664586b","_rev":"_cfFkzUO---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c20e757723bebd86645868"},"refKey":75},
{"_key":"60c20e757723bebd8664586c","_id":"references/60c20e757723bebd8664586c","_rev":"_cfFkzUW---","tei":"\n\t\n\t\tKEGG as a reference resource for gene and protein annotation\n\t\t\n\t\t\tMinoruKanehisa\n\t\t\n\t\t\n\t\t\tYokoSato\n\t\t\n\t\t\n\t\t\tMasayukiKawashima\n\t\t\n\t\t\n\t\t\tMihoFurumichi\n\t\t\n\t\t\n\t\t\tMaoTanabe\n\t\t\n\t\t10.1093/nar/gkv1070\n\t\t26476454\n\t\tPMC4702792\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c20e757723bebd86645868"},"refKey":84},
{"_key":"60c20e757723bebd8664588a","_id":"references/60c20e757723bebd8664588a","_rev":"_cfFkzUi---","tei":"\n\t\n\t\tSingapore built a coronaviris app but it hasnt worked so far\n\t\t\n\t\n\t\n\t\tApp Covid-19 Contact Tracing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c20e757723bebd86645889"},"refKey":2},
{"_key":"60c20e8c7723bebd8664589b","_id":"references/60c20e8c7723bebd8664589b","_rev":"_cfFkzUu---","tei":"\n\t\n\t\tA project written in Python to get old tweets which could bypass some limitations of Twitter official API\n\t\t\n\t\t\tJHenrique\n\t\t\n\t\t\n\t\t\n\t\n\taccessed 2020-10-21\n\n","document":{"$oid":"60c20e8c7723bebd8664589a"},"refKey":12},
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{"_key":"60c20edc7723bebd866458ce","_id":"references/60c20edc7723bebd866458ce","_rev":"_cfFkzVO---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c20edc7723bebd866458cb"},"refKey":41},
{"_key":"60c20edc7723bebd866458cf","_id":"references/60c20edc7723bebd866458cf","_rev":"_cfFkzVa---","tei":"\n\t\n\t\tExtra Precision Glide: Docking and Scoring Incorporating a Model of Hydrophobic Enclosure for Protein−Ligand Complexes\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tMatthewPRepasky\n\t\t\n\t\t\n\t\t\tLeahLFrye\n\t\t\n\t\t\n\t\t\tJeremyRGreenwood\n\t\t\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tPaulCSanschagrin\n\t\t\n\t\t\n\t\t\tDanielTMainz\n\t\t\n\t\t10.1021/jm051256o\n\t\t17034125\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t49\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c20edc7723bebd866458cb"},"refKey":43},
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{"_key":"60c20ee27723bebd866458e0","_id":"references/60c20ee27723bebd866458e0","_rev":"_cfFkzWK---","tei":"\n\t\n\t\tORA User's Guide 2011\n\t\t\n\t\t\tKathleenMCarley\n\t\t\n\t\t\n\t\t\tJeffReminga\n\t\t\n\t\t\n\t\t\tJonStorrick\n\t\t\n\t\t\n\t\t\tDaveColumbus\n\t\t\n\t\t10.21236/ada550789\n\t\tCMU-ISRI-07-115\n\t\t\n\t\t\n\t\t\t\n\t\t\tDefense Technical Information Center\n\t\t\n\t\t\n\t\t\tCarnegie Mellon University, School of Computer Science, Institute for Software Research\n\t\t\n\t\n\tTechnical Report\n\n","document":{"$oid":"60c20ee27723bebd866458dd"},"refKey":20},
{"_key":"60c20ee27723bebd866458e1","_id":"references/60c20ee27723bebd866458e1","_rev":"_cfFkzWS---","tei":"\n\t\n\t\tAnalysis and visualization of network data using JUNG\n\t\t\n\t\t\tJO'madadhain\n\t\t\n\t\t\n\t\t\tDFisher\n\t\t\n\t\t\n\t\t\tPSmyth\n\t\t\n\t\t\n\t\t\tSWhite\n\t\t\n\t\t\n\t\t\tY.-BBoey\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tVV\n\t\t\n\t\n\tII\n\n","document":{"$oid":"60c20ee27723bebd866458dd"},"refKey":60},
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{"_key":"60c20ee27723bebd866458e5","_id":"references/60c20ee27723bebd866458e5","_rev":"_cfFkzX----","tei":"\n\t\n\t\tA Network-based Simulation Architecture for Studying Epidemic Dynamics\n\t\t\n\t\t\tChung-YuanHuang\n\t\t\n\t\t\n\t\t\tYu-ShiuanTsai\n\t\t\n\t\t\n\t\t\tTzai-HungWen\n\t\t\n\t\t10.1177/0037549709340733\n\t\tdoi=10.1177/ 0037549709340733\n\t\t\n\t\n\t\n\t\tSIMULATION\n\t\tSIMULATION\n\t\t0037-5497\n\t\t1741-3133\n\t\t\n\t\t\t86\n\t\t\t5-6\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c20ee27723bebd866458dd"},"refKey":42},
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{"_key":"60c20f417723bebd8664596d","_id":"references/60c20f417723bebd8664596d","_rev":"_cfFkzYm---","tei":"\n\t\n\t\tClosing the gap between methodologists and end-users: R as a computational back-end\n\t\t\n\t\t\tBCWallace\n\t\t\n\t\t\n\t\t\tIJDahabreh\n\t\t\n\t\t\n\t\t\tTATrikalinos\n\t\t\n\t\t\n\t\t\tJLau\n\t\t\n\t\t\n\t\t\tPTrow\n\t\t\n\t\t\n\t\t\tCHSchmid\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t49\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c20f417723bebd8664596c"},"refKey":23},
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{"_key":"60c20fac7723bebd866459da","_id":"references/60c20fac7723bebd866459da","_rev":"_cfFkzZe---","tei":"\n\t\n\t\tSOAP2: an improved ultrafast tool for short read alignment\n\t\t\n\t\t\tRLi\n\t\t\n\t\t\n\t\t\tCYu\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tT-WLam\n\t\t\n\t\t\n\t\t\tS-MYiu\n\t\t\n\t\t\n\t\t\tKKristiansen\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t10.1093/bioinformatics/btp336\n\t\t19497933\n\t\tark:/67375/HXZ-ZRGFTL32-H\n\t\t533F25C433DDF563D9D448BC06436A274691B803\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c20fac7723bebd866459d8"},"refKey":6},
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{"_key":"60c210097723bebd86645a14","_id":"references/60c210097723bebd86645a14","_rev":"_cfFkzbC---","tei":"\n\t\n\t\tA numerical Bayesian-calibrated characterization method for multiscale prepreg preforming simulations with tension-shear coupling\n\t\t\n\t\t\tWeizhaoZhang\n\t\t\n\t\t\n\t\t\tRaminBostanabad\n\t\t\t0000-0001-7785-4117\n\t\t\n\t\t\n\t\t\tBiaoLiang\n\t\t\n\t\t\n\t\t\tXumingSu\n\t\t\n\t\t\n\t\t\tDanielleZeng\n\t\t\n\t\t\n\t\t\tMiguelABessa\n\t\t\t0000-0002-6216-0355\n\t\t\n\t\t\n\t\t\tYanchaoWang\n\t\t\n\t\t\n\t\t\tWeiChen\n\t\t\n\t\t\n\t\t\tJianCao\n\t\t\n\t\t10.1016/j.compscitech.2018.11.019\n\t\n\t\n\t\tComposites Science and Technology\n\t\tComposites Science and Technology\n\t\t0266-3538\n\t\t\n\t\t\t170\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c210097723bebd86645a13"},"refKey":29},
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{"_key":"60c2104a7723bebd86645a54","_id":"references/60c2104a7723bebd86645a54","_rev":"_cfFkzba---","tei":"\n\t\n\t\tThe PyMol molecular graphics system\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\n\t\n\t\tProteins Struct. Funct. Bioinform\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2104a7723bebd86645a53"},"refKey":3},
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{"_key":"60c2107c7723bebd86645a95","_id":"references/60c2107c7723bebd86645a95","_rev":"_cfFkzcG---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary Genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2107c7723bebd86645a94"},"refKey":16},
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{"_key":"60c2107d7723bebd86645a9c","_id":"references/60c2107d7723bebd86645a9c","_rev":"_cfFkzce---","tei":"\n\t\n\t\tAccurate Genome Relative Abundance Estimation Based on Shotgun Metagenomic Reads\n\t\t\n\t\t\tLiCXia\n\t\t\n\t\t\n\t\t\tJacobACram\n\t\t\n\t\t\n\t\t\tTingChen\n\t\t\n\t\t\n\t\t\tJedAFuhrman\n\t\t\n\t\t\n\t\t\tFengzhuSun\n\t\t\n\t\t10.1371/journal.pone.0027992\n\t\t22162995\n\t\tPMC3232206\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t12\n\t\t\te27992\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c2107d7723bebd86645a9a"},"refKey":28},
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{"_key":"60c2110d7723bebd86645b9b","_id":"references/60c2110d7723bebd86645b9b","_rev":"_cfFkze6---","tei":"\n\t\n\t\tA knowledge base for predicting protein localization sites in eukaryotic cells\n\t\t\n\t\t\tKentaNakai\n\t\t\n\t\t\n\t\t\tMinoruKanehisa\n\t\t\n\t\t10.1016/s0888-7543(05)80111-9\n\t\t1478671\n\t\tS0888-7543(05)80111-9\n\t\tark:/67375/6H6-BF2TW6P8-C\n\t\tFC63FDDDCC5116A584674779F5CBE366E4721E84\n\t\n\t\n\t\tGenomics\n\t\tGenomics\n\t\t0888-7543\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2110d7723bebd86645b9a"},"refKey":33},
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{"_key":"60c213407723bebd86645dc3","_id":"references/60c213407723bebd86645dc3","_rev":"_cfFkznK---","tei":"\n\t\n\t\tinsight: Easy Access to Model Information for Various Model Objects\n\t\t\n\t\t\tDLüdecke\n\t\t\n\t\t\n\t\t\tDMakowski\n\t\t\n\t\t\n\t\t\tIPatil\n\t\t\n\t\t\n\t\t\tPWaggoner\n\t\t\n\t\t\n\t\t\t2020\n\t\t\n\t\n\tInternet. cited 2020 Sep 7\n\n","document":{"$oid":"60c213407723bebd86645dc0"},"refKey":27},
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{"_key":"60c214807723bebd86645fb1","_id":"references/60c214807723bebd86645fb1","_rev":"_cfFkzpy---","tei":"\n\t\n\t\tImproved method for predicting linear B-cell epitopes\n\t\t\n\t\t\tJepLarsen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t10.1186/1745-7580-2-2\n\t\n\t\n\t\tImmunome Research\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c214807723bebd86645faf"},"refKey":37},
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{"_key":"60c214807723bebd86645fb4","_id":"references/60c214807723bebd86645fb4","_rev":"_cfFkzqW---","tei":"\n\t\n\t\tDevelopment and testing of the OPLS all-atom force field on conformational energetics and properties of organic liquids\n\t\t\n\t\t\tWLJorgensen\n\t\t\n\t\t\n\t\t\tDSMaxwell\n\t\t\n\t\t\n\t\t\tJTirado-Rives\n\t\t\n\t\n\t\n\t\tJournal of the American Chemical Society\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c214807723bebd86645faf"},"refKey":29},
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{"_key":"60c214c67723bebd86646024","_id":"references/60c214c67723bebd86646024","_rev":"_cfFkzqq---","tei":"\n\t\n\t\tCoordinate-based activation likelihood estimation meta-analysis of neuroimaging data: A random-effects approach based on empirical estimates of spatial uncertainty\n\t\t\n\t\t\tSimonBEickhoff\n\t\t\n\t\t\n\t\t\tAngelaRLaird\n\t\t\n\t\t\n\t\t\tChristianGrefkes\n\t\t\n\t\t\n\t\t\tLingEWang\n\t\t\n\t\t\n\t\t\tKarlZilles\n\t\t\n\t\t\n\t\t\tPeterTFox\n\t\t\n\t\t10.1002/hbm.20718\n\t\t19172646\n\t\tPMC2872071\n\t\tark:/67375/WNG-R5V21TTD-F\n\t\t17BE230EE65D397C194C7EB7F1A1DAF9956FF63E\n\t\t\n\t\n\t\n\t\tHuman Brain Mapping\n\t\tHum. Brain Mapp.\n\t\t1065-9471\n\t\t1097-0193\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c214c67723bebd86646023"},"refKey":23},
{"_key":"60c214cf7723bebd8664602c","_id":"references/60c214cf7723bebd8664602c","_rev":"_cfFkzq2---","tei":"\n\t\n\t\tMatplotlib: A 2D Graphics Environment\n\t\t\n\t\t\tJohnDHunter\n\t\t\n\t\t\n\t\t\tMatplotlib\n\t\t\n\t\t10.1109/mcse.2007.55\n\t\t\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\tComput. Sci. Eng.\n\t\t1521-9615\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c214cf7723bebd8664602b"},"refKey":37},
{"_key":"60c214cf7723bebd8664602d","_id":"references/60c214cf7723bebd8664602d","_rev":"_cfFkzrC---","tei":"\n\t\n\t\tScanpy for analysis of large-scale single-cell gene expression data\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tPhilippAngerer\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/174029\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c214cf7723bebd8664602b"},"refKey":57},
{"_key":"60c214cf7723bebd8664602e","_id":"references/60c214cf7723bebd8664602e","_rev":"_cfFkzrO---","tei":"\n\t\n\t\tSciPy 1.0: fundamental algorithms for scientific computing in Python\n\t\t\n\t\t\tPVirtanen\n\t\t\n\t\t\n\t\t\tRGommers\n\t\t\n\t\t\n\t\t\tTEOliphant\n\t\t\n\t\t\n\t\t\tMHaberland\n\t\t\n\t\t\n\t\t\tTReddy\n\t\t\n\t\t\n\t\t\tDCournapeau\n\t\t\n\t\t10.1038/s41592-019-0686-2\n\t\t32015543\n\t\tPMC7056644\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t17\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c214cf7723bebd8664602b"},"refKey":40},
{"_key":"60c214cf7723bebd8664602f","_id":"references/60c214cf7723bebd8664602f","_rev":"_cfFkzrW---","tei":"\n\t\n\t\tPooling across cells to normalize single-cell RNA sequencing data with many zero counts\n\t\t\n\t\t\tATLun\n\t\t\n\t\t\n\t\t\tKBach\n\t\t\n\t\t\n\t\t\tJCMarioni\n\t\t\n\t\t10.1186/s13059-016-0947-7\n\t\t27122128\n\t\tPMC4848819\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t17\n\t\t\t75\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c214cf7723bebd8664602b"},"refKey":59},
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{"_key":"60c214ed7723bebd8664605c","_id":"references/60c214ed7723bebd8664605c","_rev":"_cfFkzru---","tei":"\n\t\n\t\tBioedit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c214ed7723bebd8664605b"},"refKey":4},
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{"_key":"60c215127723bebd86646071","_id":"references/60c215127723bebd86646071","_rev":"_cfFkzsC---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tDevelopment Core\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\tR Development Core Team\n\n","document":{"$oid":"60c215127723bebd86646070"},"refKey":37},
{"_key":"60c215307723bebd86646086","_id":"references/60c215307723bebd86646086","_rev":"_cfFkzsO---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c215307723bebd86646085"},"refKey":34},
{"_key":"60c215307723bebd86646087","_id":"references/60c215307723bebd86646087","_rev":"_cfFkzsa---","tei":"\n\t\n\t\tBuilding Predictive Models inRUsing thecaretPackage\n\t\t\n\t\t\tMaxKuhn\n\t\t\n\t\t10.18637/jss.v028.i05\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t28\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c215307723bebd86646085"},"refKey":35},
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{"_key":"60c215b17723bebd86646106","_id":"references/60c215b17723bebd86646106","_rev":"_cfFkzue---","tei":"\n\t\n\t\tComputer visualization of three-dimensional image data using IMOD\n\t\t\n\t\t\tJRKremer\n\t\t\n\t\t\n\t\t\tDNMastronarde\n\t\t\n\t\t\n\t\t\tJR RMcintosh\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t116\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c215b17723bebd86646103"},"refKey":38},
{"_key":"60c215cd7723bebd86646132","_id":"references/60c215cd7723bebd86646132","_rev":"_cfFkzuq---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t772\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c215cd7723bebd86646131"},"refKey":7},
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{"_key":"60c216387723bebd86646198","_id":"references/60c216387723bebd86646198","_rev":"_cfFkzvu---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c216387723bebd86646196"},"refKey":53},
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{"_key":"60c216477723bebd866461c5","_id":"references/60c216477723bebd866461c5","_rev":"_cfFkzwO---","tei":"\n\t\n\t\tPosterior Summarization in Bayesian Phylogenetics Using Tracer 1.7\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syy032\n\t\t29718447\n\t\tPMC6101584\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t67\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c216477723bebd866461c2"},"refKey":24},
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{"_key":"60c216fe7723bebd86646271","_id":"references/60c216fe7723bebd86646271","_rev":"_cfFkzy----","tei":"\n\t\n\t\tSwissADME: a free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules\n\t\t\n\t\t\tAntoineDaina\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t10.1038/srep42717\n\t\t28256516\n\t\tPMC5335600\n\t\t\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t42717\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c216fe7723bebd8664626b"},"refKey":9},
{"_key":"60c216fe7723bebd86646272","_id":"references/60c216fe7723bebd86646272","_rev":"_cfFkzyK---","tei":"\n\t\n\t\tStructure of the SARS-CoV-2 spike receptor-binding domain bound to the ACE2 receptor\n\t\t\n\t\t\tJLan\n\t\t\n\t\t\n\t\t\tJGe\n\t\t\n\t\t\n\t\t\tJYu\n\t\t\n\t\t\n\t\t\tSShan\n\t\t\n\t\t\n\t\t\tHZhou\n\t\t\n\t\t\n\t\t\tSFan\n\t\t\n\t\t\n\t\t\tQZhang\n\t\t\n\t\t\n\t\t\tXShi\n\t\t\n\t\t\n\t\t\tQWang\n\t\t\n\t\t\n\t\t\tLZhang\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\t10.1038/s41586-020-2180-5\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t581\n\t\t\t7807\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c216fe7723bebd8664626b"},"refKey":26},
{"_key":"60c216fe7723bebd86646273","_id":"references/60c216fe7723bebd86646273","_rev":"_cfFkzyW---","tei":"\n\t\n\t\tStructural basis of receptor recognition by SARS-CoV-2\n\t\t\n\t\t\tJShang\n\t\t\n\t\t\n\t\t\tGYe\n\t\t\n\t\t\n\t\t\tKShi\n\t\t\n\t\t\n\t\t\tYWan\n\t\t\n\t\t\n\t\t\tCLuo\n\t\t\n\t\t\n\t\t\tHAihara\n\t\t\n\t\t\n\t\t\tQGeng\n\t\t\n\t\t\n\t\t\tAAuerbach\n\t\t\n\t\t\n\t\t\tFLi\n\t\t\n\t\t10.1038/s41586-020-2179-y\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t581\n\t\t\t7807\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c216fe7723bebd8664626b"},"refKey":46},
{"_key":"60c2171e7723bebd866462a5","_id":"references/60c2171e7723bebd866462a5","_rev":"_cfFkzyi---","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSSaha\n\t\t\n\t\t\n\t\t\tGPRaghava\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2171e7723bebd866462a4"},"refKey":17},
{"_key":"60c2171e7723bebd866462a6","_id":"references/60c2171e7723bebd866462a6","_rev":"_cfFkzyu---","tei":"\n\t\n\t\tSWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling\n\t\t\n\t\t\tNGuex\n\t\t\n\t\t\n\t\t\tMCPeitsch\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2171e7723bebd866462a4"},"refKey":11},
{"_key":"60c2171e7723bebd866462a7","_id":"references/60c2171e7723bebd866462a7","_rev":"_cfFkzy6---","tei":"\n\t\n\t\tImproved method for predicting linear B-cell epitopes\n\t\t\n\t\t\tJELarsen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunome Res\n\t\t\n\t\t\t2\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2171e7723bebd866462a4"},"refKey":18},
{"_key":"60c2171e7723bebd866462a8","_id":"references/60c2171e7723bebd866462a8","_rev":"_cfFkzzG---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\t\n\t\t\tFTHeer\n\t\t\n\t\t\n\t\t\tTapDe Beer\n\t\t\n\t\t\n\t\t\tCRempfer\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2171e7723bebd866462a4"},"refKey":9},
{"_key":"60c2171e7723bebd866462a9","_id":"references/60c2171e7723bebd866462a9","_rev":"_cfFkzzS---","tei":"\n\t\n\t\tThe Proteomics Protocols Handbook\n\t\t\n\t\t\tJMWalker\n\t\t\n\t\t10.1385/1592598900\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2171e7723bebd866462a4"},"refKey":7},
{"_key":"60c2171e7723bebd866462aa","_id":"references/60c2171e7723bebd866462aa","_rev":"_cfFkzze---","tei":"\n\t\n\t\tSequence and structure-based prediction of eukaryotic protein phosphorylation sites\n\t\t\n\t\t\tNBlom\n\t\t\n\t\t\n\t\t\tSGammeltoft\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t294\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2171e7723bebd866462a4"},"refKey":8},
{"_key":"60c2171e7723bebd866462ab","_id":"references/60c2171e7723bebd866462ab","_rev":"_cfFkzzu---","tei":"\n\t\n\t\tWebLogo: a sequence logo generator\n\t\t\n\t\t\tGECrooks\n\t\t\n\t\t\n\t\t\tGHon\n\t\t\n\t\t\n\t\t\tJMChandonia\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2171e7723bebd866462a4"},"refKey":21},
{"_key":"60c2171e7723bebd866462ac","_id":"references/60c2171e7723bebd866462ac","_rev":"_cfFkzz6---","tei":"\n\t\n\t\tSequence logos: a new way to display consensus sequences\n\t\t\n\t\t\tTDSchneider\n\t\t\n\t\t\n\t\t\tRMStephens\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2171e7723bebd866462a4"},"refKey":22},
{"_key":"60c2173a7723bebd866462cf","_id":"references/60c2173a7723bebd866462cf","_rev":"_cfFkz0G---","tei":"\n\t\n\t\tCPAchecker: A tool for configurable software verification\n\t\t\n\t\t\tDBeyer\n\t\t\n\t\t\n\t\t\tMEKeremoglu\n\t\t\n\t\n\t\n\t\tProc. CAV\n\t\t\t\tCAV\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t6806\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2173a7723bebd866462ce"},"refKey":2},
{"_key":"60c2173a7723bebd866462d0","_id":"references/60c2173a7723bebd866462d0","_rev":"_cfFkz0S---","tei":"\n\t\n\t\tHybridTiger: Hybrid model checking and domination-based partitioning for efficient multi-goal test-suite generation (competition contribution)\n\t\t\n\t\t\tSRuland\n\t\t\n\t\t\n\t\t\tMLochau\n\t\t\n\t\t\n\t\t\tMCJakobs\n\t\t\n\t\n\t\n\t\tProc. FASE\n\t\t\t\tFASE\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2173a7723bebd866462ce"},"refKey":10},
{"_key":"60c2173a7723bebd866462d1","_id":"references/60c2173a7723bebd866462d1","_rev":"_cfFkz0a---","tei":"\n\t\n\t\tThe MathSAT5 SMT solver\n\t\t\n\t\t\tACimatti\n\t\t\n\t\t\n\t\t\tAGriggio\n\t\t\n\t\t\n\t\t\tBJSchaafsma\n\t\t\n\t\t\n\t\t\tRSebastiani\n\t\t\n\t\n\t\n\t\tProc. TACAS\n\t\t\t\tTACAS\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t7795\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2173a7723bebd866462ce"},"refKey":6},
{"_key":"60c217607723bebd86646308","_id":"references/60c217607723bebd86646308","_rev":"_cfFkz0m---","tei":"\n\t\n\t\tShould health care demand interpretable artificial intelligence or accept "black box" medicine?\n\t\t\n\t\t\tFWang\n\t\t\n\t\t\n\t\t\tRKaushal\n\t\t\n\t\t\n\t\t\tDKhullar\n\t\t\n\t\t10.7326/M19-2548\n\t\t\n\t\t\n\t\t\t\n\t\t\tAnn Internal Med\n\t\t\n\t\n\n","document":{"$oid":"60c217607723bebd86646307"},"refKey":49},
{"_key":"60c217817723bebd8664631d","_id":"references/60c217817723bebd8664631d","_rev":"_cfFkz0y---","tei":"\n\t\n\t\tEnhanced taxonomy annotation of antiviral activity data from ChEMBL\n\t\t\n\t\t\tAnastasiaANikitina\n\t\t\n\t\t\n\t\t\tAlexeyAOrlov\n\t\t\n\t\t\n\t\t\tLiubovIKozlovskaya\n\t\t\n\t\t\n\t\t\tVladimirAPalyulin\n\t\t\n\t\t\n\t\t\tDmitryIOsolodkin\n\t\t\n\t\t10.1093/database/bay139\n\t\t30753475\n\t\t\n\t\n\t\n\t\tDatabase\n\t\t1758-0463\n\t\t\n\t\t\t2019\n\t\t\tbay139\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c217817723bebd8664631c"},"refKey":46},
{"_key":"60c217817723bebd8664631e","_id":"references/60c217817723bebd8664631e","_rev":"_cfFkz1----","tei":"\n\t\n\t\tSurprise, a Python Library for Recommender Systems\n\t\t\n\t\t\tNHug\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c217817723bebd8664631c"},"refKey":54},
{"_key":"60c217817723bebd8664631f","_id":"references/60c217817723bebd8664631f","_rev":"_cfFkz1K---","tei":"\n\t\n\t\t\n\t\tKode srl, Dragon (Software for Molecular Descriptor Calculation)\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\t55) ICTV Master Species List\n\n","document":{"$oid":"60c217817723bebd8664631c"},"refKey":57},
{"_key":"60c217867723bebd8664632e","_id":"references/60c217867723bebd8664632e","_rev":"_cfFkz1W---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with BWA-MEM\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t00\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c217867723bebd8664632d"},"refKey":65},
{"_key":"60c217867723bebd8664632f","_id":"references/60c217867723bebd8664632f","_rev":"_cfFkz1i---","tei":"\n\t\n\t\tAn amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar\n\t\t\n\t\t\tNathanDGrubaugh\n\t\t\n\t\t\n\t\t\tKarthikGangavarapu\n\t\t\n\t\t\n\t\t\tJoshuaQuick\n\t\t\n\t\t\n\t\t\tNathanielLMatteson\n\t\t\n\t\t\n\t\t\tJaquelineGoesDe Jesus\n\t\t\n\t\t\n\t\t\tBradleyJMain\n\t\t\n\t\t\n\t\t\tAmandaLTan\n\t\t\n\t\t\n\t\t\tLaurenMPaul\n\t\t\n\t\t\n\t\t\tDougEBrackney\n\t\t\n\t\t\n\t\t\tSaranGrewal\n\t\t\n\t\t\n\t\t\tNikosGurfield\n\t\t\n\t\t\n\t\t\tKoenK AVan Rompay\n\t\t\n\t\t\n\t\t\tSharonIsern\n\t\t\n\t\t\n\t\t\tScottFMichael\n\t\t\n\t\t\n\t\t\tLarkLCoffey\n\t\t\n\t\t\n\t\t\tNicholasJLoman\n\t\t\n\t\t\n\t\t\tKristianGAndersen\n\t\t\t0000-0001-6431-5982\n\t\t\n\t\t10.1186/s13059-018-1618-7\n\t\t30621750\n\t\tPMC6325816\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c217867723bebd8664632d"},"refKey":27},
{"_key":"60c217867723bebd86646330","_id":"references/60c217867723bebd86646330","_rev":"_cfFkz1u---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c217867723bebd8664632d"},"refKey":66},
{"_key":"60c217867723bebd86646331","_id":"references/60c217867723bebd86646331","_rev":"_cfFkz12---","tei":"\n\t\n\t\tIntra-host sequence variability in human papillomavirus\n\t\t\n\t\t\tRachealSDube Mandishora\n\t\t\n\t\t\n\t\t\tKristinaSGjøtterud\n\t\t\n\t\t\n\t\t\tSonjaLagström\n\t\t\n\t\t\n\t\t\tBabillStray-Pedersen\n\t\t\n\t\t\n\t\t\tKerinaDuri\n\t\t\n\t\t\n\t\t\tNyashaChin'ombe\n\t\t\n\t\t\n\t\t\tMariNygård\n\t\t\n\t\t\n\t\t\tIreneKrausChristiansen\n\t\t\n\t\t\n\t\t\tOleHermanAmbur\n\t\t\n\t\t\n\t\t\tMikeZChirenje\n\t\t\n\t\t\n\t\t\tTrineBRounge\n\t\t\n\t\t10.1016/j.pvr.2018.04.006\n\t\t29723682\n\t\tPMC6047465\n\t\n\t\n\t\tPapillomavirus Research\n\t\tPapillomavirus Research\n\t\t2405-8521\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c217867723bebd8664632d"},"refKey":21},
{"_key":"60c217867723bebd86646332","_id":"references/60c217867723bebd86646332","_rev":"_cfFkz2C---","tei":"\n\t\n\t\tBEDTools: A flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c217867723bebd8664632d"},"refKey":67},
{"_key":"60c217867723bebd86646333","_id":"references/60c217867723bebd86646333","_rev":"_cfFkz2O---","tei":"\n\t\n\t\tTrimmomatic: A flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c217867723bebd8664632d"},"refKey":64},
{"_key":"60c217867723bebd86646334","_id":"references/60c217867723bebd86646334","_rev":"_cfFkz2a---","tei":"\n\t\n\t\tFast processing of NGS alignment formats\n\t\t\n\t\t\tATarasov\n\t\t\n\t\t\n\t\t\tAJVilella\n\t\t\n\t\t\n\t\t\tECuppen\n\t\t\n\t\t\n\t\t\tIJNijman\n\t\t\n\t\t\n\t\t\tPPrins\n\t\t\n\t\t\n\t\t\tSambamba\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c217867723bebd8664632d"},"refKey":63},
{"_key":"60c217937723bebd86646352","_id":"references/60c217937723bebd86646352","_rev":"_cfFkz2m---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c217937723bebd86646351"},"refKey":34},
{"_key":"60c217b47723bebd86646385","_id":"references/60c217b47723bebd86646385","_rev":"_cfFkz2u---","tei":"\n\t\n\t\tR Foundation for Statistical Computing\n\t\n\t\n\t\tR Development Core Team T. A Language and Environment for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c217b47723bebd86646384"},"refKey":23},
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{"_key":"60c2199b7723bebd86646595","_id":"references/60c2199b7723bebd86646595","_rev":"_cfFk0AC---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2199b7723bebd8664658f"},"refKey":20},
{"_key":"60c2199b7723bebd86646596","_id":"references/60c2199b7723bebd86646596","_rev":"_cfFk0AO---","tei":"\n\t\n\t\tClusterprofiler: an R package for comparing biological themes among gene clusters\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tLGWang\n\t\t\n\t\t\n\t\t\tYHan\n\t\t\n\t\n\t\n\t\tOmics: J integr biol\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2199b7723bebd8664658f"},"refKey":26},
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{"_key":"60c219e87723bebd866465d6","_id":"references/60c219e87723bebd866465d6","_rev":"_cfFk0Am---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing. R Core Team\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c219e87723bebd866465d5"},"refKey":18},
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{"_key":"60c21a037723bebd866465f8","_id":"references/60c21a037723bebd866465f8","_rev":"_cfFk0B----","tei":"\n\t\n\t\tHigh throughput estimation of functional cell activities reveals disease mechanisms and predicts relevant clinical outcomes\n\t\t\n\t\t\tMartaRHidalgo\n\t\t\n\t\t\n\t\t\tCankutCubuk\n\t\t\n\t\t\n\t\t\tAliciaAmadoz\n\t\t\n\t\t\n\t\t\tFranciscoSalavert\n\t\t\n\t\t\n\t\t\tJoséCarbonell-Caballero\n\t\t\n\t\t\n\t\t\tJoaquinDopazo\n\t\t\n\t\t10.18632/oncotarget.14107\n\t\t28042959\n\t\tPMC5354899\n\t\t\n\t\n\t\n\t\tOncotarget\n\t\tOncotarget\n\t\t1949-2553\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tImpact Journals, LLC\n\t\t\n\t\n\n","document":{"$oid":"60c21a037723bebd866465f7"},"refKey":6},
{"_key":"60c21a177723bebd86646618","_id":"references/60c21a177723bebd86646618","_rev":"_cfFk0BK---","tei":"\n\t\n\t\tImproving physical realism, stereochemistry, and side-chain accuracy in homology modeling: Four approaches that performed well in CASP8\n\t\t\n\t\t\tElmarKrieger\n\t\t\n\t\t\n\t\t\tKeehyoungJoo\n\t\t\n\t\t\n\t\t\tJinwooLee\n\t\t\n\t\t\n\t\t\tJooyoungLee\n\t\t\n\t\t\n\t\t\tSrivatsanRaman\n\t\t\n\t\t\n\t\t\tJamesThompson\n\t\t\n\t\t\n\t\t\tMikeTyka\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t\n\t\t\tKevinKarplus\n\t\t\n\t\t10.1002/prot.22570\n\t\t19768677\n\t\tPMC2922016\n\t\tark:/67375/WNG-0N7FWH3R-F\n\t\tCF1A39E796BEFF4969B0D21684FC34F5A4C1CACD\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t77\n\t\t\tS9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c21a177723bebd86646617"},"refKey":32},
{"_key":"60c21a447723bebd8664662b","_id":"references/60c21a447723bebd8664662b","_rev":"_cfFk0BW---","tei":"\n\t\n\t\t“Found in Translation”: predicting outcomes of complex organic chemistry reactions using neural sequence-to-sequence models\n\t\t\n\t\t\tPhilippeSchwaller\n\t\t\t0000-0003-3046-6576\n\t\t\n\t\t\n\t\t\tThéophileGaudin\n\t\t\n\t\t\n\t\t\tDávidLányi\n\t\t\n\t\t\n\t\t\tCostasBekas\n\t\t\n\t\t\n\t\t\tTeodoroLaino\n\t\t\n\t\t10.1039/c8sc02339e\n\t\t30090297\n\t\tPMC6053976\n\t\t\n\t\n\t\n\t\tChemical Science\n\t\tChem. Sci.\n\t\t2041-6520\n\t\t2041-6539\n\t\t\n\t\t\t9\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\tRoyal Society of Chemistry (RSC)\n\t\t\n\t\n\n","document":{"$oid":"60c21a447723bebd8664662a"},"refKey":39},
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{"_key":"60c21a4a7723bebd86646633","_id":"references/60c21a4a7723bebd86646633","_rev":"_cfFk0CC---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinforma Oxf Engl\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21a4a7723bebd8664662f"},"refKey":58},
{"_key":"60c21a4a7723bebd86646634","_id":"references/60c21a4a7723bebd86646634","_rev":"_cfFk0CO---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c21a4a7723bebd8664662f"},"refKey":60},
{"_key":"60c21a517723bebd8664663f","_id":"references/60c21a517723bebd8664663f","_rev":"_cfFk0Ca---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tGascuel\n\t\t\n\t\n\t\n\t\teng. Syst. Biol\n\t\t1063-5157\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPrint\n\n","document":{"$oid":"60c21a517723bebd8664663e"},"refKey":13},
{"_key":"60c21a517723bebd86646640","_id":"references/60c21a517723bebd86646640","_rev":"_cfFk0Cm---","tei":"\n\t\n\t\tBayesian Phylogenetics with BEAUti and the BEAST 1.7\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t10.1093/molbev/mss075\n\t\t22367748\n\t\tPMC3408070\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t29\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c21a517723bebd8664663e"},"refKey":6},
{"_key":"60c21a517723bebd86646641","_id":"references/60c21a517723bebd86646641","_rev":"_cfFk0Cy---","tei":"\n\t\n\t\tBEAST 2: A Software Platform for Bayesian Evolutionary Analysis\n\t\t\n\t\t\tRemcoBouckaert\n\t\t\n\t\t\n\t\t\tJosephHeled\n\t\t\n\t\t\n\t\t\tDeniseKühnert\n\t\t\n\t\t\n\t\t\tTimVaughan\n\t\t\n\t\t\n\t\t\tChieh-HsiWu\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t10.1371/journal.pcbi.1003537\n\t\t24722319\n\t\tPMC3985171\n\t\tDOI: 10.1371/ journal.pcbi.1003537\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\tPrlic A, e1003537\n\t\t1553-7358\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\te1003537\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c21a517723bebd8664663e"},"refKey":1},
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{"_key":"60c21a7b7723bebd86646661","_id":"references/60c21a7b7723bebd86646661","_rev":"_cfFk0DS---","tei":"\n\t\n\t\tProtocol for rapid unsupervised cryo-EM structure determination using cryoSPARC software\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tJohnRubinstein\n\t\t\n\t\t\n\t\t\tDavidFleet\n\t\t\n\t\t\n\t\t\tMarcusBrubaker\n\t\t\n\t\t10.1038/protex.2017.009\n\t\n\t\n\t\tProtocol Exchange\n\t\tProtocol Exchange\n\t\t2043-0116\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c21a7b7723bebd8664665f"},"refKey":43},
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{"_key":"60c21b397723bebd86646720","_id":"references/60c21b397723bebd86646720","_rev":"_cfFk0Fm---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21b397723bebd8664671e"},"refKey":24},
{"_key":"60c21b497723bebd86646741","_id":"references/60c21b497723bebd86646741","_rev":"_cfFk0Fy---","tei":"\n\t\n\t\tPower 3: a flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFFaul\n\t\t\n\t\t\n\t\t\tEErdfelder\n\t\t\n\t\t\n\t\t\tLangABuchner\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\n\t\n\t\tBehav Res Methods\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21b497723bebd86646740"},"refKey":40},
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{"_key":"60c21bd77723bebd866467a9","_id":"references/60c21bd77723bebd866467a9","_rev":"_cfFk0Gu---","tei":"\n\t\n\t\tBindN: a web-based tool for efficient prediction of DNA and RNA binding sites in amino acid sequences\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tSJBrown\n\t\t\n\t\t10.1093/nar/gkl298\n\t\t16845003\n\t\tPMC1538853\n\t\tark:/67375/HXZ-FTH38QPZ-M\n\t\t3E718BA253CFA402CC67596D6CEA80616BFE240C\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c21bd77723bebd866467a6"},"refKey":43},
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{"_key":"60c21bd77723bebd866467b0","_id":"references/60c21bd77723bebd866467b0","_rev":"_cfFk0H6---","tei":"\n\t\n\t\tSPICKER: A clustering approach to identify near-native protein folds\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t\n\t\t\tJeffreySkolnick\n\t\t\n\t\t10.1002/jcc.20011\n\t\t15011258\n\t\tark:/67375/WNG-5B0BQ1K6-2\n\t\t6A95E4FDA70D8D6F8E3507E021496B3A62904D74\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c21bd77723bebd866467a6"},"refKey":77},
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{"_key":"60c21bd77723bebd866467b2","_id":"references/60c21bd77723bebd866467b2","_rev":"_cfFk0IS---","tei":"\n\t\n\t\tA threading-based method (FINDSITE) for ligand-binding site prediction and functional annotation\n\t\t\n\t\t\tMBrylinski\n\t\t\n\t\t\n\t\t\tJSkolnick\n\t\t\n\t\t10.1073/pnas.0707684105\n\t\t18165317\n\t\tPMC2224172\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t105\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c21bd77723bebd866467a6"},"refKey":78},
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{"_key":"60c21c197723bebd8664684b","_id":"references/60c21c197723bebd8664684b","_rev":"_cfFk0Iy---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tSchro ¨dinger\n\t\t\n\t\t\n\t\t\tLlc\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21c197723bebd86646849"},"refKey":48},
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{"_key":"60c21c197723bebd8664684f","_id":"references/60c21c197723bebd8664684f","_rev":"_cfFk0Ji---","tei":"\n\t\n\t\tThe DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tQTan\n\t\t\n\t\t\n\t\t\tJRCollins\n\t\t\n\t\t\n\t\t\tWGAlvord\n\t\t\n\t\t\n\t\t\tJRoayaei\n\t\t\n\t\t\n\t\t\tRStephens\n\t\t\n\t\t\n\t\t\tMWBaseler\n\t\t\n\t\t\n\t\t\tHCLane\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t8\n\t\t\tR183\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21c197723bebd86646849"},"refKey":26},
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{"_key":"60c21eef7723bebd86646a44","_id":"references/60c21eef7723bebd86646a44","_rev":"_cfFk0QK---","tei":"\n\t\n\t\tReview Manager Web (RevMan Web) 2019\n\t\t\n\t\n\tRevman Web). Available from: revman.cochrane.org\n\n","document":{"$oid":"60c21eef7723bebd86646a43"},"refKey":87},
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{"_key":"60c21efa7723bebd86646a54","_id":"references/60c21efa7723bebd86646a54","_rev":"_cfFk0Qi---","tei":"\n\t\n\t\tBEAST 2.5: An Advanced Software Platform for Bayesian Evolutionary Analysis\n\t\t\n\t\t\tRemcoBouckaert\n\t\t\t0000-0001-6765-3813\n\t\t\n\t\t\n\t\t\tTimothyGVaughan\n\t\t\n\t\t\n\t\t\tJoëlleBarido-Sottani\n\t\t\t0000-0002-5220-5468\n\t\t\n\t\t\n\t\t\tSebastiánDuchêne\n\t\t\t0000-0002-2863-0907\n\t\t\n\t\t\n\t\t\tMathieuFourment\n\t\t\t0000-0001-8153-9822\n\t\t\n\t\t\n\t\t\tAlexandraGavryushkina\n\t\t\n\t\t\n\t\t\tJosephHeled\n\t\t\t0000-0002-2403-7997\n\t\t\n\t\t\n\t\t\tGrahamJones\n\t\t\t0000-0002-9686-5871\n\t\t\n\t\t\n\t\t\tDeniseKühnert\n\t\t\t0000-0002-5657-018X\n\t\t\n\t\t\n\t\t\tNicolaDeMaio\n\t\t\t0000-0002-1776-8564\n\t\t\n\t\t\n\t\t\tMichaelMatschiner\n\t\t\n\t\t\n\t\t\tFábioKMendes\n\t\t\t0000-0001-6204-7208\n\t\t\n\t\t\n\t\t\tNicolaFMüller\n\t\t\n\t\t\n\t\t\tHuwOgilvie\n\t\t\t0000-0003-1589-6885\n\t\t\n\t\t\n\t\t\tLouisDuPlessis\n\t\t\n\t\t\n\t\t\tAlexPopinga\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tDavidRasmussen\n\t\t\n\t\t\n\t\t\tIgorSiveroni\n\t\t\t0000-0003-2595-3062\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\t0000-0001-9818-479X\n\t\t\n\t\t\n\t\t\tChieh-HsiWu\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tChiZhang\n\t\t\t0000-0001-6009-5273\n\t\t\n\t\t\n\t\t\tTanjaStadler\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\t0000-0003-4454-2576\n\t\t\n\t\t10.1101/474296\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t15\n\t\t\te1006650\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c21efa7723bebd86646a52"},"refKey":15},
{"_key":"60c21f1b7723bebd86646a6a","_id":"references/60c21f1b7723bebd86646a6a","_rev":"_cfFk0Qq---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability (outlines version 7)\n\t\t\n\t\t\tKStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21f1b7723bebd86646a69"},"refKey":31},
{"_key":"60c21f1b7723bebd86646a6b","_id":"references/60c21f1b7723bebd86646a6b","_rev":"_cfFk0Q2---","tei":"\n\t\n\t\tJMod-elTest 2: More models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21f1b7723bebd86646a69"},"refKey":7},
{"_key":"60c21f1b7723bebd86646a6c","_id":"references/60c21f1b7723bebd86646a6c","_rev":"_cfFk0RC---","tei":"\n\t\n\t\tApproximate likelihood-ratio test for branches: a fast, accurate, and powerful alternative\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t55\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21f1b7723bebd86646a69"},"refKey":0},
{"_key":"60c21f1b7723bebd86646a6d","_id":"references/60c21f1b7723bebd86646a6d","_rev":"_cfFk0RO---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: Assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21f1b7723bebd86646a69"},"refKey":22},
{"_key":"60c21f1f7723bebd86646a74","_id":"references/60c21f1f7723bebd86646a74","_rev":"_cfFk0Ra---","tei":"\n\t\n\t\tMEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21f1f7723bebd86646a73"},"refKey":25},
{"_key":"60c21f787723bebd86646a92","_id":"references/60c21f787723bebd86646a92","_rev":"_cfFk0Rm---","tei":"\n\t\n\t\tAutomated MAD and MIR structure solution\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tJoelBerendzen\n\t\t\n\t\t10.1107/s0907444999000839\n\t\t10089316\n\t\tPMC2746121\n\t\tark:/67375/WNG-6990X6L4-P\n\t\t2FE8F0266CA4A6B01599B11B2A2306B9D6533034\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t55\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c21f787723bebd86646a91"},"refKey":67},
{"_key":"60c21f787723bebd86646a93","_id":"references/60c21f787723bebd86646a93","_rev":"_cfFk0Ru---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallog. sect. D\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21f787723bebd86646a91"},"refKey":72},
{"_key":"60c21f787723bebd86646a94","_id":"references/60c21f787723bebd86646a94","_rev":"_cfFk0R6---","tei":"\n\t\n\t\tThe CCP4 suite: programs for protein crystallography\n\t\n\t\n\t\tActa Crystallog. sect. D\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21f787723bebd86646a91"},"refKey":70},
{"_key":"60c21fa07723bebd86646ab6","_id":"references/60c21fa07723bebd86646ab6","_rev":"_cfFk0SG---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c21fa07723bebd86646ab5"},"refKey":47},
{"_key":"60c21fc57723bebd86646ad9","_id":"references/60c21fc57723bebd86646ad9","_rev":"_cfFk0SS---","tei":"\n\t\n\t\tMetaprop: a Stata command to perform meta-analysis of binomial data\n\t\t\n\t\t\tVNyaga\n\t\t\n\t\t\n\t\t\tMArbyn\n\t\t\n\t\t\n\t\t\tMAerts\n\t\t\n\t\t\n\t\t\t\n\t\t\tArchives of Public Health\n\t\t\t72\n\t\t\t39\n\t\t\n\t\n\n","document":{"$oid":"60c21fc57723bebd86646ad8"},"refKey":14},
{"_key":"60c21fc87723bebd86646ade","_id":"references/60c21fc87723bebd86646ade","_rev":"_cfFk0Se---","tei":"\n\t\n\t\tIntegrative Analysis of Complex Cancer Genomics and Clinical Profiles Using the cBioPortal\n\t\t\n\t\t\tJGao\n\t\t\n\t\t\n\t\t\tBAAksoy\n\t\t\n\t\t\n\t\t\tUDogrusoz\n\t\t\n\t\t\n\t\t\tGDresdner\n\t\t\n\t\t\n\t\t\tBGross\n\t\t\n\t\t\n\t\t\tSOSumer\n\t\t\n\t\t\n\t\t\tYSun\n\t\t\n\t\t\n\t\t\tAJacobsen\n\t\t\n\t\t\n\t\t\tRSinha\n\t\t\n\t\t\n\t\t\tELarsson\n\t\t\n\t\t\n\t\t\tECerami\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\t\n\t\t\tNSchultz\n\t\t\n\t\t10.1126/scisignal.2004088\n\t\t23550210\n\t\tPMC4160307\n\t\t\n\t\t\n\t\n\t\n\t\tScience Signaling\n\t\tScience Signaling\n\t\t1945-0877\n\t\t1937-9145\n\t\t\n\t\t\t6\n\t\t\t269\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c21fc87723bebd86646add"},"refKey":15},
{"_key":"60c21fc87723bebd86646adf","_id":"references/60c21fc87723bebd86646adf","_rev":"_cfFk0Sm---","tei":"\n\t\n\t\tThe cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data: Figure 1.\n\t\t\n\t\t\tEthanCerami\n\t\t\n\t\t\n\t\t\tJianjiongGao\n\t\t\n\t\t\n\t\t\tUgurDogrusoz\n\t\t\n\t\t\n\t\t\tBenjaminEGross\n\t\t\n\t\t\n\t\t\tSelcukOnurSumer\n\t\t\n\t\t\n\t\t\tBülentArmanAksoy\n\t\t\n\t\t\n\t\t\tAndersJacobsen\n\t\t\n\t\t\n\t\t\tCaitlinJByrne\n\t\t\n\t\t\n\t\t\tMichaelLHeuer\n\t\t\n\t\t\n\t\t\tErikLarsson\n\t\t\n\t\t\n\t\t\tYevgeniyAntipin\n\t\t\n\t\t\n\t\t\tBorisReva\n\t\t\n\t\t\n\t\t\tArthurPGoldberg\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t\n\t\t\tNikolausSchultz\n\t\t\n\t\t10.1158/2159-8290.cd-12-0095\n\t\t22588877\n\t\tPMC3956037\n\t\t\n\t\t\n\t\n\t\n\t\tCancer Discovery\n\t\tCancer Discovery\n\t\t2159-8274\n\t\t2159-8290\n\t\t\n\t\t\t2\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c21fc87723bebd86646add"},"refKey":16},
{"_key":"60c220127723bebd86646b06","_id":"references/60c220127723bebd86646b06","_rev":"_cfFk0Sy---","tei":"\n\t\n\t\tKAAS: an automatic genome annotation and pathway reconstruction server\n\t\t\n\t\t\tYMoriya\n\t\t\n\t\t\n\t\t\tMItoh\n\t\t\n\t\t\n\t\t\tSOkuda\n\t\t\n\t\t\n\t\t\tACYoshizawa\n\t\t\n\t\t\n\t\t\tMKanehisa\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220127723bebd86646b05"},"refKey":29},
{"_key":"60c220127723bebd86646b07","_id":"references/60c220127723bebd86646b07","_rev":"_cfFk0T----","tei":"\n\t\n\t\tHigh-throughput functional annotation and data mining with the Blast2GO suite\n\t\t\n\t\t\tSGötz\n\t\t\n\t\t\n\t\t\tJMGarcíagómez\n\t\t\n\t\t\n\t\t\tJTerol\n\t\t\n\t\t\n\t\t\tTDWilliams\n\t\t\n\t\t\n\t\t\tSHNagaraj\n\t\t\n\t\t\n\t\t\tMJNueda\n\t\t\n\t\t\n\t\t\tMRobles\n\t\t\n\t\t\n\t\t\tMTalón\n\t\t\n\t\t\n\t\t\tJDopazo\n\t\t\n\t\t\n\t\t\tAConesa\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220127723bebd86646b05"},"refKey":28},
{"_key":"60c220237723bebd86646b1e","_id":"references/60c220237723bebd86646b1e","_rev":"_cfFk0TK---","tei":"\n\t\n\t\tIBM Corp. IBM SPSS Statistics for Windows VA. NY: IBM Corp\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220237723bebd86646b1d"},"refKey":26},
{"_key":"60c220317723bebd86646b26","_id":"references/60c220317723bebd86646b26","_rev":"_cfFk0TW---","tei":"\n\t\n\t\tCerebral Microbleeds: Histopathological Correlation of Neuroimaging\n\t\t\n\t\t\tAShoamanesh\n\t\t\n\t\t\n\t\t\tCSKwok\n\t\t\n\t\t\n\t\t\tOBenavente\n\t\t\n\t\t10.1159/000331466\n\t\t22104448\n\t\n\t\n\t\tCerebrovascular Diseases\n\t\tCerebrovasc Dis\n\t\t1015-9770\n\t\t1421-9786\n\t\t\n\t\t\t32\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tS. Karger AG\n\t\t\n\t\n\n","document":{"$oid":"60c220317723bebd86646b25"},"refKey":21},
{"_key":"60c220417723bebd86646b2d","_id":"references/60c220417723bebd86646b2d","_rev":"_cfFk0Te---","tei":"\n\t\n\t\tCovidence systematic review software\n\t\t\n\t\t\n\t\t\tVeritas Health Innovation\n\t\t\tMelbourne, Australia\n\t\t\n\t\n\n","document":{"$oid":"60c220417723bebd86646b2c"},"refKey":71},
{"_key":"60c220417723bebd86646b2e","_id":"references/60c220417723bebd86646b2e","_rev":"_cfFk0Tq---","tei":"\n\t\n\t\tImproving the usefulness of a tool for appraising the quality of qualitative, quantitative and mixed methods studies, the Mixed Methods Appraisal Tool (MMAT)\n\t\t\n\t\t\tQuanNhaHong\n\t\t\t0000-0002-2576-5750\n\t\t\n\t\t\n\t\t\tAraceliGonzalez-Reyes\n\t\t\n\t\t\n\t\t\tPierrePluye\n\t\t\n\t\t10.1111/jep.12884\n\t\t29464873\n\t\t\n\t\n\t\n\t\tJournal of Evaluation in Clinical Practice\n\t\tJ Eval Clin Pract\n\t\t1356-1294\n\t\t\n\t\t\t24\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tversion\n\n","document":{"$oid":"60c220417723bebd86646b2c"},"refKey":72},
{"_key":"60c2204c7723bebd86646b37","_id":"references/60c2204c7723bebd86646b37","_rev":"_cfFk0T2---","tei":"\n\t\n\t\tAccurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ\n\t\t\n\t\t\tJCox\n\t\t\n\t\t\n\t\t\tMYHein\n\t\t\n\t\t\n\t\t\tCALuber\n\t\t\n\t\t\n\t\t\tIParon\n\t\t\n\t\t\n\t\t\tNNagaraj\n\t\t\n\t\t\n\t\t\tMMann\n\t\t\n\t\n\t\n\t\tMol. Cell. Proteomics\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2204c7723bebd86646b36"},"refKey":52},
{"_key":"60c2204c7723bebd86646b38","_id":"references/60c2204c7723bebd86646b38","_rev":"_cfFk0UC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGBricogne\n\t\t\n\t\t\n\t\t\tEBlanc\n\t\t\n\t\t\n\t\t\tMBrandl\n\t\t\n\t\t\n\t\t\tCFlensburg\n\t\t\n\t\t\n\t\t\tPKeller\n\t\t\n\t\t\n\t\t\tWPaciorek\n\t\t\n\t\t\n\t\t\tPRoversi\n\t\t\n\t\t\n\t\t\tASharff\n\t\t\n\t\t\n\t\t\tOSSmart\n\t\t\n\t\t\n\t\t\tCVonrhein\n\t\t\n\t\t\n\t\t\tTOWomack\n\t\t\n\t\n\t\n\t\tBUSTER (Global Phasing Ltd\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2204c7723bebd86646b36"},"refKey":40},
{"_key":"60c2204c7723bebd86646b39","_id":"references/60c2204c7723bebd86646b39","_rev":"_cfFk0UO---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2204c7723bebd86646b36"},"refKey":42},
{"_key":"60c2204c7723bebd86646b3a","_id":"references/60c2204c7723bebd86646b3a","_rev":"_cfFk0Ua---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2204c7723bebd86646b36"},"refKey":41},
{"_key":"60c2204c7723bebd86646b3b","_id":"references/60c2204c7723bebd86646b3b","_rev":"_cfFk0Ui---","tei":"\n\t\n\t\tUse of Non-crystallographic Symmetry in Protein Structure Refinement\n\t\t\n\t\t\tGJKleywegt\n\t\t\n\t\t10.1107/s0907444995016477\n\t\t15299650\n\t\tark:/67375/WNG-9W2PDSPC-4\n\t\t47AC288C2ECDEF2D8612218AD59A458364B86195\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Cryst D\n\t\t0907-4449\n\t\t\n\t\t\t52\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c2204c7723bebd86646b36"},"refKey":43},
{"_key":"60c2204c7723bebd86646b3c","_id":"references/60c2204c7723bebd86646b3c","_rev":"_cfFk0Uu---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2204c7723bebd86646b36"},"refKey":38},
{"_key":"60c2207a7723bebd86646b74","_id":"references/60c2207a7723bebd86646b74","_rev":"_cfFk0U6---","tei":"\n\t\n\t\tWallTop: Managing Overflowing Windows on a Large Display\n\t\t\n\t\t\tXiaojunBi\n\t\t\n\t\t\n\t\t\tSeok-HyungBae\n\t\t\n\t\t\n\t\t\tRavinBalakrishnan\n\t\t\n\t\t10.1080/07370024.2013.812411\n\t\n\t\n\t\tHuman–Computer Interaction\n\t\tHuman–Computer Interaction\n\t\t0737-0024\n\t\t1532-7051\n\t\t\n\t\t\t29\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c2207a7723bebd86646b73"},"refKey":7},
{"_key":"60c2207a7723bebd86646b75","_id":"references/60c2207a7723bebd86646b75","_rev":"_cfFk0VG---","tei":"\n\t\n\t\tHiPiler: Visual Exploration of Large Genome Interaction Matrices with Interactive Small Multiples\n\t\t\n\t\t\tFritzLekschas\n\t\t\t0000-0001-8432-4835\n\t\t\n\t\t\n\t\t\tBenjaminBach\n\t\t\t0000-0002-9201-7744\n\t\t\n\t\t\n\t\t\tPeterKerpedjiev\n\t\t\t0000-0002-0454-1803\n\t\t\n\t\t\n\t\t\tNilsGehlenborg\n\t\t\t0000-0003-0327-8297\n\t\t\n\t\t\n\t\t\tHanspeterPfister\n\t\t\t0000-0002-3620-2582\n\t\t\n\t\t10.1101/123588\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Visualization and Computer Graphics\n\t\t\n\t\t\t24\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2207a7723bebd86646b73"},"refKey":30},
{"_key":"60c2207a7723bebd86646b76","_id":"references/60c2207a7723bebd86646b76","_rev":"_cfFk0VO---","tei":"\n\t\n\t\tThe HTML5 creation engine: Create beautiful digital content with the fastest, most flexible 2D WebGL renderer\n\t\t\n\t\t\tLtdGoodboy Digital\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2207a7723bebd86646b73"},"refKey":19},
{"_key":"60c220877723bebd86646bb5","_id":"references/60c220877723bebd86646bb5","_rev":"_cfFk0Va---","tei":"\n\t\n\t\tScikit-learn: Machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tVMichel\n\t\t\n\t\t\n\t\t\tBGrisel\n\t\t\n\t\t\n\t\t\tOBlondel\n\t\t\n\t\t\n\t\t\tMPre Enhofer\n\t\t\n\t\t\n\t\t\tPWeiss\n\t\t\n\t\t\n\t\t\tRDubourg\n\t\t\n\t\t\n\t\t\tV\n\t\t\n\t\n\t\n\t\tJournal of Machine Learning Research\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220877723bebd86646bb4"},"refKey":4},
{"_key":"60c220927723bebd86646bbd","_id":"references/60c220927723bebd86646bbd","_rev":"_cfFk0Vm---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220927723bebd86646bbc"},"refKey":18},
{"_key":"60c220927723bebd86646bbe","_id":"references/60c220927723bebd86646bbe","_rev":"_cfFk0Vy---","tei":"\n\t\n\t\tBayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tRemcoRBouckaert\n\t\t\n\t\t10.1017/cbo9781139095112.007\n\t\n\t\n\t\tBayesian Evolutionary Analysis with BEAST\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2007\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220927723bebd86646bbc"},"refKey":17},
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{"_key":"60c220af7723bebd86646be0","_id":"references/60c220af7723bebd86646be0","_rev":"_cfFk0Wq---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis: A regression-based approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford Press\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c220af7723bebd86646bdf"},"refKey":20},
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{"_key":"60c220c07723bebd86646bea","_id":"references/60c220c07723bebd86646bea","_rev":"_cfFk0XC---","tei":"\n\t\n\t\tThe Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes\n\t\t\n\t\t\tToddJTreangen\n\t\t\n\t\t\n\t\t\tBrianDOndov\n\t\t\n\t\t\n\t\t\tSergeyKoren\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\n\t\t10.1186/preaccept-2573980311437212\n\t\t25410596\n\t\tPMC4262987\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t15\n\t\t\t11\n\t\t\t524\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c220c07723bebd86646be8"},"refKey":50},
{"_key":"60c220c07723bebd86646beb","_id":"references/60c220c07723bebd86646beb","_rev":"_cfFk0XK---","tei":"\n\t\n\t\tSNPGenie: estimating evolutionary parameters to detect natural selection using pooled next-generation sequencing data: Table 1.\n\t\t\n\t\t\tChaseWNelson\n\t\t\n\t\t\n\t\t\tLouiseHMoncla\n\t\t\n\t\t\n\t\t\tAustinLHughes\n\t\t\n\t\t10.1093/bioinformatics/btv449\n\t\t26227143\n\t\tPMC4757956\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\tbtv449\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c220c07723bebd86646be8"},"refKey":32},
{"_key":"60c220c07723bebd86646bec","_id":"references/60c220c07723bebd86646bec","_rev":"_cfFk0XW---","tei":"\n\t\n\t\tCircos: an information aesthetic for comparative genomics\n\t\t\n\t\t\tMKrzywinski\n\t\t\n\t\t\n\t\t\tJSchein\n\t\t\n\t\t\n\t\t\tIBirol\n\t\t\n\t\t\n\t\t\tJConnors\n\t\t\n\t\t\n\t\t\tRGascoyne\n\t\t\n\t\t\n\t\t\tDHorsman\n\t\t\n\t\t\n\t\t\tSJJones\n\t\t\n\t\t\n\t\t\tMAMarra\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220c07723bebd86646be8"},"refKey":21},
{"_key":"60c220c07723bebd86646bed","_id":"references/60c220c07723bebd86646bed","_rev":"_cfFk0Xi---","tei":"\n\t\n\t\tManta: Rapid detection of structural variants and indels for clinical sequencing applications\n\t\t\n\t\t\tXiaoyuChen\n\t\t\n\t\t\n\t\t\tOleSchulz-Trieglaff\n\t\t\n\t\t\n\t\t\tRichardShaw\n\t\t\n\t\t\n\t\t\tBretBarnes\n\t\t\n\t\t\n\t\t\tFelixSchlesinger\n\t\t\n\t\t\n\t\t\tAnthonyJCox\n\t\t\n\t\t\n\t\t\tSemyonKruglyak\n\t\t\n\t\t\n\t\t\tChristopherTSaunders\n\t\t\n\t\t10.1101/024232\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c220c07723bebd86646be8"},"refKey":5},
{"_key":"60c220c07723bebd86646bee","_id":"references/60c220c07723bebd86646bee","_rev":"_cfFk0Xu---","tei":"\n\t\n\t\tTransient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast\n\t\t\n\t\t\tDanielCJeffares\n\t\t\t0000-0001-7320-0706\n\t\t\n\t\t\n\t\t\tClemencyJolly\n\t\t\n\t\t\n\t\t\tMimozaHoti\n\t\t\n\t\t\n\t\t\tDougSpeed\n\t\t\n\t\t\n\t\t\tLiamShaw\n\t\t\n\t\t\n\t\t\tCharalamposRallis\n\t\t\n\t\t\n\t\t\tFrancoisBalloux\n\t\t\n\t\t\n\t\t\tChristopheDessimoz\n\t\t\n\t\t\n\t\t\tJürgBähler\n\t\t\n\t\t\n\t\t\tFritzJSedlazeck\n\t\t\n\t\t10.1101/047266\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\t\n\t\t\t8\n\t\t\t14061\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c220c07723bebd86646be8"},"refKey":19},
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{"_key":"60c220c07723bebd86646bf0","_id":"references/60c220c07723bebd86646bf0","_rev":"_cfFk0YC---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLLWang\n\t\t\n\t\t\n\t\t\tMCoon\n\t\t\n\t\t\n\t\t\tTNguyen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tSJLand\n\t\t\n\t\t\n\t\t\tXLu\n\t\t\n\t\t\n\t\t\tDMRuden\n\t\t\n\t\n\t\n\t\tSnpEff. Fly\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220c07723bebd86646be8"},"refKey":6},
{"_key":"60c220c07723bebd86646bf1","_id":"references/60c220c07723bebd86646bf1","_rev":"_cfFk0YO---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220c07723bebd86646be8"},"refKey":25},
{"_key":"60c220c07723bebd86646bf2","_id":"references/60c220c07723bebd86646bf2","_rev":"_cfFk0Ya---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with BWA-MEM\n\t\t\n\t\t\tHLi\n\t\t\n\t\tarXiv:13033997\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tq-bio\n\n","document":{"$oid":"60c220c07723bebd86646be8"},"refKey":24},
{"_key":"60c220c07723bebd86646bf3","_id":"references/60c220c07723bebd86646bf3","_rev":"_cfFk0Ym---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220c07723bebd86646be8"},"refKey":22},
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{"_key":"60c220fa7723bebd86646c38","_id":"references/60c220fa7723bebd86646c38","_rev":"_cfFk0Y6---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c220fa7723bebd86646c37"},"refKey":15},
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{"_key":"60c221337723bebd86646c6e","_id":"references/60c221337723bebd86646c6e","_rev":"_cfFk0Zq---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tProc. Int. Conf. Intell. Syst. Mol. Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c221337723bebd86646c6b"},"refKey":20},
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{"_key":"60c221d87723bebd86646d15","_id":"references/60c221d87723bebd86646d15","_rev":"_cfFk0a2---","tei":"\n\t\n\t\tScikit-learn: machine learning in python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\n\t\n\t\tJ. Mach. Learn. Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c221d87723bebd86646d14"},"refKey":11},
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{"_key":"60c2223d7723bebd86646d63","_id":"references/60c2223d7723bebd86646d63","_rev":"_cfFk0bm---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2223d7723bebd86646d62"},"refKey":29},
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{"_key":"60c2223d7723bebd86646d66","_id":"references/60c2223d7723bebd86646d66","_rev":"_cfFk0cG---","tei":"\n\t\n\t\tPrediction of linear B-cell epitopes\n\t\t\n\t\t\tYa.IDavydov\n\t\t\n\t\t\n\t\t\tAGTonevitsky\n\t\t\n\t\t10.1134/s0026893309010208\n\t\tark:/67375/VQC-M6DSK52N-2\n\t\t4C313ADD7A3653EB45FA45B7225CD380FD022519\n\t\n\t\n\t\tMolecular Biology\n\t\tMol Biol\n\t\t0026-8933\n\t\t1608-3245\n\t\t\n\t\t\t43\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tPleiades Publishing Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c2223d7723bebd86646d62"},"refKey":19},
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{"_key":"60c2223d7723bebd86646d68","_id":"references/60c2223d7723bebd86646d68","_rev":"_cfFk0ce---","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSSaha\n\t\t\n\t\t\n\t\t\tGpsRaghava\n\t\t\n\t\n\t\n\t\tProteins Struct Funct Bioinforma\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2223d7723bebd86646d62"},"refKey":21},
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{"_key":"60c2241e7723bebd86646fab","_id":"references/60c2241e7723bebd86646fab","_rev":"_cfFk0ii---","tei":"\n\t\n\t\tHaplotype Estimation Using Sequencing Reads\n\t\t\n\t\t\tOlivierDelaneau\n\t\t\n\t\t\n\t\t\tBryanHowie\n\t\t\n\t\t\n\t\t\tAnthonyJCox\n\t\t\n\t\t\n\t\t\tJean-FrançoisZagury\n\t\t\n\t\t\n\t\t\tJonathanMarchini\n\t\t\n\t\t10.1016/j.ajhg.2013.09.002\n\t\t24094745\n\t\tPMC3791270\n\t\tdoi: 10.1016/ j.ajhg.2013.09.002\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t93\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2241e7723bebd86646faa"},"refKey":25},
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{"_key":"60c2241e7723bebd86646fad","_id":"references/60c2241e7723bebd86646fad","_rev":"_cfFk0i6---","tei":"\n\t\n\t\tA Flexible and Accurate Genotype Imputation Method for the Next Generation of Genome-Wide Association Studies\n\t\t\n\t\t\tBryanNHowie\n\t\t\n\t\t\n\t\t\tPeterDonnelly\n\t\t\n\t\t\n\t\t\tJonathanMarchini\n\t\t\n\t\t10.1371/journal.pgen.1000529\n\t\t19543373\n\t\tPMC2689936\n\t\t\n\t\n\t\n\t\tPLoS Genetics\n\t\tPLoS Genet\n\t\t1553-7404\n\t\t\n\t\t\t5\n\t\t\t6\n\t\t\te1000529\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c2241e7723bebd86646faa"},"refKey":26},
{"_key":"60c2241e7723bebd86646fae","_id":"references/60c2241e7723bebd86646fae","_rev":"_cfFk0jG---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2241e7723bebd86646faa"},"refKey":46},
{"_key":"60c2247a7723bebd86646fd4","_id":"references/60c2247a7723bebd86646fd4","_rev":"_cfFk0jS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tFCunningham\n\t\t\n\t\t\n\t\t\tPAchuthan\n\t\t\n\t\t\n\t\t\tWAkanni\n\t\t\n\t\t\n\t\t\tJAllen\n\t\t\n\t\t\n\t\t\tMRAmode\n\t\t\n\t\t\n\t\t\tIMArmean\n\t\t\n\t\t\n\t\t\tRBennett\n\t\t\n\t\t\n\t\t\tJBhai\n\t\t\n\t\t\n\t\t\tKBillis\n\t\t\n\t\t\n\t\t\tSBoddu\n\t\t\n\t\t10.1093/nar/gky1113\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2247a7723bebd86646fd3"},"refKey":18},
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{"_key":"60c2249c7723bebd86647002","_id":"references/60c2249c7723bebd86647002","_rev":"_cfFk0jm---","tei":"\n\t\n\t\t« Application of the MAFFT sequence alignment program to large data-reexamination of the usefulness of chained guide trees\n\t\t\n\t\t\tKDYamada\n\t\t\n\t\t\n\t\t\tKTomii\n\t\t\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2249c7723bebd86647001"},"refKey":51},
{"_key":"60c2249c7723bebd86647009","_id":"references/60c2249c7723bebd86647009","_rev":"_cfFk0jy---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. vienna: R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2249c7723bebd86647008"},"refKey":15},
{"_key":"60c224bd7723bebd86647016","_id":"references/60c224bd7723bebd86647016","_rev":"_cfFk0k----","tei":"\n\t\n\t\tEsri support ArcMap 10.6 (10.6.1) [Internet]\n\t\t\n\t\t\tIncEsri\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c224bd7723bebd86647015"},"refKey":7},
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{"_key":"60c224c77723bebd86647022","_id":"references/60c224c77723bebd86647022","_rev":"_cfFk0ki---","tei":"\n\t\n\t\tReview: Protein Secondary Structure Prediction Continues to Rise\n\t\t\n\t\t\tBurkhardRost\n\t\t\n\t\t10.1006/jsbi.2001.4336\n\t\t11551180\n\t\tS1047-8477(01)94336-9\n\t\tark:/67375/6H6-12H66V6J-5\n\t\t3356FD8CF03B55F96BB4F64E14EAE73832016886\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t134\n\t\t\t2-3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c224c77723bebd8664701f"},"refKey":45},
{"_key":"60c224c77723bebd86647023","_id":"references/60c224c77723bebd86647023","_rev":"_cfFk0ku---","tei":"\n\t\n\t\tProtein secondary structure prediction based on positionspecific scoring matrices\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t292\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c224c77723bebd8664701f"},"refKey":46},
{"_key":"60c224c77723bebd86647024","_id":"references/60c224c77723bebd86647024","_rev":"_cfFk0k6---","tei":"\n\t\n\t\tHidden Markov models for detecting remote protein homologies\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tCBarrett\n\t\t\n\t\t\n\t\t\tRHughey\n\t\t\n\t\t10.1093/bioinformatics/14.10.846\n\t\t9927713\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t14\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c224c77723bebd8664701f"},"refKey":47},
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{"_key":"60c224cd7723bebd86647044","_id":"references/60c224cd7723bebd86647044","_rev":"_cfFk0lS---","tei":"\n\t\n\t\tPyIR: A scalable wrapper for processing billions of immunoglobulin and T cell receptor sequences using IgBLAST\n\t\t\n\t\t\tCF JSoto\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\n\tin the press\n\n","document":{"$oid":"60c224cd7723bebd86647043"},"refKey":46},
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{"_key":"60c225337723bebd866470a0","_id":"references/60c225337723bebd866470a0","_rev":"_cfFk0mS---","tei":"\n\t\n\t\tSTRING 8 -A global view on proteins and their functional interactions in 630 organisms\n\t\t\n\t\t\tLJJensen\n\t\t\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\t\n\t\t\tMStark\n\t\t\n\t\t\n\t\t\tSChaffron\n\t\t\n\t\t\n\t\t\tCCreevey\n\t\t\n\t\t\n\t\t\tJMuller\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c225337723bebd8664709d"},"refKey":13},
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{"_key":"60c225337723bebd866470a2","_id":"references/60c225337723bebd866470a2","_rev":"_cfFk0mq---","tei":"\n\t\n\t\tLê Cao KA. mixOmics: An R package for 'omics feature selection and multiple data integration\n\t\t\n\t\t\tFRohart\n\t\t\n\t\t\n\t\t\tBGautier\n\t\t\n\t\t\n\t\t\tASingh\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c225337723bebd8664709d"},"refKey":23},
{"_key":"60c225337723bebd866470a3","_id":"references/60c225337723bebd866470a3","_rev":"_cfFk0my---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c225337723bebd8664709d"},"refKey":8},
{"_key":"60c225337723bebd866470a4","_id":"references/60c225337723bebd866470a4","_rev":"_cfFk0n----","tei":"\n\t\n\t\tCollaborative exploration of omics-data\n\t\t\n\t\t\tDSurujon\n\t\t\n\t\t\n\t\t\tTVan Opijnen\n\t\t\n\t\t\n\t\t\tShinyomics\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics. BMC Bioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c225337723bebd8664709d"},"refKey":20},
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{"_key":"60c2271c7723bebd86647272","_id":"references/60c2271c7723bebd86647272","_rev":"_cfFk0qi---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2271c7723bebd86647271"},"refKey":45},
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{"_key":"60c227287723bebd86647287","_id":"references/60c227287723bebd86647287","_rev":"_cfFk0rG---","tei":"\n\t\n\t\tLIGSITE: automatic and efficient detection of potential small molecule-binding sites in proteins\n\t\t\n\t\t\tManfredHendlich\n\t\t\n\t\t\n\t\t\tFriedrichRippmann\n\t\t\n\t\t\n\t\t\tGerhardBarnickel\n\t\t\n\t\t10.1016/s1093-3263(98)00002-3\n\t\t9704298\n\t\tS1093-3263(98)00002-3\n\t\tark:/67375/6H6-5L4SJFLR-V\n\t\tD59968DEF7AE36A0D39A121C4B08EA21F2599A41\n\t\n\t\n\t\tJournal of Molecular Graphics and Modelling\n\t\tJournal of Molecular Graphics and Modelling\n\t\t1093-3263\n\t\t\n\t\t\t15\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c227287723bebd86647284"},"refKey":67},
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{"_key":"60c227287723bebd8664728b","_id":"references/60c227287723bebd8664728b","_rev":"_cfFk0ry---","tei":"\n\t\n\t\tComprehensive assessment of automatic structural alignment against a manual standard, the scop classification of proteins\n\t\t\n\t\t\tMarkGerstein\n\t\t\n\t\t\n\t\t\tMichaelLevitt\n\t\t\n\t\t10.1002/pro.5560070226\n\t\t9521122\n\t\tPMC2143933\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t7\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c227287723bebd86647284"},"refKey":56},
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{"_key":"60c229197723bebd86647474","_id":"references/60c229197723bebd86647474","_rev":"_cfFk0yS---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/s0021889892009944\n\t\tark:/67375/WNG-1V02WKNX-V\n\t\t7FF6EABFE5D6E9AB8536E310B9782B625E4CA368\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c229197723bebd86647470"},"refKey":65},
{"_key":"60c229197723bebd86647475","_id":"references/60c229197723bebd86647475","_rev":"_cfFk0ye---","tei":"\n\t\n\t\tSWISS-MODEL: an automated protein homology-modeling server\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tNGuex\n\t\t\n\t\t\n\t\t\tMCPeitsch\n\t\t\n\t\t10.1093/nar/gkg520\n\t\t12824332\n\t\tPMC168927\n\t\tark:/67375/HXZ-ZGZG4B3V-C\n\t\tFD3DFE298FA3BFF15DD8573F36B4AD66B4421562\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c229197723bebd86647470"},"refKey":67},
{"_key":"60c2291f7723bebd86647486","_id":"references/60c2291f7723bebd86647486","_rev":"_cfFk0ym---","tei":"\n\t\n\t\tAn algorithm-based topographical biomaterials library to instruct cell fate\n\t\t\n\t\t\tHVUnadkat\n\t\t\n\t\t\n\t\t\tMHulsman\n\t\t\n\t\t\n\t\t\tKCornelissen\n\t\t\n\t\t\n\t\t\tBJPapenburg\n\t\t\n\t\t\n\t\t\tRKTruckenmuller\n\t\t\n\t\t\n\t\t\tAECarpenter\n\t\t\n\t\t\n\t\t\tMWessling\n\t\t\n\t\t\n\t\t\tGFPost\n\t\t\n\t\t\n\t\t\tMUetz\n\t\t\n\t\t\n\t\t\tMJ TReinders\n\t\t\n\t\t\n\t\t\tDStamatialis\n\t\t\n\t\t\n\t\t\tCAVan Blitterswijk\n\t\t\n\t\t\n\t\t\tJDe Boer\n\t\t\n\t\t10.1073/pnas.1109861108\n\t\t21949368\n\t\tPMC3189082\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t108\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c2291f7723bebd86647485"},"refKey":226},
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{"_key":"60c229367723bebd8664749f","_id":"references/60c229367723bebd8664749f","_rev":"_cfFk0zK---","tei":"\n\t\n\t\tFastTree 2--approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPloS one\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c229367723bebd8664749c"},"refKey":24},
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{"_key":"60c2297a7723bebd86647515","_id":"references/60c2297a7723bebd86647515","_rev":"_cfFk0ze---","tei":"\n\t\n\t\tConnective tissues: matrix composition and its relevance to physical therapy\n\t\t\n\t\t\tEMCulav\n\t\t\n\t\t\n\t\t\tCHClark\n\t\t\n\t\t\n\t\t\tMJMerrilees\n\t\t\n\t\n\t\n\t\tPhys Ther\n\t\t\n\t\t\t79\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2297a7723bebd86647514"},"refKey":35},
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{"_key":"60c229847723bebd8664751c","_id":"references/60c229847723bebd8664751c","_rev":"_cfFk0z2---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1073/pnas.0506580102\n\t\t16199517\n\t\tPMC1239896\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t102\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c229847723bebd8664751a"},"refKey":10},
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{"_key":"60c2298b7723bebd86647534","_id":"references/60c2298b7723bebd86647534","_rev":"_cfFk00O---","tei":"\n\t\n\t\tA grammar of data manipulation\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tRFrancois\n\t\t\n\t\t\n\t\t\tL;Henry\n\t\t\n\t\t\n\t\t\tKMüller\n\t\t\n\t\t\n\t\t\tDplyr\n\t\t\n\t\t\n\t\t\n\t\n\tR package version 0.8.5. 2015.\n\n","document":{"$oid":"60c2298b7723bebd86647533"},"refKey":24},
{"_key":"60c2298b7723bebd86647535","_id":"references/60c2298b7723bebd86647535","_rev":"_cfFk00a---","tei":"\n\t\n\t\tEasily Tidy Data with 'spread()' and 'gather()' Functions. R package version 1.0.2\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tLHenry\n\t\t\n\t\t\n\t\t\tTidyr\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2298b7723bebd86647533"},"refKey":25},
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{"_key":"60c22a157723bebd86647558","_id":"references/60c22a157723bebd86647558","_rev":"_cfFk00u---","tei":"\n\t\n\t\tEstimating the relative risk in cohort studies and clinical trials of common outcomes\n\t\t\n\t\t\tLAMcnutt\n\t\t\n\t\t\n\t\t\tCWu\n\t\t\n\t\t\n\t\t\tXXue\n\t\t\n\t\t\n\t\t\tJPHafner\n\t\t\n\t\n\t\n\t\tAm J Epidemiol\n\t\t\n\t\t\t157\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22a157723bebd86647557"},"refKey":23},
{"_key":"60c22a157723bebd86647559","_id":"references/60c22a157723bebd86647559","_rev":"_cfFk006---","tei":"\n\t\n\t\tEasy SAS calculations for risk or prevalence ratios and differences\n\t\t\n\t\t\tDSpiegelman\n\t\t\n\t\t\n\t\t\tEHertzmark\n\t\t\n\t\n\t\n\t\tAm J Epidemiol\n\t\t\n\t\t\t162\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22a157723bebd86647557"},"refKey":24},
{"_key":"60c22a347723bebd86647565","_id":"references/60c22a347723bebd86647565","_rev":"_cfFk01G---","tei":"\n\t\n\t\tInteractive proofs in higher-order concurrent separation logic\n\t\t\n\t\t\tRobbertKrebbers\n\t\t\n\t\t\n\t\t\tAminTimany\n\t\t\n\t\t\n\t\t\tLarsBirkedal\n\t\t\n\t\t10.1145/3093333.3009855\n\t\t\n\t\n\t\n\t\tACM SIGPLAN Notices\n\t\tSIGPLAN Not.\n\t\tCastagna, G., Gordon, A.D.\n\t\t0362-1340\n\t\t\n\t\t\t52\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c22a347723bebd86647564"},"refKey":18},
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{"_key":"60c22a347723bebd86647567","_id":"references/60c22a347723bebd86647567","_rev":"_cfFk01e---","tei":"\n\t\n\t\tMace: language support for building distributed systems\n\t\t\n\t\t\tCEKillian\n\t\t\n\t\t\n\t\t\tJWAnderson\n\t\t\n\t\t\n\t\t\tRBraud\n\t\t\n\t\t\n\t\t\tRJhala\n\t\t\n\t\t\n\t\t\tAVahdat\n\t\t\n\t\t10.1145/1250734.1250755\n\t\t\n\t\n\t\n\t\tProceedings of the ACM SIGPLAN 2007 Conference on Programming Language Design and Implementation\n\t\t\t\t\n\t\t\tJFerrante\n\t\t\tKSMckinley\n\t\t\n\t\tthe ACM SIGPLAN 2007 Conference on Programming Language Design and ImplementationSan Diego, California, USA\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22a347723bebd86647564"},"refKey":16},
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{"_key":"60c22b207723bebd86647663","_id":"references/60c22b207723bebd86647663","_rev":"_cfFk05K---","tei":"\n\t\n\t\tGenome Detective: an automated system for virus identification from high-throughput sequencing data\n\t\t\n\t\t\tMichaelVilsker\n\t\t\n\t\t\n\t\t\tYumnaMoosa\n\t\t\n\t\t\n\t\t\tSamNooij\n\t\t\n\t\t\n\t\t\tVagnerFonseca\n\t\t\n\t\t\n\t\t\tYoikaGhysens\n\t\t\n\t\t\n\t\t\tKorneelDumon\n\t\t\n\t\t\n\t\t\tRafPauwels\n\t\t\n\t\t\n\t\t\tLuizCarlosAlcantara\n\t\t\n\t\t\n\t\t\tEwoutVanden Eynden\n\t\t\n\t\t\n\t\t\tAnne-MiekeVandamme\n\t\t\n\t\t\n\t\t\tKoenDeforche\n\t\t\n\t\t\n\t\t\tTulioDe Oliveira\n\t\t\t0000-0002-3027-5254\n\t\t\n\t\t10.1093/bioinformatics/bty695\n\t\t30124794\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c22b207723bebd86647662"},"refKey":20},
{"_key":"60c22b207723bebd86647664","_id":"references/60c22b207723bebd86647664","_rev":"_cfFk05W---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c22b207723bebd86647662"},"refKey":22},
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{"_key":"60c22b5a7723bebd866476a3","_id":"references/60c22b5a7723bebd866476a3","_rev":"_cfFk07G---","tei":"\n\t\n\t\tImproved method for predicting linear Bcell epitopes\n\t\t\n\t\t\tJE PLarsen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunome Res\n\t\t\n\t\t\t2\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22b5a7723bebd866476a0"},"refKey":21},
{"_key":"60c22b5a7723bebd866476a4","_id":"references/60c22b5a7723bebd866476a4","_rev":"_cfFk07S---","tei":"\n\t\n\t\tImproved Method for Linear B-Cell Epitope Prediction Using Antigen’s Primary Sequence\n\t\t\n\t\t\tHarinderSingh\n\t\t\n\t\t\n\t\t\tHifzurRahmanAnsari\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1371/journal.pone.0062216\n\t\t23667458\n\t\tPMC3646881\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t5\n\t\t\te62216\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c22b5a7723bebd866476a0"},"refKey":36},
{"_key":"60c22b5a7723bebd866476a5","_id":"references/60c22b5a7723bebd866476a5","_rev":"_cfFk07e---","tei":"\n\t\n\t\tJModelTest: phylogenetic model averaging\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22b5a7723bebd866476a0"},"refKey":28},
{"_key":"60c22b5a7723bebd866476a6","_id":"references/60c22b5a7723bebd866476a6","_rev":"_cfFk07q---","tei":"\n\t\n\t\tPredicting linear B‐cell epitopes using string kernels\n\t\t\n\t\t\tYasserEl‐manzalawy\n\t\t\n\t\t\n\t\t\tDrenaDobbs\n\t\t\n\t\t\n\t\t\tVasantHonavar\n\t\t\n\t\t10.1002/jmr.893\n\t\t18496882\n\t\tPMC2683948\n\t\tark:/67375/WNG-WGM67G2V-3\n\t\t6483283356B180D4365629B79073ABBEDE5C41A3\n\t\t\n\t\n\t\n\t\tJournal of Molecular Recognition\n\t\tJ. Mol. Recognit.\n\t\t0952-3499\n\t\t1099-1352\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c22b5a7723bebd866476a0"},"refKey":12},
{"_key":"60c22b5a7723bebd866476a7","_id":"references/60c22b5a7723bebd866476a7","_rev":"_cfFk07y---","tei":"\n\t\n\t\tEpitopia: a web-server for predicting B-cell epitopes\n\t\t\n\t\t\tNimrodDRubinstein\n\t\t\n\t\t\n\t\t\tItayMayrose\n\t\t\n\t\t\n\t\t\tEricMartz\n\t\t\n\t\t\n\t\t\tTalPupko\n\t\t\n\t\t10.1186/1471-2105-10-287\n\t\t19751513\n\t\tPMC2751785\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t287\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c22b5a7723bebd866476a0"},"refKey":31},
{"_key":"60c22b6a7723bebd866476bd","_id":"references/60c22b6a7723bebd866476bd","_rev":"_cfFk08----","tei":"\n\t\n\t\tFast, sensitive and accurate integration of single-cell data with Harmony\n\t\t\n\t\t\tIKorsunsky\n\t\t\n\t\t\n\t\t\tNMillard\n\t\t\n\t\t\n\t\t\tJFan\n\t\t\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t16\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22b6a7723bebd866476bc"},"refKey":24},
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{"_key":"60c22b6a7723bebd866476bf","_id":"references/60c22b6a7723bebd866476bf","_rev":"_cfFk08W---","tei":"\n\t\n\t\tComprehensive integration of single cell data\n\t\t\n\t\t\tTimStuart\n\t\t\t0000-0002-3044-0897\n\t\t\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\t0000-0002-7693-8957\n\t\t\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\t0000-0001-5898-694X\n\t\t\n\t\t\n\t\t\tWilliamMMauck\n\t\t\n\t\t\n\t\t\tMarlonStoeckius\n\t\t\t0000-0002-5658-029X\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\t0000-0003-0772-1647\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/460147\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t177\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c22b6a7723bebd866476bc"},"refKey":23},
{"_key":"60c22b6a7723bebd866476c0","_id":"references/60c22b6a7723bebd866476c0","_rev":"_cfFk08i---","tei":"\n\t\n\t\tggplot2: elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c22b6a7723bebd866476bc"},"refKey":25},
{"_key":"60c22b767723bebd866476d6","_id":"references/60c22b767723bebd866476d6","_rev":"_cfFk08u---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tR-Project\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22b767723bebd866476d5"},"refKey":25},
{"_key":"60c22bbb7723bebd866476e1","_id":"references/60c22bbb7723bebd866476e1","_rev":"_cfFk082---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22bbb7723bebd866476e0"},"refKey":34},
{"_key":"60c22bc87723bebd866476f0","_id":"references/60c22bc87723bebd866476f0","_rev":"_cfFk09C---","tei":"\n\t\n\t\tEnrichr: interactive and collaborative HTML5 gene list enrichment analysis tool\n\t\t\n\t\t\tEdwardYChen\n\t\t\n\t\t\n\t\t\tChristopherMTan\n\t\t\n\t\t\n\t\t\tYanKou\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tGabrielaMeirelles\n\t\t\n\t\t\n\t\t\tNeilRClark\n\t\t\n\t\t\n\t\t\tAviMa’ayan\n\t\t\n\t\t10.1186/1471-2105-14-128\n\t\t23586463\n\t\tPMC3637064\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t128\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c22bc87723bebd866476ef"},"refKey":34},
{"_key":"60c22bc87723bebd866476f1","_id":"references/60c22bc87723bebd866476f1","_rev":"_cfFk09O---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMaximVKuleshov\n\t\t\n\t\t\n\t\t\tMatthewRJones\n\t\t\n\t\t\n\t\t\tAndrewDRouillard\n\t\t\n\t\t\n\t\t\tNicolasFFernandez\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tSimonKoplev\n\t\t\n\t\t\n\t\t\tSherryLJenkins\n\t\t\n\t\t\n\t\t\tKathleenMJagodnik\n\t\t\n\t\t\n\t\t\tAlexanderLachmann\n\t\t\n\t\t\n\t\t\tMichaelGMcdermott\n\t\t\n\t\t\n\t\t\tCarolineDMonteiro\n\t\t\n\t\t\n\t\t\tGregoryWGundersen\n\t\t\n\t\t\n\t\t\tAviMa'ayan\n\t\t\n\t\t10.1093/nar/gkw377\n\t\t27141961\n\t\tPMC4987924\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c22bc87723bebd866476ef"},"refKey":35},
{"_key":"60c22bc87723bebd866476f2","_id":"references/60c22bc87723bebd866476f2","_rev":"_cfFk09a---","tei":"\n\t\n\t\tlimma powers differential expression analyses for RNA-sequencing and microarray studies\n\t\t\n\t\t\tMatthewERitchie\n\t\t\n\t\t\n\t\t\tBelindaPhipson\n\t\t\n\t\t\n\t\t\tDiWu\n\t\t\n\t\t\n\t\t\tYifangHu\n\t\t\n\t\t\n\t\t\tCharityWLaw\n\t\t\n\t\t\n\t\t\tWeiShi\n\t\t\n\t\t\n\t\t\tGordonKSmyth\n\t\t\n\t\t10.1093/nar/gkv007\n\t\t25605792\n\t\tPMC4402510\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c22bc87723bebd866476ef"},"refKey":24},
{"_key":"60c22bc87723bebd866476f3","_id":"references/60c22bc87723bebd866476f3","_rev":"_cfFk09u---","tei":"\n\t\n\t\tAnalyzing biological network parameters with CentiScaPe\n\t\t\n\t\t\tGiovanniScardoni\n\t\t\n\t\t\n\t\t\tMichelePetterlini\n\t\t\n\t\t\n\t\t\tCarloLaudanna\n\t\t\n\t\t10.1093/bioinformatics/btp517\n\t\t19729372\n\t\tPMC2781755\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c22bc87723bebd866476ef"},"refKey":33},
{"_key":"60c22bf37723bebd86647722","_id":"references/60c22bf37723bebd86647722","_rev":"_cfFk096---","tei":"\n\t\n\t\tSocial Media Engagement and the Critical Care Medicine Community\n\t\t\n\t\t\tSeanSBarnes\n\t\t\n\t\t\n\t\t\tVirenKaul\n\t\t\n\t\t\n\t\t\tSapnaRKudchadkar\n\t\t\n\t\t10.1177/0885066618769599\n\t\t29699469\n\t\t\n\t\n\t\n\t\tJournal of Intensive Care Medicine\n\t\tJ Intensive Care Med\n\t\t0885-0666\n\t\t1525-1489\n\t\t\n\t\t\t34\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c22bf37723bebd86647721"},"refKey":16},
{"_key":"60c22bfd7723bebd8664772c","_id":"references/60c22bfd7723bebd8664772c","_rev":"_cfFk1-K---","tei":"\n\t\n\t\tMinimal genetic differentiation between Girella nigricans and Girella simplicidens (perciformes: Kyphosidae)\n\t\t\n\t\t\tTNiu\n\t\t\n\t\t\n\t\t\tZSQin\n\t\t\n\t\t\n\t\t\tXXu\n\t\t\n\t\t\n\t\t\tJSLiu\n\t\t\n\t\n\t\n\t\tIsozyme Bull\n\t\t\n\t\t\t17\n\t\t\t66\n\t\t\t\n\t\t\n\t\t\n\t\t\tDepartment of Statistics, Harvard University\n\t\t\n\t\n\tTechnical Report\n\tButh DG\n\n","document":{"$oid":"60c22bfd7723bebd8664772b"},"refKey":24},
{"_key":"60c22bfd7723bebd8664772d","_id":"references/60c22bfd7723bebd8664772d","_rev":"_cfFk1-W---","tei":"\n\t\n\t\tA Coalescence-Guided Hierarchical Bayesian Method for Haplotype Inference\n\t\t\n\t\t\tYuZhang\n\t\t\n\t\t\n\t\t\tTianhuaNiu\n\t\t\n\t\t\n\t\t\tJunSLiu\n\t\t\n\t\t10.1086/506276\n\t\t16826521\n\t\tPMC1559491\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t79\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c22bfd7723bebd8664772b"},"refKey":48},
{"_key":"60c22bfd7723bebd8664772e","_id":"references/60c22bfd7723bebd8664772e","_rev":"_cfFk1-i---","tei":"\n\t\n\t\tA new statistical method for haplotype reconstruction from population data\n\t\t\n\t\t\tMStephens\n\t\t\n\t\t\n\t\t\tNJSmith\n\t\t\n\t\t\n\t\t\tPDonnelly\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22bfd7723bebd8664772b"},"refKey":38},
{"_key":"60c22bfd7723bebd8664772f","_id":"references/60c22bfd7723bebd8664772f","_rev":"_cfFk1-u---","tei":"\n\t\n\t\tAccounting for Decay of Linkage Disequilibrium in Haplotype Inference and Missing-Data Imputation\n\t\t\n\t\t\tMatthewStephens\n\t\t\n\t\t\n\t\t\tPaulScheet\n\t\t\n\t\t10.1086/428594\n\t\t15700229\n\t\tPMC1196397\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t76\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c22bfd7723bebd8664772b"},"refKey":36},
{"_key":"60c22bfd7723bebd86647730","_id":"references/60c22bfd7723bebd86647730","_rev":"_cfFk1_----","tei":"\n\t\n\t\tArlequin: a software for population genetics data analysis. Ver 2.000\n\t\t\n\t\t\tSSchneider\n\t\t\n\t\t\n\t\t\tDRoessli\n\t\t\n\t\t\n\t\t\tLExcoffier\n\t\t\n\t\t\n\t\t\t\n\t\t\tGeneva\n\t\t\n\t\t\n\t\t\tGenetics and Biometry Laboratory, Department of Anthropology, University of Geneva\n\t\t\n\t\n\n","document":{"$oid":"60c22bfd7723bebd8664772b"},"refKey":32},
{"_key":"60c22c0a7723bebd86647741","_id":"references/60c22c0a7723bebd86647741","_rev":"_cfFk1_K---","tei":"\n\t\n\t\tProtein backbone and sidechain torsion angles predicted from NMR chemical shifts using artificial neural networks\n\t\t\n\t\t\tYangShen\n\t\t\n\t\t\n\t\t\tAdBax\n\t\t\n\t\t10.1007/s10858-013-9741-y\n\t\t23728592\n\t\tPMC3701756\n\t\tark:/67375/VQC-Q48MD066-V\n\t\t00E6A5A20BB975BF97629455A0B9F35CF8BF78AE\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomolecular NMR\n\t\tJ Biomol NMR\n\t\t0925-2738\n\t\t1573-5001\n\t\t\n\t\t\t56\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c22c0a7723bebd86647740"},"refKey":23},
{"_key":"60c22c0a7723bebd86647742","_id":"references/60c22c0a7723bebd86647742","_rev":"_cfFk1_W---","tei":"\n\t\n\t\tNMRFAM-SPARKY: enhanced software for biomolecular NMR spectroscopy\n\t\t\n\t\t\tWoongheeLee\n\t\t\n\t\t\n\t\t\tMarcoTonelli\n\t\t\n\t\t\n\t\t\tJohnLMarkley\n\t\t\n\t\t10.1093/bioinformatics/btu830\n\t\t25505092\n\t\tPMC4393527\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c22c0a7723bebd86647740"},"refKey":18},
{"_key":"60c22c137723bebd8664774c","_id":"references/60c22c137723bebd8664774c","_rev":"_cfFk1_m---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22c137723bebd8664774b"},"refKey":12},
{"_key":"60c22c287723bebd8664775a","_id":"references/60c22c287723bebd8664775a","_rev":"_cfFk1_2---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c22c287723bebd86647759"},"refKey":25},
{"_key":"60c22c287723bebd8664775b","_id":"references/60c22c287723bebd8664775b","_rev":"_cfFk1AG---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c22c287723bebd86647759"},"refKey":22},
{"_key":"60c22c287723bebd8664775c","_id":"references/60c22c287723bebd8664775c","_rev":"_cfFk1AS---","tei":"\n\t\n\t\tExploiting sparseness in de novo genome assembly\n\t\t\n\t\t\tChengxiYe\n\t\t\n\t\t\n\t\t\tZhanshanSamMa\n\t\t\n\t\t\n\t\t\tCharlesHCannon\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t\n\t\t\tDouglasWYu\n\t\t\n\t\t10.1186/1471-2105-13-s6-s1\n\t\t22537038\n\t\tPMC3369186\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\tS6\n\t\t\tS1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c22c287723bebd86647759"},"refKey":23},
{"_key":"60c22c5f7723bebd86647784","_id":"references/60c22c5f7723bebd86647784","_rev":"_cfFk1Ae---","tei":"\n\t\n\t\tjModelTest: Phylogenetic Model Averaging\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/molbev/msn083\n\t\t18397919\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t25\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c22c5f7723bebd86647783"},"refKey":30},
{"_key":"60c22c5f7723bebd86647785","_id":"references/60c22c5f7723bebd86647785","_rev":"_cfFk1Au---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c22c5f7723bebd86647783"},"refKey":19},
{"_key":"60c22c727723bebd866477a3","_id":"references/60c22c727723bebd866477a3","_rev":"_cfFk1A6---","tei":"\n\t\n\t\tBitter or not? BitterPredict, a tool for predicting taste from chemical structure\n\t\t\n\t\t\tAyanaDagan-Wiener\n\t\t\n\t\t\n\t\t\tIdoNissim\n\t\t\n\t\t\n\t\t\tNatalieBen Abu\n\t\t\n\t\t\n\t\t\tGigliolaBorgonovo\n\t\t\n\t\t\n\t\t\tAngelaBassoli\n\t\t\t0000-0001-5442-3808\n\t\t\n\t\t\n\t\t\tMashaYNiv\n\t\t\n\t\t10.1038/s41598-017-12359-7\n\t\t28935887\n\t\tPMC5608695\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c22c727723bebd866477a2"},"refKey":36},
{"_key":"60c22c7e7723bebd866477b8","_id":"references/60c22c7e7723bebd866477b8","_rev":"_cfFk1BG---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22c7e7723bebd866477b7"},"refKey":53},
{"_key":"60c22c7e7723bebd866477b9","_id":"references/60c22c7e7723bebd866477b9","_rev":"_cfFk1BS---","tei":"\n\t\n\t\tFast computation of distance estimators\n\t\t\n\t\t\tIsaacElias\n\t\t\n\t\t\n\t\t\tJensLagergren\n\t\t\n\t\t10.1186/1471-2105-8-89\n\t\t17355623\n\t\tPMC1831791\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t89\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c22c7e7723bebd866477b7"},"refKey":30},
{"_key":"60c22c7e7723bebd866477ba","_id":"references/60c22c7e7723bebd866477ba","_rev":"_cfFk1Be---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22c7e7723bebd866477b7"},"refKey":25},
{"_key":"60c22c7e7723bebd866477bb","_id":"references/60c22c7e7723bebd866477bb","_rev":"_cfFk1Bq---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucl. Acids Symp\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22c7e7723bebd866477b7"},"refKey":34},
{"_key":"60c22c7e7723bebd866477bc","_id":"references/60c22c7e7723bebd866477bc","_rev":"_cfFk1B2---","tei":"\n\t\n\t\tTreeDyn: towards dynamic graphics and annotations for analyses of trees\n\t\t\n\t\t\tFChevenet\n\t\t\n\t\t\n\t\t\tCBrun\n\t\t\n\t\t\n\t\t\tALBanuls\n\t\t\n\t\t\n\t\t\tBJacq\n\t\t\n\t\t\n\t\t\tRChisten\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t7\n\t\t\t439\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22c7e7723bebd866477b7"},"refKey":19},
{"_key":"60c22c7e7723bebd866477bd","_id":"references/60c22c7e7723bebd866477bd","_rev":"_cfFk1CC---","tei":"\n\t\n\t\tPhytools: an R package for phylogenetic comparative biology (and other things)\n\t\t\n\t\t\tLJRevell\n\t\t\n\t\n\t\n\t\tMethods Ecol. Evol\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22c7e7723bebd866477b7"},"refKey":47},
{"_key":"60c22c997723bebd866477d4","_id":"references/60c22c997723bebd866477d4","_rev":"_cfFk1CO---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Mol Graph\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22c997723bebd866477d3"},"refKey":43},
{"_key":"60c22ca37723bebd866477db","_id":"references/60c22ca37723bebd866477db","_rev":"_cfFk1Ca---","tei":"\n\t\n\t\tSociodigital Transformation towards Excellent Leadership and Labour\n\t\teLLa4.0\n\t\t\n\t\t\n\t\t\t\n\t\t\t27\n\t\t\n\t\n\n","document":{"$oid":"60c22ca37723bebd866477da"},"refKey":76},
{"_key":"60c22cc57723bebd866477ff","_id":"references/60c22cc57723bebd866477ff","_rev":"_cfFk1Cm---","tei":"\n\t\n\t\t\n\t\t\tFRonquist\n\t\t\n\t\t\n\t\tTreeFitter. Ver. 1.0. Software avialable via\n\t\t\t\tUppsala, Sweden\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUppsala University\n\t\t\n\t\n\n","document":{"$oid":"60c22cc57723bebd866477fe"},"refKey":18},
{"_key":"60c22cc57723bebd86647800","_id":"references/60c22cc57723bebd86647800","_rev":"_cfFk1Cy---","tei":"\n\t\n\t\tProfile hidden Markov models\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22cc57723bebd866477fe"},"refKey":5},
{"_key":"60c22cc57723bebd86647801","_id":"references/60c22cc57723bebd86647801","_rev":"_cfFk1D----","tei":"\n\t\n\t\tCONSEL: for assessing the confidence of phylogenetic tree selection\n\t\t\n\t\t\tHShimodaira\n\t\t\n\t\t\n\t\t\tMHasegawa\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22cc57723bebd866477fe"},"refKey":23},
{"_key":"60c22d1a7723bebd86647819","_id":"references/60c22d1a7723bebd86647819","_rev":"_cfFk1DK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c22d1a7723bebd86647818"},"refKey":3},
{"_key":"60c22d397723bebd86647830","_id":"references/60c22d397723bebd86647830","_rev":"_cfFk1DW---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c22d397723bebd8664782f"},"refKey":20},
{"_key":"60c22d397723bebd86647831","_id":"references/60c22d397723bebd86647831","_rev":"_cfFk1Di---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNoelMO'boyle\n\t\t\n\t\t\n\t\t\tMichaelBanck\n\t\t\n\t\t\n\t\t\tCraigAJames\n\t\t\n\t\t\n\t\t\tChrisMorley\n\t\t\n\t\t\n\t\t\tTimVandermeersch\n\t\t\n\t\t\n\t\t\tGeoffreyRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t21982300\n\t\tPMC3198950\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c22d397723bebd8664782f"},"refKey":22},
{"_key":"60c22d397723bebd86647832","_id":"references/60c22d397723bebd86647832","_rev":"_cfFk1Du---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c22d397723bebd8664782f"},"refKey":34},
{"_key":"60c22d397723bebd86647833","_id":"references/60c22d397723bebd86647833","_rev":"_cfFk1D6---","tei":"\n\t\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\tGROMACS user manual\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22d397723bebd8664782f"},"refKey":0},
{"_key":"60c22d397723bebd86647834","_id":"references/60c22d397723bebd86647834","_rev":"_cfFk1EG---","tei":"\n\t\n\t\tLigPlot+: Multiple Ligand–Protein Interaction Diagrams for Drug Discovery\n\t\t\n\t\t\tRomanALaskowski\n\t\t\n\t\t\n\t\t\tMarkBSwindells\n\t\t\n\t\t10.1021/ci200227u\n\t\t21919503\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t51\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c22d397723bebd8664782f"},"refKey":16},
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{"_key":"60c22d9a7723bebd866478b1","_id":"references/60c22d9a7723bebd866478b1","_rev":"_cfFk1GK---","tei":"\n\t\n\t\tProHits-viz: a suite of web tools for visualizing interaction proteomics data\n\t\t\n\t\t\tJamesD RKnight\n\t\t\n\t\t\n\t\t\tHyungwonChoi\n\t\t\n\t\t\n\t\t\tGaganDGupta\n\t\t\n\t\t\n\t\t\tLaurencePelletier\n\t\t\t0000-0003-1171-4618\n\t\t\n\t\t\n\t\t\tBrianRaught\n\t\t\n\t\t\n\t\t\tAlexeyINesvizhskii\n\t\t\t0000-0002-2806-7819\n\t\t\n\t\t\n\t\t\tAnne-ClaudeGingras\n\t\t\n\t\t10.1038/nmeth.4330\n\t\t28661499\n\t\tPMC5831326\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c22d9a7723bebd866478ae"},"refKey":77},
{"_key":"60c22d9a7723bebd866478b2","_id":"references/60c22d9a7723bebd866478b2","_rev":"_cfFk1GW---","tei":"\n\t\n\t\tEmpirical Statistical Model To Estimate the Accuracy of Peptide Identifications Made by MS/MS and Database Search\n\t\t\n\t\t\tAndrewKeller\n\t\t\n\t\t\n\t\t\tAlexeyINesvizhskii\n\t\t\n\t\t\n\t\t\tEugeneKolker\n\t\t\n\t\t\n\t\t\tRuediAebersold\n\t\t\n\t\t10.1021/ac025747h\n\t\t12403597\n\t\n\t\n\t\tAnalytical Chemistry\n\t\tAnal. Chem.\n\t\t0003-2700\n\t\t1520-6882\n\t\t\n\t\t\t74\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c22d9a7723bebd866478ae"},"refKey":70},
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{"_key":"60c22eb97723bebd86647976","_id":"references/60c22eb97723bebd86647976","_rev":"_cfFk1IO---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22eb97723bebd86647973"},"refKey":66},
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{"_key":"60c22ee67723bebd86647a07","_id":"references/60c22ee67723bebd86647a07","_rev":"_cfFk1KK---","tei":"\n\t\n\t\tNonlinear optimization with GAMS/LGO\n\t\t\n\t\t\tDJános\n\t\t\n\t\t\n\t\t\tPintér\n\t\t\n\t\n\t\n\t\tJournal of Global Optimization\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c22ee67723bebd86647a05"},"refKey":13},
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{"_key":"60c22fdb7723bebd86647ad8","_id":"references/60c22fdb7723bebd86647ad8","_rev":"_cfFk1La---","tei":"\n\t\n\t\tComprehensive diagnostics for respiratory virus infections after transplantation or after potential exposure to swine flu A/H1N1: what else is out there?\n\t\t\n\t\t\tADumoulin\n\t\t\n\t\t\n\t\t\tAF XWidmer\n\t\t\n\t\t\n\t\t\tHHHirsch\n\t\t\n\t\t10.1111/j.1399-3062.2009.00425.x\n\t\t19678903\n\t\tark:/67375/WNG-N84FTCTV-6\n\t\t18296A2DA85EFD93780E050F242DF79D5CBD6F16\n\t\n\t\n\t\tTransplant Infectious Disease\n\t\t1398-2273\n\t\t1399-3062\n\t\t\n\t\t\t11\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c22fdb7723bebd86647ad7"},"refKey":8},
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{"_key":"60c232397723bebd86647cfc","_id":"references/60c232397723bebd86647cfc","_rev":"_cfFk1SC---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t10.1093/bioinformatics/btp616\n\t\t19910308\n\t\tPMC2796818\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c232397723bebd86647cf7"},"refKey":45},
{"_key":"60c232397723bebd86647cfd","_id":"references/60c232397723bebd86647cfd","_rev":"_cfFk1SO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tMAverick\n\t\t\n\t\t\n\t\t\tJBryan\n\t\t\n\t\t\n\t\t\tWChang\n\t\t\n\t\t\n\t\t\tLMcgowan\n\t\t\n\t\t\n\t\t\tRFrançois\n\t\t\n\t\t\n\t\t\tGGrolemund\n\t\t\n\t\t\n\t\t\tAHayes\n\t\t\n\t\t\n\t\t\tLHenry\n\t\t\n\t\t\n\t\t\tJHester\n\t\t\n\t\t10.21105/joss.01686\n\t\t\n\t\n\tet al. Welcome to the tidyverse. J. Open Source Softw. 2019, 4, 1686. [CrossRef\n\n","document":{"$oid":"60c232397723bebd86647cf7"},"refKey":46},
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{"_key":"60c233047723bebd86647db3","_id":"references/60c233047723bebd86647db3","_rev":"_cfFk1We---","tei":"\n\t\n\t\tA simple physical model for binding energy hot spots in protein-protein complexes\n\t\t\n\t\t\tTKortemme\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\t10.1073/pnas.202485799\n\t\t12381794\n\t\tPMC137846\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t99\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c233047723bebd86647db1"},"refKey":57},
{"_key":"60c233047723bebd86647db4","_id":"references/60c233047723bebd86647db4","_rev":"_cfFk1Wm---","tei":"\n\t\n\t\tSpatial chemical conservation of hot spot interactions in protein-protein complexes\n\t\t\n\t\t\tAlexandraShulman-Peleg\n\t\t\n\t\t\n\t\t\tMaximShatsky\n\t\t\n\t\t\n\t\t\tRuthNussinov\n\t\t\n\t\t\n\t\t\tHaimJWolfson\n\t\t\n\t\t10.1186/1741-7007-5-43\n\t\t17925020\n\t\tPMC2231411\n\t\t\n\t\n\t\n\t\tBMC Biology\n\t\tBMC Biol\n\t\t1741-7007\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t43\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c233047723bebd86647db1"},"refKey":58},
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{"_key":"60c233047723bebd86647db7","_id":"references/60c233047723bebd86647db7","_rev":"_cfFk1XK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c233047723bebd86647db1"},"refKey":89},
{"_key":"60c2331a7723bebd86647dee","_id":"references/60c2331a7723bebd86647dee","_rev":"_cfFk1XW---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMarcelMartin\n\t\t\n\t\t10.14806/ej.17.1.200\n\t\n\t\n\t\tEMBnet.journal\n\t\tEMBnet j.\n\t\t2226-6089\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t10\n\t\t\t\n\t\t\tEMBnet Stichting\n\t\t\n\t\n\n","document":{"$oid":"60c2331a7723bebd86647ded"},"refKey":25},
{"_key":"60c2331a7723bebd86647def","_id":"references/60c2331a7723bebd86647def","_rev":"_cfFk1Xe---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tAlexanderDobin\n\t\t\n\t\t\n\t\t\tCarrieADavis\n\t\t\n\t\t\n\t\t\tFelixSchlesinger\n\t\t\n\t\t\n\t\t\tJorgDrenkow\n\t\t\n\t\t\n\t\t\tChrisZaleski\n\t\t\n\t\t\n\t\t\tSonaliJha\n\t\t\n\t\t\n\t\t\tPhilippeBatut\n\t\t\n\t\t\n\t\t\tMarkChaisson\n\t\t\n\t\t\n\t\t\tThomasRGingeras\n\t\t\n\t\t10.1093/bioinformatics/bts635\n\t\t23104886\n\t\tPMC3530905\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2331a7723bebd86647ded"},"refKey":27},
{"_key":"60c2331a7723bebd86647df0","_id":"references/60c2331a7723bebd86647df0","_rev":"_cfFk1Xq---","tei":"\n\t\n\t\tThe NCBI BioSystems database\n\t\t\n\t\t\tLewisYGeer\n\t\t\n\t\t\n\t\t\tAronMarchler-Bauer\n\t\t\n\t\t\n\t\t\tRenataCGeer\n\t\t\n\t\t\n\t\t\tLianyiHan\n\t\t\n\t\t\n\t\t\tJaneHe\n\t\t\n\t\t\n\t\t\tSiqianHe\n\t\t\n\t\t\n\t\t\tChunleiLiu\n\t\t\n\t\t\n\t\t\tWenyaoShi\n\t\t\n\t\t\n\t\t\tStephenHBryant\n\t\t\n\t\t10.1093/nar/gkp858\n\t\t19854944\n\t\tPMC2808896\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tsuppl_1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2331a7723bebd86647ded"},"refKey":33},
{"_key":"60c2331a7723bebd86647df1","_id":"references/60c2331a7723bebd86647df1","_rev":"_cfFk1X2---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1073/pnas.0506580102\n\t\t16199517\n\t\tPMC1239896\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t102\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c2331a7723bebd86647ded"},"refKey":34},
{"_key":"60c2331a7723bebd86647df2","_id":"references/60c2331a7723bebd86647df2","_rev":"_cfFk1Y----","tei":"\n\t\n\t\tMolecular signatures database (MSigDB) 3.0\n\t\t\n\t\t\tALiberzon\n\t\t\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tRPinchback\n\t\t\n\t\t\n\t\t\tHThorvaldsdottir\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1093/bioinformatics/btr260\n\t\t21546393\n\t\tPMC3106198\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2331a7723bebd86647ded"},"refKey":35},
{"_key":"60c2331a7723bebd86647df3","_id":"references/60c2331a7723bebd86647df3","_rev":"_cfFk1YK---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2331a7723bebd86647ded"},"refKey":29},
{"_key":"60c2331a7723bebd86647df4","_id":"references/60c2331a7723bebd86647df4","_rev":"_cfFk1YW---","tei":"\n\t\n\t\tThe Reactome Pathway Knowledgebase\n\t\t\n\t\t\tAntonioFabregat\n\t\t\t0000-0002-3288-8599\n\t\t\n\t\t\n\t\t\tStevenJupe\n\t\t\n\t\t\n\t\t\tLisaMatthews\n\t\t\n\t\t\n\t\t\tKonstantinosSidiropoulos\n\t\t\n\t\t\n\t\t\tMarcGillespie\n\t\t\n\t\t\n\t\t\tPhaniGarapati\n\t\t\n\t\t\n\t\t\tRobinHaw\n\t\t\n\t\t\n\t\t\tBijayJassal\n\t\t\n\t\t\n\t\t\tFlorianKorninger\n\t\t\n\t\t\n\t\t\tBruceMay\n\t\t\n\t\t\n\t\t\tMarijaMilacic\n\t\t\n\t\t\n\t\t\tCorinaDuenasRoca\n\t\t\n\t\t\n\t\t\tKarenRothfels\n\t\t\n\t\t\n\t\t\tCristofferSevilla\n\t\t\n\t\t\n\t\t\tVeronicaShamovsky\n\t\t\n\t\t\n\t\t\tSolomonShorser\n\t\t\n\t\t\n\t\t\tThawfeekVarusai\n\t\t\n\t\t\n\t\t\tGuilhermeViteri\n\t\t\n\t\t\n\t\t\tJoelWeiser\n\t\t\n\t\t\n\t\t\tGuanmingWu\n\t\t\n\t\t\n\t\t\tLincolnStein\n\t\t\n\t\t\n\t\t\tHenningHermjakob\n\t\t\n\t\t\n\t\t\tPeterD’eustachio\n\t\t\t0000-0002-5494-626X\n\t\t\n\t\t10.1093/nar/gkx1132\n\t\t29145629\n\t\tPMC5753187\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2331a7723bebd86647ded"},"refKey":36},
{"_key":"60c233337723bebd86647e14","_id":"references/60c233337723bebd86647e14","_rev":"_cfFk1Yi---","tei":"\n\t\n\t\tA cross-platform toolkit for mass spectrometry and proteomics\n\t\t\n\t\t\tMatthewCChambers\n\t\t\n\t\t\n\t\t\tBrendanMaclean\n\t\t\n\t\t\n\t\t\tRobertBurke\n\t\t\n\t\t\n\t\t\tDarioAmodei\n\t\t\n\t\t\n\t\t\tDanielLRuderman\n\t\t\n\t\t\n\t\t\tSteffenNeumann\n\t\t\n\t\t\n\t\t\tLaurentGatto\n\t\t\n\t\t\n\t\t\tBerndFischer\n\t\t\n\t\t\n\t\t\tBrianPratt\n\t\t\n\t\t\n\t\t\tJarrettEgertson\n\t\t\n\t\t\n\t\t\tKatherineHoff\n\t\t\n\t\t\n\t\t\tDarrenKessner\n\t\t\n\t\t\n\t\t\tNatalieTasman\n\t\t\n\t\t\n\t\t\tNicholasShulman\n\t\t\n\t\t\n\t\t\tBarbaraFrewen\n\t\t\n\t\t\n\t\t\tTahminaABaker\n\t\t\n\t\t\n\t\t\tMi-YounBrusniak\n\t\t\n\t\t\n\t\t\tChristopherPaulse\n\t\t\n\t\t\n\t\t\tDavidCreasy\n\t\t\n\t\t\n\t\t\tLisaFlashner\n\t\t\n\t\t\n\t\t\tKianKani\n\t\t\n\t\t\n\t\t\tChrisMoulding\n\t\t\n\t\t\n\t\t\tSeanLSeymour\n\t\t\n\t\t\n\t\t\tLydiaMNuwaysir\n\t\t\n\t\t\n\t\t\tBrentLefebvre\n\t\t\n\t\t\n\t\t\tFrankKuhlmann\n\t\t\n\t\t\n\t\t\tJoeRoark\n\t\t\n\t\t\n\t\t\tPaapeRainer\n\t\t\n\t\t\n\t\t\tSuckauDetlev\n\t\t\n\t\t\n\t\t\tTinaHemenway\n\t\t\n\t\t\n\t\t\tAndreasHuhmer\n\t\t\n\t\t\n\t\t\tJamesLangridge\n\t\t\n\t\t\n\t\t\tBrianConnolly\n\t\t\n\t\t\n\t\t\tTreyChadick\n\t\t\n\t\t\n\t\t\tKrisztinaHolly\n\t\t\n\t\t\n\t\t\tJoshEckels\n\t\t\n\t\t\n\t\t\tEricWDeutsch\n\t\t\n\t\t\n\t\t\tRobertLMoritz\n\t\t\n\t\t\n\t\t\tJonathanEKatz\n\t\t\n\t\t\n\t\t\tDavidBAgus\n\t\t\n\t\t\n\t\t\tMichaelMaccoss\n\t\t\n\t\t\n\t\t\tDavidLTabb\n\t\t\n\t\t\n\t\t\tParagMallick\n\t\t\n\t\t10.1038/nbt.2377\n\t\t23051804\n\t\tPMC3471674\n\t\t\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t30\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c233337723bebd86647e13"},"refKey":49},
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{"_key":"60c233337723bebd86647e16","_id":"references/60c233337723bebd86647e16","_rev":"_cfFk1Y2---","tei":"\n\t\n\t\tOpen Mass Spectrometry Search Algorithm\n\t\t\n\t\t\tLewisYGeer\n\t\t\n\t\t\n\t\t\tSanfordPMarkey\n\t\t\n\t\t\n\t\t\tJeffreyAKowalak\n\t\t\n\t\t\n\t\t\tLukasWagner\n\t\t\n\t\t\n\t\t\tMingXu\n\t\t\n\t\t\n\t\t\tDawnMMaynard\n\t\t\n\t\t\n\t\t\tXiaoyuYang\n\t\t\n\t\t\n\t\t\tWenyaoShi\n\t\t\n\t\t\n\t\t\tStephenHBryant\n\t\t\n\t\t10.1021/pr0499491\n\t\t15473683\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Proteome Research\n\t\tJ. Proteome Res.\n\t\t1535-3893\n\t\t1535-3907\n\t\t\n\t\t\t3\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c233337723bebd86647e13"},"refKey":53},
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{"_key":"60c233647723bebd86647e41","_id":"references/60c233647723bebd86647e41","_rev":"_cfFk1ZO---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c233647723bebd86647e40"},"refKey":35},
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{"_key":"60c233b07723bebd86647ed8","_id":"references/60c233b07723bebd86647ed8","_rev":"_cfFk1bG---","tei":"\n\t\n\t\tImproved Treatment of Ligands and Coupling Effects in Empirical Calculation and Rationalization of pKaValues\n\t\t\n\t\t\tChrestenRSøndergaard\n\t\t\n\t\t\n\t\t\tMatsH MOlsson\n\t\t\n\t\t\n\t\t\tMichałRostkowski\n\t\t\n\t\t\n\t\t\tJanHJensen\n\t\t\n\t\t10.1021/ct200133y\n\t\t26606496\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t7\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c233b07723bebd86647ed4"},"refKey":30},
{"_key":"60c233de7723bebd86647ef9","_id":"references/60c233de7723bebd86647ef9","_rev":"_cfFk1bO---","tei":"\n\t\n\t\tEfficient coalescent simulation and genealogical analysis for large sample sizes\n\t\t\n\t\t\tJeromeKelleher\n\t\t\t0000-0002-7894-5253\n\t\t\n\t\t\n\t\t\tAlisonMEtheridge\n\t\t\n\t\t\n\t\t\tGilMcvean\n\t\t\n\t\t10.1101/033118\n\t\t\n\t\n\t\n\t\tPLoS computational biology\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\te1004842\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c233de7723bebd86647ef8"},"refKey":15},
{"_key":"60c233de7723bebd86647efa","_id":"references/60c233de7723bebd86647efa","_rev":"_cfFk1ba---","tei":"\n\t\n\t\tApproximating the coalescent with recombination\n\t\t\n\t\t\tGileanA TMcvean\n\t\t\n\t\t\n\t\t\tNiallJCardin\n\t\t\n\t\t10.1098/rstb.2005.1673\n\t\t16048782\n\t\tPMC1569517\n\t\t\n\t\n\t\n\t\tPhilosophical Transactions of the Royal Society B: Biological Sciences\n\t\tPhil. Trans. R. Soc. B\n\t\t0962-8436\n\t\t1471-2970\n\t\t\n\t\t\t360\n\t\t\t1459\n\t\t\t\n\t\t\t\n\t\t\tThe Royal Society\n\t\t\n\t\n\n","document":{"$oid":"60c233de7723bebd86647ef8"},"refKey":20},
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{"_key":"60c233de7723bebd86647efc","_id":"references/60c233de7723bebd86647efc","_rev":"_cfFk1bu---","tei":"\n\t\n\t\tFast and flexible simulation of dna sequence data\n\t\t\n\t\t\tGKChen\n\t\t\n\t\t\n\t\t\tPMarjoram\n\t\t\n\t\t\n\t\t\tJDWall\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c233de7723bebd86647ef8"},"refKey":4},
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{"_key":"60c234137723bebd86647f45","_id":"references/60c234137723bebd86647f45","_rev":"_cfFk1cS---","tei":"\n\t\n\t\tAn opensource medical image conversion toolkit\n\t\t\n\t\t\tEXNolf\n\t\t\n\t\t\n\t\t\tTVoet\n\t\t\n\t\t\n\t\t\tFJacobs\n\t\t\n\t\t\n\t\t\tRDierckx\n\t\t\n\t\t\n\t\t\tILemahieu\n\t\t\n\t\n\t\n\t\tEur J Nucl Med\n\t\t\n\t\t\t30\n\t\t\t2\n\t\t\tS246\n\t\t\t\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c234137723bebd86647f44"},"refKey":37},
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{"_key":"60c234e27723bebd86648039","_id":"references/60c234e27723bebd86648039","_rev":"_cfFk1eq---","tei":"\n\t\n\t\tMissing value estimation methods for DNA microarrays\n\t\t\n\t\t\tOTroyanskaya\n\t\t\n\t\t\n\t\t\tMCantor\n\t\t\n\t\t\n\t\t\tGSherlock\n\t\t\n\t\t\n\t\t\tPBrown\n\t\t\n\t\t\n\t\t\tTHastie\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c234e27723bebd86648038"},"refKey":104},
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{"_key":"60c235867723bebd86648116","_id":"references/60c235867723bebd86648116","_rev":"_cfFk1jG---","tei":"\n\t\n\t\tChallenges in clinical natural language processing for automated disorder normalization\n\t\t\n\t\t\tRobertLeaman\n\t\t\n\t\t\n\t\t\tRituKhare\n\t\t\n\t\t\n\t\t\tZhiyongLu\n\t\t\n\t\t10.1016/j.jbi.2015.07.010\n\t\t26187250\n\t\tPMC4713367\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t57\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c235867723bebd86648112"},"refKey":35},
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{"_key":"60c2361b7723bebd866481df","_id":"references/60c2361b7723bebd866481df","_rev":"_cfFk1lC---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1073/pnas.0506580102\n\t\t16199517\n\t\tPMC1239896\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t102\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c2361b7723bebd866481de"},"refKey":80},
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{"_key":"60c2361b7723bebd866481e3","_id":"references/60c2361b7723bebd866481e3","_rev":"_cfFk1lq---","tei":"\n\t\n\t\tCDD/SPARCLE: the conserved domain database in 2020\n\t\t\n\t\t\tSLu\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tFChitsaz\n\t\t\n\t\t\n\t\t\tMKDerbyshire\n\t\t\n\t\t\n\t\t\tRCGeer\n\t\t\n\t\t\n\t\t\tNRGonzales\n\t\t\n\t\t10.1093/nar/gkz991\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2361b7723bebd866481de"},"refKey":49},
{"_key":"60c2361b7723bebd866481e4","_id":"references/60c2361b7723bebd866481e4","_rev":"_cfFk1l2---","tei":"\n\t\n\t\tExPASy: SIB bioinformatics resource portal\n\t\t\n\t\t\tPArtimo\n\t\t\n\t\t\n\t\t\tMJonnalagedda\n\t\t\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tDBaratin\n\t\t\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tEDe Castro\n\t\t\n\t\t\n\t\t\tSDuvaud\n\t\t\n\t\t\n\t\t\tVFlegel\n\t\t\n\t\t\n\t\t\tAFortier\n\t\t\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tCHernandez\n\t\t\n\t\t\n\t\t\tVIoannidis\n\t\t\n\t\t\n\t\t\tDKuznetsov\n\t\t\n\t\t\n\t\t\tRLiechti\n\t\t\n\t\t\n\t\t\tSMoretti\n\t\t\n\t\t\n\t\t\tKMostaguir\n\t\t\n\t\t\n\t\t\tNRedaschi\n\t\t\n\t\t\n\t\t\tGRossier\n\t\t\n\t\t\n\t\t\tIXenarios\n\t\t\n\t\t\n\t\t\tHStockinger\n\t\t\n\t\t10.1093/nar/gks400\n\t\t22661580\n\t\tPMC3394269\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2361b7723bebd866481de"},"refKey":7},
{"_key":"60c2361b7723bebd866481e5","_id":"references/60c2361b7723bebd866481e5","_rev":"_cfFk1mC---","tei":"\n\t\n\t\tSTRING: a web-server to retrieve and display the repeatedly occurring neighbourhood of a gene\n\t\t\n\t\t\tBSnel\n\t\t\n\t\t\n\t\t\tGLehmann\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t\n\t\t\tMAHuynen\n\t\t\n\t\t10.1093/nar/28.18.3442\n\t\t10982861\n\t\tPMC110752\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t28\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2361b7723bebd866481de"},"refKey":78},
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{"_key":"60c2361b7723bebd866481e7","_id":"references/60c2361b7723bebd866481e7","_rev":"_cfFk1mW---","tei":"\n\t\n\t\tSWISS-MODEL: an automated protein homology-modeling server\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tNGuex\n\t\t\n\t\t\n\t\t\tMCPeitsch\n\t\t\n\t\t10.1093/nar/gkg520\n\t\t12824332\n\t\tPMC168927\n\t\tark:/67375/HXZ-ZGZG4B3V-C\n\t\tFD3DFE298FA3BFF15DD8573F36B4AD66B4421562\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2361b7723bebd866481de"},"refKey":73},
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{"_key":"60c237117723bebd86648371","_id":"references/60c237117723bebd86648371","_rev":"_cfFk1pi---","tei":"\n\t\n\t\tMEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c237117723bebd86648370"},"refKey":21},
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{"_key":"60c237577723bebd866483bd","_id":"references/60c237577723bebd866483bd","_rev":"_cfFk1p6---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Using\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMächler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t67\n\t\t\te4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c237577723bebd866483bc"},"refKey":38},
{"_key":"60c237607723bebd866483c1","_id":"references/60c237607723bebd866483c1","_rev":"_cfFk1qG---","tei":"\n\t\n\t\tlmerTest Package: Tests in Linear Mixed Effects Models\n\t\t\n\t\t\tAKuznetsova\n\t\t\n\t\t\n\t\t\tPBBrockhoff\n\t\t\n\t\t\n\t\t\tRH BChristensen\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t82\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c237607723bebd866483c0"},"refKey":125},
{"_key":"60c237607723bebd866483c2","_id":"references/60c237607723bebd866483c2","_rev":"_cfFk1qO---","tei":"\n\t\n\t\tMBESS: The MBESS R Package\n\t\t\n\t\t\tKKelley\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR Package version 4.6.0.) [Computer software\n\n","document":{"$oid":"60c237607723bebd866483c0"},"refKey":124},
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{"_key":"60c237a77723bebd86648416","_id":"references/60c237a77723bebd86648416","_rev":"_cfFk1r----","tei":"\n\t\n\t\tArlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows\n\t\t\n\t\t\tLaurentExcoffier\n\t\t\n\t\t\n\t\t\tHeidiE LLischer\n\t\t\n\t\t10.1111/j.1755-0998.2010.02847.x\n\t\t21565059\n\t\tark:/67375/WNG-C7BRQ2GT-T\n\t\t47B42897DEA358D08E699D07E31DE1A9C7BA6897\n\t\n\t\n\t\tMolecular Ecology Resources\n\t\t1755-098X\n\t\t1755-0998\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c237a77723bebd86648415"},"refKey":14},
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{"_key":"60c237a77723bebd86648418","_id":"references/60c237a77723bebd86648418","_rev":"_cfFk1rS---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c237a77723bebd86648415"},"refKey":26},
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{"_key":"60c238e67723bebd866485d3","_id":"references/60c238e67723bebd866485d3","_rev":"_cfFk1xO---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1.2r3pre, Schrödinger, LLC\n\t\t\n\t\n\n","document":{"$oid":"60c238e67723bebd866485ce"},"refKey":17},
{"_key":"60c239137723bebd86648601","_id":"references/60c239137723bebd86648601","_rev":"_cfFk1xW---","tei":"\n\t\n\t\tMultiple sequence alignment with clustal X\n\t\t\n\t\t\tJFrancois\n\t\t\n\t\t\n\t\t\tDTJulie\n\t\t\n\t\t\n\t\t\tGManolo\n\t\t\n\t\t\n\t\t\tGHDesmond\n\t\t\n\t\t\n\t\t\tJGToby\n\t\t\n\t\n\t\n\t\tTIBS\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239137723bebd86648600"},"refKey":18},
{"_key":"60c239137723bebd86648602","_id":"references/60c239137723bebd86648602","_rev":"_cfFk1xi---","tei":"\n\t\n\t\tHiden Markov models for detecting remote protein homologies\n\t\t\n\t\t\tKKevin\n\t\t\n\t\t\n\t\t\tBChristian\n\t\t\n\t\t\n\t\t\tHRichard\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239137723bebd86648600"},"refKey":40},
{"_key":"60c239137723bebd86648603","_id":"references/60c239137723bebd86648603","_rev":"_cfFk1xu---","tei":"\n\t\n\t\tAssessing protein structures with a non-local atomic interaction energy\n\t\t\n\t\t\tFranciscoMelo\n\t\t\n\t\t\n\t\t\tErnestFeytmans\n\t\t\n\t\t10.1006/jmbi.1998.1665\n\t\t9571028\n\t\tS0022-2836(98)91665-5\n\t\tark:/67375/6H6-HGN8F4FC-L\n\t\tCC4CA75910C042D9EC0D9646BC84D5455DE6A7F0\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t277\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c239137723bebd86648600"},"refKey":52},
{"_key":"60c239137723bebd86648604","_id":"references/60c239137723bebd86648604","_rev":"_cfFk1x6---","tei":"\n\t\n\t\tEnhanced genome annotation using structural profiles in the program 3D-PSSM\n\t\t\n\t\t\tAKLawrence\n\t\t\n\t\t\n\t\t\tMMRobert\n\t\t\n\t\t\n\t\t\tJE SMichael\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t299\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239137723bebd86648600"},"refKey":46},
{"_key":"60c239137723bebd86648605","_id":"references/60c239137723bebd86648605","_rev":"_cfFk1yC---","tei":"\n\t\n\t\tCDD: a database of conserved domain alignments with links to domain three-dimensional structure\n\t\t\n\t\t\tMBAron\n\t\t\n\t\t\n\t\t\tRPAnna\n\t\t\n\t\t\n\t\t\tASBenjamin\n\t\t\n\t\t\n\t\t\tATPaul\n\t\t\n\t\t\n\t\t\tYGLewis\n\t\t\n\t\t\n\t\t\tHBStephen\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239137723bebd86648600"},"refKey":2},
{"_key":"60c239137723bebd86648606","_id":"references/60c239137723bebd86648606","_rev":"_cfFk1yO---","tei":"\n\t\n\t\tAssignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure\n\t\t\n\t\t\tJulianGough\n\t\t\n\t\t\n\t\t\tKevinKarplus\n\t\t\n\t\t\n\t\t\tRichardHughey\n\t\t\n\t\t\n\t\t\tCyrusChothia\n\t\t\n\t\t10.1006/jmbi.2001.5080\n\t\t11697912\n\t\tS0022-2836(01)95080-6\n\t\tark:/67375/6H6-BG6BWM9K-1\n\t\t47DA519C936ECB2EE4C204CE8727EF3125B66DA5\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t313\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c239137723bebd86648600"},"refKey":19},
{"_key":"60c239137723bebd86648607","_id":"references/60c239137723bebd86648607","_rev":"_cfFk1ya---","tei":"\n\t\n\t\tSUPERFAMILY: HMMs representing all proteins of known structure\n\t\t\n\t\t\tGJulian\n\t\t\n\t\t\n\t\t\tCCyus\n\t\t\n\t\n\t\n\t\tSCOP\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239137723bebd86648600"},"refKey":33},
{"_key":"60c239137723bebd86648608","_id":"references/60c239137723bebd86648608","_rev":"_cfFk1ym---","tei":"\n\t\n\t\tAutomated construction and graphical presentation of protein blocks from unaligned sequences\n\t\t\n\t\t\tStevenHenikoff\n\t\t\n\t\t\n\t\t\tJorjaGHenikoff\n\t\t\n\t\t\n\t\t\tWilliamJAlford\n\t\t\n\t\t\n\t\t\tShmuelPietrokovski\n\t\t\n\t\t10.1016/0378-1119(95)00486-p\n\t\t7590261\n\t\t0378-1119(95)00486-P\n\t\tark:/67375/6H6-9S2DHVTG-V\n\t\tD5448DF1945A6EEC229EAC28884E542D4D4F9A42\n\t\n\t\n\t\tGene\n\t\tGene\n\t\t0378-1119\n\t\t\n\t\t\t163\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tGene\n\n","document":{"$oid":"60c239137723bebd86648600"},"refKey":22},
{"_key":"60c239157723bebd86648625","_id":"references/60c239157723bebd86648625","_rev":"_cfFk1yu---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239157723bebd86648624"},"refKey":44},
{"_key":"60c2391e7723bebd8664862c","_id":"references/60c2391e7723bebd8664862c","_rev":"_cfFk1y6---","tei":"\n\t\n\t\tPAST: paleontological statistics software package for education and data analysis\n\t\t\n\t\t\tDAHarper\n\t\t\n\t\t\n\t\t\tPDHammer\n\t\t\n\t\t\n\t\t\tRyan\n\t\t\n\t\n\t\n\t\tPalaeontol. Electron\n\t\t\n\t\t\t4\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2391e7723bebd8664862b"},"refKey":34},
{"_key":"60c2392a7723bebd86648631","_id":"references/60c2392a7723bebd86648631","_rev":"_cfFk1zG---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tBLASTP SUITE\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\n\t\t\n\t\t\tU.S. National Library of Medicine, National center for biotechnology information, national institutes of health\n\t\t\n\t\n\n","document":{"$oid":"60c2392a7723bebd86648630"},"refKey":36},
{"_key":"60c2392b7723bebd86648643","_id":"references/60c2392b7723bebd86648643","_rev":"_cfFk1zO---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMarkJamesAbraham\n\t\t\t0000-0001-6363-2521\n\t\t\n\t\t\n\t\t\tTeemuMurtola\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1016/j.softx.2015.06.001\n\t\n\t\n\t\tSoftwareX\n\t\tSoftwareX\n\t\t2352-7110\n\t\t\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2392b7723bebd86648642"},"refKey":15},
{"_key":"60c2392b7723bebd86648644","_id":"references/60c2392b7723bebd86648644","_rev":"_cfFk1za---","tei":"\n\t\n\t\tCHARMM36 all-atom additive protein force field: Validation based on comparison to NMR data\n\t\t\n\t\t\tJingHuang\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t10.1002/jcc.23354\n\t\t23832629\n\t\tPMC3800559\n\t\tark:/67375/WNG-7HWQQHWF-9\n\t\t253DCE9C826B1834B692C2D5FEF33E5E45D17CCA\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t34\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2392b7723bebd86648642"},"refKey":14},
{"_key":"60c2392b7723bebd86648645","_id":"references/60c2392b7723bebd86648645","_rev":"_cfFk1zm---","tei":"\n\t\n\t\tAutomation of the CHARMM General Force Field (CGenFF) I: Bond Perception and Atom Typing\n\t\t\n\t\t\tKVanommeslaeghe\n\t\t\n\t\t\n\t\t\tADMackerell\n\t\t\n\t\t10.1021/ci300363c\n\t\t23146088\n\t\tPMC3528824\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t52\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2392b7723bebd86648642"},"refKey":13},
{"_key":"60c2393f7723bebd86648655","_id":"references/60c2393f7723bebd86648655","_rev":"_cfFk1zu---","tei":"\n\t\n\t\tiGEMDOCK: a graphical environment of enhancing GEMDOCK using pharmacological interactions and post-screening analysis\n\t\t\n\t\t\tKai-ChengHsu\n\t\t\n\t\t\n\t\t\tYen-FuChen\n\t\t\n\t\t\n\t\t\tShen-RongLin\n\t\t\n\t\t\n\t\t\tJinn-MoonYang\n\t\t\n\t\t10.1186/1471-2105-12-s1-s33\n\t\t21342564\n\t\tPMC3044289\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\tSuppl 1\n\t\t\tS33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSuppl. 1\n\n","document":{"$oid":"60c2393f7723bebd86648654"},"refKey":45},
{"_key":"60c2393f7723bebd86648656","_id":"references/60c2393f7723bebd86648656","_rev":"_cfFk1z6---","tei":"\n\t\n\t\tGEMDOCK: A generic evolutionary method for molecular docking\n\t\t\n\t\t\tJinn-MoonYang\n\t\t\n\t\t\n\t\t\tChun-ChenChen\n\t\t\n\t\t10.1002/prot.20035\n\t\t15048822\n\t\tark:/67375/WNG-2D234NDG-L\n\t\t5BC029F381183B0E287819BDCD50275CABB9ED21\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t55\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2393f7723bebd86648654"},"refKey":61},
{"_key":"60c2393f7723bebd86648657","_id":"references/60c2393f7723bebd86648657","_rev":"_cfFk10G---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2393f7723bebd86648654"},"refKey":58},
{"_key":"60c239427723bebd86648666","_id":"references/60c239427723bebd86648666","_rev":"_cfFk10S---","tei":"\n\t\n\t\tGartner critical capabilities for meeting solutions\n\t\t\n\t\t\tTEagle\n\t\t\n\t\t\n\t\t\tMFasciani\n\t\t\n\t\t\n\t\t\tAPreset\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239427723bebd86648665"},"refKey":7},
{"_key":"60c239447723bebd86648669","_id":"references/60c239447723bebd86648669","_rev":"_cfFk10a---","tei":"\n\t\n\t\tSPServer: Split-statistical potentials for the analysis of protein structures and protein-protein interactions\n\t\t\n\t\t\tJAguirre-Plans\n\t\t\n\t\t\n\t\t\tAMeseguer\n\t\t\n\t\t\n\t\t\tRMolina-Fernandez\n\t\t\n\t\t\n\t\t\tMAMarín-López\n\t\t\n\t\t\n\t\t\tGJumde\n\t\t\n\t\t\n\t\t\tKCasanova\n\t\t\n\t\t\n\t\t\tJBonet\n\t\t\n\t\t\n\t\t\tOFornes\n\t\t\n\t\t\n\t\t\tNFernandez-Fuentes\n\t\t\n\t\t\n\t\t\tBOliva\n\t\t\n\t\t10.1186/s12859-020-03770-5\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t22\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239447723bebd86648668"},"refKey":42},
{"_key":"60c239447723bebd8664866a","_id":"references/60c239447723bebd8664866a","_rev":"_cfFk10m---","tei":"\n\t\n\t\tAssessing changes in stability and flexibility upon single and multiple point missense mutations\n\t\t\n\t\t\tCH MRodrigues\n\t\t\n\t\t\n\t\t\tDE VPires\n\t\t\n\t\t\n\t\t\tDBAscher\n\t\t\n\t\t\n\t\t\tDynamut2\n\t\t\n\t\t10.1002/pro.3942\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c239447723bebd86648668"},"refKey":46},
{"_key":"60c239627723bebd8664869b","_id":"references/60c239627723bebd8664869b","_rev":"_cfFk10y---","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 1. Method and Assessment of Docking Accuracy\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tJayLBanks\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tJasnaJKlicic\n\t\t\n\t\t\n\t\t\tDanielTMainz\n\t\t\n\t\t\n\t\t\tMatthewPRepasky\n\t\t\n\t\t\n\t\t\tEricHKnoll\n\t\t\n\t\t\n\t\t\tMeeShelley\n\t\t\n\t\t\n\t\t\tJasonKPerry\n\t\t\n\t\t\n\t\t\tDavidEShaw\n\t\t\n\t\t\n\t\t\tPerryFrancis\n\t\t\n\t\t\n\t\t\tPeterSShenkin\n\t\t\n\t\t10.1021/jm0306430\n\t\t15027865\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c239627723bebd8664869a"},"refKey":12},
{"_key":"60c239627723bebd8664869c","_id":"references/60c239627723bebd8664869c","_rev":"_cfFk106---","tei":"\n\t\n\t\tExtra Precision Glide: Docking and Scoring Incorporating a Model of Hydrophobic Enclosure for Protein−Ligand Complexes\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tMatthewPRepasky\n\t\t\n\t\t\n\t\t\tLeahLFrye\n\t\t\n\t\t\n\t\t\tJeremyRGreenwood\n\t\t\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tPaulCSanschagrin\n\t\t\n\t\t\n\t\t\tDanielTMainz\n\t\t\n\t\t10.1021/jm051256o\n\t\t17034125\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t49\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c239627723bebd8664869a"},"refKey":13},
{"_key":"60c239627723bebd8664869d","_id":"references/60c239627723bebd8664869d","_rev":"_cfFk11G---","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 2. Enrichment Factors in Database Screening\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tHegeSBeard\n\t\t\n\t\t\n\t\t\tLeahLFrye\n\t\t\n\t\t\n\t\t\tWThomasPollard\n\t\t\n\t\t\n\t\t\tJayLBanks\n\t\t\n\t\t10.1021/jm030644s\n\t\t15027866\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c239627723bebd8664869a"},"refKey":15},
{"_key":"60c239627723bebd8664869e","_id":"references/60c239627723bebd8664869e","_rev":"_cfFk11S---","tei":"\n\t\n\t\tCOVID-19: What has been learned and to be learned about the novel coronavirus disease\n\t\t\n\t\t\tYYi\n\t\t\n\t\t\n\t\t\tPN PLagniton\n\t\t\n\t\t\n\t\t\tSYe\n\t\t\n\t\t\n\t\t\tELi\n\t\t\n\t\t\n\t\t\tR.-HXu\n\t\t\n\t\t10.7150/ijbs.45134\n\t\t\n\t\n\t\n\t\tInternational Journal of Biological Sciences\n\t\t\n\t\t\t16\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239627723bebd8664869a"},"refKey":76},
{"_key":"60c2396c7723bebd866486ba","_id":"references/60c2396c7723bebd866486ba","_rev":"_cfFk11a---","tei":"\n\t\n\t\tEpi Info TM 7 User Guide v3\n\t\n\t\n\t\tUS Centers for Disease Control and Prevention (CDC)\n\t\t\n\t\t\t\n\t\t\n\t\n\tAtlanta. CDC\n\n","document":{"$oid":"60c2396c7723bebd866486b9"},"refKey":12},
{"_key":"60c239837723bebd866486c4","_id":"references/60c239837723bebd866486c4","_rev":"_cfFk11m---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239837723bebd866486c3"},"refKey":57},
{"_key":"60c239837723bebd866486c5","_id":"references/60c239837723bebd866486c5","_rev":"_cfFk11y---","tei":"\n\t\n\t\tPosterior summarization in Bayesian phylogenetics using Tracer 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239837723bebd866486c3"},"refKey":67},
{"_key":"60c239837723bebd866486c6","_id":"references/60c239837723bebd866486c6","_rev":"_cfFk12----","tei":"\n\t\n\t\tBEAGLE 3: Improved Performance, Scaling, and Usability for a High-Performance Computing Library for Statistical Phylogenetics\n\t\t\n\t\t\tDanielLAyres\n\t\t\n\t\t\n\t\t\tMichaelPCummings\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tAaronEDarling\n\t\t\n\t\t\n\t\t\tPaulOLewis\n\t\t\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tJohnPHuelsenbeck\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syz020\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tBEAGLE\n\n","document":{"$oid":"60c239837723bebd866486c3"},"refKey":59},
{"_key":"60c239837723bebd866486c7","_id":"references/60c239837723bebd866486c7","_rev":"_cfFk12K---","tei":"\n\t\n\t\tRDP4: detection and analysis of recombination patterns in virus genomes\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tBMurrell\n\t\t\n\t\t\n\t\t\tMGolden\n\t\t\n\t\t\n\t\t\tAKhoosal\n\t\t\n\t\t\n\t\t\tBMuhire\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t1\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239837723bebd866486c3"},"refKey":54},
{"_key":"60c239837723bebd866486c8","_id":"references/60c239837723bebd866486c8","_rev":"_cfFk12W---","tei":"\n\t\n\t\tPhylogeny inference based on parsimony and other methods using PAUP\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tJackSullivan\n\t\t\n\t\t10.1017/cbo9780511819049.010\n\t\n\t\n\t\tThe Phylogenetic Handbook\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2002\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239837723bebd866486c3"},"refKey":74},
{"_key":"60c239837723bebd866486c9","_id":"references/60c239837723bebd866486c9","_rev":"_cfFk12e---","tei":"\n\t\n\t\tphylodyn : an R package for phylodynamic simulation and inference\n\t\t\n\t\t\tMichaelDKarcher\n\t\t\n\t\t\n\t\t\tJuliaAPalacios\n\t\t\n\t\t\n\t\t\tShiweiLan\n\t\t\n\t\t\n\t\t\tVladimirNMinin\n\t\t\n\t\t10.1111/1755-0998.12630\n\t\t27801980\n\t\tPMC5466693\n\t\t\n\t\n\t\n\t\tMolecular Ecology Resources\n\t\tMol Ecol Resour\n\t\t1755-098X\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c239837723bebd866486c3"},"refKey":69},
{"_key":"60c239837723bebd866486ca","_id":"references/60c239837723bebd866486ca","_rev":"_cfFk12q---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximumlikelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239837723bebd866486c3"},"refKey":55},
{"_key":"60c239837723bebd866486cb","_id":"references/60c239837723bebd866486cb","_rev":"_cfFk122---","tei":"\n\t\n\t\tTreeGraph 2: combining and visualizing evidence from different phylogenetic analyses\n\t\t\n\t\t\tBCStöver\n\t\t\n\t\t\n\t\t\tKFMüller\n\t\t\n\t\n\t\n\t\tBMC Bioinforma\n\t\t\n\t\t\t11\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239837723bebd866486c3"},"refKey":56},
{"_key":"60c239f37723bebd8664871c","_id":"references/60c239f37723bebd8664871c","_rev":"_cfFk13C---","tei":"\n\t\n\t\tFully coupled “online” chemistry within the WRF model\n\t\t\n\t\t\tGeorgAGrell\n\t\t\n\t\t\n\t\t\tStevenEPeckham\n\t\t\n\t\t\n\t\t\tRainerSchmitz\n\t\t\n\t\t\n\t\t\tStuartAMckeen\n\t\t\n\t\t\n\t\t\tGregoryFrost\n\t\t\n\t\t\n\t\t\tWilliamCSkamarock\n\t\t\n\t\t\n\t\t\tBrianEder\n\t\t\n\t\t10.1016/j.atmosenv.2005.04.027\n\t\t\n\t\n\t\n\t\tAtmospheric Environment\n\t\tAtmospheric Environment\n\t\t1352-2310\n\t\t\n\t\t\t39\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c239f37723bebd8664871b"},"refKey":11},
{"_key":"60c239f57723bebd86648721","_id":"references/60c239f57723bebd86648721","_rev":"_cfFk13K---","tei":"\n\t\n\t\tCMUSphinx Open Source Speech Recognition, CMUSphinx Open Source Speech Recognition\n\t\t\n\t\t\tNShmyrev\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239f57723bebd86648720"},"refKey":11},
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{"_key":"60c239f57723bebd86648723","_id":"references/60c239f57723bebd86648723","_rev":"_cfFk13i---","tei":"\n\t\n\t\tHjerson: An Open Source Tool for Automatic Error Classification of Machine Translation Output: cidermole/hjerson\n\t\t\n\t\t\tDMadl\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239f57723bebd86648720"},"refKey":34},
{"_key":"60c239fe7723bebd86648752","_id":"references/60c239fe7723bebd86648752","_rev":"_cfFk13q---","tei":"\n\t\n\t\tConducting meta-analyses in R with the metafor package\n\t\t\n\t\t\tWViechtbauer\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c239fe7723bebd86648751"},"refKey":15},
{"_key":"60c23a157723bebd86648766","_id":"references/60c23a157723bebd86648766","_rev":"_cfFk132---","tei":"\n\t\n\t\tThe Psychological Meaning of Words: LIWC and Computerized Text Analysis Methods\n\t\t\n\t\t\tYlaRTausczik\n\t\t\n\t\t\n\t\t\tJamesWPennebaker\n\t\t\n\t\t10.1177/0261927x09351676\n\t\t\n\t\n\t\n\t\tJournal of Language and Social Psychology\n\t\tJournal of Language and Social Psychology\n\t\t0261-927X\n\t\t1552-6526\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c23a157723bebd86648765"},"refKey":50},
{"_key":"60c23a297723bebd8664877e","_id":"references/60c23a297723bebd8664877e","_rev":"_cfFk14C---","tei":"\n\t\n\t\tDeepCas: an end-to-end predictor of information cascades\n\t\t\n\t\t\tCLi\n\t\t\n\t\t\n\t\t\tJMa\n\t\t\n\t\t\n\t\t\tXGuo\n\t\t\n\t\t\n\t\t\tQMei\n\t\t\n\t\n\t\n\t\tProceedings of the 26th International Conference on World Wide Web\n\t\t\t\tthe 26th International Conference on World Wide Web\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23a297723bebd8664877d"},"refKey":12},
{"_key":"60c23a297723bebd8664877f","_id":"references/60c23a297723bebd8664877f","_rev":"_cfFk14O---","tei":"\n\t\n\t\tDeepWalk: online learning of social representations\n\t\t\n\t\t\tBPerozzi\n\t\t\n\t\t\n\t\t\tRAl-Rfou\n\t\t\n\t\t\n\t\t\tSSkiena\n\t\t\n\t\n\t\n\t\tProceedings of the 20th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\t\tthe 20th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23a297723bebd8664877d"},"refKey":17},
{"_key":"60c23a297723bebd86648780","_id":"references/60c23a297723bebd86648780","_rev":"_cfFk14W---","tei":"\n\t\n\t\tDeepHawkes: bridging the gap between prediction and understanding of information cascades\n\t\t\n\t\t\tQCao\n\t\t\n\t\t\n\t\t\tHShen\n\t\t\n\t\t\n\t\t\tKCen\n\t\t\n\t\t\n\t\t\tWOuyang\n\t\t\n\t\t\n\t\t\tXCheng\n\t\t\n\t\n\t\n\t\tProceedings of the 2017 ACM on Conference on Information and Knowledge Management\n\t\t\t\tthe 2017 ACM on Conference on Information and Knowledge Management\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23a297723bebd8664877d"},"refKey":5},
{"_key":"60c23a407723bebd8664878f","_id":"references/60c23a407723bebd8664878f","_rev":"_cfFk14i---","tei":"\n\t\n\t\t\n\t\tRstudio manual: integrated development environment for R\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23a407723bebd8664878e"},"refKey":18},
{"_key":"60c23a407723bebd86648790","_id":"references/60c23a407723bebd86648790","_rev":"_cfFk14u---","tei":"\n\t\n\t\tstringr: modern, consistent string processing\n\t\t\n\t\t\tHadleyWickham\n\t\t\n\t\t10.32614/rj-2010-012\n\t\t\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\tThe R Journal\n\t\t2073-4859\n\t\t\n\t\t\t2\n\t\t\t2\n\t\t\t38\n\t\t\t\n\t\t\tThe R Foundation\n\t\t\n\t\n\n","document":{"$oid":"60c23a407723bebd8664878e"},"refKey":20},
{"_key":"60c23a407723bebd86648791","_id":"references/60c23a407723bebd86648791","_rev":"_cfFk146---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\n\t\n\t\tInt. J. (Complex Syst.)\n\t\t\n\t\t\t1695\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23a407723bebd8664878e"},"refKey":6},
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{"_key":"60c23dc97723bebd86648bf2","_id":"references/60c23dc97723bebd86648bf2","_rev":"_cfFk2Ju---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tCPJames\n\t\t\n\t\t\n\t\t\tRBraun\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tJGumbart\n\t\t\n\t\t\n\t\t\tETajkhorshid\n\t\t\n\t\t\n\t\t\tEVilla\n\t\t\n\t\t\n\t\t\tCChipot\n\t\t\n\t\t\n\t\t\tRDSkeel\n\t\t\n\t\t\n\t\t\tLKale\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23dc97723bebd86648bf1"},"refKey":12},
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{"_key":"60c23f317723bebd86648f70","_id":"references/60c23f317723bebd86648f70","_rev":"_cfFk2NS---","tei":"\n\t\n\t\tGetting More Out of Biomedical Documents with GATE's Full Lifecycle Open Source Text Analytics\n\t\t\n\t\t\tHamishCunningham\n\t\t\n\t\t\n\t\t\tValentinTablan\n\t\t\n\t\t\n\t\t\tAngusRoberts\n\t\t\n\t\t\n\t\t\tKalinaBontcheva\n\t\t\n\t\t10.1371/journal.pcbi.1002854\n\t\t23408875\n\t\tPMC3567135\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t9\n\t\t\t2\n\t\t\te1002854\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c23f317723bebd86648f6e"},"refKey":26},
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{"_key":"60c23f977723bebd86648fcf","_id":"references/60c23f977723bebd86648fcf","_rev":"_cfFk2Pu---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23f977723bebd86648fcb"},"refKey":16},
{"_key":"60c23f977723bebd86648fd0","_id":"references/60c23f977723bebd86648fd0","_rev":"_cfFk2P2---","tei":"\n\t\n\t\tUltrafast approximation for phylogenetic bootstrap\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tMA TNguyen\n\t\t\n\t\t\n\t\t\tAHaeseler\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23f977723bebd86648fcb"},"refKey":24},
{"_key":"60c23fdd7723bebd86649027","_id":"references/60c23fdd7723bebd86649027","_rev":"_cfFk2QC---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23fdd7723bebd86649026"},"refKey":36},
{"_key":"60c23fdd7723bebd86649028","_id":"references/60c23fdd7723bebd86649028","_rev":"_cfFk2QO---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tMega6\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23fdd7723bebd86649026"},"refKey":33},
{"_key":"60c23fe37723bebd8664903e","_id":"references/60c23fe37723bebd8664903e","_rev":"_cfFk2Qa---","tei":"\n\t\n\t\tBioinformatics enrichment tools: Paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t37\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23fe37723bebd8664903d"},"refKey":22},
{"_key":"60c23fe37723bebd8664903f","_id":"references/60c23fe37723bebd8664903f","_rev":"_cfFk2Qi---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c23fe37723bebd8664903d"},"refKey":23},
{"_key":"60c23ff97723bebd8664905b","_id":"references/60c23ff97723bebd8664905b","_rev":"_cfFk2Qu---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c23ff97723bebd8664905a"},"refKey":21},
{"_key":"60c240017723bebd86649065","_id":"references/60c240017723bebd86649065","_rev":"_cfFk2Q6---","tei":"\n\t\n\t\tComputational Analysis of HIV Molecular Sequences2000\n\t\t\n\t\t\tBKorber\n\t\t\n\t\tAllen G. Rodrigo and Gerald H. Learn. Dordrecht NKAP\n\t\t\n\t\t\t\n\t\t\n\t\n\tHIV Signature and Sequence Variation Analysis\n\n","document":{"$oid":"60c240017723bebd86649064"},"refKey":28},
{"_key":"60c240407723bebd8664907f","_id":"references/60c240407723bebd8664907f","_rev":"_cfFk2RC---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c240407723bebd8664907e"},"refKey":25},
{"_key":"60c2405e7723bebd866490bd","_id":"references/60c2405e7723bebd866490bd","_rev":"_cfFk2RO---","tei":"\n\t\n\t\tPHYLIP -Phylogeny Inference Package, Version 3.2\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\n\t\n\t\tCladistics\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2405e7723bebd866490bc"},"refKey":5},
{"_key":"60c240847723bebd866490e4","_id":"references/60c240847723bebd866490e4","_rev":"_cfFk2Ra---","tei":"\n\t\n\t\tA comparison of genomic copy number calls by Partek Genomics Suite, Genotyping Console and Birdsuite algorithms to quantitative PCR\n\t\t\n\t\t\tBritneyLGrayson\n\t\t\n\t\t\n\t\t\tThomasMAune\n\t\t\n\t\t10.1186/1756-0381-4-8\n\t\t21489293\n\t\tPMC3084167\n\t\t\n\t\n\t\n\t\tBioData Mining\n\t\tBioData Mining\n\t\t1756-0381\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c240847723bebd866490e3"},"refKey":18},
{"_key":"60c240967723bebd866490f1","_id":"references/60c240967723bebd866490f1","_rev":"_cfFk2Rm---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c240967723bebd866490f0"},"refKey":11},
{"_key":"60c240967723bebd866490f2","_id":"references/60c240967723bebd866490f2","_rev":"_cfFk2Ru---","tei":"\n\t\n\t\tAssessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified\n\t\t\n\t\t\tTMKeane\n\t\t\n\t\t\n\t\t\tCJCreevey\n\t\t\n\t\t\n\t\t\tMMPentony\n\t\t\n\t\t\n\t\t\tTJNaughton\n\t\t\n\t\t\n\t\t\tJOMclnerney\n\t\t\n\t\n\t\n\t\tBMC Evol Biol\n\t\t\n\t\t\t6\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c240967723bebd866490f0"},"refKey":12},
{"_key":"60c240967723bebd866490f3","_id":"references/60c240967723bebd866490f3","_rev":"_cfFk2R6---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c240967723bebd866490f0"},"refKey":8},
{"_key":"60c240967723bebd866490f4","_id":"references/60c240967723bebd866490f4","_rev":"_cfFk2SG---","tei":"\n\t\n\t\tFulllength transcriptome assembly from RNA-Seq data without a reference genome\n\t\t\n\t\t\tMGGrabherr\n\t\t\n\t\t\n\t\t\tBJHaas\n\t\t\n\t\t\n\t\t\tMYassour\n\t\t\n\t\t\n\t\t\tJZLevin\n\t\t\n\t\t\n\t\t\tDAThompson\n\t\t\n\t\t\n\t\t\tIAmit\n\t\t\n\t\t\n\t\t\tXAdiconis\n\t\t\n\t\t\n\t\t\tLFan\n\t\t\n\t\t\n\t\t\tRRaychowdhury\n\t\t\n\t\t\n\t\t\tQZeng\n\t\t\n\t\t\n\t\t\tZChen\n\t\t\n\t\t\n\t\t\tEMauceli\n\t\t\n\t\t\n\t\t\tNHacohen\n\t\t\n\t\t\n\t\t\tAGnirke\n\t\t\n\t\t\n\t\t\tNRhind\n\t\t\n\t\t\n\t\t\tFDi Palma\n\t\t\n\t\t\n\t\t\tBWBirren\n\t\t\n\t\t\n\t\t\tCNusbaum\n\t\t\n\t\t\n\t\t\tKLindblad-Toh\n\t\t\n\t\t\n\t\t\tNFriedman\n\t\t\n\t\t\n\t\t\tARegev\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c240967723bebd866490f0"},"refKey":7},
{"_key":"60c240967723bebd866490f5","_id":"references/60c240967723bebd866490f5","_rev":"_cfFk2SO---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c240967723bebd866490f0"},"refKey":13},
{"_key":"60c240c37723bebd8664911b","_id":"references/60c240c37723bebd8664911b","_rev":"_cfFk2Sa---","tei":"\n\t\n\t\tG*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t10.3758/bf03193146\n\t\t17695343\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c240c37723bebd8664911a"},"refKey":19},
{"_key":"60c240ce7723bebd86649128","_id":"references/60c240ce7723bebd86649128","_rev":"_cfFk2Sm---","tei":"\n\t\n\t\tNear-optimal probabilistic RNA-seq quantification\n\t\t\n\t\t\tNicolasLBray\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tPállMelsted\n\t\t\t0000-0002-8418-6724\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nbt.3519\n\t\t27043002\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t34\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c240ce7723bebd86649127"},"refKey":17},
{"_key":"60c240d37723bebd86649137","_id":"references/60c240d37723bebd86649137","_rev":"_cfFk2Sy---","tei":"\n\t\n\t\tLikelihoodenhanced fast translation functions\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\n\t\n\t\tActa Crystallogr D\n\t\t\n\t\t\t61\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c240d37723bebd86649136"},"refKey":63},
{"_key":"60c240d37723bebd86649138","_id":"references/60c240d37723bebd86649138","_rev":"_cfFk2S6---","tei":"\n\t\n\t\tPhaser crystallographic software\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\n\t\n\t\tJ Appl Cryst\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c240d37723bebd86649136"},"refKey":64},
{"_key":"60c240d37723bebd86649139","_id":"references/60c240d37723bebd86649139","_rev":"_cfFk2TG---","tei":"\n\t\n\t\tRecent changes to the MOSFLM package for processing film and image plate data\n\t\t\n\t\t\tAgwLeslie\n\t\t\n\t\n\t\n\t\tJoint CCP4+ESF-EAMCB Newsletter on Protein Crystallography\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c240d37723bebd86649136"},"refKey":58},
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{"_key":"60c240d37723bebd8664913b","_id":"references/60c240d37723bebd8664913b","_rev":"_cfFk2Ta---","tei":"\n\t\n\t\tDeLano WL The PyMOL molecular graphics system\n\t\t\n\t\t\tDeLano Scientific\n\t\t\tPalo Alto, CA, USA\n\t\t\n\t\n\n","document":{"$oid":"60c240d37723bebd86649136"},"refKey":75},
{"_key":"60c240d37723bebd8664913c","_id":"references/60c240d37723bebd8664913c","_rev":"_cfFk2Tm---","tei":"\n\t\n\t\tThe 'Buccaneer' software for automated protein chain tracing\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\t10.1107/s0108767306098266\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t62\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c240d37723bebd86649136"},"refKey":69},
{"_key":"60c240d37723bebd8664913d","_id":"references/60c240d37723bebd8664913d","_rev":"_cfFk2Ty---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr D\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c240d37723bebd86649136"},"refKey":70},
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{"_key":"60c241727723bebd866491c6","_id":"references/60c241727723bebd866491c6","_rev":"_cfFk2Uy---","tei":"\n\t\n\t\tThe Sequence Manipulation Suite: JavaScript programs for analyzing and formatting protein and DNA sequences\n\t\t\n\t\t\tPStothard\n\t\t\n\t\n\t\n\t\tBiotechniques\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c241727723bebd866491c5"},"refKey":20},
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{"_key":"60c241837723bebd866491d8","_id":"references/60c241837723bebd866491d8","_rev":"_cfFk2Ve---","tei":"\n\t\n\t\tClustKNN: a highly scalable hybrid model -& memory-based CF Algorithm\n\t\t\n\t\t\tMRashid\n\t\t\n\t\t\n\t\t\tKLShyong\n\t\t\n\t\t\n\t\t\tGKarypis\n\t\t\n\t\t\n\t\t\tJRiedl\n\t\t\n\t\n\t\n\t\tProceeding of WebKDD\n\t\t\t\teeding of WebKDD\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c241837723bebd866491d7"},"refKey":21},
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{"_key":"60c2418a7723bebd866491e1","_id":"references/60c2418a7723bebd866491e1","_rev":"_cfFk2Vy---","tei":"\n\t\n\t\tMaximum-likelihood density modification\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t10.1107/s0907444900005072\n\t\t10944333\n\t\tPMC2792768\n\t\tark:/67375/WNG-G78MB7VN-V\n\t\tE5E40A4D058E31D1F89D6174A3357514126EE724\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t56\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c2418a7723bebd866491df"},"refKey":42},
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{"_key":"60c241ee7723bebd86649220","_id":"references/60c241ee7723bebd86649220","_rev":"_cfFk2We---","tei":"\n\t\n\t\tStatistical power analyses using G*Power 3.1: Tests for correlation and regression analyses\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t10.3758/brm.41.4.1149\n\t\t19897823\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c241ee7723bebd8664921f"},"refKey":21},
{"_key":"60c241f47723bebd8664922c","_id":"references/60c241f47723bebd8664922c","_rev":"_cfFk2Wq---","tei":"\n\t\n\t\tTherapeutic evaluation of free and liposome-loaded furazolidone in experimental visceral leishmaniasis\n\t\t\n\t\t\tAndréGustavoTempone\n\t\t\n\t\t\n\t\t\tRenatoArrudaMortara\n\t\t\n\t\t\n\t\t\tHeitorFrancoDe Andrade\n\t\t\n\t\t\n\t\t\tJulianaQueroReimão\n\t\t\n\t\t10.1016/j.ijantimicag.2010.04.006\n\t\t20554161\n\t\t\n\t\n\t\n\t\tInternational Journal of Antimicrobial Agents\n\t\tInternational Journal of Antimicrobial Agents\n\t\t0924-8579\n\t\t\n\t\t\t36\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c241f47723bebd8664922b"},"refKey":26},
{"_key":"60c2422c7723bebd86649247","_id":"references/60c2422c7723bebd86649247","_rev":"_cfFk2W2---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t10.1093/nar/gkz268\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2422c7723bebd86649246"},"refKey":19},
{"_key":"60c2422c7723bebd86649248","_id":"references/60c2422c7723bebd86649248","_rev":"_cfFk2X----","tei":"\n\t\n\t\tThe AxPyMOL Molecular Graphics Plugin for Microsoft PowerPoint\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\t1\n\t\t\n\t\n\n","document":{"$oid":"60c2422c7723bebd86649246"},"refKey":51},
{"_key":"60c2422c7723bebd86649249","_id":"references/60c2422c7723bebd86649249","_rev":"_cfFk2XK---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\t1\n\t\t\n\t\n\n","document":{"$oid":"60c2422c7723bebd86649246"},"refKey":52},
{"_key":"60c2422c7723bebd8664924a","_id":"references/60c2422c7723bebd8664924a","_rev":"_cfFk2XW---","tei":"\n\t\n\t\tThe JyMOL Molecular Graphics Development Component, Version\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\t1\n\t\t\n\t\n\n","document":{"$oid":"60c2422c7723bebd86649246"},"refKey":53},
{"_key":"60c2422c7723bebd8664924b","_id":"references/60c2422c7723bebd8664924b","_rev":"_cfFk2Xe---","tei":"\n\t\n\t\tCharacterization and prediction of residues determining protein functional specificity\n\t\t\n\t\t\tJohnACapra\n\t\t\n\t\t\n\t\t\tMonaSingh\n\t\t\n\t\t10.1093/bioinformatics/btn214\n\t\t18450811\n\t\tPMC2718669\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2422c7723bebd86649246"},"refKey":20},
{"_key":"60c2422c7723bebd8664924c","_id":"references/60c2422c7723bebd8664924c","_rev":"_cfFk2Xq---","tei":"\n\t\n\t\tPhylogeny.fr: robust phylogenetic analysis for the non-specialist\n\t\t\n\t\t\tADereeper\n\t\t\n\t\t\n\t\t\tVGuignon\n\t\t\n\t\t\n\t\t\tGBlanc\n\t\t\n\t\t\n\t\t\tSAudic\n\t\t\n\t\t\n\t\t\tSBuffet\n\t\t\n\t\t\n\t\t\tFChevenet\n\t\t\n\t\t\n\t\t\tJ-FDufayard\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMLescot\n\t\t\n\t\t\n\t\t\tJ-MClaverie\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\t10.1093/nar/gkn180\n\t\t18424797\n\t\tPMC2447785\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2422c7723bebd86649246"},"refKey":42},
{"_key":"60c2422c7723bebd8664924d","_id":"references/60c2422c7723bebd8664924d","_rev":"_cfFk2X2---","tei":"\n\t\n\t\tBLAST-EXPLORER helps you building datasets for phylogenetic analysis\n\t\t\n\t\t\tAlexisDereeper\n\t\t\n\t\t\n\t\t\tStephaneAudic\n\t\t\n\t\t\n\t\t\tJean-MichelClaverie\n\t\t\n\t\t\n\t\t\tGuillaumeBlanc\n\t\t\n\t\t10.1186/1471-2148-10-8\n\t\t20067610\n\t\tPMC2821324\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t8\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2422c7723bebd86649246"},"refKey":43},
{"_key":"60c2422c7723bebd8664924e","_id":"references/60c2422c7723bebd8664924e","_rev":"_cfFk2YC---","tei":"\n\t\n\t\tA Pareto-Optimal Refinement Method for Protein Design Scaffolds\n\t\t\n\t\t\tLucasGregorioNivón\n\t\t\n\t\t\n\t\t\tRoccoMoretti\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t10.1371/journal.pone.0059004\n\t\t23565140\n\t\tPMC3614904\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\te59004\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c2422c7723bebd86649246"},"refKey":46},
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{"_key":"60c242ed7723bebd86649383","_id":"references/60c242ed7723bebd86649383","_rev":"_cfFk2ZO---","tei":"\n\t\n\t\tPrediction of protein side-chain rotamers from a backbone-dependent rotamer library: a new homology modeling tool\n\t\t\n\t\t\tMichaelJBower\n\t\t\n\t\t\n\t\t\tFredECohen\n\t\t\n\t\t\n\t\t\tRolandLDunbrack\n\t\t\n\t\t10.1006/jmbi.1997.0926\n\t\t9150411\n\t\tS0022-2836(97)90926-8\n\t\tark:/67375/6H6-1C28MFNT-K\n\t\t8013A7C8519E2EB447F699B26330FF5B9A497CB5\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t267\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c242ed7723bebd86649381"},"refKey":29},
{"_key":"60c242ed7723bebd86649384","_id":"references/60c242ed7723bebd86649384","_rev":"_cfFk2Za---","tei":"\n\t\n\t\tA graph-theory algorithm for rapid protein side-chain prediction\n\t\t\n\t\t\tAdrianACanutescu\n\t\t\n\t\t\n\t\t\tAndrewAShelenkov\n\t\t\n\t\t\n\t\t\tRolandLDunbrack\n\t\t\n\t\t10.1110/ps.03154503\n\t\t12930999\n\t\tPMC2323997\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t12\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c242ed7723bebd86649381"},"refKey":30},
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{"_key":"60c2436b7723bebd8664941a","_id":"references/60c2436b7723bebd8664941a","_rev":"_cfFk2cW---","tei":"\n\t\n\t\tHaploview: Analysis and visualization of LD and haplotype maps\n\t\t\n\t\t\tJCBarrett\n\t\t\n\t\t\n\t\t\tBFry\n\t\t\n\t\t\n\t\t\tJMaller\n\t\t\n\t\t\n\t\t\tMJDaly\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2436b7723bebd86649419"},"refKey":24},
{"_key":"60c2438f7723bebd86649432","_id":"references/60c2438f7723bebd86649432","_rev":"_cfFk2ce---","tei":"\n\t\n\t\tGROMACS 4: algorithms for highly efficient, load-balanced, and scalable molecular simulation\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tEKutzner\n\t\t\n\t\t\n\t\t\tLindahl\n\t\t\n\t\n\t\n\t\tJ. Chem. Theory Comput\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2438f7723bebd86649431"},"refKey":54},
{"_key":"60c243b87723bebd86649450","_id":"references/60c243b87723bebd86649450","_rev":"_cfFk2cq---","tei":"\n\t\n\t\tUsing GOstats to test gene lists for GO term association\n\t\t\n\t\t\tSFalcon\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c243b87723bebd8664944f"},"refKey":4},
{"_key":"60c243b87723bebd86649451","_id":"references/60c243b87723bebd86649451","_rev":"_cfFk2c2---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c243b87723bebd8664944f"},"refKey":3},
{"_key":"60c243ee7723bebd86649463","_id":"references/60c243ee7723bebd86649463","_rev":"_cfFk2dC---","tei":"\n\t\n\t\tSecond-generation PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tChristopherCChang\n\t\t\n\t\t\n\t\t\tCarsonCChow\n\t\t\n\t\t\n\t\t\tLaurentCamTellier\n\t\t\n\t\t\n\t\t\tShashaankVattikuti\n\t\t\n\t\t\n\t\t\tShaunMPurcell\n\t\t\n\t\t\n\t\t\tJamesJLee\n\t\t\n\t\t10.1186/s13742-015-0047-8\n\t\t25722852\n\t\tPMC4342193\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\tGigaSci\n\t\t2047-217X\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t7\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c243ee7723bebd86649462"},"refKey":5},
{"_key":"60c243fa7723bebd86649471","_id":"references/60c243fa7723bebd86649471","_rev":"_cfFk2dO---","tei":"\n\t\n\t\tPredicting and Experimentally Validating Hot-Spot Residues at Protein-Protein Interfaces\n\t\t\n\t\t\tAmaurysIbarra\n\t\t\n\t\t\n\t\t\tGailJBartlett\n\t\t\n\t\t\n\t\t\tZsofiaHegedus\n\t\t\n\t\t\n\t\t\tSomDutt\n\t\t\n\t\t\n\t\t\tFruzsinaHobor\n\t\t\n\t\t\n\t\t\tKatherineHorner\n\t\t\n\t\t\n\t\t\tKristinaHetherington\n\t\t\n\t\t\n\t\t\tKirstinSpence\n\t\t\n\t\t\n\t\t\tAdamNelson\n\t\t\n\t\t\n\t\t\tThomasEdwards\n\t\t\n\t\t\n\t\t\tDerekNWoolfson\n\t\t\n\t\t\n\t\t\tRichardSessions\n\t\t\n\t\t\n\t\t\tAndrewWilson\n\t\t\t0000-0001-9852-6366\n\t\t\n\t\t10.26434/chemrxiv.8479076.v1\n\t\t\n\t\n\t\n\t\tACS Chem. Biol\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c243fa7723bebd86649470"},"refKey":81},
{"_key":"60c244007723bebd86649476","_id":"references/60c244007723bebd86649476","_rev":"_cfFk2dW---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tBjörnLarsson\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1006/jmbi.2000.4315\n\t\t11152613\n\t\tS0022-2836(00)94315-8\n\t\tark:/67375/6H6-ZB6KWVJ7-M\n\t\t172A90B8F942FA711EF8E2CF5DB2DE13B7F2D351\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c244007723bebd86649475"},"refKey":34},
{"_key":"60c244007723bebd86649477","_id":"references/60c244007723bebd86649477","_rev":"_cfFk2di---","tei":"\n\t\n\t\tA Combined Transmembrane Topology and Signal Peptide Prediction Method\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1016/j.jmb.2004.03.016\n\t\t15111065\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t338\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c244007723bebd86649475"},"refKey":37},
{"_key":"60c244007723bebd86649478","_id":"references/60c244007723bebd86649478","_rev":"_cfFk2du---","tei":"\n\t\n\t\tTransmembrane protein topology prediction using support vector machines\n\t\t\n\t\t\tTimothyNugent\n\t\t\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t10.1186/1471-2105-10-159\n\t\t19470175\n\t\tPMC2700806\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c244007723bebd86649475"},"refKey":35},
{"_key":"60c244007723bebd86649479","_id":"references/60c244007723bebd86649479","_rev":"_cfFk2d6---","tei":"\n\t\n\t\tThe TOPCONS web server for consensus prediction of membrane protein topology and signal peptides\n\t\t\n\t\t\tKonstantinosDTsirigos\n\t\t\n\t\t\n\t\t\tChristophPeters\n\t\t\n\t\t\n\t\t\tNanjiangShu\n\t\t\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tArneElofsson\n\t\t\n\t\t10.1093/nar/gkv485\n\t\t25969446\n\t\tPMC4489233\n\t\tdoi:10.1093/ nar/gkv485\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c244007723bebd86649475"},"refKey":38},
{"_key":"60c244007723bebd8664947a","_id":"references/60c244007723bebd8664947a","_rev":"_cfFk2eC---","tei":"\n\t\n\t\tThe HMMTOP transmembrane topology prediction server\n\t\t\n\t\t\tGETusnady\n\t\t\n\t\t\n\t\t\tISimon\n\t\t\n\t\t10.1093/bioinformatics/17.9.849\n\t\t11590105\n\t\t1460-2059\n\t\tark:/67375/HXZ-BP18XPBW-W\n\t\t298A4233870574330CA5656DC29F2E65785023D9\n\t\tdoi:10.1093/ bioinformatics/17.9.849\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t17\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c244007723bebd86649475"},"refKey":36},
{"_key":"60c244007723bebd8664947b","_id":"references/60c244007723bebd8664947b","_rev":"_cfFk2eO---","tei":"\n\t\n\t\tMolecular code for transmembrane-helix recognition by the Sec61 translocon\n\t\t\n\t\t\tTaraHessa\n\t\t\n\t\t\n\t\t\tNadjaMMeindl-Beinker\n\t\t\n\t\t\n\t\t\tAndreasBernsel\n\t\t\n\t\t\n\t\t\tHyunKim\n\t\t\n\t\t\n\t\t\tYokoSato\n\t\t\n\t\t\n\t\t\tMirjamLerch-Bader\n\t\t\n\t\t\n\t\t\tIngmarieNilsson\n\t\t\n\t\t\n\t\t\tStephenHWhite\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t10.1038/nature06387\n\t\t18075582\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t450\n\t\t\t7172\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c244007723bebd86649475"},"refKey":32},
{"_key":"60c244007723bebd8664947c","_id":"references/60c244007723bebd8664947c","_rev":"_cfFk2ea---","tei":"\n\t\n\t\tRecognition of transmembrane helices by the endoplasmic reticulum translocon\n\t\t\n\t\t\tTaraHessa\n\t\t\n\t\t\n\t\t\tHyunKim\n\t\t\n\t\t\n\t\t\tKarlBihlmaier\n\t\t\n\t\t\n\t\t\tCarolinaLundin\n\t\t\n\t\t\n\t\t\tJorritBoekel\n\t\t\n\t\t\n\t\t\tHelenaAndersson\n\t\t\n\t\t\n\t\t\tIngmarieNilsson\n\t\t\n\t\t\n\t\t\tStephenHWhite\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t10.1038/nature03216\n\t\t15674282\n\t\tark:/67375/GT4-MQ83TFP6-6\n\t\t505824C86BCB61F9BD35CA8CC21A4BF360681D48\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t433\n\t\t\t7024\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c244007723bebd86649475"},"refKey":33},
{"_key":"60c244007723bebd8664947d","_id":"references/60c244007723bebd8664947d","_rev":"_cfFk2em---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJjaArmenteros\n\t\t\n\t\t\n\t\t\tKDTsirigos\n\t\t\n\t\t\n\t\t\tCKSønderby\n\t\t\n\t\t\n\t\t\tTNPetersen\n\t\t\n\t\t\n\t\t\tOWinther\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGHeijne\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c244007723bebd86649475"},"refKey":6},
{"_key":"60c244237723bebd866494a5","_id":"references/60c244237723bebd866494a5","_rev":"_cfFk2eu---","tei":"\n\t\n\t\tThe neighbor-joining method: a new for phylogenetic trees\n\t\t\n\t\t\tNSaitou\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c244237723bebd866494a4"},"refKey":17},
{"_key":"60c244667723bebd866494d2","_id":"references/60c244667723bebd866494d2","_rev":"_cfFk2e6---","tei":"\n\t\n\t\tClustVis: a web tool for visualizing clustering of multivariate data using Principal Component Analysis and heatmap\n\t\t\n\t\t\tTaunoMetsalu\n\t\t\n\t\t\n\t\t\tJaakVilo\n\t\t\t0000-0001-5604-4107\n\t\t\n\t\t10.1093/nar/gkv468\n\t\t25969447\n\t\tPMC4489295\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c244667723bebd866494d1"},"refKey":43},
{"_key":"60c244a37723bebd86649500","_id":"references/60c244a37723bebd86649500","_rev":"_cfFk2fG---","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 1. Method and Assessment of Docking Accuracy\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tJLBanks\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\t\n\t\t\tJJKlicic\n\t\t\n\t\n\t\n\t\tJ Med Chem\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c244a37723bebd866494ff"},"refKey":67},
{"_key":"60c244a37723bebd86649501","_id":"references/60c244a37723bebd86649501","_rev":"_cfFk2fO---","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 2. Enrichment Factors in Database Screening\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tHSBeard\n\t\t\n\t\t\n\t\t\tLLFrye\n\t\t\n\t\n\t\n\t\tJ Med Chem\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c244a37723bebd866494ff"},"refKey":68},
{"_key":"60c244a37723bebd86649502","_id":"references/60c244a37723bebd86649502","_rev":"_cfFk2fa---","tei":"\n\t\n\t\tProtein NMR Structure Determination with Automated NOE Assignment Using the New Software CANDID and the Torsion Angle Dynamics Algorithm DYANA\n\t\t\n\t\t\tTorstenHerrmann\n\t\t\n\t\t\n\t\t\tPeterGüntert\n\t\t\n\t\t\n\t\t\tKurtWüthrich\n\t\t\n\t\t10.1016/s0022-2836(02)00241-3\n\t\t12051947\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t319\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c244a37723bebd866494ff"},"refKey":61},
{"_key":"60c244a37723bebd86649503","_id":"references/60c244a37723bebd86649503","_rev":"_cfFk2fm---","tei":"\n\t\n\t\tAutomated NMR Structure Calculation With CYANA\n\t\t\n\t\t\tPGuntert\n\t\t\n\t\t10.1385/1-59259-809-9:353\n\t\t15318003\n\t\n\t\n\t\tProtein NMR Techniques\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t2004\n\t\t\t278\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c244a37723bebd866494ff"},"refKey":62},
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{"_key":"60c244b97723bebd8664951b","_id":"references/60c244b97723bebd8664951b","_rev":"_cfFk2gS---","tei":"\n\t\n\t\tLipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c244b97723bebd8664951a"},"refKey":3},
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{"_key":"60c244b97723bebd8664951d","_id":"references/60c244b97723bebd8664951d","_rev":"_cfFk2gm---","tei":"\n\t\n\t\tEMBOSS: the European Molecular Biology Open Software Suite\n\t\t\n\t\t\tPRice\n\t\t\n\t\t\n\t\t\tILongden\n\t\t\n\t\t\n\t\t\tABleasby\n\t\t\n\t\n\t\n\t\tTrends Genet\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c244b97723bebd8664951a"},"refKey":5},
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{"_key":"60c244c07723bebd8664956b","_id":"references/60c244c07723bebd8664956b","_rev":"_cfFk2h----","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c244c07723bebd8664956a"},"refKey":4},
{"_key":"60c244c07723bebd8664956c","_id":"references/60c244c07723bebd8664956c","_rev":"_cfFk2hK---","tei":"\n\t\n\t\tSimulate_PCR for amplicon prediction and annotation from multiplex, degenerate primers and probes\n\t\t\n\t\t\tSheaNGardner\n\t\t\n\t\t\n\t\t\tTomSlezak\n\t\t\n\t\t10.1186/1471-2105-15-237\n\t\t25005023\n\t\tPMC4226945\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t237\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c244c07723bebd8664956a"},"refKey":6},
{"_key":"60c244c37723bebd8664957d","_id":"references/60c244c37723bebd8664957d","_rev":"_cfFk2hW---","tei":"\n\t\n\t\tErratum: Corrigendum: Joint analysis is more efficient than replication-based analysis for two-stage genome-wide association studies\n\t\t\n\t\t\tAndrewDSkol\n\t\t\n\t\t\n\t\t\tLauraJScott\n\t\t\n\t\t\n\t\t\tGonçaloRAbecasis\n\t\t\n\t\t\n\t\t\tMichaelBoehnke\n\t\t\n\t\t10.1038/ng0306-390\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t38\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c244c37723bebd8664957c"},"refKey":25},
{"_key":"60c2450c7723bebd866495a5","_id":"references/60c2450c7723bebd866495a5","_rev":"_cfFk2he---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. U. S. A\n\t\t\n\t\t\t102\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2450c7723bebd866495a4"},"refKey":39},
{"_key":"60c2450c7723bebd866495a6","_id":"references/60c2450c7723bebd866495a6","_rev":"_cfFk2hq---","tei":"\n\t\n\t\tNetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis\n\t\t\n\t\t\tGuangyanZhou\n\t\t\n\t\t\n\t\t\tOthmanSoufan\n\t\t\n\t\t\n\t\t\tJessicaEwald\n\t\t\n\t\t\n\t\t\tRobertE WHancock\n\t\t\n\t\t\n\t\t\tNiladriBasu\n\t\t\n\t\t\n\t\t\tJianguoXia\n\t\t\t0000-0003-2040-2624\n\t\t\n\t\t10.1093/nar/gkz240\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2450c7723bebd866495a4"},"refKey":29},
{"_key":"60c2450c7723bebd866495a7","_id":"references/60c2450c7723bebd866495a7","_rev":"_cfFk2h2---","tei":"\n\t\n\t\tINMEX—a web-based tool for integrative meta-analysis of expression data\n\t\t\n\t\t\tJianguoXia\n\t\t\n\t\t\n\t\t\tChristopherDFjell\n\t\t\n\t\t\n\t\t\tMatthewLMayer\n\t\t\n\t\t\n\t\t\tOlgaMPena\n\t\t\n\t\t\n\t\t\tDavidSWishart\n\t\t\n\t\t\n\t\t\tRobertE WHancock\n\t\t\n\t\t10.1093/nar/gkt338\n\t\t23766290\n\t\tPMC3692077\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue)\n\n","document":{"$oid":"60c2450c7723bebd866495a4"},"refKey":30},
{"_key":"60c2450c7723bebd866495a8","_id":"references/60c2450c7723bebd866495a8","_rev":"_cfFk2iC---","tei":"\n\t\n\t\tMERS-CoV Accessory ORFs Play Key Role for Infection and Pathogenesis\n\t\t\n\t\t\tVineetDMenachery\n\t\t\n\t\t\n\t\t\tHughDMitchell\n\t\t\n\t\t\n\t\t\tAdamSCockrell\n\t\t\n\t\t\n\t\t\tLisaEGralinski\n\t\t\n\t\t\n\t\t\tBoydLYount\n\t\t\n\t\t\n\t\t\tRachelLGraham\n\t\t\n\t\t\n\t\t\tEileenTMcanarney\n\t\t\n\t\t\n\t\t\tMadelineGDouglas\n\t\t\n\t\t\n\t\t\tTrevorScobey\n\t\t\n\t\t\n\t\t\tAnneBeall\n\t\t\n\t\t\n\t\t\tKennethDinnon\n\t\t\n\t\t\n\t\t\tJacobFKocher\n\t\t\n\t\t\n\t\t\tAndrewEHale\n\t\t\n\t\t\n\t\t\tKellyGStratton\n\t\t\n\t\t\n\t\t\tKatrinaMWaters\n\t\t\n\t\t\n\t\t\tRalphSBaric\n\t\t\n\t\t10.1128/mbio.00665-17\n\t\t28830941\n\t\tPMC5565963\n\t\t\n\t\n\t\n\t\tmBio\n\t\tmBio\n\t\t2150-7511\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c2450c7723bebd866495a4"},"refKey":40},
{"_key":"60c2450c7723bebd866495a9","_id":"references/60c2450c7723bebd866495a9","_rev":"_cfFk2iO---","tei":"\n\t\n\t\tRelease of Severe Acute Respiratory Syndrome Coronavirus Nuclear Import Block Enhances Host Transcription in Human Lung Cells\n\t\t\n\t\t\tACSims\n\t\t\n\t\t\n\t\t\tSCTilton\n\t\t\n\t\t\n\t\t\tVDMenachery\n\t\t\n\t\t\n\t\t\tLEGralinski\n\t\t\n\t\t\n\t\t\tASchafer\n\t\t\n\t\t\n\t\t\tMMMatzke\n\t\t\n\t\t\n\t\t\tBWebb-Robertson\n\t\t\n\t\t\n\t\t\tJChang\n\t\t\n\t\t\n\t\t\tMLLuna\n\t\t\n\t\t\n\t\t\tCELong\n\t\t\n\t\t\n\t\t\tAKShukla\n\t\t\n\t\t\n\t\t\tARBankhead\n\t\t\n\t\t\n\t\t\tSEBurkett\n\t\t\n\t\t\n\t\t\tGZornetzer\n\t\t\n\t\t\n\t\t\tCTseng\n\t\t\n\t\t\n\t\t\tTOMetz\n\t\t\n\t\t\n\t\t\tRPickles\n\t\t\n\t\t\n\t\t\tSMcweeney\n\t\t\n\t\t\n\t\t\tRDSmith\n\t\t\n\t\t\n\t\t\tMGKatze\n\t\t\n\t\t\n\t\t\tKMWaters\n\t\t\n\t\t\n\t\t\tRSBaric\n\t\t\n\t\t10.1128/jvi.02520-12\n\t\t23365422\n\t\tPMC3624188\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJournal of Virology\n\t\t0022-538X\n\t\t\n\t\t\t87\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c2450c7723bebd866495a4"},"refKey":41},
{"_key":"60c2450c7723bebd866495aa","_id":"references/60c2450c7723bebd866495aa","_rev":"_cfFk2ia---","tei":"\n\t\n\t\tMetascape provides a biologist-oriented resource for the analysis of systems-level datasets\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tLPache\n\t\t\n\t\n\t\n\t\tNat. Commun\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t1523\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2450c7723bebd866495a4"},"refKey":37},
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{"_key":"60c2450c7723bebd866495ad","_id":"references/60c2450c7723bebd866495ad","_rev":"_cfFk2i6---","tei":"\n\t\n\t\tBioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2450c7723bebd866495a4"},"refKey":44},
{"_key":"60c2450c7723bebd866495ae","_id":"references/60c2450c7723bebd866495ae","_rev":"_cfFk2jG---","tei":"\n\t\n\t\tclusterProfiler: an R package for comparing biological themes among gene clusters\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tLGWang\n\t\t\n\t\t\n\t\t\tYHan\n\t\t\n\t\t\n\t\t\tQYHe\n\t\t\n\t\n\t\n\t\tOMICS\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2450c7723bebd866495a4"},"refKey":36},
{"_key":"60c2450f7723bebd866495dd","_id":"references/60c2450f7723bebd866495dd","_rev":"_cfFk2jO---","tei":"\n\t\n\t\tInteractive Theorem Proving and Program Development\n\t\t\n\t\t\tYvesBertot\n\t\t\n\t\t\n\t\t\tPierreCastéran\n\t\t\n\t\t10.1007/978-3-662-07964-5\n\t\t\n\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\n\t\n\n","document":{"$oid":"60c2450f7723bebd866495dc"},"refKey":26},
{"_key":"60c2450f7723bebd866495de","_id":"references/60c2450f7723bebd866495de","_rev":"_cfFk2ja---","tei":"\n\t\n\t\tThe calculus of constructions\n\t\t\n\t\t\tThierryCoquand\n\t\t\n\t\t\n\t\t\tGérardHuet\n\t\t\n\t\t10.1016/0890-5401(88)90005-3\n\t\n\t\n\t\tInformation and Computation\n\t\tInformation and Computation\n\t\t0890-5401\n\t\t\n\t\t\t76\n\t\t\t2-3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2450f7723bebd866495dc"},"refKey":39},
{"_key":"60c2450f7723bebd866495df","_id":"references/60c2450f7723bebd866495df","_rev":"_cfFk2jm---","tei":"\n\t\n\t\tThe Coq development team: The Coq proof assistant\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tOnline; accessed February 22, 2020\n\n","document":{"$oid":"60c2450f7723bebd866495dc"},"refKey":124},
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{"_key":"60c2454d7723bebd8664961c","_id":"references/60c2454d7723bebd8664961c","_rev":"_cfFk2kS---","tei":"\n\t\n\t\tSpatial disease clusters: Detection and inference\n\t\t\n\t\t\tMartinKulldorff\n\t\t\n\t\t\n\t\t\tNevilleNagarwalla\n\t\t\n\t\t10.1002/sim.4780140809\n\t\t7644860\n\t\tark:/67375/WNG-0PT99DZZ-R\n\t\t967258AB3319AFAEEFC5FCFD17F39298C201AB6E\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t1097-0258\n\t\t\n\t\t\t14\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2454d7723bebd8664961b"},"refKey":10},
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{"_key":"60c245717723bebd8664965f","_id":"references/60c245717723bebd8664965f","_rev":"_cfFk2le---","tei":"\n\t\n\t\t\n\t\t\tDEShaw Research\n\t\t\n\t\tShaw Research Desmond Molecular Dynamics System; Maestro-Desmond Interoperability Tools; Schrödinger, LLC\n\t\t\t\tNew York, NY, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c245717723bebd8664965b"},"refKey":36},
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{"_key":"60c245cb7723bebd866496af","_id":"references/60c245cb7723bebd866496af","_rev":"_cfFk2mK---","tei":"\n\t\n\t\tSWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling\n\t\t\n\t\t\tNGuex\n\t\t\n\t\t\n\t\t\tMCPeitsch\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c245cb7723bebd866496ae"},"refKey":36},
{"_key":"60c245cb7723bebd866496b0","_id":"references/60c245cb7723bebd866496b0","_rev":"_cfFk2mS---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\n\t\n\t\tMol Syst Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c245cb7723bebd866496ae"},"refKey":33},
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{"_key":"60c246027723bebd866496da","_id":"references/60c246027723bebd866496da","_rev":"_cfFk2nW---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMVKuleshov\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c246027723bebd866496d8"},"refKey":7},
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{"_key":"60c246417723bebd86649712","_id":"references/60c246417723bebd86649712","_rev":"_cfFk2n2---","tei":"\n\t\n\t\tFast parallel algorithms for short-range molecular dynamics\n\t\t\n\t\t\tSPlimpton\n\t\t\n\t\t10.2172/10176421\n\t\t\n\t\n\t\n\t\tJ. Comput. Phys\n\t\t\n\t\t\t117\n\t\t\t\n\t\t\t\n\t\t\tOffice of Scientific and Technical Information (OSTI)\n\t\t\n\t\n\n","document":{"$oid":"60c246417723bebd86649711"},"refKey":35},
{"_key":"60c2464f7723bebd8664971d","_id":"references/60c2464f7723bebd8664971d","_rev":"_cfFk2o----","tei":"\n\t\n\t\tSome new results for optimal ternary linear codes\n\t\t\n\t\t\tIBouyukliev\n\t\t\n\t\t\n\t\t\tJSimonis\n\t\t\n\t\t10.1109/18.992814\n\t\n\t\n\t\tIEEE Transactions on Information Theory\n\t\tIEEE Trans. Inform. Theory\n\t\t0018-9448\n\t\t\n\t\t\t48\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c2464f7723bebd8664971c"},"refKey":2},
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{"_key":"60c246a77723bebd86649780","_id":"references/60c246a77723bebd86649780","_rev":"_cfFk2oq---","tei":"\n\t\n\t\tFoldX as Protein Engineering Tool: Better Than Random Based Approaches?\n\t\t\n\t\t\tOliverBuß\n\t\t\n\t\t\n\t\t\tJensRudat\n\t\t\n\t\t\n\t\t\tKatrinOchsenreither\n\t\t\n\t\t10.1016/j.csbj.2018.01.002\n\t\t30275935\n\t\tPMC6158775\n\t\t\n\t\n\t\n\t\tComputational and Structural Biotechnology Journal\n\t\tComputational and Structural Biotechnology Journal\n\t\t2001-0370\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c246a77723bebd8664977c"},"refKey":4},
{"_key":"60c246a77723bebd86649781","_id":"references/60c246a77723bebd86649781","_rev":"_cfFk2o2---","tei":"\n\t\n\t\tMore bang for your buck: Improved use of GPU nodes for GROMACS 2018\n\t\t\n\t\t\tCarstenKutzner\n\t\t\t0000-0002-8719-0307\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tMartinFechner\n\t\t\n\t\t\n\t\t\tAnsgarEsztermann\n\t\t\n\t\t\n\t\t\tBertLGroot\n\t\t\n\t\t\n\t\t\tHelmutGrubmüller\n\t\t\n\t\t10.1002/jcc.26011\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ Comput Chem\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t40\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c246a77723bebd8664977c"},"refKey":21},
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{"_key":"60c247137723bebd86649824","_id":"references/60c247137723bebd86649824","_rev":"_cfFk2qC---","tei":"\n\t\n\t\tThe genotype A specific primers for amplifying and sequencing the whole genome of Banna virus\n\t\t\n\t\t\tHLiu\n\t\t\n\t\t\n\t\t\tGDLiang\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tin Chinese\n\n","document":{"$oid":"60c247137723bebd86649823"},"refKey":13},
{"_key":"60c247137723bebd86649825","_id":"references/60c247137723bebd86649825","_rev":"_cfFk2qO---","tei":"\n\t\n\t\tComplete sequence determination and genetic analysis of Banna virus and Kadipiro virus: proposal for assignment to a new genus (Seadornavirus) within the family Reoviridae\n\t\t\n\t\t\tHoussamAttoui\n\t\t\n\t\t\n\t\t\tPhilippeDe Micco\n\t\t\n\t\t\n\t\t\tXavierDe Lamballerie\n\t\t\n\t\t\n\t\t\tFrédériqueBilloir\n\t\t\n\t\t\n\t\t\tPhilippeBiagini\n\t\t\n\t\t10.1099/0022-1317-81-6-1507\n\t\t10811934\n\t\n\t\n\t\tJournal of General Virology\n\t\t0022-1317\n\t\t1465-2099\n\t\t\n\t\t\t81\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tMicrobiology Society\n\t\t\n\t\n\n","document":{"$oid":"60c247137723bebd86649823"},"refKey":1},
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{"_key":"60c247137723bebd86649827","_id":"references/60c247137723bebd86649827","_rev":"_cfFk2qi---","tei":"\n\t\n\t\tIsolation, identification and genomic characterization of the Asian lineage Zika virus imported to China\n\t\t\n\t\t\tYong-QiangDeng\n\t\t\n\t\t\n\t\t\tHuiZhao\n\t\t\n\t\t\n\t\t\tXiao-FengLi\n\t\t\n\t\t\n\t\t\tNa-NaZhang\n\t\t\n\t\t\n\t\t\tZhong-YuLiu\n\t\t\n\t\t\n\t\t\tTaoJiang\n\t\t\n\t\t\n\t\t\tDa-YongGu\n\t\t\n\t\t\n\t\t\tLeiShi\n\t\t\n\t\t\n\t\t\tJian-AnHe\n\t\t\n\t\t\n\t\t\tHong-JiangWang\n\t\t\n\t\t\n\t\t\tZhao-ZengSun\n\t\t\n\t\t\n\t\t\tQingYe\n\t\t\n\t\t\n\t\t\tDong-YangXie\n\t\t\n\t\t\n\t\t\tWu-ChunCao\n\t\t\n\t\t\n\t\t\tCheng-FengQin\n\t\t\n\t\t10.1007/s11427-016-5043-4\n\t\t26993654\n\t\t\n\t\n\t\n\t\tScience China Life Sciences\n\t\tSci. China Life Sci.\n\t\t1674-7305\n\t\t1869-1889\n\t\t\n\t\t\t59\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c247137723bebd86649823"},"refKey":7},
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{"_key":"60c2473c7723bebd86649847","_id":"references/60c2473c7723bebd86649847","_rev":"_cfFk2q6---","tei":"\n\t\n\t\tA phenomenological template family for black-hole coalescence waveforms\n\t\t\n\t\t\tPAjith\n\t\t\n\t\t\n\t\t\tSBabak\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tMHewitson\n\t\t\n\t\t\n\t\t\tBKrishnan\n\t\t\n\t\t\n\t\t\tJTWhelan\n\t\t\n\t\t\n\t\t\tBBrügmann\n\t\t\n\t\t\n\t\t\tPDiener\n\t\t\n\t\t\n\t\t\tJGonzalez\n\t\t\n\t\t\n\t\t\tMHannam\n\t\t\n\t\t\n\t\t\tSHusa\n\t\t\n\t\t\n\t\t\tMKoppitz\n\t\t\n\t\t\n\t\t\tDPollney\n\t\t\n\t\t\n\t\t\tLRezzolla\n\t\t\n\t\t\n\t\t\tLSantamaría\n\t\t\n\t\t\n\t\t\tAMSintes\n\t\t\n\t\t\n\t\t\tUSperhake\n\t\t\n\t\t\n\t\t\tJThornburg\n\t\t\n\t\t10.1088/0264-9381/24/19/s31\n\t\tarXiv:0704.3764\n\t\tS0264-9381(07)49454-0\n\t\tark:/67375/0T8-TVNMCDDH-5\n\t\t5E395FC544A2A6B4822ADDAB9B42C1AF2FBEBA34\n\t\t\n\t\n\t\n\t\tClassical and Quantum Gravity\n\t\tClass. Quantum Grav.\n\t\t0264-9381\n\t\t1361-6382\n\t\t\n\t\t\t24\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tIOP Publishing\n\t\t\n\t\n\tgr-qc\n\n","document":{"$oid":"60c2473c7723bebd86649845"},"refKey":24},
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{"_key":"60c247f77723bebd866498c0","_id":"references/60c247f77723bebd866498c0","_rev":"_cfFk2sG---","tei":"\n\t\n\t\tIntroduction to the Analysis of Environmental Sequences: Metagenomics with MEGAN\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tSuparnaMitra\n\t\t\n\t\t10.1007/978-1-61779-585-5_17\n\t\t22399469\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t21\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c247f77723bebd866498bf"},"refKey":16},
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{"_key":"60c248077723bebd866498dc","_id":"references/60c248077723bebd866498dc","_rev":"_cfFk2su---","tei":"\n\t\n\t\tThe Stanford CoreNLP natural language processing toolkit\n\t\t\n\t\t\tCDManning\n\t\t\n\t\t\n\t\t\tMSurdeanu\n\t\t\n\t\t\n\t\t\tJBauer\n\t\t\n\t\t\n\t\t\tJFinkel\n\t\t\n\t\t\n\t\t\tSJBethard\n\t\t\n\t\t\n\t\t\tDMcclosky\n\t\t\n\t\n\t\n\t\tAssociation for Computational Linguistics (ACL) System Demonstrations\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c248077723bebd866498db"},"refKey":15},
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{"_key":"60c248297723bebd866498f4","_id":"references/60c248297723bebd866498f4","_rev":"_cfFk2tO---","tei":"\n\t\n\t\tIntroduction to Software for Chemical Engineers\n\t\t\n\t\t\tFMartin\n\t\t\n\t\t10.1201/9780429451010\n\t\t\n\t\n\t\n\t\tJarrold Research Group-Software\n\t\t\n\t\t\t\n\t\t\tCRC Press\n\t\t\n\t\n\n","document":{"$oid":"60c248297723bebd866498f3"},"refKey":144},
{"_key":"60c248497723bebd86649908","_id":"references/60c248497723bebd86649908","_rev":"_cfFk2ta---","tei":"\n\t\n\t\tRapid evaluation and quality control of next generation sequencing data with FaQCs\n\t\t\n\t\t\tChien-ChiLo\n\t\t\n\t\t\n\t\t\tPatrickS GChain\n\t\t\n\t\t10.1186/s12859-014-0366-2\n\t\t25408143\n\t\tPMC4246454\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t366\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c248497723bebd86649907"},"refKey":56},
{"_key":"60c248497723bebd86649909","_id":"references/60c248497723bebd86649909","_rev":"_cfFk2tm---","tei":"\n\t\n\t\t(which was not certified by peer review) is the author/funder. All rights reserved\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\t\n\t\t\tAVPyshkin\n\t\t\n\t\t\n\t\t\tAVSirotkin\n\t\t\n\t\t\n\t\t\tNVyahhi\n\t\t\n\t\t\n\t\t\tGTesler\n\t\t\n\t\t\n\t\n\tNo reuse allowed without permission\n\n","document":{"$oid":"60c248497723bebd86649907"},"refKey":57},
{"_key":"60c248677723bebd8664995e","_id":"references/60c248677723bebd8664995e","_rev":"_cfFk2tu---","tei":"\n\t\n\t\tThe GNU Scientific Library documentation\n\t\t\n\t\t\tMGalassi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c248677723bebd8664995d"},"refKey":4},
{"_key":"60c248827723bebd8664997f","_id":"references/60c248827723bebd8664997f","_rev":"_cfFk2t6---","tei":"\n\t\n\t\tCHARMM general force field: a force field for drug-like molecules compatible with the CHARMM all-atom additive biological force fields\n\t\t\n\t\t\tKVanommeslaeghe\n\t\t\n\t\t\n\t\t\tEHatcher\n\t\t\n\t\t\n\t\t\tCAcharya\n\t\t\n\t\t\n\t\t\tSKundu\n\t\t\n\t\t\n\t\t\tSZhong\n\t\t\n\t\t\n\t\t\tJShim\n\t\t\n\t\t\n\t\t\tDarianEGuvench\n\t\t\n\t\t\n\t\t\tOLopes\n\t\t\n\t\t\n\t\t\tPVorobyov\n\t\t\n\t\t\n\t\t\tIMackerell\n\t\t\n\t\t\n\t\t\tAD\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t31\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c248827723bebd8664997e"},"refKey":36},
{"_key":"60c248827723bebd86649980","_id":"references/60c248827723bebd86649980","_rev":"_cfFk2uG---","tei":"\n\t\n\t\tSwissParam: a fast force field generation tool for small organic molecules\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tMACuendet\n\t\t\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c248827723bebd8664997e"},"refKey":39},
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{"_key":"60c248987723bebd86649995","_id":"references/60c248987723bebd86649995","_rev":"_cfFk2ue---","tei":"\n\t\n\t\tCannabinoid Attenuation of Intestinal Inflammation in Chronic SIV-Infected Rhesus Macaques Involves T Cell Modulation and Differential Expression of Micro-RNAs and Pro-inflammatory Genes\n\t\t\n\t\t\tVinayKumar\n\t\t\n\t\t\n\t\t\tWorkinehTorben\n\t\t\n\t\t\n\t\t\tJoshuaMansfield\n\t\t\n\t\t\n\t\t\tXavierAlvarez\n\t\t\n\t\t\n\t\t\tCurtisVande Stouwe\n\t\t\n\t\t\n\t\t\tJianLi\n\t\t\n\t\t\n\t\t\tSiddappaNByrareddy\n\t\t\n\t\t\n\t\t\tPeterJDidier\n\t\t\n\t\t\n\t\t\tBapiPahar\n\t\t\n\t\t\n\t\t\tPatriciaEMolina\n\t\t\n\t\t\n\t\t\tMaheshMohan\n\t\t\n\t\t10.3389/fimmu.2019.00914\n\t\t\n\t\n\t\n\t\tFrontiers in Immunology\n\t\tFront. Immunol.\n\t\t1664-3224\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c248987723bebd86649993"},"refKey":24},
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{"_key":"60c248987723bebd86649997","_id":"references/60c248987723bebd86649997","_rev":"_cfFk2u2---","tei":"\n\t\n\t\tLongitudinal Examination of the Intestinal Lamina Propria Cellular Compartment of Simian Immunodeficiency Virus-Infected Rhesus Macaques Provides Broader and Deeper Insights into the Link between Aberrant MicroRNA Expression and Persistent Immune Activation\n\t\t\n\t\t\tVinayKumar\n\t\t\n\t\t\n\t\t\tWorkinehTorben\n\t\t\n\t\t\n\t\t\tCarysSKenway\n\t\t\n\t\t\n\t\t\tFaithRSchiro\n\t\t\n\t\t\n\t\t\tMaheshMohan\n\t\t\n\t\t10.1128/jvi.00189-16\n\t\t26937033\n\t\tPMC4859716\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJ. Virol.\n\t\t0022-538X\n\t\t1098-5514\n\t\t\n\t\t\t90\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c248987723bebd86649993"},"refKey":33},
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{"_key":"60c24a557723bebd86649b18","_id":"references/60c24a557723bebd86649b18","_rev":"_cfFk2zy---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c24a557723bebd86649b17"},"refKey":179},
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{"_key":"60c24a777723bebd86649b72","_id":"references/60c24a777723bebd86649b72","_rev":"_cfFk20y---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24a777723bebd86649b6e"},"refKey":9},
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{"_key":"60c24ac27723bebd86649bd7","_id":"references/60c24ac27723bebd86649bd7","_rev":"_cfFk22S---","tei":"\n\t\n\t\tIntégration des biais de langage à l'algorithme générer-et-tester-Contributions à l'apprentissage disjonctif\n\t\t\n\t\t\tFTorre\n\t\t\n\t\t\n\t\t\t\n\t\t\tOrsay\n\t\t\n\t\t\n\t\t\tLRI, Université Paris-Sud\n\t\t\n\t\n\tPhD thesis\n\n","document":{"$oid":"60c24ac27723bebd86649bd6"},"refKey":37},
{"_key":"60c24ac27723bebd86649bd8","_id":"references/60c24ac27723bebd86649bd8","_rev":"_cfFk22e---","tei":"\n\t\n\t\tSome Elements of Machine Learning\n\t\t\n\t\t\tJRQuinlan\n\t\t\n\t\t10.1007/3-540-48751-4_3\n\t\tark:/67375/HCB-8BS3ZCGX-B\n\t\tFA506B3C0B19C1588A6C29A804E746019521D6C3\n\t\n\t\n\t\tInductive Logic Programming\n\t\t\t\tSan Fransisco\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24ac27723bebd86649bd6"},"refKey":33},
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{"_key":"60c24b977723bebd86649c83","_id":"references/60c24b977723bebd86649c83","_rev":"_cfFk232---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c24b977723bebd86649c82"},"refKey":56},
{"_key":"60c24b977723bebd86649c84","_id":"references/60c24b977723bebd86649c84","_rev":"_cfFk24C---","tei":"\n\t\n\t\tIntegrated Weighted Correlation Network Analysis of Mouse Liver Gene Expression Data\n\t\t\n\t\t\tSteveHorvath\n\t\t\n\t\t10.1007/978-1-4419-8819-5_12\n\t\n\t\n\t\tWeighted Network Analysis\n\t\t\t\tNew York, NY, USA\n\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24b977723bebd86649c82"},"refKey":62},
{"_key":"60c24b977723bebd86649c85","_id":"references/60c24b977723bebd86649c85","_rev":"_cfFk24O---","tei":"\n\t\n\t\tBiological Network Exploration with Cytoscape 3\n\t\t\n\t\t\tGangSu\n\t\t\n\t\t\n\t\t\tJohnHMorris\n\t\t\n\t\t\n\t\t\tBarryDemchak\n\t\t\n\t\t\n\t\t\tGaryDBader\n\t\t\n\t\t10.1002/0471250953.bi0813s47\n\t\t25199793\n\t\tPMC4174321\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t\n\t\t\t47\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c24b977723bebd86649c82"},"refKey":65},
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{"_key":"60c24b977723bebd86649c87","_id":"references/60c24b977723bebd86649c87","_rev":"_cfFk24i---","tei":"\n\t\n\t\tTranscript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown\n\t\t\n\t\t\tMihaelaPertea\n\t\t\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tGeoMPertea\n\t\t\n\t\t\n\t\t\tJeffreyTLeek\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nprot.2016.095\n\t\t27560171\n\t\tPMC5032908\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t11\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c24b977723bebd86649c82"},"refKey":57},
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{"_key":"60c24c087723bebd86649d15","_id":"references/60c24c087723bebd86649d15","_rev":"_cfFk26a---","tei":"\n\t\n\t\tImproved tools for biological sequence comparison.\n\t\t\n\t\t\tWRPearson\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t10.1073/pnas.85.8.2444\n\t\t3162770\n\t\tPMC280013\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t85\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c24c087723bebd86649d0f"},"refKey":36},
{"_key":"60c24c087723bebd86649d16","_id":"references/60c24c087723bebd86649d16","_rev":"_cfFk26m---","tei":"\n\t\n\t\tComparative Protein Structure Modeling of Genes and Genomes\n\t\t\n\t\t\tMarcAMartí-Renom\n\t\t\n\t\t\n\t\t\tAshleyCStuart\n\t\t\n\t\t\n\t\t\tAndrásFiser\n\t\t\n\t\t\n\t\t\tRobertoSánchez\n\t\t\n\t\t\n\t\t\tFranciscoMelo\n\t\t\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t10.1146/annurev.biophys.29.1.291\n\t\t10940251\n\t\t\n\t\t\n\t\n\t\n\t\tAnnual Review of Biophysics and Biomolecular Structure\n\t\tAnnu. Rev. Biophys. Biomol. Struct.\n\t\t1056-8700\n\t\t1545-4266\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAnnual Reviews\n\t\t\n\t\n\n","document":{"$oid":"60c24c087723bebd86649d0f"},"refKey":37},
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{"_key":"60c24c087723bebd86649d18","_id":"references/60c24c087723bebd86649d18","_rev":"_cfFk27----","tei":"\n\t\n\t\tDesign of a peptide-based subunit vaccine against novel coronavirus SARS-CoV-2\n\t\t\n\t\t\tPKalita\n\t\t\n\t\t\n\t\t\tAKPadhi\n\t\t\n\t\t\n\t\t\tKZhang\n\t\t\n\t\t\n\t\t\tTTripathi\n\t\t\n\t\t104236. 2020/ 08/01/\n\t\n\t\n\t\tMicrob Pathog\n\t\t\n\t\t\t145\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24c087723bebd86649d0f"},"refKey":14},
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{"_key":"60c24ca17723bebd86649e20","_id":"references/60c24ca17723bebd86649e20","_rev":"_cfFk292---","tei":"\n\t\n\t\tAnalysis Tool Web Services from the EMBL-EBI\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24ca17723bebd86649e1f"},"refKey":54},
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{"_key":"60c24cde7723bebd86649e5c","_id":"references/60c24cde7723bebd86649e5c","_rev":"_cfFk3_K---","tei":"\n\t\n\t\tDeciphering key features in protein structures with the new ENDscript server\n\t\t\n\t\t\tXRobert\n\t\t\n\t\t\n\t\t\tPGouet\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24cde7723bebd86649e58"},"refKey":61},
{"_key":"60c24cde7723bebd86649e5d","_id":"references/60c24cde7723bebd86649e5d","_rev":"_cfFk3_W---","tei":"\n\t\n\t\tAutomated macromolecular model building for X-ray crystallography using ARP/wARP version 7\n\t\t\n\t\t\tGLanger\n\t\t\n\t\t\n\t\t\tSXCohen\n\t\t\n\t\t\n\t\t\tVSLamzin\n\t\t\n\t\t\n\t\t\tAPerrakis\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24cde7723bebd86649e58"},"refKey":38},
{"_key":"60c24cde7723bebd86649e5e","_id":"references/60c24cde7723bebd86649e5e","_rev":"_cfFk3_i---","tei":"\n\t\n\t\tMacromolecular phasing with SHELXE\n\t\t\n\t\t\tGMSheldrick\n\t\t\n\t\t10.1524/zkri.217.12.644.20662\n\t\n\t\n\t\tZeitschrift für Kristallographie - Crystalline Materials\n\t\t2194-4946\n\t\t2196-7105\n\t\t\n\t\t\t217\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tWalter de Gruyter GmbH\n\t\t\n\t\n\n","document":{"$oid":"60c24cde7723bebd86649e58"},"refKey":66},
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{"_key":"60c24cde7723bebd86649e60","_id":"references/60c24cde7723bebd86649e60","_rev":"_cfFk3_2---","tei":"\n\t\n\t\tHKL2MAP: a graphical user interface for macromolecular phasing withSHELXprograms\n\t\t\n\t\t\tThomasPape\n\t\t\n\t\t\n\t\t\tThomasRSchneider\n\t\t\n\t\t10.1107/s0021889804018047\n\t\tark:/67375/WNG-4C93X4RN-2\n\t\t27CF5B6E66F9D7CBEA158E134AE9F02D2A153F06\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t37\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c24cde7723bebd86649e58"},"refKey":56},
{"_key":"60c24cef7723bebd86649e81","_id":"references/60c24cef7723bebd86649e81","_rev":"_cfFk3AK---","tei":"\n\t\n\t\tDoGSiteScorer: a web server for automatic binding site prediction, analysis and druggability assessment\n\t\t\n\t\t\tAVolkamer\n\t\t\n\t\t\n\t\t\tDKuhn\n\t\t\n\t\t\n\t\t\tFRippmann\n\t\t\n\t\t\n\t\t\tMRarey\n\t\t\n\t\t10.1093/bioinformatics/bts310\n\t\t22628523\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c24cef7723bebd86649e80"},"refKey":259},
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{"_key":"60c24cfd7723bebd86649ea7","_id":"references/60c24cfd7723bebd86649ea7","_rev":"_cfFk3Ae---","tei":"\n\t\n\t\tA Modular Cloning System for Standardized Assembly of Multigene Constructs\n\t\t\n\t\t\tErnstWeber\n\t\t\n\t\t\n\t\t\tCarolaEngler\n\t\t\n\t\t\n\t\t\tRamonaGruetzner\n\t\t\n\t\t\n\t\t\tStefanWerner\n\t\t\n\t\t\n\t\t\tSylvestreMarillonnet\n\t\t\n\t\t10.1371/journal.pone.0016765\n\t\t22126803\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\te16765\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c24cfd7723bebd86649ea6"},"refKey":11},
{"_key":"60c24d127723bebd86649eb1","_id":"references/60c24d127723bebd86649eb1","_rev":"_cfFk3Aq---","tei":"\n\t\n\t\tThe I-TASSER Suite: protein structure and function prediction\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tRenxiangYan\n\t\t\n\t\t\n\t\t\tAmbrishRoy\n\t\t\n\t\t\n\t\t\tDongXu\n\t\t\n\t\t\n\t\t\tJonathanPoisson\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1038/nmeth.3213\n\t\t25549265\n\t\tPMC4428668\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c24d127723bebd86649eb0"},"refKey":38},
{"_key":"60c24d127723bebd86649eb2","_id":"references/60c24d127723bebd86649eb2","_rev":"_cfFk3A2---","tei":"\n\t\n\t\tCABS-flex 2.0: a web server for fast simulations of flexibility of protein structures\n\t\t\n\t\t\tAleksanderKuriata\n\t\t\n\t\t\n\t\t\tAleksandraMariaGierut\n\t\t\n\t\t\n\t\t\tTymoteuszOleniecki\n\t\t\n\t\t\n\t\t\tMaciejPawełCiemny\n\t\t\n\t\t\n\t\t\tAndrzejKolinski\n\t\t\n\t\t\n\t\t\tMateuszKurcinski\n\t\t\n\t\t\n\t\t\tSebastianKmiecik\n\t\t\n\t\t10.1093/nar/gky356\n\t\t29762700\n\t\tPMC6031000\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c24d127723bebd86649eb0"},"refKey":20},
{"_key":"60c24d127723bebd86649eb3","_id":"references/60c24d127723bebd86649eb3","_rev":"_cfFk3BC---","tei":"\n\t\n\t\tGRAMM-X public web server for protein-protein docking\n\t\t\n\t\t\tATovchigrechko\n\t\t\n\t\t\n\t\t\tIAVakser\n\t\t\n\t\t10.1093/nar/gkl206\n\t\t16845016\n\t\tPMC1538913\n\t\tark:/67375/HXZ-6BRZ0ML8-9\n\t\tEB3F32B5563C5B7C88AFB9F8A7D744FCDF8AC54D\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c24d127723bebd86649eb0"},"refKey":21},
{"_key":"60c24d127723bebd86649eb4","_id":"references/60c24d127723bebd86649eb4","_rev":"_cfFk3BS---","tei":"\n\t\n\t\tThe HDOCK server for integrated protein-protein docking\n\t\t\n\t\t\tYYan\n\t\t\n\t\t\n\t\t\tHTao\n\t\t\n\t\t\n\t\t\tJHe\n\t\t\n\t\t\n\t\t\tSYHuang\n\t\t\n\t\t10.1093/bioinformatics/btz740\n\t\n\t\n\t\tNature protocols\n\t\t\n\t\t\t2020\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24d127723bebd86649eb0"},"refKey":43},
{"_key":"60c24d127723bebd86649eb5","_id":"references/60c24d127723bebd86649eb5","_rev":"_cfFk3Be---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c24d127723bebd86649eb0"},"refKey":37},
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{"_key":"60c24dd37723bebd86649f91","_id":"references/60c24dd37723bebd86649f91","_rev":"_cfFk3E6---","tei":"\n\t\n\t\tThe Hydrologists Workbench: more than a scientific workflow tool\n\t\t\n\t\t\tPFitch\n\t\t\n\t\t\n\t\t\tJMPerraud\n\t\t\n\t\t\n\t\t\tSCuddy\n\t\t\n\t\t\n\t\t\tSSeaton\n\t\t\n\t\t\n\t\t\tQBai\n\t\t\n\t\t\n\t\t\tDHehir\n\t\t\n\t\t\n\t\t\tJSims\n\t\t\n\t\t\n\t\t\tLMerrin\n\t\t\n\t\t\n\t\t\tRAckland\n\t\t\n\t\t\n\t\t\tNHerron\n\t\t\n\t\t\n\t\n\t\n\t\tWater Information Research and Development Alliance: Science Symposium Proceedings\n\t\t\t\tMelbourne, Australia, CSIRO\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24dd37723bebd86649f89"},"refKey":19},
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{"_key":"60c24f9d7723bebd8664a167","_id":"references/60c24f9d7723bebd8664a167","_rev":"_cfFk3Lm---","tei":"\n\t\n\t\tAccurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ\n\t\t\n\t\t\tJCox\n\t\t\n\t\n\t\n\t\tMol. Cell. Proteomics\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24f9d7723bebd8664a166"},"refKey":16},
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{"_key":"60c24fde7723bebd8664a199","_id":"references/60c24fde7723bebd8664a199","_rev":"_cfFk3Mi---","tei":"\n\t\n\t\tIntroduction to Mediation, Moderation, and Conditional Process Analysis: A Regression-Based Approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford Press\n\t\t\tNew York, NY\n\t\t\n\t\n\n","document":{"$oid":"60c24fde7723bebd8664a198"},"refKey":34},
{"_key":"60c24fe77723bebd8664a1a0","_id":"references/60c24fe77723bebd8664a1a0","_rev":"_cfFk3Mq---","tei":"\n\t\n\t\tpycoQC, interactive quality control for Oxford Nanopore Sequencing\n\t\t\n\t\t\tAdrienLeger\n\t\t\t0000-0001-8772-6776\n\t\t\n\t\t\n\t\t\tTommasoLeonardi\n\t\t\t0000-0002-4449-1863\n\t\t\n\t\t10.21105/joss.01236\n\t\n\t\n\t\tJournal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t4\n\t\t\t34\n\t\t\t1236\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c24fe77723bebd8664a19f"},"refKey":15},
{"_key":"60c24fe77723bebd8664a1a1","_id":"references/60c24fe77723bebd8664a1a1","_rev":"_cfFk3M2---","tei":"\n\t\n\t\tA Greedy Algorithm for Aligning DNA Sequences\n\t\t\n\t\t\tZhengZhang\n\t\t\n\t\t\n\t\t\tScottSchwartz\n\t\t\n\t\t\n\t\t\tLukasWagner\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\t\n\t\t\t7\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c24fe77723bebd8664a19f"},"refKey":45},
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{"_key":"60c250127723bebd8664a1cf","_id":"references/60c250127723bebd8664a1cf","_rev":"_cfFk3Nu---","tei":"\n\t\n\t\tUsing AutoDock for Ligand-Receptor Docking\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/0471250953.bi0814s24\n\t\t19085980\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Bioinformatics\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\tUnit 8.14\n\n","document":{"$oid":"60c250127723bebd8664a1ce"},"refKey":204},
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{"_key":"60c2531f7723bebd8664a5fa","_id":"references/60c2531f7723bebd8664a5fa","_rev":"_cfFk3da---","tei":"\n\t\n\t\tMolecular replacement withMOLREP\n\t\t\n\t\t\tAVagin\n\t\t\n\t\t\n\t\t\tATeplyakov\n\t\t\n\t\t10.1107/97809553602060000843\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2531f7723bebd8664a5f5"},"refKey":42},
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{"_key":"60c253597723bebd8664a62f","_id":"references/60c253597723bebd8664a62f","_rev":"_cfFk3ea---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c253597723bebd8664a62a"},"refKey":37},
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{"_key":"60c2539f7723bebd8664a671","_id":"references/60c2539f7723bebd8664a671","_rev":"_cfFk3e6---","tei":"\n\t\n\t\t\n\t\t\tRTPennock\n\t\t\n\t\t\n\t\tAvida-ED website\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c2539f7723bebd8664a670"},"refKey":39},
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{"_key":"60c253a87723bebd8664a690","_id":"references/60c253a87723bebd8664a690","_rev":"_cfFk3fe---","tei":"\n\t\n\t\tComparison of core-genome MLST, coreSNP and PFGE methods for Klebsiella pneumoniae cluster analysis\n\t\t\n\t\t\tFGona\n\t\t\n\t\t\n\t\t\tFComandatore\n\t\t\n\t\t\n\t\t\tSBattaglia\n\t\t\n\t\t\n\t\t\tAPiazza\n\t\t\n\t\t\n\t\t\tATrovato\n\t\t\n\t\t\n\t\t\tGLorenzin\n\t\t\n\t\t\n\t\t\tPCichero\n\t\t\n\t\t\n\t\t\tABiancardi\n\t\t\n\t\t\n\t\t\tPNizzero\n\t\t\n\t\t\n\t\t\tMMoro\n\t\t\n\t\t\n\t\t\tDMCirillo\n\t\t\n\t\t10.1099/mgen.0.000347\n\t\t\n\t\n\t\n\t\tMicrob. Genomics\n\t\t\n\t\t\t6\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c253a87723bebd8664a68f"},"refKey":7},
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{"_key":"60c254187723bebd8664a6f3","_id":"references/60c254187723bebd8664a6f3","_rev":"_cfFk3gu---","tei":"\n\t\n\t\tComparison of mapping algorithms used in high-throughput sequencing: application to Ion Torrent data\n\t\t\n\t\t\tSégolèneCaboche\n\t\t\n\t\t\n\t\t\tChristopheAudebert\n\t\t\n\t\t\n\t\t\tYvesLemoine\n\t\t\n\t\t\n\t\t\tDavidHot\n\t\t\n\t\t10.1186/1471-2164-15-264\n\t\t24708189\n\t\tPMC4051166\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t264\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c254187723bebd8664a6f2"},"refKey":35},
{"_key":"60c254187723bebd8664a6f4","_id":"references/60c254187723bebd8664a6f4","_rev":"_cfFk3g6---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c254187723bebd8664a6f2"},"refKey":42},
{"_key":"60c2541f7723bebd8664a708","_id":"references/60c2541f7723bebd8664a708","_rev":"_cfFk3hG---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)--a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inf\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2541f7723bebd8664a707"},"refKey":14},
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{"_key":"60c254377723bebd8664a71c","_id":"references/60c254377723bebd8664a71c","_rev":"_cfFk3ha---","tei":"\n\t\n\t\tQIIME allows analysis of high-throughput community sequencing data\n\t\t\n\t\t\tJGregoryCaporaso\n\t\t\n\t\t\n\t\t\tJustinKuczynski\n\t\t\n\t\t\n\t\t\tJesseStombaugh\n\t\t\n\t\t\n\t\t\tKyleBittinger\n\t\t\n\t\t\n\t\t\tFredericDBushman\n\t\t\n\t\t\n\t\t\tElizabethKCostello\n\t\t\n\t\t\n\t\t\tNoahFierer\n\t\t\n\t\t\n\t\t\tAntonioGonzalezPeña\n\t\t\n\t\t\n\t\t\tJuliaKGoodrich\n\t\t\n\t\t\n\t\t\tJeffreyIGordon\n\t\t\n\t\t\n\t\t\tGavinAHuttley\n\t\t\n\t\t\n\t\t\tScottTKelley\n\t\t\n\t\t\n\t\t\tDanKnights\n\t\t\n\t\t\n\t\t\tJeremyEKoenig\n\t\t\n\t\t\n\t\t\tRuthELey\n\t\t\n\t\t\n\t\t\tCatherineALozupone\n\t\t\n\t\t\n\t\t\tDanielMcdonald\n\t\t\n\t\t\n\t\t\tBrianDMuegge\n\t\t\n\t\t\n\t\t\tMegPirrung\n\t\t\n\t\t\n\t\t\tJensReeder\n\t\t\n\t\t\n\t\t\tJoelRSevinsky\n\t\t\n\t\t\n\t\t\tPeterJTurnbaugh\n\t\t\n\t\t\n\t\t\tWilliamAWalters\n\t\t\n\t\t\n\t\t\tJeremyWidmann\n\t\t\n\t\t\n\t\t\tTanyaYatsunenko\n\t\t\n\t\t\n\t\t\tJesseZaneveld\n\t\t\n\t\t\n\t\t\tRobKnight\n\t\t\n\t\t10.1038/nmeth.f.303\n\t\t20383131\n\t\tPMC3156573\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t7\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c254377723bebd8664a71b"},"refKey":22},
{"_key":"60c254377723bebd8664a71d","_id":"references/60c254377723bebd8664a71d","_rev":"_cfFk3hm---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t10.1093/bioinformatics/btq461\n\t\t20709691\n\t\tark:/67375/HXZ-GJV3Q6N3-6\n\t\tE899EDEA476A0A93BC2365EEC6AA3B7EEEC99891\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c254377723bebd8664a71b"},"refKey":23},
{"_key":"60c254377723bebd8664a71e","_id":"references/60c254377723bebd8664a71e","_rev":"_cfFk3hy---","tei":"\n\t\n\t\tPyNAST: a flexible tool for aligning sequences to a template alignment\n\t\t\n\t\t\tJGCaporaso\n\t\t\n\t\t\n\t\t\tKBittinger\n\t\t\n\t\t\n\t\t\tFDBushman\n\t\t\n\t\t\n\t\t\tTZDesantis\n\t\t\n\t\t\n\t\t\tGLAndersen\n\t\t\n\t\t\n\t\t\tRKnight\n\t\t\n\t\t10.1093/bioinformatics/btp636\n\t\t19914921\n\t\tPMC2804299\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c254377723bebd8664a71b"},"refKey":24},
{"_key":"60c254397723bebd8664a72b","_id":"references/60c254397723bebd8664a72b","_rev":"_cfFk3h6---","tei":"\n\t\n\t\t\n\t\t\tMMaechler\n\t\t\n\t\t\n\t\t\tPRousseeuw\n\t\t\n\t\t\n\t\t\tAStruyf\n\t\t\n\t\t\n\t\t\tMHubert\n\t\t\n\t\t\n\t\t\tKHornik\n\t\t\n\t\t\n\t\t\tCluster\n\t\t\n\t\tCluster Analysis Basics and Extensions\n\t\t\t\t\n\t\n\tR Package Version 1.14.4. 2013, 1, 56\n\n","document":{"$oid":"60c254397723bebd8664a72a"},"refKey":16},
{"_key":"60c254427723bebd8664a731","_id":"references/60c254427723bebd8664a731","_rev":"_cfFk3iG---","tei":"\n\t\n\t\tCell-Profiler 3.0: Next-generation image processing for biology\n\t\t\n\t\t\tCMcquin\n\t\t\n\t\t\n\t\t\tAGoodman\n\t\t\n\t\t\n\t\t\tVChernyshev\n\t\t\n\t\t\n\t\t\tLKamentsky\n\t\t\n\t\t\n\t\t\tBACimini\n\t\t\n\t\t\n\t\t\tKWKarhohs\n\t\t\n\t\t\n\t\t\tMDoan\n\t\t\n\t\t\n\t\t\tLDing\n\t\t\n\t\t\n\t\t\tSMRafelski\n\t\t\n\t\t\n\t\t\tDThirstrup\n\t\t\n\t\n\t\n\t\tPLoS Biol\n\t\t\n\t\t\t16\n\t\t\te2005970\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c254427723bebd8664a730"},"refKey":55},
{"_key":"60c254427723bebd8664a732","_id":"references/60c254427723bebd8664a732","_rev":"_cfFk3iS---","tei":"\n\t\n\t\tdeepTools2: a next generation web server for deep-sequencing data analysis\n\t\t\n\t\t\tFRamı ´rez\n\t\t\n\t\t\n\t\t\tDPRyan\n\t\t\n\t\t\n\t\t\tBGr€ Uning\n\t\t\n\t\t\n\t\t\tVBhardwaj\n\t\t\n\t\t\n\t\t\tFKilpert\n\t\t\n\t\t\n\t\t\tASRichter\n\t\t\n\t\t\n\t\t\tSHeyne\n\t\t\n\t\t\n\t\t\tFD€ Undar\n\t\t\n\t\t\n\t\t\tTManke\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c254427723bebd8664a730"},"refKey":70},
{"_key":"60c254427723bebd8664a733","_id":"references/60c254427723bebd8664a733","_rev":"_cfFk3ie---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c254427723bebd8664a730"},"refKey":74},
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{"_key":"60c254967723bebd8664a771","_id":"references/60c254967723bebd8664a771","_rev":"_cfFk3iy---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1.8\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c254967723bebd8664a76f"},"refKey":71},
{"_key":"60c254b37723bebd8664a78f","_id":"references/60c254b37723bebd8664a78f","_rev":"_cfFk3j----","tei":"\n\t\n\t\tReal-time RT-PCR normalisation; strategies and considerations\n\t\t\n\t\t\tJHuggett\n\t\t\n\t\t\n\t\t\tKDheda\n\t\t\n\t\t\n\t\t\tSBustin\n\t\t\n\t\t\n\t\t\tAZumla\n\t\t\n\t\n\t\n\t\tGenes Immun\n\t\t\n\t\t\t6\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c254b37723bebd8664a78e"},"refKey":6},
{"_key":"60c254b37723bebd8664a790","_id":"references/60c254b37723bebd8664a790","_rev":"_cfFk3jK---","tei":"\n\t\n\t\tData analysis and interpretation\n\t\t\n\t\t\tSABustin\n\t\t\n\t\t\n\t\t\tTNolan\n\t\t\n\t\n\t\n\t\tA-Z of quantitative PCR Edited by: Bustin SA\n\t\t\t\tLa Jolla, Ca, USA\n\t\t\n\t\t\tInternational University Line\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c254b37723bebd8664a78e"},"refKey":15},
{"_key":"60c254b37723bebd8664a791","_id":"references/60c254b37723bebd8664a791","_rev":"_cfFk3jS---","tei":"\n\t\n\t\tSelection of reliable reference genes for gene expression studies by quantitative real-time PCR in Anoectochilus roxburghii\n\t\t\n\t\t\tYananZhang\n\t\t\n\t\t\n\t\t\tBoyunYang\n\t\t\n\t\t\n\t\t\tLipingLuo\n\t\t\n\t\t\n\t\t\tDongjinXiong\n\t\t\n\t\t\n\t\t\tXueyongHuang\n\t\t\n\t\t\n\t\t\tHuolinLuo\n\t\t\n\t\t10.5958/0975-6906.2017.00060.8\n\t\n\t\n\t\tIndian Journal of Genetics and Plant Breeding (The)\n\t\tInd. Jrnl. Gen. Plnt. Bree.\n\t\t0019-5200\n\t\t0975-6906\n\t\t\n\t\t\t77\n\t\t\t3\n\t\t\t431\n\t\t\t\n\t\t\tThe Indian Society of Genetics and Plant Breeding\n\t\t\n\t\n\n","document":{"$oid":"60c254b37723bebd8664a78e"},"refKey":19},
{"_key":"60c255137723bebd8664a7d1","_id":"references/60c255137723bebd8664a7d1","_rev":"_cfFk3je---","tei":"\n\t\n\t\tTracking the Evolution of the SARS Coronavirus Using High-Throughput, High-Density Resequencing Arrays\n\t\t\n\t\t\tCWWong\n\t\t\n\t\t\n\t\t\tTJAlbert\n\t\t\n\t\t\n\t\t\tVBVega\n\t\t\n\t\t\n\t\t\tJENorton\n\t\t\n\t\t\n\t\t\tDJCutler\n\t\t\n\t\t\n\t\t\tTARichmond\n\t\t\n\t\t\n\t\t\tLWStanton\n\t\t\n\t\t\n\t\t\tETLiu\n\t\t\n\t\t\n\t\t\tLDMiller\n\t\t\n\t\t10.1101/gr.2141004\n\t\t14993206\n\t\tPMC353227\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t14\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c255137723bebd8664a7d0"},"refKey":7},
{"_key":"60c2552c7723bebd8664a7ed","_id":"references/60c2552c7723bebd8664a7ed","_rev":"_cfFk3jq---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tNVan Doremalen\n\t\t\n\t\t\n\t\t\tTLambe\n\t\t\n\t\t\n\t\t\tASpencer\n\t\t\n\t\t\n\t\t\tSBelij-Rammerstorfer\n\t\t\n\t\t\n\t\t\tJNPurushotham\n\t\t\n\t\t\n\t\t\tJRPort\n\t\t\n\t\t\n\t\t\tVAvanzato\n\t\t\n\t\t\n\t\t\tTBushmaker\n\t\t\n\t\t\n\t\t\tAFlaxman\n\t\t\n\t\t\n\t\t\tMUlaszewska\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tbioRxiv\n\n","document":{"$oid":"60c2552c7723bebd8664a7ec"},"refKey":34},
{"_key":"60c255327723bebd8664a7f3","_id":"references/60c255327723bebd8664a7f3","_rev":"_cfFk3jy---","tei":"\n\t\n\t\tScience vs Conspiracy: Collective Narratives in the Age of Misinformation\n\t\t\n\t\t\tAlessandroBessi\n\t\t\n\t\t\n\t\t\tMauroColetto\n\t\t\n\t\t\n\t\t\tGeorgeAlexandruDavidescu\n\t\t\n\t\t\n\t\t\tAntonioScala\n\t\t\n\t\t\n\t\t\tGuidoCaldarelli\n\t\t\n\t\t\n\t\t\tWalterQuattrociocchi\n\t\t\n\t\t10.1371/journal.pone.0118093\n\t\t25706981\n\t\tPMC4338055\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\te0118093\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c255327723bebd8664a7f2"},"refKey":4},
{"_key":"60c2554e7723bebd8664a7fc","_id":"references/60c2554e7723bebd8664a7fc","_rev":"_cfFk3k----","tei":"\n\t\n\t\tVENNY. An Interactive Tool for Comparing Lists With Venn Diagrams\n\t\t\n\t\t\tJCOliveros\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2554e7723bebd8664a7fb"},"refKey":29},
{"_key":"60c2554e7723bebd8664a7fd","_id":"references/60c2554e7723bebd8664a7fd","_rev":"_cfFk3kK---","tei":"\n\t\n\t\tggplot2: Elegant Graphics for Data Analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c2554e7723bebd8664a7fb"},"refKey":44},
{"_key":"60c2558b7723bebd8664a83c","_id":"references/60c2558b7723bebd8664a83c","_rev":"_cfFk3kW---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2558b7723bebd8664a83b"},"refKey":25},
{"_key":"60c2558b7723bebd8664a83d","_id":"references/60c2558b7723bebd8664a83d","_rev":"_cfFk3ke---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2558b7723bebd8664a83b"},"refKey":30},
{"_key":"60c2558b7723bebd8664a83e","_id":"references/60c2558b7723bebd8664a83e","_rev":"_cfFk3kq---","tei":"\n\t\n\t\tMetaDisorder: a meta-server for the prediction of intrinsic disorder in proteins\n\t\t\n\t\t\tLukaszPKozlowski\n\t\t\n\t\t\n\t\t\tJanuszMBujnicki\n\t\t\n\t\t10.1186/1471-2105-13-111\n\t\t22624656\n\t\tPMC3465245\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\t1\n\t\t\t111\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2558b7723bebd8664a83b"},"refKey":32},
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{"_key":"60c255907723bebd8664a84c","_id":"references/60c255907723bebd8664a84c","_rev":"_cfFk3l----","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c255907723bebd8664a84a"},"refKey":31},
{"_key":"60c255907723bebd8664a84d","_id":"references/60c255907723bebd8664a84d","_rev":"_cfFk3lK---","tei":"\n\t\n\t\tPicante: R tools for integrating phylogenies and ecology\n\t\t\n\t\t\tSKembel\n\t\t\n\t\t\n\t\t\tPCowan\n\t\t\n\t\t\n\t\t\tMHelmus\n\t\t\n\t\t\n\t\t\tWCornwell\n\t\t\n\t\t\n\t\t\tHMorlon\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c255907723bebd8664a84a"},"refKey":42},
{"_key":"60c255b07723bebd8664a863","_id":"references/60c255b07723bebd8664a863","_rev":"_cfFk3lW---","tei":"\n\t\n\t\tRDP3: a flexible and fast computer program for analyzing recombination\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tMLott\n\t\t\n\t\t\n\t\t\tVMoulton\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tPLefeuvre\n\t\t\n\t\t10.1093/bioinformatics/btq467\n\t\t20798170\n\t\tPMC2944210\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c255b07723bebd8664a862"},"refKey":18},
{"_key":"60c255b07723bebd8664a864","_id":"references/60c255b07723bebd8664a864","_rev":"_cfFk3le---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c255b07723bebd8664a862"},"refKey":10},
{"_key":"60c255b07723bebd8664a865","_id":"references/60c255b07723bebd8664a865","_rev":"_cfFk3lq---","tei":"\n\t\n\t\tRDP: detection of recombination amongst aligned sequences\n\t\t\n\t\t\tDMartin\n\t\t\n\t\t\n\t\t\tERybicki\n\t\t\n\t\t10.1093/bioinformatics/16.6.562\n\t\t10980155\n\t\t1460-2059\n\t\tark:/67375/HXZ-HFGKCW1P-T\n\t\t23BD6F406EB9238187A4D94959477721DBE8EFE2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c255b07723bebd8664a862"},"refKey":17},
{"_key":"60c255b07723bebd8664a866","_id":"references/60c255b07723bebd8664a866","_rev":"_cfFk3l2---","tei":"\n\t\n\t\tBase-Calling of Automated Sequencer Traces UsingPhred.II. Error Probabilities\n\t\t\n\t\t\tBrentEwing\n\t\t\n\t\t\n\t\t\tPhilGreen\n\t\t\n\t\t10.1101/gr.8.3.186\n\t\t9521922\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c255b07723bebd8664a862"},"refKey":11},
{"_key":"60c255b07723bebd8664a867","_id":"references/60c255b07723bebd8664a867","_rev":"_cfFk3mC---","tei":"\n\t\n\t\tPossible Emergence of New Geminiviruses by Frequent Recombination\n\t\t\n\t\t\tMallaPadidam\n\t\t\n\t\t\n\t\t\tStanleySawyer\n\t\t\n\t\t\n\t\t\tClaudeMFauquet\n\t\t\n\t\t10.1006/viro.1999.0056\n\t\t10600594\n\t\tS0042-6822(99)90056-9\n\t\tark:/67375/6H6-1BVRKQB4-5\n\t\t6F0F73AB836666A440E94FF95444FA0B28A79801\n\t\n\t\n\t\tVirology\n\t\tVirology\n\t\t0042-6822\n\t\t\n\t\t\t265\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c255b07723bebd8664a862"},"refKey":20},
{"_key":"60c255b07723bebd8664a868","_id":"references/60c255b07723bebd8664a868","_rev":"_cfFk3mK---","tei":"\n\t\n\t\tAnalyzing the mosaic structure of genes\n\t\t\n\t\t\tJohnmaynardMSmith\n\t\t\n\t\t10.1007/bf00182389\n\t\tark:/67375/1BB-PF2DNF4W-7\n\t\t50F7696424BCDB18C0ED882500777A849443F2AC\n\t\n\t\n\t\tJournal of Molecular Evolution\n\t\tJ Mol Evol\n\t\t0022-2844\n\t\t1432-1432\n\t\t\n\t\t\t34\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c255b07723bebd8664a862"},"refKey":27},
{"_key":"60c255b07723bebd8664a869","_id":"references/60c255b07723bebd8664a869","_rev":"_cfFk3mW---","tei":"\n\t\n\t\tThe Paradox of Feline Coronavirus Pathogenesis: A Review\n\t\t\n\t\t\tLucianaWanderleyMyrrha\n\t\t\n\t\t\n\t\t\tFernandaMiquelitto FigueiraSilva\n\t\t\n\t\t\n\t\t\tEthelFernandes De OliveiraPeternelli\n\t\t\n\t\t\n\t\t\tAbelardoSilvaJunior\n\t\t\n\t\t\n\t\t\tMaurícioResende\n\t\t\n\t\t\n\t\t\tMárciaRogéria DeAlmeida\n\t\t\n\t\t10.1155/2011/109849\n\t\t22312333\n\t\tPMC3265210\n\t\t\n\t\n\t\n\t\tAdvances in Virology\n\t\tAdvances in Virology\n\t\t1687-8639\n\t\t1687-8647\n\t\t\n\t\t\t2011\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c255b07723bebd8664a862"},"refKey":19},
{"_key":"60c255b07723bebd8664a86a","_id":"references/60c255b07723bebd8664a86a","_rev":"_cfFk3mi---","tei":"\n\t\n\t\tBayesian Phylogenetics with BEAUti and the BEAST 1.7\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t10.1093/molbev/mss075\n\t\t22367748\n\t\tPMC3408070\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t29\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c255b07723bebd8664a862"},"refKey":6},
{"_key":"60c255b07723bebd8664a86b","_id":"references/60c255b07723bebd8664a86b","_rev":"_cfFk3mq---","tei":"\n\t\n\t\tDendroPy: a Python library for phylogenetic computing\n\t\t\n\t\t\tJSukumaran\n\t\t\n\t\t\n\t\t\tMTHolder\n\t\t\n\t\t10.1093/bioinformatics/btq228\n\t\t20421198\n\t\tark:/67375/HXZ-XQT6MD7V-H\n\t\tC5CBBC05D57205CEB8D510F0F41A3C867BBC3A01\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c255b07723bebd8664a862"},"refKey":29},
{"_key":"60c255b07723bebd8664a86c","_id":"references/60c255b07723bebd8664a86c","_rev":"_cfFk3m2---","tei":"\n\t\n\t\tCorrelating viral phenotypes with phylogeny: Accounting for phylogenetic uncertainty\n\t\t\n\t\t\tJoeParker\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t10.1016/j.meegid.2007.08.001\n\t\t17921073\n\t\n\t\n\t\tInfection, Genetics and Evolution\n\t\tInfection, Genetics and Evolution\n\t\t1567-1348\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c255b07723bebd8664a862"},"refKey":21},
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{"_key":"60c255eb7723bebd8664a8af","_id":"references/60c255eb7723bebd8664a8af","_rev":"_cfFk3nu---","tei":"\n\t\n\t\tDrawing explicit phylogenetic networks and their integration into SplitsTree\n\t\t\n\t\t\tTobiasHKloepper\n\t\t\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t10.1186/1471-2148-8-22\n\t\t18218099\n\t\tPMC2253509\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t22\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c255eb7723bebd8664a8ac"},"refKey":48},
{"_key":"60c255f97723bebd8664a8c5","_id":"references/60c255f97723bebd8664a8c5","_rev":"_cfFk3n2---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c255f97723bebd8664a8c4"},"refKey":13},
{"_key":"60c255f97723bebd8664a8c6","_id":"references/60c255f97723bebd8664a8c6","_rev":"_cfFk3oC---","tei":"\n\t\n\t\tBepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes\n\t\t\n\t\t\tMartinClosterJespersen\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t10.1093/nar/gkx346\n\t\t28472356\n\t\tPMC5570230\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c255f97723bebd8664a8c4"},"refKey":23},
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{"_key":"60c258737723bebd8664aad9","_id":"references/60c258737723bebd8664aad9","_rev":"_cfFk3uK---","tei":"\n\t\n\t\tAssessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified\n\t\t\n\t\t\tTMKeane\n\t\t\n\t\t\n\t\t\tCJCreevey\n\t\t\n\t\t\n\t\t\tMMPentony\n\t\t\n\t\t\n\t\t\tTJNaughton\n\t\t\n\t\t\n\t\t\tJOMclnerney\n\t\t\n\t\t10.1186/1471-2148-6-29\n\t\t16563161\n\t\n\t\n\t\tBMC evolutionary biology\n\t\t\n\t\t\t6\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c258737723bebd8664aad7"},"refKey":35},
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{"_key":"60c258a07723bebd8664ab04","_id":"references/60c258a07723bebd8664ab04","_rev":"_cfFk3uq---","tei":"\n\t\n\t\tFSscan: a mechanism-based program to identify +1 ribosomal frameshift hotspots\n\t\t\n\t\t\tPei-YuLiao\n\t\t\n\t\t\n\t\t\tYongSeokChoi\n\t\t\n\t\t\n\t\t\tKelvinHLee\n\t\t\n\t\t10.1093/nar/gkp796\n\t\t19783813\n\t\tPMC2790909\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c258a07723bebd8664ab03"},"refKey":79},
{"_key":"60c258a07723bebd8664ab05","_id":"references/60c258a07723bebd8664ab05","_rev":"_cfFk3uy---","tei":"\n\t\n\t\tPredicting genes expressed via -1 and +1 frameshifts\n\t\t\n\t\t\tSMoon\n\t\t\n\t\t\n\t\t\tYByun\n\t\t\n\t\t\n\t\t\tHJKim\n\t\t\n\t\t10.1093/nar/gkh829\n\t\t15371551\n\t\tPMC519117\n\t\tark:/67375/HXZ-T3MPXM3C-7\n\t\tE835137B072FC834D0A48C435773A53068E4E7B7\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c258a07723bebd8664ab03"},"refKey":77},
{"_key":"60c258a07723bebd8664ab06","_id":"references/60c258a07723bebd8664ab06","_rev":"_cfFk3v----","tei":"\n\t\n\t\tFSDB: A frameshift signal database\n\t\t\n\t\t\tSanghoonMoon\n\t\t\n\t\t\n\t\t\tYangaByun\n\t\t\n\t\t\n\t\t\tKyungsookHan\n\t\t\n\t\t10.1016/j.compbiolchem.2007.05.004\n\t\t17631420\n\t\n\t\n\t\tComputational Biology and Chemistry\n\t\tComputational Biology and Chemistry\n\t\t1476-9271\n\t\t\n\t\t\t31\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c258a07723bebd8664ab03"},"refKey":78},
{"_key":"60c258a07723bebd8664ab07","_id":"references/60c258a07723bebd8664ab07","_rev":"_cfFk3vK---","tei":"\n\t\n\t\tAutomated RNA 3D Structure Prediction with RNAComposer\n\t\t\n\t\t\tMarcinBiesiada\n\t\t\n\t\t\n\t\t\tKatarzynaJPurzycka\n\t\t\n\t\t\n\t\t\tMartaSzachniuk\n\t\t\n\t\t\n\t\t\tJacekBlazewicz\n\t\t\n\t\t\n\t\t\tRyszardWAdamiak\n\t\t\n\t\t10.1007/978-1-4939-6433-8_13\n\t\t27665601\n\t\n\t\n\t\tRNA Structure Determination\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c258a07723bebd8664ab03"},"refKey":121},
{"_key":"60c258a07723bebd8664ab08","_id":"references/60c258a07723bebd8664ab08","_rev":"_cfFk3vW---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c258a07723bebd8664ab03"},"refKey":103},
{"_key":"60c258a07723bebd8664ab09","_id":"references/60c258a07723bebd8664ab09","_rev":"_cfFk3ve---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c258a07723bebd8664ab03"},"refKey":89},
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{"_key":"60c258a07723bebd8664ab0d","_id":"references/60c258a07723bebd8664ab0d","_rev":"_cfFk3wK---","tei":"\n\t\n\t\tFast folding and comparison of RNA secondary structures\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tWFontana\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t\n\t\t\tLSBonhoeffer\n\t\t\n\t\t\n\t\t\tMTacker\n\t\t\n\t\t\n\t\t\tPSchuster\n\t\t\n\t\t10.1007/bf00818163\n\t\tark:/67375/1BB-N6DHN825-D\n\t\tF149ECB8797ECA4546DA33D196F06F51CFB3E2DB\n\t\n\t\n\t\tMonatshefte f�r Chemie Chemical Monthly\n\t\tMonatsh Chem\n\t\t0026-9247\n\t\t1434-4475\n\t\t\n\t\t\t125\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c258a07723bebd8664ab03"},"refKey":39},
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{"_key":"60c259837723bebd8664abe9","_id":"references/60c259837723bebd8664abe9","_rev":"_cfFk3xO---","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c259837723bebd8664abe8"},"refKey":17},
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{"_key":"60c2598e7723bebd8664abf2","_id":"references/60c2598e7723bebd8664abf2","_rev":"_cfFk3xu---","tei":"\n\t\n\t\tProcessing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2598e7723bebd8664abef"},"refKey":43},
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{"_key":"60c25b067723bebd8664ad7b","_id":"references/60c25b067723bebd8664ad7b","_rev":"_cfFk342---","tei":"\n\t\n\t\tBack to the future: origins and directions of the “Agile Manifesto” – views of the originators\n\t\t\n\t\t\tPhilippHohl\n\t\t\t0000-0001-6062-4729\n\t\t\n\t\t\n\t\t\tJilKlünder\n\t\t\n\t\t\n\t\t\tArieVan Bennekum\n\t\t\n\t\t\n\t\t\tRyanLockard\n\t\t\n\t\t\n\t\t\tJamesGifford\n\t\t\n\t\t\n\t\t\tJürgenMünch\n\t\t\n\t\t\n\t\t\tMichaelStupperich\n\t\t\n\t\t\n\t\t\tKurtSchneider\n\t\t\n\t\t10.1186/s40411-018-0059-z\n\t\t\n\t\n\t\n\t\tJournal of Software Engineering Research and Development\n\t\tJ Softw Eng Res Dev\n\t\t2195-1721\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t15\n\t\t\t\n\t\t\tSociedade Brasileira de Computacao - SB\n\t\t\n\t\n\n","document":{"$oid":"60c25b067723bebd8664ad78"},"refKey":6},
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{"_key":"60c25b817723bebd8664ad97","_id":"references/60c25b817723bebd8664ad97","_rev":"_cfFk35K---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25b817723bebd8664ad95"},"refKey":14},
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{"_key":"60c25bc47723bebd8664adc0","_id":"references/60c25bc47723bebd8664adc0","_rev":"_cfFk362---","tei":"\n\t\n\t\tCodon-substitution models for heterogeneous selection pressure at amino acid sites\n\t\t\n\t\t\tZHYang\n\t\t\n\t\t\n\t\t\tRNielsen\n\t\t\n\t\t\n\t\t\tNGoldman\n\t\t\n\t\t\n\t\t\tAmkPedersen\n\t\t\n\t\n\t\n\t\tGenetics\n\t\t\n\t\t\t155\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25bc47723bebd8664adbe"},"refKey":72},
{"_key":"60c25bc47723bebd8664adc1","_id":"references/60c25bc47723bebd8664adc1","_rev":"_cfFk37C---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25bc47723bebd8664adbe"},"refKey":28},
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{"_key":"60c25bd07723bebd8664addd","_id":"references/60c25bd07723bebd8664addd","_rev":"_cfFk37a---","tei":"\n\t\n\t\trentrez: An R package for the NCBI eUtils API\n\t\t\n\t\t\tDavidJWinter\n\t\t\t0000-0002-6165-0029\n\t\t\n\t\t10.7287/peerj.preprints.3179\n\t\t\n\t\t\n\t\t\t\n\t\t\tPeerJ\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25bd07723bebd8664addb"},"refKey":128},
{"_key":"60c25bd07723bebd8664adde","_id":"references/60c25bd07723bebd8664adde","_rev":"_cfFk37i---","tei":"\n\t\n\t\tA New R package for Mapping Global Data\n\t\t\n\t\t\tASouth\n\t\t\n\t\t\n\t\t\tRworldmap ; R J\n\t\t\n\t\t10.32614/RJ-2011-006\n\t\t\n\t\t\t\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25bd07723bebd8664addb"},"refKey":129},
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{"_key":"60c25c277723bebd8664ae46","_id":"references/60c25c277723bebd8664ae46","_rev":"_cfFk38G---","tei":"\n\t\n\t\tIntroduction to Mediation, Moderation, and Conditional Process Analysis A Regression-Based Approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe Guilford Press\n\t\t\tNew York, London\n\t\t\n\t\n\n","document":{"$oid":"60c25c277723bebd8664ae45"},"refKey":12},
{"_key":"60c25c367723bebd8664ae51","_id":"references/60c25c367723bebd8664ae51","_rev":"_cfFk38S---","tei":"\n\t\n\t\tXgboost: a scalable tree boosting system\n\t\t\n\t\t\tTChen\n\t\t\n\t\t\n\t\t\tCGuestrin\n\t\t\n\t\n\t\n\t\tProceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\t\tthe 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25c367723bebd8664ae50"},"refKey":19},
{"_key":"60c25c367723bebd8664ae52","_id":"references/60c25c367723bebd8664ae52","_rev":"_cfFk38a---","tei":"\n\t\n\t\tDiscovering Block-Structured Process Models from Event Logs Containing Infrequent Behaviour\n\t\t\n\t\t\tSanderJ JLeemans\n\t\t\n\t\t\n\t\t\tDirkFahland\n\t\t\n\t\t\n\t\t\tWilM PVan Der Aalst\n\t\t\n\t\t10.1007/978-3-319-06257-0_6\n\t\n\t\n\t\tBusiness Process Management Workshops\n\t\t\t\t\n\t\t\tNLohmann\n\t\t\tMSong\n\t\t\tPWohed\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t171\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25c367723bebd8664ae50"},"refKey":15},
{"_key":"60c25c367723bebd8664ae53","_id":"references/60c25c367723bebd8664ae53","_rev":"_cfFk38m---","tei":"\n\t\n\t\t\n\t\t\tABerti\n\t\t\n\t\t\n\t\t\tSJVan Zelst\n\t\t\n\t\t\n\t\t\tWVan Der Aalst\n\t\t\n\t\tarXiv:1905.06169\n\t\tProcess mining for python (PM4PY): bridging the gap between process-and data science\n\t\t\t\tess mining for python (PM4PY): bridging the gap between process-and data science\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c25c367723bebd8664ae50"},"refKey":23},
{"_key":"60c25c537723bebd8664ae68","_id":"references/60c25c537723bebd8664ae68","_rev":"_cfFk38y---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis: A regression-based approach\n\t\t\n\t\t\tAHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford Press\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c25c537723bebd8664ae67"},"refKey":39},
{"_key":"60c25ca17723bebd8664aeab","_id":"references/60c25ca17723bebd8664aeab","_rev":"_cfFk386---","tei":"\n\t\n\t\tGoodRelations: An Ontology for Describing Products and Services Offers on the Web\n\t\t\n\t\t\tMartinHepp\n\t\t\n\t\t10.1007/978-3-540-87696-0_29\n\t\tark:/67375/HCB-2B0ZPFGX-L\n\t\tC7769D4587125B20CE934E7DAE04EE0ACDEDBA11\n\t\t\n\t\t\n\t\n\t\n\t\tKnowledge Engineering: Practice and Patterns\n\t\t\t\t\n\t\t\tAGangemi\n\t\t\tJEuzenat\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t2008\n\t\t\t5268\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25ca17723bebd8664aeaa"},"refKey":6},
{"_key":"60c25cb97723bebd8664aede","_id":"references/60c25cb97723bebd8664aede","_rev":"_cfFk39G---","tei":"\n\t\n\t\tEfficiency of ab-initio total energy calculations for metals and semiconductors using a plane-wave basis set\n\t\t\n\t\t\tGKress\n\t\t\n\t\t\n\t\t\tJFurthmuller\n\t\t\n\t\n\t\n\t\tComput. Mater. Sci\n\t\t\n\t\t\t6\n\t\t\t15\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25cb97723bebd8664aedd"},"refKey":27},
{"_key":"60c25cdd7723bebd8664aeed","_id":"references/60c25cdd7723bebd8664aeed","_rev":"_cfFk39S---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c25cdd7723bebd8664aeec"},"refKey":23},
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{"_key":"60c25cdf7723bebd8664aef7","_id":"references/60c25cdf7723bebd8664aef7","_rev":"_cfFk39m---","tei":"\n\t\n\t\tFitting linear mixed models in R Using the lme4 package\n\t\t\n\t\t\tDMBates\n\t\t\n\t\n\t\n\t\tR News\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25cdf7723bebd8664aef6"},"refKey":29},
{"_key":"60c25cdf7723bebd8664aef8","_id":"references/60c25cdf7723bebd8664aef8","_rev":"_cfFk39y---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25cdf7723bebd8664aef6"},"refKey":74},
{"_key":"60c25cdf7723bebd8664aef9","_id":"references/60c25cdf7723bebd8664aef9","_rev":"_cfFk396---","tei":"\n\t\n\t\tThe VGAM package for categorical data analysis\n\t\t\n\t\t\tTWYee\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25cdf7723bebd8664aef6"},"refKey":84},
{"_key":"60c25ce17723bebd8664af00","_id":"references/60c25ce17723bebd8664af00","_rev":"_cfFk4-G---","tei":"\n\t\n\t\tQuPath: Open source software for digital pathology image analysis\n\t\t\n\t\t\tPeterBankhead\n\t\t\n\t\t\n\t\t\tMauriceBLoughrey\n\t\t\n\t\t\n\t\t\tJoséAFernández\n\t\t\n\t\t\n\t\t\tYvonneDombrowski\n\t\t\n\t\t\n\t\t\tDarraghGMcart\n\t\t\n\t\t\n\t\t\tPhilipDDunne\n\t\t\t0000-0001-9160-283X\n\t\t\n\t\t\n\t\t\tStephenMcquaid\n\t\t\n\t\t\n\t\t\tRonanTGray\n\t\t\n\t\t\n\t\t\tLiamJMurray\n\t\t\n\t\t\n\t\t\tHelenGColeman\n\t\t\n\t\t\n\t\t\tJacquelineAJames\n\t\t\n\t\t\n\t\t\tManuelSalto-Tellez\n\t\t\n\t\t\n\t\t\tPeterWHamilton\n\t\t\n\t\t10.1038/s41598-017-17204-5\n\t\t29203879\n\t\tPMC5715110\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t16878\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c25ce17723bebd8664aeff"},"refKey":45},
{"_key":"60c25cf37723bebd8664af16","_id":"references/60c25cf37723bebd8664af16","_rev":"_cfFk4-S---","tei":"\n\t\n\t\tIVEware: Imputation and variation estimation software\n\t\t\n\t\t\tTERaghunathan\n\t\t\n\t\t\n\t\t\tPWSolenberger\n\t\t\n\t\t\n\t\t\tJVVan Hoewyk\n\t\t\n\t\n\t\n\t\tSurvey Research Center\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tInstitute for Social Research, University of Michigan\n\t\t\n\t\n\n","document":{"$oid":"60c25cf37723bebd8664af15"},"refKey":25},
{"_key":"60c25cf37723bebd8664af17","_id":"references/60c25cf37723bebd8664af17","_rev":"_cfFk4-e---","tei":"\n\t\n\t\t1 User's Guide\n\t\n\t\n\t\tSAS Institute Inc. SAS/STAT\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\tCary\n\t\t\n\t\n\n","document":{"$oid":"60c25cf37723bebd8664af15"},"refKey":27},
{"_key":"60c25cfb7723bebd8664af21","_id":"references/60c25cfb7723bebd8664af21","_rev":"_cfFk4-m---","tei":"\n\t\n\t\tAutodock4 and AutoDockTools4: automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25cfb7723bebd8664af20"},"refKey":26},
{"_key":"60c25d167723bebd8664af47","_id":"references/60c25d167723bebd8664af47","_rev":"_cfFk4-y---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25d167723bebd8664af46"},"refKey":53},
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{"_key":"60c25d4b7723bebd8664af79","_id":"references/60c25d4b7723bebd8664af79","_rev":"_cfFk4_W---","tei":"\n\t\n\t\tDeveloping a Fully-Glycosylated Full-Length SARS-CoV-2 Spike Protein Model in a Viral Membrane\n\t\t\n\t\t\tHWoo\n\t\t\n\t\t\n\t\t\tS.-JPark\n\t\t\n\t\t\n\t\t\tYKChoi\n\t\t\n\t\t\n\t\t\tTPark\n\t\t\n\t\t\n\t\t\tMTanveer\n\t\t\n\t\t\n\t\t\tYCao\n\t\t\n\t\t\n\t\t\tNRKern\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tMSYeom\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tCSeok\n\t\t\n\t\t\n\t\t\tWIm\n\t\t\n\t\t10.1021/acs.jpcb.0c04553\n\t\n\t\n\t\tJ. Phys. Chem. B\n\t\t\n\t\t\t2020\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25d4b7723bebd8664af78"},"refKey":179},
{"_key":"60c25d517723bebd8664af85","_id":"references/60c25d517723bebd8664af85","_rev":"_cfFk4_e---","tei":"\n\t\n\t\tThe map equation\n\t\t\n\t\t\tMRosvall\n\t\t\n\t\t\n\t\t\tDAxelsson\n\t\t\n\t\t\n\t\t\tCTBergstrom\n\t\t\n\t\n\t\n\t\tThe European Physical Journal Special Topics\n\t\t\n\t\t\t178\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25d517723bebd8664af83"},"refKey":13},
{"_key":"60c25d517723bebd8664af86","_id":"references/60c25d517723bebd8664af86","_rev":"_cfFk4_q---","tei":"\n\t\n\t\tFast, sensitive and accurate integration of single-cell data with Harmony\n\t\t\n\t\t\tIKorsunsky\n\t\t\n\t\t\n\t\t\tNMillard\n\t\t\n\t\t\n\t\t\tJFan\n\t\t\n\t\t\n\t\t\tKSlowikowski\n\t\t\n\t\t\n\t\t\tFZhang\n\t\t\n\t\t\n\t\t\tKWei\n\t\t\n\t\t\n\t\t\tYBaglaenko\n\t\t\n\t\t\n\t\t\tMBrenner\n\t\t\n\t\t\n\t\t\tPLoh\n\t\t\n\t\t\n\t\t\tSRaychaudhuri\n\t\t\n\t\t10.1038/s41592-019-0619-0\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25d517723bebd8664af84"},"refKey":149},
{"_key":"60c25d517723bebd8664af87","_id":"references/60c25d517723bebd8664af87","_rev":"_cfFk4_2---","tei":"\n\t\n\t\tMultilevel compression of random walks on networks reveals hierarchical organization in large integrated systems\n\t\t\n\t\t\tMRosvall\n\t\t\n\t\t\n\t\t\tCTBergstrom\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\t\n\t\t\t6\n\t\t\t4\n\t\t\te18209\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25d517723bebd8664af83"},"refKey":14},
{"_key":"60c25d517723bebd8664af89","_id":"references/60c25d517723bebd8664af89","_rev":"_cfFk4AC---","tei":"\n\t\n\t\tThe igraph software package for complex network research. InterJournal, Complex Systems\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\t\n\t\t\t\n\t\t\t1695\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c25d517723bebd8664af83"},"refKey":15},
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{"_key":"60c25e137723bebd8664b111","_id":"references/60c25e137723bebd8664b111","_rev":"_cfFk4Ce---","tei":"\n\t\n\t\tSmashing Ethereum smart contracts for fun and real profit\n\t\t\n\t\t\tBMueller\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the 9th Annual HITB Security Conference (HITBSecConf)\n\t\t\t\tthe 9th Annual HITB Security Conference (HITBSecConf)\n\t\t\n\t\t\t\n\t\t\t30\n\t\t\n\t\n\tSolidity documentation\n\n","document":{"$oid":"60c25e137723bebd8664b110"},"refKey":35},
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{"_key":"60c261f57723bebd8664b55c","_id":"references/60c261f57723bebd8664b55c","_rev":"_cfFk4QG---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c261f57723bebd8664b55b"},"refKey":229},
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{"_key":"60c2626f7723bebd8664b5e7","_id":"references/60c2626f7723bebd8664b5e7","_rev":"_cfFk4Sq---","tei":"\n\t\n\t\tSWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information\n\t\t\n\t\t\tMBiasini\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tTSchmidt\n\t\t\n\t\t\n\t\t\tFKiefer\n\t\t\n\t\t\n\t\t\tTGCassarino\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2626f7723bebd8664b5e5"},"refKey":2},
{"_key":"60c262ad7723bebd8664b631","_id":"references/60c262ad7723bebd8664b631","_rev":"_cfFk4S2---","tei":"\n\t\n\t\tAn Overlapping Schwarz Method for Spectral Element Solution of the Incompressible Navier–Stokes Equations\n\t\t\n\t\t\tPaulFFischer\n\t\t\n\t\t10.1006/jcph.1997.5651\n\t\tS0021-9991(97)95651-5\n\t\tark:/67375/6H6-5ZH27ZZQ-9\n\t\t38DE52D0D7820363C78F642EB4159AB97CFB7AD1\n\t\t\n\t\n\t\n\t\tJournal of Computational Physics\n\t\tJournal of Computational Physics\n\t\t0021-9991\n\t\t\n\t\t\t133\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c262ad7723bebd8664b630"},"refKey":29},
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{"_key":"60c2643b7723bebd8664b7f9","_id":"references/60c2643b7723bebd8664b7f9","_rev":"_cfFk4YG---","tei":"\n\t\n\t\tUsing AutoDock for Ligand-Receptor Docking\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/0471250953.bi0814s24\n\t\t19085980\n\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\tCurrent protocols in bioinformatics 2008, 24, 8.14. 1− 8.14. 40\n\n","document":{"$oid":"60c2643b7723bebd8664b7f6"},"refKey":145},
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{"_key":"60c2643b7723bebd8664b7fc","_id":"references/60c2643b7723bebd8664b7fc","_rev":"_cfFk4Ym---","tei":"\n\t\n\t\tAccelerating AutoDock4 with GPUs and Gradient-Based Local Search\n\t\t\n\t\t\tDiogoSantos-Martins\n\t\t\t0000-0003-4622-3747\n\t\t\n\t\t\n\t\t\tLeonardoSolis-Vasquez\n\t\t\n\t\t\n\t\t\tAndreasKoch\n\t\t\n\t\t\n\t\t\tStefanoForli\n\t\t\t0000-0002-5964-7111\n\t\t\n\t\t10.26434/chemrxiv.9702389\n\t\t\n\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2643b7723bebd8664b7f6"},"refKey":74},
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{"_key":"60c2643b7723bebd8664b7fe","_id":"references/60c2643b7723bebd8664b7fe","_rev":"_cfFk4Z----","tei":"\n\t\n\t\tSWEETLEAD: an In Silico Database of Approved Drugs, Regulated Chemicals, and Herbal Isolates for Computer-Aided Drug Discovery\n\t\t\n\t\t\tPaulANovick\n\t\t\n\t\t\n\t\t\tOscarFOrtiz\n\t\t\n\t\t\n\t\t\tJaredPoelman\n\t\t\n\t\t\n\t\t\tAmirYAbdulhay\n\t\t\n\t\t\n\t\t\tVijaySPande\n\t\t\n\t\t10.1371/journal.pone.0079568\n\t\t24223973\n\t\tPMC3815155\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t11\n\t\t\te79568\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c2643b7723bebd8664b7f6"},"refKey":139},
{"_key":"60c2643b7723bebd8664b7ff","_id":"references/60c2643b7723bebd8664b7ff","_rev":"_cfFk4ZK---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tEBressert\n\t\t\n\t\t\n\t\t\tNumpyScipy\n\t\t\n\t\t\n\t\t\tAn Overview for Developers\n\t\t\n\t\n\n","document":{"$oid":"60c2643b7723bebd8664b7f6"},"refKey":135},
{"_key":"60c2643b7723bebd8664b800","_id":"references/60c2643b7723bebd8664b800","_rev":"_cfFk4ZW---","tei":"\n\t\n\t\tVinaMPI: Facilitating multiple receptor high-throughput virtual docking on high-performance computers\n\t\t\n\t\t\tSallyREllingson\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tJeromeBaudry\n\t\t\n\t\t10.1002/jcc.23367\n\t\t23813626\n\t\tark:/67375/WNG-Q7X4W1XJ-1\n\t\t17F04335D831FEF10DCC77A9AD214FFBDCD56246\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t34\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2643b7723bebd8664b7f6"},"refKey":143},
{"_key":"60c2643b7723bebd8664b801","_id":"references/60c2643b7723bebd8664b801","_rev":"_cfFk4Ze---","tei":"\n\t\n\t\tOptimization of parameters for molecular dynamics simulation using smooth particle-mesh Ewald in GROMACS 4.5\n\t\t\n\t\t\tMarkJAbraham\n\t\t\n\t\t\n\t\t\tJillEGready\n\t\t\n\t\t10.1002/jcc.21773\n\t\t21469158\n\t\tark:/67375/WNG-J9PFQ0ZR-J\n\t\t5BDB49083DF1A0F8F0C88FE81F37A1190B65F846\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t32\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2643b7723bebd8664b7f6"},"refKey":123},
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{"_key":"60c264417723bebd8664b834","_id":"references/60c264417723bebd8664b834","_rev":"_cfFk4aC---","tei":"\n\t\n\t\tAdvances in functional and structural MR image analysis and implementation as FSL\n\t\t\n\t\t\tSSmith\n\t\t\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t\n\t\t\tMWoolrich\n\t\t\n\t\t\n\t\t\tCBeckmann\n\t\t\n\t\t\n\t\t\tTBehrens\n\t\t\n\t\t\n\t\t\tHJohansen-Berg\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\t\n\t\t\t23\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tSuppl. PubMed: 15501092\n\n","document":{"$oid":"60c264417723bebd8664b832"},"refKey":118},
{"_key":"60c264417723bebd8664b835","_id":"references/60c264417723bebd8664b835","_rev":"_cfFk4aK---","tei":"\n\t\n\t\tMachine learning for neuroimaging with scikit-learn\n\t\t\n\t\t\tAAbraham\n\t\t\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tMEickenberg\n\t\t\n\t\t\n\t\t\tPGervais\n\t\t\n\t\t\n\t\t\tAMueller\n\t\t\n\t\t\n\t\t\tJKossaifi\n\t\t\n\t\n\t\n\t\tFront Neuroinformatics\n\t\t\n\t\t\t8\n\t\t\t14\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c264417723bebd8664b832"},"refKey":117},
{"_key":"60c264417723bebd8664b836","_id":"references/60c264417723bebd8664b836","_rev":"_cfFk4aW---","tei":"\n\t\n\t\tImproved Optimization for the Robust and Accurate Linear Registration and Motion Correction of Brain Images\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t\n\t\t\tPBannister\n\t\t\n\t\t\n\t\t\tMBrady\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\t\n\t\t\t17\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 12377157\n\n","document":{"$oid":"60c264417723bebd8664b832"},"refKey":111},
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{"_key":"60c265287723bebd8664b910","_id":"references/60c265287723bebd8664b910","_rev":"_cfFk4cK---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1093/bioinformatics/btu033\n\t\t24451623\n\t\tPMC3998144\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c265287723bebd8664b90c"},"refKey":39},
{"_key":"60c2655c7723bebd8664b941","_id":"references/60c2655c7723bebd8664b941","_rev":"_cfFk4cW---","tei":"\n\t\n\t\tIntroducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities\n\t\t\n\t\t\tPDSchloss\n\t\t\n\t\t\n\t\t\tSLWestcott\n\t\t\n\t\t\n\t\t\tTRyabin\n\t\t\n\t\t\n\t\t\tJRHall\n\t\t\n\t\t\n\t\t\tMHartmann\n\t\t\n\t\t\n\t\t\tEBHollister\n\t\t\n\t\t\n\t\t\tRALesniewski\n\t\t\n\t\t\n\t\t\tBBOakley\n\t\t\n\t\t\n\t\t\tDHParks\n\t\t\n\t\t\n\t\t\tCJRobinson\n\t\t\n\t\t\n\t\t\tJWSahl\n\t\t\n\t\t\n\t\t\tBStres\n\t\t\n\t\t\n\t\t\tGGThallinger\n\t\t\n\t\t\n\t\t\tDJVan Horn\n\t\t\n\t\t\n\t\t\tCFWeber\n\t\t\n\t\t10.1128/aem.01541-09\n\t\t19801464\n\t\tPMC2786419\n\t\t\n\t\n\t\n\t\tApplied and Environmental Microbiology\n\t\tApplied and Environmental Microbiology\n\t\t0099-2240\n\t\t\n\t\t\t75\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c2655c7723bebd8664b940"},"refKey":29},
{"_key":"60c2655c7723bebd8664b942","_id":"references/60c2655c7723bebd8664b942","_rev":"_cfFk4ci---","tei":"\n\t\n\t\tUPARSE: highly accurate OTU sequences from microbial amplicon reads\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t10.1038/nmeth.2604\n\t\t23955772\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t10\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2655c7723bebd8664b940"},"refKey":27},
{"_key":"60c2655c7723bebd8664b943","_id":"references/60c2655c7723bebd8664b943","_rev":"_cfFk4cq---","tei":"\n\t\n\t\tThe SILVA ribosomal RNA gene database project: improved data processing and web-based tools\n\t\t\n\t\t\tChristianQuast\n\t\t\n\t\t\n\t\t\tElmarPruesse\n\t\t\n\t\t\n\t\t\tPelinYilmaz\n\t\t\n\t\t\n\t\t\tJanGerken\n\t\t\n\t\t\n\t\t\tTimmySchweer\n\t\t\n\t\t\n\t\t\tPabloYarza\n\t\t\n\t\t\n\t\t\tJörgPeplies\n\t\t\n\t\t\n\t\t\tFrankOliverGlöckner\n\t\t\n\t\t10.1093/nar/gks1219\n\t\t23193283\n\t\tPMC3531112\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2655c7723bebd8664b940"},"refKey":28},
{"_key":"60c2655c7723bebd8664b944","_id":"references/60c2655c7723bebd8664b944","_rev":"_cfFk4c2---","tei":"\n\t\n\t\tQIIME allows analysis of high-throughput community sequencing data\n\t\t\n\t\t\tJGregoryCaporaso\n\t\t\n\t\t\n\t\t\tJustinKuczynski\n\t\t\n\t\t\n\t\t\tJesseStombaugh\n\t\t\n\t\t\n\t\t\tKyleBittinger\n\t\t\n\t\t\n\t\t\tFredericDBushman\n\t\t\n\t\t\n\t\t\tElizabethKCostello\n\t\t\n\t\t\n\t\t\tNoahFierer\n\t\t\n\t\t\n\t\t\tAntonioGonzalezPeña\n\t\t\n\t\t\n\t\t\tJuliaKGoodrich\n\t\t\n\t\t\n\t\t\tJeffreyIGordon\n\t\t\n\t\t\n\t\t\tGavinAHuttley\n\t\t\n\t\t\n\t\t\tScottTKelley\n\t\t\n\t\t\n\t\t\tDanKnights\n\t\t\n\t\t\n\t\t\tJeremyEKoenig\n\t\t\n\t\t\n\t\t\tRuthELey\n\t\t\n\t\t\n\t\t\tCatherineALozupone\n\t\t\n\t\t\n\t\t\tDanielMcdonald\n\t\t\n\t\t\n\t\t\tBrianDMuegge\n\t\t\n\t\t\n\t\t\tMegPirrung\n\t\t\n\t\t\n\t\t\tJensReeder\n\t\t\n\t\t\n\t\t\tJoelRSevinsky\n\t\t\n\t\t\n\t\t\tPeterJTurnbaugh\n\t\t\n\t\t\n\t\t\tWilliamAWalters\n\t\t\n\t\t\n\t\t\tJeremyWidmann\n\t\t\n\t\t\n\t\t\tTanyaYatsunenko\n\t\t\n\t\t\n\t\t\tJesseZaneveld\n\t\t\n\t\t\n\t\t\tRobKnight\n\t\t\n\t\t10.1038/nmeth.f.303\n\t\t20383131\n\t\tPMC3156573\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t7\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2655c7723bebd8664b940"},"refKey":24},
{"_key":"60c2655c7723bebd8664b945","_id":"references/60c2655c7723bebd8664b945","_rev":"_cfFk4dC---","tei":"\n\t\n\t\tFLASH: fast length adjustment of short reads to improve genome assemblies\n\t\t\n\t\t\tTMagoc\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t10.1093/bioinformatics/btr507\n\t\t21903629\n\t\tPMC3198573\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2655c7723bebd8664b940"},"refKey":25},
{"_key":"60c2655c7723bebd8664b946","_id":"references/60c2655c7723bebd8664b946","_rev":"_cfFk4dK---","tei":"\n\t\n\t\tUCHIME improves sensitivity and speed of chimera detection\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t\n\t\t\tBrianJHaas\n\t\t\n\t\t\n\t\t\tJoseCClemente\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tRobKnight\n\t\t\n\t\t10.1093/bioinformatics/btr381\n\t\t21700674\n\t\tPMC3150044\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2655c7723bebd8664b940"},"refKey":26},
{"_key":"60c2655e7723bebd8664b94e","_id":"references/60c2655e7723bebd8664b94e","_rev":"_cfFk4dW---","tei":"\n\t\n\t\tProving JDK’s Dual Pivot Quicksort Correct\n\t\t\n\t\t\tBernhardBeckert\n\t\t\n\t\t\n\t\t\tJonasSchiffl\n\t\t\n\t\t\n\t\t\tPeterHSchmitt\n\t\t\n\t\t\n\t\t\tMattiasUlbrich\n\t\t\n\t\t10.1007/978-3-319-72308-2_3\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tAPaskevich\n\t\t\tTWies\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t10712\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2655e7723bebd8664b94d"},"refKey":2},
{"_key":"60c2655e7723bebd8664b94f","_id":"references/60c2655e7723bebd8664b94f","_rev":"_cfFk4di---","tei":"\n\t\n\t\tOpenJDK’s Java.utils.Collection.sort() Is Broken: The Good, the Bad and the Worst Case\n\t\t\n\t\t\tStijnDe Gouw\n\t\t\n\t\t\n\t\t\tJurriaanRot\n\t\t\n\t\t\n\t\t\tFrankSDe Boer\n\t\t\n\t\t\n\t\t\tRichardBubel\n\t\t\n\t\t\n\t\t\tReinerHähnle\n\t\t\n\t\t10.1007/978-3-319-21690-4_16\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tDKroening\n\t\t\tCSPȃsȃreanu\n\t\t\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t9206\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2655e7723bebd8664b94d"},"refKey":9},
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{"_key":"60c2655e7723bebd8664b951","_id":"references/60c2655e7723bebd8664b951","_rev":"_cfFk4d2---","tei":"\n\t\n\t\t\n\t\n\t\n\t\tBoost C++ libraries\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2655e7723bebd8664b94d"},"refKey":5},
{"_key":"60c2655e7723bebd8664b952","_id":"references/60c2655e7723bebd8664b952","_rev":"_cfFk4eC---","tei":"\n\t\n\t\tThe GNU C++ library\n\t\t7.4.0\n\t\t\n\t\n\n","document":{"$oid":"60c2655e7723bebd8664b94d"},"refKey":15},
{"_key":"60c265687723bebd8664b973","_id":"references/60c265687723bebd8664b973","_rev":"_cfFk4eO---","tei":"\n\t\n\t\tR: A language and environment for statistical computing (R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c265687723bebd8664b972"},"refKey":56},
{"_key":"60c2656d7723bebd8664b97e","_id":"references/60c2656d7723bebd8664b97e","_rev":"_cfFk4ea---","tei":"\n\t\n\t\t\n\t\n\t\n\t\tCritical Appraisal Skills Programme. CASP Checklist. Casp\n\t\t\n\t\t\t2020\n\t\t\t\n\t\t\n\t\n\tInternet. cited\n\n","document":{"$oid":"60c2656d7723bebd8664b97d"},"refKey":51},
{"_key":"60c265777723bebd8664b986","_id":"references/60c265777723bebd8664b986","_rev":"_cfFk4ei---","tei":"\n\t\n\t\tImproved method for predicting linear B-cell epitopes\n\t\t\n\t\t\tJELarsen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunome Res\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c265777723bebd8664b985"},"refKey":17},
{"_key":"60c265777723bebd8664b987","_id":"references/60c265777723bebd8664b987","_rev":"_cfFk4eu---","tei":"\n\t\n\t\tProtTest: selection of best-fit models of protein evolution\n\t\t\n\t\t\tFAbascal\n\t\t\n\t\t\n\t\t\tRZardoya\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bti263\n\t\t15647292\n\t\tark:/67375/HXZ-D6WW2837-4\n\t\t14C86F5F104B729355097F145DAB071E95F816FF\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c265777723bebd8664b985"},"refKey":0},
{"_key":"60c265777723bebd8664b988","_id":"references/60c265777723bebd8664b988","_rev":"_cfFk4e6---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis, version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c265777723bebd8664b985"},"refKey":28},
{"_key":"60c265777723bebd8664b989","_id":"references/60c265777723bebd8664b989","_rev":"_cfFk4fG---","tei":"\n\t\n\t\tPhylemon 2.0: a suite of web-tools for molecular evolution, phylogenetics, phylogenomics and hypotheses testing\n\t\t\n\t\t\tRSanchez\n\t\t\n\t\t\n\t\t\tFSerra\n\t\t\n\t\t\n\t\t\tJTarraga\n\t\t\n\t\t\n\t\t\tIMedina\n\t\t\n\t\t\n\t\t\tJCarbonell\n\t\t\n\t\t\n\t\t\tLPulido\n\t\t\n\t\t\n\t\t\tADe Maria\n\t\t\n\t\t\n\t\t\tSCapella-Gutierrez\n\t\t\n\t\t\n\t\t\tJHuerta-Cepas\n\t\t\n\t\t\n\t\t\tTGabaldon\n\t\t\n\t\t\n\t\t\tJDopazo\n\t\t\n\t\t\n\t\t\tHDopazo\n\t\t\n\t\t10.1093/nar/gkr408\n\t\t21646336\n\t\tPMC3125789\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t39\n\t\t\tsuppl\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c265777723bebd8664b985"},"refKey":25},
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{"_key":"60c265857723bebd8664b998","_id":"references/60c265857723bebd8664b998","_rev":"_cfFk4fa---","tei":"\n\t\n\t\tAn introduction to dimensionality reduction using matlab\n\t\t\n\t\t\tLjpVan Der Maaten\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tReport\n\n","document":{"$oid":"60c265857723bebd8664b997"},"refKey":125},
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{"_key":"60c2666b7723bebd8664ba99","_id":"references/60c2666b7723bebd8664ba99","_rev":"_cfFk4iC---","tei":"\n\t\n\t\tThe neighbor-joining method: A new method for reconstructing phylogenetic trees\n\t\t\n\t\t\tNSaitou\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t10.1093/oxfordjournals.molbev.a040454\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tMolecular Biology and Evolution . 4. Pg 406-425\n\n","document":{"$oid":"60c2666b7723bebd8664ba97"},"refKey":22},
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{"_key":"60c2689a7723bebd8664bcb2","_id":"references/60c2689a7723bebd8664bcb2","_rev":"_cfFk4ny---","tei":"\n\t\n\t\tGlobal patterns in coronavirus diversity\n\t\t\n\t\t\tSimonJAnthony\n\t\t\n\t\t\n\t\t\tChristineKJohnson\n\t\t\n\t\t\n\t\t\tDeniseJGreig\n\t\t\n\t\t\n\t\t\tSarahKramer\n\t\t\n\t\t\n\t\t\tXiaoyuChe\n\t\t\n\t\t\n\t\t\tHeatherWells\n\t\t\n\t\t\n\t\t\tAllisonLHicks\n\t\t\n\t\t\n\t\t\tDamienOJoly\n\t\t\n\t\t\n\t\t\tNathanDWolfe\n\t\t\n\t\t\n\t\t\tPeterDaszak\n\t\t\n\t\t\n\t\t\tWilliamKaresh\n\t\t\n\t\t\n\t\t\tWILipkin\n\t\t\n\t\t\n\t\t\tStephenSMorse\n\t\t\n\t\t\n\t\t\tJonnaA KMazet\n\t\t\n\t\t\n\t\t\tTraceyGoldstein\n\t\t\n\t\t10.1093/ve/vex012\n\t\t28630747\n\t\tPMC5467638\n\t\t\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2689a7723bebd8664bcaf"},"refKey":3},
{"_key":"60c268b57723bebd8664bd33","_id":"references/60c268b57723bebd8664bd33","_rev":"_cfFk4n6---","tei":"\n\t\n\t\tGeneralized Linear Mixed Models using Adaptive Gaussian Quadrature\n\t\t\n\t\t\tDRizopoulos\n\t\t\n\t\t\n\t\t\tGlmmadaptive\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package v. 0.7-0. 2020.\n\n","document":{"$oid":"60c268b57723bebd8664bd32"},"refKey":6},
{"_key":"60c268d27723bebd8664bd49","_id":"references/60c268d27723bebd8664bd49","_rev":"_cfFk4oG---","tei":"\n\t\n\t\tReference-free cell mixture adjustments in analysis of DNA methylation data\n\t\t\n\t\t\tEugeneAndresHouseman\n\t\t\n\t\t\n\t\t\tJohnMolitor\n\t\t\n\t\t\n\t\t\tCarmenJMarsit\n\t\t\n\t\t10.1093/bioinformatics/btu029\n\t\t24451622\n\t\tPMC4016702\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c268d27723bebd8664bd48"},"refKey":15},
{"_key":"60c268d27723bebd8664bd4a","_id":"references/60c268d27723bebd8664bd4a","_rev":"_cfFk4oS---","tei":"\n\t\n\t\tCapturing Heterogeneity in Gene Expression Studies by "Surrogate Variable Analysis"\n\t\t\n\t\t\tJeffreyTLeek\n\t\t\n\t\t\n\t\t\tJohnDStorey\n\t\t\n\t\t10.1371/journal.pgen.0030161.eor\n\t\n\t\n\t\tPLoS Genetics\n\t\tPLoS Genet\n\t\t1553-7390\n\t\t1553-7404\n\t\t\n\t\t\tpreprint\n\t\t\t2007\n\t\t\te161\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c268d27723bebd8664bd48"},"refKey":16},
{"_key":"60c268d27723bebd8664bd4b","_id":"references/60c268d27723bebd8664bd4b","_rev":"_cfFk4oe---","tei":"\n\t\n\t\tggplot2" Based Publication Ready Plots\n\t\t\n\t\t\tAKassambara\n\t\t\n\t\t\n\t\t\tGgpubr\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c268d27723bebd8664bd48"},"refKey":36},
{"_key":"60c268da7723bebd8664bd5a","_id":"references/60c268da7723bebd8664bd5a","_rev":"_cfFk4om---","tei":"\n\t\n\t\t\n\t\t\tDSlayton\n\t\t\n\t\t\n\t\t\tNSydow\n\t\t\n\t\t\n\t\t\tBMMcormack\n\t\t\n\t\t\n\t\t\tEMiskely\n\t\t\n\t\t\n\t\t\tGAGrant\n\t\t\n\t\t\n\t\t\tJRJablonski\n\t\t\n\t\t\n\t\t\tJBarry\n\t\t\n\t\t\n\t\tLights, Camera, Motions (Webinar). Available at\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c268da7723bebd8664bd59"},"refKey":25},
{"_key":"60c268dd7723bebd8664bd66","_id":"references/60c268dd7723bebd8664bd66","_rev":"_cfFk4oy---","tei":"\n\t\n\t\tA theory of growth\n\t\t\n\t\t\tMalcolmETurner\n\t\t\n\t\t\n\t\t\tEdwinLBradley\n\t\t\n\t\t\n\t\t\tKatherineAKirk\n\t\t\n\t\t\n\t\t\tKennethMPruitt\n\t\t\n\t\t10.1016/0025-5564(76)90112-7\n\t\t0025-5564(76)90112-7\n\t\tark:/67375/6H6-3QFSLN21-9\n\t\t3EAF4344C4A6AF48F6B14E0E42952D49440BAFC1\n\t\t1016/0025-5564(76)90112-7\n\t\t\n\t\n\t\n\t\tMathematical Biosciences\n\t\tMathematical Biosciences\n\t\t0025-5564\n\t\t\n\t\t\t29\n\t\t\t3-4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c268dd7723bebd8664bd65"},"refKey":20},
{"_key":"60c268dd7723bebd8664bd67","_id":"references/60c268dd7723bebd8664bd67","_rev":"_cfFk4p----","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c268dd7723bebd8664bd65"},"refKey":23},
{"_key":"60c268ef7723bebd8664be11","_id":"references/60c268ef7723bebd8664be11","_rev":"_cfFk4pG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tStan -Stan\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c268ef7723bebd8664be10"},"refKey":22},
{"_key":"60c269407723bebd8664be3b","_id":"references/60c269407723bebd8664be3b","_rev":"_cfFk4pS---","tei":"\n\t\n\t\tProdigal: prokaryotic gene recognition and translation initiation site identification\n\t\t\n\t\t\tDHyatt\n\t\t\n\t\t\n\t\t\tG.-LChen\n\t\t\n\t\t\n\t\t\tPFLocascio\n\t\t\n\t\t\n\t\t\tMLLand\n\t\t\n\t\t\n\t\t\tFWLarimer\n\t\t\n\t\t\n\t\t\tLJHauser\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t11\n\t\t\t119\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269407723bebd8664be3a"},"refKey":42},
{"_key":"60c269407723bebd8664be3c","_id":"references/60c269407723bebd8664be3c","_rev":"_cfFk4pe---","tei":"\n\t\n\t\ttRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence\n\t\t\n\t\t\tTMLowe\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269407723bebd8664be3a"},"refKey":67},
{"_key":"60c269407723bebd8664be3d","_id":"references/60c269407723bebd8664be3d","_rev":"_cfFk4pm---","tei":"\n\t\n\t\tUsing the Basic Local Alignment Search Tool (BLAST)\n\t\t\n\t\t\tDavidWMount\n\t\t\n\t\t10.1101/pdb.top17\n\t\t21357135\n\t\n\t\n\t\tCold Spring Harbor Protocols\n\t\tCold Spring Harb Protoc\n\t\t1559-6095\n\t\t\n\t\t\t2007\n\t\t\t7\n\t\t\tpdb.top17\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c269407723bebd8664be3a"},"refKey":76},
{"_key":"60c269407723bebd8664be3e","_id":"references/60c269407723bebd8664be3e","_rev":"_cfFk4py---","tei":"\n\t\n\t\tRNAmmer: consistent and rapid annotation of ribosomal RNA genes\n\t\t\n\t\t\tKLagesen\n\t\t\n\t\t\n\t\t\tPHallin\n\t\t\n\t\t\n\t\t\tEARødland\n\t\t\n\t\t\n\t\t\tH.-HStaerfeldt\n\t\t\n\t\t\n\t\t\tTRognes\n\t\t\n\t\t\n\t\t\tDWUssery\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269407723bebd8664be3a"},"refKey":59},
{"_key":"60c269407723bebd8664be3f","_id":"references/60c269407723bebd8664be3f","_rev":"_cfFk4q----","tei":"\n\t\n\t\tInfernal 1.1: 100-fold faster RNA homology searches\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269407723bebd8664be3a"},"refKey":79},
{"_key":"60c269407723bebd8664be40","_id":"references/60c269407723bebd8664be40","_rev":"_cfFk4qK---","tei":"\n\t\n\t\tSignalP 5.0 improves signal peptide predictions using deep neural networks\n\t\t\n\t\t\tJJAlmagro Armenteros\n\t\t\n\t\t\n\t\t\tKDTsirigos\n\t\t\n\t\t\n\t\t\tCKSønderby\n\t\t\n\t\t\n\t\t\tTNPetersen\n\t\t\n\t\t\n\t\t\tOWinther\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269407723bebd8664be3a"},"refKey":1},
{"_key":"60c269407723bebd8664be41","_id":"references/60c269407723bebd8664be41","_rev":"_cfFk4qS---","tei":"\n\t\n\t\tArtificial Neural Networks Trained to Detect Viral and Phage Structural Proteins\n\t\t\n\t\t\tVictorSeguritan\n\t\t\n\t\t\n\t\t\tNelsonAlves\n\t\t\n\t\t\n\t\t\tMichaelArnoult\n\t\t\n\t\t\n\t\t\tAmyRaymond\n\t\t\n\t\t\n\t\t\tDonLorimer\n\t\t\n\t\t\n\t\t\tAlexBBurgin\n\t\t\n\t\t\n\t\t\tPeterSalamon\n\t\t\n\t\t\n\t\t\tAncaMSegall\n\t\t\n\t\t10.1371/journal.pcbi.1002657\n\t\t22927809\n\t\tPMC3426561\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t8\n\t\t\t8\n\t\t\te1002657\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c269407723bebd8664be3a"},"refKey":105},
{"_key":"60c269587723bebd8664be5c","_id":"references/60c269587723bebd8664be5c","_rev":"_cfFk4qe---","tei":"\n\t\n\t\tA simple physical model for binding energy hot spots in protein-protein complexes\n\t\t\n\t\t\tTKortemme\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\t10.1073/pnas.202485799\n\t\t12381794\n\t\tPMC137846\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t99\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c269587723bebd8664be5b"},"refKey":25},
{"_key":"60c269587723bebd8664be5d","_id":"references/60c269587723bebd8664be5d","_rev":"_cfFk4qq---","tei":"\n\t\n\t\tComputational design of protein–protein interactions\n\t\t\n\t\t\tTanjaKortemme\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t10.1016/j.cbpa.2003.12.008\n\t\t15036162\n\t\n\t\n\t\tCurrent Opinion in Chemical Biology\n\t\tCurrent Opinion in Chemical Biology\n\t\t1367-5931\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c269587723bebd8664be5b"},"refKey":26},
{"_key":"60c2696c7723bebd8664be72","_id":"references/60c2696c7723bebd8664be72","_rev":"_cfFk4qy---","tei":"\n\t\n\t\tPosterior Summarization in Bayesian Phylogenetics Using Tracer 1.7\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syy032\n\t\t29718447\n\t\tPMC6101584\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t67\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2696c7723bebd8664be71"},"refKey":41},
{"_key":"60c2696c7723bebd8664be73","_id":"references/60c2696c7723bebd8664be73","_rev":"_cfFk4r----","tei":"\n\t\n\t\tBEAGLE 3: Improved Performance, Scaling, and Usability for a High-Performance Computing Library for Statistical Phylogenetics\n\t\t\n\t\t\tDanielLAyres\n\t\t\n\t\t\n\t\t\tMichaelPCummings\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tAaronEDarling\n\t\t\n\t\t\n\t\t\tPaulOLewis\n\t\t\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tJohnPHuelsenbeck\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syz020\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2696c7723bebd8664be71"},"refKey":0},
{"_key":"60c2696c7723bebd8664be74","_id":"references/60c2696c7723bebd8664be74","_rev":"_cfFk4rK---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tTommyTLam\n\t\t\n\t\t\n\t\t\tLuizMax Carvalho\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t10.1093/ve/vew007\n\t\t27774300\n\t\tPMC4989882\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\tVirus Evol\n\t\t2057-1577\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\tvew007\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2696c7723bebd8664be71"},"refKey":43},
{"_key":"60c2698b7723bebd8664be87","_id":"references/60c2698b7723bebd8664be87","_rev":"_cfFk4rW---","tei":"\n\t\n\t\tThe Hitchhiker’s Guide to Testing Statistical Significance in Natural Language Processing\n\t\t\n\t\t\tRotemDror\n\t\t\n\t\t\n\t\t\tGiliBaumer\n\t\t\n\t\t\n\t\t\tSegevShlomov\n\t\t\n\t\t\n\t\t\tRoiReichart\n\t\t\n\t\t10.18653/v1/p18-1128\n\t\t\n\t\n\t\n\t\tProceedings of the 56th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers)\n\t\t\t\tthe 56th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers)\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2698b7723bebd8664be86"},"refKey":5},
{"_key":"60c269c07723bebd8664bebf","_id":"references/60c269c07723bebd8664bebf","_rev":"_cfFk4re---","tei":"\n\t\n\t\tGOBU: Toward an integration interface for biological objects\n\t\t\n\t\t\tWDLin\n\t\t\n\t\t\n\t\t\tYCChen\n\t\t\n\t\t\n\t\t\tJMHo\n\t\t\n\t\t\n\t\t\tCDHsiao\n\t\t\n\t\n\t\n\t\tJ Inf Sci Eng\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269c07723bebd8664bebe"},"refKey":44},
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{"_key":"60c269c07723bebd8664bec1","_id":"references/60c269c07723bebd8664bec1","_rev":"_cfFk4r2---","tei":"\n\t\n\t\tThe UCSC genome browser database: update 2007\n\t\t\n\t\t\tRMKuhn\n\t\t\n\t\t\n\t\t\tDKarolchik\n\t\t\n\t\t\n\t\t\tASZweig\n\t\t\n\t\t\n\t\t\tHTrumbower\n\t\t\n\t\t\n\t\t\tDJThomas\n\t\t\n\t\t\n\t\t\tAThakkapallayil\n\t\t\n\t\t\n\t\t\tCWSugnet\n\t\t\n\t\t\n\t\t\tMStanke\n\t\t\n\t\t\n\t\t\tKESmith\n\t\t\n\t\t\n\t\t\tASiepel\n\t\t\n\t\t\n\t\t\tKRRosenbloom\n\t\t\n\t\t\n\t\t\tBRhead\n\t\t\n\t\t\n\t\t\tBJRaney\n\t\t\n\t\t\n\t\t\tAPohl\n\t\t\n\t\t\n\t\t\tJSPedersen\n\t\t\n\t\t\n\t\t\tFHsu\n\t\t\n\t\t\n\t\t\tASHinrichs\n\t\t\n\t\t\n\t\t\tRAHarte\n\t\t\n\t\t\n\t\t\tMDiekhans\n\t\t\n\t\t\n\t\t\tHClawson\n\t\t\n\t\t\n\t\t\tGBejerano\n\t\t\n\t\t\n\t\t\tGPBarber\n\t\t\n\t\t\n\t\t\tRBaertsch\n\t\t\n\t\t\n\t\t\tDHaussler\n\t\t\n\t\t\n\t\t\tWJKent\n\t\t\n\t\t10.1093/nar/gkl928\n\t\t17142222\n\t\tPMC1669757\n\t\tark:/67375/HXZ-F88D0KRX-N\n\t\t82A184D12A09E6692C1556C755304A8EE3E61BEC\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c269c07723bebd8664bebe"},"refKey":41},
{"_key":"60c269e97723bebd8664befc","_id":"references/60c269e97723bebd8664befc","_rev":"_cfFk4s----","tei":"\n\t\n\t\tInteraction of α-cyperone with human serum albumin: Determination of the binding site by using Discovery Studio and via spectroscopic methods\n\t\t\n\t\t\tQingWang\n\t\t\n\t\t\n\t\t\tJiaweiHe\n\t\t\n\t\t\n\t\t\tDiWu\n\t\t\n\t\t\n\t\t\tJingWang\n\t\t\n\t\t\n\t\t\tJinYan\n\t\t\n\t\t\n\t\t\tHuiLi\n\t\t\n\t\t10.1016/j.jlumin.2015.03.025\n\t\n\t\n\t\tJournal of Luminescence\n\t\tJournal of Luminescence\n\t\t0022-2313\n\t\t\n\t\t\t164\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c269e97723bebd8664befb"},"refKey":42},
{"_key":"60c269e97723bebd8664befd","_id":"references/60c269e97723bebd8664befd","_rev":"_cfFk4sK---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269e97723bebd8664befb"},"refKey":22},
{"_key":"60c269e97723bebd8664befe","_id":"references/60c269e97723bebd8664befe","_rev":"_cfFk4sW---","tei":"\n\t\n\t\tSmall-molecule library screening by docking with PyRx\n\t\t\n\t\t\tSDallakyan\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t1263\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269e97723bebd8664befb"},"refKey":38},
{"_key":"60c269e97723bebd8664beff","_id":"references/60c269e97723bebd8664beff","_rev":"_cfFk4si---","tei":"\n\t\n\t\tPython: A programming language for software integration and development\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics and Modelling\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269e97723bebd8664befb"},"refKey":39},
{"_key":"60c269e97723bebd8664bf00","_id":"references/60c269e97723bebd8664bf00","_rev":"_cfFk4sq---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269e97723bebd8664befb"},"refKey":40},
{"_key":"60c269e97723bebd8664bf01","_id":"references/60c269e97723bebd8664bf01","_rev":"_cfFk4s2---","tei":"\n\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\tMolecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c269e97723bebd8664befb"},"refKey":20},
{"_key":"60c269e97723bebd8664bf02","_id":"references/60c269e97723bebd8664bf02","_rev":"_cfFk4tC---","tei":"\n\t\n\t\tProtein structure prediction on the Web: a case study using the Phyre server\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tMJSternberg\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269e97723bebd8664befb"},"refKey":41},
{"_key":"60c269e97723bebd8664bf03","_id":"references/60c269e97723bebd8664bf03","_rev":"_cfFk4tK---","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c269e97723bebd8664befb"},"refKey":43},
{"_key":"60c26a2a7723bebd8664bf39","_id":"references/60c26a2a7723bebd8664bf39","_rev":"_cfFk4tW---","tei":"\n\t\n\t\tSystems-Level Analyses of the Mammalian Innate Immune Response\n\t\t\n\t\t\tDavidJLynn\n\t\t\n\t\t\n\t\t\tJenniferLGardy\n\t\t\n\t\t\n\t\t\tChristopherDFjell\n\t\t\n\t\t\n\t\t\tRobertE WHancock\n\t\t\n\t\t\n\t\t\tFionaS LBrinkman\n\t\t\n\t\t10.1007/978-1-4419-5797-9_22\n\t\n\t\n\t\tSystems Biology for Signaling Networks\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c26a2a7723bebd8664bf38"},"refKey":27},
{"_key":"60c26a327723bebd8664bf46","_id":"references/60c26a327723bebd8664bf46","_rev":"_cfFk4ti---","tei":"\n\t\n\t\tThe EIRENE and B2-EIRENE Codes\n\t\t\n\t\t\tDReiter\n\t\t\n\t\t\n\t\t\tMBaelmans\n\t\t\n\t\t\n\t\t\tPBörner\n\t\t\n\t\t10.13182/fst47-172\n\t\t\n\t\n\t\n\t\tFusion Science and Technology\n\t\tFusion Science and Technology\n\t\t1536-1055\n\t\t1943-7641\n\t\t\n\t\t\t47\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c26a327723bebd8664bf45"},"refKey":18},
{"_key":"60c26a327723bebd8664bf47","_id":"references/60c26a327723bebd8664bf47","_rev":"_cfFk4tu---","tei":"\n\t\n\t\tNeutral Gas Transport Modeling with DEGAS 2\n\t\t\n\t\t\tDarenStotler\n\t\t\n\t\t\n\t\t\tCharlesKarney\n\t\t\n\t\t10.1002/ctpp.2150340246\n\t\tark:/67375/WNG-Z392XBR0-M\n\t\tEB805068DDBD492C2FD0B528087AE748723EDE78\n\t\t\n\t\t\n\t\n\t\n\t\tContributions to Plasma Physics\n\t\tContrib. Plasma.Phys.\n\t\t0863-1042\n\t\t1521-3986\n\t\t\n\t\t\t34\n\t\t\t2-3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c26a327723bebd8664bf45"},"refKey":19},
{"_key":"60c26a8c7723bebd8664c03d","_id":"references/60c26a8c7723bebd8664c03d","_rev":"_cfFk4t2---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tL.-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAHaeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c26a8c7723bebd8664c03c"},"refKey":111},
{"_key":"60c26a8c7723bebd8664c03e","_id":"references/60c26a8c7723bebd8664c03e","_rev":"_cfFk4uC---","tei":"\n\t\n\t\tModelFinder: fast model selection for accurate phylogenetic estimates\n\t\t\n\t\t\tSKalyaanamoorthy\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tTK FWong\n\t\t\n\t\t\n\t\t\tAHaeseler\n\t\t\n\t\t\n\t\t\tLSJermiin\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c26a8c7723bebd8664c03c"},"refKey":112},
{"_key":"60c26a8c7723bebd8664c03f","_id":"references/60c26a8c7723bebd8664c03f","_rev":"_cfFk4uO---","tei":"\n\t\n\t\tUFBoot2: Improving the Ultrafast Bootstrap Approximation\n\t\t\n\t\t\tDiepThiHoang\n\t\t\n\t\t\n\t\t\tOlgaChernomor\n\t\t\n\t\t\n\t\t\tArndtVonHaeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t\n\t\t\tLeSyVinh\n\t\t\n\t\t10.1101/153916\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c26a8c7723bebd8664c03c"},"refKey":113},
{"_key":"60c26aca7723bebd8664c057","_id":"references/60c26aca7723bebd8664c057","_rev":"_cfFk4uW---","tei":"\n\t\n\t\tAdinda: a knowledgeable, browser-based IDE\n\t\t\n\t\t\tAVan Deursen\n\t\t\n\t\t\n\t\t\tAMesbah\n\t\t\n\t\t\n\t\t\tBCornelissen\n\t\t\n\t\t\n\t\t\tAZaidman\n\t\t\n\t\t\n\t\t\tMPinzger\n\t\t\n\t\t\n\t\t\tAGuzzi\n\t\t\n\t\t10.1145/1810295.1810330\n\t\t\n\t\n\t\n\t\tProceedings of the 32nd ACM/IEEE International Conference on Software Engineering\n\t\t\t\tthe 32nd ACM/IEEE International Conference on Software EngineeringNew York\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\tICSE 2010)\n\n","document":{"$oid":"60c26aca7723bebd8664c056"},"refKey":3},
{"_key":"60c26aea7723bebd8664c090","_id":"references/60c26aea7723bebd8664c090","_rev":"_cfFk4ui---","tei":"\n\t\n\t\tMEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tSinaBeier\n\t\t\n\t\t\n\t\t\tIsabellFlade\n\t\t\n\t\t\n\t\t\tAnnaGórska\n\t\t\t0000-0003-3305-8711\n\t\t\n\t\t\n\t\t\tMohamedEl-Hadidi\n\t\t\t0000-0002-0360-3654\n\t\t\n\t\t\n\t\t\tSuparnaMitra\n\t\t\t0000-0002-9378-1496\n\t\t\n\t\t\n\t\t\tHans-JoachimRuscheweyh\n\t\t\n\t\t\n\t\t\tRewatiTappu\n\t\t\n\t\t10.1371/journal.pcbi.1004957\n\t\t27327495\n\t\tPMC4915700\n\t\tdoi: 10. 1371/journal.pcbi.1004957\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\te1004957\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c26aea7723bebd8664c08f"},"refKey":15},
{"_key":"60c26aea7723bebd8664c091","_id":"references/60c26aea7723bebd8664c091","_rev":"_cfFk4uu---","tei":"\n\t\n\t\tInteractive tree of life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/nar/gkz239\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c26aea7723bebd8664c08f"},"refKey":23},
{"_key":"60c26aea7723bebd8664c092","_id":"references/60c26aea7723bebd8664c092","_rev":"_cfFk4u6---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c26aea7723bebd8664c08f"},"refKey":24},
{"_key":"60c26aea7723bebd8664c093","_id":"references/60c26aea7723bebd8664c093","_rev":"_cfFk4vC---","tei":"\n\t\n\t\tMaking automated multiple alignments of very large numbers of protein sequences\n\t\t\n\t\t\tFabianSievers\n\t\t\n\t\t\n\t\t\tDavidDineen\n\t\t\n\t\t\n\t\t\tAndreasWilm\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btt093\n\t\t23428640\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c26aea7723bebd8664c08f"},"refKey":42},
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{"_key":"60c26c7f7723bebd8664c2a6","_id":"references/60c26c7f7723bebd8664c2a6","_rev":"_cfFk41W---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\t\n\t\t\tNealeBTodd-Brown\n\t\t\n\t\t\n\t\t\tK\n\t\t\n\t\n\t\n\t\tThe American journal of human genetics\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c26c7f7723bebd8664c2a5"},"refKey":19},
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{"_key":"60c26c877723bebd8664c2b5","_id":"references/60c26c877723bebd8664c2b5","_rev":"_cfFk41u---","tei":"\n\t\n\t\tpcaReduce: Hierarchical Clustering of Single Cell Transcriptional Profiles\n\t\t\n\t\t\tJustinaZurauskiene\n\t\t\n\t\t\n\t\t\tChristopherYau\n\t\t\n\t\t10.1101/026385\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t140\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c26c877723bebd8664c2b3"},"refKey":19},
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{"_key":"60c26c997723bebd8664c2d0","_id":"references/60c26c997723bebd8664c2d0","_rev":"_cfFk42W---","tei":"\n\t\n\t\tEfficient algorithms for the reconciliation problem with gene duplication, horizontal transfer and loss\n\t\t\n\t\t\tMukulSBansal\n\t\t\n\t\t\n\t\t\tEricJAlm\n\t\t\n\t\t\n\t\t\tManolisKellis\n\t\t\n\t\t10.1093/bioinformatics/bts225\n\t\t22689773\n\t\tPMC3371857\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c26c997723bebd8664c2cc"},"refKey":37},
{"_key":"60c26c997723bebd8664c2d1","_id":"references/60c26c997723bebd8664c2d1","_rev":"_cfFk42i---","tei":"\n\t\n\t\tComputational approaches to species phylogeny inference and gene tree reconciliation\n\t\t\n\t\t\tLuayNakhleh\n\t\t\n\t\t10.1016/j.tree.2013.09.004\n\t\t24094331\n\t\tPMC3855310\n\t\t\n\t\n\t\n\t\tTrends in Ecology & Evolution\n\t\tTrends in Ecology & Evolution\n\t\t0169-5347\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c26c997723bebd8664c2cc"},"refKey":50},
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{"_key":"60c26cb27723bebd8664c2f7","_id":"references/60c26cb27723bebd8664c2f7","_rev":"_cfFk43O---","tei":"\n\t\n\t\tMicrobial strain-level population structure and genetic diversity from metagenomes\n\t\t\n\t\t\tDuyTinTruong\n\t\t\t0000-0002-4169-7727\n\t\t\n\t\t\n\t\t\tAdrianTett\n\t\t\n\t\t\n\t\t\tEdoardoPasolli\n\t\t\t0000-0003-0799-3490\n\t\t\n\t\t\n\t\t\tCurtisHuttenhower\n\t\t\t0000-0002-1110-0096\n\t\t\n\t\t\n\t\t\tNicolaSegata\n\t\t\t0000-0002-1583-5794\n\t\t\n\t\t10.1101/gr.216242.116\n\t\t28167665\n\t\tPMC5378180\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t27\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c26cb27723bebd8664c2f4"},"refKey":20},
{"_key":"60c26cb27723bebd8664c2f8","_id":"references/60c26cb27723bebd8664c2f8","_rev":"_cfFk43a---","tei":"\n\t\n\t\tEfficient de novo assembly of large genomes using compressed data structures\n\t\t\n\t\t\tJTSimpson\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t22\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c26cb27723bebd8664c2f4"},"refKey":27},
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{"_key":"60c2702d7723bebd8664c648","_id":"references/60c2702d7723bebd8664c648","_rev":"_cfFk5C2---","tei":"\n\t\n\t\tsRNAbench and sRNAtoolbox 2019: intuitive fast small RNA profiling and differential expression\n\t\t\n\t\t\tErnestoAparicio-Puerta\n\t\t\n\t\t\n\t\t\tRicardoLebrón\n\t\t\n\t\t\n\t\t\tAntonioRueda\n\t\t\n\t\t\n\t\t\tCristinaGómez-Martín\n\t\t\n\t\t\n\t\t\tStavrosGiannoukakos\n\t\t\n\t\t\n\t\t\tDavidJaspez\n\t\t\n\t\t\n\t\t\tJoséMaríaMedina\n\t\t\n\t\t\n\t\t\tAndrejaZubkovic\n\t\t\n\t\t\n\t\t\tIgorJurak\n\t\t\n\t\t\n\t\t\tBastianFromm\n\t\t\t0000-0003-0352-3037\n\t\t\n\t\t\n\t\t\tJuanAntonioMarchal\n\t\t\n\t\t\n\t\t\tJoséOliver\n\t\t\n\t\t\n\t\t\tMichaelHackenberg\n\t\t\n\t\t10.1093/nar/gkz415\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2702d7723bebd8664c647"},"refKey":49},
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{"_key":"60c2715e7723bebd8664c719","_id":"references/60c2715e7723bebd8664c719","_rev":"_cfFk5D2---","tei":"\n\t\n\t\tMAFFT: iterative refinement and additional methods\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDStandley\n\t\t\n\t\t\n\t\t\tM\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t1079\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2715e7723bebd8664c718"},"refKey":24},
{"_key":"60c2716f7723bebd8664c728","_id":"references/60c2716f7723bebd8664c728","_rev":"_cfFk5EC---","tei":"\n\t\n\t\tInformation Management Services, Inc. SaTScanTM v9.1: Software for the Spatial and Space-Time Scan Statistics\n\t\t\n\t\t\tMKulldorff\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2716f7723bebd8664c727"},"refKey":17},
{"_key":"60c271837723bebd8664c743","_id":"references/60c271837723bebd8664c743","_rev":"_cfFk5EO---","tei":"\n\t\n\t\tMobileNetV2: inverted residuals and linear bottlenecks\n\t\t\n\t\t\tMSandler\n\t\t\n\t\t\n\t\t\tAHoward\n\t\t\n\t\t\n\t\t\tMZhu\n\t\t\n\t\t\n\t\t\tAZhmoginov\n\t\t\n\t\t\n\t\t\tLCChen\n\t\t\n\t\n\t\n\t\tProceedings of the IEEE Conference on Computer Vision and Pattern Recognition\n\t\t\t\tthe IEEE Conference on Computer Vision and Pattern Recognition\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c271837723bebd8664c742"},"refKey":13},
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{"_key":"60c272b47723bebd8664c89f","_id":"references/60c272b47723bebd8664c89f","_rev":"_cfFk5Hq---","tei":"\n\t\n\t\tPathway enrichment analysis approach based on topological structure and updated annotation of pathway\n\t\t\n\t\t\tQianYang\n\t\t\n\t\t\n\t\t\tShuyuanWang\n\t\t\n\t\t\n\t\t\tEnyuDai\n\t\t\n\t\t\n\t\t\tShunhengZhou\n\t\t\n\t\t\n\t\t\tDianmingLiu\n\t\t\n\t\t\n\t\t\tHaizhouLiu\n\t\t\n\t\t\n\t\t\tQianqianMeng\n\t\t\n\t\t\n\t\t\tBinJiang\n\t\t\n\t\t\n\t\t\tWeiJiang\n\t\t\n\t\t10.1093/bib/bbx091\n\t\t28968630\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c272b47723bebd8664c89d"},"refKey":60},
{"_key":"60c272b47723bebd8664c8a0","_id":"references/60c272b47723bebd8664c8a0","_rev":"_cfFk5H2---","tei":"\n\t\n\t\tEnrichr: interactive and collaborative HTML5 gene list enrichment analysis tool\n\t\t\n\t\t\tEdwardYChen\n\t\t\n\t\t\n\t\t\tChristopherMTan\n\t\t\n\t\t\n\t\t\tYanKou\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tGabrielaMeirelles\n\t\t\n\t\t\n\t\t\tNeilRClark\n\t\t\n\t\t\n\t\t\tAviMa’ayan\n\t\t\n\t\t10.1186/1471-2105-14-128\n\t\t23586463\n\t\tPMC3637064\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t128\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c272b47723bebd8664c89d"},"refKey":35},
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{"_key":"60c272b47723bebd8664c8a3","_id":"references/60c272b47723bebd8664c8a3","_rev":"_cfFk5Ia---","tei":"\n\t\n\t\tExploring the SARS-CoV-2 virus-host-drug interactome for drug repurposing\n\t\t\n\t\t\tSSadegh\n\t\t\n\t\t\n\t\t\tJMatschinske\n\t\t\n\t\t\n\t\t\tDBBlumenthal\n\t\t\n\t\t10.1038/s41467-020-17189-2.\n\t\tdoi: 10.1038/ s41467-020-17189-2\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t3518\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c272b47723bebd8664c89d"},"refKey":22},
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{"_key":"60c272e27723bebd8664c96c","_id":"references/60c272e27723bebd8664c96c","_rev":"_cfFk5I6---","tei":"\n\t\n\t\tMultiple sequence alignment with the Clustal series of programs\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tHSugawara\n\t\t\n\t\t\n\t\t\tTKoike\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c272e27723bebd8664c96a"},"refKey":4},
{"_key":"60c2730a7723bebd8664c985","_id":"references/60c2730a7723bebd8664c985","_rev":"_cfFk5JG---","tei":"\n\t\n\t\t3DCoffee: Combining Protein Sequences and Structures within Multiple Sequence Alignments\n\t\t\n\t\t\tOrlaO'sullivan\n\t\t\n\t\t\n\t\t\tKarstenSuhre\n\t\t\n\t\t\n\t\t\tChantalAbergel\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t\n\t\t\tCédricNotredame\n\t\t\n\t\t10.1016/j.jmb.2004.04.058\n\t\t15201059\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t340\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2730a7723bebd8664c984"},"refKey":63},
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{"_key":"60c273ee7723bebd8664ca42","_id":"references/60c273ee7723bebd8664ca42","_rev":"_cfFk5Li---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tAdrianPlatts\n\t\t\n\t\t\n\t\t\tLeLilyWang\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tLuanWang\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\tPMC3679285\n\t\t\n\t\n\t\n\t\tFly\n\t\tFly\n\t\t1933-6934\n\t\t1933-6942\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c273ee7723bebd8664ca41"},"refKey":9},
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{"_key":"60c275667723bebd8664cb7c","_id":"references/60c275667723bebd8664cb7c","_rev":"_cfFk5Oy---","tei":"\n\t\n\t\tJalview version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDmaMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c275667723bebd8664cb7b"},"refKey":21},
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{"_key":"60c275837723bebd8664cb96","_id":"references/60c275837723bebd8664cb96","_rev":"_cfFk5PW---","tei":"\n\t\n\t\tSoSci Survey-Professionelle Onlinebefragung Made in Germany\n\t\t\n\t\t\tDJLeiner\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c275837723bebd8664cb95"},"refKey":33},
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{"_key":"60c275c37723bebd8664cbdd","_id":"references/60c275c37723bebd8664cbdd","_rev":"_cfFk5Pu---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c275c37723bebd8664cbdb"},"refKey":12},
{"_key":"60c275c37723bebd8664cbde","_id":"references/60c275c37723bebd8664cbde","_rev":"_cfFk5P6---","tei":"\n\t\n\t\tPDBsum: structural summaries of PDB entries\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJJabłońska\n\t\t\n\t\t\n\t\t\tLPravda\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c275c37723bebd8664cbdb"},"refKey":17},
{"_key":"60c275c37723bebd8664cbdf","_id":"references/60c275c37723bebd8664cbdf","_rev":"_cfFk5QG---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c275c37723bebd8664cbdb"},"refKey":11},
{"_key":"60c275c37723bebd8664cbe0","_id":"references/60c275c37723bebd8664cbe0","_rev":"_cfFk5QO---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c275c37723bebd8664cbdb"},"refKey":13},
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{"_key":"60c275d37723bebd8664cbfd","_id":"references/60c275d37723bebd8664cbfd","_rev":"_cfFk5Qm---","tei":"\n\t\n\t\tAn algorithm for fast preranked gene set enrichment analysis using cumulative statistic calculation\n\t\t\n\t\t\tAlexeyASergushichev\n\t\t\n\t\t10.1101/060012\n\t\t\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tPublished\n\n","document":{"$oid":"60c275d37723bebd8664cbfc"},"refKey":50},
{"_key":"60c276237723bebd8664cc4d","_id":"references/60c276237723bebd8664cc4d","_rev":"_cfFk5Qy---","tei":"\n\t\n\t\tMiXCR: software for comprehensive adaptive immunity profiling\n\t\t\n\t\t\tDABolotin\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\n\n","document":{"$oid":"60c276237723bebd8664cc4c"},"refKey":22},
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{"_key":"60c276b67723bebd8664ccb4","_id":"references/60c276b67723bebd8664ccb4","_rev":"_cfFk5RS---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMächler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\tarXiv:1406.5823\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c276b67723bebd8664ccb3"},"refKey":24},
{"_key":"60c276bf7723bebd8664ccb6","_id":"references/60c276bf7723bebd8664ccb6","_rev":"_cfFk5Re---","tei":"\n\t\n\t\tMAGMA: Generalized gene-set analysis of GWAS data\n\t\t\n\t\t\tCADe Leeuw\n\t\t\n\t\t\n\t\t\tJMMooij\n\t\t\n\t\t\n\t\t\tTHeskes\n\t\t\n\t\t\n\t\t\tDPosthuma\n\t\t\n\t\n\t\n\t\tPLOS Comput. Biol\n\t\t\n\t\t\t11\n\t\t\te1004219\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c276bf7723bebd8664ccb5"},"refKey":30},
{"_key":"60c276bf7723bebd8664ccb7","_id":"references/60c276bf7723bebd8664ccb7","_rev":"_cfFk5Rq---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c276bf7723bebd8664ccb5"},"refKey":28},
{"_key":"60c276bf7723bebd8664ccb8","_id":"references/60c276bf7723bebd8664ccb8","_rev":"_cfFk5R2---","tei":"\n\t\n\t\tSTAR: Ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c276bf7723bebd8664ccb5"},"refKey":58},
{"_key":"60c276c37723bebd8664cccc","_id":"references/60c276c37723bebd8664cccc","_rev":"_cfFk5SC---","tei":"\n\t\n\t\tExtended Resolution Proofs for Conjoining BDDs\n\t\t\n\t\t\tCarstenSinz\n\t\t\n\t\t\n\t\t\tArminBiere\n\t\t\n\t\t10.1007/11753728_60\n\t\tark:/67375/HCB-02L6S1QB-T\n\t\tB1FB05B28880CF4CC7277BCFBA179AE259512102\n\t\t\n\t\n\t\n\t\tComputer Science – Theory and Applications\n\t\t\t\t\n\t\t\tDGrigoriev\n\t\t\tJHarrison\n\t\t\tEAHirsch\n\t\t\n\t\tBerlin, Heidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c276c37723bebd8664cccb"},"refKey":16},
{"_key":"60c276ce7723bebd8664ccd5","_id":"references/60c276ce7723bebd8664ccd5","_rev":"_cfFk5SS---","tei":"\n\t\n\t\tNonparametric statistical testing of EEG-and MEG-data\n\t\t\n\t\t\tEMaris\n\t\t\n\t\t\n\t\t\tROostenveld\n\t\t\n\t\n\t\n\t\tJ. Neurosci. Methods\n\t\t\n\t\t\t164\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c276ce7723bebd8664ccd4"},"refKey":57},
{"_key":"60c276ce7723bebd8664ccd6","_id":"references/60c276ce7723bebd8664ccd6","_rev":"_cfFk5Se---","tei":"\n\t\n\t\tFieldTrip: Open Source Software for Advanced Analysis of MEG, EEG, and Invasive Electrophysiological Data\n\t\t\n\t\t\tRobertOostenveld\n\t\t\t0000-0002-1974-1293\n\t\t\n\t\t\n\t\t\tPascalFries\n\t\t\n\t\t\n\t\t\tEricMaris\n\t\t\n\t\t\n\t\t\tJan-MathijsSchoffelen\n\t\t\n\t\t10.1155/2011/156869\n\t\t21253357\n\t\tPMC3021840\n\t\t\n\t\n\t\n\t\tComputational Intelligence and Neuroscience\n\t\tComputational Intelligence and Neuroscience\n\t\t1687-5265\n\t\t1687-5273\n\t\t\n\t\t\t2011\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c276ce7723bebd8664ccd4"},"refKey":68},
{"_key":"60c276ce7723bebd8664ccd7","_id":"references/60c276ce7723bebd8664ccd7","_rev":"_cfFk5Sq---","tei":"\n\t\n\t\tEEGLAB: An open source toolbox for analysis of single-trial EEG dynamics including independent component analysis\n\t\t\n\t\t\tADelorme\n\t\t\n\t\t\n\t\t\tSMakeig\n\t\t\n\t\n\t\n\t\tJ. Neurosci. Methods\n\t\t\n\t\t\t134\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c276ce7723bebd8664ccd4"},"refKey":22},
{"_key":"60c276ce7723bebd8664ccd8","_id":"references/60c276ce7723bebd8664ccd8","_rev":"_cfFk5S6---","tei":"\n\t\n\t\tAccurate and Rapid Estimation of Phosphene Thresholds (REPT)\n\t\t\n\t\t\tArmanAbrahamyan\n\t\t\n\t\t\n\t\t\tColinW GClifford\n\t\t\n\t\t\n\t\t\tManuelaRuzzoli\n\t\t\n\t\t\n\t\t\tDanPhillips\n\t\t\n\t\t\n\t\t\tEhsanArabzadeh\n\t\t\n\t\t\n\t\t\tJustinAHarris\n\t\t\n\t\t10.1371/journal.pone.0022342\n\t\t21799833\n\t\tPMC3142147\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t7\n\t\t\te22342\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c276ce7723bebd8664ccd4"},"refKey":0},
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{"_key":"60c276dc7723bebd8664cced","_id":"references/60c276dc7723bebd8664cced","_rev":"_cfFk5TS---","tei":"\n\t\n\t\tUnsupervised protein embeddings outperform hand-crafted sequence and structure features at predicting molecular function\n\t\t\n\t\t\tAVillegas-Morcillo\n\t\t\n\t\t\n\t\t\tSMakrodimitris\n\t\t\n\t\t\n\t\t\tRC H JVan Ham\n\t\t\n\t\t\n\t\t\tAMGomez\n\t\t\n\t\t\n\t\t\tVSanchez\n\t\t\n\t\t\n\t\t\tMJ TReinders\n\t\t\n\t\t10.1093/bioinformatics/btaa701\n\t\tdoi:10. 1093/bioinformatics/btaa701\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c276dc7723bebd8664ccec"},"refKey":75},
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{"_key":"60c276e17723bebd8664cd10","_id":"references/60c276e17723bebd8664cd10","_rev":"_cfFk5Tu---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGlideSchrödinger\n\t\t\n\t\t\n\t\t\tLlc\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c276e17723bebd8664cd0f"},"refKey":16},
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{"_key":"60c278067723bebd8664ce9c","_id":"references/60c278067723bebd8664ce9c","_rev":"_cfFk5aq---","tei":"\n\t\n\t\tGenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t10.1006/jmbi.1999.2583\n\t\t10191147\n\t\tS0022-2836(99)92583-4\n\t\tark:/67375/6H6-CR6RP73D-N\n\t\t6E53BA1E161754F0CC67AF6D5B68EB7BA3E136AC\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t287\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c278067723bebd8664ce9a"},"refKey":56},
{"_key":"60c278067723bebd8664ce9d","_id":"references/60c278067723bebd8664ce9d","_rev":"_cfFk5a2---","tei":"\n\t\n\t\tImprovement of the GenTHREADER method for genomic fold recognition\n\t\t\n\t\t\tLJMcguffin\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t10.1093/bioinformatics/btg097\n\t\t12724298\n\t\t1460-2059\n\t\tark:/67375/HXZ-F89ZCJ5L-S\n\t\tB45FE436C92110AEFBD1B09A4D72C41B76DDEFB4\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c278067723bebd8664ce9a"},"refKey":77},
{"_key":"60c278067723bebd8664ce9e","_id":"references/60c278067723bebd8664ce9e","_rev":"_cfFk5b----","tei":"\n\t\n\t\tPISCES: A protein sequence culling server\n\t\t\n\t\t\tGWang\n\t\t\n\t\t\n\t\t\tRLDunbrack\n\t\t\n\t\t\n\t\t\tJr\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c278067723bebd8664ce9a"},"refKey":113},
{"_key":"60c278067723bebd8664ce9f","_id":"references/60c278067723bebd8664ce9f","_rev":"_cfFk5bK---","tei":"\n\t\n\t\tWHAT IF: A molecular modeling and drug design program\n\t\t\n\t\t\tGVriend\n\t\t\n\t\t10.1016/0263-7855(90)80070-v\n\t\t2268628\n\t\t0263-7855(90)80070-V\n\t\tark:/67375/6H6-78LRC9K5-Q\n\t\t934DD81E8AB4D1C199D0DC9CD8C9F13E0B3FEC30\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c278067723bebd8664ce9a"},"refKey":111},
{"_key":"60c278067723bebd8664cea0","_id":"references/60c278067723bebd8664cea0","_rev":"_cfFk5bW---","tei":"\n\t\n\t\tDefinition of general topological equivalence in protein structures. A procedure involving comparison of properties and relationships through simulated annealing and dynamic programming\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\n\t\n\t\tJ. Mol. BioI\n\t\t\n\t\t\t212\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c278067723bebd8664ce9a"},"refKey":95},
{"_key":"60c278067723bebd8664cea1","_id":"references/60c278067723bebd8664cea1","_rev":"_cfFk5bi---","tei":"\n\t\n\t\tProtein secondary structure prediction based on position-specific scoring matrices\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tMol. Bioi\n\t\t\n\t\t\t292\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c278067723bebd8664ce9a"},"refKey":55},
{"_key":"60c2783d7723bebd8664cedb","_id":"references/60c2783d7723bebd8664cedb","_rev":"_cfFk5bu---","tei":"\n\t\n\t\tSeqinR 1.0-2: A Contributed Package to the R Project for Statistical Computing Devoted to Biological Sequences Retrieval and Analysis\n\t\t\n\t\t\tDelphineCharif\n\t\t\n\t\t\n\t\t\tJeanRLobry\n\t\t\n\t\t10.1007/978-3-540-35306-5_10\n\t\tark:/67375/HCB-L69H3WCB-D\n\t\t614751033F60262E6F2C28C51797816F3DF07C6B\n\t\n\t\n\t\tStructural Approaches to Sequence Evolution\n\t\t\t\t\n\t\t\tUBastolla\n\t\t\tMPorto\n\t\t\tHERoman\n\t\t\tMVendruscolo\n\t\t\n\t\tBerlin, Heidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBiomedical Engineering\n\n","document":{"$oid":"60c2783d7723bebd8664ceda"},"refKey":25},
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{"_key":"60c2783d7723bebd8664cedd","_id":"references/60c2783d7723bebd8664cedd","_rev":"_cfFk5cC---","tei":"\n\t\n\t\tBEAGLE 3: Improved Performance, Scaling, and Usability for a High-Performance Computing Library for Statistical Phylogenetics\n\t\t\n\t\t\tDanielLAyres\n\t\t\n\t\t\n\t\t\tMichaelPCummings\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tAaronEDarling\n\t\t\n\t\t\n\t\t\tPaulOLewis\n\t\t\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tJohnPHuelsenbeck\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syz020\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tBEAGLE\n\n","document":{"$oid":"60c2783d7723bebd8664ceda"},"refKey":33},
{"_key":"60c278707723bebd8664cf13","_id":"references/60c278707723bebd8664cf13","_rev":"_cfFk5cO---","tei":"\n\t\n\t\tDeeplab: semantic image segmentation with deep convolutional nets, atrous convolution, and fully connected CRFS\n\t\t\n\t\t\tLCChen\n\t\t\n\t\t\n\t\t\tGPapandreou\n\t\t\n\t\t\n\t\t\tIKokkinos\n\t\t\n\t\t\n\t\t\tKMurphy\n\t\t\n\t\t\n\t\t\tALYuille\n\t\t\n\t\n\t\n\t\tTPAMI\n\t\t\n\t\t\t40\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c278707723bebd8664cf12"},"refKey":4},
{"_key":"60c278707723bebd8664cf14","_id":"references/60c278707723bebd8664cf14","_rev":"_cfFk5ca---","tei":"\n\t\n\t\tEncoder-decoder with atrous separable convolution for semantic image segmentation\n\t\t\n\t\t\tLCChen\n\t\t\n\t\t\n\t\t\tYZhu\n\t\t\n\t\t\n\t\t\tGPapandreou\n\t\t\n\t\t\n\t\t\tFSchroff\n\t\t\n\t\t\n\t\t\tHAdam\n\t\t\n\t\t\n\t\t\t\n\t\t\tECCV\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c278707723bebd8664cf12"},"refKey":5},
{"_key":"60c278707723bebd8664cf15","_id":"references/60c278707723bebd8664cf15","_rev":"_cfFk5cm---","tei":"\n\t\n\t\tGrabcut: interactive foreground extraction using iterated graph cuts\n\t\t\n\t\t\tCRother\n\t\t\n\t\t\n\t\t\tVKolmogorov\n\t\t\n\t\t\n\t\t\tABlake\n\t\t\n\t\n\t\n\t\tACM Trans. Graph. (TOG)\n\t\t\n\t\t\t23\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c278707723bebd8664cf12"},"refKey":23},
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{"_key":"60c279ad7723bebd8664d373","_id":"references/60c279ad7723bebd8664d373","_rev":"_cfFk5j----","tei":"\n\t\n\t\telastix: A Toolbox for Intensity-Based Medical Image Registration\n\t\t\n\t\t\tSKlein\n\t\t\n\t\t\n\t\t\tMStaring\n\t\t\n\t\t\n\t\t\tKMurphy\n\t\t\n\t\t\n\t\t\tMAViergever\n\t\t\n\t\t\n\t\t\tJPPluim\n\t\t\n\t\t10.1109/tmi.2009.2035616\n\t\t19923044\n\t\n\t\n\t\tIEEE Transactions on Medical Imaging\n\t\tIEEE Trans. Med. Imaging\n\t\t0278-0062\n\t\t1558-254X\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c279ad7723bebd8664d372"},"refKey":29},
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{"_key":"60c279b17723bebd8664d37c","_id":"references/60c279b17723bebd8664d37c","_rev":"_cfFk5je---","tei":"\n\t\n\t\tThe Bioperl toolkit: Perl modules for the life sciences\n\t\t\n\t\t\tJEStajich\n\t\t\n\t\t\n\t\t\tDBlock\n\t\t\n\t\t\n\t\t\tKBoulez\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\t\n\t\t\tSAChervitz\n\t\t\n\t\t\n\t\t\tCDagdigian\n\t\t\n\t\t\n\t\t\tGFuellen\n\t\t\n\t\t\n\t\t\tJGGilbert\n\t\t\n\t\t\n\t\t\tIKorf\n\t\t\n\t\t\n\t\t\tHLapp\n\t\t\n\t\t\n\t\t\tHLehvslaiho\n\t\t\n\t\t\n\t\t\tCMatsalla\n\t\t\n\t\t\n\t\t\tCJMungall\n\t\t\n\t\t\n\t\t\tBIOsborne\n\t\t\n\t\t\n\t\t\tMRPocock\n\t\t\n\t\t\n\t\t\tPSchattner\n\t\t\n\t\t\n\t\t\tMSenger\n\t\t\n\t\t\n\t\t\tLDStein\n\t\t\n\t\t\n\t\t\tEStupka\n\t\t\n\t\t\n\t\t\tMDWilkinson\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t12\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c279b17723bebd8664d379"},"refKey":2},
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{"_key":"60c27b317723bebd8664d4f1","_id":"references/60c27b317723bebd8664d4f1","_rev":"_cfFk5p6---","tei":"\n\t\n\t\tIntegrating single-cell transcriptomic data across different conditions, technologies, and species\n\t\t\n\t\t\tAndrewButler\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1038/nbt.4096\n\t\t29608179\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t36\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c27b317723bebd8664d4ef"},"refKey":138},
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{"_key":"60c27b4c7723bebd8664d517","_id":"references/60c27b4c7723bebd8664d517","_rev":"_cfFk5qS---","tei":"\n\t\n\t\tProtein structure homology modeling using SWISS-MODEL workspace\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tFKiefer\n\t\t\n\t\t\n\t\t\tKArnold\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27b4c7723bebd8664d515"},"refKey":54},
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{"_key":"60c27b5a7723bebd8664d534","_id":"references/60c27b5a7723bebd8664d534","_rev":"_cfFk5ri---","tei":"\n\t\n\t\tBRepertoire: a user-friendly web server for analysing antibody repertoire data\n\t\t\n\t\t\tChristianMargreitter\n\t\t\t0000-0002-5473-6318\n\t\t\n\t\t\n\t\t\tHui-ChunLu\n\t\t\n\t\t\n\t\t\tCatherineTownsend\n\t\t\n\t\t\n\t\t\tAlexanderStewart\n\t\t\n\t\t\n\t\t\tDeborahKDunn-Walters\n\t\t\n\t\t\n\t\t\tFrancaFraternali\n\t\t\n\t\t10.1093/nar/gky276\n\t\t29668996\n\t\tPMC6031031\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c27b5a7723bebd8664d52e"},"refKey":27},
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{"_key":"60c27c847723bebd8664d631","_id":"references/60c27c847723bebd8664d631","_rev":"_cfFk5vO---","tei":"\n\t\n\t\tIntegrative analysis of complex cancer genomics and clinical profiles using the cBioPortal\n\t\t\n\t\t\tJGao\n\t\t\n\t\t\n\t\t\tBAAksoy\n\t\t\n\t\t\n\t\t\tUDogrusoz\n\t\t\n\t\t\n\t\t\tGDresdner\n\t\t\n\t\t\n\t\t\tBGross\n\t\t\n\t\t\n\t\t\tSOSumer\n\t\t\n\t\t\n\t\t\tYSun\n\t\t\n\t\t\n\t\t\tAJacobsen\n\t\t\n\t\t\n\t\t\tRSinha\n\t\t\n\t\t\n\t\t\tELarsson\n\t\t\n\t\t\n\t\t\tECerami\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\t\n\t\t\tNSchultz\n\t\t\n\t\n\t\n\t\tSci. Signal\n\t\t\n\t\t\t6\n\t\t\t269\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27c847723bebd8664d62c"},"refKey":26},
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{"_key":"60c27c987723bebd8664d64e","_id":"references/60c27c987723bebd8664d64e","_rev":"_cfFk5vu---","tei":"\n\t\n\t\tLocstra: Fast analysis of regional/global stratification in whole genome sequencing (WGS) studies. Accepted for publication with Genetic Epidemiology\n\t\t\n\t\t\tGHahn\n\t\t\n\t\t\n\t\t\tSLutz\n\t\t\n\t\t\n\t\t\tJHecker\n\t\t\n\t\t\n\t\t\tDProkopenko\n\t\t\n\t\t\n\t\t\tMCho\n\t\t\n\t\t\n\t\t\tESilverman\n\t\t\n\t\t\n\t\t\tSWeiss\n\t\t\n\t\t\n\t\t\tCLange\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tPreprint at bioRxiv:2020.03.06.981050\n\n","document":{"$oid":"60c27c987723bebd8664d64c"},"refKey":3},
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{"_key":"60c27cc37723bebd8664d671","_id":"references/60c27cc37723bebd8664d671","_rev":"_cfFk5wa---","tei":"\n\t\n\t\tNanoPack: visualizing and processing long read sequencing data\n\t\t\n\t\t\tWouterDe Coster\n\t\t\t0000-0002-5248-8197\n\t\t\n\t\t\n\t\t\tSvennD’hert\n\t\t\n\t\t\n\t\t\tDarrinTSchultz\n\t\t\t0000-0003-1190-1122\n\t\t\n\t\t\n\t\t\tMarcCruts\n\t\t\t0000-0002-1338-992X\n\t\t\n\t\t\n\t\t\tChristineVan Broeckhoven\n\t\t\t0000-0003-0183-7665\n\t\t\n\t\t10.1101/237180\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c27cc37723bebd8664d66f"},"refKey":10},
{"_key":"60c27cc37723bebd8664d672","_id":"references/60c27cc37723bebd8664d672","_rev":"_cfFk5wm---","tei":"\n\t\n\t\tBCFtools/RoH: a hidden Markov model approach for detecting autozygosity from next-generation sequencing data\n\t\t\n\t\t\tVNarasimhan\n\t\t\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tAScally\n\t\t\n\t\t\n\t\t\tYXue\n\t\t\n\t\t\n\t\t\tCTyler-Smith\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27cc37723bebd8664d66f"},"refKey":13},
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{"_key":"60c27d217723bebd8664d6d0","_id":"references/60c27d217723bebd8664d6d0","_rev":"_cfFk5x----","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27d217723bebd8664d6cf"},"refKey":51},
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{"_key":"60c27d217723bebd8664d6d3","_id":"references/60c27d217723bebd8664d6d3","_rev":"_cfFk5xe---","tei":"\n\t\n\t\tUCSF Chimera-A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27d217723bebd8664d6cf"},"refKey":58},
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{"_key":"60c27e747723bebd8664d800","_id":"references/60c27e747723bebd8664d800","_rev":"_cfFk52O---","tei":"\n\t\n\t\tThe PSI-PRED protein structure prediction server\n\t\t\n\t\t\tLJMcguffin\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27e747723bebd8664d7fd"},"refKey":27},
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{"_key":"60c27e747723bebd8664d802","_id":"references/60c27e747723bebd8664d802","_rev":"_cfFk52m---","tei":"\n\t\n\t\tA simple and fast secondary structure prediction method using hidden neural networks\n\t\t\n\t\t\tKLin\n\t\t\n\t\t\n\t\t\tVASimossis\n\t\t\n\t\t\n\t\t\tWRTaylor\n\t\t\n\t\t\n\t\t\tJHeringa\n\t\t\n\t\t10.1093/bioinformatics/bth487\n\t\t15377504\n\t\tark:/67375/HXZ-V666B13C-K\n\t\t7FDCDB8D64040C2B76A66CC790B70483462EE6DD\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c27e747723bebd8664d7fd"},"refKey":28},
{"_key":"60c27e8b7723bebd8664d810","_id":"references/60c27e8b7723bebd8664d810","_rev":"_cfFk526---","tei":"\n\t\n\t\tprotr/ProtrWeb: R package and web server for generating various numerical representation schemes of protein sequences\n\t\t\n\t\t\tNanXiao\n\t\t\n\t\t\n\t\t\tDong-ShengCao\n\t\t\n\t\t\n\t\t\tMin-FengZhu\n\t\t\n\t\t\n\t\t\tQing-SongXu\n\t\t\n\t\t10.1093/bioinformatics/btv042\n\t\t25619996\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c27e8b7723bebd8664d80f"},"refKey":69},
{"_key":"60c27e8b7723bebd8664d811","_id":"references/60c27e8b7723bebd8664d811","_rev":"_cfFk53K---","tei":"\n\t\n\t\tBiopython: freely available python tools for computational molecular biology and bioinformatics\n\t\t\n\t\t\tPJ ACock\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27e8b7723bebd8664d80f"},"refKey":8},
{"_key":"60c27e8b7723bebd8664d812","_id":"references/60c27e8b7723bebd8664d812","_rev":"_cfFk53a---","tei":"\n\t\n\t\tStatsmodels: econometric and statistical modeling with python\n\t\t\n\t\t\tSSeabold\n\t\t\n\t\t\n\t\t\tJPerktold\n\t\t\n\t\n\t\n\t\tProceedings of the 9th Python in Science Conference\n\t\t\t\tthe 9th Python in Science Conference\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27e8b7723bebd8664d80f"},"refKey":49},
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{"_key":"60c27ea67723bebd8664d860","_id":"references/60c27ea67723bebd8664d860","_rev":"_cfFk54i---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27ea67723bebd8664d85f"},"refKey":60},
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{"_key":"60c27ea67723bebd8664d863","_id":"references/60c27ea67723bebd8664d863","_rev":"_cfFk55K---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27ea67723bebd8664d85f"},"refKey":72},
{"_key":"60c27ea67723bebd8664d864","_id":"references/60c27ea67723bebd8664d864","_rev":"_cfFk55W---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27ea67723bebd8664d85f"},"refKey":73},
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{"_key":"60c27ea67723bebd8664d866","_id":"references/60c27ea67723bebd8664d866","_rev":"_cfFk55y---","tei":"\n\t\n\t\tMEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27ea67723bebd8664d85f"},"refKey":75},
{"_key":"60c27ee97723bebd8664d8ab","_id":"references/60c27ee97723bebd8664d8ab","_rev":"_cfFk56----","tei":"\n\t\n\t\tSimulation of high-Reynolds number vascular flows\n\t\t\n\t\t\tPaulFFischer\n\t\t\n\t\t\n\t\t\tFrancisLoth\n\t\t\n\t\t\n\t\t\tSeungELee\n\t\t\n\t\t\n\t\t\tSang-WookLee\n\t\t\n\t\t\n\t\t\tDavidSSmith\n\t\t\n\t\t\n\t\t\tHishamSBassiouny\n\t\t\n\t\t10.1016/j.cma.2006.10.015\n\t\t\n\t\n\t\n\t\tComputer Methods in Applied Mechanics and Engineering\n\t\tComputer Methods in Applied Mechanics and Engineering\n\t\t0045-7825\n\t\t\n\t\t\t196\n\t\t\t31-32\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c27ee97723bebd8664d8aa"},"refKey":13},
{"_key":"60c27ef47723bebd8664d8af","_id":"references/60c27ef47723bebd8664d8af","_rev":"_cfFk56O---","tei":"\n\t\n\t\tGaussian 16\n\t\t\n\t\t\tMJFrisch\n\t\t\n\t\t\n\t\t\tGWTrucks\n\t\t\n\t\t\n\t\t\tHBSchlegel\n\t\t\n\t\t\n\t\t\tGEScuseria\n\t\t\n\t\t\n\t\t\tMARobb\n\t\t\n\t\t\n\t\t\tJRCheeseman\n\t\t\n\t\t\n\t\t\tGScalmani\n\t\t\n\t\t\n\t\t\tVBarone\n\t\t\n\t\t\n\t\t\tGAPetersson\n\t\t\n\t\t\n\t\t\tHNakatsuji\n\t\t\n\t\t\n\t\t\tXLi\n\t\t\n\t\t\n\t\t\tMCaricato\n\t\t\n\t\t\n\t\t\tAVMarenich\n\t\t\n\t\t\n\t\t\tJBloino\n\t\t\n\t\t\n\t\t\tBGJanesko\n\t\t\n\t\t\n\t\t\tRGomperts\n\t\t\n\t\t\n\t\t\tBMennucci\n\t\t\n\t\t\n\t\t\tHPHratchian\n\t\t\n\t\t\n\t\t\tJVOrtiz\n\t\t\n\t\t\n\t\t\tAFIzmaylov\n\t\t\n\t\t\n\t\t\tJLSonnenberg\n\t\t\n\t\t\n\t\t\tDWilliams-Young\n\t\t\n\t\t\n\t\t\tFDing\n\t\t\n\t\t\n\t\t\tFLipparini\n\t\t\n\t\t\n\t\t\tFEgidi\n\t\t\n\t\t\n\t\t\tJGoings\n\t\t\n\t\t\n\t\t\tBPeng\n\t\t\n\t\t\n\t\t\tAPetrone\n\t\t\n\t\t\n\t\t\tTHenderson\n\t\t\n\t\t\n\t\t\tDRanasinghe\n\t\t\n\t\t\n\t\t\tVGZakrzewski\n\t\t\n\t\t\n\t\t\tJGao\n\t\t\n\t\t\n\t\t\tNRega\n\t\t\n\t\t\n\t\t\tGZheng\n\t\t\n\t\t\n\t\t\tWLiang\n\t\t\n\t\t\n\t\t\tMHada\n\t\t\n\t\t\n\t\t\tMEhara\n\t\t\n\t\t\n\t\t\tKToyota\n\t\t\n\t\t\n\t\t\tRFukuda\n\t\t\n\t\t\n\t\t\tJHasegawa\n\t\t\n\t\t\n\t\t\tMIshida\n\t\t\n\t\t\n\t\t\tTNakajima\n\t\t\n\t\t\n\t\t\tYHonda\n\t\t\n\t\t\n\t\t\tOKitao\n\t\t\n\t\t\n\t\t\tHNakai\n\t\t\n\t\t\n\t\t\tTVreven\n\t\t\n\t\t\n\t\t\tKThrossell\n\t\t\n\t\t\n\t\t\tJAMontgomeryJr\n\t\t\n\t\t\n\t\t\tJEPeralta\n\t\t\n\t\t\n\t\t\tFOgliaro\n\t\t\n\t\t\n\t\t\tMJBearpark ; R. Kobayashi\n\t\t\n\t\t\n\t\t\tJNormand\n\t\t\n\t\t\n\t\t\tKRaghavachari\n\t\t\n\t\t\n\t\t\tAPRendell\n\t\t\n\t\t\n\t\t\tJCBurant\n\t\t\n\t\t\n\t\t\tSSIyengar\n\t\t\n\t\t\n\t\t\tJTomasi\n\t\t\n\t\t\n\t\t\tMCossi\n\t\t\n\t\t\n\t\t\tJMMillam\n\t\t\n\t\t\n\t\t\tMKlene\n\t\t\n\t\t\n\t\t\tCAdamo\n\t\t\n\t\t\n\t\t\tRCammi\n\t\t\n\t\t\n\t\t\tJWOchterski\n\t\t\n\t\t\n\t\t\tRLMartin\n\t\t\n\t\t\n\t\t\tKMorokuma\n\t\t\n\t\t\n\t\t\tOFarkas\n\t\t\n\t\t\n\t\t\tJBForesman\n\t\t\n\t\t\n\t\t\tDJFox\n\t\t\n\t\tJ.J. Heyd, E.N. Brothers, K.N. Kudin, V.N. Staroverov, T.A. Keith,\n\t\t\n\t\t\t\n\t\t\tGaussian, Inc\n\t\t\tWallingford CT\n\t\t\n\t\n\n","document":{"$oid":"60c27ef47723bebd8664d8ae"},"refKey":45},
{"_key":"60c27ef47723bebd8664d8b0","_id":"references/60c27ef47723bebd8664d8b0","_rev":"_cfFk56a---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDassaultSystèmes\n\t\t\n\t\t\n\t\t\tBiovia\n\t\t\n\t\t\n\t\t\tDiscoveryStudio\n\t\t\n\t\t\n\t\t\tSanDiego\n\t\t\n\t\n\t\n\t\tDassault Systèmes\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27ef47723bebd8664d8ae"},"refKey":46},
{"_key":"60c27ef47723bebd8664d8b1","_id":"references/60c27ef47723bebd8664d8b1","_rev":"_cfFk56m---","tei":"\n\t\n\t\tBinding modes of decavanadate to myosin and inhibition of the actomyosin ATPase activity\n\t\t\n\t\t\tTeresaTiago\n\t\t\n\t\t\n\t\t\tPauloMartel\n\t\t\n\t\t\n\t\t\tCarlosGutiérrez-Merino\n\t\t\n\t\t\n\t\t\tManuelAureliano\n\t\t\n\t\t10.1016/j.bbapap.2007.02.004\n\t\t17382607\n\t\t\n\t\t\n\t\n\t\n\t\tBiochimica et Biophysica Acta (BBA) - Proteins and Proteomics\n\t\tBiochimica et Biophysica Acta (BBA) - Proteins and Proteomics\n\t\t1570-9639\n\t\t\n\t\t\t1774\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c27ef47723bebd8664d8ae"},"refKey":53},
{"_key":"60c27ef47723bebd8664d8b2","_id":"references/60c27ef47723bebd8664d8b2","_rev":"_cfFk56y---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c27ef47723bebd8664d8ae"},"refKey":66},
{"_key":"60c27ef47723bebd8664d8b3","_id":"references/60c27ef47723bebd8664d8b3","_rev":"_cfFk57----","tei":"\n\t\n\t\tSWISS-MODEL and the Swiss-Pdb Viewer: An environment for comparative protein modeling\n\t\t\n\t\t\tNicolasGuex\n\t\t\n\t\t\n\t\t\tManuelCPeitsch\n\t\t\n\t\t10.1002/elps.1150181505\n\t\t9504803\n\t\tark:/67375/WNG-JM4T1Z8G-K\n\t\t80A3D30408CDDCFAD6FB0CF212ABBA114995BAF3\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\tElectrophoresis\n\t\t0173-0835\n\t\t1522-2683\n\t\t\n\t\t\t18\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c27ef47723bebd8664d8ae"},"refKey":49},
{"_key":"60c27ef47723bebd8664d8b4","_id":"references/60c27ef47723bebd8664d8b4","_rev":"_cfFk57K---","tei":"\n\t\n\t\tThe molecular details of WPD-loop movement differ in the protein-tyrosine phosphatases YopH and PTP1B\n\t\t\n\t\t\tTiagoA SBrandão\n\t\t\n\t\t\n\t\t\tSeanJJohnson\n\t\t\n\t\t\n\t\t\tAlvanCHengge\n\t\t\n\t\t10.1016/j.abb.2012.06.002\n\t\t22698963\n\t\tPMC3422214\n\t\t\n\t\t\n\t\n\t\n\t\tArchives of Biochemistry and Biophysics\n\t\tArchives of Biochemistry and Biophysics\n\t\t0003-9861\n\t\t\n\t\t\t525\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c27ef47723bebd8664d8ae"},"refKey":51},
{"_key":"60c27ef47723bebd8664d8b5","_id":"references/60c27ef47723bebd8664d8b5","_rev":"_cfFk57W---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c27ef47723bebd8664d8ae"},"refKey":47},
{"_key":"60c27ef47723bebd8664d8b6","_id":"references/60c27ef47723bebd8664d8b6","_rev":"_cfFk57i---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tJohnHMorris\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\t0000-0001-6227-0637\n\t\t\n\t\t10.1002/pro.3235\n\t\t28710774\n\t\tPMC5734306\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c27ef47723bebd8664d8ae"},"refKey":48},
{"_key":"60c27ef47723bebd8664d8b7","_id":"references/60c27ef47723bebd8664d8b7","_rev":"_cfFk57q---","tei":"\n\t\n\t\tThe VEGA suite of programs: an versatile platform for cheminformatics and drug design projects\n\t\t\n\t\t\tAPedretti\n\t\t\n\t\t\n\t\t\tAMazzolari\n\t\t\n\t\t\n\t\t\tSGervasoni\n\t\t\n\t\t\n\t\t\tLFumagalli\n\t\t\n\t\t\n\t\t\tGVistoli\n\t\t\n\t\t10.1093/bioinformatics/btaa774\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27ef47723bebd8664d8ae"},"refKey":50},
{"_key":"60c27f507723bebd8664d94d","_id":"references/60c27f507723bebd8664d94d","_rev":"_cfFk572---","tei":"\n\t\n\t\tProcheck -a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallog\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27f507723bebd8664d94c"},"refKey":66},
{"_key":"60c27f507723bebd8664d94e","_id":"references/60c27f507723bebd8664d94e","_rev":"_cfFk58G---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallog. sect. D\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27f507723bebd8664d94c"},"refKey":63},
{"_key":"60c27f537723bebd8664d958","_id":"references/60c27f537723bebd8664d958","_rev":"_cfFk58S---","tei":"\n\t\n\t\tMolecular Evolution and Phylogenetics\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\t\n\t\t\tOxford University Press\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c27f537723bebd8664d957"},"refKey":14},
{"_key":"60c27f537723bebd8664d959","_id":"references/60c27f537723bebd8664d959","_rev":"_cfFk58e---","tei":"\n\t\n\t\tMEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27f537723bebd8664d957"},"refKey":15},
{"_key":"60c27f607723bebd8664d964","_id":"references/60c27f607723bebd8664d964","_rev":"_cfFk58q---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledgebased approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. (USA)\n\t\t\t\tNatl. Acad. Sci. (USA)\n\t\t\n\t\t\t\n\t\t\t102\n\t\t\t\n\t\t\n\t\n\tPubMed: 16199517\n\n","document":{"$oid":"60c27f607723bebd8664d963"},"refKey":45},
{"_key":"60c27f607723bebd8664d965","_id":"references/60c27f607723bebd8664d965","_rev":"_cfFk582---","tei":"\n\t\n\t\tPGC-1α-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tCMLindgren\n\t\t\n\t\t\n\t\t\tKFEriksson\n\t\t\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tSSihag\n\t\t\n\t\t\n\t\t\tJLehar\n\t\t\n\t\t\n\t\t\tPPuigserver\n\t\t\n\t\t\n\t\t\tECarlsson\n\t\t\n\t\t\n\t\t\tMRidderstråle\n\t\t\n\t\t\n\t\t\tELaurila\n\t\t\n\t\t\n\t\t\tNHoustis\n\t\t\n\t\t\n\t\t\tMJDaly\n\t\t\n\t\t\n\t\t\tNPatterson\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tBSpiegelman\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJNHirschhorn\n\t\t\n\t\t\n\t\t\tDAltshuler\n\t\t\n\t\t\n\t\t\tLCGroop\n\t\t\n\t\n\t\n\t\tNat. Genet\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 12808457\n\n","document":{"$oid":"60c27f607723bebd8664d963"},"refKey":46},
{"_key":"60c27f637723bebd8664d972","_id":"references/60c27f637723bebd8664d972","_rev":"_cfFk59C---","tei":"\n\t\n\t\tTextrank: Bringing order into text\n\t\t\n\t\t\tRadaMihalcea\n\t\t\n\t\t\n\t\t\tPaulTarau\n\t\t\n\t\n\t\n\t\tProceedings of the 2004 conference on empirical methods in natural language processing\n\t\t\t\tthe 2004 conference on empirical methods in natural language processing\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27f637723bebd8664d971"},"refKey":36},
{"_key":"60c27f637723bebd8664d973","_id":"references/60c27f637723bebd8664d973","_rev":"_cfFk59O---","tei":"\n\t\n\t\tPytextrank, a python implementation of textrank for phrase extraction and summarization of text documents\n\t\t\n\t\t\tPacoNathan\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27f637723bebd8664d971"},"refKey":37},
{"_key":"60c27f6b7723bebd8664d98f","_id":"references/60c27f6b7723bebd8664d98f","_rev":"_cfFk59a---","tei":"\n\t\n\t\tPseAAC: A flexible web server for generating various kinds of protein pseudo amino acid composition\n\t\t\n\t\t\tHong-BinShen\n\t\t\n\t\t\n\t\t\tKuo-ChenChou\n\t\t\n\t\t10.1016/j.ab.2007.10.012\n\t\t17976365\n\t\n\t\n\t\tAnalytical Biochemistry\n\t\tAnalytical Biochemistry\n\t\t0003-2697\n\t\t\n\t\t\t373\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c27f6b7723bebd8664d98e"},"refKey":151},
{"_key":"60c27f6b7723bebd8664d990","_id":"references/60c27f6b7723bebd8664d990","_rev":"_cfFk59m---","tei":"\n\t\n\t\tEvaluating the Statistical Significance of Multiple Distinct Local Alignments\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t10.1007/978-1-4615-5903-0_1\n\t\n\t\n\t\tTheoretical and Computational Methods in Genome Research\n\t\t\t\t\n\t\t\tSSuhai\n\t\t\n\t\tNew York\n\t\t\n\t\t\tSpringer US\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27f6b7723bebd8664d98e"},"refKey":0},
{"_key":"60c27f6b7723bebd8664d991","_id":"references/60c27f6b7723bebd8664d991","_rev":"_cfFk59y---","tei":"\n\t\n\t\tStatistics of local complexity in amino acid sequences and sequence databases\n\t\t\n\t\t\tJohnCWootton\n\t\t\n\t\t\n\t\t\tScottFederhen\n\t\t\n\t\t10.1016/0097-8485(93)85006-x\n\t\t0097-8485(93)85006-X\n\t\tark:/67375/6H6-7ZXJ664X-S\n\t\tF5BE6B0B88010469F29FB68CD17DBF75215FBF69\n\t\n\t\n\t\tComputers & Chemistry\n\t\tComputers & Chemistry\n\t\t0097-8485\n\t\t\n\t\t\t17\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c27f6b7723bebd8664d98e"},"refKey":174},
{"_key":"60c27f6b7723bebd8664d992","_id":"references/60c27f6b7723bebd8664d992","_rev":"_cfFk6-----","tei":"\n\t\n\t\tImproving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tLAravind\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tSShavirin\n\t\t\n\t\t\n\t\t\tJLSpouge\n\t\t\n\t\t\n\t\t\tYIWolf\n\t\t\n\t\t\n\t\t\tEVKoonin\n\t\t\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t10.1093/nar/29.14.2994\n\t\t11452024\n\t\tPMC55814\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c27f6b7723bebd8664d98e"},"refKey":140},
{"_key":"60c27f8d7723bebd8664d99e","_id":"references/60c27f8d7723bebd8664d99e","_rev":"_cfFk6-K---","tei":"\n\t\n\t\tThe design and implementation ofSnBversion 2.0\n\t\t\n\t\t\tCharlesMWeeks\n\t\t\n\t\t\n\t\t\tRussMiller\n\t\t\n\t\t10.1107/s0021889898010504\n\t\tark:/67375/WNG-WJ98DTQN-0\n\t\tCAF1F6541A18BAC182351A410B212FA9B2F3E1E4\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c27f8d7723bebd8664d99d"},"refKey":47},
{"_key":"60c27f8d7723bebd8664d99f","_id":"references/60c27f8d7723bebd8664d99f","_rev":"_cfFk6-S---","tei":"\n\t\n\t\tProcessing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\n\t\n\t\tAnnu. Rev. Microbiol\n\t\t307±325. Palmenberg,A.C.\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tMethods Enzymol.\n\n","document":{"$oid":"60c27f8d7723bebd8664d99d"},"refKey":36},
{"_key":"60c27f8d7723bebd8664d9a0","_id":"references/60c27f8d7723bebd8664d9a0","_rev":"_cfFk6-e---","tei":"\n\t\n\t\tCrystallography and NMR system: a new software suite for macromolecular structure determination\n\t\t\n\t\t\tATBru Ènger\n\t\t\n\t\t\n\t\t\t472±475\n\t\t\n\t\t\n\t\t\tATBru Ènger\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D\n\t\t\n\t\t\t355\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tNature\n\n","document":{"$oid":"60c27f8d7723bebd8664d99d"},"refKey":5},
{"_key":"60c27f8d7723bebd8664d9a1","_id":"references/60c27f8d7723bebd8664d9a1","_rev":"_cfFk6-q---","tei":"\n\t\n\t\tA fast algorithm for rendering space-filling molecule pictures\n\t\t\n\t\t\tDavidBacon\n\t\t\n\t\t\n\t\t\tWaynef.Anderson\n\t\t\n\t\t10.1016/s0263-7855(98)80030-1\n\t\tS0263-7855(98)80030-1\n\t\tark:/67375/6H6-FF8K50VQ-W\n\t\t82122A412B2B1B47351704988E0B2E4D092BFD61\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t6\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c27f8d7723bebd8664d99d"},"refKey":2},
{"_key":"60c27f8d7723bebd8664d9a2","_id":"references/60c27f8d7723bebd8664d9a2","_rev":"_cfFk6-2---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c27f8d7723bebd8664d99d"},"refKey":21},
{"_key":"60c27f8d7723bebd8664d9a3","_id":"references/60c27f8d7723bebd8664d9a3","_rev":"_cfFk6_C---","tei":"\n\t\n\t\tWHAT IF: A molecular modeling and drug design program\n\t\t\n\t\t\tGVriend\n\t\t\n\t\t10.1016/0263-7855(90)80070-v\n\t\t2268628\n\t\t0263-7855(90)80070-V\n\t\tark:/67375/6H6-78LRC9K5-Q\n\t\t934DD81E8AB4D1C199D0DC9CD8C9F13E0B3FEC30\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c27f8d7723bebd8664d99d"},"refKey":46},
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{"_key":"60c27f937723bebd8664d9b0","_id":"references/60c27f937723bebd8664d9b0","_rev":"_cfFk6_W---","tei":"\n\t\n\t\tLeaders in communities of real-world networks\n\t\t\n\t\t\tJingchengFu\n\t\t\n\t\t\n\t\t\tJianliangWu\n\t\t\t0000-0003-0524-084X\n\t\t\n\t\t\n\t\t\tChuanjianLiu\n\t\t\n\t\t\n\t\t\tJinXu\n\t\t\n\t\t10.1016/j.physa.2015.09.091\n\t\n\t\n\t\tPhysica A: Statistical Mechanics and its Applications\n\t\tPhysica A: Statistical Mechanics and its Applications\n\t\t0378-4371\n\t\t\n\t\t\t444\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c27f937723bebd8664d9af"},"refKey":16},
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{"_key":"60c27fa37723bebd8664d9be","_id":"references/60c27fa37723bebd8664d9be","_rev":"_cfFk6_6---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJulieDThompson\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t\n\t\t\tTobyJGibson\n\t\t\n\t\t10.1093/nar/22.22.4673\n\t\t7984417\n\t\tPMC308517\n\t\tark:/67375/HXZ-F03BKBVP-7\n\t\t779EA0D5394D5256976CC2873144010B7F618F65\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c27fa37723bebd8664d9bb"},"refKey":60},
{"_key":"60c280127723bebd8664d9f6","_id":"references/60c280127723bebd8664d9f6","_rev":"_cfFk6AG---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c280127723bebd8664d9f5"},"refKey":21},
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{"_key":"60c280a07723bebd8664da40","_id":"references/60c280a07723bebd8664da40","_rev":"_cfFk6Am---","tei":"\n\t\n\t\tA smooth particle mesh Ewald method\n\t\t\n\t\t\tUEssmann\n\t\t\n\t\n\t\n\t\tJ. Chem. Phys\n\t\t\n\t\t\t103\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c280a07723bebd8664da3f"},"refKey":22},
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{"_key":"60c281607723bebd8664dada","_id":"references/60c281607723bebd8664dada","_rev":"_cfFk6BS---","tei":"\n\t\n\t\tA note on ENDOG: a computer program for analysing pedigree information\n\t\t\n\t\t\tJPGutierrez\n\t\t\n\t\t\n\t\t\tFGoyache\n\t\t\n\t\t10.1111/j.1439-0388.2005.00512.x\n\t\t16130468\n\t\tark:/67375/WNG-LK3XZLMB-P\n\t\t3C5A99E1ABB4E6AB2497ED269EF6B38F2DCBE936\n\t\t\n\t\n\t\n\t\tJournal of Animal Breeding and Genetics\n\t\tJ Anim Breed Genet\n\t\t0931-2668\n\t\t1439-0388\n\t\t\n\t\t\t122\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c281607723bebd8664dad9"},"refKey":43},
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{"_key":"60c281c27723bebd8664db1c","_id":"references/60c281c27723bebd8664db1c","_rev":"_cfFk6C----","tei":"\n\t\n\t\tScalable, efficient epidemiological simulation\n\t\t\n\t\t\tStephenEubank\n\t\t\n\t\t10.1145/508791.508819\n\t\t\n\t\n\t\n\t\tProceedings of the 2002 ACM symposium on Applied computing - SAC '02\n\t\t\t\tthe 2002 ACM symposium on Applied computing - SAC '02New York, NY\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c281c27723bebd8664db1a"},"refKey":37},
{"_key":"60c281c27723bebd8664db1d","_id":"references/60c281c27723bebd8664db1d","_rev":"_cfFk6CK---","tei":"\n\t\n\t\tModelling disease outbreaks in realistic urban social networks\n\t\t\n\t\t\tSEubank\n\t\t\n\t\t\n\t\t\tHGuclu\n\t\t\n\t\t\n\t\t\tVSKumar\n\t\t\n\t\t\n\t\t\tMMarathe\n\t\t\n\t\t\n\t\t\tASrinivasan\n\t\t\n\t\t\n\t\t\tZToroczkai\n\t\t\n\t\t\n\t\t\tNWang\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t429\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c281c27723bebd8664db1a"},"refKey":39},
{"_key":"60c281c27723bebd8664db1e","_id":"references/60c281c27723bebd8664db1e","_rev":"_cfFk6CW---","tei":"\n\t\n\t\tEpiSimS simulation of a multi-component strategy for pandemic influenza\n\t\t\n\t\t\tSMMniszewski\n\t\t\n\t\t\n\t\t\tSYValle\n\t\t\n\t\t\n\t\t\tPDStroud\n\t\t\n\t\t\n\t\t\tJMRiese\n\t\t\n\t\t\n\t\t\tSJSydoriak\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the 2008 Spring Simulation Multiconference, SpringSim '08. Society for Computer Simulation International\n\t\t\t\tthe 2008 Spring Simulation Multiconference, SpringSim '08. Society for Computer Simulation InternationalSan Diego, CA\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c281c27723bebd8664db1a"},"refKey":76},
{"_key":"60c281c27723bebd8664db1f","_id":"references/60c281c27723bebd8664db1f","_rev":"_cfFk6Ci---","tei":"\n\t\n\t\tEpiSimdemics: An efficient algorithm for simulating the spread of infectious disease over large realistic social networks\n\t\t\n\t\t\tChristopherLBarrett\n\t\t\n\t\t\n\t\t\tKeithRBisset\n\t\t\n\t\t\n\t\t\tStephenGEubank\n\t\t\n\t\t\n\t\t\tXizhou Feng\n\t\t\n\t\t\n\t\t\tMadhavVMarathe\n\t\t\n\t\t10.1109/sc.2008.5214892\n\t\n\t\n\t\t2008 SC - International Conference for High Performance Computing, Networking, Storage and Analysis\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\n\t\n\tModern Epidemiology Modeling\n\n","document":{"$oid":"60c281c27723bebd8664db1a"},"refKey":7},
{"_key":"60c281c27723bebd8664db20","_id":"references/60c281c27723bebd8664db20","_rev":"_cfFk6Cq---","tei":"\n\t\n\t\tModeling interaction between individuals, social networks and public policy to support public health epidemiology\n\t\t\n\t\t\tKeithRBisset\n\t\t\n\t\t\n\t\t\tXizhouFeng\n\t\t\n\t\t\n\t\t\tMadhavMarathe\n\t\t\n\t\t\n\t\t\tShrirangYardi\n\t\t\n\t\t10.1109/wsc.2009.5429672\n\t\t\n\t\n\t\n\t\tProceedings of the 2009 Winter Simulation Conference (WSC)\n\t\t\t\tthe 2009 Winter Simulation Conference (WSC)\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c281c27723bebd8664db1a"},"refKey":14},
{"_key":"60c281c27723bebd8664db21","_id":"references/60c281c27723bebd8664db21","_rev":"_cfFk6C2---","tei":"\n\t\n\t\tIndemics: an interactive data intensive framework for high performance epidemic simulation\n\t\t\n\t\t\tKBisset\n\t\t\n\t\t\n\t\t\tJChen\n\t\t\n\t\t\n\t\t\tXFeng\n\t\t\n\t\t\n\t\t\tYMa\n\t\t\n\t\t\n\t\t\tMMarathe\n\t\t\n\t\n\t\n\t\tProceedings of the 24th ACM International Conference on Supercomputing\n\t\t\t\tthe 24th ACM International Conference on Supercomputing\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c281c27723bebd8664db1a"},"refKey":15},
{"_key":"60c281c27723bebd8664db22","_id":"references/60c281c27723bebd8664db22","_rev":"_cfFk6DC---","tei":"\n\t\n\t\tEnhancing user-productivity and capability through integration of distinct software in epidemiological systems\n\t\t\n\t\t\tSuruchiDeodhar\n\t\t\n\t\t\n\t\t\tKeithBisset\n\t\t\n\t\t\n\t\t\tJiangzhuoChen\n\t\t\n\t\t\n\t\t\tYifeiMa\n\t\t\n\t\t\n\t\t\tMadhavMarathe\n\t\t\n\t\t10.1145/2110363.2110385\n\t\n\t\n\t\tProceedings of the 2nd ACM SIGHIT symposium on International health informatics - IHI '12\n\t\t\t\tthe 2nd ACM SIGHIT symposium on International health informatics - IHI '12\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c281c27723bebd8664db1a"},"refKey":34},
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{"_key":"60c28a387723bebd8664e511","_id":"references/60c28a387723bebd8664e511","_rev":"_cfFk6eW---","tei":"\n\t\n\t\tBridging e-health and the internet of things: the sphere project\n\t\t\n\t\t\tNZhu\n\t\t\n\t\n\t\n\t\tIEEE Intell. Syst\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28a387723bebd8664e510"},"refKey":11},
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{"_key":"60c28d4c7723bebd8664e7e3","_id":"references/60c28d4c7723bebd8664e7e3","_rev":"_cfFk6ne---","tei":"\n\t\n\t\tAntigen receptor repertoire profiling from RNA-seq data\n\t\t\n\t\t\tDmitriyABolotin\n\t\t\n\t\t\n\t\t\tStanislavPoslavsky\n\t\t\n\t\t\n\t\t\tAlexeyNDavydov\n\t\t\n\t\t\n\t\t\tFelixEFrenkel\n\t\t\n\t\t\n\t\t\tLorenzoFanchi\n\t\t\n\t\t\n\t\t\tOlgaIZolotareva\n\t\t\t0000-0002-9424-8052\n\t\t\n\t\t\n\t\t\tSaskiaHemmers\n\t\t\n\t\t\n\t\t\tEkaterinaVPutintseva\n\t\t\n\t\t\n\t\t\tAnnaSObraztsova\n\t\t\n\t\t\n\t\t\tMikhailShugay\n\t\t\t0000-0001-7826-7942\n\t\t\n\t\t\n\t\t\tRavshanIAtaullakhanov\n\t\t\n\t\t\n\t\t\tAlexanderYRudensky\n\t\t\n\t\t\n\t\t\tTonNSchumacher\n\t\t\n\t\t\n\t\t\tDmitriyMChudakov\n\t\t\t0000-0003-0430-790X\n\t\t\n\t\t10.1038/nbt.3979\n\t\t29020005\n\t\tPMC6169298\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t35\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c28d4c7723bebd8664e7e1"},"refKey":3},
{"_key":"60c28d4d7723bebd8664e7eb","_id":"references/60c28d4d7723bebd8664e7eb","_rev":"_cfFk6nq---","tei":"\n\t\n\t\tEstimates of global terrestrial isoprene emissions using MEGAN (Model of Emissions of Gases and Aerosols from Nature)\n\t\t\n\t\t\tAGuenther\n\t\t\n\t\t\n\t\t\tTKarl\n\t\t\n\t\t\n\t\t\tPHarley\n\t\t\n\t\t\n\t\t\tCWiedinmyer\n\t\t\n\t\t\n\t\t\tPIPalmer\n\t\t\n\t\t\n\t\t\tCGeron\n\t\t\n\t\t10.5194/acpd-6-107-2006\n\t\t\n\t\n\t\n\t\tAtmospheric Chemistry and Physics Discussions\n\t\tAtmos. Chem. Phys. Discuss.\n\t\t1680-7375\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCopernicus GmbH\n\t\t\n\t\n\n","document":{"$oid":"60c28d4d7723bebd8664e7ea"},"refKey":4},
{"_key":"60c28d677723bebd8664e7ff","_id":"references/60c28d677723bebd8664e7ff","_rev":"_cfFk6n2---","tei":"\n\t\n\t\tRobust relationship inference in genome-wide association studies\n\t\t\n\t\t\tAManichaikul\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28d677723bebd8664e7fe"},"refKey":28},
{"_key":"60c28d677723bebd8664e800","_id":"references/60c28d677723bebd8664e800","_rev":"_cfFk6oC---","tei":"\n\t\n\t\tHaplotype Estimation Using Sequencing Reads\n\t\t\n\t\t\tOlivierDelaneau\n\t\t\n\t\t\n\t\t\tBryanHowie\n\t\t\n\t\t\n\t\t\tAnthonyJCox\n\t\t\n\t\t\n\t\t\tJean-FrançoisZagury\n\t\t\n\t\t\n\t\t\tJonathanMarchini\n\t\t\n\t\t10.1016/j.ajhg.2013.09.002\n\t\t24094745\n\t\tPMC3791270\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t93\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c28d677723bebd8664e7fe"},"refKey":30},
{"_key":"60c28d677723bebd8664e801","_id":"references/60c28d677723bebd8664e801","_rev":"_cfFk6oK---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28d677723bebd8664e7fe"},"refKey":35},
{"_key":"60c28d677723bebd8664e802","_id":"references/60c28d677723bebd8664e802","_rev":"_cfFk6oW---","tei":"\n\t\n\t\tBEDOPS: high-performance genomic feature operations\n\t\t\n\t\t\tSNeph\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28d677723bebd8664e7fe"},"refKey":38},
{"_key":"60c28d677723bebd8664e803","_id":"references/60c28d677723bebd8664e803","_rev":"_cfFk6oi---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\n\t\n\t\tAm. J. Hum. Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28d677723bebd8664e7fe"},"refKey":27},
{"_key":"60c28d677723bebd8664e804","_id":"references/60c28d677723bebd8664e804","_rev":"_cfFk6ou---","tei":"\n\t\n\t\tPolygenic Risk Score software\n\t\t\n\t\t\tJEuesden\n\t\t\n\t\t\n\t\t\tCMLewis\n\t\t\n\t\t\n\t\t\tPFO'reilly\n\t\t\n\t\t\n\t\t\tPrsice\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28d677723bebd8664e7fe"},"refKey":33},
{"_key":"60c28d677723bebd8664e805","_id":"references/60c28d677723bebd8664e805","_rev":"_cfFk6o2---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28d677723bebd8664e7fe"},"refKey":36},
{"_key":"60c28d677723bebd8664e806","_id":"references/60c28d677723bebd8664e806","_rev":"_cfFk6pC---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\n\t\n\t\tFly (Austin)\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28d677723bebd8664e7fe"},"refKey":39},
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{"_key":"60c28d9a7723bebd8664e85a","_id":"references/60c28d9a7723bebd8664e85a","_rev":"_cfFk6pm---","tei":"\n\t\n\t\tThe CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28d9a7723bebd8664e859"},"refKey":16},
{"_key":"60c28da37723bebd8664e860","_id":"references/60c28da37723bebd8664e860","_rev":"_cfFk6pu---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\t\n\t\t\tAVPyshkin\n\t\t\n\t\t\n\t\t\tAVSirotkin\n\t\t\n\t\t\n\t\t\tNVyahhi\n\t\t\n\t\t\n\t\t\tGTesler\n\t\t\n\t\t\n\t\t\tMAAlekseyev\n\t\t\n\t\t\n\t\t\tPAPevzner\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28da37723bebd8664e85f"},"refKey":56},
{"_key":"60c28da37723bebd8664e861","_id":"references/60c28da37723bebd8664e861","_rev":"_cfFk6p6---","tei":"\n\t\n\t\tInteractive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28da37723bebd8664e85f"},"refKey":66},
{"_key":"60c28da37723bebd8664e862","_id":"references/60c28da37723bebd8664e862","_rev":"_cfFk6qG---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28da37723bebd8664e85f"},"refKey":55},
{"_key":"60c28da37723bebd8664e863","_id":"references/60c28da37723bebd8664e863","_rev":"_cfFk6qS---","tei":"\n\t\n\t\tProkka: rapid prokaryotic genome annotation\n\t\t\n\t\t\tTSeemann\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28da37723bebd8664e85f"},"refKey":63},
{"_key":"60c28da37723bebd8664e864","_id":"references/60c28da37723bebd8664e864","_rev":"_cfFk6qe---","tei":"\n\t\n\t\tIdentification of acquired antimicrobial resistance genes\n\t\t\n\t\t\tEZankari\n\t\t\n\t\t\n\t\t\tHHasman\n\t\t\n\t\t\n\t\t\tSCosentino\n\t\t\n\t\t\n\t\t\tMVestergaard\n\t\t\n\t\t\n\t\t\tSRasmussen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tFMAarestrup\n\t\t\n\t\t\n\t\t\tMVLarsen\n\t\t\n\t\n\t\n\t\tJ Antimicrob Chemother\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28da37723bebd8664e85f"},"refKey":57},
{"_key":"60c28dbf7723bebd8664e87f","_id":"references/60c28dbf7723bebd8664e87f","_rev":"_cfFk6qm---","tei":"\n\t\n\t\tEnriching word vectors with subword information\n\t\t\n\t\t\tPBojanowski\n\t\t\n\t\t\n\t\t\tEGrave\n\t\t\n\t\t\n\t\t\tAJoulin\n\t\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\n\t\n\t\tTrans. Assoc. Comput. Linguist\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28dbf7723bebd8664e87e"},"refKey":7},
{"_key":"60c28dbf7723bebd8664e880","_id":"references/60c28dbf7723bebd8664e880","_rev":"_cfFk6qy---","tei":"\n\t\n\t\tAraVec: a set of Arabic word embedding models for use in Arabic NLP\n\t\t\n\t\t\tABSoliman\n\t\t\n\t\t\n\t\t\tKEissa\n\t\t\n\t\t\n\t\t\tSREl-Beltagy\n\t\t\n\t\n\t\n\t\tProc. Comput. Sci\n\t\t\n\t\t\t117\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28dbf7723bebd8664e87e"},"refKey":26},
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{"_key":"60c28ea37723bebd8664e952","_id":"references/60c28ea37723bebd8664e952","_rev":"_cfFk6sO---","tei":"\n\t\n\t\tModeling Symmetric Macromolecular Structures in Rosetta3\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tAndrewLeaver-Fay\n\t\t\n\t\t\n\t\t\tPhilBradley\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t\n\t\t\tIngemarAndré\n\t\t\n\t\t10.1371/journal.pone.0020450\n\t\t21731614\n\t\tPMC3120754\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t6\n\t\t\te20450\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c28ea37723bebd8664e951"},"refKey":35},
{"_key":"60c28ea37723bebd8664e953","_id":"references/60c28ea37723bebd8664e953","_rev":"_cfFk6sa---","tei":"\n\t\n\t\tMol*: Towards a Common Library and Tools for Web Molecular Graphics. MolVa: Workshop on Molecular Graphics and Visual Analysis of Molecular Data\n\t\t\n\t\t\tDSehnal\n\t\t\n\t\t\n\t\t\tARose\n\t\t\n\t\t\n\t\t\tJKoca\n\t\t\n\t\t\n\t\t\tSBurley\n\t\t\n\t\t\n\t\t\tSVelankar\n\t\t\n\t\t10.2312/molva.20181103\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c28ea37723bebd8664e951"},"refKey":102},
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{"_key":"60c290357723bebd8664ea55","_id":"references/60c290357723bebd8664ea55","_rev":"_cfFk6u----","tei":"\n\t\n\t\tThe MIXED Procedure. SAS/STAT 92 User's Guide. Cary, NC\n\t\t\n\t\t\tSi Inc\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c290357723bebd8664ea53"},"refKey":14},
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{"_key":"60c2910f7723bebd8664eb16","_id":"references/60c2910f7723bebd8664eb16","_rev":"_cfFk6wC---","tei":"\n\t\n\t\tCOVID-19 CG: Tracking SARS-CoV-2 mutations by locations and dates of interest\n\t\t\n\t\t\tATChen\n\t\t\n\t\t\n\t\t\tKAltschuler\n\t\t\n\t\t\n\t\t\tSHZhan\n\t\t\n\t\t\n\t\t\tYAChan\n\t\t\n\t\t\n\t\t\tBEDeverman\n\t\t\n\t\t10.1101/2020.09.23.310565\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t2020\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2910f7723bebd8664eb13"},"refKey":55},
{"_key":"60c2910f7723bebd8664eb17","_id":"references/60c2910f7723bebd8664eb17","_rev":"_cfFk6wO---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2910f7723bebd8664eb13"},"refKey":38},
{"_key":"60c2910f7723bebd8664eb18","_id":"references/60c2910f7723bebd8664eb18","_rev":"_cfFk6wa---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1093/bioinformatics/bty407\n\t\t29790939\n\t\tPMC6247931\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2910f7723bebd8664eb13"},"refKey":31},
{"_key":"60c2910f7723bebd8664eb19","_id":"references/60c2910f7723bebd8664eb19","_rev":"_cfFk6wm---","tei":"\n\t\n\t\tAn amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar\n\t\t\n\t\t\tNathanDGrubaugh\n\t\t\n\t\t\n\t\t\tKarthikGangavarapu\n\t\t\n\t\t\n\t\t\tJoshuaQuick\n\t\t\n\t\t\n\t\t\tNathanielLMatteson\n\t\t\n\t\t\n\t\t\tJaquelineGoesDe Jesus\n\t\t\n\t\t\n\t\t\tBradleyJMain\n\t\t\n\t\t\n\t\t\tAmandaLTan\n\t\t\n\t\t\n\t\t\tLaurenMPaul\n\t\t\n\t\t\n\t\t\tDougEBrackney\n\t\t\n\t\t\n\t\t\tSaranGrewal\n\t\t\n\t\t\n\t\t\tNikosGurfield\n\t\t\n\t\t\n\t\t\tKoenK AVan Rompay\n\t\t\n\t\t\n\t\t\tSharonIsern\n\t\t\n\t\t\n\t\t\tScottFMichael\n\t\t\n\t\t\n\t\t\tLarkLCoffey\n\t\t\n\t\t\n\t\t\tNicholasJLoman\n\t\t\n\t\t\n\t\t\tKristianGAndersen\n\t\t\t0000-0001-6431-5982\n\t\t\n\t\t10.1186/s13059-018-1618-7\n\t\t30621750\n\t\tPMC6325816\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2910f7723bebd8664eb13"},"refKey":39},
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{"_key":"60c2911b7723bebd8664eb51","_id":"references/60c2911b7723bebd8664eb51","_rev":"_cfFk6yC---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2911b7723bebd8664eb4b"},"refKey":29},
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{"_key":"60c292407723bebd8664ec45","_id":"references/60c292407723bebd8664ec45","_rev":"_cfFk60O---","tei":"\n\t\n\t\tWWW-query: An on-line retrieval system for biological sequence banks\n\t\t\n\t\t\tGPerrière\n\t\t\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t10.1016/0300-9084(96)84768-7\n\t\t8905155\n\t\t0300-9084(96)84768-7\n\t\tark:/67375/6H6-PMVGD7NN-X\n\t\t3E3FBCA99A32EDFC056379D7E68F5F99B12E6187\n\t\t\n\t\n\t\n\t\tBiochimie\n\t\tBiochimie\n\t\t0300-9084\n\t\t\n\t\t\t78\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c292407723bebd8664ec43"},"refKey":14},
{"_key":"60c292407723bebd8664ec46","_id":"references/60c292407723bebd8664ec46","_rev":"_cfFk60a---","tei":"\n\t\n\t\tAnalysis for free: Comparing programs for sequence analysis\n\t\t\n\t\t\tH-FFTippmann\n\t\t\n\t\t10.1093/bib/5.1.82\n\t\t15153308\n\t\t\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c292407723bebd8664ec43"},"refKey":23},
{"_key":"60c292407723bebd8664ec47","_id":"references/60c292407723bebd8664ec47","_rev":"_cfFk60m---","tei":"\n\t\n\t\tMODELTEST: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c292407723bebd8664ec43"},"refKey":17},
{"_key":"60c2926e7723bebd8664ec6a","_id":"references/60c2926e7723bebd8664ec6a","_rev":"_cfFk60u---","tei":"\n\t\n\t\tFast and flexible X-ray tomography using the ASTRA toolbox\n\t\t\n\t\t\tWimVan Aarle\n\t\t\n\t\t\n\t\t\tWillemJanPalenstijn\n\t\t\n\t\t\n\t\t\tJeroenCant\n\t\t\n\t\t\n\t\t\tElineJanssens\n\t\t\n\t\t\n\t\t\tFolkertBleichrodt\n\t\t\n\t\t\n\t\t\tAndreiDabravolski\n\t\t\n\t\t\n\t\t\tJanDe Beenhouwer\n\t\t\n\t\t\n\t\t\tKJoost Batenburg\n\t\t\n\t\t\n\t\t\tJanSijbers\n\t\t\n\t\t10.1364/oe.24.025129\n\t\t27828452\n\t\t\n\t\n\t\n\t\tOptics Express\n\t\tOpt. Express\n\t\t1094-4087\n\t\t\n\t\t\t24\n\t\t\t22\n\t\t\t25129\n\t\t\t\n\t\t\tThe Optical Society\n\t\t\n\t\n\n","document":{"$oid":"60c2926e7723bebd8664ec69"},"refKey":21},
{"_key":"60c2926e7723bebd8664ec6b","_id":"references/60c2926e7723bebd8664ec6b","_rev":"_cfFk606---","tei":"\n\t\n\t\tTomoPy: A framework for the analysis of synchrotron tomographic data\n\t\t\n\t\t\tDoğaGürsoy\n\t\t\n\t\t\n\t\t\tFrancescoDe Carlo\n\t\t\n\t\t\n\t\t\tXianghuiXiao\n\t\t\n\t\t\n\t\t\tChrisJacobsen\n\t\t\n\t\t10.1117/12.2061373\n\t\n\t\n\t\tDevelopments in X-Ray Tomography IX\n\t\t\t\t\n\t\t\tSPIE\n\t\t\t\n\t\t\t21\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2926e7723bebd8664ec69"},"refKey":8},
{"_key":"60c2926e7723bebd8664ec6c","_id":"references/60c2926e7723bebd8664ec6c","_rev":"_cfFk61G---","tei":"\n\t\n\t\tIntegration of TomoPy and the ASTRA toolbox for advanced processing and reconstruction of tomographic synchrotron data\n\t\t\n\t\t\tDaniëlMPelt\n\t\t\n\t\t\n\t\t\tDogˇaGürsoy\n\t\t\n\t\t\n\t\t\tWillemJanPalenstijn\n\t\t\n\t\t\n\t\t\tJanSijbers\n\t\t\n\t\t\n\t\t\tFrancescoDe Carlo\n\t\t\n\t\t\n\t\t\tKeesJoostBatenburg\n\t\t\n\t\t10.1107/s1600577516005658\n\t\t27140167\n\t\tPMC5315009\n\t\t\n\t\n\t\n\t\tJournal of Synchrotron Radiation\n\t\tJ Synchrotron Radiat\n\t\t1600-5775\n\t\t\n\t\t\t23\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c2926e7723bebd8664ec69"},"refKey":15},
{"_key":"60c292b57723bebd8664ecba","_id":"references/60c292b57723bebd8664ecba","_rev":"_cfFk61W---","tei":"\n\t\n\t\tThe influence of method of administration and covariates on the pharmacokinetics of propofol in adult volunteers\n\t\t\n\t\t\tTWSchnider\n\t\t\n\t\t\n\t\t\tCFMinto\n\t\t\n\t\t\n\t\t\tPLGambus\n\t\t\n\t\t\n\t\t\tCAndresen\n\t\t\n\t\t\n\t\t\tDBGoodale\n\t\t\n\t\t\n\t\t\tSLShafer\n\t\t\n\t\n\t\n\t\tAnesthesiology\n\t\t\n\t\t\t88\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c292b57723bebd8664ecb9"},"refKey":16},
{"_key":"60c292ca7723bebd8664ecc3","_id":"references/60c292ca7723bebd8664ecc3","_rev":"_cfFk61i---","tei":"\n\t\n\t\tIBM SPSS Statistics for Windows\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t26.0\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c292ca7723bebd8664ecc2"},"refKey":11},
{"_key":"60c292cd7723bebd8664ecc8","_id":"references/60c292cd7723bebd8664ecc8","_rev":"_cfFk61u---","tei":"\n\t\n\t\tSignalP 4.0: discriminating signal peptides from transmembrane regions\n\t\t\n\t\t\tThomasNordahlPetersen\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tHenrikNielsen\n\t\t\n\t\t10.1038/nmeth.1701\n\t\t21959131\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t8\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c292cd7723bebd8664ecc7"},"refKey":36},
{"_key":"60c292cd7723bebd8664ecc9","_id":"references/60c292cd7723bebd8664ecc9","_rev":"_cfFk616---","tei":"\n\t\n\t\tProtein Identification and Analysis Tools on the ExPASy Server\n\t\t\n\t\t\tElisabethGasteiger\n\t\t\n\t\t\n\t\t\tChristineHoogland\n\t\t\n\t\t\n\t\t\tAlexandreGattiker\n\t\t\n\t\t\n\t\t\tS'everineDuvaud\n\t\t\n\t\t\n\t\t\tMarcRWilkins\n\t\t\n\t\t\n\t\t\tRonDAppel\n\t\t\n\t\t\n\t\t\tAmosBairoch\n\t\t\n\t\t10.1385/1-59259-890-0:571\n\t\t\n\t\n\t\n\t\tThe Proteomics Protocols Handbook\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c292cd7723bebd8664ecc7"},"refKey":14},
{"_key":"60c293137723bebd8664ecf8","_id":"references/60c293137723bebd8664ecf8","_rev":"_cfFk62G---","tei":"\n\t\n\t\tA deep learning genome-mining strategy for biosynthetic gene cluster prediction\n\t\t\n\t\t\tGeoffreyDHannigan\n\t\t\n\t\t\n\t\t\tDavidPrihoda\n\t\t\n\t\t\n\t\t\tAndrejPalicka\n\t\t\n\t\t\n\t\t\tJindrichSoukup\n\t\t\n\t\t\n\t\t\tOndrejKlempir\n\t\t\n\t\t\n\t\t\tLenaRampula\n\t\t\n\t\t\n\t\t\tJindrichDurcak\n\t\t\n\t\t\n\t\t\tMichaelWurst\n\t\t\n\t\t\n\t\t\tJakubKotowski\n\t\t\n\t\t\n\t\t\tDanChang\n\t\t\n\t\t\n\t\t\tRurunWang\n\t\t\n\t\t\n\t\t\tGraziaPiizzi\n\t\t\n\t\t\n\t\t\tGergelyTemesi\n\t\t\n\t\t\n\t\t\tDariaJHazuda\n\t\t\n\t\t\n\t\t\tChristopherHWoelk\n\t\t\n\t\t\n\t\t\tDannyABitton\n\t\t\n\t\t10.1093/nar/gkz654\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c293137723bebd8664ecf7"},"refKey":56},
{"_key":"60c293137723bebd8664ecf9","_id":"references/60c293137723bebd8664ecf9","_rev":"_cfFk62S---","tei":"\n\t\n\t\tInsights into Secondary Metabolism from a Global Analysis of Prokaryotic Biosynthetic Gene Clusters\n\t\t\n\t\t\tPeterCimermancic\n\t\t\n\t\t\n\t\t\tMarnixHMedema\n\t\t\n\t\t\n\t\t\tJanClaesen\n\t\t\n\t\t\n\t\t\tKenjiKurita\n\t\t\n\t\t\n\t\t\tLauraCWieland brown\n\t\t\n\t\t\n\t\t\tKonstantinosMavrommatis\n\t\t\n\t\t\n\t\t\tAmritaPati\n\t\t\n\t\t\n\t\t\tPaulAGodfrey\n\t\t\n\t\t\n\t\t\tMichaelKoehrsen\n\t\t\n\t\t\n\t\t\tJonClardy\n\t\t\n\t\t\n\t\t\tBruceWBirren\n\t\t\n\t\t\n\t\t\tErikoTakano\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t\n\t\t\tRogerGLinington\n\t\t\n\t\t\n\t\t\tMichaelAFischbach\n\t\t\n\t\t10.1016/j.cell.2014.06.034\n\t\t25036635\n\t\tPMC4123684\n\t\t\n\t\t\n\t\n\t\n\t\tCell\n\t\tCell\n\t\t0092-8674\n\t\t\n\t\t\t158\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c293137723bebd8664ecf7"},"refKey":259},
{"_key":"60c293137723bebd8664ecfa","_id":"references/60c293137723bebd8664ecfa","_rev":"_cfFk62e---","tei":"\n\t\n\t\tPathway Tools version 23.0 update: software for pathway/genome informatics and systems biology\n\t\t\n\t\t\tPDKarp\n\t\t\n\t\t\n\t\t\tPEMidford\n\t\t\n\t\t\n\t\t\tRBillington\n\t\t\n\t\t\n\t\t\tAKothari\n\t\t\n\t\t\n\t\t\tMKrummenacker\n\t\t\n\t\t\n\t\t\tMLatendresse\n\t\t\n\t\t10.1093/bib/bbz104\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c293137723bebd8664ecf7"},"refKey":54},
{"_key":"60c293137723bebd8664ecfb","_id":"references/60c293137723bebd8664ecfb","_rev":"_cfFk62q---","tei":"\n\t\n\t\tSMURF: Genomic mapping of fungal secondary metabolite clusters\n\t\t\n\t\t\tNoraKhaldi\n\t\t\n\t\t\n\t\t\tFayazTSeifuddin\n\t\t\n\t\t\n\t\t\tGeoffTurner\n\t\t\n\t\t\n\t\t\tDanielHaft\n\t\t\n\t\t\n\t\t\tWilliamCNierman\n\t\t\n\t\t\n\t\t\tKennethHWolfe\n\t\t\n\t\t\n\t\t\tNatalieDFedorova\n\t\t\n\t\t10.1016/j.fgb.2010.06.003\n\t\t20554054\n\t\tPMC2916752\n\t\t\n\t\n\t\n\t\tFungal Genetics and Biology\n\t\tFungal Genetics and Biology\n\t\t1087-1845\n\t\t\n\t\t\t47\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c293137723bebd8664ecf7"},"refKey":242},
{"_key":"60c293137723bebd8664ecfc","_id":"references/60c293137723bebd8664ecfc","_rev":"_cfFk622---","tei":"\n\t\n\t\tClustScan : an integrated program package for the semi-automatic annotation of modular biosynthetic gene clusters and in silico prediction of novel chemical structures\n\t\t\n\t\t\tAntonioStarcevic\n\t\t\n\t\t\n\t\t\tJuricaZucko\n\t\t\n\t\t\n\t\t\tJuricaSimunkovic\n\t\t\n\t\t\n\t\t\tPaulFLong\n\t\t\n\t\t\n\t\t\tJohnCullum\n\t\t\n\t\t\n\t\t\tDaslavHranueli\n\t\t\n\t\t10.1093/nar/gkn685\n\t\t18978015\n\t\tPMC2588505\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c293137723bebd8664ecf7"},"refKey":239},
{"_key":"60c293137723bebd8664ecfd","_id":"references/60c293137723bebd8664ecfd","_rev":"_cfFk63C---","tei":"\n\t\n\t\tDoBISCUIT: a database of secondary metabolite biosynthetic gene clusters\n\t\t\n\t\t\tNatsukoIchikawa\n\t\t\n\t\t\n\t\t\tMachiSasagawa\n\t\t\n\t\t\n\t\t\tMikaYamamoto\n\t\t\n\t\t\n\t\t\tHisayukiKomaki\n\t\t\n\t\t\n\t\t\tYumiYoshida\n\t\t\n\t\t\n\t\t\tShujiYamazaki\n\t\t\n\t\t\n\t\t\tNobuyukiFujita\n\t\t\n\t\t10.1093/nar/gks1177\n\t\t23185043\n\t\tPMC3531092\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c293137723bebd8664ecf7"},"refKey":240},
{"_key":"60c2935e7723bebd8664ed30","_id":"references/60c2935e7723bebd8664ed30","_rev":"_cfFk63O---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2935e7723bebd8664ed2f"},"refKey":9},
{"_key":"60c2935e7723bebd8664ed31","_id":"references/60c2935e7723bebd8664ed31","_rev":"_cfFk63a---","tei":"\n\t\n\t\tProtein secondary structure prediction based on positionspecific scoring matrices\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\t\n\t\t\t292\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2935e7723bebd8664ed2f"},"refKey":10},
{"_key":"60c293637723bebd8664ed3c","_id":"references/60c293637723bebd8664ed3c","_rev":"_cfFk63m---","tei":"\n\t\n\t\tTowards automated crystallographic structure refinement withphenix.refine\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tMaratMustyakimov\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1107/s0907444912001308\n\t\t22505256\n\t\tPMC3322595\n\t\tark:/67375/WNG-MXJ2DPRR-0\n\t\tBD670148C9B6E82421013A29392A96BB55B63272\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t68\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c293637723bebd8664ed3b"},"refKey":1},
{"_key":"60c293637723bebd8664ed3d","_id":"references/60c293637723bebd8664ed3d","_rev":"_cfFk63y---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c293637723bebd8664ed3b"},"refKey":0},
{"_key":"60c2937d7723bebd8664ed4d","_id":"references/60c2937d7723bebd8664ed4d","_rev":"_cfFk64----","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization and multithreading Oleg Public Access\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t10.1002/jcc.21334.AutoDock\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2937d7723bebd8664ed4c"},"refKey":33},
{"_key":"60c293ab7723bebd8664ed6c","_id":"references/60c293ab7723bebd8664ed6c","_rev":"_cfFk64G---","tei":"\n\t\n\t\tA reverse transcriptase-polymerase chain reaction survey of infectious bronchitis virus genotypes in Western Europe from 2002 to 2006\n\t\t\n\t\t\tKJWorthington\n\t\t\n\t\t\n\t\t\tRjwJ WCurrie\n\t\t\n\t\t\n\t\t\tRCJones\n\t\t\n\t\t10.1080/03079450801986529\n\t\t18568650\n\t\t\n\t\t\n\t\n\t\n\t\tAvian Pathology\n\t\tAvian Pathology\n\t\t0307-9457\n\t\t1465-3338\n\t\t\n\t\t\t37\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c293ab7723bebd8664ed6b"},"refKey":26},
{"_key":"60c293ac7723bebd8664ed70","_id":"references/60c293ac7723bebd8664ed70","_rev":"_cfFk64S---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c293ac7723bebd8664ed6f"},"refKey":13},
{"_key":"60c293d07723bebd8664eda1","_id":"references/60c293d07723bebd8664eda1","_rev":"_cfFk64e---","tei":"\n\t\n\t\t\n\t\t\tYKim\n\t\t\n\t\tarXiv:1408.5882\n\t\tConvolutional neural networks for sentence classification\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c293d07723bebd8664eda0"},"refKey":7},
{"_key":"60c2941a7723bebd8664edcc","_id":"references/60c2941a7723bebd8664edcc","_rev":"_cfFk64q---","tei":"\n\t\n\t\tDINC 2.0: A New Protein–Peptide Docking Webserver Using an Incremental Approach\n\t\t\n\t\t\tDinlerAAntunes\n\t\t\n\t\t\n\t\t\tMarkMoll\n\t\t\n\t\t\n\t\t\tDidierDevaurs\n\t\t\n\t\t\n\t\t\tKyleRJackson\n\t\t\n\t\t\n\t\t\tGregoryLizée\n\t\t\n\t\t\n\t\t\tLydiaEKavraki\n\t\t\n\t\t10.1158/0008-5472.can-17-0511\n\t\t29092940\n\t\tPMC5679007\n\t\t\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t77\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c2941a7723bebd8664edcb"},"refKey":10},
{"_key":"60c2941a7723bebd8664edcd","_id":"references/60c2941a7723bebd8664edcd","_rev":"_cfFk642---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\t\n\t\t\tJCHess\n\t\t\n\t\t\n\t\t\tBLindahl\n\t\t\n\t\t\n\t\t\tE\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2941a7723bebd8664edcb"},"refKey":3},
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{"_key":"60c294397723bebd8664edee","_id":"references/60c294397723bebd8664edee","_rev":"_cfFk65O---","tei":"\n\t\n\t\tImproved optimisation for the robust and accurate linear registration and motion correction of brain image\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t\n\t\t\tPBannister\n\t\t\n\t\t\n\t\t\tJBrady\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\t\n\t\t\t17\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c294397723bebd8664eded"},"refKey":48},
{"_key":"60c294397723bebd8664edef","_id":"references/60c294397723bebd8664edef","_rev":"_cfFk65W---","tei":"\n\t\n\t\tFast robust automated brain extraction\n\t\t\n\t\t\tStephenMSmith\n\t\t\n\t\t10.1002/hbm.10062\n\t\t12391568\n\t\tark:/67375/WNG-208NHSSB-3\n\t\tDAE25C750682C3AC83CE3CFA8F56DBAA60AE1064\n\t\t\n\t\n\t\n\t\tHuman Brain Mapping\n\t\tHum. Brain Mapp.\n\t\t1065-9471\n\t\t1097-0193\n\t\t\n\t\t\t17\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c294397723bebd8664eded"},"refKey":49},
{"_key":"60c294397723bebd8664edf0","_id":"references/60c294397723bebd8664edf0","_rev":"_cfFk65i---","tei":"\n\t\n\t\tLindquist MA. The statistical analysis of fMRI data\n\t\t\n\t\t\tNNLab\n\t\t\n\t\t\n\t\t\tNordicaktiva\n\t\t\n\t\t\n\t\n\t\n\t\tStatistical Science\n\t\t\n\t\t\t23\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c294397723bebd8664eded"},"refKey":43},
{"_key":"60c294497723bebd8664ee01","_id":"references/60c294497723bebd8664ee01","_rev":"_cfFk65u---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c294497723bebd8664ee00"},"refKey":19},
{"_key":"60c294497723bebd8664ee02","_id":"references/60c294497723bebd8664ee02","_rev":"_cfFk656---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c294497723bebd8664ee00"},"refKey":18},
{"_key":"60c294887723bebd8664ee4c","_id":"references/60c294887723bebd8664ee4c","_rev":"_cfFk66G---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)−a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c294887723bebd8664ee4b"},"refKey":6},
{"_key":"60c294887723bebd8664ee4d","_id":"references/60c294887723bebd8664ee4d","_rev":"_cfFk66O---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c294887723bebd8664ee4b"},"refKey":7},
{"_key":"60c295247723bebd8664ee91","_id":"references/60c295247723bebd8664ee91","_rev":"_cfFk66a---","tei":"\n\t\n\t\tQualtrics for education\n\t\t\n\t\t\tQualtrics\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c295247723bebd8664ee90"},"refKey":5},
{"_key":"60c2953f7723bebd8664eea9","_id":"references/60c2953f7723bebd8664eea9","_rev":"_cfFk66m---","tei":"\n\t\n\t\tImplementing pharmacogenomics decision support across seven European countries: The Ubiquitous Pharmacogenomics (U-PGx) project\n\t\t\n\t\t\tKathrinBlagec\n\t\t\n\t\t\n\t\t\tRudolfKoopmann\n\t\t\n\t\t\n\t\t\tMandyCrommentuijn – Van Rhenen\n\t\t\n\t\t\n\t\t\tIngeHolsappel\n\t\t\n\t\t\n\t\t\tCathelijneHVan Der Wouden\n\t\t\n\t\t\n\t\t\tLidijaKonta\n\t\t\n\t\t\n\t\t\tHongXu\n\t\t\n\t\t\n\t\t\tDanielaSteinberger\n\t\t\n\t\t\n\t\t\tEnricoJust\n\t\t\n\t\t\n\t\t\tJesseJSwen\n\t\t\n\t\t\n\t\t\tHenk-JanGuchelaar\n\t\t\n\t\t\n\t\t\tMatthiasSamwald\n\t\t\n\t\t10.1093/jamia/ocy005\n\t\t29444243\n\t\tPMC6016647\n\t\t\n\t\n\t\n\t\tJournal of the American Medical Informatics Association\n\t\t1067-5027\n\t\t1527-974X\n\t\t\n\t\t\t25\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2953f7723bebd8664eea8"},"refKey":36},
{"_key":"60c2955d7723bebd8664eeba","_id":"references/60c2955d7723bebd8664eeba","_rev":"_cfFk66y---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNoelMO'boyle\n\t\t\n\t\t\n\t\t\tMichaelBanck\n\t\t\n\t\t\n\t\t\tCraigAJames\n\t\t\n\t\t\n\t\t\tChrisMorley\n\t\t\n\t\t\n\t\t\tTimVandermeersch\n\t\t\n\t\t\n\t\t\tGeoffreyRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t21982300\n\t\tPMC3198950\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2955d7723bebd8664eeb9"},"refKey":57},
{"_key":"60c2955d7723bebd8664eebb","_id":"references/60c2955d7723bebd8664eebb","_rev":"_cfFk67----","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2955d7723bebd8664eeb9"},"refKey":56},
{"_key":"60c2955d7723bebd8664eebc","_id":"references/60c2955d7723bebd8664eebc","_rev":"_cfFk67K---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2955d7723bebd8664eeb9"},"refKey":76},
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{"_key":"60c2955d7723bebd8664eec0","_id":"references/60c2955d7723bebd8664eec0","_rev":"_cfFk676---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.2011.75\n\t\t21988835\n\t\tPMC3261699\n\t\t\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMolecular Systems Biology\n\t\t1744-4292\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2955d7723bebd8664eeb9"},"refKey":68},
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{"_key":"60c295827723bebd8664ef19","_id":"references/60c295827723bebd8664ef19","_rev":"_cfFk68m---","tei":"\n\t\n\t\tStatistical significance for genomewide studies\n\t\t\n\t\t\tJDStorey\n\t\t\n\t\t\n\t\t\tRTibshirani\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t100\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c295827723bebd8664ef18"},"refKey":36},
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{"_key":"60c295937723bebd8664ef26","_id":"references/60c295937723bebd8664ef26","_rev":"_cfFk69S---","tei":"\n\t\n\t\tStringTie enables improved reconstruction of a transcriptome from RNA-seq reads\n\t\t\n\t\t\tMihaelaPertea\n\t\t\n\t\t\n\t\t\tGeoMPertea\n\t\t\n\t\t\n\t\t\tCorinaMAntonescu\n\t\t\n\t\t\n\t\t\tTsung-ChengChang\n\t\t\n\t\t\n\t\t\tJoshuaTMendell\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nbt.3122\n\t\t25690850\n\t\tPMC4643835\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t33\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c295937723bebd8664ef23"},"refKey":22},
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{"_key":"60c296197723bebd8664ef95","_id":"references/60c296197723bebd8664ef95","_rev":"_cfFk7-i---","tei":"\n\t\n\t\tEvent detection in Twitter\n\t\t\n\t\t\tJWeng\n\t\t\n\t\t\n\t\t\tBSLee\n\t\t\n\t\n\t\n\t\tFifth International AAAI Conference on Weblogs and Social Media\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c296197723bebd8664ef94"},"refKey":31},
{"_key":"60c296197723bebd8664ef96","_id":"references/60c296197723bebd8664ef96","_rev":"_cfFk7-u---","tei":"\n\t\n\t\tMention-anomaly-based Event Detection and tracking in Twitter\n\t\t\n\t\t\tAdrienGuille\n\t\t\n\t\t\n\t\t\tCecileFavre\n\t\t\n\t\t10.1109/asonam.2014.6921613\n\t\t\n\t\n\t\n\t\t2014 IEEE/ACM International Conference on Advances in Social Networks Analysis and Mining (ASONAM 2014)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c296197723bebd8664ef94"},"refKey":10},
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{"_key":"60c296b17723bebd8664f050","_id":"references/60c296b17723bebd8664f050","_rev":"_cfFk7Ee---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c296b17723bebd8664f04e"},"refKey":1},
{"_key":"60c296b17723bebd8664f051","_id":"references/60c296b17723bebd8664f051","_rev":"_cfFk7Eq---","tei":"\n\t\n\t\tAutomated construction and graphical presentation of protein blocks from unaligned sequences\n\t\t\n\t\t\tStevenHenikoff\n\t\t\n\t\t\n\t\t\tJorjaGHenikoff\n\t\t\n\t\t\n\t\t\tWilliamJAlford\n\t\t\n\t\t\n\t\t\tShmuelPietrokovski\n\t\t\n\t\t10.1016/0378-1119(95)00486-p\n\t\t7590261\n\t\t0378-1119(95)00486-P\n\t\tark:/67375/6H6-9S2DHVTG-V\n\t\tD5448DF1945A6EEC229EAC28884E542D4D4F9A42\n\t\n\t\n\t\tGene\n\t\tGene\n\t\t0378-1119\n\t\t\n\t\t\t163\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c296b17723bebd8664f04e"},"refKey":32},
{"_key":"60c296b17723bebd8664f052","_id":"references/60c296b17723bebd8664f052","_rev":"_cfFk7Ey---","tei":"\n\t\n\t\tThe ClustalX windows interface: flexible strategies for multiple sequence alignement aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c296b17723bebd8664f04e"},"refKey":76},
{"_key":"60c296b17723bebd8664f053","_id":"references/60c296b17723bebd8664f053","_rev":"_cfFk7F----","tei":"\n\t\n\t\tPHYLIP (Phylogeny Inference Package) version 3.5c: Distributed by the author\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\t\n\t\t\t\n\t\t\tSeattle\n\t\t\n\t\t\n\t\t\tDepartment of Genetics, University of Washington\n\t\t\n\t\n\n","document":{"$oid":"60c296b17723bebd8664f04e"},"refKey":24},
{"_key":"60c296c87723bebd8664f083","_id":"references/60c296c87723bebd8664f083","_rev":"_cfFk7FK---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJamesCPhillips\n\t\t\n\t\t\n\t\t\tRosemaryBraun\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tJamesGumbart\n\t\t\n\t\t\n\t\t\tEmadTajkhorshid\n\t\t\n\t\t\n\t\t\tElizabethVilla\n\t\t\n\t\t\n\t\t\tChristopheChipot\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tLaxmikantKalé\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1002/jcc.20289\n\t\t16222654\n\t\tPMC2486339\n\t\tark:/67375/WNG-4VV0NHGH-L\n\t\t9CA05D9586DF2A6CDED3A7F227C6C9CF046796F7\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c296c87723bebd8664f082"},"refKey":2},
{"_key":"60c296c87723bebd8664f084","_id":"references/60c296c87723bebd8664f084","_rev":"_cfFk7FW---","tei":"\n\t\n\t\tGROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tCarstenKutzner\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1021/ct700301q\n\t\t26620784\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c296c87723bebd8664f082"},"refKey":7},
{"_key":"60c297257723bebd8664f0d6","_id":"references/60c297257723bebd8664f0d6","_rev":"_cfFk7Fi---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\tPublished 2013\n\n","document":{"$oid":"60c297257723bebd8664f0d5"},"refKey":14},
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{"_key":"60c29b537723bebd8664f489","_id":"references/60c29b537723bebd8664f489","_rev":"_cfFk7Vi---","tei":"\n\t\n\t\tA computational proposal for designing structured RNA pools for in vitro selection of RNAs\n\t\t\n\t\t\tNKim\n\t\t\n\t\t\n\t\t\tHHGan\n\t\t\n\t\t\n\t\t\tTSchlick\n\t\t\n\t\t10.1261/rna.374907\n\t\t17322501\n\t\tPMC1831855\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t13\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c29b537723bebd8664f485"},"refKey":101},
{"_key":"60c29b537723bebd8664f48a","_id":"references/60c29b537723bebd8664f48a","_rev":"_cfFk7Vu---","tei":"\n\t\n\t\tDOCK 6: Impact of new features and current docking performance\n\t\t\n\t\t\tWilliamJAllen\n\t\t\n\t\t\n\t\t\tTrentEBalius\n\t\t\n\t\t\n\t\t\tSudiptoMukherjee\n\t\t\n\t\t\n\t\t\tScottRBrozell\n\t\t\n\t\t\n\t\t\tDemetriTMoustakas\n\t\t\n\t\t\n\t\t\tPThereseLang\n\t\t\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tIrwinDKuntz\n\t\t\n\t\t\n\t\t\tRobertCRizzo\n\t\t\n\t\t10.1002/jcc.23905\n\t\t25914306\n\t\tPMC4469538\n\t\tark:/67375/WNG-MPQFD5JF-Z\n\t\tA5EB00E73C18B4CCE5B4B7E659E901972FA5A195\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t36\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c29b537723bebd8664f485"},"refKey":89},
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{"_key":"60c29b537723bebd8664f48d","_id":"references/60c29b537723bebd8664f48d","_rev":"_cfFk7WS---","tei":"\n\t\n\t\tModeling Complex RNA Tertiary Folds with Rosetta\n\t\t\n\t\t\tClarenceYuCheng\n\t\t\n\t\t\n\t\t\tFang-ChiehChou\n\t\t\n\t\t\n\t\t\tRhijuDas\n\t\t\n\t\t10.1016/bs.mie.2014.10.051\n\t\t25726460\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t553\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c29b537723bebd8664f485"},"refKey":93},
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{"_key":"60c29b537723bebd8664f48f","_id":"references/60c29b537723bebd8664f48f","_rev":"_cfFk7Wq---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJamesCPhillips\n\t\t\n\t\t\n\t\t\tRosemaryBraun\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tJamesGumbart\n\t\t\n\t\t\n\t\t\tEmadTajkhorshid\n\t\t\n\t\t\n\t\t\tElizabethVilla\n\t\t\n\t\t\n\t\t\tChristopheChipot\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tLaxmikantKalé\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1002/jcc.20289\n\t\t16222654\n\t\tPMC2486339\n\t\tark:/67375/WNG-4VV0NHGH-L\n\t\t9CA05D9586DF2A6CDED3A7F227C6C9CF046796F7\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c29b537723bebd8664f485"},"refKey":59},
{"_key":"60c29b537723bebd8664f490","_id":"references/60c29b537723bebd8664f490","_rev":"_cfFk7W2---","tei":"\n\t\n\t\tThe HADDOCK web server for data-driven biomolecular docking\n\t\t\n\t\t\tSjoerdJDe Vries\n\t\t\n\t\t\n\t\t\tMarcVan Dijk\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\n\t\t10.1038/nprot.2010.32\n\t\t20431534\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t5\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c29b537723bebd8664f485"},"refKey":90},
{"_key":"60c29b537723bebd8664f491","_id":"references/60c29b537723bebd8664f491","_rev":"_cfFk7XC---","tei":"\n\t\n\t\tPatchDock and SymmDock: servers for rigid and symmetric docking\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tYInbar\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tHJWolfson\n\t\t\n\t\t10.1093/nar/gki481\n\t\t15980490\n\t\tPMC1160241\n\t\tark:/67375/HXZ-5SHH9NN3-T\n\t\t69025555577394917D43758F4E26C6EAF09BA9A4\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c29b537723bebd8664f485"},"refKey":91},
{"_key":"60c29b537723bebd8664f492","_id":"references/60c29b537723bebd8664f492","_rev":"_cfFk7XO---","tei":"\n\t\n\t\tComparison of multiple Amber force fields and development of improved protein backbone parameters\n\t\t\n\t\t\tViktorHornak\n\t\t\n\t\t\n\t\t\tRobertAbel\n\t\t\n\t\t\n\t\t\tAsimOkur\n\t\t\n\t\t\n\t\t\tBentleyStrockbine\n\t\t\n\t\t\n\t\t\tAdrianRoitberg\n\t\t\n\t\t\n\t\t\tCarlosSimmerling\n\t\t\n\t\t10.1002/prot.21123\n\t\t16981200\n\t\tPMC4805110\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t65\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c29b537723bebd8664f485"},"refKey":57},
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{"_key":"60c29c587723bebd8664f542","_id":"references/60c29c587723bebd8664f542","_rev":"_cfFk7Y6---","tei":"\n\t\n\t\tRestoring Low Resolution Structure of Biological Macromolecules from Solution Scattering Using Simulated Annealing\n\t\t\n\t\t\tDISvergun\n\t\t\n\t\t10.1016/s0006-3495(99)77443-6\n\t\t10354416\n\t\tPMC1300260\n\t\tS0006-3495(99)77443-6\n\t\tark:/67375/6H6-RRXGT91N-N\n\t\t546AB47AC3E005C9E7AE83AB6F1D439C0CD34DFB\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t76\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c29c587723bebd8664f53e"},"refKey":58},
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{"_key":"60c29ddd7723bebd8664f70c","_id":"references/60c29ddd7723bebd8664f70c","_rev":"_cfFk7jG---","tei":"\n\t\n\t\tMolecular replacement withMOLREP\n\t\t\n\t\t\tAlexeiVagin\n\t\t\n\t\t\n\t\t\tAlexeiTeplyakov\n\t\t\n\t\t10.1107/s0907444909042589\n\t\t20057045\n\t\tark:/67375/WNG-L6BTFJCJ-Q\n\t\t60EE4E8298DFE164D9A3FFD8D1AC7E3F314D1948\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c29ddd7723bebd8664f70b"},"refKey":60},
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{"_key":"60c29e617723bebd8664f772","_id":"references/60c29e617723bebd8664f772","_rev":"_cfFk7ki---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap) -A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielk\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c29e617723bebd8664f770"},"refKey":48},
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{"_key":"60c2a3267723bebd8664fc20","_id":"references/60c2a3267723bebd8664fc20","_rev":"_cfFk74G---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2a3267723bebd8664fc1f"},"refKey":49},
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{"_key":"60c2a32d7723bebd8664fc40","_id":"references/60c2a32d7723bebd8664fc40","_rev":"_cfFk74q---","tei":"\n\t\n\t\tDOCK 6: Impact of new features and current docking performance\n\t\t\n\t\t\tWilliamJAllen\n\t\t\n\t\t\n\t\t\tTrentEBalius\n\t\t\n\t\t\n\t\t\tSudiptoMukherjee\n\t\t\n\t\t\n\t\t\tScottRBrozell\n\t\t\n\t\t\n\t\t\tDemetriTMoustakas\n\t\t\n\t\t\n\t\t\tPThereseLang\n\t\t\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tIrwinDKuntz\n\t\t\n\t\t\n\t\t\tRobertCRizzo\n\t\t\n\t\t10.1002/jcc.23905\n\t\t25914306\n\t\tPMC4469538\n\t\tark:/67375/WNG-MPQFD5JF-Z\n\t\tA5EB00E73C18B4CCE5B4B7E659E901972FA5A195\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t36\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2a32d7723bebd8664fc3e"},"refKey":33},
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{"_key":"60c2a32d7723bebd8664fc42","_id":"references/60c2a32d7723bebd8664fc42","_rev":"_cfFk75C---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2a32d7723bebd8664fc3e"},"refKey":35},
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{"_key":"60c2a4a27723bebd8664fdde","_id":"references/60c2a4a27723bebd8664fdde","_rev":"_cfFk79K---","tei":"\n\t\n\t\tGalaxy: A platform for interactive large-scale genome analysis\n\t\t\n\t\t\tBGiardine\n\t\t\n\t\t\n\t\t\tCRiemer\n\t\t\n\t\t\n\t\t\tRCHardison\n\t\t\n\t\t\n\t\t\tRBurhans\n\t\t\n\t\t\n\t\t\tLElnitski\n\t\t\n\t\t\n\t\t\tPShah\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tDBlankenberg\n\t\t\n\t\t\n\t\t\tIAlbert\n\t\t\n\t\t\n\t\t\tJTaylor\n\t\t\n\t\t10.1101/gr.4086505\n\t\t16169926\n\t\tPMC1240089\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t15\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2a4a27723bebd8664fdd8"},"refKey":53},
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{"_key":"60c2a6087723bebd8664ff00","_id":"references/60c2a6087723bebd8664ff00","_rev":"_cfFk8_6---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2a6087723bebd8664fefd"},"refKey":49},
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{"_key":"60c2a7357723bebd8664fffd","_id":"references/60c2a7357723bebd8664fffd","_rev":"_cfFk8F----","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2a7357723bebd8664fffb"},"refKey":26},
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{"_key":"60c2aa267723bebd86650241","_id":"references/60c2aa267723bebd86650241","_rev":"_cfFk8NK---","tei":"\n\t\n\t\tSoftware for the Spatial and Space-Time Scan Statistics\n\t\t\n\t\t\tTMSatscan\n\t\t\n\t\t\n\t\n\t\n\t\tInformation Management Services. Available\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2aa267723bebd86650240"},"refKey":39},
{"_key":"60c2aa267723bebd86650242","_id":"references/60c2aa267723bebd86650242","_rev":"_cfFk8NW---","tei":"\n\t\n\t\tSoftware for Exploratory Spatial Data Analysis (ESDA)\n\t\t\n\t\t\tTMGeoda\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t12\n\t\t\t28\n\t\t\n\t\n\tAvailable online\n\n","document":{"$oid":"60c2aa267723bebd86650240"},"refKey":37},
{"_key":"60c2aa677723bebd86650266","_id":"references/60c2aa677723bebd86650266","_rev":"_cfFk8Ni---","tei":"\n\t\n\t\tCytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\t10.1101/gr.1239303\n\t\t14597658\n\t\tPMC403769\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2aa677723bebd86650265"},"refKey":86},
{"_key":"60c2aa677723bebd86650267","_id":"references/60c2aa677723bebd86650267","_rev":"_cfFk8Nq---","tei":"\n\t\n\t\tInteractive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees\n\t\t\n\t\t\tIvicaLetunic\n\t\t\t0000-0003-3560-4288\n\t\t\n\t\t\n\t\t\tPeerBork\n\t\t\n\t\t10.1093/nar/gkw290\n\t\t27095192\n\t\tPMC4987883\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2aa677723bebd86650265"},"refKey":75},
{"_key":"60c2aa677723bebd86650268","_id":"references/60c2aa677723bebd86650268","_rev":"_cfFk8N2---","tei":"\n\t\n\t\tIn Situ Tagged nsp15 Reveals Interactions with Coronavirus Replication/Transcription Complex-Associated Proteins\n\t\t\n\t\t\tJeremiahAthmer\n\t\t\n\t\t\n\t\t\tAnthonyRFehr\n\t\t\n\t\t\n\t\t\tMatthewGrunewald\n\t\t\n\t\t\n\t\t\tEverettClintonSmith\n\t\t\n\t\t\n\t\t\tMarkRDenison\n\t\t\n\t\t\n\t\t\tStanleyPerlman\n\t\t\n\t\t10.1128/mbio.02320-16\n\t\t28143984\n\t\tPMC5285509\n\t\t\n\t\t\n\t\n\t\n\t\tmBio\n\t\tmBio\n\t\t2150-7511\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c2aa677723bebd86650265"},"refKey":31},
{"_key":"60c2aa677723bebd86650269","_id":"references/60c2aa677723bebd86650269","_rev":"_cfFk8OC---","tei":"\n\t\n\t\tThe Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes\n\t\t\n\t\t\tToddJTreangen\n\t\t\n\t\t\n\t\t\tBrianDOndov\n\t\t\n\t\t\n\t\t\tSergeyKoren\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\n\t\t10.1186/s13059-014-0524-x\n\t\t25410596\n\t\tPMC4262987\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t11\n\t\t\t524\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2aa677723bebd86650265"},"refKey":78},
{"_key":"60c2aa677723bebd8665026a","_id":"references/60c2aa677723bebd8665026a","_rev":"_cfFk8OO---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2aa677723bebd86650265"},"refKey":80},
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{"_key":"60c2aaa97723bebd866502b0","_id":"references/60c2aaa97723bebd866502b0","_rev":"_cfFk8O6---","tei":"\n\t\n\t\tPTRAJ and CPPTRAJ: Software for processing and analysis of molecular dynamics trajectory data\n\t\t\n\t\t\tDRRoe\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\n\t\n\t\tJ. Chem. Theory Comput\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2aaa97723bebd866502ad"},"refKey":42},
{"_key":"60c2aaa97723bebd866502b1","_id":"references/60c2aaa97723bebd866502b1","_rev":"_cfFk8PG---","tei":"\n\t\n\t\tUCSF Chimera -a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2aaa97723bebd866502ad"},"refKey":45},
{"_key":"60c2aac47723bebd866502d5","_id":"references/60c2aac47723bebd866502d5","_rev":"_cfFk8PO---","tei":"\n\t\n\t\tComparative replication and immune activation profiles of SARS-CoV-2 and SARS-CoV in human lungs: an ex vivo study with implications for the pathogenesis of COVID-19\n\t\t\n\t\t\tHChu\n\t\t\n\t\t\n\t\t\tJFChan\n\t\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t10.1093/cid/ciaa410\n\t\n\t\n\t\tClin Infect Dis\n\t\t\n\t\t\t410\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2aac47723bebd866502d4"},"refKey":18},
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{"_key":"60c2aae17723bebd866502e7","_id":"references/60c2aae17723bebd866502e7","_rev":"_cfFk8Pm---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tKBelfon\n\t\t\n\t\t\n\t\t\tIYBen-Shalom\n\t\t\n\t\t\n\t\t\tSRBrozell\n\t\t\n\t\t\n\t\t\tDSCerutti\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tCruzeiro\n\t\t\n\t\t\n\t\t\tVW DIii\n\t\t\n\t\t\n\t\t\tTADarden\n\t\t\n\t\t\n\t\t\tREDuke\n\t\t\n\t\t\n\t\t\tGGiambasi\n\t\t\n\t\t\n\t\t\tMKGilson\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tAWGoetz\n\t\t\n\t\t\n\t\t\tRHarris\n\t\t\n\t\t\n\t\t\tSIzadi\n\t\t\n\t\t\n\t\t\tSAIzmailov\n\t\t\n\t\t\n\t\t\tKKasavajhala\n\t\t\n\t\t\n\t\t\tAKovalenko\n\t\t\n\t\t\n\t\t\tRKrasny\n\t\t\n\t\t\n\t\t\tPAKollman\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tAMBER 2020. University of California\n\t\t\n\t\n\n","document":{"$oid":"60c2aae17723bebd866502e5"},"refKey":6},
{"_key":"60c2aae17723bebd866502e8","_id":"references/60c2aae17723bebd866502e8","_rev":"_cfFk8Py---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2aae17723bebd866502e5"},"refKey":43},
{"_key":"60c2ab127723bebd86650316","_id":"references/60c2ab127723bebd86650316","_rev":"_cfFk8Q----","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tThe R Development Core\n\t\t\n\t\t\n\t\t\tTeam\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ab127723bebd86650315"},"refKey":11},
{"_key":"60c2ab127723bebd86650317","_id":"references/60c2ab127723bebd86650317","_rev":"_cfFk8QG---","tei":"\n\t\n\t\tJAGS: a program for analysis of Bayesian graphical models using Gibbs sampling\n\t\t\n\t\t\tMPlummer\n\t\t\n\t\n\t\n\t\tProceedings of the 3rd International Workshop on Distributed Statistical Computing\n\t\t\t\tthe 3rd International Workshop on Distributed Statistical ComputingVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ab127723bebd86650315"},"refKey":12},
{"_key":"60c2ab137723bebd86650322","_id":"references/60c2ab137723bebd86650322","_rev":"_cfFk8QS---","tei":"\n\t\n\t\tA dynamic nomenclature proposal for SARS-CoV-2 to assist genomic epidemiology\n\t\t\n\t\t\tJBSinger\n\t\t\n\t\t\n\t\t\tRJGifford\n\t\t\n\t\t\n\t\t\tMCotten\n\t\t\n\t\t\n\t\t\tDLRobertson\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tECHolmes\n\t\t\n\t\t\n\t\t\tVHill\n\t\t\n\t\t\n\t\t\tÁO'toole\n\t\t\n\t\t\n\t\t\tJMccrone\n\t\t\n\t\t\n\t\t\tCRuis\n\t\t\n\t\t10.20944/preprints202006.0225.v110\n\t\tdoi: 10.1038/s41564-020-0770-5\n\t\t\n\t\n\t\n\t\tNature Microbiology\n\t\t\n\t\t\t2020\n\t\t\n\t\n\tCoV-GLUE: A web application for tracking SARS-CoV-2 genomic variation\n\n","document":{"$oid":"60c2ab137723bebd86650321"},"refKey":11},
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{"_key":"60c2aec67723bebd866506f5","_id":"references/60c2aec67723bebd866506f5","_rev":"_cfFk8c2---","tei":"\n\t\n\t\tA two-way causal chain between lean management practices and lean values\n\t\t\n\t\t\tLoaySalhieh\n\t\t\n\t\t\n\t\t\tAbdallahAAbdallah\n\t\t\n\t\t10.1108/ijppm-08-2018-0289\n\t\n\t\n\t\tInternational Journal of Productivity and Performance Management\n\t\tInt J Productivity & Perf Mgmt\n\t\t1741-0401\n\t\t\n\t\t\t68\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tEmerald\n\t\t\n\t\n\n","document":{"$oid":"60c2aec67723bebd866506f4"},"refKey":47},
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{"_key":"60c2aef97723bebd8665072d","_id":"references/60c2aef97723bebd8665072d","_rev":"_cfFk8dK---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btx469\n\t\n\t\n\t\tMol. Syst. Biol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBioinformatics\n\n","document":{"$oid":"60c2aef97723bebd8665072b"},"refKey":23},
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{"_key":"60c2af0e7723bebd8665074c","_id":"references/60c2af0e7723bebd8665074c","_rev":"_cfFk8di---","tei":"\n\t\n\t\tPNEUMONIA IN PREGNANCY\n\t\t\n\t\t\tPatrickSRamsey\n\t\t\n\t\t\n\t\t\tKirkDRamin\n\t\t\n\t\t10.1016/s0889-8545(05)70217-5\n\t\t11512500\n\t\tS0889-8545(05)70217-5\n\t\tark:/67375/6H6-5JFGD111-X\n\t\tDFF372144F7A2C50C58EFA1CE59E3F78ADB76B5B\n\t\tS0889-8545(05)70217-5\n\t\t\n\t\n\t\n\t\tObstetrics and Gynecology Clinics of North America\n\t\tObstetrics and Gynecology Clinics of North America\n\t\t0889-8545\n\t\t\n\t\t\t28\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2af0e7723bebd8665074b"},"refKey":13},
{"_key":"60c2af257723bebd86650760","_id":"references/60c2af257723bebd86650760","_rev":"_cfFk8du---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\n\t\n\t\tEMBnet. J\n\t\t\n\t\t\t17\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2af257723bebd8665075f"},"refKey":11},
{"_key":"60c2af287723bebd86650772","_id":"references/60c2af287723bebd86650772","_rev":"_cfFk8d2---","tei":"\n\t\n\t\tComputing Communities in Large Networks Using Random Walks\n\t\t\n\t\t\tPPons\n\t\t\n\t\t\n\t\t\tMLatapy\n\t\t\n\t\n\t\n\t\tJournal of Graph Algorithms and Applications\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2af287723bebd86650771"},"refKey":24},
{"_key":"60c2af757723bebd8665079c","_id":"references/60c2af757723bebd8665079c","_rev":"_cfFk8eC---","tei":"\n\t\n\t\ttidyLPA: An R Package to Easily Carry Out Latent Profile Analysis (LPA) Using Open-Source or Commercial Software\n\t\t\n\t\t\tJoshuaM. Rosenberg\n\t\t\t0000-0003-2170-0447\n\t\t\n\t\t\n\t\t\tPatrickN. Beymer\n\t\t\t0000-0002-3569-2305\n\t\t\n\t\t\n\t\t\tDanielJ. Anderson\n\t\t\t0000-0003-4699-4680\n\t\t\n\t\t\n\t\t\tJenniferA. Schmidt\n\t\t\t0000-0003-2853-9801\n\t\t\n\t\t10.21105/joss.00978\n\t\tdoi: 10. 21105/joss.00978\n\t\t\n\t\n\t\n\t\tJournal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t3\n\t\t\t30\n\t\t\t978\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c2af757723bebd8665079b"},"refKey":55},
{"_key":"60c2af7a7723bebd866507a2","_id":"references/60c2af7a7723bebd866507a2","_rev":"_cfFk8eO---","tei":"\n\t\n\t\tGrafter -Linked Data Machine Tools\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2af7a7723bebd866507a1"},"refKey":3},
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{"_key":"60c2af7a7723bebd866507a5","_id":"references/60c2af7a7723bebd866507a5","_rev":"_cfFk8eu---","tei":"\n\t\n\t\tRMLEditor: A Graph-Based Mapping Editor for Linked Data Mappings\n\t\t\n\t\t\tPieterHeyvaert\n\t\t\n\t\t\n\t\t\tAnastasiaDimou\n\t\t\n\t\t\n\t\t\tAron-LeviHerregodts\n\t\t\n\t\t\n\t\t\tRubenVerborgh\n\t\t\n\t\t\n\t\t\tDimitriSchuurman\n\t\t\n\t\t\n\t\t\tErikMannens\n\t\t\n\t\t\n\t\t\tRikVan De Walle\n\t\t\n\t\t10.1007/978-3-319-34129-3_43\n\t\t\n\t\n\t\n\t\tThe Semantic Web. Latest Advances and New Domains\n\t\t\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t9678\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2af7a7723bebd866507a1"},"refKey":9},
{"_key":"60c2af7a7723bebd866507a6","_id":"references/60c2af7a7723bebd866507a6","_rev":"_cfFk8e6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSparqlify\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2af7a7723bebd866507a1"},"refKey":16},
{"_key":"60c2af7a7723bebd866507a7","_id":"references/60c2af7a7723bebd866507a7","_rev":"_cfFk8fC---","tei":"\n\t\n\t\tSemantic Wikipedia\n\t\t\n\t\t\tMarkusKrötzsch\n\t\t\n\t\t\n\t\t\tDennyVrandecic\n\t\t\n\t\t10.1007/978-3-540-72216-8_19\n\t\n\t\n\t\tX.media.press\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t2007\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2af7a7723bebd866507a1"},"refKey":27},
{"_key":"60c2af7a7723bebd866507a8","_id":"references/60c2af7a7723bebd866507a8","_rev":"_cfFk8fO---","tei":"\n\t\n\t\tUnifiedViews: An ETL tool for RDF data management\n\t\t\n\t\t\tTomášKnap\n\t\t\n\t\t\n\t\t\tPeterHanečák\n\t\t\n\t\t\n\t\t\tJakubKlímek\n\t\t\n\t\t\n\t\t\tChristianMader\n\t\t\n\t\t\n\t\t\tMartinNečaský\n\t\t\n\t\t\n\t\t\tBertVan Nuffelen\n\t\t\n\t\t\n\t\t\tPetrŠkoda\n\t\t\n\t\t10.3233/sw-180291\n\t\t\n\t\n\t\n\t\tSemantic Web\n\t\tSW\n\t\t1570-0844\n\t\t2210-4968\n\t\t\n\t\t\t9\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tIOS Press\n\t\t\n\t\n\n","document":{"$oid":"60c2af7a7723bebd866507a1"},"refKey":33},
{"_key":"60c2af7a7723bebd866507a9","_id":"references/60c2af7a7723bebd866507a9","_rev":"_cfFk8fa---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tTopbraidComposer\n\t\t\n\t\t\n\t\n\t\n\t\tOntotext: Ontotext GraphDB\n\t\t\n\t\n\n","document":{"$oid":"60c2af7a7723bebd866507a1"},"refKey":23},
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{"_key":"60c2af7a7723bebd866507ac","_id":"references/60c2af7a7723bebd866507ac","_rev":"_cfFk8f6---","tei":"\n\t\n\t\tCubeViz -exploration and visualization of statistical linked data\n\t\t\n\t\t\tMMartin\n\t\t\n\t\t\n\t\t\tKAbicht\n\t\t\n\t\t\n\t\t\tCStadler\n\t\t\n\t\t\n\t\t\tSAuer\n\t\t\n\t\t\n\t\t\tA.-CNNgomo\n\t\t\n\t\t\n\t\t\tTSoru\n\t\t\n\t\n\t\n\t\tProceedings of the 24th International Conference on World Wide Web, WWW 2015\n\t\t\t\tthe 24th International Conference on World Wide Web, WWW 2015\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2af7a7723bebd866507a1"},"refKey":28},
{"_key":"60c2af7a7723bebd866507ad","_id":"references/60c2af7a7723bebd866507ad","_rev":"_cfFk8gG---","tei":"\n\t\n\t\tDataGraft: One-stop-shop for open data management1\n\t\t\n\t\t\tDumitruRoman\n\t\t\n\t\t\n\t\t\tNikolayNikolov\n\t\t\n\t\t\n\t\t\tAntoinePutlier\n\t\t\n\t\t\n\t\t\tDinaSukhobok\n\t\t\n\t\t\n\t\t\tBrianElvesæter\n\t\t\n\t\t\n\t\t\tArneBerre\n\t\t\n\t\t\n\t\t\tXianglinYe\n\t\t\n\t\t\n\t\t\tMarinDimitrov\n\t\t\n\t\t\n\t\t\tAlexSimov\n\t\t\n\t\t\n\t\t\tMomchillZarev\n\t\t\n\t\t\n\t\t\tRickMoynihan\n\t\t\n\t\t\n\t\t\tBillRoberts\n\t\t\n\t\t\n\t\t\tIvanBerlocher\n\t\t\n\t\t\n\t\t\tSeonhoKim\n\t\t\n\t\t\n\t\t\tTonyLee\n\t\t\n\t\t\n\t\t\tAmandaSmith\n\t\t\n\t\t\n\t\t\tTomHeath\n\t\t\n\t\t10.3233/sw-170263\n\t\n\t\n\t\tSemantic Web\n\t\tSW\n\t\t1570-0844\n\t\t2210-4968\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tIOS Press\n\t\t\n\t\n\n","document":{"$oid":"60c2af7a7723bebd866507a1"},"refKey":4},
{"_key":"60c2af7a7723bebd866507ae","_id":"references/60c2af7a7723bebd866507ae","_rev":"_cfFk8gS---","tei":"\n\t\n\t\tExploring the web of spatial data with facete\n\t\t\n\t\t\tClausStadler\n\t\t\n\t\t\n\t\t\tMichaelMartin\n\t\t\n\t\t\n\t\t\tSörenAuer\n\t\t\n\t\t10.1145/2567948.2577022\n\t\n\t\n\t\tProceedings of the 23rd International Conference on World Wide Web - WWW '14 Companion\n\t\t\t\tthe 23rd International Conference on World Wide Web - WWW '14 Companion\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2af7a7723bebd866507a1"},"refKey":29},
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{"_key":"60c2af7a7723bebd866507b0","_id":"references/60c2af7a7723bebd866507b0","_rev":"_cfFk8gm---","tei":"\n\t\n\t\tVocBench 3: a collaborative semantic web editor for ontologies\n\t\t\n\t\t\tAStellato\n\t\t\n\t\n\t\n\t\tThesauri and Lexicons. Semantic Web\n\t\t\n\t\t\t11\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2af7a7723bebd866507a1"},"refKey":19},
{"_key":"60c2af7b7723bebd86650806","_id":"references/60c2af7b7723bebd86650806","_rev":"_cfFk8gy---","tei":"\n\t\n\t\tDeep-learning contact-map guided protein structure prediction in CASP13\n\t\t\n\t\t\tWZheng\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tCXZhang\n\t\t\n\t\t\n\t\t\tRPearce\n\t\t\n\t\t\n\t\t\tSMMortuza\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t10.1002/prot.25792\n\t\n\t\n\t\tProteins: Struct., Funct., Genet\n\t\t\n\t\t\t2019\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2af7b7723bebd86650805"},"refKey":13},
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{"_key":"60c2afb07723bebd86650838","_id":"references/60c2afb07723bebd86650838","_rev":"_cfFk8hq---","tei":"\n\t\n\t\tDesign, implementation, and evaluation of a practical pseudoknot folding algorithm based on thermodynamics\n\t\t\n\t\t\tJReeder\n\t\t\n\t\t\n\t\t\tRGiegerich\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t5\n\t\t\t104\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2afb07723bebd86650836"},"refKey":8},
{"_key":"60c2afb07723bebd86650839","_id":"references/60c2afb07723bebd86650839","_rev":"_cfFk8h2---","tei":"\n\t\n\t\tAlgorithms and Thermodynamics for RNA Secondary Structure Prediction: A Practical Guide\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t\n\t\t\tDHTurner\n\t\t\n\t\t10.1007/978-94-011-4485-8_2\n\t\tark:/67375/HCB-8Z6Q0NK7-L\n\t\tA95B2F79070483A66EC5BE53ABFF327EF6A8CFA4\n\t\n\t\n\t\tRNA Biochemistry and Biotechnology\n\t\t\t\t\n\t\t\tSpringer Netherlands\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2afb07723bebd86650836"},"refKey":6},
{"_key":"60c2afbf7723bebd86650871","_id":"references/60c2afbf7723bebd86650871","_rev":"_cfFk8i----","tei":"\n\t\n\t\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c2afbf7723bebd86650870"},"refKey":22},
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{"_key":"60c2afca7723bebd86650880","_id":"references/60c2afca7723bebd86650880","_rev":"_cfFk8jC---","tei":"\n\t\n\t\tCHARMM Additive All-Atom Force Field for Glycosidic Linkages between Hexopyranoses\n\t\t\n\t\t\tOlgunGuvench\n\t\t\n\t\t\n\t\t\tElizabethHatcher\n\t\t\n\t\t\n\t\t\tRichardMVenable\n\t\t\n\t\t\n\t\t\tRichardWPastor\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t10.1021/ct900242e\n\t\t20161005\n\t\tPMC2757763\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t5\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2afca7723bebd8665087c"},"refKey":26},
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{"_key":"60c2b0a17723bebd86650942","_id":"references/60c2b0a17723bebd86650942","_rev":"_cfFk8la---","tei":"\n\t\n\t\tSecond-generation PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tChristopherCChang\n\t\t\n\t\t\n\t\t\tCarsonCChow\n\t\t\n\t\t\n\t\t\tLaurentCamTellier\n\t\t\n\t\t\n\t\t\tShashaankVattikuti\n\t\t\n\t\t\n\t\t\tShaunMPurcell\n\t\t\n\t\t\n\t\t\tJamesJLee\n\t\t\n\t\t10.1186/s13742-015-0047-8\n\t\t25722852\n\t\tPMC4342193\n\t\t\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\tGigaSci\n\t\t2047-217X\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2b0a17723bebd86650941"},"refKey":6},
{"_key":"60c2b0c07723bebd86650951","_id":"references/60c2b0c07723bebd86650951","_rev":"_cfFk8lq---","tei":"\n\t\n\t\tSieve Bootstrap for Time Series\n\t\t\n\t\t\tPeterBühlmann\n\t\t\n\t\t\n\t\t\tPeterBuhlmann\n\t\t\n\t\t10.2307/3318584\n\t\n\t\n\t\tBernoulli\n\t\tBernoulli\n\t\t1350-7265\n\t\t\n\t\t\t3\n\t\t\t2\n\t\t\t123\n\t\t\t\n\t\t\tJSTOR\n\t\t\n\t\n\n","document":{"$oid":"60c2b0c07723bebd86650950"},"refKey":8},
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{"_key":"60c2b1287723bebd86650985","_id":"references/60c2b1287723bebd86650985","_rev":"_cfFk8mq---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\n\tVersion 1.5.0.4 Schrödinger LLC\n\n","document":{"$oid":"60c2b1287723bebd86650984"},"refKey":44},
{"_key":"60c2b1287723bebd86650986","_id":"references/60c2b1287723bebd86650986","_rev":"_cfFk8nC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t53\n\t\t\t240\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b1287723bebd86650984"},"refKey":40},
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{"_key":"60c2b1287723bebd86650988","_id":"references/60c2b1287723bebd86650988","_rev":"_cfFk8ni---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tCCBallard\n\t\t\n\t\t\n\t\t\tKDCowtan\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tRMKeegan\n\t\t\n\t\t\n\t\t\tEBKrissinel\n\t\t\n\t\t\n\t\t\tAG WLeslie\n\t\t\n\t\t\n\t\t\tAMccoy\n\t\t\n\t\t\n\t\t\tSJMcnicholas\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tEAPotterton\n\t\t\n\t\t\n\t\t\tHRPowell\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tAVagin\n\t\t\n\t\t\n\t\t\tKSWilson\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t235\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b1287723bebd86650984"},"refKey":41},
{"_key":"60c2b1387723bebd86650994","_id":"references/60c2b1387723bebd86650994","_rev":"_cfFk8ny---","tei":"\n\t\n\t\tA language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c2b1387723bebd86650993"},"refKey":13},
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{"_key":"60c2b1607723bebd866509b5","_id":"references/60c2b1607723bebd866509b5","_rev":"_cfFk8oO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGoogle\n\t\t\n\t\t\n\t\t\tGoogle\n\t\t\n\t\tsheets. 2020\n\t\t\n\t\n\n","document":{"$oid":"60c2b1607723bebd866509b4"},"refKey":19},
{"_key":"60c2b1797723bebd866509cf","_id":"references/60c2b1797723bebd866509cf","_rev":"_cfFk8oe---","tei":"\n\t\n\t\tThe MaxQuant computational platform for mass spectrometry-based shotgun proteomics\n\t\t\n\t\t\tSTyanova\n\t\t\n\t\t\n\t\t\tTTemu\n\t\t\n\t\t\n\t\t\tJCox\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b1797723bebd866509ce"},"refKey":19},
{"_key":"60c2b1797723bebd866509d0","_id":"references/60c2b1797723bebd866509d0","_rev":"_cfFk8oq---","tei":"\n\t\n\t\tSkyline: an open source document editor for creating and analyzing targeted proteomics experiments\n\t\t\n\t\t\tBMaclean\n\t\t\n\t\t\n\t\t\tDMTomazela\n\t\t\n\t\t\n\t\t\tNShulman\n\t\t\n\t\t\n\t\t\tMChambers\n\t\t\n\t\t\n\t\t\tGLFinney\n\t\t\n\t\t\n\t\t\tBFrewen\n\t\t\n\t\t\n\t\t\tRKern\n\t\t\n\t\t\n\t\t\tDLTabb\n\t\t\n\t\t\n\t\t\tDCLiebler\n\t\t\n\t\t\n\t\t\tMJMaccoss\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b1797723bebd866509ce"},"refKey":14},
{"_key":"60c2b1887723bebd866509e1","_id":"references/60c2b1887723bebd866509e1","_rev":"_cfFk8o6---","tei":"\n\t\n\t\tA Scaling Model for Estimating Time-Series Party Positions from Texts\n\t\t\n\t\t\tJonathanBSlapin\n\t\t\n\t\t\n\t\t\tSven-OliverProksch\n\t\t\n\t\t10.1111/j.1540-5907.2008.00338.x\n\t\tark:/67375/WNG-9ZV3WSDQ-8\n\t\t99EAB4809F1C3415AF35B330B251C29592892E5A\n\t\t\n\t\t\n\t\n\t\n\t\tAmerican Journal of Political Science\n\t\t0092-5853\n\t\t1540-5907\n\t\t\n\t\t\t52\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2b1887723bebd866509e0"},"refKey":41},
{"_key":"60c2b1887723bebd866509e2","_id":"references/60c2b1887723bebd866509e2","_rev":"_cfFk8pG---","tei":"\n\t\n\t\tquanteda: An R package for the quantitative analysis of textual data\n\t\t\n\t\t\tKennethBenoit\n\t\t\t0000-0002-0797-564X\n\t\t\n\t\t\n\t\t\tKoheiWatanabe\n\t\t\t0000-0001-6519-5265\n\t\t\n\t\t\n\t\t\tHaiyanWang\n\t\t\t0000-0003-4992-4311\n\t\t\n\t\t\n\t\t\tPaulNulty\n\t\t\t0000-0002-7214-4666\n\t\t\n\t\t\n\t\t\tAdamObeng\n\t\t\t0000-0002-2906-4775\n\t\t\n\t\t\n\t\t\tStefanMüller\n\t\t\t0000-0002-6315-4125\n\t\t\n\t\t\n\t\t\tAkitakaMatsuo\n\t\t\t0000-0002-3323-6330\n\t\t\n\t\t10.21105/joss.00774\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t3\n\t\t\t30\n\t\t\t774\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c2b1887723bebd866509e0"},"refKey":3},
{"_key":"60c2b1a47723bebd86650a08","_id":"references/60c2b1a47723bebd86650a08","_rev":"_cfFk8pS---","tei":"\n\t\n\t\tAutomated docking using a lamarckian genetic algorithm and empirical bindingfree energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tRSHalliday\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWEHart\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b1a47723bebd86650a07"},"refKey":34},
{"_key":"60c2b1a47723bebd86650a09","_id":"references/60c2b1a47723bebd86650a09","_rev":"_cfFk8pe---","tei":"\n\t\n\t\tLead discovery using molecular docking\n\t\t\n\t\t\tBrianKShoichet\n\t\t\n\t\t\n\t\t\tSusanLMcgovern\n\t\t\n\t\t\n\t\t\tBinqingWei\n\t\t\n\t\t\n\t\t\tJohnJIrwin\n\t\t\n\t\t10.1016/s1367-5931(02)00339-3\n\t\t12133718\n\t\n\t\n\t\tCurrent Opinion in Chemical Biology\n\t\tCurrent Opinion in Chemical Biology\n\t\t1367-5931\n\t\t\n\t\t\t6\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2b1a47723bebd86650a07"},"refKey":79},
{"_key":"60c2b1ab7723bebd86650a1c","_id":"references/60c2b1ab7723bebd86650a1c","_rev":"_cfFk8pq---","tei":"\n\t\n\t\tAn NTP-binding motif is the most conserved sequence in a highly diverged monophyletic group of proteins involved in positive strand RNA viral replication\n\t\t\n\t\t\tAlexanderEGorbalenya\n\t\t\n\t\t\n\t\t\tVladimirMBlinov\n\t\t\n\t\t\n\t\t\tAlexeiPDonchenko\n\t\t\n\t\t\n\t\t\tEugeneVKoonin\n\t\t\n\t\t10.1007/bf02102483\n\t\t2522556\n\t\tark:/67375/1BB-7C2TZ1T3-K\n\t\t126EEC007F7A9CAF51A485460FE40C9BA2A88B26\n\t\n\t\n\t\tJournal of Molecular Evolution\n\t\tJ Mol Evol\n\t\t0022-2844\n\t\t1432-1432\n\t\t\n\t\t\t28\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c2b1ab7723bebd86650a1b"},"refKey":29},
{"_key":"60c2b1be7723bebd86650a2d","_id":"references/60c2b1be7723bebd86650a2d","_rev":"_cfFk8p2---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation forStatistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c2b1be7723bebd86650a2c"},"refKey":4},
{"_key":"60c2b1d07723bebd86650a3c","_id":"references/60c2b1d07723bebd86650a3c","_rev":"_cfFk8qC---","tei":"\n\t\n\t\tGeneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMeintjes\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\t10.1093/bioinformatics/bts199\n\t\t22543367\n\t\tPMC3371832\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2b1d07723bebd86650a3b"},"refKey":4},
{"_key":"60c2b1e27723bebd86650a48","_id":"references/60c2b1e27723bebd86650a48","_rev":"_cfFk8qO---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b1e27723bebd86650a47"},"refKey":20},
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{"_key":"60c2b2237723bebd86650aea","_id":"references/60c2b2237723bebd86650aea","_rev":"_cfFk8ue---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b2237723bebd86650ae9"},"refKey":18},
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{"_key":"60c2b2557723bebd86650b0c","_id":"references/60c2b2557723bebd86650b0c","_rev":"_cfFk8uy---","tei":"\n\t\n\t\tjvenn: an interactive Venn diagram viewer\n\t\t\n\t\t\tPhilippeBardou\n\t\t\n\t\t\n\t\t\tJérômeMariette\n\t\t\n\t\t\n\t\t\tFrédéricEscudié\n\t\t\n\t\t\n\t\t\tChristopheDjemiel\n\t\t\n\t\t\n\t\t\tChristopheKlopp\n\t\t\n\t\t10.1186/1471-2105-15-293\n\t\t25176396\n\t\tPMC4261873\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t293\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2b2557723bebd86650b0a"},"refKey":33},
{"_key":"60c2b2557723bebd86650b0d","_id":"references/60c2b2557723bebd86650b0d","_rev":"_cfFk8v----","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2b2557723bebd86650b0a"},"refKey":31},
{"_key":"60c2b2677723bebd86650b26","_id":"references/60c2b2677723bebd86650b26","_rev":"_cfFk8vK---","tei":"\n\t\n\t\tMatplotlib: A 2D graphics environment\n\t\t\n\t\t\tJDHunter\n\t\t\n\t\t\n\t\t\t\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\tComputing in science & engineering\n\n","document":{"$oid":"60c2b2677723bebd86650b25"},"refKey":29},
{"_key":"60c2b2677723bebd86650b27","_id":"references/60c2b2677723bebd86650b27","_rev":"_cfFk8vS---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tRBraun\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tJGumbart\n\t\t\n\t\t\n\t\t\tETajkhorshid\n\t\t\n\t\t\n\t\t\tEVilla\n\t\t\n\t\t\n\t\t\tCChipot\n\t\t\n\t\t\n\t\t\tRDSkeel\n\t\t\n\t\t\n\t\t\tLKale\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b2677723bebd86650b25"},"refKey":24},
{"_key":"60c2b2677723bebd86650b28","_id":"references/60c2b2677723bebd86650b28","_rev":"_cfFk8ve---","tei":"\n\t\n\t\tVMD -Visual Molecular Dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b2677723bebd86650b25"},"refKey":28},
{"_key":"60c2b2677723bebd86650b29","_id":"references/60c2b2677723bebd86650b29","_rev":"_cfFk8vq---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1.8. 2015, There is no corresponding record for this reference\n\t\t\n\t\t\tLlcSchrödinger\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b2677723bebd86650b25"},"refKey":31},
{"_key":"60c2b2837723bebd86650b41","_id":"references/60c2b2837723bebd86650b41","_rev":"_cfFk8vy---","tei":"\n\t\n\t\tVerification of protein structures: Patterns of nonbonded atomic interactions\n\t\t\n\t\t\tChrisColovos\n\t\t\n\t\t\n\t\t\tToddOYeates\n\t\t\n\t\t10.1002/pro.5560020916\n\t\t8401235\n\t\tPMC2142462\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t2\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2b2837723bebd86650b40"},"refKey":8},
{"_key":"60c2b2837723bebd86650b42","_id":"references/60c2b2837723bebd86650b42","_rev":"_cfFk8w----","tei":"\n\t\n\t\t[20] VERIFY3D: Assessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tDavidEisenberg\n\t\t\n\t\t\n\t\t\tRolandLüthy\n\t\t\n\t\t\n\t\t\tJamesUBowie\n\t\t\n\t\t10.1016/s0076-6879(97)77022-8\n\t\t9379925\n\t\t\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t277\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b2837723bebd86650b40"},"refKey":17},
{"_key":"60c2b2837723bebd86650b43","_id":"references/60c2b2837723bebd86650b43","_rev":"_cfFk8wK---","tei":"\n\t\n\t\tProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMWiederstein\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\t10.1093/nar/gkm290\n\t\t17517781\n\t\tPMC1933241\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c2b2837723bebd86650b40"},"refKey":99},
{"_key":"60c2b2837723bebd86650b44","_id":"references/60c2b2837723bebd86650b44","_rev":"_cfFk8wS---","tei":"\n\t\n\t\tImproving physical realism, stereochemistry, and side-chain accuracy in homology modeling: four approaches that performed well in CASP8\n\t\t\n\t\t\tEKrieger\n\t\t\n\t\t\n\t\t\tKJoo\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tSRaman\n\t\t\n\t\t\n\t\t\tJThompson\n\t\t\n\t\t\n\t\t\tMTyka\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t77\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b2837723bebd86650b40"},"refKey":40},
{"_key":"60c2b2837723bebd86650b45","_id":"references/60c2b2837723bebd86650b45","_rev":"_cfFk8we---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/s0021889892009944\n\t\tark:/67375/WNG-1V02WKNX-V\n\t\t7FF6EABFE5D6E9AB8536E310B9782B625E4CA368\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c2b2837723bebd86650b40"},"refKey":48},
{"_key":"60c2b2837723bebd86650b46","_id":"references/60c2b2837723bebd86650b46","_rev":"_cfFk8wq---","tei":"\n\t\n\t\tLIGPLOT: a program to generate schematic diagrams of protein-ligand interactions\n\t\t\n\t\t\tAndrewCWallace\n\t\t\n\t\t\n\t\t\tRomanALaskowski\n\t\t\n\t\t\n\t\t\tJanetMThornton\n\t\t\n\t\t10.1093/protein/8.2.127\n\t\t7630882\n\t\tark:/67375/HXZ-72CHJHPC-3\n\t\t0A79F4C836479959D66619AFD09180A7A3DD141A\n\t\t\n\t\n\t\n\t\t"Protein Engineering, Design and Selection"\n\t\tProtein Eng Des Sel\n\t\t1741-0126\n\t\t1741-0134\n\t\t\n\t\t\t8\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2b2837723bebd86650b40"},"refKey":96},
{"_key":"60c2b2837723bebd86650b47","_id":"references/60c2b2837723bebd86650b47","_rev":"_cfFk8w2---","tei":"\n\t\n\t\tDelineating the conformational dynamics of intermediate structures on the unfolding pathway of β-lactoglobulin in aqueous urea and dimethyl sulfoxide\n\t\t\n\t\t\tRSingh\n\t\t\n\t\t\n\t\t\tNKMeena\n\t\t\n\t\t\n\t\t\tTDas\n\t\t\n\t\t\n\t\t\tRDSharma\n\t\t\n\t\t\n\t\t\tAPrakash\n\t\t\n\t\t\n\t\t\tAMLynn\n\t\t\n\t\t10.1080/07391102.2019.1695669\n\t\t\n\t\n\t\n\t\tJ. Biomol. Struct. Dyn\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b2837723bebd86650b40"},"refKey":83},
{"_key":"60c2b2837723bebd86650b48","_id":"references/60c2b2837723bebd86650b48","_rev":"_cfFk8x----","tei":"\n\t\n\t\tElucidation of stable intermediates in urea-induced unfolding pathway of human carbonic anhydrase IX\n\t\t\n\t\t\tAmreshPrakash\n\t\t\n\t\t\n\t\t\tGunjanDixit\n\t\t\n\t\t\n\t\t\tNaveenKumarMeena\n\t\t\n\t\t\n\t\t\tRuharSingh\n\t\t\n\t\t\n\t\t\tPoonamVishwakarma\n\t\t\n\t\t\n\t\t\tSmritiMishra\n\t\t\n\t\t\n\t\t\tAndrewMLynn\n\t\t\n\t\t10.1080/07391102.2017.1355847\n\t\t28705076\n\t\t\n\t\n\t\n\t\tJournal of Biomolecular Structure and Dynamics\n\t\tJournal of Biomolecular Structure and Dynamics\n\t\t0739-1102\n\t\t1538-0254\n\t\t\n\t\t\t36\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c2b2837723bebd86650b40"},"refKey":73},
{"_key":"60c2b2a27723bebd86650b89","_id":"references/60c2b2a27723bebd86650b89","_rev":"_cfFk8xK---","tei":"\n\t\n\t\tDeepatom: A framework for protein-ligand binding affinity prediction\n\t\t\n\t\t\tYanjunLi\n\t\t\n\t\t\n\t\t\tAMohammad\n\t\t\n\t\t\n\t\t\tChenglongRezaei\n\t\t\n\t\t\n\t\t\tXiaolinLi\n\t\t\n\t\t\n\t\t\tDapengLi\n\t\t\n\t\t\n\t\t\tWu\n\t\t\n\t\tarXiv:1912.00318\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c2b2a27723bebd86650b88"},"refKey":18},
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{"_key":"60c2b2a27723bebd86650b8d","_id":"references/60c2b2a27723bebd86650b8d","_rev":"_cfFk8x2---","tei":"\n\t\n\t\tsc-pdb: a 3d-database of ligandable binding sites-10 years on\n\t\t\n\t\t\tDesaphyJérémy\n\t\t\n\t\t\n\t\t\tBretGuillaume\n\t\t\n\t\t\n\t\t\tRognanDidier\n\t\t\n\t\t\n\t\t\tKellenbergerEsther\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t43\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b2a27723bebd86650b88"},"refKey":10},
{"_key":"60c2b2a27723bebd86650b8e","_id":"references/60c2b2a27723bebd86650b8e","_rev":"_cfFk8yC---","tei":"\n\t\n\t\tDictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features\n\t\t\n\t\t\tWolfgangKabsch\n\t\t\n\t\t\n\t\t\tChristianSander\n\t\t\n\t\n\t\n\t\tBiopolymers: Original Research on Biomolecules\n\t\t\n\t\t\t22\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b2a27723bebd86650b88"},"refKey":11},
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{"_key":"60c2b2a27723bebd86650b90","_id":"references/60c2b2a27723bebd86650b90","_rev":"_cfFk8ya---","tei":"\n\t\n\t\tDetection of multiscale pockets on protein surfaces using mathematical morphology\n\t\t\n\t\t\tTakeshiKawabata\n\t\t\n\t\t10.1002/prot.22639\n\t\t19938154\n\t\tark:/67375/WNG-09P86JR6-6\n\t\tBB80C4625C9D9726EE9063A4195BC5B25B753E9A\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t78\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2b2a27723bebd86650b88"},"refKey":13},
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{"_key":"60c2b4017723bebd86650cc5","_id":"references/60c2b4017723bebd86650cc5","_rev":"_cfFk83i---","tei":"\n\t\n\t\tImproved microbial gene identification with GLIMMER\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tDHarmon\n\t\t\n\t\t\n\t\t\tSKasif\n\t\t\n\t\t\n\t\t\tOWhite\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b4017723bebd86650cc1"},"refKey":20},
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{"_key":"60c2b4017723bebd86650cca","_id":"references/60c2b4017723bebd86650cca","_rev":"_cfFk84a---","tei":"\n\t\n\t\tA Model Recognition Approach to the Prediction of All-Helical Membrane Protein Structure and Topology\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t\n\t\t\tWRTaylor\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1021/bi00176a037\n\t\t8130217\n\t\n\t\n\t\tBiochemistry\n\t\tBiochemistry\n\t\t0006-2960\n\t\t1520-4995\n\t\t\n\t\t\t33\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2b4017723bebd86650cc1"},"refKey":29},
{"_key":"60c2b4017723bebd86650ccb","_id":"references/60c2b4017723bebd86650ccb","_rev":"_cfFk84m---","tei":"\n\t\n\t\tBase-By-Base: single nucleotide-level analysis of whole viral genome alignments\n\t\t\n\t\t\tRBrodie\n\t\t\n\t\t\n\t\t\tAJSmith\n\t\t\n\t\t\n\t\t\tRLRoper\n\t\t\n\t\t\n\t\t\tVTcherepanov\n\t\t\n\t\t\n\t\t\tCUpton\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t5\n\t\t\t96\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b4017723bebd86650cc1"},"refKey":38},
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{"_key":"60c2b43d7723bebd86650d00","_id":"references/60c2b43d7723bebd86650d00","_rev":"_cfFk85----","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b43d7723bebd86650cff"},"refKey":8},
{"_key":"60c2b44c7723bebd86650d0b","_id":"references/60c2b44c7723bebd86650d0b","_rev":"_cfFk85K---","tei":"\n\t\n\t\tOn performance of OpenDaylight clustering\n\t\t\n\t\t\tDongeunSuh\n\t\t\n\t\t\n\t\t\tSeokwonJang\n\t\t\n\t\t\n\t\t\tSolHan\n\t\t\n\t\t\n\t\t\tSangheonPack\n\t\t\n\t\t\n\t\t\tTaehongKim\n\t\t\n\t\t\n\t\t\tJiyoungKwak\n\t\t\n\t\t10.1109/netsoft.2016.7502476\n\t\n\t\n\t\t2016 IEEE NetSoft Conference and Workshops (NetSoft)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b44c7723bebd86650d0a"},"refKey":3},
{"_key":"60c2b44c7723bebd86650d0c","_id":"references/60c2b44c7723bebd86650d0c","_rev":"_cfFk85W---","tei":"\n\t\n\t\tOnix: a distributed control platform for large-scale production networks\n\t\t\n\t\t\tTKoponen\n\t\t\n\t\n\t\n\t\tOSDI\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b44c7723bebd86650d0a"},"refKey":7},
{"_key":"60c2b44c7723bebd86650d0d","_id":"references/60c2b44c7723bebd86650d0d","_rev":"_cfFk85i---","tei":"\n\t\n\t\tHyperflow: a distributed control plane for OpenFlow\n\t\t\n\t\t\tATootoonchian\n\t\t\n\t\t\n\t\t\tYGanjali\n\t\t\n\t\n\t\n\t\tProceedings of the 2010 Internet Network Management Conference on Research on Enterprise Networking\n\t\t\t\tthe 2010 Internet Network Management Conference on Research on Enterprise Networking\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b44c7723bebd86650d0a"},"refKey":8},
{"_key":"60c2b4777723bebd86650d31","_id":"references/60c2b4777723bebd86650d31","_rev":"_cfFk85u---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2b4777723bebd86650d30"},"refKey":20},
{"_key":"60c2b4777723bebd86650d32","_id":"references/60c2b4777723bebd86650d32","_rev":"_cfFk852---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2b4777723bebd86650d30"},"refKey":12},
{"_key":"60c2b4777723bebd86650d33","_id":"references/60c2b4777723bebd86650d33","_rev":"_cfFk86C---","tei":"\n\t\n\t\tPLIP: fully automated protein–ligand interaction profiler\n\t\t\n\t\t\tSebastianSalentin\n\t\t\n\t\t\n\t\t\tSvenSchreiber\n\t\t\n\t\t\n\t\t\tVJoachimHaupt\n\t\t\n\t\t\n\t\t\tMelissaFAdasme\n\t\t\n\t\t\n\t\t\tMichaelSchroeder\n\t\t\n\t\t10.1093/nar/gkv315\n\t\t25873628\n\t\tPMC4489249\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2b4777723bebd86650d30"},"refKey":27},
{"_key":"60c2b4a07723bebd86650d4e","_id":"references/60c2b4a07723bebd86650d4e","_rev":"_cfFk86O---","tei":"\n\t\n\t\t10. The Statistical Approach to Inferring Evolutionary Trees and What It Tells Us About Parsimony and Compatibility\n\t\t\n\t\t\tJosephFelsenstein\n\t\t\n\t\t10.7312/dunc90660-015\n\t\n\t\n\t\tCladistics: Perspectives on the Reconstruction of Evolutionary History\n\t\t\t\t\n\t\t\tColumbia University Press\n\t\t\t\n\t\t\t19\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b4a07723bebd86650d4d"},"refKey":47},
{"_key":"60c2b4a27723bebd86650d5c","_id":"references/60c2b4a27723bebd86650d5c","_rev":"_cfFk86a---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b4a27723bebd86650d5b"},"refKey":22},
{"_key":"60c2b4a27723bebd86650d5d","_id":"references/60c2b4a27723bebd86650d5d","_rev":"_cfFk86m---","tei":"\n\t\n\t\tGeneralized Additive Models: An Introduction with R, Second Edition. Chapman & Hall/CRC Texts in Statistical Science\n\t\t\n\t\t\tSWood\n\t\t\n\t\t\n\t\t\t\n\t\t\tCRC Press\n\t\t\n\t\n\n","document":{"$oid":"60c2b4a27723bebd86650d5b"},"refKey":24},
{"_key":"60c2b4d37723bebd86650d64","_id":"references/60c2b4d37723bebd86650d64","_rev":"_cfFk86u---","tei":"\n\t\n\t\tLigand docking and binding site analysis with PyMOL and Autodock/Vina\n\t\t\n\t\t\tDanielSeeliger\n\t\t\n\t\t\n\t\t\tBertLDe Groot\n\t\t\n\t\t10.1007/s10822-010-9352-6\n\t\t20401516\n\t\tPMC2881210\n\t\tark:/67375/VQC-DJ1XJHQ0-F\n\t\t3DA675CD417E345F29EFB6CC4EA712C2B6A6F1D4\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t24\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2b4d37723bebd86650d63"},"refKey":56},
{"_key":"60c2b5087723bebd86650d9a","_id":"references/60c2b5087723bebd86650d9a","_rev":"_cfFk866---","tei":"\n\t\n\t\t\n\t\t\tPRajpurkar\n\t\t\n\t\t\n\t\t\tJIrvin\n\t\t\n\t\t\n\t\t\tKZhu\n\t\t\n\t\tCheXNet: Radiologist-Level Pneumonia Detection on Chest X-Rays with Deep Learning\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b5087723bebd86650d99"},"refKey":17},
{"_key":"60c2b5127723bebd86650da3","_id":"references/60c2b5127723bebd86650da3","_rev":"_cfFk87G---","tei":"\n\t\n\t\tEnabling rootless Linux Containers in multi-user environments: The udocker tool\n\t\t\n\t\t\tJorgeGomes\n\t\t\t0000-0002-9142-2596\n\t\t\n\t\t\n\t\t\tEmanueleBagnaschi\n\t\t\t0000-0002-6827-5022\n\t\t\n\t\t\n\t\t\tIsabelCampos\n\t\t\n\t\t\n\t\t\tMarioDavid\n\t\t\n\t\t\n\t\t\tLuísAlves\n\t\t\n\t\t\n\t\t\tJoãoMartins\n\t\t\n\t\t\n\t\t\tJoãoPina\n\t\t\n\t\t\n\t\t\tAlvaroLópez-García\n\t\t\n\t\t\n\t\t\tPabloOrviz\n\t\t\n\t\t10.1016/j.cpc.2018.05.021\n\t\n\t\n\t\tComputer Physics Communications\n\t\tComputer Physics Communications\n\t\t0010-4655\n\t\t\n\t\t\t232\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2b5127723bebd86650da2"},"refKey":22},
{"_key":"60c2b5127723bebd86650da4","_id":"references/60c2b5127723bebd86650da4","_rev":"_cfFk87S---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b5127723bebd86650da2"},"refKey":1},
{"_key":"60c2b5197723bebd86650db4","_id":"references/60c2b5197723bebd86650db4","_rev":"_cfFk87e---","tei":"\n\t\n\t\tMEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph\n\t\t\n\t\t\tDLi\n\t\t\n\t\t\n\t\t\tCMLiu\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tKSadakane\n\t\t\n\t\t\n\t\t\tTWLam\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b5197723bebd86650db3"},"refKey":26},
{"_key":"60c2b5197723bebd86650db5","_id":"references/60c2b5197723bebd86650db5","_rev":"_cfFk87m---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2b5197723bebd86650db3"},"refKey":25},
{"_key":"60c2b5357723bebd86650ddc","_id":"references/60c2b5357723bebd86650ddc","_rev":"_cfFk87y---","tei":"\n\t\n\t\tThe genome aggregate database (gnomAD), v2.1.1. https://gnomad.broadinstitute.org. Allele frequencies for European are from Non-Finnish European population\n\t\t\n\t\n\n","document":{"$oid":"60c2b5357723bebd86650ddb"},"refKey":0},
{"_key":"60c2b5497723bebd86650df1","_id":"references/60c2b5497723bebd86650df1","_rev":"_cfFk88----","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b5497723bebd86650df0"},"refKey":33},
{"_key":"60c2b5497723bebd86650df2","_id":"references/60c2b5497723bebd86650df2","_rev":"_cfFk88K---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b5497723bebd86650df0"},"refKey":32},
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{"_key":"60c2b5527723bebd86650dfe","_id":"references/60c2b5527723bebd86650dfe","_rev":"_cfFk88q---","tei":"\n\t\n\t\tComparative Protein Structure Modeling Using MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1002/0471250953.bi0506s47\n\t\t25199792\n\t\t5.6.1-5.6.32\n\t\t\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t\n\t\t\t47\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2b5527723bebd86650dfb"},"refKey":38},
{"_key":"60c2b5657723bebd86650e16","_id":"references/60c2b5657723bebd86650e16","_rev":"_cfFk882---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKStandley\n\t\t\n\t\t\n\t\n\toutlines version\n\n","document":{"$oid":"60c2b5657723bebd86650e15"},"refKey":38},
{"_key":"60c2b5657723bebd86650e17","_id":"references/60c2b5657723bebd86650e17","_rev":"_cfFk89C---","tei":"\n\t\n\t\tJModelTest 2: More models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t772\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b5657723bebd86650e15"},"refKey":41},
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{"_key":"60c2b5937723bebd86650e56","_id":"references/60c2b5937723bebd86650e56","_rev":"_cfFk89i---","tei":"\n\t\n\t\tHeart rate variability analysis with the R package RHRV\n\t\t\n\t\t\tCA GMartínez\n\t\t\n\t\t\n\t\t\tAOQuintana\n\t\t\n\t\t\n\t\t\tXAVila\n\t\t\n\t\t\n\t\t\tMJ LTouriño\n\t\t\n\t\t\n\t\t\tLRodríguez-Liñares\n\t\t\n\t\t\n\t\t\tJM RPresedo\n\t\t\n\t\t\n\t\t\tAJPenín\n\t\t\n\t\t10.1007/978-3-319-65355-6\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c2b5937723bebd86650e54"},"refKey":45},
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{"_key":"60c2b6347723bebd86650f06","_id":"references/60c2b6347723bebd86650f06","_rev":"_cfFk9_2---","tei":"\n\t\n\t\tSystems survey of endocytosis by multiparametric image analysis\n\t\t\n\t\t\tClaudioCollinet\n\t\t\n\t\t\n\t\t\tMartinStöter\n\t\t\n\t\t\n\t\t\tCharlesRBradshaw\n\t\t\n\t\t\n\t\t\tNikolaySamusik\n\t\t\n\t\t\n\t\t\tJochenCRink\n\t\t\n\t\t\n\t\t\tDeniseKenski\n\t\t\n\t\t\n\t\t\tBiancaHabermann\n\t\t\n\t\t\n\t\t\tFrankBuchholz\n\t\t\n\t\t\n\t\t\tRobertHenschel\n\t\t\n\t\t\n\t\t\tMatthiasSMueller\n\t\t\n\t\t\n\t\t\tWolfgangENagel\n\t\t\n\t\t\n\t\t\tEugenioFava\n\t\t\n\t\t\n\t\t\tYannisKalaidzidis\n\t\t\n\t\t\n\t\t\tMarinoZerial\n\t\t\n\t\t10.1038/nature08779\n\t\t20190736\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t464\n\t\t\t7286\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c2b6347723bebd86650f05"},"refKey":10},
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{"_key":"60c2b6347723bebd86650f08","_id":"references/60c2b6347723bebd86650f08","_rev":"_cfFk9AS---","tei":"\n\t\n\t\tCellProfiler: image analysis software for identifying and quantifying cell phenotypes\n\t\t\n\t\t\tAECarpenter\n\t\t\n\t\t\n\t\t\tTRJones\n\t\t\n\t\t\n\t\t\tMRLamprecht\n\t\t\n\t\t\n\t\t\tCClarke\n\t\t\n\t\t\n\t\t\tIHKang\n\t\t\n\t\t\n\t\t\tOFriman\n\t\t\n\t\t\n\t\t\tDAGuertin\n\t\t\n\t\t\n\t\t\tJHChang\n\t\t\n\t\t\n\t\t\tRALindquist\n\t\t\n\t\t\n\t\t\tJMoffat\n\t\t\n\t\t\n\t\t\tPGolland\n\t\t\n\t\t\n\t\t\tDMSabatini\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t7\n\t\t\t10\n\t\t\tR100\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b6347723bebd86650f05"},"refKey":8},
{"_key":"60c2b64e7723bebd86650f23","_id":"references/60c2b64e7723bebd86650f23","_rev":"_cfFk9Ae---","tei":"\n\t\n\t\tScaling and assessment of data quality\n\t\t\n\t\t\tPEvans\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t62\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b64e7723bebd86650f22"},"refKey":40},
{"_key":"60c2b64e7723bebd86650f24","_id":"references/60c2b64e7723bebd86650f24","_rev":"_cfFk9Am---","tei":"\n\t\n\t\tSubstructure search procedures for macromolecular structures\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t10.1107/s0907444903018043\n\t\t14573951\n\t\tark:/67375/WNG-8T3WRCQ7-0\n\t\t763A363798F82AEEBE9B34EB945A71BD506191B8\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t59\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c2b64e7723bebd86650f22"},"refKey":41},
{"_key":"60c2b64e7723bebd86650f25","_id":"references/60c2b64e7723bebd86650f25","_rev":"_cfFk9A2---","tei":"\n\t\n\t\tTowards automated crystallographic structure refinement with phenix.refine\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tMMustyakimov\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tAUrzhumtsev\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t\n\t\t\tAdams\n\t\t\n\t\t\n\t\t\tPD\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b64e7723bebd86650f22"},"refKey":45},
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{"_key":"60c2b6787723bebd86650f61","_id":"references/60c2b6787723bebd86650f61","_rev":"_cfFk9D----","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b6787723bebd86650f5b"},"refKey":39},
{"_key":"60c2b6787723bebd86650f62","_id":"references/60c2b6787723bebd86650f62","_rev":"_cfFk9DO---","tei":"\n\t\n\t\tDieckol, a SARS-CoV 3CLpro inhibitor, isolated from the edible brown algae Ecklonia cava\n\t\t\n\t\t\tJi-YoungPark\n\t\t\n\t\t\n\t\t\tJangHoonKim\n\t\t\n\t\t\n\t\t\tJungMinKwon\n\t\t\n\t\t\n\t\t\tHyung-JunKwon\n\t\t\n\t\t\n\t\t\tHyungJaeJeong\n\t\t\n\t\t\n\t\t\tYoungMinKim\n\t\t\n\t\t\n\t\t\tDomanKim\n\t\t\n\t\t\n\t\t\tWooSongLee\n\t\t\n\t\t\n\t\t\tYoungBaeRyu\n\t\t\n\t\t10.1016/j.bmc.2013.04.026\n\t\t23647823\n\t\n\t\n\t\tBioorganic & Medicinal Chemistry\n\t\tBioorganic & Medicinal Chemistry\n\t\t0968-0896\n\t\t\n\t\t\t21\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2b6787723bebd86650f5b"},"refKey":33},
{"_key":"60c2b6787723bebd86650f63","_id":"references/60c2b6787723bebd86650f63","_rev":"_cfFk9Da---","tei":"\n\t\n\t\tVERIFY3D: Assessment of protein models with threedimensional profiles\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\t\n\t\t\tRLüthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t277\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b6787723bebd86650f5b"},"refKey":22},
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{"_key":"60c2b6787723bebd86650f65","_id":"references/60c2b6787723bebd86650f65","_rev":"_cfFk9Dy---","tei":"\n\t\n\t\tPROCHECK: validation of protein-structure coordinates\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/97809553602060000882\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b6787723bebd86650f5b"},"refKey":24},
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{"_key":"60c2b7467723bebd86651056","_id":"references/60c2b7467723bebd86651056","_rev":"_cfFk9I----","tei":"\n\t\n\t\tGetting started with PRIMER v7\n\t\t\n\t\t\tKRClarke\n\t\t\n\t\t\n\t\t\tRNGorley\n\t\t\n\t\t\n\t\t\t\n\t\t\tPlymouth, UK\n\t\t\n\t\n\n","document":{"$oid":"60c2b7467723bebd86651054"},"refKey":67},
{"_key":"60c2b7467723bebd86651057","_id":"references/60c2b7467723bebd86651057","_rev":"_cfFk9IK---","tei":"\n\t\n\t\tThe R Core Team R: A language and environment for statistical computing.; R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b7467723bebd86651054"},"refKey":65},
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{"_key":"60c2b77d7723bebd86651098","_id":"references/60c2b77d7723bebd86651098","_rev":"_cfFk9I6---","tei":"\n\t\n\t\tTorsion angle dynamics for NMR structure calculation with the new program DYANA\n\t\t\n\t\t\tPGuntert\n\t\t\n\t\t\n\t\t\tCMumenthaler\n\t\t\n\t\t\n\t\t\tKWuthrich\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t273\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b77d7723bebd86651097"},"refKey":17},
{"_key":"60c2b77d7723bebd86651099","_id":"references/60c2b77d7723bebd86651099","_rev":"_cfFk9JK---","tei":"\n\t\n\t\tProtein NMR Structure Determination with Automated NOE Assignment Using the New Software CANDID and the Torsion Angle Dynamics Algorithm DYANA\n\t\t\n\t\t\tTorstenHerrmann\n\t\t\n\t\t\n\t\t\tPeterGüntert\n\t\t\n\t\t\n\t\t\tKurtWüthrich\n\t\t\n\t\t10.1016/s0022-2836(02)00241-3\n\t\t12051947\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t319\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2b77d7723bebd86651097"},"refKey":18},
{"_key":"60c2b77d7723bebd8665109a","_id":"references/60c2b77d7723bebd8665109a","_rev":"_cfFk9JW---","tei":"\n\t\n\t\tThe amber biomolecular simulation programs\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tTDarden\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tKMMerz\n\t\t\n\t\t\n\t\t\tAOnufriev\n\t\t\n\t\t\n\t\t\tCSimmerling\n\t\t\n\t\t\n\t\t\tBWang\n\t\t\n\t\t\n\t\t\tRJWoods\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b77d7723bebd86651097"},"refKey":19},
{"_key":"60c2b77d7723bebd8665109b","_id":"references/60c2b77d7723bebd8665109b","_rev":"_cfFk9Ji---","tei":"\n\t\n\t\tProtein backbone angle restraints from searching a database for chemical shift and sequence homology\n\t\t\n\t\t\tGCornilescu\n\t\t\n\t\t\n\t\t\tFDelaglio\n\t\t\n\t\t\n\t\t\tABax\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b77d7723bebd86651097"},"refKey":14},
{"_key":"60c2b77d7723bebd8665109c","_id":"references/60c2b77d7723bebd8665109c","_rev":"_cfFk9Ju---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr Sect D\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b77d7723bebd86651097"},"refKey":23},
{"_key":"60c2b77d7723bebd8665109d","_id":"references/60c2b77d7723bebd8665109d","_rev":"_cfFk9J6---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRLaskowski\n\t\t\n\t\t\n\t\t\tMMacarthur\n\t\t\n\t\t\n\t\t\tDMoss\n\t\t\n\t\t\n\t\t\tJThornton\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b77d7723bebd86651097"},"refKey":24},
{"_key":"60c2b77d7723bebd8665109e","_id":"references/60c2b77d7723bebd8665109e","_rev":"_cfFk9KG---","tei":"\n\t\n\t\tMOLMOL: a program for display and analysis of macromolecular structures\n\t\t\n\t\t\tRKoradi\n\t\t\n\t\t\n\t\t\tMBilleter\n\t\t\n\t\t\n\t\t\tKWuthrich\n\t\t\n\t\n\t\n\t\tJ Mol Graphics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b77d7723bebd86651097"},"refKey":25},
{"_key":"60c2b7c37723bebd866510c1","_id":"references/60c2b7c37723bebd866510c1","_rev":"_cfFk9KS---","tei":"\n\t\n\t\tAvailable at: https:// radimrehurek.com/gensim/models/ldamulticore.html. Accessed\n\t\t\n\t\t\tRRehurek\n\t\t\n\t\t\n\t\t\tPSojka\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tparallelized Latent Dirichlet Allocation. gensim\n\n","document":{"$oid":"60c2b7c37723bebd866510c0"},"refKey":16},
{"_key":"60c2b7c37723bebd866510c2","_id":"references/60c2b7c37723bebd866510c2","_rev":"_cfFk9Ke---","tei":"\n\t\n\t\tAvailable at: https://github.com/mjockers/syuzhet. Accessed\n\t\t\n\t\t\tMLJockers\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tSyuzhet: extract sentiment and plot arcs from text\n\n","document":{"$oid":"60c2b7c37723bebd866510c0"},"refKey":13},
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{"_key":"60c2b8237723bebd866510f1","_id":"references/60c2b8237723bebd866510f1","_rev":"_cfFk9LC---","tei":"\n\t\n\t\tMultiple sequence alignment with the Clustal series of programs\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tHSugawara\n\t\t\n\t\t\n\t\t\tTKoike\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b8237723bebd866510ef"},"refKey":30},
{"_key":"60c2b8387723bebd86651115","_id":"references/60c2b8387723bebd86651115","_rev":"_cfFk9LO---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2b8387723bebd86651114"},"refKey":15},
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{"_key":"60c2b87b7723bebd86651146","_id":"references/60c2b87b7723bebd86651146","_rev":"_cfFk9Ly---","tei":"\n\t\n\t\tBEAST: Bayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t10.1186/1471-2148-7-214\n\t\t17996036\n\t\tPMC2247476\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t214\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2b87b7723bebd86651145"},"refKey":4},
{"_key":"60c2b87b7723bebd86651147","_id":"references/60c2b87b7723bebd86651147","_rev":"_cfFk9M----","tei":"\n\t\n\t\tSystem for Automated Geoscientific Analyses (SAGA) v. 2.1.4\n\t\t\n\t\t\tOConrad\n\t\t\n\t\t\n\t\t\tBBechtel\n\t\t\t0000-0001-8802-7934\n\t\t\n\t\t\n\t\t\tMBock\n\t\t\n\t\t\n\t\t\tHDietrich\n\t\t\n\t\t\n\t\t\tEFischer\n\t\t\n\t\t\n\t\t\tLGerlitz\n\t\t\n\t\t\n\t\t\tJWehberg\n\t\t\n\t\t\n\t\t\tVWichmann\n\t\t\t0000-0001-9721-4387\n\t\t\n\t\t\n\t\t\tJBöhner\n\t\t\n\t\t10.5194/gmd-8-1991-2015\n\t\t\n\t\n\t\n\t\tGeoscientific Model Development\n\t\tGeosci. Model Dev.\n\t\t1991-9603\n\t\t\n\t\t\t8\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tCopernicus GmbH\n\t\t\n\t\n\n","document":{"$oid":"60c2b87b7723bebd86651145"},"refKey":3},
{"_key":"60c2b8b07723bebd86651178","_id":"references/60c2b8b07723bebd86651178","_rev":"_cfFk9MK---","tei":"\n\t\n\t\tAccuracy of coalescent likelihood estimates: do we need more sites, more sequences, or more loci?\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b8b07723bebd86651177"},"refKey":13},
{"_key":"60c2b8b07723bebd86651179","_id":"references/60c2b8b07723bebd86651179","_rev":"_cfFk9MW---","tei":"\n\t\n\t\tMEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b8b07723bebd86651177"},"refKey":39},
{"_key":"60c2b8b07723bebd8665117a","_id":"references/60c2b8b07723bebd8665117a","_rev":"_cfFk9Mi---","tei":"\n\t\n\t\tThe neighbor-joining method: a new method for reconstructing phylogenetic trees\n\t\t\n\t\t\tNSaitou\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b8b07723bebd86651177"},"refKey":31},
{"_key":"60c2b8ce7723bebd8665118a","_id":"references/60c2b8ce7723bebd8665118a","_rev":"_cfFk9Mu---","tei":"\n\t\n\t\tUsing Twitter as a data source: an overview of social media research tools\n\t\t\n\t\t\tWAhmed\n\t\t\n\t\n\t\n\t\tImpact Soc. Sci. Blog\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b8ce7723bebd86651189"},"refKey":23},
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{"_key":"60c2b9327723bebd866511cf","_id":"references/60c2b9327723bebd866511cf","_rev":"_cfFk9NS---","tei":"\n\t\n\t\tSplitsTree: analyzing and visualizing evolutionary data\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9327723bebd866511cd"},"refKey":24},
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{"_key":"60c2b95b7723bebd866511fb","_id":"references/60c2b95b7723bebd866511fb","_rev":"_cfFk9Nq---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b95b7723bebd866511fa"},"refKey":76},
{"_key":"60c2b95b7723bebd866511fc","_id":"references/60c2b95b7723bebd866511fc","_rev":"_cfFk9N2---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWDa Huang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b95b7723bebd866511fa"},"refKey":82},
{"_key":"60c2b95b7723bebd866511fd","_id":"references/60c2b95b7723bebd866511fd","_rev":"_cfFk9OC---","tei":"\n\t\n\t\tA systems biology approach for pathway level analysis\n\t\t\n\t\t\tSDraghici\n\t\t\n\t\t\n\t\t\tPKhatri\n\t\t\n\t\t\n\t\t\tALTarca\n\t\t\n\t\t\n\t\t\tKAmin\n\t\t\n\t\t\n\t\t\tADone\n\t\t\n\t\t\n\t\t\tCVoichita\n\t\t\n\t\t\n\t\t\tCGeorgescu\n\t\t\n\t\t\n\t\t\tRRomero\n\t\t\n\t\t10.1101/gr.6202607\n\t\t17785539\n\t\tPMC1987343\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t17\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2b95b7723bebd866511fa"},"refKey":83},
{"_key":"60c2b9607723bebd86651205","_id":"references/60c2b9607723bebd86651205","_rev":"_cfFk9OO---","tei":"\n\t\n\t\tMir in matlab (II): A toolbox for musical feature extraction from audio\n\t\t\n\t\t\tOLartillot\n\t\t\n\t\t\n\t\t\tPToiviainen\n\t\t\n\t\n\t\n\t\tProceedings of the 8th International Conference on Music Information Retrieval (ISMIR 2007)\n\t\t\t\tthe 8th International Conference on Music Information Retrieval (ISMIR 2007)Vienna, Austria\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9607723bebd86651204"},"refKey":51},
{"_key":"60c2b9687723bebd8665120c","_id":"references/60c2b9687723bebd8665120c","_rev":"_cfFk9Oe---","tei":"\n\t\n\t\tExploiting heterogeneous sequence properties improves prediction of protein disorder\n\t\t\n\t\t\tZoranObradovic\n\t\t\n\t\t\n\t\t\tKangPeng\n\t\t\n\t\t\n\t\t\tSlobodanVucetic\n\t\t\n\t\t\n\t\t\tPredragRadivojac\n\t\t\n\t\t\n\t\t\tAKeithDunker\n\t\t\n\t\t10.1002/prot.20735\n\t\t16187360\n\t\tark:/67375/WNG-8QKTT11L-W\n\t\t97EF6662B2F432219D137EE4DB3A56E07AF86FCC\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t61\n\t\t\tS7\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":63},
{"_key":"60c2b9687723bebd8665120d","_id":"references/60c2b9687723bebd8665120d","_rev":"_cfFk9Oq---","tei":"\n\t\n\t\tLength-dependent prediction of protein intrinsic disorder\n\t\t\n\t\t\tKPeng\n\t\t\n\t\t\n\t\t\tPRadivojac\n\t\t\n\t\t\n\t\t\tSVucetic\n\t\t\n\t\t\n\t\t\tAKDunker\n\t\t\n\t\t\n\t\t\tZObradovic\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t7\n\t\t\t208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":64},
{"_key":"60c2b9687723bebd8665120e","_id":"references/60c2b9687723bebd8665120e","_rev":"_cfFk9O2---","tei":"\n\t\n\t\tThe PSIPRED protein structure prediction server\n\t\t\n\t\t\tLJMcguffin\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":37},
{"_key":"60c2b9687723bebd8665120f","_id":"references/60c2b9687723bebd8665120f","_rev":"_cfFk9PC---","tei":"\n\t\n\t\tProtein secondary structure prediction based on position-specific scoring matrices\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t292\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":60},
{"_key":"60c2b9687723bebd86651210","_id":"references/60c2b9687723bebd86651210","_rev":"_cfFk9PO---","tei":"\n\t\n\t\tSignalP 5.0 improves signal peptide predictions using deep neural networks\n\t\t\n\t\t\tJJAlmagro Armenteros\n\t\t\n\t\t\n\t\t\tKDTsirigos\n\t\t\n\t\t\n\t\t\tCKSonderby\n\t\t\n\t\t\n\t\t\tTNPetersen\n\t\t\n\t\t\n\t\t\tOWinther\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":35},
{"_key":"60c2b9687723bebd86651211","_id":"references/60c2b9687723bebd86651211","_rev":"_cfFk9Pa---","tei":"\n\t\n\t\tPredicting secretory proteins with SignalP\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tMethods Mol. Biol\n\t\t\n\t\t\t1611\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":62},
{"_key":"60c2b9687723bebd86651212","_id":"references/60c2b9687723bebd86651212","_rev":"_cfFk9Pm---","tei":"\n\t\n\t\tAccurate single-sequence prediction of solvent accessible surface area using local and global features\n\t\t\n\t\t\tEshelFaraggi\n\t\t\n\t\t\n\t\t\tYaoqiZhou\n\t\t\n\t\t\n\t\t\tAndrzejKloczkowski\n\t\t\n\t\t10.1002/prot.24682\n\t\t25204636\n\t\tPMC4307928\n\t\tark:/67375/WNG-3VTPPQQ1-K\n\t\t916ED8BC2DA10D145D7BDB6F2C34AF88CE3D12C3\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t82\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":50},
{"_key":"60c2b9687723bebd86651213","_id":"references/60c2b9687723bebd86651213","_rev":"_cfFk9Py---","tei":"\n\t\n\t\tFast and Accurate Accessible Surface Area Prediction Without a Sequence Profile\n\t\t\n\t\t\tEshelFaraggi\n\t\t\n\t\t\n\t\t\tMaksimKouza\n\t\t\n\t\t\n\t\t\tYaoqiZhou\n\t\t\n\t\t\n\t\t\tAndrzejKloczkowski\n\t\t\n\t\t10.1007/978-1-4939-6406-2_10\n\t\t27787824\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1484\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":51},
{"_key":"60c2b9687723bebd86651214","_id":"references/60c2b9687723bebd86651214","_rev":"_cfFk9Q----","tei":"\n\t\n\t\tHigh-throughput prediction of RNA, DNA and protein binding regions mediated by intrinsic disorder\n\t\t\n\t\t\tZhenlingPeng\n\t\t\n\t\t\n\t\t\tLukaszKurgan\n\t\t\n\t\t10.1093/nar/gkv585\n\t\t26109352\n\t\tPMC4605291\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":53},
{"_key":"60c2b9687723bebd86651215","_id":"references/60c2b9687723bebd86651215","_rev":"_cfFk9QK---","tei":"\n\t\n\t\tPrediction of Disordered RNA, DNA, and Protein Binding Regions Using DisoRDPbind\n\t\t\n\t\t\tZhenlingPeng\n\t\t\n\t\t\n\t\t\tChenWang\n\t\t\n\t\t\n\t\t\tVladimirNUversky\n\t\t\n\t\t\n\t\t\tLukaszKurgan\n\t\t\n\t\t10.1007/978-1-4939-6406-2_14\n\t\t27787828\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1484\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":54},
{"_key":"60c2b9687723bebd86651216","_id":"references/60c2b9687723bebd86651216","_rev":"_cfFk9QW---","tei":"\n\t\n\t\tDisordered RNA-binding region prediction with DisoRDPbind\n\t\t\n\t\t\tCJOldfield\n\t\t\n\t\t\n\t\t\tZPeng\n\t\t\n\t\t\n\t\t\tLKurgan\n\t\t\n\t\n\t\n\t\tMethods Mol. Biol\n\t\t\n\t\t\t2106\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":55},
{"_key":"60c2b9687723bebd86651217","_id":"references/60c2b9687723bebd86651217","_rev":"_cfFk9Qi---","tei":"\n\t\n\t\tMobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins\n\t\t\n\t\t\tDPiovesan\n\t\t\n\t\t\n\t\t\tFTabaro\n\t\t\n\t\t\n\t\t\tLPaladin\n\t\t\n\t\t\n\t\t\tMNecci\n\t\t\n\t\t\n\t\t\tIMicetic\n\t\t\n\t\t\n\t\t\tCCamilloni\n\t\t\n\t\t\n\t\t\tNDavey\n\t\t\n\t\t\n\t\t\tZDosztanyi\n\t\t\n\t\t\n\t\t\tBMeszaros\n\t\t\n\t\t\n\t\t\tAMMonzon\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":48},
{"_key":"60c2b9687723bebd86651218","_id":"references/60c2b9687723bebd86651218","_rev":"_cfFk9Qu---","tei":"\n\t\n\t\tMobiDB: a comprehensive database of intrinsic protein disorder annotations\n\t\t\n\t\t\tTDi Domenico\n\t\t\n\t\t\n\t\t\tIWalsh\n\t\t\n\t\t\n\t\t\tAJ MMartin\n\t\t\n\t\t\n\t\t\tSC ETosatto\n\t\t\n\t\t10.1093/bioinformatics/bts327\n\t\t22661649\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":49},
{"_key":"60c2b9687723bebd86651219","_id":"references/60c2b9687723bebd86651219","_rev":"_cfFk9Q6---","tei":"\n\t\n\t\tSCRATCH: a protein structure and structural feature prediction server\n\t\t\n\t\t\tJCheng\n\t\t\n\t\t\n\t\t\tAZRandall\n\t\t\n\t\t\n\t\t\tMJSweredoski\n\t\t\n\t\t\n\t\t\tPBaldi\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":43},
{"_key":"60c2b9687723bebd8665121a","_id":"references/60c2b9687723bebd8665121a","_rev":"_cfFk9RG---","tei":"\n\t\n\t\tThe MULTICOM toolbox for protein structure prediction\n\t\t\n\t\t\tJianlinCheng\n\t\t\n\t\t\n\t\t\tJilongLi\n\t\t\n\t\t\n\t\t\tZhengWang\n\t\t\n\t\t\n\t\t\tJesseEickholt\n\t\t\n\t\t\n\t\t\tXinDeng\n\t\t\n\t\t10.1186/1471-2105-13-65\n\t\t22545707\n\t\tPMC3495398\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\t1\n\t\t\t65\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":45},
{"_key":"60c2b9687723bebd8665121b","_id":"references/60c2b9687723bebd8665121b","_rev":"_cfFk9RS---","tei":"\n\t\n\t\tThe PSIPRED Protein Analysis Workbench: 20 years on\n\t\t\n\t\t\tDanielW ABuchan\n\t\t\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t10.1093/nar/gkz297\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":42},
{"_key":"60c2b9687723bebd8665121c","_id":"references/60c2b9687723bebd8665121c","_rev":"_cfFk9Re---","tei":"\n\t\n\t\tD2P2: database of disordered protein predictions\n\t\t\n\t\t\tMattEOates\n\t\t\n\t\t\n\t\t\tPedroRomero\n\t\t\n\t\t\n\t\t\tTakashiIshida\n\t\t\n\t\t\n\t\t\tMohamedGhalwash\n\t\t\n\t\t\n\t\t\tMarcinJMizianty\n\t\t\n\t\t\n\t\t\tBinXue\n\t\t\n\t\t\n\t\t\tZsuzsannaDosztányi\n\t\t\n\t\t\n\t\t\tVladimirNUversky\n\t\t\n\t\t\n\t\t\tZoranObradovic\n\t\t\n\t\t\n\t\t\tLukaszKurgan\n\t\t\n\t\t\n\t\t\tAKeithDunker\n\t\t\n\t\t\n\t\t\tJulianGough\n\t\t\n\t\t10.1093/nar/gks1226\n\t\t23203878\n\t\tPMC3531159\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":47},
{"_key":"60c2b9687723bebd8665121d","_id":"references/60c2b9687723bebd8665121d","_rev":"_cfFk9Ry---","tei":"\n\t\n\t\tUniProt: a worldwide hub of protein knowledge\n\t\t\n\t\t\tCUniprot\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":0},
{"_key":"60c2b9687723bebd8665121e","_id":"references/60c2b9687723bebd8665121e","_rev":"_cfFk9SC---","tei":"\n\t\n\t\tUniProtKB/Swiss-Prot, the Manually Annotated Section of the UniProt KnowledgeBase: How to Use the Entry View\n\t\t\n\t\t\tEmmanuelBoutet\n\t\t\n\t\t\n\t\t\tDamienLieberherr\n\t\t\n\t\t\n\t\t\tMichaelTognolli\n\t\t\n\t\t\n\t\t\tMichelSchneider\n\t\t\n\t\t\n\t\t\tParitBansal\n\t\t\n\t\t\n\t\t\tAlanJBridge\n\t\t\n\t\t\n\t\t\tSylvainPoux\n\t\t\n\t\t\n\t\t\tLydieBougueleret\n\t\t\n\t\t\n\t\t\tIoannisXenarios\n\t\t\n\t\t10.1007/978-1-4939-3167-5_2\n\t\t26519399\n\t\n\t\n\t\tPlant Bioinformatics\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":2},
{"_key":"60c2b9687723bebd8665121f","_id":"references/60c2b9687723bebd8665121f","_rev":"_cfFk9SO---","tei":"\n\t\n\t\tDEPICTER: intrinsic disorder and disorder function prediction server\n\t\t\n\t\t\tABarik\n\t\t\n\t\t\n\t\t\tAKatuwawala\n\t\t\n\t\t\n\t\t\tJHanson\n\t\t\n\t\t\n\t\t\tKPaliwal\n\t\t\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tLKurgan\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t432\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":46},
{"_key":"60c2b9687723bebd86651220","_id":"references/60c2b9687723bebd86651220","_rev":"_cfFk9Se---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tCCamacho\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tVAvagyan\n\t\t\n\t\t\n\t\t\tNMa\n\t\t\n\t\t\n\t\t\tJPapadopoulos\n\t\t\n\t\t\n\t\t\tKBealer\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t10\n\t\t\t421\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":83},
{"_key":"60c2b9687723bebd86651221","_id":"references/60c2b9687723bebd86651221","_rev":"_cfFk9Sq---","tei":"\n\t\n\t\tSequence Similarity Searching\n\t\t\n\t\t\tGangHu\n\t\t\n\t\t\n\t\t\tLukaszKurgan\n\t\t\n\t\t10.1002/cpps.71\n\t\t30102464\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Protein Science\n\t\tCurrent Protocols in Protein Science\n\t\t1934-3655\n\t\t\n\t\t\t95\n\t\t\t1\n\t\t\te71\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2b9687723bebd8665120b"},"refKey":84},
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{"_key":"60c2bad27723bebd8665139b","_id":"references/60c2bad27723bebd8665139b","_rev":"_cfFk9Vi---","tei":"\n\t\n\t\tThe HADDOCK2.2 Web Server: User-Friendly Integrative Modeling of Biomolecular Complexes\n\t\t\n\t\t\tGcpC PVan Zundert\n\t\t\n\t\t\n\t\t\tJpglmP G L MRodrigues\n\t\t\n\t\t\n\t\t\tMTrellet\n\t\t\n\t\t\n\t\t\tCSchmitz\n\t\t\n\t\t\n\t\t\tPLKastritis\n\t\t\n\t\t\n\t\t\tEKaraca\n\t\t\n\t\t\n\t\t\tAS JMelquiond\n\t\t\n\t\t\n\t\t\tMVan Dijk\n\t\t\n\t\t\n\t\t\tSJDe Vries\n\t\t\n\t\t\n\t\t\tAM J JBonvin\n\t\t\n\t\t10.1016/j.jmb.2015.09.014\n\t\t26410586\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t428\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2bad27723bebd8665139a"},"refKey":39},
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{"_key":"60c2bb237723bebd866513d1","_id":"references/60c2bb237723bebd866513d1","_rev":"_cfFk9Wu---","tei":"\n\t\n\t\tCHARMM36 all-atom additive protein force field: Validation based on comparison to NMR data\n\t\t\n\t\t\tJingHuang\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t10.1002/jcc.23354\n\t\t23832629\n\t\tPMC3800559\n\t\tark:/67375/WNG-7HWQQHWF-9\n\t\t253DCE9C826B1834B692C2D5FEF33E5E45D17CCA\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t34\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2bb237723bebd866513cf"},"refKey":20},
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{"_key":"60c2bb237723bebd866513d6","_id":"references/60c2bb237723bebd866513d6","_rev":"_cfFk9Xy---","tei":"\n\t\n\t\tCHARMM-GUI: A web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tTaehoonKim\n\t\t\n\t\t\n\t\t\tVidyashankaraGIyer\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.20945\n\t\t18351591\n\t\tark:/67375/WNG-B51MBQFN-X\n\t\t3C9C30FE6273AB7B8632EBBA4EF6F91FEFB8F531\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2bb237723bebd866513cf"},"refKey":23},
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{"_key":"60c2bb3c7723bebd866513fc","_id":"references/60c2bb3c7723bebd866513fc","_rev":"_cfFk9Yq---","tei":"\n\t\n\t\tA top-down compiler for sentential decision diagrams\n\t\t\n\t\t\tUOztok\n\t\t\n\t\t\n\t\t\tADarwiche\n\t\t\n\t\n\t\n\t\tIJCAI 2015\n\t\t\t\t\n\t\t\tThe AAAI Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2bb3c7723bebd866513fb"},"refKey":41},
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{"_key":"60c2bb457723bebd86651439","_id":"references/60c2bb457723bebd86651439","_rev":"_cfFk9a2---","tei":"\n\t\n\t\tKNIME - the Konstanz information miner\n\t\t\n\t\t\tMichaelRBerthold\n\t\t\n\t\t\n\t\t\tNicolasCebron\n\t\t\n\t\t\n\t\t\tFabianDill\n\t\t\n\t\t\n\t\t\tThomasRGabriel\n\t\t\n\t\t\n\t\t\tTobiasKötter\n\t\t\n\t\t\n\t\t\tThorstenMeinl\n\t\t\n\t\t\n\t\t\tPeterOhl\n\t\t\n\t\t\n\t\t\tKilianThiel\n\t\t\n\t\t\n\t\t\tBerndWiswedel\n\t\t\n\t\t10.1145/1656274.1656280\n\t\t\n\t\n\t\n\t\tACM SIGKDD Explorations Newsletter\n\t\tSIGKDD Explor. Newsl.\n\t\t1931-0145\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t26\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c2bb457723bebd86651433"},"refKey":13},
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{"_key":"60c2be2c7723bebd86651630","_id":"references/60c2be2c7723bebd86651630","_rev":"_cfFk9ii---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2be2c7723bebd8665162c"},"refKey":57},
{"_key":"60c2be2c7723bebd86651631","_id":"references/60c2be2c7723bebd86651631","_rev":"_cfFk9iu---","tei":"\n\t\n\t\tPosterior summarization in Bayesian phylogenetics using Tracer 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2be2c7723bebd8665162c"},"refKey":60},
{"_key":"60c2be2c7723bebd86651632","_id":"references/60c2be2c7723bebd86651632","_rev":"_cfFk9i6---","tei":"\n\t\n\t\t\n\t\t\tHWickham\n\t\t\n\t\tElegant Graphics for Data Analysis\n\t\t\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2be2c7723bebd8665162c"},"refKey":61},
{"_key":"60c2be2c7723bebd86651633","_id":"references/60c2be2c7723bebd86651633","_rev":"_cfFk9jG---","tei":"\n\t\n\t\tggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tDKSmith\n\t\t\n\t\t\n\t\t\tHZhu\n\t\t\n\t\t\n\t\t\tYGuan\n\t\t\n\t\t\n\t\t\tTT YLam\n\t\t\n\t\n\t\n\t\tMethods Ecol. Evol\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2be2c7723bebd8665162c"},"refKey":62},
{"_key":"60c2be2c7723bebd86651634","_id":"references/60c2be2c7723bebd86651634","_rev":"_cfFk9jS---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAHaeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2be2c7723bebd8665162c"},"refKey":58},
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{"_key":"60c2be397723bebd86651677","_id":"references/60c2be397723bebd86651677","_rev":"_cfFk9jq---","tei":"\n\t\n\t\tA new meta-analytic method for neuroimaging studies that combines reported peak coordinates and statistical parametric maps\n\t\t\n\t\t\tJRadua\n\t\t\n\t\t\n\t\t\tDMataix-Cols\n\t\t\n\t\t\n\t\t\tMLPhillips\n\t\t\n\t\t\n\t\t\tWEl-Hage\n\t\t\n\t\t\n\t\t\tDMKronhaus\n\t\t\n\t\t\n\t\t\tNCardoner\n\t\t\n\t\t\n\t\t\tSSurguladze\n\t\t\n\t\t10.1016/j.eurpsy.2011.04.001\n\t\t21658917\n\t\n\t\n\t\tEuropean Psychiatry\n\t\tEuropean Psychiatry\n\t\t0924-9338\n\t\t\n\t\t\t27\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2be397723bebd86651676"},"refKey":118},
{"_key":"60c2be397723bebd86651678","_id":"references/60c2be397723bebd86651678","_rev":"_cfFk9j2---","tei":"\n\t\n\t\tAnisotropic Kernels for Coordinate-Based Meta-Analyses of Neuroimaging Studies\n\t\t\n\t\t\tJoaquimRadua\n\t\t\n\t\t\n\t\t\tKatyaRubia\n\t\t\n\t\t\n\t\t\tErickJorgeCanales-Rodríguez\n\t\t\n\t\t\n\t\t\tEdithPomarol-Clotet\n\t\t\n\t\t\n\t\t\tPaoloFusar-Poli\n\t\t\n\t\t\n\t\t\tDavidMataix-Cols\n\t\t\n\t\t10.3389/fpsyt.2014.00013\n\t\t24575054\n\t\tPMC3919071\n\t\t\n\t\n\t\n\t\tFrontiers in Psychiatry\n\t\tFront. Psychiatry\n\t\t1664-0640\n\t\t\n\t\t\t5\n\t\t\t13\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c2be397723bebd86651676"},"refKey":119},
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{"_key":"60c2be5b7723bebd8665168f","_id":"references/60c2be5b7723bebd8665168f","_rev":"_cfFk9ki---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1093/bioinformatics/bty407\n\t\t29790939\n\t\tPMC6247931\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2be5b7723bebd8665168d"},"refKey":5},
{"_key":"60c2be5b7723bebd86651690","_id":"references/60c2be5b7723bebd86651690","_rev":"_cfFk9ku---","tei":"\n\t\n\t\tGISAID: Global initiative on sharing all influenza data – from vision to reality\n\t\t\n\t\t\tYuelongShu\n\t\t\n\t\t\n\t\t\tJohnMccauley\n\t\t\n\t\t10.2807/1560-7917.es.2017.22.13.30494\n\t\t28382917\n\t\tPMC5388101\n\t\t\n\t\t\n\t\n\t\n\t\tEurosurveillance\n\t\tEuro Surveill.\n\t\t1025-496X\n\t\t1560-7917\n\t\t\n\t\t\t22\n\t\t\t13\n\t\t\t30494\n\t\t\t\n\t\t\tEuropean Centre for Disease Control and Prevention (ECDC)\n\t\t\n\t\n\n","document":{"$oid":"60c2be5b7723bebd8665168d"},"refKey":22},
{"_key":"60c2be6e7723bebd866516a2","_id":"references/60c2be6e7723bebd866516a2","_rev":"_cfFk9k6---","tei":"\n\t\n\t\tCamostat mesilate therapy for COVID-19\n\t\t\n\t\t\tMThompson\n\t\t\n\t\t\n\t\t\tSeattle\n\t\t\n\t\t\n\t\t\tUsaWash\n\t\t\n\t\t\n\t\t\tYUno\n\t\t\n\t\t10.1007/s11739-020-02345-9\n\t\t\n\t\n\t\n\t\tIntern. Emerg. Med\n\t\t\n\t\t\t1\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\tArgusLab 4.0.1. Planaria software LLC\n\n","document":{"$oid":"60c2be6e7723bebd866516a1"},"refKey":78},
{"_key":"60c2be6e7723bebd866516a3","_id":"references/60c2be6e7723bebd866516a3","_rev":"_cfFk9lK---","tei":"\n\t\n\t\tiGEMDOCK: a graphical environment of enhancing GEMDOCK using pharmacological interactions and post-screening analysis\n\t\t\n\t\t\tKai-ChengHsu\n\t\t\n\t\t\n\t\t\tYen-FuChen\n\t\t\n\t\t\n\t\t\tShen-RongLin\n\t\t\n\t\t\n\t\t\tJinn-MoonYang\n\t\t\n\t\t10.1186/1471-2105-12-s1-s33\n\t\t21342564\n\t\tPMC3044289\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\tSuppl 1\n\t\t\tS33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2be6e7723bebd866516a1"},"refKey":32},
{"_key":"60c2be6e7723bebd866516a4","_id":"references/60c2be6e7723bebd866516a4","_rev":"_cfFk9lW---","tei":"\n\t\n\t\tComparative in Silico studies on phytochemicals of ocimum as natural inhibitors of Ebola VP-35 protein\n\t\t\n\t\t\tSKashyap\n\t\t\n\t\t10.5281/zenodo.3524053\n\t\t\n\t\n\t\n\t\tIndo American J. Pharm. Res\n\t\t\n\t\t\t498\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2be6e7723bebd866516a1"},"refKey":35},
{"_key":"60c2be6e7723bebd866516a5","_id":"references/60c2be6e7723bebd866516a5","_rev":"_cfFk9lm---","tei":"\n\t\n\t\tLigand docking and binding site analysis with PyMOL and Autodock/Vina\n\t\t\n\t\t\tDanielSeeliger\n\t\t\n\t\t\n\t\t\tBertLDe Groot\n\t\t\n\t\t10.1007/s10822-010-9352-6\n\t\t20401516\n\t\tPMC2881210\n\t\tark:/67375/VQC-DJ1XJHQ0-F\n\t\t3DA675CD417E345F29EFB6CC4EA712C2B6A6F1D4\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t24\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2be6e7723bebd866516a1"},"refKey":73},
{"_key":"60c2be6e7723bebd866516a6","_id":"references/60c2be6e7723bebd866516a6","_rev":"_cfFk9ly---","tei":"\n\t\n\t\tDocking study of flavonoid derivatives as potent inhibitors of influenza H1N1 virus neuraminidase\n\t\t\n\t\t\tSeyedSadati\n\t\t\n\t\t\n\t\t\tNematollahGheibi\n\t\t\n\t\t\n\t\t\tSaeedRanjbar\n\t\t\n\t\t\n\t\t\tMohammadHashemzadeh\n\t\t\n\t\t10.3892/br.2018.1173\n\t\t30588301\n\t\tPMC6299203\n\t\t\n\t\t\n\t\n\t\n\t\tBiomedical Reports\n\t\tbiom rep\n\t\t2049-9434\n\t\t2049-9442\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpandidos Publications\n\t\t\n\t\n\n","document":{"$oid":"60c2be6e7723bebd866516a1"},"refKey":68},
{"_key":"60c2be6e7723bebd866516a7","_id":"references/60c2be6e7723bebd866516a7","_rev":"_cfFk9mC---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2be6e7723bebd866516a1"},"refKey":60},
{"_key":"60c2be6e7723bebd866516a8","_id":"references/60c2be6e7723bebd866516a8","_rev":"_cfFk9mO---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDM AMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btp033\n\t\t19151095\n\t\tPMC2672624\n\t\tark:/67375/HXZ-5L762ZQS-N\n\t\t984BAD740626CEADBD2E31F4094D8E18B07D49EA\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2be6e7723bebd866516a1"},"refKey":81},
{"_key":"60c2be8d7723bebd86651702","_id":"references/60c2be8d7723bebd86651702","_rev":"_cfFk9ma---","tei":"\n\t\n\t\tFiji: an open-source platform for biological-image analysis\n\t\t\n\t\t\tJohannesSchindelin\n\t\t\n\t\t\n\t\t\tIgnacioArganda-Carreras\n\t\t\n\t\t\n\t\t\tErwinFrise\n\t\t\n\t\t\n\t\t\tVerenaKaynig\n\t\t\n\t\t\n\t\t\tMarkLongair\n\t\t\n\t\t\n\t\t\tTobiasPietzsch\n\t\t\n\t\t\n\t\t\tStephanPreibisch\n\t\t\n\t\t\n\t\t\tCurtisRueden\n\t\t\n\t\t\n\t\t\tStephanSaalfeld\n\t\t\n\t\t\n\t\t\tBenjaminSchmid\n\t\t\n\t\t\n\t\t\tJean-YvesTinevez\n\t\t\n\t\t\n\t\t\tDanielJamesWhite\n\t\t\n\t\t\n\t\t\tVolkerHartenstein\n\t\t\n\t\t\n\t\t\tKevinEliceiri\n\t\t\n\t\t\n\t\t\tPavelTomancak\n\t\t\n\t\t\n\t\t\tAlbertCardona\n\t\t\n\t\t10.1038/nmeth.2019\n\t\t22743772\n\t\tPMC3855844\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2be8d7723bebd86651701"},"refKey":21},
{"_key":"60c2beeb7723bebd86651727","_id":"references/60c2beeb7723bebd86651727","_rev":"_cfFk9mq---","tei":"\n\t\n\t\tGlobal Kinetic Explorer: A new computer program for dynamic simulation and fitting of kinetic data\n\t\t\n\t\t\tKennethAJohnson\n\t\t\n\t\t\n\t\t\tZacharyBSimpson\n\t\t\n\t\t\n\t\t\tThomasBlom\n\t\t\n\t\t10.1016/j.ab.2008.12.024\n\t\t19154726\n\t\n\t\n\t\tAnalytical Biochemistry\n\t\tAnalytical Biochemistry\n\t\t0003-2697\n\t\t\n\t\t\t387\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2beeb7723bebd86651726"},"refKey":20},
{"_key":"60c2beeb7723bebd86651728","_id":"references/60c2beeb7723bebd86651728","_rev":"_cfFk9m2---","tei":"\n\t\n\t\tChapter 23 Fitting Enzyme Kinetic Data with KinTek Global Kinetic Explorer\n\t\t\n\t\t\tKennethAJohnson\n\t\t\n\t\t10.1016/s0076-6879(09)67023-3\n\t\t19897109\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t467\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2beeb7723bebd86651726"},"refKey":21},
{"_key":"60c2bf097723bebd86651741","_id":"references/60c2bf097723bebd86651741","_rev":"_cfFk9nC---","tei":"\n\t\n\t\tSpaceEx: Scalable Verification of Hybrid Systems\n\t\t\n\t\t\tGoranFrehse\n\t\t\n\t\t\n\t\t\tColasLe Guernic\n\t\t\n\t\t\n\t\t\tAlexandreDonzé\n\t\t\n\t\t\n\t\t\tScottCotton\n\t\t\n\t\t\n\t\t\tRajarshiRay\n\t\t\n\t\t\n\t\t\tOlivierLebeltel\n\t\t\n\t\t\n\t\t\tRodolfoRipado\n\t\t\n\t\t\n\t\t\tAntoineGirard\n\t\t\n\t\t\n\t\t\tThaoDang\n\t\t\n\t\t\n\t\t\tOdedMaler\n\t\t\n\t\t10.1007/978-3-642-22110-1_30\n\t\tark:/67375/HCB-ZS8HG00P-V\n\t\t8AE53E87F70D7F4ABF615FC39D8E49C463ABC645\n\t\t\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tGGopalakrishnan\n\t\t\tSQadeer\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t6806\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2bf097723bebd86651740"},"refKey":8},
{"_key":"60c2bf097723bebd86651742","_id":"references/60c2bf097723bebd86651742","_rev":"_cfFk9nS---","tei":"\n\t\n\t\tAnalyzing Real Time Linear Control Systems Using Software Verification\n\t\t\n\t\t\tParasaraSridharDuggirala\n\t\t\n\t\t\n\t\t\tMaheshViswanathan\n\t\t\n\t\t10.1109/rtss.2015.28\n\t\n\t\n\t\t2015 IEEE Real-Time Systems Symposium\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2bf097723bebd86651740"},"refKey":6},
{"_key":"60c2bf137723bebd8665174a","_id":"references/60c2bf137723bebd8665174a","_rev":"_cfFk9ne---","tei":"\n\t\n\t\tG*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t10.3758/bf03193146\n\t\t17695343\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tMedline: 17695343\n\n","document":{"$oid":"60c2bf137723bebd86651749"},"refKey":22},
{"_key":"60c2bf187723bebd86651751","_id":"references/60c2bf187723bebd86651751","_rev":"_cfFk9nq---","tei":"\n\t\n\t\tCanu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation\n\t\t\n\t\t\tSergeyKoren\n\t\t\n\t\t\n\t\t\tBrianPWalenz\n\t\t\n\t\t\n\t\t\tKonstantinBerlin\n\t\t\n\t\t\n\t\t\tJasonRMiller\n\t\t\n\t\t\n\t\t\tNicholasHBergman\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\t0000-0003-2983-8934\n\t\t\n\t\t10.1101/gr.215087.116\n\t\t28298431\n\t\tPMC5411767\n\t\tdoi: 10.1101/ gr.215087.116\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t27\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2bf187723bebd86651750"},"refKey":21},
{"_key":"60c2bf187723bebd86651752","_id":"references/60c2bf187723bebd86651752","_rev":"_cfFk9n6---","tei":"\n\t\n\t\tMultiple Alignment of DNA Sequences with MAFFT\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\n\t\t\n\t\t\tGeorgeAsimenos\n\t\t\n\t\t\n\t\t\tHiroyukiToh\n\t\t\n\t\t10.1007/978-1-59745-251-9_3\n\t\t19378139\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t537\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2bf187723bebd86651750"},"refKey":17},
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{"_key":"60c2c1287723bebd86651930","_id":"references/60c2c1287723bebd86651930","_rev":"_cfFk9vC---","tei":"\n\t\n\t\tLessons from building static analysis tools at Google\n\t\t\n\t\t\tCaitlinSadowski\n\t\t\n\t\t\n\t\t\tEdwardAftandilian\n\t\t\n\t\t\n\t\t\tAlexEagle\n\t\t\n\t\t\n\t\t\tLiamMiller-Cushon\n\t\t\n\t\t\n\t\t\tCieraJaspan\n\t\t\n\t\t10.1145/3188720\n\t\t\n\t\t\n\t\n\t\n\t\tCommunications of the ACM\n\t\tCommun. ACM\n\t\t0001-0782\n\t\t\n\t\t\t61\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c2c1287723bebd8665192b"},"refKey":45},
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{"_key":"60c2c4747723bebd86651bb1","_id":"references/60c2c4747723bebd86651bb1","_rev":"_cfFk93y---","tei":"\n\t\n\t\tAnimal health syndromic surveillance: a systematic literature review of the progress in the last 5 years (2011-2016)\n\t\t\n\t\t\tFCDórea\n\t\t\n\t\t\n\t\t\tFVial\n\t\t\n\t\n\t\n\t\tVet Med (Auckl)\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c4747723bebd86651bb0"},"refKey":3},
{"_key":"60c2c4797723bebd86651bbf","_id":"references/60c2c4797723bebd86651bbf","_rev":"_cfFk94----","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c4797723bebd86651bbe"},"refKey":57},
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{"_key":"60c2c4797723bebd86651bc3","_id":"references/60c2c4797723bebd86651bc3","_rev":"_cfFk942---","tei":"\n\t\n\t\tSINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes\n\t\t\n\t\t\tEPruesse\n\t\t\n\t\t\n\t\t\tJPeplies\n\t\t\n\t\t\n\t\t\tFOGlöckner\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c4797723bebd86651bbe"},"refKey":58},
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{"_key":"60c2c4797723bebd86651bc5","_id":"references/60c2c4797723bebd86651bc5","_rev":"_cfFk95S---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c4797723bebd86651bbe"},"refKey":53},
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{"_key":"60c2c4797723bebd86651bc9","_id":"references/60c2c4797723bebd86651bc9","_rev":"_cfFk96G---","tei":"\n\t\n\t\tPSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes\n\t\t\n\t\t\tNYYu\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c4797723bebd86651bbe"},"refKey":72},
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{"_key":"60c2c4b17723bebd86651bf9","_id":"references/60c2c4b17723bebd86651bf9","_rev":"_cfFk97G---","tei":"\n\t\n\t\tThe HMMTOP transmembrane topology prediction server\n\t\t\n\t\t\tGETusnady\n\t\t\n\t\t\n\t\t\tISimon\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c4b17723bebd86651bf4"},"refKey":41},
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{"_key":"60c2c51d7723bebd86651cb4","_id":"references/60c2c51d7723bebd86651cb4","_rev":"_cfFk98a---","tei":"\n\t\n\t\tAccurate Prediction of DnaK-Peptide Binding via Homology Modelling and Experimental Data\n\t\t\n\t\t\tJoostVan Durme\n\t\t\n\t\t\n\t\t\tSebastianMaurer-Stroh\n\t\t\n\t\t\n\t\t\tRodrigoGallardo\n\t\t\n\t\t\n\t\t\tHannahWilkinson\n\t\t\n\t\t\n\t\t\tFredericRousseau\n\t\t\n\t\t\n\t\t\tJoostSchymkowitz\n\t\t\n\t\t10.1371/journal.pcbi.1000475\n\t\t19696878\n\t\tPMC2717214\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t5\n\t\t\t8\n\t\t\te1000475\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c2c51d7723bebd86651cb3"},"refKey":41},
{"_key":"60c2c5537723bebd86651ce7","_id":"references/60c2c5537723bebd86651ce7","_rev":"_cfFk98m---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1.3r1\n\t\t\n\t\t\tLSchro¨dinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c5537723bebd86651ce6"},"refKey":46},
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{"_key":"60c2c5547723bebd86651cef","_id":"references/60c2c5547723bebd86651cef","_rev":"_cfFk99----","tei":"\n\t\n\t\tGenomic variant annotation and prioritization with ANNOVAR and wANNOVAR\n\t\t\n\t\t\tHYang\n\t\t\n\t\t\n\t\t\tKWang\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\t\n\t\t\t10\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c5547723bebd86651cee"},"refKey":18},
{"_key":"60c2c5747723bebd86651d07","_id":"references/60c2c5747723bebd86651d07","_rev":"_cfFk99K---","tei":"\n\t\n\t\tMany-core algorithms for statistical phylogenetics\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t10.1093/bioinformatics/btp244\n\t\t19369496\n\t\tPMC2682525\n\t\tark:/67375/HXZ-VN8P6M8W-N\n\t\tFF81F7E0B612238FA72BCB805998948AB1D5CB45\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2c5747723bebd86651d06"},"refKey":21},
{"_key":"60c2c5747723bebd86651d08","_id":"references/60c2c5747723bebd86651d08","_rev":"_cfFk99W---","tei":"\n\t\n\t\tSpreaD3: Interactive Visualization of Spatiotemporal History and Trait Evolutionary Processes\n\t\t\n\t\t\tFilipBielejec\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tBramVrancken\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\n\t\t10.1093/molbev/msw082\n\t\t27189542\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2c5747723bebd86651d06"},"refKey":28},
{"_key":"60c2c5747723bebd86651d09","_id":"references/60c2c5747723bebd86651d09","_rev":"_cfFk99i---","tei":"\n\t\n\t\tPosterior Summarization in Bayesian Phylogenetics Using Tracer 1.7\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syy032\n\t\t29718447\n\t\tPMC6101584\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t67\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2c5747723bebd86651d06"},"refKey":26},
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{"_key":"60c2c5db7723bebd86651d51","_id":"references/60c2c5db7723bebd86651d51","_rev":"_cfFl--a---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUradel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c5db7723bebd86651d50"},"refKey":5},
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{"_key":"60c2c6037723bebd86651d6f","_id":"references/60c2c6037723bebd86651d6f","_rev":"_cfFl-AC---","tei":"\n\t\n\t\tTaxonomer: an interactive metagenomics analysis portal for universal pathogen detection and host mRNA expression profiling\n\t\t\n\t\t\tSFlygare\n\t\t\n\t\t\n\t\t\tKSimmon\n\t\t\n\t\t\n\t\t\tCMiller\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t17\n\t\t\t111\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c6037723bebd86651d68"},"refKey":10},
{"_key":"60c2c6037723bebd86651d70","_id":"references/60c2c6037723bebd86651d70","_rev":"_cfFl-AO---","tei":"\n\t\n\t\tThe khmer software package: enabling efficient nucleotide sequence analysis\n\t\t\n\t\t\tMRCrusoe\n\t\t\n\t\t\n\t\t\tHFAlameldin\n\t\t\n\t\t\n\t\t\tSAwad\n\t\t\n\t\n\t\n\t\tF1000Res\n\t\t\n\t\t\t4\n\t\t\t900\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c6037723bebd86651d68"},"refKey":33},
{"_key":"60c2c6037723bebd86651d71","_id":"references/60c2c6037723bebd86651d71","_rev":"_cfFl-Aa---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c6037723bebd86651d68"},"refKey":36},
{"_key":"60c2c6037723bebd86651d72","_id":"references/60c2c6037723bebd86651d72","_rev":"_cfFl-Am---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c6037723bebd86651d68"},"refKey":38},
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{"_key":"60c2c6037723bebd86651d74","_id":"references/60c2c6037723bebd86651d74","_rev":"_cfFl-B----","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c6037723bebd86651d68"},"refKey":37},
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{"_key":"60c2c7fe7723bebd86651fc1","_id":"references/60c2c7fe7723bebd86651fc1","_rev":"_cfFl-Hi---","tei":"\n\t\n\t\tProcess mining for python (PM4PY): bridging the gap between process -and data science\n\t\t\n\t\t\tABerti\n\t\t\n\t\t\n\t\t\tSJVan Zelst\n\t\t\n\t\t\n\t\t\tWM PVan Der Aalst\n\t\t\n\t\tabs/1905.06169\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c7fe7723bebd86651fc0"},"refKey":2},
{"_key":"60c2c8037723bebd86651fd1","_id":"references/60c2c8037723bebd86651fd1","_rev":"_cfFl-Hu---","tei":"\n\t\n\t\tBest bang for your buck: GPU nodes for GROMACS biomolecular simulations\n\t\t\n\t\t\tCarstenKutzner\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tMartinFechner\n\t\t\n\t\t\n\t\t\tAnsgarEsztermann\n\t\t\n\t\t\n\t\t\tBertLDe Groot\n\t\t\n\t\t\n\t\t\tHelmutGrubmüller\n\t\t\n\t\t10.1002/jcc.24030\n\t\t26238484\n\t\tPMC5042102\n\t\tark:/67375/WNG-KS3G5DW6-S\n\t\t78A0AAF823C22979C9FD50D60A1B920B33161192\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t36\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2c8037723bebd86651fd0"},"refKey":8},
{"_key":"60c2c8037723bebd86651fd2","_id":"references/60c2c8037723bebd86651fd2","_rev":"_cfFl-H6---","tei":"\n\t\n\t\tMore bang for your buck: Improved use of GPU nodes for GROMACS 2018\n\t\t\n\t\t\tCarstenKutzner\n\t\t\t0000-0002-8719-0307\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tMartinFechner\n\t\t\n\t\t\n\t\t\tAnsgarEsztermann\n\t\t\n\t\t\n\t\t\tBertLGroot\n\t\t\n\t\t\n\t\t\tHelmutGrubmüller\n\t\t\n\t\t10.1002/jcc.26011\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ Comput Chem\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t40\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2c8037723bebd86651fd0"},"refKey":9},
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{"_key":"60c2c8037723bebd86651fd4","_id":"references/60c2c8037723bebd86651fd4","_rev":"_cfFl-IS---","tei":"\n\t\n\t\tPrincipal components analysis corrects for stratification in genome-wide association studies\n\t\t\n\t\t\tAlkesLPrice\n\t\t\n\t\t\n\t\t\tNickJPatterson\n\t\t\n\t\t\n\t\t\tRobertMPlenge\n\t\t\n\t\t\n\t\t\tMichaelEWeinblatt\n\t\t\n\t\t\n\t\t\tNancyAShadick\n\t\t\n\t\t\n\t\t\tDavidReich\n\t\t\n\t\t10.1038/ng1847\n\t\t16862161\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t38\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2c8037723bebd86651fd0"},"refKey":13},
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{"_key":"60c2c80c7723bebd86651fed","_id":"references/60c2c80c7723bebd86651fed","_rev":"_cfFl-Jm---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t10\n\t\t\n\t\n\tPoblaci on estudiantil: bajo la lupa de la UNC\n\n","document":{"$oid":"60c2c80b7723bebd86651fe7"},"refKey":49},
{"_key":"60c2c80c7723bebd86651fee","_id":"references/60c2c80c7723bebd86651fee","_rev":"_cfFl-Jy---","tei":"\n\t\n\t\tModern Applied Statistics with S-PLUS\n\t\t\n\t\t\tWNVenables\n\t\t\n\t\t\n\t\t\tBDRipley\n\t\t\n\t\t10.1007/978-1-4757-3121-7\n\t\t\n\t\t\t\n\t\t\tSpringer New York\n\t\t\n\t\n\n","document":{"$oid":"60c2c80b7723bebd86651fe7"},"refKey":52},
{"_key":"60c2c8147723bebd86651ff6","_id":"references/60c2c8147723bebd86651ff6","_rev":"_cfFl-K----","tei":"\n\t\n\t\tIntegrative genomics viewer\n\t\t\n\t\t\tJamesTRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdóttir\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMitchellGuttman\n\t\t\n\t\t\n\t\t\tEricSLander\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t10.1038/nbt.1754\n\t\t21221095\n\t\tPMC3346182\n\t\t\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2c8147723bebd86651ff5"},"refKey":23},
{"_key":"60c2c8147723bebd86651ff7","_id":"references/60c2c8147723bebd86651ff7","_rev":"_cfFl-KK---","tei":"\n\t\n\t\tVariant Review with the Integrative Genomics Viewer\n\t\t\n\t\t\tJamesTRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdóttir\n\t\t\n\t\t\n\t\t\tAaronMWenger\n\t\t\n\t\t\n\t\t\tAhmetZehir\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t10.1158/0008-5472.can-17-0337\n\t\t29092934\n\t\tPMC5678989\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t77\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c2c8147723bebd86651ff5"},"refKey":24},
{"_key":"60c2c8207723bebd86652000","_id":"references/60c2c8207723bebd86652000","_rev":"_cfFl-KW---","tei":"\n\t\n\t\tnvivo-qualitative-data-analysis-software/ home [Accessed cited\n\t\t\n\t\t\tPtyQsr International\n\t\t\n\t\t\n\t\t\tLtd\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8207723bebd86651fff"},"refKey":27},
{"_key":"60c2c8347723bebd86652003","_id":"references/60c2c8347723bebd86652003","_rev":"_cfFl-Ki---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8347723bebd86652002"},"refKey":41},
{"_key":"60c2c83b7723bebd86652008","_id":"references/60c2c83b7723bebd86652008","_rev":"_cfFl-Ku---","tei":"\n\t\n\t\tSPServer: Split-statistical potentials for the analysis of protein structures and protein-protein interactions\n\t\t\n\t\t\tJAguirre-Plans\n\t\t\n\t\t\n\t\t\tAMeseguer\n\t\t\n\t\t\n\t\t\tRMolina-Fernandez\n\t\t\n\t\t\n\t\t\tMAMarín-López\n\t\t\n\t\t\n\t\t\tGJumde\n\t\t\n\t\t\n\t\t\tKCasanova\n\t\t\n\t\t\n\t\t\tJBonet\n\t\t\n\t\t\n\t\t\tOFornes\n\t\t\n\t\t\n\t\t\tNFernandez-Fuentes\n\t\t\n\t\t\n\t\t\tBOliva\n\t\t\n\t\t10.1186/s12859-020-03770-5\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t22\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c83b7723bebd86652007"},"refKey":42},
{"_key":"60c2c83b7723bebd86652009","_id":"references/60c2c83b7723bebd86652009","_rev":"_cfFl-K6---","tei":"\n\t\n\t\tAssessing changes in stability and flexibility upon single and multiple point missense mutations\n\t\t\n\t\t\tCH MRodrigues\n\t\t\n\t\t\n\t\t\tDE VPires\n\t\t\n\t\t\n\t\t\tDBAscher\n\t\t\n\t\t\n\t\t\tDynamut2\n\t\t\n\t\t10.1002/pro.3942\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2c83b7723bebd86652007"},"refKey":46},
{"_key":"60c2c84d7723bebd8665201f","_id":"references/60c2c84d7723bebd8665201f","_rev":"_cfFl-LG---","tei":"\n\t\n\t\tInterProScan-an integration platform for the signature-recognition methods in InterPro\n\t\t\n\t\t\tEMZdobnov\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c84d7723bebd8665201e"},"refKey":14},
{"_key":"60c2c84d7723bebd86652020","_id":"references/60c2c84d7723bebd86652020","_rev":"_cfFl-LS---","tei":"\n\t\n\t\tMODELTEST: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c84d7723bebd8665201e"},"refKey":22},
{"_key":"60c2c84d7723bebd86652021","_id":"references/60c2c84d7723bebd86652021","_rev":"_cfFl-Le---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c84d7723bebd8665201e"},"refKey":27},
{"_key":"60c2c84d7723bebd86652033","_id":"references/60c2c84d7723bebd86652033","_rev":"_cfFl-Lq---","tei":"\n\t\n\t\tResponsive visualizations coming to Power BI\n\t\t\n\t\t\tR\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c84d7723bebd86652032"},"refKey":20},
{"_key":"60c2c87f7723bebd866520a7","_id":"references/60c2c87f7723bebd866520a7","_rev":"_cfFl-L2---","tei":"\n\t\n\t\tDendroscope: An interactive viewer for large phylogenetic trees\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tDCRichter\n\t\t\n\t\t\n\t\t\tCRausch\n\t\t\n\t\t\n\t\t\tTDezulian\n\t\t\n\t\t\n\t\t\tMFranz\n\t\t\n\t\t\n\t\t\tRRupp\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t8\n\t\t\t460\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c87f7723bebd866520a6"},"refKey":124},
{"_key":"60c2c87f7723bebd866520a8","_id":"references/60c2c87f7723bebd866520a8","_rev":"_cfFl-MC---","tei":"\n\t\n\t\tPhylogeny inference based on parsimony and other methods using PAUP\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tJackSullivan\n\t\t\n\t\t10.1017/cbo9780511819049.010\n\t\n\t\n\t\tThe Phylogenetic Handbook\n\t\t\t\tSunderland, MA\n\t\t\n\t\t\tCambridge University Press\n\t\t\t2002\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c87f7723bebd866520a6"},"refKey":121},
{"_key":"60c2c8aa7723bebd866520cf","_id":"references/60c2c8aa7723bebd866520cf","_rev":"_cfFl-MO---","tei":"\n\t\n\t\tFstat (version 1.2): a computer program to calculate F-statistics\n\t\t\n\t\t\tJGoudet\n\t\t\n\t\n\t\n\t\tJournal of Heredity\n\t\t\n\t\t\t86\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8aa7723bebd866520ce"},"refKey":22},
{"_key":"60c2c8aa7723bebd866520d0","_id":"references/60c2c8aa7723bebd866520d0","_rev":"_cfFl-Ma---","tei":"\n\t\n\t\tMacClade 4: analysis of phylogeny and character evolution. Version 4.06. Sinauer Associates\n\t\t\n\t\t\tDRMaddison\n\t\t\n\t\t\n\t\t\tWPMaddison\n\t\t\n\t\n\t\n\t\tPhilosophical Transactions of the Royal Society London, B. Biological Sciences\n\t\t\n\t\t\t292\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tAllometry of bat wings and legs and comparison with bird wings\n\n","document":{"$oid":"60c2c8aa7723bebd866520ce"},"refKey":43},
{"_key":"60c2c8aa7723bebd866520d1","_id":"references/60c2c8aa7723bebd866520d1","_rev":"_cfFl-Mm---","tei":"\n\t\n\t\tMrModeltest v2. Program distributed by the author\n\t\t\n\t\t\tJA ANylander\n\t\t\n\t\n\t\n\t\tEvolutionary Biology Centre\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8aa7723bebd866520ce"},"refKey":46},
{"_key":"60c2c8aa7723bebd866520d2","_id":"references/60c2c8aa7723bebd866520d2","_rev":"_cfFl-My---","tei":"\n\t\n\t\tDnaSP, DNA polymorphism analyses by the coalescent and other methods\n\t\t\n\t\t\tJRozas\n\t\t\n\t\t\n\t\t\tJCSa ´nchez-Delbarrio\n\t\t\n\t\t\n\t\t\tXMesseguer\n\t\t\n\t\t\n\t\t\tRRozas\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8aa7723bebd866520ce"},"refKey":59},
{"_key":"60c2c8aa7723bebd866520d3","_id":"references/60c2c8aa7723bebd866520d3","_rev":"_cfFl-N----","tei":"\n\t\n\t\tArlequin ver. 3.0: an integrated software package for population genetics data analysis\n\t\t\n\t\t\tLExcoffier\n\t\t\n\t\t\n\t\t\tGLaval\n\t\t\n\t\t\n\t\t\tSSchneider\n\t\t\n\t\n\t\n\t\tEvolutionary Bioinformatics\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8aa7723bebd866520ce"},"refKey":11},
{"_key":"60c2c8b97723bebd866520eb","_id":"references/60c2c8b97723bebd866520eb","_rev":"_cfFl-NK---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8b97723bebd866520ea"},"refKey":38},
{"_key":"60c2c8b97723bebd866520ec","_id":"references/60c2c8b97723bebd866520ec","_rev":"_cfFl-NW---","tei":"\n\t\n\t\tfeatureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\t\n\t\t\t\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8b97723bebd866520ea"},"refKey":35},
{"_key":"60c2c8b97723bebd866520ed","_id":"references/60c2c8b97723bebd866520ed","_rev":"_cfFl-Ni---","tei":"\n\t\n\t\tGSVA: gene set variation analysis for microarray and RNA-seq data\n\t\t\n\t\t\tSHa ¨nzelmann\n\t\t\n\t\t\n\t\t\tRCastelo\n\t\t\n\t\t\n\t\t\tJGuinney\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t14\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8b97723bebd866520ea"},"refKey":22},
{"_key":"60c2c8b97723bebd866520ee","_id":"references/60c2c8b97723bebd866520ee","_rev":"_cfFl-Nu---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8b97723bebd866520ea"},"refKey":15},
{"_key":"60c2c8b97723bebd866520ef","_id":"references/60c2c8b97723bebd866520ef","_rev":"_cfFl-N6---","tei":"\n\t\n\t\tQuality control and preprocessing of metagenomic datasets\n\t\t\n\t\t\tRSchmieder\n\t\t\n\t\t\n\t\t\tREdwards\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8b97723bebd866520ea"},"refKey":61},
{"_key":"60c2c8b97723bebd866520f0","_id":"references/60c2c8b97723bebd866520f0","_rev":"_cfFl-OG---","tei":"\n\t\n\t\tTopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tGPertea\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tHPimentel\n\t\t\n\t\t\n\t\t\tRKelley\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t14\n\t\t\tR36\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2c8b97723bebd866520ea"},"refKey":30},
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{"_key":"60c2cc237723bebd866525b1","_id":"references/60c2cc237723bebd866525b1","_rev":"_cfFl-fK---","tei":"\n\t\n\t\tAtSNE: efficient and robust visualization on GPU through hierarchical optimization\n\t\t\n\t\t\tCFu\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tDCai\n\t\t\n\t\t\n\t\t\tXRen\n\t\t\n\t\n\t\n\t\tProceedings of the 25th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining\n\t\t\t\tthe 25th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cc237723bebd866525b0"},"refKey":9},
{"_key":"60c2cc237723bebd866525b2","_id":"references/60c2cc237723bebd866525b2","_rev":"_cfFl-fW---","tei":"\n\t\n\t\tAccelerating t-SNE using tree-based algorithms\n\t\t\n\t\t\tLVan Der Maaten\n\t\t\n\t\n\t\n\t\tJ. Learn. Res\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cc237723bebd866525b0"},"refKey":14},
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{"_key":"60c2cc347723bebd866525d3","_id":"references/60c2cc347723bebd866525d3","_rev":"_cfFl-fu---","tei":"\n\t\n\t\tTCC: an R package for comparing tag count data with robust normalization strategies\n\t\t\n\t\t\tJianqiangSun\n\t\t\n\t\t\n\t\t\tTomoakiNishiyama\n\t\t\n\t\t\n\t\t\tKentaroShimizu\n\t\t\n\t\t\n\t\t\tKojiKadota\n\t\t\n\t\t10.1186/1471-2105-14-219\n\t\t23837715\n\t\tPMC3716788\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t219\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2cc347723bebd866525d1"},"refKey":90},
{"_key":"60c2cc457723bebd866525e1","_id":"references/60c2cc457723bebd866525e1","_rev":"_cfFl-f6---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cc457723bebd866525e0"},"refKey":17},
{"_key":"60c2cc7b7723bebd86652609","_id":"references/60c2cc7b7723bebd86652609","_rev":"_cfFl-gG---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cc7b7723bebd86652608"},"refKey":14},
{"_key":"60c2ccad7723bebd86652631","_id":"references/60c2ccad7723bebd86652631","_rev":"_cfFl-gS---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ccad7723bebd86652630"},"refKey":38},
{"_key":"60c2ccad7723bebd86652632","_id":"references/60c2ccad7723bebd86652632","_rev":"_cfFl-ge---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ccad7723bebd86652630"},"refKey":34},
{"_key":"60c2ccc27723bebd8665263c","_id":"references/60c2ccc27723bebd8665263c","_rev":"_cfFl-gq---","tei":"\n\t\n\t\tDGIdb 3.0: a redesign and expansion of the drug–gene interaction database\n\t\t\n\t\t\tKelsyCCotto\n\t\t\n\t\t\n\t\t\tAlexHWagner\n\t\t\n\t\t\n\t\t\tYang-YangFeng\n\t\t\n\t\t\n\t\t\tSusannaKiwala\n\t\t\n\t\t\n\t\t\tAdamCCoffman\n\t\t\n\t\t\n\t\t\tGregorySpies\n\t\t\n\t\t\n\t\t\tAlexWollam\n\t\t\n\t\t\n\t\t\tNicholasCSpies\n\t\t\n\t\t\n\t\t\tObiLGriffith\n\t\t\t0000-0002-0843-4271\n\t\t\n\t\t\n\t\t\tMalachiGriffith\n\t\t\t0000-0002-6388-446X\n\t\t\n\t\t10.1093/nar/gkx1143\n\t\t29156001\n\t\tPMC5888642\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ccc27723bebd8665263b"},"refKey":10},
{"_key":"60c2ccd27723bebd86652663","_id":"references/60c2ccd27723bebd86652663","_rev":"_cfFl-g2---","tei":"\n\t\n\t\tTorsion angle dynamics for NMR structure calculation with the new program DYANA\n\t\t\n\t\t\tPGu ¨ntert\n\t\t\n\t\t\n\t\t\tCMumenthaler\n\t\t\n\t\t\n\t\t\tKWu ¨thrich\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t273\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ccd27723bebd86652662"},"refKey":12},
{"_key":"60c2ccdf7723bebd86652670","_id":"references/60c2ccdf7723bebd86652670","_rev":"_cfFl-hC---","tei":"\n\t\n\t\tNAMD: a Parallel, Object-Oriented Molecular Dynamics Program\n\t\t\n\t\t\tMarkTNelson\n\t\t\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAttilaGursoy\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tLaxmikantVKalé\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1177/109434209601000401\n\t\tark:/67375/M70-6NTHQJPH-9\n\t\t5F4D0CB7F681BEC3AF84F089DB6F7338563FEE25\n\t\t\n\t\n\t\n\t\tThe International Journal of Supercomputer Applications and High Performance Computing\n\t\tThe International Journal of Supercomputer Applications and High Performance Computing\n\t\t1078-3482\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c2ccdf7723bebd8665266f"},"refKey":33},
{"_key":"60c2ccdf7723bebd86652671","_id":"references/60c2ccdf7723bebd86652671","_rev":"_cfFl-hO---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\t1016/0263-7855(96)00018-5\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2ccdf7723bebd8665266f"},"refKey":19},
{"_key":"60c2cce97723bebd8665267d","_id":"references/60c2cce97723bebd8665267d","_rev":"_cfFl-he---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cce97723bebd8665267c"},"refKey":28},
{"_key":"60c2cce97723bebd8665267e","_id":"references/60c2cce97723bebd8665267e","_rev":"_cfFl-hq---","tei":"\n\t\n\t\tThe Ensembl Variant Effect Predictor\n\t\t\n\t\t\tWilliamMclaren\n\t\t\n\t\t\n\t\t\tLaurentGil\n\t\t\n\t\t\n\t\t\tSarahEHunt\n\t\t\n\t\t\n\t\t\tHarpreetSinghRiat\n\t\t\n\t\t\n\t\t\tGrahamR SRitchie\n\t\t\n\t\t\n\t\t\tAnjaThormann\n\t\t\n\t\t\n\t\t\tPaulFlicek\n\t\t\n\t\t\n\t\t\tFionaCunningham\n\t\t\n\t\t10.1101/042374\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t17\n\t\t\t122\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2cce97723bebd8665267c"},"refKey":25},
{"_key":"60c2cce97723bebd8665267f","_id":"references/60c2cce97723bebd8665267f","_rev":"_cfFl-hy---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cce97723bebd8665267c"},"refKey":24},
{"_key":"60c2ccf57723bebd8665269b","_id":"references/60c2ccf57723bebd8665269b","_rev":"_cfFl-i----","tei":"\n\t\n\t\tPredicting genes expressed via -1 and +1 frameshifts\n\t\t\n\t\t\tSMoon\n\t\t\n\t\t\n\t\t\tYByun\n\t\t\n\t\t\n\t\t\tH.-JKim\n\t\t\n\t\t\n\t\t\tSJeong\n\t\t\n\t\t\n\t\t\tKHan\n\t\t\n\t\t10.1093/nar/gkh829\n\t\t15371551\n\t\tPMC519117\n\t\tark:/67375/HXZ-T3MPXM3C-7\n\t\tE835137B072FC834D0A48C435773A53068E4E7B7\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ccf57723bebd8665269a"},"refKey":12},
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{"_key":"60c2ccf57723bebd8665269d","_id":"references/60c2ccf57723bebd8665269d","_rev":"_cfFl-iW---","tei":"\n\t\n\t\tPSEUDOVIEWER2: visualization of RNA pseudoknots of any type\n\t\t\n\t\t\tKHan\n\t\t\n\t\t\n\t\t\tYByun\n\t\t\n\t\t10.1093/nar/gkg539\n\t\t12824341\n\t\tPMC168946\n\t\tark:/67375/HXZ-MV3C3RPT-Q\n\t\t7B672C2B4568CBCB154D307477754240B0CBB4C4\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ccf57723bebd8665269a"},"refKey":8},
{"_key":"60c2ccf57723bebd8665269e","_id":"references/60c2ccf57723bebd8665269e","_rev":"_cfFl-im---","tei":"\n\t\n\t\tDesign, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynimics\n\t\t\n\t\t\tJReeder\n\t\t\n\t\t\n\t\t\tRGiegerich\n\t\t\n\t\t\n\t\t\tFH DVan Batenburg\n\t\t\n\t\t\n\t\t\tAPGultyaev\n\t\t\n\t\t\n\t\t\tCW APleij\n\t\t\n\t\t\n\t\t\tJNg\n\t\t\n\t\t\n\t\t\tJOliehoek\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBMC Bioinform.\n\n","document":{"$oid":"60c2ccf57723bebd8665269a"},"refKey":13},
{"_key":"60c2cd007723bebd866526bb","_id":"references/60c2cd007723bebd866526bb","_rev":"_cfFl-iy---","tei":"\n\t\n\t\tA coefficient of agreement for nominal scales\n\t\t\n\t\t\tJCohen\n\t\t\n\t\n\t\n\t\tEduc. Psychol. Meas\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cd007723bebd866526ba"},"refKey":22},
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{"_key":"60c2cd4f7723bebd86652720","_id":"references/60c2cd4f7723bebd86652720","_rev":"_cfFl-kG---","tei":"\n\t\n\t\tExperiences building Globus Genomics: a next-generation sequencing analysis service using Galaxy, Globus, and Amazon Web Services\n\t\t\n\t\t\tRaviKMadduri\n\t\t\n\t\t\n\t\t\tDinanathSulakhe\n\t\t\n\t\t\n\t\t\tLukaszLacinski\n\t\t\n\t\t\n\t\t\tBoLiu\n\t\t\n\t\t\n\t\t\tAlexRodriguez\n\t\t\n\t\t\n\t\t\tKyleChard\n\t\t\n\t\t\n\t\t\tUtpalJDave\n\t\t\n\t\t\n\t\t\tIanTFoster\n\t\t\n\t\t10.1002/cpe.3274\n\t\t25342933\n\t\tPMC4203657\n\t\tark:/67375/WNG-S1KZ6ZWD-X\n\t\tCFE33714E8E0F5B2D92B7617CBDD5C03DC682CD2\n\t\t\n\t\n\t\n\t\tConcurrency and Computation: Practice and Experience\n\t\tConcurrency Computat.: Pract. Exper.\n\t\t1532-0626\n\t\t\n\t\t\t26\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2cd4f7723bebd8665271f"},"refKey":27},
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{"_key":"60c2cd4f7723bebd86652722","_id":"references/60c2cd4f7723bebd86652722","_rev":"_cfFl-ke---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with BWA-MEM\n\t\t\n\t\t\tHLi\n\t\t\n\t\tarXiv:13033997\n\t\t\n\t\t\t\n\t\t\n\t\n\tq-bioGN\n\n","document":{"$oid":"60c2cd4f7723bebd8665271f"},"refKey":23},
{"_key":"60c2cd4f7723bebd86652723","_id":"references/60c2cd4f7723bebd86652723","_rev":"_cfFl-kq---","tei":"\n\t\n\t\tDifferential expression analysis of multifactor RNA-Seq experiments with respect to biological variation\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cd4f7723bebd8665271f"},"refKey":25},
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{"_key":"60c2cd587723bebd86652730","_id":"references/60c2cd587723bebd86652730","_rev":"_cfFl-lC---","tei":"\n\t\n\t\tHybrid MPI/OpenMP Implementation of the ORAC Molecular Dynamics Program for Generalized Ensemble and Fast Switching Alchemical Simulations\n\t\t\n\t\t\tPieroProcacci\n\t\t\n\t\t10.1021/acs.jcim.6b00151\n\t\t27231982\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t56\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2cd587723bebd8665272f"},"refKey":57},
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{"_key":"60c2cd987723bebd86652759","_id":"references/60c2cd987723bebd86652759","_rev":"_cfFl-l2---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cd987723bebd86652756"},"refKey":45},
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{"_key":"60c2cda27723bebd86652767","_id":"references/60c2cda27723bebd86652767","_rev":"_cfFl-mO---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cda27723bebd86652765"},"refKey":28},
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{"_key":"60c2ce147723bebd866527c3","_id":"references/60c2ce147723bebd866527c3","_rev":"_cfFl-oi---","tei":"\n\t\n\t\tWHAT IF: A molecular modeling and drug design program\n\t\t\n\t\t\tGVriend\n\t\t\n\t\t10.1016/0263-7855(90)80070-v\n\t\t2268628\n\t\t0263-7855(90)80070-V\n\t\tark:/67375/6H6-78LRC9K5-Q\n\t\t934DD81E8AB4D1C199D0DC9CD8C9F13E0B3FEC30\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2ce147723bebd866527be"},"refKey":19},
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{"_key":"60c2ce9e7723bebd86652817","_id":"references/60c2ce9e7723bebd86652817","_rev":"_cfFl-qK---","tei":"\n\t\n\t\tLong-term tracking of budding yeast cells in brightfield microscopy: CellStar and the Evaluation Platform\n\t\t\n\t\t\tCristianVersari\n\t\t\n\t\t\n\t\t\tSzymonStoma\n\t\t\n\t\t\n\t\t\tKirillBatmanov\n\t\t\n\t\t\n\t\t\tArtémisLlamosi\n\t\t\n\t\t\n\t\t\tFilipMroz\n\t\t\n\t\t\n\t\t\tAdamKaczmarek\n\t\t\n\t\t\n\t\t\tMattDeyell\n\t\t\n\t\t\n\t\t\tCédricLhoussaine\n\t\t\t0000-0002-3970-3761\n\t\t\n\t\t\n\t\t\tPascalHersen\n\t\t\t0000-0003-2379-4280\n\t\t\n\t\t\n\t\t\tGregoryBatt\n\t\t\t0000-0003-1697-139X\n\t\t\n\t\t10.1098/rsif.2016.0705\n\t\t28179544\n\t\tPMC5332563\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of The Royal Society Interface\n\t\tJ. R. Soc. Interface\n\t\t1742-5689\n\t\t1742-5662\n\t\t\n\t\t\t14\n\t\t\t127\n\t\t\t20160705\n\t\t\t\n\t\t\tThe Royal Society\n\t\t\n\t\n\n","document":{"$oid":"60c2ce9e7723bebd86652816"},"refKey":33},
{"_key":"60c2ce9e7723bebd86652818","_id":"references/60c2ce9e7723bebd86652818","_rev":"_cfFl-qW---","tei":"\n\t\n\t\tThe NumPy Array: a structure for efficient numerical computation\n\t\t\n\t\t\tSVan Der Walt\n\t\t\n\t\t\n\t\t\tSCColbert\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\n\t\n\t\tComput. Sci. Eng\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ce9e7723bebd86652816"},"refKey":60},
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{"_key":"60c2ceed7723bebd86652858","_id":"references/60c2ceed7723bebd86652858","_rev":"_cfFl-se---","tei":"\n\t\n\t\tUsing Cell-ID 1.4 with R for Microscope-Based Cytometry\n\t\t\n\t\t\tArielChernomoretz\n\t\t\n\t\t\n\t\t\tAlanBush\n\t\t\n\t\t\n\t\t\tRichardYu\n\t\t\n\t\t\n\t\t\tAndrewGordon\n\t\t\n\t\t\n\t\t\tAlejandroColman-Lerner\n\t\t\n\t\t10.1002/0471142727.mb1418s84\n\t\t18972382\n\t\tPMC2784696\n\t\t\n\t\n\t\n\t\tCurr Protoc Mol Biol Chapter\n\t\t\n\t\t\t14\n\t\t\t18\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c2ceed7723bebd86652856"},"refKey":21},
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{"_key":"60c2cf5b7723bebd866528aa","_id":"references/60c2cf5b7723bebd866528aa","_rev":"_cfFl-ta---","tei":"\n\t\n\t\tA pan-cancer analysis of synonymous mutations\n\t\t\n\t\t\tYogitaSharma\n\t\t\n\t\t\n\t\t\tMiladMiladi\n\t\t\t0000-0002-0173-3009\n\t\t\n\t\t\n\t\t\tSandeepDukare\n\t\t\n\t\t\n\t\t\tKarineBoulay\n\t\t\n\t\t\n\t\t\tMaiwenCaudron-Herger\n\t\t\n\t\t\n\t\t\tMatthiasGroß\n\t\t\n\t\t\n\t\t\tRolfBackofen\n\t\t\t0000-0001-8231-3323\n\t\t\n\t\t\n\t\t\tSvenDiederichs\n\t\t\t0000-0001-7901-4752\n\t\t\n\t\t10.1038/s41467-019-10489-2\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c2cf5b7723bebd866528a7"},"refKey":96},
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{"_key":"60c2cf987723bebd8665291a","_id":"references/60c2cf987723bebd8665291a","_rev":"_cfFl-we---","tei":"\n\t\n\t\tHTSeq--a Python framework to work with high-throughput sequencing data\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t\n\t\t\tPTPyl\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t10.1093/bioinformatics/btu638\n\t\t25260700\n\t\tPMC4287950\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2cf987723bebd86652918"},"refKey":55},
{"_key":"60c2cf987723bebd8665291b","_id":"references/60c2cf987723bebd8665291b","_rev":"_cfFl-wu---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nmeth.3317\n\t\t25751142\n\t\tPMC4655817\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2cf987723bebd86652918"},"refKey":54},
{"_key":"60c2cf987723bebd8665291c","_id":"references/60c2cf987723bebd8665291c","_rev":"_cfFl-x----","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2cf987723bebd86652918"},"refKey":53},
{"_key":"60c2cf987723bebd8665291d","_id":"references/60c2cf987723bebd8665291d","_rev":"_cfFl-xO---","tei":"\n\t\n\t\tEnrichedHeatmap: an R/Bioconductor package for comprehensive visualization of genomic signal associations\n\t\t\n\t\t\tZuguangGu\n\t\t\n\t\t\n\t\t\tRolandEils\n\t\t\n\t\t\n\t\t\tMatthiasSchlesner\n\t\t\n\t\t\n\t\t\tNaveedIshaque\n\t\t\n\t\t10.1186/s12864-018-4625-x\n\t\t29618320\n\t\tPMC5885322\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t234\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2cf987723bebd86652918"},"refKey":58},
{"_key":"60c2cfb27723bebd86652953","_id":"references/60c2cfb27723bebd86652953","_rev":"_cfFl-xe---","tei":"\n\t\n\t\tPsychometric Developments Related to Tests and Selection\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t10.21236/ada280416\n\t\t\n\t\n\t\n\t\tMplus statistical software. Muthén & Muthén: Los\n\t\t\t\tAngeles, CA\n\t\t\n\t\t\tDefense Technical Information Center\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cfb27723bebd86652952"},"refKey":28},
{"_key":"60c2cfba7723bebd8665295b","_id":"references/60c2cfba7723bebd8665295b","_rev":"_cfFl-xq---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2cfba7723bebd8665295a"},"refKey":26},
{"_key":"60c2d01f7723bebd8665299a","_id":"references/60c2d01f7723bebd8665299a","_rev":"_cfFl-x6---","tei":"\n\t\n\t\tApple and Google are building a coronavirus tracking system into iOS and Android. The Verge\n\t\t\n\t\t\tRBrandom\n\t\t\n\t\t\n\t\t\tARobertson\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d01f7723bebd86652999"},"refKey":22},
{"_key":"60c2d0337723bebd866529ab","_id":"references/60c2d0337723bebd866529ab","_rev":"_cfFl-ya---","tei":"\n\t\n\t\t0: predicting stability changes upon mutation from the protein sequence or structure\n\t\t\n\t\t\tECapriotti\n\t\t\n\t\t\n\t\t\tPFariselli\n\t\t\n\t\t\n\t\t\tRCasadio\n\t\t\n\t\t\n\t\t\tI-Mutant2\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0337723bebd866529aa"},"refKey":12},
{"_key":"60c2d0337723bebd866529ac","_id":"references/60c2d0337723bebd866529ac","_rev":"_cfFl-yu---","tei":"\n\t\n\t\tA simple method for displaying the hydropathic character of a protein\n\t\t\n\t\t\tJKyte\n\t\t\n\t\t\n\t\t\tRFDoolittle\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t157\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0337723bebd866529aa"},"refKey":11},
{"_key":"60c2d0337723bebd866529ad","_id":"references/60c2d0337723bebd866529ad","_rev":"_cfFl-z----","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t772\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0337723bebd866529aa"},"refKey":14},
{"_key":"60c2d0337723bebd866529ae","_id":"references/60c2d0337723bebd866529ae","_rev":"_cfFl-zO---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0337723bebd866529aa"},"refKey":15},
{"_key":"60c2d0337723bebd866529af","_id":"references/60c2d0337723bebd866529af","_rev":"_cfFl-za---","tei":"\n\t\n\t\tProtein–protein binding affinity prediction from amino acid sequence\n\t\t\n\t\t\tKYugandhar\n\t\t\n\t\t\n\t\t\tMichaelMichaelGromiha\n\t\t\n\t\t10.1093/bioinformatics/btu580\n\t\t25172924\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2d0337723bebd866529aa"},"refKey":13},
{"_key":"60c2d04b7723bebd866529c4","_id":"references/60c2d04b7723bebd866529c4","_rev":"_cfFl-zq---","tei":"\n\t\n\t\tThe gleamviz computational tool, a publicly available software to explore realistic epidemic spreading scenarios at the global scale\n\t\t\n\t\t\tCGioannini\n\t\t\n\t\t\n\t\t\tBGonçalves\n\t\t\n\t\t\n\t\t\tMQuaggiotto\n\t\t\n\t\t\n\t\t\tVColizza\n\t\t\n\t\t\n\t\t\tAVespignani\n\t\t\n\t\t10.1186/1471-2334-11-37\n\t\tICT (CORDIS) EPIWORK. 2009\n\t\t\n\t\n\t\n\t\tEuropean Commission. Framework Programme\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\tPubMed BMC Infect Dis\n\n","document":{"$oid":"60c2d04b7723bebd866529c3"},"refKey":23},
{"_key":"60c2d0627723bebd866529e0","_id":"references/60c2d0627723bebd866529e0","_rev":"_cfFl-z2---","tei":"\n\t\n\t\tRDP: detection of recombination amongst aligned sequences\n\t\t\n\t\t\tDMartin\n\t\t\n\t\t\n\t\t\tERybicki\n\t\t\n\t\t10.1093/bioinformatics/16.6.562\n\t\t10980155\n\t\t1460-2059\n\t\tark:/67375/HXZ-HFGKCW1P-T\n\t\t23BD6F406EB9238187A4D94959477721DBE8EFE2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2d0627723bebd866529df"},"refKey":6},
{"_key":"60c2d0627723bebd866529e1","_id":"references/60c2d0627723bebd866529e1","_rev":"_cfFl-0G---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0627723bebd866529df"},"refKey":14},
{"_key":"60c2d0a27723bebd866529f5","_id":"references/60c2d0a27723bebd866529f5","_rev":"_cfFl-0S---","tei":"\n\t\n\t\tPosterior summarization in Bayesian phylogenetics using Tracer 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0a27723bebd866529f4"},"refKey":27},
{"_key":"60c2d0a27723bebd866529f6","_id":"references/60c2d0a27723bebd866529f6","_rev":"_cfFl-0i---","tei":"\n\t\n\t\tAliview: a fast and lightweight alignment viewer and editor for large data sets\n\t\t\n\t\t\tALaarson\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0a27723bebd866529f4"},"refKey":21},
{"_key":"60c2d0a27723bebd866529f7","_id":"references/60c2d0a27723bebd866529f7","_rev":"_cfFl-0u---","tei":"\n\t\n\t\tIQ-TREE: A fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tVonHaeseler\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0a27723bebd866529f4"},"refKey":22},
{"_key":"60c2d0bd7723bebd86652a03","_id":"references/60c2d0bd7723bebd86652a03","_rev":"_cfFl-06---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2d0bd7723bebd86652a02"},"refKey":8},
{"_key":"60c2d0bf7723bebd86652a06","_id":"references/60c2d0bf7723bebd86652a06","_rev":"_cfFl-1K---","tei":"\n\t\n\t\tWINPEPI updated: computer programs for epidemiologists, and their teaching potential\n\t\t\n\t\t\tJHAbramson\n\t\t\n\t\n\t\n\t\tEpidemiol Perspect Innov\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0bf7723bebd86652a05"},"refKey":25},
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{"_key":"60c2d0cb7723bebd86652a12","_id":"references/60c2d0cb7723bebd86652a12","_rev":"_cfFl-1i---","tei":"\n\t\n\t\tNew bootstrap inference for spurious regression problems\n\t\t\n\t\t\tHDVinod\n\t\t\n\t\t10.1080/02664763.2015.1049939\n\t\n\t\n\t\tJournal of Applied Statistics\n\t\tJournal of Applied Statistics\n\t\t0266-4763\n\t\t1360-0532\n\t\t\n\t\t\t43\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c2d0cb7723bebd86652a10"},"refKey":5},
{"_key":"60c2d0d07723bebd86652a1b","_id":"references/60c2d0d07723bebd86652a1b","_rev":"_cfFl-1y---","tei":"\n\t\n\t\tThe R project for statistical computing\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0d07723bebd86652a1a"},"refKey":21},
{"_key":"60c2d0e37723bebd86652a25","_id":"references/60c2d0e37723bebd86652a25","_rev":"_cfFl-2----","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0e37723bebd86652a24"},"refKey":55},
{"_key":"60c2d0f07723bebd86652a37","_id":"references/60c2d0f07723bebd86652a37","_rev":"_cfFl-2K---","tei":"\n\t\n\t\tThe tweepy api\n\t\t\n\t\t\tTweepy\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d0f07723bebd86652a36"},"refKey":30},
{"_key":"60c2d10a7723bebd86652a4d","_id":"references/60c2d10a7723bebd86652a4d","_rev":"_cfFl-2W---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinforma. Oxf. Engl\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d10a7723bebd86652a4c"},"refKey":22},
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{"_key":"60c2d2db7723bebd86652c1e","_id":"references/60c2d2db7723bebd86652c1e","_rev":"_cfFl-8e---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tCochrane Community. About Covidence\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d2db7723bebd86652c1d"},"refKey":30},
{"_key":"60c2d3617723bebd86652c29","_id":"references/60c2d3617723bebd86652c29","_rev":"_cfFl-8q---","tei":"\n\t\n\t\tmzML—a Community Standard for Mass Spectrometry Data\n\t\t\n\t\t\tLennartMartens\n\t\t\n\t\t\n\t\t\tMatthewChambers\n\t\t\n\t\t\n\t\t\tMarcSturm\n\t\t\n\t\t\n\t\t\tDarrenKessner\n\t\t\n\t\t\n\t\t\tFredrikLevander\n\t\t\n\t\t\n\t\t\tJimShofstahl\n\t\t\n\t\t\n\t\t\tWilfredHTang\n\t\t\n\t\t\n\t\t\tAndreasRömpp\n\t\t\n\t\t\n\t\t\tSteffenNeumann\n\t\t\n\t\t\n\t\t\tAngelDPizarro\n\t\t\n\t\t\n\t\t\tLuisaMontecchi-Palazzi\n\t\t\n\t\t\n\t\t\tNatalieTasman\n\t\t\n\t\t\n\t\t\tMikeColeman\n\t\t\n\t\t\n\t\t\tFlorianReisinger\n\t\t\n\t\t\n\t\t\tPuneetSouda\n\t\t\n\t\t\n\t\t\tHenningHermjakob\n\t\t\n\t\t\n\t\t\tPierre-AlainBinz\n\t\t\n\t\t\n\t\t\tEricWDeutsch\n\t\t\n\t\t10.1074/mcp.r110.000133\n\t\t20716697\n\t\tPMC3013463\n\t\tR110.000133\n\t\t\n\t\n\t\n\t\tMolecular & Cellular Proteomics\n\t\tMol Cell Proteomics\n\t\t1535-9476\n\t\t1535-9484\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\tR110.000133\n\t\t\t\n\t\t\tAmerican Society for Biochemistry & Molecular Biology (ASBMB)\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":248},
{"_key":"60c2d3617723bebd86652c2a","_id":"references/60c2d3617723bebd86652c2a","_rev":"_cfFl-82---","tei":"\n\t\n\t\tMass Spectrometer Output File Format mzML\n\t\t\n\t\t\tEricWDeutsch\n\t\t\n\t\t10.1007/978-1-60761-444-9_22\n\t\t20013381\n\t\tPMC3073315\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t604\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":249},
{"_key":"60c2d3617723bebd86652c2b","_id":"references/60c2d3617723bebd86652c2b","_rev":"_cfFl-9C---","tei":"\n\t\n\t\tmzML: A single, unifying data format for mass spectrometer output\n\t\t\n\t\t\tEricDeutsch\n\t\t\n\t\t10.1002/pmic.200890049\n\t\t18655045\n\t\tark:/67375/WNG-83QRDFXL-2\n\t\t29D53BCFBF879C297046D08C1DEDFBAEA7C77D35\n\t\n\t\n\t\tPROTEOMICS\n\t\tProteomics\n\t\t1615-9853\n\t\t1615-9861\n\t\t\n\t\t\t8\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":250},
{"_key":"60c2d3617723bebd86652c2c","_id":"references/60c2d3617723bebd86652c2c","_rev":"_cfFl-9O---","tei":"\n\t\n\t\tGenePattern 2.0\n\t\t\n\t\t\tMReich\n\t\t\n\t\t\n\t\t\tTLiefeld\n\t\t\n\t\t\n\t\t\tJGould\n\t\t\n\t\t\n\t\t\tJLerner\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tNat. Genet\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":243},
{"_key":"60c2d3617723bebd86652c2d","_id":"references/60c2d3617723bebd86652c2d","_rev":"_cfFl-9a---","tei":"\n\t\n\t\tUsing GenePattern for Gene Expression Analysis\n\t\t\n\t\t\tHeidiKuehn\n\t\t\n\t\t\n\t\t\tArthurLiberzon\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t10.1002/0471250953.bi0712s22\n\t\t18551415\n\t\tPMC3893799\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t\n\t\t\t22\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tUnit 7.12\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":244},
{"_key":"60c2d3617723bebd86652c2e","_id":"references/60c2d3617723bebd86652c2e","_rev":"_cfFl-9m---","tei":"\n\t\n\t\tmetaXCMS: second-order analysis of untargeted metabolomics data\n\t\t\n\t\t\tRTautenhahn\n\t\t\n\t\t\n\t\t\tGJPatti\n\t\t\n\t\t\n\t\t\tEKalisiak\n\t\t\n\t\t\n\t\t\tTMiyamoto\n\t\t\n\t\t\n\t\t\tMSchmidt\n\t\t\n\t\t\n\t\t\tFYLo\n\t\t\n\t\t\n\t\t\tJMcbee\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tGSiuzdak\n\t\t\n\t\n\t\n\t\tAnal. Chem\n\t\t\n\t\t\t83\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":266},
{"_key":"60c2d3617723bebd86652c2f","_id":"references/60c2d3617723bebd86652c2f","_rev":"_cfFl-9y---","tei":"\n\t\n\t\tOnline: a web-based platform to process untargeted metabolomic data\n\t\t\n\t\t\tRTautenhahn\n\t\t\n\t\t\n\t\t\tGJPatti\n\t\t\n\t\t\n\t\t\tDRinehart\n\t\t\n\t\t\n\t\t\tGSiuzdak\n\t\t\n\t\n\t\n\t\tAnal. Chem\n\t\t\n\t\t\t84\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":267},
{"_key":"60c2d3617723bebd86652c30","_id":"references/60c2d3617723bebd86652c30","_rev":"_cfFl_-----","tei":"\n\t\n\t\tXCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification\n\t\t\n\t\t\tCASmith\n\t\t\n\t\t\n\t\t\tEJWant\n\t\t\n\t\t\n\t\t\tGO'maille\n\t\t\n\t\t\n\t\t\tRAbagyan\n\t\t\n\t\t\n\t\t\tGSiuzdak\n\t\t\n\t\n\t\n\t\tAnal. Chem\n\t\t\n\t\t\t78\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":268},
{"_key":"60c2d3617723bebd86652c31","_id":"references/60c2d3617723bebd86652c31","_rev":"_cfFl_-K---","tei":"\n\t\n\t\tSOAP: short oligonucleotide alignment program\n\t\t\n\t\t\tRLi\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tKKristiansen\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":221},
{"_key":"60c2d3617723bebd86652c32","_id":"references/60c2d3617723bebd86652c32","_rev":"_cfFl_-W---","tei":"\n\t\n\t\tPEAKS DB: de novo sequencing assisted database search for sensitive and accurate peptide identification\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tLXin\n\t\t\n\t\t\n\t\t\tBShan\n\t\t\n\t\t\n\t\t\tWChen\n\t\t\n\t\t\n\t\t\tMXie\n\t\t\n\t\t\n\t\t\tDYuen\n\t\t\n\t\t\n\t\t\tWZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tGALajoie\n\t\t\n\t\t\n\t\t\tBMa\n\t\t\n\t\tM111.010587\n\t\n\t\n\t\tMol. Cell. Proteomics\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":258},
{"_key":"60c2d3617723bebd86652c33","_id":"references/60c2d3617723bebd86652c33","_rev":"_cfFl_-i---","tei":"\n\t\n\t\tDAVID: Database for Annotation, Visualization, and Integrated Discovery\n\t\t\n\t\t\tGDennis\n\t\t\n\t\t\n\t\t\tJr\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tDAHosack\n\t\t\n\t\t\n\t\t\tJYang\n\t\t\n\t\t\n\t\t\tWGao\n\t\t\n\t\t\n\t\t\tHCLane\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t4\n\t\t\tP3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":206},
{"_key":"60c2d3617723bebd86652c34","_id":"references/60c2d3617723bebd86652c34","_rev":"_cfFl_-u---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":273},
{"_key":"60c2d3617723bebd86652c35","_id":"references/60c2d3617723bebd86652c35","_rev":"_cfFl_-6---","tei":"\n\t\n\t\tKEGG: Kyoto encyclopedia of genes and genomes\n\t\t\n\t\t\tMKanehisa\n\t\t\n\t\t\n\t\t\tSGoto\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3617723bebd86652c28"},"refKey":151},
{"_key":"60c2d3987723bebd86652c92","_id":"references/60c2d3987723bebd86652c92","_rev":"_cfFl__G---","tei":"\n\t\n\t\tVisualizing density maps with UCSF Chimera\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2006.06.010\n\t\t16963278\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2d3987723bebd86652c91"},"refKey":64},
{"_key":"60c2d3987723bebd86652c93","_id":"references/60c2d3987723bebd86652c93","_rev":"_cfFl__S---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3987723bebd86652c91"},"refKey":73},
{"_key":"60c2d3987723bebd86652c94","_id":"references/60c2d3987723bebd86652c94","_rev":"_cfFl__e---","tei":"\n\t\n\t\tAutomated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\t0000-0001-5025-9596\n\t\t\n\t\t\n\t\t\tYifanSong\n\t\t\n\t\t\n\t\t\tBenjaminABarad\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t10.1101/050286\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t5\n\t\t\te17219\n\t\t\n\t\n\n","document":{"$oid":"60c2d3987723bebd86652c91"},"refKey":67},
{"_key":"60c2d3987723bebd86652c95","_id":"references/60c2d3987723bebd86652c95","_rev":"_cfFl__q---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3987723bebd86652c91"},"refKey":71},
{"_key":"60c2d3987723bebd86652c96","_id":"references/60c2d3987723bebd86652c96","_rev":"_cfFl__2---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d3987723bebd86652c91"},"refKey":77},
{"_key":"60c2d3ab7723bebd86652cb2","_id":"references/60c2d3ab7723bebd86652cb2","_rev":"_cfFl_AC---","tei":"\n\t\n\t\tUsing R for Statistics\n\t\t\n\t\t\tSarahStowell\n\t\t\n\t\t10.1007/978-1-4842-0139-8\n\t\t\n\t\t\t\n\t\t\tApress\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c2d3ab7723bebd86652cb1"},"refKey":68},
{"_key":"60c2d3b47723bebd86652cd0","_id":"references/60c2d3b47723bebd86652cd0","_rev":"_cfFl_AO---","tei":"\n\t\n\t\tRepeated Measures Correlation\n\t\t\n\t\t\tJonathanZBakdash\n\t\t\n\t\t\n\t\t\tLauraRMarusich\n\t\t\n\t\t10.3389/fpsyg.2017.00456\n\t\t28439244\n\t\tPMC5383908\n\t\tdoi:10.3389/ fpsyg.2017.00456\n\t\t\n\t\n\t\n\t\tFrontiers in Psychology\n\t\tFront. Psychol.\n\t\t1664-1078\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c2d3b47723bebd86652ccf"},"refKey":51},
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{"_key":"60c2d45a7723bebd86652d41","_id":"references/60c2d45a7723bebd86652d41","_rev":"_cfFl_BK---","tei":"\n\t\n\t\tBuilding Bivariate Tables: ThecompareGroupsPackage forR\n\t\t\n\t\t\tIsaacSubirana\n\t\t\n\t\t\n\t\t\tHéctorSanz\n\t\t\n\t\t\n\t\t\tJoanVila\n\t\t\n\t\t10.18637/jss.v057.i12\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t57\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c2d45a7723bebd86652d40"},"refKey":17},
{"_key":"60c2d45b7723bebd86652d45","_id":"references/60c2d45b7723bebd86652d45","_rev":"_cfFl_BW---","tei":"\n\t\n\t\tUltrafast and memoryefficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t10\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d45b7723bebd86652d44"},"refKey":9},
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{"_key":"60c2d45b7723bebd86652d47","_id":"references/60c2d45b7723bebd86652d47","_rev":"_cfFl_Bu---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d45b7723bebd86652d44"},"refKey":11},
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{"_key":"60c2d4a87723bebd86652d59","_id":"references/60c2d4a87723bebd86652d59","_rev":"_cfFl_CG---","tei":"\n\t\n\t\tModeling survival data: extending the cox model\n\t\t\n\t\t\tTMTherneau\n\t\t\n\t\t\n\t\t\tPMGrambsch\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c2d4a87723bebd86652d57"},"refKey":19},
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{"_key":"60c2d5577723bebd86652dc7","_id":"references/60c2d5577723bebd86652dc7","_rev":"_cfFl_Dm---","tei":"\n\t\n\t\tStarExec: A Cross-Community Infrastructure for Logic Solving\n\t\t\n\t\t\tAaronStump\n\t\t\n\t\t\n\t\t\tGeoffSutcliffe\n\t\t\n\t\t\n\t\t\tCesareTinelli\n\t\t\n\t\t10.1007/978-3-319-08587-6_28\n\t\t\n\t\t\n\t\n\t\n\t\tAutomated Reasoning\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t8562\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d5577723bebd86652dc5"},"refKey":42},
{"_key":"60c2d5577723bebd86652dc8","_id":"references/60c2d5577723bebd86652dc8","_rev":"_cfFl_Dy---","tei":"\n\t\n\t\tA Verification Toolkit for Numerical Transition Systems\n\t\t\n\t\t\tHosseinHojjat\n\t\t\n\t\t\n\t\t\tFilipKonečný\n\t\t\n\t\t\n\t\t\tFlorentGarnier\n\t\t\n\t\t\n\t\t\tRaduIosif\n\t\t\n\t\t\n\t\t\tViktorKuncak\n\t\t\n\t\t\n\t\t\tPhilippRümmer\n\t\t\n\t\t10.1007/978-3-642-32759-9_21\n\t\t\n\t\t\n\t\n\t\n\t\tFM 2012: Formal Methods\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t7436\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d5577723bebd86652dc5"},"refKey":28},
{"_key":"60c2d5577723bebd86652dc9","_id":"references/60c2d5577723bebd86652dc9","_rev":"_cfFl_E----","tei":"\n\t\n\t\tProving non-termination via loop acceleration\n\t\t\n\t\t\tFFrohn\n\t\t\n\t\t\n\t\t\tJGiesl\n\t\t\n\t\t10.23919/FMCAD.2019.8894271\n\t\t\n\t\n\t\n\t\tFMCAD '19\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d5577723bebd86652dc5"},"refKey":12},
{"_key":"60c2d5577723bebd86652dca","_id":"references/60c2d5577723bebd86652dca","_rev":"_cfFl_EK---","tei":"\n\t\n\t\tLower Runtime Bounds for Integer Programs\n\t\t\n\t\t\tFFrohn\n\t\t\n\t\t\n\t\t\tMNaaf\n\t\t\n\t\t\n\t\t\tJHensel\n\t\t\n\t\t\n\t\t\tMBrockschmidt\n\t\t\n\t\t\n\t\t\tJGiesl\n\t\t\n\t\t10.1007/978-3-319-40229-1_37\n\t\tarXiv:1911.01077\n\t\n\t\n\t\tAutomated Reasoning\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tcs.LO\n\n","document":{"$oid":"60c2d5577723bebd86652dc5"},"refKey":17},
{"_key":"60c2d5577723bebd86652dcb","_id":"references/60c2d5577723bebd86652dcb","_rev":"_cfFl_EW---","tei":"\n\t\n\t\tLower Runtime Bounds for Integer Programs\n\t\t\n\t\t\tFFrohn\n\t\t\n\t\t\n\t\t\tMNaaf\n\t\t\n\t\t\n\t\t\tJHensel\n\t\t\n\t\t\n\t\t\tMBrockschmidt\n\t\t\n\t\t\n\t\t\tJGiesl\n\t\t\n\t\t10.1007/978-3-319-40229-1_37\n\t\t\n\t\n\t\n\t\tAutomated Reasoning\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t9706\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d5577723bebd86652dc5"},"refKey":18},
{"_key":"60c2d5847723bebd86652dfc","_id":"references/60c2d5847723bebd86652dfc","_rev":"_cfFl_Ei---","tei":"\n\t\n\t\tCovid symptom survey\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tDelphi Group\n\t\t\n\t\n\n","document":{"$oid":"60c2d5847723bebd86652dfb"},"refKey":6},
{"_key":"60c2d5847723bebd86652dfd","_id":"references/60c2d5847723bebd86652dfd","_rev":"_cfFl_Ey---","tei":"\n\t\n\t\tDelphi epidata api\n\t\t\n\t\t\tDCFarrow\n\t\t\n\t\t\n\t\t\tLCBrooks\n\t\t\n\t\t\n\t\t\tARumack\n\t\t\n\t\t\n\t\t\tRJTibshirani\n\t\t\n\t\t\n\t\t\tRRosenfeld\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d5847723bebd86652dfb"},"refKey":9},
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{"_key":"60c2d58c7723bebd86652e08","_id":"references/60c2d58c7723bebd86652e08","_rev":"_cfFl_FK---","tei":"\n\t\n\t\tModeling RNA secondary structure folding ensembles using SHAPE mapping data\n\t\t\n\t\t\tAleksandarSpasic\n\t\t\n\t\t\n\t\t\tSarahMAssmann\n\t\t\t0000-0003-4541-1594\n\t\t\n\t\t\n\t\t\tPhilipCBevilacqua\n\t\t\t0000-0001-8074-3434\n\t\t\n\t\t\n\t\t\tDavidHMathews\n\t\t\t0000-0002-2907-6557\n\t\t\n\t\t10.1093/nar/gkx1057\n\t\t29177466\n\t\tPMC5758915\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2d58c7723bebd86652e07"},"refKey":61},
{"_key":"60c2d58c7723bebd86652e09","_id":"references/60c2d58c7723bebd86652e09","_rev":"_cfFl_FW---","tei":"\n\t\n\t\tSwellix: a computational tool to explore RNA conformational space\n\t\t\n\t\t\tNathanSloat\n\t\t\n\t\t\n\t\t\tJui-WenLiu\n\t\t\n\t\t\n\t\t\tSusanJSchroeder\n\t\t\n\t\t10.1186/s12859-017-1910-7\n\t\t29157200\n\t\tPMC5697422\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t18\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2d58c7723bebd86652e07"},"refKey":62},
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{"_key":"60c2d5be7723bebd86652e22","_id":"references/60c2d5be7723bebd86652e22","_rev":"_cfFl_F6---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d5be7723bebd86652e20"},"refKey":0},
{"_key":"60c2d5be7723bebd86652e23","_id":"references/60c2d5be7723bebd86652e23","_rev":"_cfFl_GG---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJ-FDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d5be7723bebd86652e20"},"refKey":7},
{"_key":"60c2d5be7723bebd86652e24","_id":"references/60c2d5be7723bebd86652e24","_rev":"_cfFl_GS---","tei":"\n\t\n\t\tProtTest 3: fast selection of best-fit models of protein evolution\n\t\t\n\t\t\tDiegoDarriba\n\t\t\n\t\t\n\t\t\tGuillermoLTaboada\n\t\t\n\t\t\n\t\t\tRamónDoallo\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t10.1093/bioinformatics/btr088\n\t\t21335321\n\t\tPMC5215816\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2d5be7723bebd86652e20"},"refKey":5},
{"_key":"60c2d5bf7723bebd86652e2b","_id":"references/60c2d5bf7723bebd86652e2b","_rev":"_cfFl_Ge---","tei":"\n\t\n\t\tLifting and Transfer: A Modular Design for Quotients in Isabelle/HOL\n\t\t\n\t\t\tBrianHuffman\n\t\t\n\t\t\n\t\t\tOndřejKunčar\n\t\t\n\t\t10.1007/978-3-319-03545-1_9\n\t\tark:/67375/HCB-VSR8Q5GL-V\n\t\t44CAAC945DE24A4F6401D7D0DD9FB4BE861C5CBC\n\t\t\n\t\n\t\n\t\tCertified Programs and Proofs\n\t\t\t\t\n\t\t\tGGonthier\n\t\t\tMNorrish\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t8307\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d5bf7723bebd86652e2a"},"refKey":18},
{"_key":"60c2d5bf7723bebd86652e2c","_id":"references/60c2d5bf7723bebd86652e2c","_rev":"_cfFl_Gq---","tei":"\n\t\n\t\tQuotients revisited for Isabelle/HOL\n\t\t\n\t\t\tCezaryKaliszyk\n\t\t\n\t\t\n\t\t\tChristianUrban\n\t\t\n\t\t10.1145/1982185.1982529\n\t\n\t\n\t\tProceedings of the 2011 ACM Symposium on Applied Computing - SAC '11\n\t\t\t\t\n\t\t\tWCChu\n\t\t\tWEWong\n\t\t\tMJPalakal\n\t\t\tCHung\n\t\t\n\t\tthe 2011 ACM Symposium on Applied Computing - SAC '11\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d5bf7723bebd86652e2a"},"refKey":20},
{"_key":"60c2d5bf7723bebd86652e2d","_id":"references/60c2d5bf7723bebd86652e2d","_rev":"_cfFl_G2---","tei":"\n\t\n\t\tDefining functions on equivalence classes\n\t\t\n\t\t\tLawrenceCPaulson\n\t\t\n\t\t10.1145/1183278.1183280\n\t\t\n\t\n\t\n\t\tACM Transactions on Computational Logic\n\t\tTOCL\n\t\t1529-3785\n\t\t\n\t\t\t7\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c2d5bf7723bebd86652e2a"},"refKey":34},
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{"_key":"60c2d5e17723bebd86652e4c","_id":"references/60c2d5e17723bebd86652e4c","_rev":"_cfFl_HO---","tei":"\n\t\n\t\tMultiple sequence alignment with the CLUSTAL series of programs\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tHSugawara\n\t\t\n\t\t\n\t\t\tTKoike\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d5e17723bebd86652e4b"},"refKey":14},
{"_key":"60c2d5e17723bebd86652e4d","_id":"references/60c2d5e17723bebd86652e4d","_rev":"_cfFl_Ha---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2d5e17723bebd86652e4b"},"refKey":28},
{"_key":"60c2d6177723bebd86652e74","_id":"references/60c2d6177723bebd86652e74","_rev":"_cfFl_Hm---","tei":"\n\t\n\t\tApplication of phylogenetic networks in evolutionary studies\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tDBryant\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t23\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d6177723bebd86652e73"},"refKey":16},
{"_key":"60c2d6177723bebd86652e75","_id":"references/60c2d6177723bebd86652e75","_rev":"_cfFl_Hy---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d6177723bebd86652e73"},"refKey":44},
{"_key":"60c2d6177723bebd86652e76","_id":"references/60c2d6177723bebd86652e76","_rev":"_cfFl_I----","tei":"\n\t\n\t\tA Modified Bootscan Algorithm for Automated Identification of Recombinant Sequences and Recombination Breakpoints\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\t\n\t\t\tCWilliamson\n\t\t\n\t\t10.1089/aid.2005.21.98\n\t\t15665649\n\t\t\n\t\n\t\n\t\tAIDS Research and Human Retroviruses\n\t\tAIDS Research and Human Retroviruses\n\t\t0889-2229\n\t\t1931-8405\n\t\t\n\t\t\t21\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c2d6177723bebd86652e73"},"refKey":28},
{"_key":"60c2d6177723bebd86652e77","_id":"references/60c2d6177723bebd86652e77","_rev":"_cfFl_IK---","tei":"\n\t\n\t\tMulan: Multiple-sequence local alignment and visualization for studying function and evolution\n\t\t\n\t\t\tIOvcharenko\n\t\t\n\t\t\n\t\t\tGGLoots\n\t\t\n\t\t\n\t\t\tBMGiardine\n\t\t\n\t\t\n\t\t\tMHou\n\t\t\n\t\t\n\t\t\tJMa\n\t\t\n\t\t\n\t\t\tRCHardison\n\t\t\n\t\t\n\t\t\tLStubbs\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t10.1101/gr.3007205\n\t\t15590941\n\t\tPMC540288\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2d6177723bebd86652e73"},"refKey":32},
{"_key":"60c2d6177723bebd86652e78","_id":"references/60c2d6177723bebd86652e78","_rev":"_cfFl_IW---","tei":"\n\t\n\t\tRDP3: a flexible and fast computer program for analyzing recombination\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tMLott\n\t\t\n\t\t\n\t\t\tVMoulton\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tPLefeuvre\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d6177723bebd86652e73"},"refKey":29},
{"_key":"60c2d6177723bebd86652e79","_id":"references/60c2d6177723bebd86652e79","_rev":"_cfFl_Ii---","tei":"\n\t\n\t\tPossible emergence of new geminiviruses by frequent recombination\n\t\t\n\t\t\tMPadidam\n\t\t\n\t\t\n\t\t\tSSawyer\n\t\t\n\t\t\n\t\t\tCMFauquet\n\t\t\n\t\n\t\n\t\tVirology\n\t\t\n\t\t\t265\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d6177723bebd86652e73"},"refKey":33},
{"_key":"60c2d6177723bebd86652e7a","_id":"references/60c2d6177723bebd86652e7a","_rev":"_cfFl_Iu---","tei":"\n\t\n\t\tSister-Scanning: a Monte Carlo procedure for assessing signals in recombinant sequences\n\t\t\n\t\t\tMJGibbs\n\t\t\n\t\t\n\t\t\tJSArmstrong\n\t\t\n\t\t\n\t\t\tAJGibbs\n\t\t\n\t\t10.1093/bioinformatics/16.7.573\n\t\t11038328\n\t\t1460-2059\n\t\tark:/67375/HXZ-X701PMR7-B\n\t\t5B7C3FBD54922AB388E298F8752F66174629CBB2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2d6177723bebd86652e73"},"refKey":12},
{"_key":"60c2d6177723bebd86652e7b","_id":"references/60c2d6177723bebd86652e7b","_rev":"_cfFl_I6---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSöding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tMol. Syst. Biol\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d6177723bebd86652e73"},"refKey":40},
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{"_key":"60c2d6177723bebd86652e7d","_id":"references/60c2d6177723bebd86652e7d","_rev":"_cfFl_JW---","tei":"\n\t\n\t\tEvaluation of methods for detecting recombination from DNA sequences: Computer simulations\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\t10.1073/pnas.241370698\n\t\t11717435\n\t\tPMC61114\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c2d6177723bebd86652e73"},"refKey":34},
{"_key":"60c2d6177723bebd86652e7e","_id":"references/60c2d6177723bebd86652e7e","_rev":"_cfFl_Ji---","tei":"\n\t\n\t\tAn Exact Nonparametric Method for Inferring Mosaic Structure in Sequence Triplets\n\t\t\n\t\t\tMaciejFBoni\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t\n\t\t\tMarcusWFeldman\n\t\t\n\t\t10.1534/genetics.106.068874\n\t\t17409078\n\t\tPMC1894573\n\t\t\n\t\n\t\n\t\tGenetics\n\t\tGenetics\n\t\t0016-6731\n\t\t1943-2631\n\t\t\n\t\t\t176\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tGenetics Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c2d6177723bebd86652e73"},"refKey":3},
{"_key":"60c2d6207723bebd86652e96","_id":"references/60c2d6207723bebd86652e96","_rev":"_cfFl_Ju---","tei":"\n\t\n\t\tLanguage support for fast and reliable message-based communication in singularity OS\n\t\t\n\t\t\tManuelFähndrich\n\t\t\n\t\t\n\t\t\tMarkAiken\n\t\t\n\t\t\n\t\t\tChrisHawblitzel\n\t\t\n\t\t\n\t\t\tOrionHodson\n\t\t\n\t\t\n\t\t\tGalenHunt\n\t\t\n\t\t\n\t\t\tJamesRLarus\n\t\t\n\t\t\n\t\t\tStevenLevi\n\t\t\n\t\t10.1145/1217935.1217953\n\t\t\n\t\n\t\n\t\tProceedings of the 2006 EuroSys conference on - EuroSys '06\n\t\t\t\tthe 2006 EuroSys conference on - EuroSys '06\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d6207723bebd86652e95"},"refKey":10},
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{"_key":"60c2d6287723bebd86652ea4","_id":"references/60c2d6287723bebd86652ea4","_rev":"_cfFl_KS---","tei":"\n\t\n\t\tA simple framework for contrastive learning of visual representations\n\t\t\n\t\t\tTChen\n\t\t\n\t\t\n\t\t\tSKornblith\n\t\t\n\t\t\n\t\t\tMNorouzi\n\t\t\n\t\t\n\t\t\tGHinton\n\t\t\n\t\n\t\n\t\tArXiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d6287723bebd86652ea3"},"refKey":15},
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{"_key":"60c2d6967723bebd86652eeb","_id":"references/60c2d6967723bebd86652eeb","_rev":"_cfFl_LC---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2d6967723bebd86652eea"},"refKey":68},
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{"_key":"60c2d7877723bebd86652fe5","_id":"references/60c2d7877723bebd86652fe5","_rev":"_cfFl_PC---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\t: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c2d7877723bebd86652fe3"},"refKey":15},
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{"_key":"60c2d7fc7723bebd86653061","_id":"references/60c2d7fc7723bebd86653061","_rev":"_cfFl_Q2---","tei":"\n\t\n\t\tThe Pfam protein families database\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tLCoin\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tVHollich\n\t\t\n\t\t\n\t\t\tSGriffiths-Jones\n\t\t\n\t\t\n\t\t\tAKhanna\n\t\t\n\t\t\n\t\t\tMMarshall\n\t\t\n\t\t\n\t\t\tSMoxon\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tDatabase\n\n","document":{"$oid":"60c2d7fc7723bebd8665305a"},"refKey":49},
{"_key":"60c2d7fc7723bebd86653062","_id":"references/60c2d7fc7723bebd86653062","_rev":"_cfFl_RC---","tei":"\n\t\n\t\tComponent User's Guide. London: The Natural History Museum\n\t\t\n\t\t\tRDPage\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d7fc7723bebd8665305a"},"refKey":46},
{"_key":"60c2d7ff7723bebd86653089","_id":"references/60c2d7ff7723bebd86653089","_rev":"_cfFl_RO---","tei":"\n\t\n\t\tPython: a programming language for software integration and development\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\n\t\n\t\tJ Mol Graph Model\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d7ff7723bebd86653088"},"refKey":29},
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{"_key":"60c2d8107723bebd866530a5","_id":"references/60c2d8107723bebd866530a5","_rev":"_cfFl_Rq---","tei":"\n\t\n\t\tDiscovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE)\n\t\t\n\t\t\tEvanOPaull\n\t\t\n\t\t\n\t\t\tDanielECarlin\n\t\t\n\t\t\n\t\t\tMarioNiepel\n\t\t\n\t\t\n\t\t\tPeterKSorger\n\t\t\n\t\t\n\t\t\tDavidHaussler\n\t\t\n\t\t\n\t\t\tJoshuaMStuart\n\t\t\n\t\t10.1093/bioinformatics/btt471\n\t\t23986566\n\t\tPMC3799471\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2d8107723bebd866530a4"},"refKey":49},
{"_key":"60c2d8107723bebd866530a6","_id":"references/60c2d8107723bebd866530a6","_rev":"_cfFl_R2---","tei":"\n\t\n\t\tCreation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0\n\t\t\n\t\t\tLaurentHeirendt\n\t\t\n\t\t\n\t\t\tSylvainArreckx\n\t\t\n\t\t\n\t\t\tThomasPfau\n\t\t\t0000-0001-5048-2923\n\t\t\n\t\t\n\t\t\tSebastiánNMendoza\n\t\t\t0000-0002-2192-5569\n\t\t\n\t\t\n\t\t\tAnneRichelle\n\t\t\n\t\t\n\t\t\tAlmutHeinken\n\t\t\n\t\t\n\t\t\tHuldaSHaraldsdóttir\n\t\t\n\t\t\n\t\t\tJacekWachowiak\n\t\t\n\t\t\n\t\t\tSarahMKeating\n\t\t\n\t\t\n\t\t\tVanjaVlasov\n\t\t\n\t\t\n\t\t\tStefaniaMagnusdóttir\n\t\t\n\t\t\n\t\t\tChiamYuNg\n\t\t\n\t\t\n\t\t\tGermanPreciat\n\t\t\n\t\t\n\t\t\tAliseŽagare\n\t\t\n\t\t\n\t\t\tSiuH JChan\n\t\t\n\t\t\n\t\t\tMaikeKAurich\n\t\t\n\t\t\n\t\t\tCatherineMClancy\n\t\t\n\t\t\n\t\t\tJenniferModamio\n\t\t\n\t\t\n\t\t\tJohnTSauls\n\t\t\n\t\t\n\t\t\tAlbertoNoronha\n\t\t\n\t\t\n\t\t\tAarashBordbar\n\t\t\n\t\t\n\t\t\tBenjaminCousins\n\t\t\n\t\t\n\t\t\tDianaCEl Assal\n\t\t\n\t\t\n\t\t\tLuisVValcarcel\n\t\t\t0000-0003-3769-5419\n\t\t\n\t\t\n\t\t\tIñigoApaolaza\n\t\t\t0000-0002-8961-4513\n\t\t\n\t\t\n\t\t\tSusanGhaderi\n\t\t\n\t\t\n\t\t\tMasoudAhookhosh\n\t\t\n\t\t\n\t\t\tMarouenBen Guebila\n\t\t\n\t\t\n\t\t\tAndrejsKostromins\n\t\t\n\t\t\n\t\t\tNicolasSompairac\n\t\t\n\t\t\n\t\t\tHoaiMLe\n\t\t\n\t\t\n\t\t\tDingMa\n\t\t\n\t\t\n\t\t\tYuekaiSun\n\t\t\n\t\t\n\t\t\tLinWang\n\t\t\n\t\t\n\t\t\tJamesTYurkovich\n\t\t\t0000-0002-9403-509X\n\t\t\n\t\t\n\t\t\tMiguelA POliveira\n\t\t\n\t\t\n\t\t\tPhanTVuong\n\t\t\n\t\t\n\t\t\tLemmerPEl Assal\n\t\t\n\t\t\n\t\t\tInnaKuperstein\n\t\t\t0000-0001-8086-8915\n\t\t\n\t\t\n\t\t\tAndreiZinovyev\n\t\t\n\t\t\n\t\t\tHScottHinton\n\t\t\n\t\t\n\t\t\tWilliamABryant\n\t\t\n\t\t\n\t\t\tFranciscoJAragón Artacho\n\t\t\n\t\t\n\t\t\tFranciscoJPlanes\n\t\t\n\t\t\n\t\t\tEgilsStalidzans\n\t\t\n\t\t\n\t\t\tAlejandroMaass\n\t\t\n\t\t\n\t\t\tSantoshVempala\n\t\t\n\t\t\n\t\t\tMichaelHucka\n\t\t\n\t\t\n\t\t\tMichaelASaunders\n\t\t\n\t\t\n\t\t\tCostasDMaranas\n\t\t\n\t\t\n\t\t\tNathanELewis\n\t\t\t0000-0001-7700-3654\n\t\t\n\t\t\n\t\t\tThomasSauter\n\t\t\n\t\t\n\t\t\tBernhardØPalsson\n\t\t\n\t\t\n\t\t\tInesThiele\n\t\t\n\t\t\n\t\t\tRonanM TFleming\n\t\t\n\t\t10.1038/s41596-018-0098-2\n\t\t30787451\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t14\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2d8107723bebd866530a4"},"refKey":28},
{"_key":"60c2d8107723bebd866530a7","_id":"references/60c2d8107723bebd866530a7","_rev":"_cfFl_SC---","tei":"\n\t\n\t\tThe RAVEN Toolbox and Its Use for Generating a Genome-scale Metabolic Model for Penicillium chrysogenum\n\t\t\n\t\t\tRasmusAgren\n\t\t\n\t\t\n\t\t\tLimingLiu\n\t\t\n\t\t\n\t\t\tSaeedShoaie\n\t\t\n\t\t\n\t\t\tWanwipaVongsangnak\n\t\t\n\t\t\n\t\t\tIntawatNookaew\n\t\t\n\t\t\n\t\t\tJensNielsen\n\t\t\n\t\t10.1371/journal.pcbi.1002980\n\t\t23555215\n\t\tPMC3605104\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\te1002980\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c2d8107723bebd866530a4"},"refKey":29},
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{"_key":"60c2d8357723bebd866530e2","_id":"references/60c2d8357723bebd866530e2","_rev":"_cfFl_Tm---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2d8357723bebd866530e1"},"refKey":23},
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{"_key":"60c2d88f7723bebd86653152","_id":"references/60c2d88f7723bebd86653152","_rev":"_cfFl_VG---","tei":"\n\t\n\t\tScikit-learn: machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\n\t\n\t\tJ. Mach. Learn. Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d88f7723bebd86653151"},"refKey":19},
{"_key":"60c2d8967723bebd86653158","_id":"references/60c2d8967723bebd86653158","_rev":"_cfFl_VW---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tGBunkoczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tBHintze\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRDOeffner\n\t\t\n\t\t\n\t\t\tBKPoon\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tMDSammito\n\t\t\n\t\t\n\t\t\tOVSobolev\n\t\t\n\t\t\n\t\t\tDHStockwell\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Struct Biol\n\t\tA. G. Urzhumtsev, L. L. Videau, C. J. Williams and P. D. Adams\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPt 10\n\n","document":{"$oid":"60c2d8967723bebd86653157"},"refKey":19},
{"_key":"60c2d8967723bebd86653159","_id":"references/60c2d8967723bebd86653159","_rev":"_cfFl_Vi---","tei":"\n\t\n\t\tMacromolecular TLS refinement in REFMAC at moderate resolutions\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tMZPapiz\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t374\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d8967723bebd86653157"},"refKey":41},
{"_key":"60c2d89c7723bebd8665316a","_id":"references/60c2d89c7723bebd8665316a","_rev":"_cfFl_Vu---","tei":"\n\t\n\t\tA Randomized Effectiveness Trial of Stepped Collaborative Care forAcutely Injured Trauma Survivors\n\t\t\n\t\t\tDouglasZatzick\n\t\t\n\t\t\n\t\t\tPeterRoy-Byrne\n\t\t\n\t\t\n\t\t\tJoanRusso\n\t\t\n\t\t\n\t\t\tFrederickRivara\n\t\t\n\t\t\n\t\t\tRoseanneDroesch\n\t\t\n\t\t\n\t\t\tAmyWagner\n\t\t\n\t\t\n\t\t\tChrisDunn\n\t\t\n\t\t\n\t\t\tGregoryJurkovich\n\t\t\n\t\t\n\t\t\tEdwinaUehara\n\t\t\n\t\t\n\t\t\tWayneKaton\n\t\t\n\t\t10.1001/archpsyc.61.5.498\n\t\t15123495\n\t\t\n\t\n\t\n\t\tArchives of General Psychiatry\n\t\tArch Gen Psychiatry\n\t\t0003-990X\n\t\t\n\t\t\t61\n\t\t\t5\n\t\t\t498\n\t\t\t\n\t\t\tAmerican Medical Association (AMA)\n\t\t\n\t\n\n","document":{"$oid":"60c2d89c7723bebd86653169"},"refKey":36},
{"_key":"60c2d8b37723bebd86653176","_id":"references/60c2d8b37723bebd86653176","_rev":"_cfFl_W----","tei":"\n\t\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\tIBM SPSS Statistics for Macintosh; Version 27.0; IBM Corp\n\t\t\t\tArmonk, NY, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d8b37723bebd86653175"},"refKey":66},
{"_key":"60c2d8c37723bebd86653180","_id":"references/60c2d8c37723bebd86653180","_rev":"_cfFl_WK---","tei":"\n\t\n\t\tCausal Inference Using Graphical Models with theRPackagepcalg\n\t\t\n\t\t\tMarkusKalisch\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tDiegoColombo\n\t\t\n\t\t\n\t\t\tMarloesHMaathuis\n\t\t\n\t\t\n\t\t\tPeterBühlmann\n\t\t\n\t\t10.18637/jss.v047.i11\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t47\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c2d8c37723bebd8665317f"},"refKey":11},
{"_key":"60c2d8c37723bebd86653181","_id":"references/60c2d8c37723bebd86653181","_rev":"_cfFl_WW---","tei":"\n\t\n\t\tPC algorithm for nonparanormal graphical models\n\t\t\n\t\t\tNHarris\n\t\t\n\t\t\n\t\t\tMDrton\n\t\t\n\t\n\t\n\t\tJ. Mach. Learn. Res\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d8c37723bebd8665317f"},"refKey":8},
{"_key":"60c2d8cf7723bebd86653189","_id":"references/60c2d8cf7723bebd86653189","_rev":"_cfFl_Wm---","tei":"\n\t\n\t\tWebLogo: a sequence logo generator\n\t\t\n\t\t\tGECrooks\n\t\t\n\t\t\n\t\t\tGHon\n\t\t\n\t\t\n\t\t\tJMChandonia\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d8cf7723bebd86653188"},"refKey":22},
{"_key":"60c2d8cf7723bebd8665318a","_id":"references/60c2d8cf7723bebd8665318a","_rev":"_cfFl_W2---","tei":"\n\t\n\t\tSequence logos: a new way to display consensus sequences\n\t\t\n\t\t\tTDSchneider\n\t\t\n\t\t\n\t\t\tRMStephens\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d8cf7723bebd86653188"},"refKey":23},
{"_key":"60c2d8d27723bebd86653191","_id":"references/60c2d8d27723bebd86653191","_rev":"_cfFl_XC---","tei":"\n\t\n\t\trjags: Bayesian graphical models using MCMC (R package version 4-6)\n\t\t\n\t\t\tMPlummer\n\t\t\n\t\t\n\t\t\tAStukalov\n\t\t\n\t\t\n\t\t\tMDenwood\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tComputer software manual\n\n","document":{"$oid":"60c2d8d27723bebd86653190"},"refKey":63},
{"_key":"60c2d8f87723bebd866531a3","_id":"references/60c2d8f87723bebd866531a3","_rev":"_cfFl_XS---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJ-FDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t\n\t\t\t\n\t\t\n\t\n\tlikelihood phylogenies: assessing the performance of PhyML 3.0\n\n","document":{"$oid":"60c2d8f87723bebd866531a2"},"refKey":21},
{"_key":"60c2d8f87723bebd866531a4","_id":"references/60c2d8f87723bebd866531a4","_rev":"_cfFl_Xe---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d8f87723bebd866531a2"},"refKey":32},
{"_key":"60c2d9017723bebd866531b5","_id":"references/60c2d9017723bebd866531b5","_rev":"_cfFl_Xu---","tei":"\n\t\n\t\tSynthetic Aperture Radar Processing with GPGPU\n\t\t\n\t\t\tMaurizioDi Bisceglie\n\t\t\n\t\t\n\t\t\tMicheleDi Santo\n\t\t\n\t\t\n\t\t\tCarmelaGaldi\n\t\t\n\t\t\n\t\t\tRiccardoLanari\n\t\t\n\t\t\n\t\t\tNadiaRanaldo\n\t\t\n\t\t10.1109/msp.2009.935383\n\t\t\n\t\n\t\n\t\tIEEE Signal Processing Magazine\n\t\tIEEE Signal Process. Mag.\n\t\t1053-5888\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c2d9017723bebd866531b4"},"refKey":3},
{"_key":"60c2d9327723bebd866531c2","_id":"references/60c2d9327723bebd866531c2","_rev":"_cfFl_X6---","tei":"\n\t\n\t\tMEME SUITE: tools for motif discovery and searching\n\t\t\n\t\t\tTLBailey\n\t\t\n\t\t\n\t\t\tMBoden\n\t\t\n\t\t\n\t\t\tFABuske\n\t\t\n\t\t\n\t\t\tMFrith\n\t\t\n\t\t\n\t\t\tCEGrant\n\t\t\n\t\t\n\t\t\tLClementi\n\t\t\n\t\t\n\t\t\tJRen\n\t\t\n\t\t\n\t\t\tWWLi\n\t\t\n\t\t\n\t\t\tWSNoble\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d9327723bebd866531c1"},"refKey":4},
{"_key":"60c2d9327723bebd866531c3","_id":"references/60c2d9327723bebd866531c3","_rev":"_cfFl_YG---","tei":"\n\t\n\t\tUltrafast and memoryefficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t10\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d9327723bebd866531c1"},"refKey":35},
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{"_key":"60c2d9327723bebd866531c5","_id":"references/60c2d9327723bebd866531c5","_rev":"_cfFl_Yi---","tei":"\n\t\n\t\tMinimap2: pairwise alignment for nucleotide sequences\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d9327723bebd866531c1"},"refKey":38},
{"_key":"60c2d9327723bebd866531c6","_id":"references/60c2d9327723bebd866531c6","_rev":"_cfFl_Yu---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d9327723bebd866531c1"},"refKey":20},
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{"_key":"60c2d9327723bebd866531c8","_id":"references/60c2d9327723bebd866531c8","_rev":"_cfFl_ZG---","tei":"\n\t\n\t\tLTR_retriever: a highly accurate and sensitive program for identification of LTR retrotransposons\n\t\t\n\t\t\tShujunOu\n\t\t\t0000-0001-5938-7180\n\t\t\n\t\t\n\t\t\tNingJiang\n\t\t\t0000-0002-2776-6669\n\t\t\n\t\t10.1101/137141\n\t\n\t\n\t\tPlant Physiol\n\t\t\n\t\t\t176\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2d9327723bebd866531c1"},"refKey":54},
{"_key":"60c2d9327723bebd866531c9","_id":"references/60c2d9327723bebd866531c9","_rev":"_cfFl_ZS---","tei":"\n\t\n\t\tSeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation\n\t\t\n\t\t\tWShen\n\t\t\n\t\t\n\t\t\tSLe\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tFHu\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d9327723bebd866531c1"},"refKey":71},
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{"_key":"60c2d9327723bebd866531cc","_id":"references/60c2d9327723bebd866531cc","_rev":"_cfFl_Z2---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d9327723bebd866531c1"},"refKey":62},
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{"_key":"60c2d9457723bebd866531fd","_id":"references/60c2d9457723bebd866531fd","_rev":"_cfFl_aa---","tei":"\n\t\n\t\tA Model-Constructing Satisfiability Calculus\n\t\t\n\t\t\tLeonardoDe Moura\n\t\t\n\t\t\n\t\t\tDejanJovanović\n\t\t\n\t\t10.1007/978-3-642-35873-9_1\n\t\tark:/67375/HCB-08BL5QD0-X\n\t\t896FCABE2943FCB1037DA31BD87040D23C228635\n\t\t\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tRGiacobazzi\n\t\t\tJBerdine\n\t\t\tIMastroeni\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t7737\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d9457723bebd866531fa"},"refKey":23},
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{"_key":"60c2d9457723bebd8665322c","_id":"references/60c2d9457723bebd8665322c","_rev":"_cfFl_b----","tei":"\n\t\n\t\tLIBLINEAR: A Library for Large Linear Classification\n\t\t\n\t\t\tR-EFan\n\t\t\n\t\t\n\t\t\tK-WChang\n\t\t\n\t\t\n\t\t\tC-JHsieh\n\t\t\n\t\t\n\t\t\tX-RWang\n\t\t\n\t\t\n\t\t\tC-JLin\n\t\t\n\t\n\t\n\t\tJ Mach Learn Res\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d9457723bebd8665322b"},"refKey":18},
{"_key":"60c2d9457723bebd8665322d","_id":"references/60c2d9457723bebd8665322d","_rev":"_cfFl_bK---","tei":"\n\t\n\t\tANTONIA perfusion and stroke. A software tool for the multi-purpose analysis of MR perfusion-weighted datasets and quantitative ischemic stroke assessment\n\t\t\n\t\t\tNDForkert\n\t\t\n\t\t\n\t\t\tBCheng\n\t\t\n\t\t\n\t\t\tAKemmling\n\t\t\n\t\t\n\t\t\tGThomalla\n\t\t\n\t\t\n\t\t\tJFiehler\n\t\t\n\t\t10.3414/ME14-01-0007\n\t\t25301390\n\t\n\t\n\t\tMethods Inf Med\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d9457723bebd8665322b"},"refKey":11},
{"_key":"60c2d9627723bebd86653246","_id":"references/60c2d9627723bebd86653246","_rev":"_cfFl_bW---","tei":"\n\t\n\t\tAligning Short Sequencing Reads with Bowtie\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t10.1002/0471250953.bi1107s32\n\t\t21154709\n\t\tPMC3010897\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Bioinformatics\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\tUnit 11.17 CrossRef Medline\n\n","document":{"$oid":"60c2d9627723bebd86653245"},"refKey":53},
{"_key":"60c2d96e7723bebd86653250","_id":"references/60c2d96e7723bebd86653250","_rev":"_cfFl_bi---","tei":"\n\t\n\t\tThe CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d96e7723bebd8665324f"},"refKey":38},
{"_key":"60c2d99f7723bebd86653272","_id":"references/60c2d99f7723bebd86653272","_rev":"_cfFl_bu---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d99f7723bebd86653271"},"refKey":12},
{"_key":"60c2d99f7723bebd86653273","_id":"references/60c2d99f7723bebd86653273","_rev":"_cfFl_b6---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2d99f7723bebd86653271"},"refKey":13},
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{"_key":"60c2d9a97723bebd8665327c","_id":"references/60c2d9a97723bebd8665327c","_rev":"_cfFl_ce---","tei":"\n\t\n\t\tLarge-scale validation of methods for cytotoxic T-lymphocyte epitope prediction\n\t\t\n\t\t\tMetteVLarsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tSorenBuus\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1186/1471-2105-8-424\n\t\t17973982\n\t\tPMC2194739\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t424\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2d9a97723bebd86653279"},"refKey":23},
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{"_key":"60c2d9a97723bebd8665327e","_id":"references/60c2d9a97723bebd8665327e","_rev":"_cfFl_c2---","tei":"\n\t\n\t\tElliPro: a new structure-based tool for the prediction of antibody epitopes\n\t\t\n\t\t\tJuliaPonomarenko\n\t\t\n\t\t\n\t\t\tHuynh-HoaBui\n\t\t\n\t\t\n\t\t\tWeiLi\n\t\t\n\t\t\n\t\t\tNicholasFusseder\n\t\t\n\t\t\n\t\t\tPhilipEBourne\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t10.1186/1471-2105-9-514\n\t\t19055730\n\t\tPMC2607291\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t514\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2d9a97723bebd86653279"},"refKey":33},
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{"_key":"60c2db287723bebd86653435","_id":"references/60c2db287723bebd86653435","_rev":"_cfFl_iS---","tei":"\n\t\n\t\t\n\t\t\tMapchart\n\t\t\n\t\t\n\t\tMap of Europe\n\t\t\t\t\n\t\t\t\n\t\t\t15\n\t\t\n\t\n\n","document":{"$oid":"60c2db287723bebd86653434"},"refKey":33},
{"_key":"60c2db397723bebd86653452","_id":"references/60c2db397723bebd86653452","_rev":"_cfFl_ie---","tei":"\n\t\n\t\tAutomated Cerebral Infarct Volume Measurement in Follow-up Noncontrast CT Scans of Patients with Acute Ischemic Stroke\n\t\t\n\t\t\tAMBoers\n\t\t\n\t\t\n\t\t\tHAMarquering\n\t\t\n\t\t\n\t\t\tJJJochem\n\t\t\n\t\t\n\t\t\tNJBesselink\n\t\t\n\t\t\n\t\t\tOABerkhemer\n\t\t\n\t\t\n\t\t\tAVan Der Lugt\n\t\t\n\t\t\n\t\t\tLFBeenen\n\t\t\n\t\t\n\t\t\tCBMajoie\n\t\t\n\t\t10.3174/ajnr.a3463\n\t\t23471018\n\t\t\n\t\n\t\n\t\tAmerican Journal of Neuroradiology\n\t\tAJNR Am J Neuroradiol\n\t\t0195-6108\n\t\t1936-959X\n\t\t\n\t\t\t34\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society of Neuroradiology (ASNR)\n\t\t\n\t\n\n","document":{"$oid":"60c2db397723bebd86653451"},"refKey":34},
{"_key":"60c2db397723bebd86653453","_id":"references/60c2db397723bebd86653453","_rev":"_cfFl_iq---","tei":"\n\t\n\t\telastix: a toolbox for intensity-based medical image registration\n\t\t\n\t\t\tSKlein\n\t\t\n\t\t\n\t\t\tMStaring\n\t\t\n\t\t\n\t\t\tKMurphy\n\t\t\n\t\t\n\t\t\tMAViergever\n\t\t\n\t\t\n\t\t\tJpwPluim\n\t\t\n\t\t19923044\n\t\n\t\n\t\tIEEE Trans Med Imaging\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2db397723bebd86653451"},"refKey":33},
{"_key":"60c2db457723bebd86653463","_id":"references/60c2db457723bebd86653463","_rev":"_cfFl_i2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMJKeiser\n\t\t\n\t\t\n\t\t\tBLRoth\n\t\t\n\t\t\n\t\t\tBNArmbruster\n\t\t\n\t\t\n\t\t\tPErnsberger\n\t\t\n\t\t\n\t\t\tJJIrwin\n\t\t\n\t\t\n\t\t\tBKShoichet\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2db457723bebd86653462"},"refKey":1},
{"_key":"60c2db497723bebd86653474","_id":"references/60c2db497723bebd86653474","_rev":"_cfFl_jC---","tei":"\n\t\n\t\tEstimating psychological networks and their accuracy: A tutorial paper\n\t\t\n\t\t\tSachaEpskamp\n\t\t\n\t\t\n\t\t\tDennyBorsboom\n\t\t\n\t\t\n\t\t\tEikoIFried\n\t\t\n\t\t10.3758/s13428-017-0862-1\n\t\t28342071\n\t\tPMC5809547\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehav Res\n\t\t1554-3528\n\t\t\n\t\t\t50\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2db497723bebd86653473"},"refKey":10},
{"_key":"60c2db497723bebd86653475","_id":"references/60c2db497723bebd86653475","_rev":"_cfFl_jO---","tei":"\n\t\n\t\tqgraph: Graph plotting methods, psychometric data visualization and graphical model estimation\n\t\t\n\t\t\tSEpskamp\n\t\t\n\t\t\n\t\t\tGCostantini\n\t\t\n\t\t\n\t\t\tAO JCramer\n\t\t\n\t\t\n\t\t\tLJWaldorp\n\t\t\n\t\t\n\t\t\tVDSchmittmann\n\t\t\n\t\t\n\t\t\tDBorsboom\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package Version 1.3.4) [Computer software\n\n","document":{"$oid":"60c2db497723bebd86653473"},"refKey":12},
{"_key":"60c2db497723bebd86653476","_id":"references/60c2db497723bebd86653476","_rev":"_cfFl_ja---","tei":"\n\t\n\t\tIsingFit: Fitting Ising models using the eLasso method (R package Version 0.3.0) [Computer software\n\t\t\n\t\t\tCDVan Borkulo\n\t\t\n\t\t\n\t\t\tSEpskamp\n\t\t\n\t\t10.1177/1359105318810113\n\t\t\n\t\n\t\n\t\tJournal of Health Psychology\n\t\t\n\t\t\t\n\t\t\n\t\n\tC. J. J.\n\n","document":{"$oid":"60c2db497723bebd86653473"},"refKey":38},
{"_key":"60c2db497723bebd86653477","_id":"references/60c2db497723bebd86653477","_rev":"_cfFl_jm---","tei":"\n\t\n\t\t\n\t\t\tPRAmestoy\n\t\t\n\t\t\n\t\t\tAAzzalini\n\t\t\n\t\t\n\t\t\tTBadics\n\t\t\n\t\t\n\t\t\tGBenison\n\t\t\n\t\t\n\t\t\tWBohm\n\t\t\n\t\t\n\t\t\tKBriggs\n\t\t\n\t\t\n\t\t\tJBruggeman\n\t\t\n\t\t\n\t\t\tJBuchmueller\n\t\t\n\t\t\n\t\t\tCTButts\n\t\t\n\t\t\n\t\t\tAClauset\n\t\t\n\t\t\n\t\t\tJTConklin\n\t\t\n\t\t\n\t\t\tTCooper\n\t\t\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTCroft\n\t\t\n\t\t\n\t\t\tPDalgaard\n\t\t\n\t\t\n\t\t\tTADavis\n\t\t\n\t\t\n\t\t\tLDeniau\n\t\t\n\t\t\n\t\t\tUDrepper\n\t\t\n\t\t\n\t\t\tISDuff\n\t\t\n\t\t\n\t\t\t..Yang\n\t\t\n\t\t\n\t\t\tC\n\t\t\n\t\tigraph: Network analysis and visualization\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tR package Version 1.0.1) [Computer software\n\n","document":{"$oid":"60c2db497723bebd86653473"},"refKey":0},
{"_key":"60c2db497723bebd8665347f","_id":"references/60c2db497723bebd8665347f","_rev":"_cfFl_jy---","tei":"\n\t\n\t\tMeeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2db497723bebd8665347e"},"refKey":11},
{"_key":"60c2db497723bebd86653480","_id":"references/60c2db497723bebd86653480","_rev":"_cfFl_k----","tei":"\n\t\n\t\tA semiempirical free energy force field with charge-based desolvation\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2db497723bebd8665347e"},"refKey":3},
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{"_key":"60c2db997723bebd866534c7","_id":"references/60c2db997723bebd866534c7","_rev":"_cfFl_ki---","tei":"\n\t\n\t\tWoLF PSORT: protein localization predictor\n\t\t\n\t\t\tPHorton\n\t\t\n\t\t\n\t\t\tK.-JPark\n\t\t\n\t\t\n\t\t\tTObayashi\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t35\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2db997723bebd866534c5"},"refKey":27},
{"_key":"60c2db997723bebd866534c8","_id":"references/60c2db997723bebd866534c8","_rev":"_cfFl_ku---","tei":"\n\t\n\t\tCDD/SPARCLE: the conserved domain database in 2020\n\t\t\n\t\t\tSLu\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tFChitsaz\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t48\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2db997723bebd866534c5"},"refKey":22},
{"_key":"60c2db997723bebd866534c9","_id":"references/60c2db997723bebd866534c9","_rev":"_cfFl_k6---","tei":"\n\t\n\t\tPredicting subcellular localization of proteins based on their N-terminal amino acid sequence\n\t\t\n\t\t\tOEmanuelsson\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\t\n\t\t\t300\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2db997723bebd866534c5"},"refKey":28},
{"_key":"60c2dbbe7723bebd866534dd","_id":"references/60c2dbbe7723bebd866534dd","_rev":"_cfFl_lG---","tei":"\n\t\n\t\tScibert: A pretrained language model for scientific text\n\t\t\n\t\t\tKBeltagy I Lo\n\t\t\n\t\t\n\t\t\tACohan\n\t\t\n\t\tarXiv:1903.10676\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2dbbe7723bebd866534dc"},"refKey":25},
{"_key":"60c2dbbe7723bebd866534de","_id":"references/60c2dbbe7723bebd866534de","_rev":"_cfFl_lS---","tei":"\n\t\n\t\tinformation retrieval with semantic search, question answering, and abstractive summarization\n\t\t\n\t\t\tAEsteva\n\t\t\n\t\t\n\t\t\tAKale\n\t\t\n\t\t\n\t\t\tRPaulus\n\t\t\n\t\t\n\t\t\tKHashimoto\n\t\t\n\t\t\n\t\t\tWYin\n\t\t\n\t\t\n\t\t\tDRadev\n\t\t\n\t\t\n\t\t\tRSocher\n\t\t\n\t\t\n\t\t\tCo-Search\n\t\t\n\t\tarXiv:2006.09595\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2dbbe7723bebd866534dc"},"refKey":36},
{"_key":"60c2dbbe7723bebd866534df","_id":"references/60c2dbbe7723bebd866534df","_rev":"_cfFl_le---","tei":"\n\t\n\t\tCovidex: neural ranking models and keyword search infrastructure for the COVID-19 open research dataset\n\t\t\n\t\t\tEZhang\n\t\t\n\t\t\n\t\t\tNGupta\n\t\t\n\t\t\n\t\t\tRTang\n\t\t\n\t\t\n\t\t\tXHan\n\t\t\n\t\t\n\t\t\tRPradeep\n\t\t\n\t\t\n\t\t\tKLu\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tRNogueira\n\t\t\n\t\t\n\t\t\tKCho\n\t\t\n\t\t\n\t\t\tHFang\n\t\t\n\t\t\n\t\t\tJLin\n\t\t\n\t\tarXiv:2007.07846\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2dbbe7723bebd866534dc"},"refKey":43},
{"_key":"60c2dbbe7723bebd866534e0","_id":"references/60c2dbbe7723bebd866534e0","_rev":"_cfFl_lq---","tei":"\n\t\n\t\tCAiRE-COVID: a question answering and query-focused multi-document summarization system for covid-19 scholarly information management\n\t\t\n\t\t\tDSu\n\t\t\n\t\t\n\t\t\tYXu\n\t\t\n\t\t\n\t\t\tTYu\n\t\t\n\t\t\n\t\t\tFBSiddique\n\t\t\n\t\t\n\t\t\tEJBarezi\n\t\t\n\t\t\n\t\t\tPFung\n\t\t\n\t\tarXiv:2005.03975\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2dbbe7723bebd866534dc"},"refKey":37},
{"_key":"60c2dbbe7723bebd866534e1","_id":"references/60c2dbbe7723bebd866534e1","_rev":"_cfFl_l2---","tei":"\n\t\n\t\tWT5?! training text-to-text models to explain their predictions\n\t\t\n\t\t\tSNarang\n\t\t\n\t\t\n\t\t\tCRaffel\n\t\t\n\t\t\n\t\t\tKLee\n\t\t\n\t\t\n\t\t\tARoberts\n\t\t\n\t\t\n\t\t\tNFiedel\n\t\t\n\t\t\n\t\t\tKMalkan\n\t\t\n\t\tarXiv:2004.14546\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2dbbe7723bebd866534dc"},"refKey":143},
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{"_key":"60c2dbeb7723bebd86653527","_id":"references/60c2dbeb7723bebd86653527","_rev":"_cfFl_nS---","tei":"\n\t\n\t\tPhylogenetic Analysis with Improved Parameters Reveals Conservation in lncRNA Structures\n\t\t\n\t\t\tRafaelC ATavares\n\t\t\n\t\t\n\t\t\tAnnaMariePyle\n\t\t\n\t\t\n\t\t\tSrinivasSomarowthu\n\t\t\n\t\t10.1016/j.jmb.2019.03.012\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t431\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2dbeb7723bebd86653524"},"refKey":122},
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{"_key":"60c2dcd67723bebd86653630","_id":"references/60c2dcd67723bebd86653630","_rev":"_cfFl_r2---","tei":"\n\t\n\t\tProtein–ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tAmbrishRoy\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1093/bioinformatics/btt447\n\t\t23975762\n\t\tPMC3789548\n\t\t2588-95. 36\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2dcd67723bebd8665362d"},"refKey":35},
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{"_key":"60c2e0007723bebd86653915","_id":"references/60c2e0007723bebd86653915","_rev":"_cfFl_0a---","tei":"\n\t\n\t\tThe structure of negative emotional states: Comparison of the Depression Anxiety Stress Scales (DASS) with the Beck Depression and Anxiety Inventories\n\t\t\n\t\t\tPFLovibond\n\t\t\n\t\t\n\t\t\tSHLovibond\n\t\t\n\t\t10.1016/0005-7967(94)00075-u\n\t\t7726811\n\t\t0005-7967(94)00075-U\n\t\tark:/67375/6H6-9S8X965Q-S\n\t\tEBD446F92155DB714BF8A1AB67D9F67C5FC3A2EA\n\t\n\t\n\t\tBehaviour Research and Therapy\n\t\tBehaviour Research and Therapy\n\t\t0005-7967\n\t\t\n\t\t\t33\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2e0007723bebd86653914"},"refKey":55},
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{"_key":"60c2e0007723bebd86653917","_id":"references/60c2e0007723bebd86653917","_rev":"_cfFl_0y---","tei":"\n\t\n\t\tDevelopment and validation of the penn state worry questionnaire\n\t\t\n\t\t\tTJMeyer\n\t\t\n\t\t\n\t\t\tMLMiller\n\t\t\n\t\t\n\t\t\tRLMetzger\n\t\t\n\t\t\n\t\t\tThomasDBorkovec\n\t\t\n\t\t10.1016/0005-7967(90)90135-6\n\t\t2076086\n\t\t0005-7967(90)90135-6\n\t\tark:/67375/6H6-8S316NHB-P\n\t\t632D129EAB6C6BBA47CEB2B1D7C90958D94D3A52\n\t\n\t\n\t\tBehaviour Research and Therapy\n\t\tBehaviour Research and Therapy\n\t\t0005-7967\n\t\t\n\t\t\t28\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2e0007723bebd86653914"},"refKey":60},
{"_key":"60c2e0007723bebd86653918","_id":"references/60c2e0007723bebd86653918","_rev":"_cfFl_1----","tei":"\n\t\n\t\trunjags: AnRPackage Providing Interface Utilities, Model Templates, Parallel Computing Methods and Additional Distributions for MCMC Models inJAGS\n\t\t\n\t\t\tMatthewJDenwood\n\t\t\n\t\t10.18637/jss.v071.i09\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t71\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c2e0007723bebd86653914"},"refKey":16},
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{"_key":"60c2e1747723bebd86653a4f","_id":"references/60c2e1747723bebd86653a4f","_rev":"_cfFl_5u---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t357\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e1747723bebd86653a4c"},"refKey":24},
{"_key":"60c2e1747723bebd86653a50","_id":"references/60c2e1747723bebd86653a50","_rev":"_cfFl_56---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e1747723bebd86653a4c"},"refKey":23},
{"_key":"60c2e1747723bebd86653a51","_id":"references/60c2e1747723bebd86653a51","_rev":"_cfFl_6G---","tei":"\n\t\n\t\tTranscript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tBrianAWilliams\n\t\t\n\t\t\n\t\t\tGeoPertea\n\t\t\n\t\t\n\t\t\tAliMortazavi\n\t\t\n\t\t\n\t\t\tGordonKwan\n\t\t\n\t\t\n\t\t\tJMarijke\n\t\t\n\t\t\n\t\t\tStevenLVan Baren\n\t\t\n\t\t\n\t\t\tBarbaraJSalzberg\n\t\t\n\t\t\n\t\t\tLiorWold\n\t\t\n\t\t\n\t\t\tPachter\n\t\t\n\t\n\t\n\t\tNature biotechnology\n\t\t\n\t\t\t28\n\t\t\t5\n\t\t\t511\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e1747723bebd86653a4c"},"refKey":31},
{"_key":"60c2e1747723bebd86653a52","_id":"references/60c2e1747723bebd86653a52","_rev":"_cfFl_6S---","tei":"\n\t\n\t\tImproving RNA-Seq expression estimates by correcting for fragment bias\n\t\t\n\t\t\tAdamRoberts\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tJulieDonaghey\n\t\t\n\t\t\n\t\t\tJohnLRinn\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\n\t\n\t\tGenome biology\n\t\t\n\t\t\t12\n\t\t\t3\n\t\t\tR22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e1747723bebd86653a4c"},"refKey":33},
{"_key":"60c2e1747723bebd86653a53","_id":"references/60c2e1747723bebd86653a53","_rev":"_cfFl_6e---","tei":"\n\t\n\t\tFastQC: a quality control tool for high throughput sequence data\n\t\t\n\t\t\tSimonAndrews\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e1747723bebd86653a4c"},"refKey":22},
{"_key":"60c2e17c7723bebd86653a7e","_id":"references/60c2e17c7723bebd86653a7e","_rev":"_cfFl_6q---","tei":"\n\t\n\t\tKnotInFrame: prediction of −1 ribosomal frameshift events\n\t\t\n\t\t\tCorinnaTheis\n\t\t\n\t\t\n\t\t\tJensReeder\n\t\t\n\t\t\n\t\t\tRobertGiegerich\n\t\t\n\t\t10.1093/nar/gkn578\n\t\t18820303\n\t\tPMC2566878\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e17c7723bebd86653a7d"},"refKey":31},
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{"_key":"60c2e1ad7723bebd86653a95","_id":"references/60c2e1ad7723bebd86653a95","_rev":"_cfFl_7C---","tei":"\n\t\n\t\tA language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\n\t\n\t\tThe R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e1ad7723bebd86653a93"},"refKey":28},
{"_key":"60c2e1cf7723bebd86653aa6","_id":"references/60c2e1cf7723bebd86653aa6","_rev":"_cfFl_7O---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tDanielPeterson\n\t\t\n\t\t\n\t\t\tAlanFilipski\n\t\t\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t10.1093/molbev/mst197\n\t\t24132122\n\t\tPMC3840312\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e1cf7723bebd86653aa5"},"refKey":24},
{"_key":"60c2e1db7723bebd86653ab9","_id":"references/60c2e1db7723bebd86653ab9","_rev":"_cfFl_7a---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJamesCPhillips\n\t\t\n\t\t\n\t\t\tRosemaryBraun\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tJamesGumbart\n\t\t\n\t\t\n\t\t\tEmadTajkhorshid\n\t\t\n\t\t\n\t\t\tElizabethVilla\n\t\t\n\t\t\n\t\t\tChristopheChipot\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tLaxmikantKalé\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1002/jcc.20289\n\t\t16222654\n\t\tPMC2486339\n\t\tark:/67375/WNG-4VV0NHGH-L\n\t\t9CA05D9586DF2A6CDED3A7F227C6C9CF046796F7\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2e1db7723bebd86653ab8"},"refKey":33},
{"_key":"60c2e1db7723bebd86653aba","_id":"references/60c2e1db7723bebd86653aba","_rev":"_cfFl_7m---","tei":"\n\t\n\t\tPyRosetta: a script-based interface for implementing molecular modeling algorithms using Rosetta\n\t\t\n\t\t\tSChaudhury\n\t\t\n\t\t\n\t\t\tSLyskov\n\t\t\n\t\t\n\t\t\tJJGray\n\t\t\n\t\t10.1093/bioinformatics/btq007\n\t\t20061306\n\t\tPMC2828115\n\t\tark:/67375/HXZ-5VH5F00P-H\n\t\tD11117F6701C930B2404B2C255528137E38B1175\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e1db7723bebd86653ab8"},"refKey":5},
{"_key":"60c2e1db7723bebd86653abb","_id":"references/60c2e1db7723bebd86653abb","_rev":"_cfFl_7y---","tei":"\n\t\n\t\tCHARMM-GUI: A web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tTaehoonKim\n\t\t\n\t\t\n\t\t\tVidyashankaraGIyer\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.20945\n\t\t18351591\n\t\tark:/67375/WNG-B51MBQFN-X\n\t\t3C9C30FE6273AB7B8632EBBA4EF6F91FEFB8F531\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2e1db7723bebd86653ab8"},"refKey":18},
{"_key":"60c2e1db7723bebd86653abc","_id":"references/60c2e1db7723bebd86653abc","_rev":"_cfFl_8----","tei":"\n\t\n\t\tGlycan reader: Automated sugar identification and simulation preparation for carbohydrates and glycoproteins\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tKevinCSong\n\t\t\n\t\t\n\t\t\tHeatherDesaire\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.21886\n\t\t21815173\n\t\tPMC3188666\n\t\tark:/67375/WNG-SWSSTQ8K-9\n\t\t93344C89A3D6E8E18BF7BD232E5FC022823FA449\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t32\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2e1db7723bebd86653ab8"},"refKey":19},
{"_key":"60c2e20f7723bebd86653ae9","_id":"references/60c2e20f7723bebd86653ae9","_rev":"_cfFl_8K---","tei":"\n\t\n\t\tParallel Ray Tracing for Underwater Acoustic Predictions\n\t\t\n\t\t\tRogérioMCalazan\n\t\t\t0000-0001-6025-2777\n\t\t\n\t\t\n\t\t\tOrlandoCRodríguez\n\t\t\t0000-0002-0375-1892\n\t\t\n\t\t\n\t\t\tNadiaNedjah\n\t\t\t0000-0002-1656-6397\n\t\t\n\t\t10.1007/978-3-319-62392-4_4\n\t\t\n\t\n\t\n\t\tComputational Science and Its Applications – ICCSA 2017\n\t\t\t\t\n\t\t\tOGervasi\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t10404\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e20f7723bebd86653ae8"},"refKey":13},
{"_key":"60c2e20f7723bebd86653aea","_id":"references/60c2e20f7723bebd86653aea","_rev":"_cfFl_8W---","tei":"\n\t\n\t\tOpen source high performance computing\n\t\t\n\t\t\n\t\t\t\n\t\t\t13\n\t\t\n\t\n\n","document":{"$oid":"60c2e20f7723bebd86653ae8"},"refKey":14},
{"_key":"60c2e21e7723bebd86653af6","_id":"references/60c2e21e7723bebd86653af6","_rev":"_cfFl_8i---","tei":"\n\t\n\t\tComparative Protein Structure Modeling Using MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1002/cpbi.3\n\t\t27322406\n\t\tPMC5031415\n\t\t54:5.6.1-5.6.37\n\t\t\n\t\t\n\t\n\t\n\t\tCurr Protoc Bioinformatics\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c2e21e7723bebd86653af5"},"refKey":27},
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{"_key":"60c2e22f7723bebd86653b0f","_id":"references/60c2e22f7723bebd86653b0f","_rev":"_cfFl_9G---","tei":"\n\t\n\t\tMassively parallel single-cell mitochondrial DNA genotyping and chromatin profiling\n\t\t\n\t\t\tCALareau\n\t\t\n\t\t\n\t\t\tLSLudwig\n\t\t\n\t\t\n\t\t\tCMuus\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\n\tin press\n\n","document":{"$oid":"60c2e22f7723bebd86653b0e"},"refKey":16},
{"_key":"60c2e22f7723bebd86653b10","_id":"references/60c2e22f7723bebd86653b10","_rev":"_cfFl_9S---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 19505943\n\n","document":{"$oid":"60c2e22f7723bebd86653b0e"},"refKey":21},
{"_key":"60c2e2417723bebd86653b1c","_id":"references/60c2e2417723bebd86653b1c","_rev":"_cfFl_9e---","tei":"\n\t\n\t\tStan: a probabilistic programming language\n\t\t\n\t\t\tBCarpenter\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t76\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e2417723bebd86653b1b"},"refKey":40},
{"_key":"60c2e2417723bebd86653b21","_id":"references/60c2e2417723bebd86653b21","_rev":"_cfFl_9q---","tei":"\n\t\n\t\tOLINDA/EXM: the second-generation personal computer software for internal dose assessment in nuclear medicine\n\t\t\n\t\t\tMGStabin\n\t\t\n\t\t\n\t\t\tRBSparks\n\t\t\n\t\t\n\t\t\tECrowe\n\t\t\n\t\n\t\n\t\tJ Nucl Med\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e2417723bebd86653b20"},"refKey":11},
{"_key":"60c2e26b7723bebd86653b52","_id":"references/60c2e26b7723bebd86653b52","_rev":"_cfFl_92---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e26b7723bebd86653b51"},"refKey":43},
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{"_key":"60c2e2fd7723bebd86653c18","_id":"references/60c2e2fd7723bebd86653c18","_rev":"_cfFlAA2---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\t1016/0263-7855(96)00018-5\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2e2fd7723bebd86653c17"},"refKey":17},
{"_key":"60c2e2fd7723bebd86653c19","_id":"references/60c2e2fd7723bebd86653c19","_rev":"_cfFlABC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tIYBen-Shalom\n\t\t\n\t\t\n\t\t\tSRBrozell\n\t\t\n\t\t\n\t\t\tDSCerutti\n\t\t\n\t\t\n\t\t\tCheatham\n\t\t\n\t\t\n\t\t\tTEIii\n\t\t\n\t\t\n\t\t\tVW DCruzeiro\n\t\t\n\t\t\n\t\t\tTADarden\n\t\t\n\t\t\n\t\t\tREDuke\n\t\t\n\t\t\n\t\t\tDGhoreishi\n\t\t\n\t\t\n\t\t\tMKGilson\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tAWGoetz\n\t\t\n\t\t\n\t\t\tDGreene\n\t\t\n\t\t\n\t\t\tRHarris\n\t\t\n\t\t\n\t\t\tNHomeyer\n\t\t\n\t\t\n\t\t\tSIzadi\n\t\t\n\t\t\n\t\t\tAKovalenko\n\t\t\n\t\t\n\t\t\tTKurtzman\n\t\t\n\t\t\n\t\t\tTSLee\n\t\t\n\t\t\n\t\t\tPAKollman\n\t\t\n\t\t\n\t\t\t\n\t\t\t18\n\t\t\tSan Francisco\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\n","document":{"$oid":"60c2e2fd7723bebd86653c17"},"refKey":5},
{"_key":"60c2e2fd7723bebd86653c1a","_id":"references/60c2e2fd7723bebd86653c1a","_rev":"_cfFlABO---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2e2fd7723bebd86653c17"},"refKey":41},
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{"_key":"60c2e3247723bebd86653c30","_id":"references/60c2e3247723bebd86653c30","_rev":"_cfFlABm---","tei":"\n\t\n\t\tCytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t10.1101/gr.1239303\n\t\t14597658\n\t\tPMC403769\n\t\tdoi: 10.1101/ gr.1239303\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2e3247723bebd86653c2f"},"refKey":20},
{"_key":"60c2e3247723bebd86653c31","_id":"references/60c2e3247723bebd86653c31","_rev":"_cfFlABy---","tei":"\n\t\n\t\tcytoHubba: identifying hub objects and sub-networks from complex interactome\n\t\t\n\t\t\tChia-HaoChin\n\t\t\n\t\t\n\t\t\tShu-HwaChen\n\t\t\n\t\t\n\t\t\tHsin-HungWu\n\t\t\n\t\t\n\t\t\tChin-WenHo\n\t\t\n\t\t\n\t\t\tMing-TatKo\n\t\t\n\t\t\n\t\t\tChung-YenLin\n\t\t\n\t\t10.1186/1752-0509-8-s4-s11\n\t\t25521941\n\t\tPMC4290687\n\t\t\n\t\n\t\n\t\tBMC Systems Biology\n\t\tBMC Systems Biology\n\t\t1752-0509\n\t\t\n\t\t\t8\n\t\t\tSuppl 4\n\t\t\tS11\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2e3247723bebd86653c2f"},"refKey":3},
{"_key":"60c2e3247723bebd86653c32","_id":"references/60c2e3247723bebd86653c32","_rev":"_cfFlAC----","tei":"\n\t\n\t\tlimma powers differential expression analyses for RNA-sequencing and microarray studies\n\t\t\n\t\t\tMatthewERitchie\n\t\t\n\t\t\n\t\t\tBelindaPhipson\n\t\t\n\t\t\n\t\t\tDiWu\n\t\t\n\t\t\n\t\t\tYifangHu\n\t\t\n\t\t\n\t\t\tCharityWLaw\n\t\t\n\t\t\n\t\t\tWeiShi\n\t\t\n\t\t\n\t\t\tGordonKSmyth\n\t\t\n\t\t10.1093/nar/gkv007\n\t\t25605792\n\t\tPMC4402510\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e3247723bebd86653c2f"},"refKey":16},
{"_key":"60c2e33b7723bebd86653c5f","_id":"references/60c2e33b7723bebd86653c5f","_rev":"_cfFlACK---","tei":"\n\t\n\t\tIt depends on how you look at it: Scanpath comparison in multiple dimensions with MultiMatch, a vector-based approach\n\t\t\n\t\t\tRichardDewhurst\n\t\t\n\t\t\n\t\t\tMarcusNyström\n\t\t\n\t\t\n\t\t\tHalszkaJarodzka\n\t\t\n\t\t\n\t\t\tTomFoulsham\n\t\t\n\t\t\n\t\t\tRogerJohansson\n\t\t\n\t\t\n\t\t\tKennethHolmqvist\n\t\t\n\t\t10.3758/s13428-012-0212-2\n\t\t22648695\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehav Res\n\t\t1554-3528\n\t\t\n\t\t\t44\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c2e33b7723bebd86653c5e"},"refKey":6},
{"_key":"60c2e3437723bebd86653c68","_id":"references/60c2e3437723bebd86653c68","_rev":"_cfFlACW---","tei":"\n\t\n\t\tANES Raking Implementation. R package 'anesrake' version 0.80\n\t\t\n\t\t\t\n\t\t\n\t\n\tcomputer program\n\n","document":{"$oid":"60c2e3437723bebd86653c67"},"refKey":21},
{"_key":"60c2e3437723bebd86653c69","_id":"references/60c2e3437723bebd86653c69","_rev":"_cfFlACi---","tei":"\n\t\n\t\tIBM SPSS Statistics for Windows\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t\n\t\n\tVersion 25.0 [computer program\n\n","document":{"$oid":"60c2e3437723bebd86653c67"},"refKey":22},
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{"_key":"60c2e37a7723bebd86653c7f","_id":"references/60c2e37a7723bebd86653c7f","_rev":"_cfFlAC6---","tei":"\n\t\n\t\tA Tutorial on RxODE: Simulating Differential Equation Pharmacometric Models in R\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tKMHallow\n\t\t\n\t\t\n\t\t\tDAJames\n\t\t\n\t\t10.1002/psp4.12052\n\t\t26844010\n\t\tPMC4728294\n\t\t\n\t\n\t\n\t\tCPT: Pharmacometrics & Systems Pharmacology\n\t\tCPT Pharmacometrics Syst. Pharmacol.\n\t\t2163-8306\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2e37a7723bebd86653c7e"},"refKey":25},
{"_key":"60c2e3a67723bebd86653c95","_id":"references/60c2e3a67723bebd86653c95","_rev":"_cfFlADG---","tei":"\n\t\n\t\tCPORT: A Consensus Interface Predictor and Its Performance in Prediction-Driven Docking with HADDOCK\n\t\t\n\t\t\tSjoerdJDe Vries\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\n\t\t10.1371/journal.pone.0017695\n\t\t21464987\n\t\tPMC3064578\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t3\n\t\t\te17695\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c2e3a67723bebd86653c94"},"refKey":24},
{"_key":"60c2e3a67723bebd86653c96","_id":"references/60c2e3a67723bebd86653c96","_rev":"_cfFlADS---","tei":"\n\t\n\t\tElliPro: A new structure-based tool for the prediction of antibody epitopes\n\t\t\n\t\t\tJPonomarenko\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t9\n\t\t\t514\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3a67723bebd86653c94"},"refKey":11},
{"_key":"60c2e3a67723bebd86653c97","_id":"references/60c2e3a67723bebd86653c97","_rev":"_cfFlADe---","tei":"\n\t\n\t\tImproving the physical realism and structural accuracy of protein models by a two-step atomic-level energy minimization\n\t\t\n\t\t\tDXu\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\t\n\t\t\t101\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3a67723bebd86653c94"},"refKey":20},
{"_key":"60c2e3a67723bebd86653c98","_id":"references/60c2e3a67723bebd86653c98","_rev":"_cfFlADq---","tei":"\n\t\n\t\tGalaxyRefine: protein structure refinement driven by side-chain repacking\n\t\t\n\t\t\tLimHeo\n\t\t\n\t\t\n\t\t\tHahnbeomPark\n\t\t\n\t\t\n\t\t\tChaokSeok\n\t\t\n\t\t10.1093/nar/gkt458\n\t\t23737448\n\t\tPMC3692086\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e3a67723bebd86653c94"},"refKey":21},
{"_key":"60c2e3a67723bebd86653c99","_id":"references/60c2e3a67723bebd86653c99","_rev":"_cfFlAD2---","tei":"\n\t\n\t\tJCat: a novel tool to adapt codon usage of a target gene to its potential expression host\n\t\t\n\t\t\tAGrote\n\t\t\n\t\t\n\t\t\tKHiller\n\t\t\n\t\t\n\t\t\tMScheer\n\t\t\n\t\t\n\t\t\tRMunch\n\t\t\n\t\t\n\t\t\tBNortemann\n\t\t\n\t\t\n\t\t\tDCHempel\n\t\t\n\t\t\n\t\t\tDJahn\n\t\t\n\t\t10.1093/nar/gki376\n\t\t15980527\n\t\tPMC1160137\n\t\tark:/67375/HXZ-JH20XSRX-9\n\t\t77BE1D08D154F6A77439823FFED9B1A253306E49\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e3a67723bebd86653c94"},"refKey":26},
{"_key":"60c2e3a67723bebd86653c9a","_id":"references/60c2e3a67723bebd86653c9a","_rev":"_cfFlAEC---","tei":"\n\t\n\t\tSimulations Using the CHARMM36 Additive Force Field\n\t\t\n\t\t\tJLee\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3a67723bebd86653c94"},"refKey":32},
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{"_key":"60c2e3a67723bebd86653c9c","_id":"references/60c2e3a67723bebd86653c9c","_rev":"_cfFlAEa---","tei":"\n\t\n\t\tPrediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t10.1186/1471-2105-8-238\n\t\t17608956\n\t\tPMC1939856\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t238\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2e3a67723bebd86653c94"},"refKey":47},
{"_key":"60c2e3b57723bebd86653ce5","_id":"references/60c2e3b57723bebd86653ce5","_rev":"_cfFlAEm---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3b57723bebd86653ce4"},"refKey":40},
{"_key":"60c2e3bf7723bebd86653ce9","_id":"references/60c2e3bf7723bebd86653ce9","_rev":"_cfFlAEy---","tei":"\n\t\n\t\tEngineering a software tool for gene structure prediction in higher organisms\n\t\t\n\t\t\tGordonGremme\n\t\t\n\t\t\n\t\t\tVolkerBrendel\n\t\t\n\t\t\n\t\t\tMichaelESparks\n\t\t\n\t\t\n\t\t\tStefanKurtz\n\t\t\n\t\t10.1016/j.infsof.2005.09.005\n\t\n\t\n\t\tInformation and Software Technology\n\t\tInformation and Software Technology\n\t\t0950-5849\n\t\t\n\t\t\t47\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":70},
{"_key":"60c2e3bf7723bebd86653cea","_id":"references/60c2e3bf7723bebd86653cea","_rev":"_cfFlAF----","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":90},
{"_key":"60c2e3bf7723bebd86653ceb","_id":"references/60c2e3bf7723bebd86653ceb","_rev":"_cfFlAFK---","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":50},
{"_key":"60c2e3bf7723bebd86653cec","_id":"references/60c2e3bf7723bebd86653cec","_rev":"_cfFlAFW---","tei":"\n\t\n\t\tBUSCO applications from quality assessments to gene prediction and phylogenomics\n\t\t\n\t\t\tRobertMWaterhouse\n\t\t\t0000-0003-4199-9052\n\t\t\n\t\t\n\t\t\tMathieuSeppey\n\t\t\t0000-0003-3248-011X\n\t\t\n\t\t\n\t\t\tFelipeASimão\n\t\t\t0000-0002-0656-4080\n\t\t\n\t\t\n\t\t\tMosèManni\n\t\t\n\t\t\n\t\t\tPanagiotisIoannidis\n\t\t\t0000-0003-0939-6745\n\t\t\n\t\t\n\t\t\tGuennadiKlioutchnikov\n\t\t\n\t\t\n\t\t\tEvgeniaVKriventseva\n\t\t\n\t\t\n\t\t\tEvgenyMZdobnov\n\t\t\n\t\t10.1101/177485\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":20},
{"_key":"60c2e3bf7723bebd86653ced","_id":"references/60c2e3bf7723bebd86653ced","_rev":"_cfFlAFi---","tei":"\n\t\n\t\tIlluminating the dark side of the human transcriptome with TAMA Iso-Seq analysis\n\t\t\n\t\t\tRichardIKuo\n\t\t\t0000-0002-7867-7594\n\t\t\n\t\t\n\t\t\tYuanyuanCheng\n\t\t\t0000-0002-1747-9308\n\t\t\n\t\t\n\t\t\tJacquelineSmith\n\t\t\t0000-0002-2813-7872\n\t\t\n\t\t\n\t\t\tAlanLArchibald\n\t\t\t0000-0001-9213-1830\n\t\t\n\t\t\n\t\t\tDavidWBurt\n\t\t\n\t\t10.1101/780015\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tPreprint at\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":78},
{"_key":"60c2e3bf7723bebd86653cee","_id":"references/60c2e3bf7723bebd86653cee","_rev":"_cfFlAFu---","tei":"\n\t\n\t\tGraph-based genome alignment and genotyping with HISAT2 and HISAT-genotype\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tJMPaggi\n\t\t\n\t\t\n\t\t\tCPark\n\t\t\n\t\t\n\t\t\tCBennett\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":77},
{"_key":"60c2e3bf7723bebd86653cef","_id":"references/60c2e3bf7723bebd86653cef","_rev":"_cfFlAF6---","tei":"\n\t\n\t\tCD-HIT: accelerated for clustering the next-generation sequencing data\n\t\t\n\t\t\tLFu\n\t\t\n\t\t\n\t\t\tBNiu\n\t\t\n\t\t\n\t\t\tZZhu\n\t\t\n\t\t\n\t\t\tSWu\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":83},
{"_key":"60c2e3bf7723bebd86653cf0","_id":"references/60c2e3bf7723bebd86653cf0","_rev":"_cfFlAGG---","tei":"\n\t\n\t\tFast Program for Clustering and Comparing Large Sets of Protein or Nucleotide Sequences\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1007/978-1-4899-7478-5_221\n\t\n\t\n\t\tEncyclopedia of Metagenomics\n\t\t\t\t\n\t\t\tSpringer US\n\t\t\t\n\t\t\t22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":84},
{"_key":"60c2e3bf7723bebd86653cf1","_id":"references/60c2e3bf7723bebd86653cf1","_rev":"_cfFlAGS---","tei":"\n\t\n\t\tBLAT-the BLAST-like alignment tool\n\t\t\n\t\t\tWJKent\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":69},
{"_key":"60c2e3bf7723bebd86653cf2","_id":"references/60c2e3bf7723bebd86653cf2","_rev":"_cfFlAGe---","tei":"\n\t\n\t\tPAML 4: phylogenetic analysis by maximum likelihood\n\t\t\n\t\t\tZYang\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":38},
{"_key":"60c2e3bf7723bebd86653cf3","_id":"references/60c2e3bf7723bebd86653cf3","_rev":"_cfFlAGq---","tei":"\n\t\n\t\tAliView: a fast and lightweight alignment viewer and editor for large datasets\n\t\t\n\t\t\tALarsson\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":91},
{"_key":"60c2e3bf7723bebd86653cf4","_id":"references/60c2e3bf7723bebd86653cf4","_rev":"_cfFlAG2---","tei":"\n\t\n\t\tAutomated eukaryotic gene structure annotation using EVidenceModeler and the program to assemble spliced alignments\n\t\t\n\t\t\tBJHaas\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t9\n\t\t\tR7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":79},
{"_key":"60c2e3bf7723bebd86653cf5","_id":"references/60c2e3bf7723bebd86653cf5","_rev":"_cfFlAHC---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAHaeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":26},
{"_key":"60c2e3bf7723bebd86653cf6","_id":"references/60c2e3bf7723bebd86653cf6","_rev":"_cfFlAHO---","tei":"\n\t\n\t\tBRAKER1: unsupervised RNA-seq-based genome annotation with GeneMark-ET and AUGUSTUS\n\t\t\n\t\t\tKJHoff\n\t\t\n\t\t\n\t\t\tSLange\n\t\t\n\t\t\n\t\t\tALomsadze\n\t\t\n\t\t\n\t\t\tMBorodovsky\n\t\t\n\t\t\n\t\t\tMStanke\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3bf7723bebd86653ce8"},"refKey":76},
{"_key":"60c2e3eb7723bebd86653d45","_id":"references/60c2e3eb7723bebd86653d45","_rev":"_cfFlAHa---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e3eb7723bebd86653d44"},"refKey":42},
{"_key":"60c2e3eb7723bebd86653d46","_id":"references/60c2e3eb7723bebd86653d46","_rev":"_cfFlAHm---","tei":"\n\t\n\t\tRDP2: recombination detection and analysis from sequence alignments\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tCWilliamson\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bth490\n\t\t15377507\n\t\tark:/67375/HXZ-1CJ571R5-H\n\t\tFBF994AF07DCF440DBE2361DA623551B56A99871\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e3eb7723bebd86653d44"},"refKey":52},
{"_key":"60c2e3f97723bebd86653d57","_id":"references/60c2e3f97723bebd86653d57","_rev":"_cfFlAHy---","tei":"\n\t\n\t\tBlastAlign: a program that uses blast to align problematic nucleotide sequences\n\t\t\n\t\t\tRBelshaw\n\t\t\n\t\t\n\t\t\tAKatzourakis\n\t\t\n\t\t10.1093/bioinformatics/bth459\n\t\t15310559\n\t\tark:/67375/HXZ-VLRRBB27-5\n\t\t6EC4680F4FE8E429DA1B9391B54E6881583BDF37\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e3f97723bebd86653d56"},"refKey":12},
{"_key":"60c2e4017723bebd86653d66","_id":"references/60c2e4017723bebd86653d66","_rev":"_cfFlAI----","tei":"\n\t\n\t\tMEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Molecular\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tBiology and Evolution\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4017723bebd86653d65"},"refKey":25},
{"_key":"60c2e4097723bebd86653d6d","_id":"references/60c2e4097723bebd86653d6d","_rev":"_cfFlAIK---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap) -A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4097723bebd86653d6c"},"refKey":16},
{"_key":"60c2e45e7723bebd86653dc4","_id":"references/60c2e45e7723bebd86653dc4","_rev":"_cfFlAIW---","tei":"\n\t\n\t\tMissing covariate data in medical research: To impute is better than to ignore\n\t\t\n\t\t\tKristelJ MJanssen\n\t\t\n\t\t\n\t\t\tARogier TDonders\n\t\t\n\t\t\n\t\t\tFrankEHarrell\n\t\t\n\t\t\n\t\t\tYvonneVergouwe\n\t\t\n\t\t\n\t\t\tQingxiaChen\n\t\t\n\t\t\n\t\t\tDiederickEGrobbee\n\t\t\n\t\t\n\t\t\tKarelG MMoons\n\t\t\n\t\t10.1016/j.jclinepi.2009.12.008\n\t\t20338724\n\t\t\n\t\n\t\n\t\tJournal of Clinical Epidemiology\n\t\tJournal of Clinical Epidemiology\n\t\t0895-4356\n\t\t\n\t\t\t63\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2e45e7723bebd86653dc3"},"refKey":17},
{"_key":"60c2e45e7723bebd86653dc5","_id":"references/60c2e45e7723bebd86653dc5","_rev":"_cfFlAIi---","tei":"\n\t\n\t\tMultiple imputation in health-are databases: An overview and some applications\n\t\t\n\t\t\tDonaldBRubin\n\t\t\n\t\t\n\t\t\tNathanielSchenker\n\t\t\n\t\t10.1002/sim.4780100410\n\t\t2057657\n\t\tark:/67375/WNG-B0BH5VJS-9\n\t\tD92A038243032F1759BCCE1F64BA8A840B046BAB\n\t\t\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t1097-0258\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2e45e7723bebd86653dc3"},"refKey":32},
{"_key":"60c2e45e7723bebd86653dc6","_id":"references/60c2e45e7723bebd86653dc6","_rev":"_cfFlAIu---","tei":"\n\t\n\t\tAnalysis of Incomplete Multivariate Data\n\t\t\n\t\t\tJLSchafer\n\t\t\n\t\t\n\t\t\t\n\t\t\tCRC Press\n\t\t\n\t\n\n","document":{"$oid":"60c2e45e7723bebd86653dc3"},"refKey":33},
{"_key":"60c2e46a7723bebd86653dcc","_id":"references/60c2e46a7723bebd86653dcc","_rev":"_cfFlAI6---","tei":"\n\t\n\t\tElegant Graphics for Data Analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\tCham, Switzerland\n\t\t\n\t\n\t2nd edition\n\n","document":{"$oid":"60c2e46a7723bebd86653dcb"},"refKey":35},
{"_key":"60c2e4727723bebd86653dd4","_id":"references/60c2e4727723bebd86653dd4","_rev":"_cfFlAJG---","tei":"\n\t\n\t\tUnited Nations Development Program\n\t\n\t\n\t\tUnited Nations Development Programme\n\t\t\n\t\t\t\n\t\t\n\t\n\tHuman Development Report\n\n","document":{"$oid":"60c2e4727723bebd86653dd3"},"refKey":1},
{"_key":"60c2e4797723bebd86653dd9","_id":"references/60c2e4797723bebd86653dd9","_rev":"_cfFlAJS---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4797723bebd86653dd8"},"refKey":26},
{"_key":"60c2e4797723bebd86653dda","_id":"references/60c2e4797723bebd86653dda","_rev":"_cfFlAJe---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t357\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4797723bebd86653dd8"},"refKey":30},
{"_key":"60c2e4937723bebd86653e01","_id":"references/60c2e4937723bebd86653e01","_rev":"_cfFlAJq---","tei":"\n\t\n\t\tMatplotlib: a 2D graphics environment\n\t\t\n\t\t\tJDHunter\n\t\t\n\t\n\t\n\t\tComput. Sci. Eng\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4937723bebd86653e00"},"refKey":13},
{"_key":"60c2e4937723bebd86653e02","_id":"references/60c2e4937723bebd86653e02","_rev":"_cfFlAJ2---","tei":"\n\t\n\t\tCOSRE: COVID-19 community social risk estimator\n\t\t\n\t\t\tZSun\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4937723bebd86653e00"},"refKey":28},
{"_key":"60c2e4937723bebd86653e03","_id":"references/60c2e4937723bebd86653e03","_rev":"_cfFlAKC---","tei":"\n\t\n\t\tGeoPandas: Python tools for geographic data\n\t\t\n\t\t\tKJordahl\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4937723bebd86653e00"},"refKey":14},
{"_key":"60c2e4937723bebd86653e04","_id":"references/60c2e4937723bebd86653e04","_rev":"_cfFlAKO---","tei":"\n\t\n\t\tPyShp: this library reads and writes ESRI shapefiles in pure Python\n\t\t\n\t\t\tPyshp\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tSafeGraph Places Patterns Data\n\n","document":{"$oid":"60c2e4937723bebd86653e00"},"refKey":26},
{"_key":"60c2e4937723bebd86653e05","_id":"references/60c2e4937723bebd86653e05","_rev":"_cfFlAKa---","tei":"\n\t\n\t\tGeoDa: An Introduction to Spatial Data Analysis\n\t\t\n\t\t\tLucAnselin\n\t\t\n\t\t\n\t\t\tIbnuSyabri\n\t\t\n\t\t\n\t\t\tYoungihnKho\n\t\t\n\t\t10.1007/978-3-642-03647-7_5\n\t\n\t\n\t\tHandbook of Applied Spatial Analysis\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4937723bebd86653e00"},"refKey":1},
{"_key":"60c2e4cc7723bebd86653e42","_id":"references/60c2e4cc7723bebd86653e42","_rev":"_cfFlAKm---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e4cc7723bebd86653e41"},"refKey":56},
{"_key":"60c2e4cc7723bebd86653e43","_id":"references/60c2e4cc7723bebd86653e43","_rev":"_cfFlAKy---","tei":"\n\t\n\t\tIslandViewer 4: expanded prediction of genomic islands for larger-scale datasets\n\t\t\n\t\t\tClaireBertelli\n\t\t\n\t\t\n\t\t\tMatthewRLaird\n\t\t\n\t\t\n\t\t\tKellyPWilliams\n\t\t\n\t\t\n\t\t\tBritneyYLau\n\t\t\n\t\t\n\t\t\tGemmaHoad\n\t\t\n\t\t\n\t\t\tGeoffreyLWinsor\n\t\t\t0000-0001-6848-1638\n\t\t\n\t\t\n\t\t\tFionaSlBrinkman\n\t\t\n\t\t10.1093/nar/gkx343\n\t\t28472413\n\t\tPMC5570257\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e4cc7723bebd86653e41"},"refKey":15},
{"_key":"60c2e4f87723bebd86653e62","_id":"references/60c2e4f87723bebd86653e62","_rev":"_cfFlAL----","tei":"\n\t\n\t\tLIBSVM: A Library for support vector machines\n\t\t\n\t\t\tCCChang\n\t\t\n\t\t\n\t\t\tCJLin\n\t\t\n\t\n\t\n\t\tACM Trans Intell Syst Technol\n\t\t\n\t\t\t2\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4f87723bebd86653e61"},"refKey":11},
{"_key":"60c2e4f87723bebd86653e63","_id":"references/60c2e4f87723bebd86653e63","_rev":"_cfFlALK---","tei":"\n\t\n\t\tCD-HIT Suite: a web server for clustering and comparing biological sequences\n\t\t\n\t\t\tYingHuang\n\t\t\n\t\t\n\t\t\tBeifangNiu\n\t\t\n\t\t\n\t\t\tYingGao\n\t\t\n\t\t\n\t\t\tLiminFu\n\t\t\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t10.1093/bioinformatics/btq003\n\t\t20053844\n\t\tPMC2828112\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e4f87723bebd86653e61"},"refKey":6},
{"_key":"60c2e4fa7723bebd86653e6c","_id":"references/60c2e4fa7723bebd86653e6c","_rev":"_cfFlALW---","tei":"\n\t\n\t\tGROMACS: high performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\n\t\n\t\tSoftwareX\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4fa7723bebd86653e6b"},"refKey":72},
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{"_key":"60c2e4fa7723bebd86653e70","_id":"references/60c2e4fa7723bebd86653e70","_rev":"_cfFlAMG---","tei":"\n\t\n\t\tMAFFT online service: multiple sequence alignment, interactive sequence choice and visualization\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tJRozewicki\n\t\t\n\t\t\n\t\t\tKDYamada\n\t\t\n\t\n\t\n\t\tBriefings Bioinf\n\t\t\n\t\t\t20\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4fa7723bebd86653e6b"},"refKey":16},
{"_key":"60c2e4fa7723bebd86653e71","_id":"references/60c2e4fa7723bebd86653e71","_rev":"_cfFlAMS---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tL.-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAHaeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4fa7723bebd86653e6b"},"refKey":17},
{"_key":"60c2e4fa7723bebd86653e72","_id":"references/60c2e4fa7723bebd86653e72","_rev":"_cfFlAMe---","tei":"\n\t\n\t\tInteractive Tree of Life (iTOL): an online tool for phylogenetic tree display and annotation\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4fa7723bebd86653e6b"},"refKey":18},
{"_key":"60c2e4fa7723bebd86653e73","_id":"references/60c2e4fa7723bebd86653e73","_rev":"_cfFlAMq---","tei":"\n\t\n\t\tPDB-wide identification of biological assemblies from conserved quaternary structure geometry\n\t\t\n\t\t\tSucharitaDey\n\t\t\n\t\t\n\t\t\tDavidWRitchie\n\t\t\n\t\t\n\t\t\tEmmanuelDLevy\n\t\t\t0000-0001-8959-7365\n\t\t\n\t\t10.1038/nmeth.4510\n\t\t29155427\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2e4fa7723bebd86653e6b"},"refKey":22},
{"_key":"60c2e4fa7723bebd86653e74","_id":"references/60c2e4fa7723bebd86653e74","_rev":"_cfFlAM2---","tei":"\n\t\n\t\tPotent binding of 2019 novel coronavirus spike protein by a SARS coronavirusspecific human monoclonal antibody\n\t\t\n\t\t\tXTian\n\t\t\n\t\t\n\t\t\tCLi\n\t\t\n\t\t\n\t\t\tAHuang\n\t\t\n\t\t\n\t\t\tSXia\n\t\t\n\t\t\n\t\t\tSLu\n\t\t\n\t\t\n\t\t\tZShi\n\t\t\n\t\t\n\t\t\tLLu\n\t\t\n\t\t\n\t\t\tSJiang\n\t\t\n\t\t\n\t\t\tZYang\n\t\t\n\t\t\n\t\t\tYWu\n\t\t\n\t\t\n\t\t\tTYing\n\t\t\n\t\n\t\n\t\tEmerg. Microb. Infect\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e4fa7723bebd86653e6b"},"refKey":48},
{"_key":"60c2e50b7723bebd86653e8f","_id":"references/60c2e50b7723bebd86653e8f","_rev":"_cfFlANC---","tei":"\n\t\n\t\tMEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph\n\t\t\n\t\t\tDinghuaLi\n\t\t\n\t\t\n\t\t\tChi-ManLiu\n\t\t\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tKunihikoSadakane\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t10.1093/bioinformatics/btv033\n\t\t25609793\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":93},
{"_key":"60c2e50b7723bebd86653e90","_id":"references/60c2e50b7723bebd86653e90","_rev":"_cfFlANO---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":90},
{"_key":"60c2e50b7723bebd86653e91","_id":"references/60c2e50b7723bebd86653e91","_rev":"_cfFlANa---","tei":"\n\t\n\t\tGene and translation initiation site prediction in metagenomic sequences\n\t\t\n\t\t\tDougHyatt\n\t\t\n\t\t\n\t\t\tPhilipFLocascio\n\t\t\n\t\t\n\t\t\tLorenJHauser\n\t\t\n\t\t\n\t\t\tEdwardCUberbacher\n\t\t\n\t\t10.1093/bioinformatics/bts429\n\t\t22796954\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":95},
{"_key":"60c2e50b7723bebd86653e92","_id":"references/60c2e50b7723bebd86653e92","_rev":"_cfFlANm---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJOksanen\n\t\t\n\t\t\n\t\t\tFGBlanchet\n\t\t\n\t\t\n\t\t\tMFriendly\n\t\t\n\t\t\n\t\t\tRKindt\n\t\t\n\t\t\n\t\t\tPLegendre\n\t\t\n\t\t\n\t\t\tDMcglinn\n\t\t\n\t\t\n\t\n\t\n\t\tCommunity Ecology\n\t\t\n\t\t\t\n\t\t\n\t\n\tAccessed April 3, 2020\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":51},
{"_key":"60c2e50b7723bebd86653e93","_id":"references/60c2e50b7723bebd86653e93","_rev":"_cfFlANy---","tei":"\n\t\n\t\tHypothesis testing and statistical analysis of microbiome\n\t\t\n\t\t\tYinglinXia\n\t\t\n\t\t\n\t\t\tJunSun\n\t\t\t0000-0001-7465-3133\n\t\t\n\t\t10.1016/j.gendis.2017.06.001\n\t\t30197908\n\t\tPMC6128532\n\t\n\t\n\t\tGenes & Diseases\n\t\tGenes & Diseases\n\t\t2352-3042\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":76},
{"_key":"60c2e50b7723bebd86653e94","_id":"references/60c2e50b7723bebd86653e94","_rev":"_cfFlAO----","tei":"\n\t\n\t\tmetaSPAdes: a new versatile metagenomic assembler\n\t\t\n\t\t\tSergeyNurk\n\t\t\n\t\t\n\t\t\tDmitryMeleshko\n\t\t\n\t\t\n\t\t\tAntonKorobeynikov\n\t\t\t0000-0002-2937-9259\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1101/gr.213959.116\n\t\t28298430\n\t\tPMC5411777\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t27\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":94},
{"_key":"60c2e50b7723bebd86653e95","_id":"references/60c2e50b7723bebd86653e95","_rev":"_cfFlAOO---","tei":"\n\t\n\t\tProkka: rapid prokaryotic genome annotation\n\t\t\n\t\t\tTSeemann\n\t\t\n\t\t10.1093/bioinformat-ics/btu153\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":96},
{"_key":"60c2e50b7723bebd86653e96","_id":"references/60c2e50b7723bebd86653e96","_rev":"_cfFlAOa---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/bioin-formatics/btq461\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":77},
{"_key":"60c2e50b7723bebd86653e97","_id":"references/60c2e50b7723bebd86653e97","_rev":"_cfFlAOm---","tei":"\n\t\n\t\tMetaGeneAnnotator: Detecting Species-Specific Patterns of Ribosomal Binding Site for Precise Gene Prediction in Anonymous Prokaryotic and Phage Genomes\n\t\t\n\t\t\tHNoguchi\n\t\t\n\t\t\n\t\t\tTTaniguchi\n\t\t\n\t\t\n\t\t\tTItoh\n\t\t\n\t\t10.1093/dnares/dsn027\n\t\t18940874\n\t\tPMC2608843\n\t\t\n\t\n\t\n\t\tDNA Research\n\t\tDNA Research\n\t\t1340-2838\n\t\t1756-1663\n\t\t\n\t\t\t15\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":97},
{"_key":"60c2e50b7723bebd86653e98","_id":"references/60c2e50b7723bebd86653e98","_rev":"_cfFlAOy---","tei":"\n\t\n\t\tVSEARCH: a versatile open source tool for metagenomics\n\t\t\n\t\t\tTorbjørnRognes\n\t\t\n\t\t\n\t\t\tTomášFlouri\n\t\t\n\t\t\n\t\t\tBenNichols\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tFrédéricMahé\n\t\t\n\t\t10.7717/peerj.2584\n\t\t27781170\n\t\tPMC5075697\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t4\n\t\t\te2584\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":78},
{"_key":"60c2e50b7723bebd86653e99","_id":"references/60c2e50b7723bebd86653e99","_rev":"_cfFlAP----","tei":"\n\t\n\t\tAb initio gene identification in metagenomic sequences\n\t\t\n\t\t\tWenhanZhu\n\t\t\n\t\t\n\t\t\tAlexandreLomsadze\n\t\t\n\t\t\n\t\t\tMarkBorodovsky\n\t\t\n\t\t10.1093/nar/gkq275\n\t\t20403810\n\t\tPMC2896542\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":98},
{"_key":"60c2e50b7723bebd86653e9a","_id":"references/60c2e50b7723bebd86653e9a","_rev":"_cfFlAPK---","tei":"\n\t\n\t\tIntroducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities\n\t\t\n\t\t\tPDSchloss\n\t\t\n\t\t\n\t\t\tSLWestcott\n\t\t\n\t\t\n\t\t\tTRyabin\n\t\t\n\t\t\n\t\t\tJRHall\n\t\t\n\t\t\n\t\t\tMHartmann\n\t\t\n\t\t\n\t\t\tEBHollister\n\t\t\n\t\t\n\t\t\tRALesniewski\n\t\t\n\t\t\n\t\t\tBBOakley\n\t\t\n\t\t\n\t\t\tDHParks\n\t\t\n\t\t\n\t\t\tCJRobinson\n\t\t\n\t\t\n\t\t\tJWSahl\n\t\t\n\t\t\n\t\t\tBStres\n\t\t\n\t\t\n\t\t\tGGThallinger\n\t\t\n\t\t\n\t\t\tDJVan Horn\n\t\t\n\t\t\n\t\t\tCFWeber\n\t\t\n\t\t10.1128/aem.01541-09\n\t\t19801464\n\t\tPMC2786419\n\t\t\n\t\n\t\n\t\tApplied and Environmental Microbiology\n\t\tApplied and Environmental Microbiology\n\t\t0099-2240\n\t\t\n\t\t\t75\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":79},
{"_key":"60c2e50b7723bebd86653e9b","_id":"references/60c2e50b7723bebd86653e9b","_rev":"_cfFlAPa---","tei":"\n\t\n\t\tGene prediction with Glimmer for metagenomic sequences augmented by classification and clustering\n\t\t\n\t\t\tDavidRKelley\n\t\t\n\t\t\n\t\t\tBoLiu\n\t\t\n\t\t\n\t\t\tArthurLDelcher\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1093/nar/gkr1067\n\t\t22102569\n\t\tPMC3245904\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":99},
{"_key":"60c2e50b7723bebd86653e9c","_id":"references/60c2e50b7723bebd86653e9c","_rev":"_cfFlAPm---","tei":"\n\t\n\t\tGene prediction in metagenomic fragments based on the SVM algorithm\n\t\t\n\t\t\tYongchuLiu\n\t\t\n\t\t\n\t\t\tJiangtaoGuo\n\t\t\n\t\t\n\t\t\tGangqingHu\n\t\t\n\t\t\n\t\t\tHuaiqiuZhu\n\t\t\n\t\t10.1186/1471-2105-14-s5-s12\n\t\t23735199\n\t\tPMC3622649\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t14\n\t\t\tSuppl 5\n\t\t\tS12\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":100},
{"_key":"60c2e50b7723bebd86653e9d","_id":"references/60c2e50b7723bebd86653e9d","_rev":"_cfFlAPy---","tei":"\n\t\n\t\tOrphelia: predicting genes in metagenomic sequencing reads\n\t\t\n\t\t\tKatharinaJHoff\n\t\t\n\t\t\n\t\t\tThomasLingner\n\t\t\n\t\t\n\t\t\tPeterMeinicke\n\t\t\n\t\t\n\t\t\tMaikeTech\n\t\t\n\t\t10.1093/nar/gkp327\n\t\t19429689\n\t\tPMC2703946\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e50b7723bebd86653e8e"},"refKey":102},
{"_key":"60c2e5267723bebd86653ebe","_id":"references/60c2e5267723bebd86653ebe","_rev":"_cfFlAQ----","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLWang Le\n\t\t\n\t\t\n\t\t\tMCoon\n\t\t\n\t\t\n\t\t\tTNguyen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tSJLand\n\t\t\n\t\t\n\t\t\tXLu\n\t\t\n\t\t\n\t\t\tDMRuden\n\t\t\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\tiso-2; iso-3. Fly (Austin) 2012\n\n","document":{"$oid":"60c2e5267723bebd86653ebd"},"refKey":33},
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{"_key":"60c2e56c7723bebd86653ef8","_id":"references/60c2e56c7723bebd86653ef8","_rev":"_cfFlAQ6---","tei":"\n\t\n\t\tHPEPDOCK: a web server for blind peptide–protein docking based on a hierarchical algorithm\n\t\t\n\t\t\tPeiZhou\n\t\t\n\t\t\n\t\t\tBowenJin\n\t\t\n\t\t\n\t\t\tHaoLi\n\t\t\n\t\t\n\t\t\tSheng-YouHuang\n\t\t\n\t\t10.1093/nar/gky357\n\t\t29746661\n\t\tPMC6030929\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e56c7723bebd86653ef5"},"refKey":46},
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{"_key":"60c2e59c7723bebd86653f20","_id":"references/60c2e59c7723bebd86653f20","_rev":"_cfFlASC---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e59c7723bebd86653f1d"},"refKey":45},
{"_key":"60c2e5be7723bebd86653f30","_id":"references/60c2e5be7723bebd86653f30","_rev":"_cfFlASO---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t10\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e5be7723bebd86653f2f"},"refKey":28},
{"_key":"60c2e5be7723bebd86653f31","_id":"references/60c2e5be7723bebd86653f31","_rev":"_cfFlASa---","tei":"\n\t\n\t\tA Combined Transmembrane Topology and Signal Peptide Prediction Method\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1016/j.jmb.2004.03.016\n\t\t15111065\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t338\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2e5be7723bebd86653f2f"},"refKey":30},
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{"_key":"60c2e6057723bebd86653f81","_id":"references/60c2e6057723bebd86653f81","_rev":"_cfFlATO---","tei":"\n\t\n\t\tR: a Language and Environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c2e6057723bebd86653f80"},"refKey":12},
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{"_key":"60c2e6607723bebd86653fcc","_id":"references/60c2e6607723bebd86653fcc","_rev":"_cfFlAUW---","tei":"\n\t\n\t\tAn introduction to ArcView GIS\n\t\t\n\t\t\tWHShayya\n\t\t\n\t\t\n\t\t\t\n\t\t\tMorrisville State College; Morrisville State College\n\t\t\n\t\n\n","document":{"$oid":"60c2e6607723bebd86653fc9"},"refKey":14},
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{"_key":"60c2e6607723bebd86653fd1","_id":"references/60c2e6607723bebd86653fd1","_rev":"_cfFlAVW---","tei":"\n\t\n\t\tDatamonkey: rapid detection of selective pressure on individual sites of codon alignments\n\t\t\n\t\t\tSLPond\n\t\t\n\t\t\n\t\t\tSDFrost\n\t\t\n\t\t15713735\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e6607723bebd86653fc9"},"refKey":26},
{"_key":"60c2e6607723bebd86653fd2","_id":"references/60c2e6607723bebd86653fd2","_rev":"_cfFlAVi---","tei":"\n\t\n\t\tDetecting Signatures of Selection from DNA Sequences Using Datamonkey\n\t\t\n\t\t\tArtF YPoon\n\t\t\n\t\t\n\t\t\tSimonD WFrost\n\t\t\n\t\t\n\t\t\tSergeiL KosakovskyPond\n\t\t\n\t\t10.1007/978-1-59745-251-9_8\n\t\t19378144\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t537\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e6607723bebd86653fc9"},"refKey":27},
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{"_key":"60c2e6727723bebd86653fe5","_id":"references/60c2e6727723bebd86653fe5","_rev":"_cfFlAWK---","tei":"\n\t\n\t\tAutomatic Classification of Artifactual ICA-Components for Artifact Removal in EEG Signals\n\t\t\n\t\t\tIreneWinkler\n\t\t\n\t\t\n\t\t\tStefanHaufe\n\t\t\n\t\t\n\t\t\tMichaelTangermann\n\t\t\n\t\t10.1186/1744-9081-7-30\n\t\t21810266\n\t\tPMC3175453\n\t\t\n\t\n\t\n\t\tBehavioral and Brain Functions\n\t\tBehavioral and Brain Functions\n\t\t1744-9081\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t30\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\t30. [CrossRef\n\n","document":{"$oid":"60c2e6727723bebd86653fe2"},"refKey":30},
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{"_key":"60c2e6727723bebd86653fe7","_id":"references/60c2e6727723bebd86653fe7","_rev":"_cfFlAWi---","tei":"\n\t\n\t\tADJUST: An automatic EEG artifact detector based on the joint use of spatial and temporal features\n\t\t\n\t\t\tAndreaMognon\n\t\t\n\t\t\n\t\t\tJorgeJovicich\n\t\t\n\t\t\n\t\t\tLorenzoBruzzone\n\t\t\n\t\t\n\t\t\tMarcoBuiatti\n\t\t\n\t\t10.1111/j.1469-8986.2010.01061.x\n\t\t20636297\n\t\tark:/67375/WNG-K68524L6-H\n\t\tB32DA8FE3C28E6DCD51D97F105D706ED214D0C7B\n\t\n\t\n\t\tPsychophysiology\n\t\t0048-5772\n\t\t\n\t\t\t48\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2e6727723bebd86653fe2"},"refKey":32},
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{"_key":"60c2e6727723bebd86653fe9","_id":"references/60c2e6727723bebd86653fe9","_rev":"_cfFlAW6---","tei":"\n\t\n\t\tClassification of independent components of EEG into multiple artifact classes\n\t\t\n\t\t\tLauraFrølich\n\t\t\n\t\t\n\t\t\tTobiasSAndersen\n\t\t\n\t\t\n\t\t\tMortenMørup\n\t\t\n\t\t10.1111/psyp.12290\n\t\t25048104\n\t\tark:/67375/WNG-W98TV092-D\n\t\tAE2C1D4093F0832EC8CD7B173678541C3D3DEE9E\n\t\t\n\t\n\t\n\t\tPsychophysiology\n\t\tPsychophysiol\n\t\t0048-5772\n\t\t\n\t\t\t52\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2e6727723bebd86653fe2"},"refKey":35},
{"_key":"60c2e6727723bebd86653fea","_id":"references/60c2e6727723bebd86653fea","_rev":"_cfFlAXG---","tei":"\n\t\n\t\tA practical guide to the selection of independent components of the electroencephalogram for artifact correction\n\t\t\n\t\t\tMaximilienChaumon\n\t\t\n\t\t\n\t\t\tDorothyV MBishop\n\t\t\n\t\t\n\t\t\tNikoABusch\n\t\t\n\t\t10.1016/j.jneumeth.2015.02.025\n\t\t25791012\n\t\n\t\n\t\tJournal of Neuroscience Methods\n\t\tJournal of Neuroscience Methods\n\t\t0165-0270\n\t\t\n\t\t\t250\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2e6727723bebd86653fe2"},"refKey":36},
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{"_key":"60c2e6d37723bebd8665403e","_id":"references/60c2e6d37723bebd8665403e","_rev":"_cfFlAYC---","tei":"\n\t\n\t\tA dynamic programming algorithm for RNA structure prediction including pseudoknots 1 1Edited by I. Tinoco\n\t\t\n\t\t\tElenaRivas\n\t\t\n\t\t\n\t\t\tSeanREddy\n\t\t\n\t\t10.1006/jmbi.1998.2436\n\t\t9925784\n\t\tS0022-2836(98)92436-6\n\t\tark:/67375/6H6-8BBVHDVB-8\n\t\t32753390B27921164FBA3E4055A8A72B3524A63F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t285\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2e6d37723bebd8665403d"},"refKey":68},
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{"_key":"60c2e6d37723bebd86654041","_id":"references/60c2e6d37723bebd86654041","_rev":"_cfFlAYm---","tei":"\n\t\n\t\tOrnithine decarboxylase antizyme finder (OAF): Fast and reliable detection of antizymes with frameshifts in mRNAs\n\t\t\n\t\t\tMichaelBekaert\n\t\t\n\t\t\n\t\t\tIvayloPIvanov\n\t\t\n\t\t\n\t\t\tJohnFAtkins\n\t\t\n\t\t\n\t\t\tPavelVBaranov\n\t\t\n\t\t10.1186/1471-2105-9-178\n\t\t18384676\n\t\tPMC2375905\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t178\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2e6d37723bebd8665403d"},"refKey":8},
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{"_key":"60c2e8be7723bebd86654256","_id":"references/60c2e8be7723bebd86654256","_rev":"_cfFlAfi---","tei":"\n\t\n\t\tRELION-3: new tools for automated high-resolution cryo-EM structure determination\n\t\t\n\t\t\tJasenkoZivanov\n\t\t\t0000-0001-8407-0759\n\t\t\n\t\t\n\t\t\tTakanoriNakane\n\t\t\t0000-0003-2697-2767\n\t\t\n\t\t\n\t\t\tBjörnForsberg\n\t\t\t0000-0002-6247-4063\n\t\t\n\t\t\n\t\t\tDariKimanius\n\t\t\t0000-0002-2662-6373\n\t\t\n\t\t\n\t\t\tWimJ HHagen\n\t\t\t0000-0001-6229-2692\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\t0000-0002-2734-2794\n\t\t\n\t\t\n\t\t\tSjorsH WScheres\n\t\t\t0000-0002-0462-6540\n\t\t\n\t\t10.1101/421123\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tdetermination in RELION-3. eLife 7\n\n","document":{"$oid":"60c2e8be7723bebd86654252"},"refKey":55},
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{"_key":"60c2e9a47723bebd86654318","_id":"references/60c2e9a47723bebd86654318","_rev":"_cfFlAiC---","tei":"\n\t\n\t\tFast and accurate reference-guided scaffolding of draft genomes\n\t\t\n\t\t\tMichaelAlonge\n\t\t\n\t\t\n\t\t\tSebastianSoyk\n\t\t\n\t\t\n\t\t\tSrividyaRamakrishnan\n\t\t\n\t\t\n\t\t\tXingangWang\n\t\t\n\t\t\n\t\t\tSaraGoodwin\n\t\t\n\t\t\n\t\t\tFritzJSedlazeck\n\t\t\n\t\t\n\t\t\tZacharyBLippman\n\t\t\n\t\t\n\t\t\tMichaelCSchatz\n\t\t\n\t\t10.1101/519637\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t224\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2e9a47723bebd86654314"},"refKey":1},
{"_key":"60c2e9a47723bebd86654319","_id":"references/60c2e9a47723bebd86654319","_rev":"_cfFlAiO---","tei":"\n\t\n\t\tJuicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom\n\t\t\n\t\t\tNevaCDurand\n\t\t\n\t\t\n\t\t\tJamesTRobinson\n\t\t\n\t\t\n\t\t\tMuhammadSShamim\n\t\t\n\t\t\n\t\t\tIdoMachol\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t\n\t\t\tEricSLander\n\t\t\n\t\t\n\t\t\tErezLiebermanAiden\n\t\t\n\t\t10.1016/j.cels.2015.07.012\n\t\t27467250\n\t\tPMC5596920\n\t\t\n\t\n\t\n\t\tCell Systems\n\t\tCell Systems\n\t\t2405-4712\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2e9a47723bebd86654314"},"refKey":9},
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{"_key":"60c2e9a47723bebd8665431b","_id":"references/60c2e9a47723bebd8665431b","_rev":"_cfFlAim---","tei":"\n\t\n\t\tVersatile genome assembly evaluation with QUAST-LG\n\t\t\n\t\t\tAMikheenko\n\t\t\n\t\t\n\t\t\tAPrjibelski\n\t\t\n\t\t\n\t\t\tVSaveliev\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAGurevich\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e9a47723bebd86654314"},"refKey":36},
{"_key":"60c2e9a47723bebd8665431c","_id":"references/60c2e9a47723bebd8665431c","_rev":"_cfFlAiy---","tei":"\n\t\n\t\tANGSD: Analysis of next generation sequencing data\n\t\t\n\t\t\tTSKorneliussen\n\t\t\n\t\t\n\t\t\tAAlbrechtsen\n\t\t\n\t\t\n\t\t\tRNielsen\n\t\t\n\t\n\t\n\t\tBMC Bioinf\n\t\t\n\t\t\t15\n\t\t\t356\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e9a47723bebd86654314"},"refKey":22},
{"_key":"60c2e9a47723bebd8665431d","_id":"references/60c2e9a47723bebd8665431d","_rev":"_cfFlAj----","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e9a47723bebd86654314"},"refKey":25},
{"_key":"60c2e9a47723bebd8665431e","_id":"references/60c2e9a47723bebd8665431e","_rev":"_cfFlAjK---","tei":"\n\t\n\t\tDe novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds\n\t\t\n\t\t\tOlgaDudchenko\n\t\t\t0000-0001-9163-9544\n\t\t\n\t\t\n\t\t\tSanjitSBatra\n\t\t\n\t\t\n\t\t\tArinaDOmer\n\t\t\n\t\t\n\t\t\tSarahKNyquist\n\t\t\n\t\t\n\t\t\tMarieHoeger\n\t\t\t0000-0002-7175-0736\n\t\t\n\t\t\n\t\t\tNevaCDurand\n\t\t\n\t\t\n\t\t\tMuhammadSShamim\n\t\t\t0000-0002-2600-5147\n\t\t\n\t\t\n\t\t\tIdoMachol\n\t\t\t0000-0001-9042-2765\n\t\t\n\t\t\n\t\t\tEricSLander\n\t\t\t0000-0003-2662-4631\n\t\t\n\t\t\n\t\t\tAvivaPresserAiden\n\t\t\t0000-0002-5445-0969\n\t\t\n\t\t\n\t\t\tErezLiebermanAiden\n\t\t\t0000-0003-0634-6486\n\t\t\n\t\t10.1126/science.aal3327\n\t\t28336562\n\t\tPMC5635820\n\t\t\n\t\n\t\n\t\tScience\n\t\tScience\n\t\t0036-8075\n\t\t1095-9203\n\t\t\n\t\t\t356\n\t\t\t6333\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c2e9a47723bebd86654314"},"refKey":8},
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{"_key":"60c2e9c47723bebd86654358","_id":"references/60c2e9c47723bebd86654358","_rev":"_cfFlAju---","tei":"\n\t\n\t\tFoundations of statistical natural language processing\n\t\t\n\t\t\tCDManning\n\t\t\t\n\t\t\t\tSIGMOD Rec.\n\t\t\t\n\t\t\n\t\t\n\t\t\tHSchütze\n\t\t\t\n\t\t\t\tSIGMOD Rec.\n\t\t\t\n\t\t\n\t\t\n\t\t\tGWeikurn\n\t\t\t\n\t\t\t\tSIGMOD Rec.\n\t\t\t\n\t\t\n\t\t10.1145/601858.601867\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e9c47723bebd86654357"},"refKey":20},
{"_key":"60c2e9cb7723bebd86654362","_id":"references/60c2e9cb7723bebd86654362","_rev":"_cfFlAj6---","tei":"\n\t\n\t\tContour-enhanced funnel plots for meta-analysis\n\t\t\n\t\t\tTMPalmer\n\t\t\n\t\t\n\t\t\tJLPeters\n\t\t\n\t\t\n\t\t\tAJSutton\n\t\t\n\t\t\n\t\t\tSGMoreno\n\t\t\n\t\n\t\n\t\tStata Journal\n\t\t\n\t\t\t8\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e9cb7723bebd86654361"},"refKey":10},
{"_key":"60c2e9f37723bebd86654379","_id":"references/60c2e9f37723bebd86654379","_rev":"_cfFlAkG---","tei":"\n\t\n\t\tPhylogenetic analysis using parsimony (*and other methods). Version 4\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\t\n\t\t\tPaup*\n\t\t\n\t\t\n\t\t\t\n\t\t\tSinauer Associates\n\t\t\tSunderland (MA\n\t\t\n\t\n\n","document":{"$oid":"60c2e9f37723bebd86654378"},"refKey":33},
{"_key":"60c2e9f37723bebd8665437a","_id":"references/60c2e9f37723bebd8665437a","_rev":"_cfFlAkS---","tei":"\n\t\n\t\tAnalysis for free: Comparing programs for sequence analysis\n\t\t\n\t\t\tH-FFTippmann\n\t\t\n\t\t10.1093/bib/5.1.82\n\t\t15153308\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2e9f37723bebd86654378"},"refKey":31},
{"_key":"60c2e9f37723bebd8665437b","_id":"references/60c2e9f37723bebd8665437b","_rev":"_cfFlAke---","tei":"\n\t\n\t\tMODELTEST: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2e9f37723bebd86654378"},"refKey":34},
{"_key":"60c2ea077723bebd86654394","_id":"references/60c2ea077723bebd86654394","_rev":"_cfFlAkq---","tei":"\n\t\n\t\tReciprocal coupling of coagulation and innate immunity via neutrophil serine proteases\n\t\t\n\t\t\tSteffenMassberg\n\t\t\n\t\t\n\t\t\tLenkaGrahl\n\t\t\n\t\t\n\t\t\tMarie-LuiseVon Bruehl\n\t\t\n\t\t\n\t\t\tDavitManukyan\n\t\t\n\t\t\n\t\t\tSusannePfeiler\n\t\t\n\t\t\n\t\t\tChristianGoosmann\n\t\t\n\t\t\n\t\t\tVolkerBrinkmann\n\t\t\n\t\t\n\t\t\tMichaelLorenz\n\t\t\n\t\t\n\t\t\tKirilBidzhekov\n\t\t\n\t\t\n\t\t\tAvinashBKhandagale\n\t\t\n\t\t\n\t\t\tIldikoKonrad\n\t\t\n\t\t\n\t\t\tElisabethKennerknecht\n\t\t\n\t\t\n\t\t\tKatjaReges\n\t\t\n\t\t\n\t\t\tStefanHoldenrieder\n\t\t\n\t\t\n\t\t\tSiegmundBraun\n\t\t\n\t\t\n\t\t\tChristophReinhardt\n\t\t\n\t\t\n\t\t\tMichaelSpannagl\n\t\t\n\t\t\n\t\t\tKlausTPreissner\n\t\t\n\t\t\n\t\t\tBerndEngelmann\n\t\t\n\t\t10.1038/nm.2184\n\t\t20676107\n\t\n\t\n\t\tNature Medicine\n\t\tNat Med\n\t\t1078-8956\n\t\t1546-170X\n\t\t\n\t\t\t16\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2ea077723bebd86654393"},"refKey":15},
{"_key":"60c2ea077723bebd86654395","_id":"references/60c2ea077723bebd86654395","_rev":"_cfFlAk2---","tei":"\n\t\n\t\tData-Driven Phenotypic Dissection of AML Reveals Progenitor-like Cells that Correlate with Prognosis\n\t\t\n\t\t\tJacobHLevine\n\t\t\n\t\t\n\t\t\tErinFSimonds\n\t\t\n\t\t\n\t\t\tSeanCBendall\n\t\t\n\t\t\n\t\t\tKaraLDavis\n\t\t\n\t\t\n\t\t\tEl-Ad D.Amir\n\t\t\n\t\t\n\t\t\tMichelleDTadmor\n\t\t\n\t\t\n\t\t\tOrenLitvin\n\t\t\n\t\t\n\t\t\tHarrisGFienberg\n\t\t\n\t\t\n\t\t\tAstraeaJager\n\t\t\n\t\t\n\t\t\tEliRZunder\n\t\t\n\t\t\n\t\t\tRachelFinck\n\t\t\n\t\t\n\t\t\tAmandaLGedman\n\t\t\n\t\t\n\t\t\tInaRadtke\n\t\t\n\t\t\n\t\t\tJamesRDowning\n\t\t\n\t\t\n\t\t\tDanaPe’er\n\t\t\n\t\t\n\t\t\tGarryPNolan\n\t\t\n\t\t10.1016/j.cell.2015.05.047\n\t\t26095251\n\t\tPMC4508757\n\t\t\n\t\n\t\n\t\tCell\n\t\tCell\n\t\t0092-8674\n\t\t\n\t\t\t162\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2ea077723bebd86654393"},"refKey":19},
{"_key":"60c2ea237723bebd866543ad","_id":"references/60c2ea237723bebd866543ad","_rev":"_cfFlAlC---","tei":"\n\t\n\t\tChEMBL: towards direct deposition of bioassay data\n\t\t\n\t\t\tDavidMendez\n\t\t\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tAPatríciaBento\n\t\t\n\t\t\n\t\t\tJonChambers\n\t\t\n\t\t\n\t\t\tMarleenDe veij\n\t\t\n\t\t\n\t\t\tEloyFélix\n\t\t\n\t\t\n\t\t\tMaríaPaulaMagariños\n\t\t\n\t\t\n\t\t\tJuanFMosquera\n\t\t\n\t\t\n\t\t\tPrudenceMutowo\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tMaríaGordillo-Marañón\n\t\t\n\t\t\n\t\t\tFionaHunter\n\t\t\n\t\t\n\t\t\tLauraJunco\n\t\t\n\t\t\n\t\t\tGraceMugumbate\n\t\t\n\t\t\n\t\t\tMilagrosRodriguez-Lopez\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tNicolasBosc\n\t\t\n\t\t\n\t\t\tChrisJRadoux\n\t\t\n\t\t\n\t\t\tAldoSegura-Cabrera\n\t\t\n\t\t\n\t\t\tAnneHersey\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t10.1093/nar/gky1075\n\t\t30398643\n\t\tPMC6323927\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ea237723bebd866543ac"},"refKey":28},
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{"_key":"60c2ea417723bebd866543ea","_id":"references/60c2ea417723bebd866543ea","_rev":"_cfFlAm6---","tei":"\n\t\n\t\tMultiple sequence alignment using ClustalW and ClustalX\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tJGToby\n\t\t\n\t\t\n\t\t\tGHDes\n\t\t\n\t\n\t\n\t\tCurr Protoc Bioinformatics\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ea417723bebd866543e9"},"refKey":18},
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{"_key":"60c2ea4c7723bebd866543ff","_id":"references/60c2ea4c7723bebd866543ff","_rev":"_cfFlAnS---","tei":"\n\t\n\t\tCombining the Power of Stories and the Power of Numbers: Mixed Methods Research and Mixed Studies Reviews\n\t\t\n\t\t\tPierrePluye\n\t\t\n\t\t\n\t\t\tQuanNhaHong\n\t\t\n\t\t10.1146/annurev-publhealth-032013-182440\n\t\t24188053\n\t\t\n\t\n\t\n\t\tAnnual Review of Public Health\n\t\tAnnu. Rev. Public Health\n\t\t0163-7525\n\t\t1545-2093\n\t\t\n\t\t\t35\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAnnual Reviews\n\t\t\n\t\n\n","document":{"$oid":"60c2ea4c7723bebd866543fe"},"refKey":33},
{"_key":"60c2ea5d7723bebd86654403","_id":"references/60c2ea5d7723bebd86654403","_rev":"_cfFlAne---","tei":"\n\t\n\t\tGlycoMod – A software tool for determining glycosylation compositions from mass spectrometric data\n\t\t\n\t\t\tCatherineACooper\n\t\t\n\t\t\n\t\t\tElisabethGasteiger\n\t\t\n\t\t\n\t\t\tNicolleHPacker\n\t\t\n\t\t10.1002/1615-9861(200102)1:2<340::aid-prot340>3.3.co;2-2\n\t\t11680880\n\t\n\t\n\t\tPROTEOMICS\n\t\tProteomics\n\t\t1615-9853\n\t\t1615-9861\n\t\t\n\t\t\t1\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2ea5d7723bebd86654402"},"refKey":62},
{"_key":"60c2ea5d7723bebd86654404","_id":"references/60c2ea5d7723bebd86654404","_rev":"_cfFlAnq---","tei":"\n\t\n\t\tByonic: Advanced Peptide and Protein Identification Software\n\t\t\n\t\t\tMarshallBern\n\t\t\n\t\t\n\t\t\tYongJKil\n\t\t\n\t\t\n\t\t\tChristopherBecker\n\t\t\n\t\t10.1002/0471250953.bi1320s40\n\t\t23255153\n\t\tPMC3545648\n\t\t13.20.1-13.20.14\n\t\t\n\t\t\n\t\n\t\n\t\tCurr Protoc Bioinform\n\t\t\n\t\t\t40\n\t\t\t1\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c2ea5d7723bebd86654402"},"refKey":30},
{"_key":"60c2ea5d7723bebd86654405","_id":"references/60c2ea5d7723bebd86654405","_rev":"_cfFlAn2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tNbdCenter\n\t\t\n\t\t\n\t\t\tGlycopost\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ea5d7723bebd86654402"},"refKey":53},
{"_key":"60c2ea5d7723bebd86654406","_id":"references/60c2ea5d7723bebd86654406","_rev":"_cfFlAoC---","tei":"\n\t\n\t\tSemi-Automated Identification of N-Glycopeptides by Hydrophilic Interaction Chromatography, nano-Reverse-Phase LC–MS/MS, and Glycan Database Search\n\t\t\n\t\t\tPetrPompach\n\t\t\n\t\t\n\t\t\tKevinBChandler\n\t\t\n\t\t\n\t\t\tRennyLan\n\t\t\n\t\t\n\t\t\tNathanEdwards\n\t\t\n\t\t\n\t\t\tRadoslavGoldman\n\t\t\n\t\t10.1021/pr201183w\n\t\t22239659\n\t\tPMC3292689\n\t\t\n\t\n\t\n\t\tJournal of Proteome Research\n\t\tJ. Proteome Res.\n\t\t1535-3893\n\t\t1535-3907\n\t\t\n\t\t\t11\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2ea5d7723bebd86654402"},"refKey":212},
{"_key":"60c2ea6b7723bebd8665442f","_id":"references/60c2ea6b7723bebd8665442f","_rev":"_cfFlAoO---","tei":"\n\t\n\t\tAccelerated reaction by loop-mediated isothermal amplification using loop primers\n\t\t\n\t\t\tKNagamine\n\t\t\n\t\t\n\t\t\tTHase\n\t\t\n\t\t\n\t\t\tTNotomi\n\t\t\n\t\t10.1006/mcpr.2002.0415\n\t\t12144774\n\t\t\n\t\n\t\n\t\tMolecular and Cellular Probes\n\t\tMolecular and Cellular Probes\n\t\t0890-8508\n\t\t\n\t\t\t16\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2ea6b7723bebd8665442e"},"refKey":9},
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{"_key":"60c2eacc7723bebd86654453","_id":"references/60c2eacc7723bebd86654453","_rev":"_cfFlAom---","tei":"\n\t\n\t\tMaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification\n\t\t\n\t\t\tJCox\n\t\t\n\t\t\n\t\t\tMMann\n\t\t\n\t\t1367-1372.10.1038/nbt.1511\n\t\n\t\n\t\tNature biotechnology\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2eacc7723bebd86654451"},"refKey":9},
{"_key":"60c2eacc7723bebd86654454","_id":"references/60c2eacc7723bebd86654454","_rev":"_cfFlAoy---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMaximVKuleshov\n\t\t\n\t\t\n\t\t\tMatthewRJones\n\t\t\n\t\t\n\t\t\tAndrewDRouillard\n\t\t\n\t\t\n\t\t\tNicolasFFernandez\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tSimonKoplev\n\t\t\n\t\t\n\t\t\tSherryLJenkins\n\t\t\n\t\t\n\t\t\tKathleenMJagodnik\n\t\t\n\t\t\n\t\t\tAlexanderLachmann\n\t\t\n\t\t\n\t\t\tMichaelGMcdermott\n\t\t\n\t\t\n\t\t\tCarolineDMonteiro\n\t\t\n\t\t\n\t\t\tGregoryWGundersen\n\t\t\n\t\t\n\t\t\tAviMa'ayan\n\t\t\n\t\t10.1093/nar/gkw377\n\t\t27141961\n\t\tPMC4987924\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2eacc7723bebd86654451"},"refKey":40},
{"_key":"60c2eacc7723bebd86654455","_id":"references/60c2eacc7723bebd86654455","_rev":"_cfFlAp----","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBLi\n\t\t\n\t\t\n\t\t\tCNDewey\n\t\t\n\t\t323.10.1186/1471-2105-12-323\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2eacc7723bebd86654451"},"refKey":43},
{"_key":"60c2eacc7723bebd86654456","_id":"references/60c2eacc7723bebd86654456","_rev":"_cfFlApK---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\t3.10.14806/ej.17.1.200\n\t\t\n\t\t\t\n\t\t\t17\n\t\t\n\t\n\n","document":{"$oid":"60c2eacc7723bebd86654451"},"refKey":47},
{"_key":"60c2eacc7723bebd86654457","_id":"references/60c2eacc7723bebd86654457","_rev":"_cfFlApW---","tei":"\n\t\n\t\tOrchestrating high-throughput genomic analysis with Bioconductor\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tVJCarey\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t\n\t\t\tMCarlson\n\t\t\n\t\t\n\t\t\tBSCarvalho\n\t\t\n\t\t\n\t\t\tHCBravo\n\t\t\n\t\t\n\t\t\tSDavis\n\t\t\n\t\t\n\t\t\tLGatto\n\t\t\n\t\t\n\t\t\tTGirke\n\t\t\n\t\t115-121.10.1038/nmeth.3252\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2eacc7723bebd86654451"},"refKey":32},
{"_key":"60c2eacc7723bebd86654458","_id":"references/60c2eacc7723bebd86654458","_rev":"_cfFlApi---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2eacc7723bebd86654451"},"refKey":44},
{"_key":"60c2eacc7723bebd86654459","_id":"references/60c2eacc7723bebd86654459","_rev":"_cfFlApu---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t10.1093/bioinformatics/btp616\n\t\t19910308\n\t\tPMC2796818\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2eacc7723bebd86654451"},"refKey":68},
{"_key":"60c2eacc7723bebd8665445a","_id":"references/60c2eacc7723bebd8665445a","_rev":"_cfFlAp6---","tei":"\n\t\n\t\tfeatureCounts: an efficient general purpose program for assigning sequence reads to genomic features\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\t923-930.10.1093/bioinformatics/btt656\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2eacc7723bebd86654451"},"refKey":45},
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{"_key":"60c2ead47723bebd86654481","_id":"references/60c2ead47723bebd86654481","_rev":"_cfFlAqS---","tei":"\n\t\n\t\tACFIS: a web server for fragment-based drug discovery\n\t\t\n\t\t\tGe-FeiHao\n\t\t\n\t\t\n\t\t\tWenJiang\n\t\t\n\t\t\n\t\t\tYuan-NongYe\n\t\t\n\t\t\n\t\t\tFeng-XuWu\n\t\t\n\t\t\n\t\t\tXiao-LeiZhu\n\t\t\n\t\t\n\t\t\tFeng-BiaoGuo\n\t\t\n\t\t\n\t\t\tGuang-FuYang\n\t\t\n\t\t10.1093/nar/gkw393\n\t\t27150808\n\t\tPMC4987934\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":30},
{"_key":"60c2ead47723bebd86654482","_id":"references/60c2ead47723bebd86654482","_rev":"_cfFlAqe---","tei":"\n\t\n\t\tiScreen: world’s first cloud-computing web server for virtual screening and de novo drug design based on TCM database@Taiwan\n\t\t\n\t\t\tTsung-YingTsai\n\t\t\n\t\t\n\t\t\tKai-WeiChang\n\t\t\n\t\t\n\t\t\tCalvin Yu-ChianChen\n\t\t\n\t\t10.1007/s10822-011-9438-9\n\t\t21647737\n\t\tark:/67375/VQC-SMRRW826-S\n\t\tFDC620CF67B420A2B57BA4B58FAB31F93EA6C4CA\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t25\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":81},
{"_key":"60c2ead47723bebd86654483","_id":"references/60c2ead47723bebd86654483","_rev":"_cfFlAqq---","tei":"\n\t\n\t\tPTRAJ and CPPTRAJ: Software for Processing and Analysis of Molecular Dynamics Trajectory Data\n\t\t\n\t\t\tDanielRRoe\n\t\t\n\t\t\n\t\t\tThomasECheatham\n\t\t\n\t\t10.1021/ct400341p\n\t\t26583988\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":69},
{"_key":"60c2ead47723bebd86654484","_id":"references/60c2ead47723bebd86654484","_rev":"_cfFlAq2---","tei":"\n\t\n\t\tDockCoV2: a drug database against SARS-CoV-2\n\t\t\n\t\t\tT.-FChen\n\t\t\n\t\t\n\t\t\tY.-CChang\n\t\t\n\t\t\n\t\t\tYHsiao\n\t\t\n\t\t\n\t\t\tK.-HLee\n\t\t\n\t\t\n\t\t\tY.-CHsiao\n\t\t\n\t\t\n\t\t\tY.-HLin\n\t\t\n\t\t\n\t\t\tY.-CETu\n\t\t\n\t\t\n\t\t\tH.-CHuang\n\t\t\n\t\t\n\t\t\tC.-YChen\n\t\t\n\t\t\n\t\t\tH.-FJuan\n\t\t\n\t\t10.1093/nar/gkaa861\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t49\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":13},
{"_key":"60c2ead47723bebd86654485","_id":"references/60c2ead47723bebd86654485","_rev":"_cfFlArC---","tei":"\n\t\n\t\tSwissDock, a protein-small molecule docking web service based on EADock DSS\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\t10.1093/nar/gkr366\n\t\t21624888\n\t\tPMC3125772\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t39\n\t\t\tsuppl\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":28},
{"_key":"60c2ead47723bebd86654486","_id":"references/60c2ead47723bebd86654486","_rev":"_cfFlArO---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":80},
{"_key":"60c2ead47723bebd86654487","_id":"references/60c2ead47723bebd86654487","_rev":"_cfFlAra---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tHNguyen\n\t\t\n\t\t\n\t\t\tDRRoe\n\t\t\n\t\t\n\t\t\tJSwails\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":62},
{"_key":"60c2ead47723bebd86654488","_id":"references/60c2ead47723bebd86654488","_rev":"_cfFlArq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tKBelfon\n\t\t\n\t\t\n\t\t\tIYBen-Shalom\n\t\t\n\t\t\n\t\t\tSRBrozell\n\t\t\n\t\t\n\t\t\tDSCerutti\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tIii\n\t\t\n\t\t\n\t\t\tVW DCruzeiro\n\t\t\n\t\t\n\t\t\tTADarden\n\t\t\n\t\t\n\t\t\tREDuke\n\t\t\n\t\t\n\t\t\tGGiambasu\n\t\t\n\t\t\n\t\t\tMKGilson\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tAWGoetz\n\t\t\n\t\t\n\t\t\tRHarris\n\t\t\n\t\t\n\t\t\tSIzadi\n\t\t\n\t\t\n\t\t\tKKasavajhala\n\t\t\n\t\t\n\t\t\tAKovalenko\n\t\t\n\t\t\n\t\t\tRKrasny\n\t\t\n\t\t\n\t\t\tTKurtzman\n\t\t\n\t\t\n\t\t\tTSLee\n\t\t\n\t\t\n\t\t\tSLegrand\n\t\t\n\t\t\n\t\t\tPLi\n\t\t\n\t\t\n\t\t\tCLin\n\t\t\n\t\t\n\t\t\tJLiu\n\t\t\n\t\t\n\t\t\tTLuchko\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tVMan\n\t\t\n\t\t\n\t\t\tKMMerz\n\t\t\n\t\t\n\t\t\tYMiao\n\t\t\n\t\t\n\t\t\tOMikhailovskii\n\t\t\n\t\t\n\t\t\tGMonard\n\t\t\n\t\t\n\t\t\tHNguyen\n\t\t\n\t\t\n\t\t\tAOnufriev\n\t\t\n\t\t\n\t\t\tFPan\n\t\t\n\t\t\n\t\t\tSPantano\n\t\t\n\t\t\n\t\t\tRQi\n\t\t\n\t\t\n\t\t\tDRRoe\n\t\t\n\t\t\n\t\t\tARoitberg\n\t\t\n\t\t\n\t\t\tCSagui\n\t\t\n\t\t\n\t\t\tSSchott-Verdugo\n\t\t\n\t\t\n\t\t\tJShen\n\t\t\n\t\t\n\t\t\tCLSimmerling\n\t\t\n\t\t\n\t\t\tNSkrynnikov\n\t\t\n\t\t\n\t\t\tJSmith\n\t\t\n\t\t\n\t\t\tJSwails\n\t\t\n\t\t\n\t\t\tRCWalker\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tLWilson\n\t\t\n\t\t\n\t\t\tRMWolf\n\t\t\n\t\t\n\t\t\tXWu\n\t\t\n\t\t\n\t\t\tDMYork\n\t\t\n\t\t\n\t\t\tPAKollman\n\t\t\n\t\t\n\t\t\t\n\t\t\t2020\n\t\t\tSan Francisco\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":10},
{"_key":"60c2ead47723bebd86654489","_id":"references/60c2ead47723bebd86654489","_rev":"_cfFlAr2---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":60},
{"_key":"60c2ead47723bebd8665448a","_id":"references/60c2ead47723bebd8665448a","_rev":"_cfFlAs----","tei":"\n\t\n\t\tMDAnalysis: A Python Package for the Rapid Analysis of Molecular Dynamics Simulations\n\t\t\n\t\t\tRGowers\n\t\t\n\t\t\n\t\t\tMLinke\n\t\t\n\t\t\n\t\t\tJBarnoud\n\t\t\n\t\t\n\t\t\tTReddy\n\t\t\n\t\t\n\t\t\tMMelo\n\t\t\n\t\t\n\t\t\tSSeyler\n\t\t\n\t\t\n\t\t\tJDomański\n\t\t\n\t\t\n\t\t\tDDotson\n\t\t\n\t\t\n\t\t\tSBuchoux\n\t\t\n\t\t\n\t\t\tIKenney\n\t\t\n\t\t\n\t\t\tOBeckstein\n\t\t\n\t\t10.25080/majora-629e541a-00e\n\t\n\t\n\t\tProceedings of the 15th Python in Science Conference\n\t\t\t\tthe 15th Python in Science Conference\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":25},
{"_key":"60c2ead47723bebd8665448b","_id":"references/60c2ead47723bebd8665448b","_rev":"_cfFlAsO---","tei":"\n\t\n\t\tMDAnalysis: A toolkit for the analysis of molecular dynamics simulations\n\t\t\n\t\t\tNaveenMichaud-Agrawal\n\t\t\n\t\t\n\t\t\tElizabethJDenning\n\t\t\n\t\t\n\t\t\tThomasBWoolf\n\t\t\n\t\t\n\t\t\tOliverBeckstein\n\t\t\n\t\t10.1002/jcc.21787\n\t\t21500218\n\t\tPMC3144279\n\t\tark:/67375/WNG-FF7PBZ00-L\n\t\tBE718293D4E3218886CE84BB21F3019960EA7901\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t32\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":53},
{"_key":"60c2ead47723bebd8665448c","_id":"references/60c2ead47723bebd8665448c","_rev":"_cfFlAsa---","tei":"\n\t\n\t\tidTarget: a web server for identifying protein targets of small chemical molecules with robust scoring functions and a divide-and-conquer docking approach\n\t\t\n\t\t\tJui-ChihWang\n\t\t\n\t\t\n\t\t\tPei-YingChu\n\t\t\n\t\t\n\t\t\tChung-MingChen\n\t\t\n\t\t\n\t\t\tJung-HsinLin\n\t\t\n\t\t10.1093/nar/gks496\n\t\t22649057\n\t\tPMC3394295\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":87},
{"_key":"60c2ead47723bebd8665448d","_id":"references/60c2ead47723bebd8665448d","_rev":"_cfFlAsm---","tei":"\n\t\n\t\tPROPKA3: Consistent Treatment of Internal and Surface Residues in Empirical pKaPredictions\n\t\t\n\t\t\tMatsH MOlsson\n\t\t\n\t\t\n\t\t\tChrestenRSøndergaard\n\t\t\n\t\t\n\t\t\tMichalRostkowski\n\t\t\n\t\t\n\t\t\tJanHJensen\n\t\t\n\t\t10.1021/ct100578z\n\t\t26596171\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t7\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":64},
{"_key":"60c2ead47723bebd8665448e","_id":"references/60c2ead47723bebd8665448e","_rev":"_cfFlAsy---","tei":"\n\t\n\t\tImproved Treatment of Ligands and Coupling Effects in Empirical Calculation and Rationalization of pKaValues\n\t\t\n\t\t\tChrestenRSøndergaard\n\t\t\n\t\t\n\t\t\tMatsH MOlsson\n\t\t\n\t\t\n\t\t\tMichałRostkowski\n\t\t\n\t\t\n\t\t\tJanHJensen\n\t\t\n\t\t10.1021/ct200133y\n\t\t26606496\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t7\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":76},
{"_key":"60c2ead47723bebd8665448f","_id":"references/60c2ead47723bebd8665448f","_rev":"_cfFlAtC---","tei":"\n\t\n\t\tAn ant colony optimization approach to flexible protein–ligand docking\n\t\t\n\t\t\tOliverKorb\n\t\t\n\t\t\n\t\t\tThomasStützle\n\t\t\n\t\t\n\t\t\tThomasEExner\n\t\t\n\t\t10.1007/s11721-007-0006-9\n\t\n\t\n\t\tSwarm Intelligence\n\t\tSwarm Intell\n\t\t1935-3812\n\t\t1935-3820\n\t\t\n\t\t\t1\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":42},
{"_key":"60c2ead47723bebd86654490","_id":"references/60c2ead47723bebd86654490","_rev":"_cfFlAtO---","tei":"\n\t\n\t\tEmpirical Scoring Functions for Advanced Protein−Ligand Docking with PLANTS\n\t\t\n\t\t\tOliverKorb\n\t\t\n\t\t\n\t\t\tThomasStützle\n\t\t\n\t\t\n\t\t\tThomasEExner\n\t\t\n\t\t10.1021/ci800298z\n\t\t19125657\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t49\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2ead47723bebd86654480"},"refKey":43},
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{"_key":"60c2ebd77723bebd866545a8","_id":"references/60c2ebd77723bebd866545a8","_rev":"_cfFlA1i---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2009-10-3-r25\n\t\t19261174\n\t\tPMC2690996\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\tR25\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2ebd77723bebd8665459b"},"refKey":37},
{"_key":"60c2ebd77723bebd866545a9","_id":"references/60c2ebd77723bebd866545a9","_rev":"_cfFlA1u---","tei":"\n\t\n\t\tIdentification and removal of ribosomal RNA sequences from metatranscriptomes\n\t\t\n\t\t\tRobertSchmieder\n\t\t\n\t\t\n\t\t\tYanWeiLim\n\t\t\n\t\t\n\t\t\tRobertEdwards\n\t\t\n\t\t10.1093/bioinformatics/btr669\n\t\t22155869\n\t\tPMC3268242\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2ebd77723bebd8665459b"},"refKey":38},
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{"_key":"60c2ec4b7723bebd8665465b","_id":"references/60c2ec4b7723bebd8665465b","_rev":"_cfFlA4C---","tei":"\n\t\n\t\tModular and efficient pre-processing of single-cell RNA-seq\n\t\t\n\t\t\tPállMelsted\n\t\t\t0000-0002-8418-6724\n\t\t\n\t\t\n\t\t\tASinaBooeshaghi\n\t\t\t0000-0002-6442-4502\n\t\t\n\t\t\n\t\t\tFanGao\n\t\t\n\t\t\n\t\t\tEduardoBeltrame\n\t\t\t0000-0002-1529-9207\n\t\t\n\t\t\n\t\t\tLambdaLu\n\t\t\t0000-0002-7092-9427\n\t\t\n\t\t\n\t\t\tKristjánEldjárnHjorleifsson\n\t\t\t0000-0002-7851-1818\n\t\t\n\t\t\n\t\t\tJaseGehring\n\t\t\t0000-0002-3894-9495\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\t0000-0002-9164-6231\n\t\t\n\t\t10.1101/673285\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2ec4b7723bebd8665465a"},"refKey":33},
{"_key":"60c2ec507723bebd86654669","_id":"references/60c2ec507723bebd86654669","_rev":"_cfFlA4O---","tei":"\n\t\n\t\tNovel coronavirus (COVID-19) v3 operational support & logistics disease commodity package\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tGeneva: World Health Organization. cited 2020 Mar 6\n\n","document":{"$oid":"60c2ec507723bebd86654668"},"refKey":6},
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{"_key":"60c2ec907723bebd86654696","_id":"references/60c2ec907723bebd86654696","_rev":"_cfFlA4m---","tei":"\n\t\n\t\tWeiterentwicklung eines programms fuer molekuelgraphik und elektrondichte-manipulation und seine anwendung auf verschiedene protein-strukturaufklaerungen\n\t\t\n\t\t\tDTurk\n\t\t\n\t\t\n\t\t\t\n\t\t\tMünchen\n\t\t\n\t\t\n\t\t\tTechnische Universität\n\t\t\n\t\n\tPhD Thesis\n\n","document":{"$oid":"60c2ec907723bebd86654695"},"refKey":363},
{"_key":"60c2ecea7723bebd866546ab","_id":"references/60c2ecea7723bebd866546ab","_rev":"_cfFlA4y---","tei":"\n\t\n\t\tDistributed representations of words and phrases and their compositionality\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\t\n\t\t\tISutskever\n\t\t\n\t\t\n\t\t\tKChen\n\t\t\n\t\t\n\t\t\tGCorrado\n\t\t\n\t\t\n\t\t\tJDean\n\t\t\n\t\t\n\t\t\tCjcBurges\n\t\t\n\t\t\n\t\t\tLBottou\n\t\t\n\t\t\n\t\t\tMWelling\n\t\t\n\t\t\n\t\t\tZGhahramani\n\t\t\n\t\t\n\t\t\tKQWeinberger\n\t\t\n\t\n\t\n\t\tNIPS'13: Proceedings of the 26th International Conference on Neural Information Processing Systems\n\t\t\t\tRed Hook, NY\n\t\t\n\t\t\tCurran Associates Inc\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ecea7723bebd866546aa"},"refKey":9},
{"_key":"60c2ecea7723bebd866546ac","_id":"references/60c2ecea7723bebd866546ac","_rev":"_cfFlA5----","tei":"\n\t\n\t\tEnriching word vectors with subword information\n\t\t\n\t\t\tPBojanowski\n\t\t\n\t\t\n\t\t\tEGrave\n\t\t\n\t\t\n\t\t\tAJoulin\n\t\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\t10.1162/tacl_a_00051\n\t\n\t\n\t\tTrans Assoc Computational Linguistics\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ecea7723bebd866546aa"},"refKey":10},
{"_key":"60c2ecea7723bebd866546ad","_id":"references/60c2ecea7723bebd866546ad","_rev":"_cfFlA5K---","tei":"\n\t\n\t\tMatplotlib: A 2D Graphics Environment\n\t\t\n\t\t\tJohnDHunter\n\t\t\n\t\t\n\t\t\tMatplotlib\n\t\t\n\t\t10.1109/mcse.2007.55\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\tComput. Sci. Eng.\n\t\t1521-9615\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c2ecea7723bebd866546aa"},"refKey":40},
{"_key":"60c2eced7723bebd866546b8","_id":"references/60c2eced7723bebd866546b8","_rev":"_cfFlA5W---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tLocoyposter\n\t\t\n\t\t\n\t\t\tWebpage In Chinese\n\t\t\n\t\t2021-03-12\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2eced7723bebd866546b7"},"refKey":14},
{"_key":"60c2eced7723bebd866546b9","_id":"references/60c2eced7723bebd866546b9","_rev":"_cfFlA5i---","tei":"\n\t\n\t\tNatural Language Processing With Python\n\t\t\n\t\t\tSelBird\n\t\t\n\t\t\n\t\t\tEKlein\n\t\t\n\t\t\n\t\t\t\n\t\t\tSebastopol, CA: O'Reilly Media Inc\n\t\t\n\t\n\n","document":{"$oid":"60c2eced7723bebd866546b7"},"refKey":20},
{"_key":"60c2ecf17723bebd866546c7","_id":"references/60c2ecf17723bebd866546c7","_rev":"_cfFlA5q---","tei":"\n\t\n\t\tAbstract: nnU-Net: Self-adapting Framework for U-Net-Based Medical Image Segmentation\n\t\t\n\t\t\tFabianIsensee\n\t\t\n\t\t\n\t\t\tJensPetersen\n\t\t\n\t\t\n\t\t\tAndreKlein\n\t\t\n\t\t\n\t\t\tDavidZimmerer\n\t\t\n\t\t\n\t\t\tPaulFJaeger\n\t\t\n\t\t\n\t\t\tSimonKohl\n\t\t\n\t\t\n\t\t\tJakobWasserthal\n\t\t\n\t\t\n\t\t\tGregorKoehler\n\t\t\n\t\t\n\t\t\tTobiasNorajitra\n\t\t\n\t\t\n\t\t\tSebastianWirkert\n\t\t\n\t\t\n\t\t\tKlausHMaier-Hein\n\t\t\n\t\t10.1007/978-3-658-25326-4_7\n\t\tabs/1904.08128\n\t\t\n\t\n\t\n\t\tInformatik aktuell\n\t\t\t\t\n\t\t\tSpringer Fachmedien Wiesbaden\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ecf17723bebd866546c6"},"refKey":41},
{"_key":"60c2ecf17723bebd866546c8","_id":"references/60c2ecf17723bebd866546c8","_rev":"_cfFlA52---","tei":"\n\t\n\t\tOsiriX: An Open-Source Software for Navigating in Multidimensional DICOM Images\n\t\t\n\t\t\tAntoineRosset\n\t\t\n\t\t\n\t\t\tLucaSpadola\n\t\t\n\t\t\n\t\t\tOsmanRatib\n\t\t\n\t\t10.1007/s10278-004-1014-6\n\t\t15534753\n\t\tPMC3046608\n\t\tark:/67375/VQC-QRRFQXM4-4\n\t\tDFA5A040CFD330858F54C4C6F307C5F02FFA2DF7\n\t\t\n\t\n\t\n\t\tJournal of Digital Imaging\n\t\tJ Digit Imaging\n\t\t0897-1889\n\t\t1618-727X\n\t\t\n\t\t\t17\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2ecf17723bebd866546c6"},"refKey":50},
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{"_key":"60c2ecf87723bebd866546d2","_id":"references/60c2ecf87723bebd866546d2","_rev":"_cfFlA6m---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tGBunko ´czi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tBHintze\n\t\t\n\t\t\n\t\t\tL.-WHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRDOeffner\n\t\t\n\t\t\n\t\t\tBKPoon\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tMDSammito\n\t\t\n\t\t\n\t\t\tOVSobolev\n\t\t\n\t\t\n\t\t\tDHStockwell\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tAGUrzhumtsev\n\t\t\n\t\t\n\t\t\tLLVideau\n\t\t\n\t\t\n\t\t\tCJWilliams\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tActa Cryst\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ecf87723bebd866546ce"},"refKey":26},
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{"_key":"60c2ed3a7723bebd866546fa","_id":"references/60c2ed3a7723bebd866546fa","_rev":"_cfFlA7K---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ed3a7723bebd866546f9"},"refKey":33},
{"_key":"60c2ed3a7723bebd866546fb","_id":"references/60c2ed3a7723bebd866546fb","_rev":"_cfFlA7W---","tei":"\n\t\n\t\tData, disease and diplomacy: GISAID's innovative contribution to global health\n\t\t\n\t\t\tStefanElbe\n\t\t\n\t\t\n\t\t\tGemmaBuckland-Merrett\n\t\t\n\t\t10.1002/gch2.1018\n\t\t\n\t\n\t\n\t\tGlobal Challenges\n\t\tGlobal Challenges\n\t\t2056-6646\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2ed3a7723bebd866546f9"},"refKey":28},
{"_key":"60c2ed3a7723bebd866546fc","_id":"references/60c2ed3a7723bebd866546fc","_rev":"_cfFlA7i---","tei":"\n\t\n\t\tComparative Protein Structure Modeling Using MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1002/cpbi.3\n\t\t27322406\n\t\tPMC5031415\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Bioinformatics\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\t5.6.1− 5.6.37\n\n","document":{"$oid":"60c2ed3a7723bebd866546f9"},"refKey":37},
{"_key":"60c2ed3a7723bebd866546fd","_id":"references/60c2ed3a7723bebd866546fd","_rev":"_cfFlA7q---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGVan Rossum\n\t\t\n\t\t\n\t\t\tFLDrake\n\t\t\n\t\t\n\t\t\tJr\n\t\t\n\t\n\t\n\t\tPython tutorial\n\t\t\n\t\t\t620\n\t\t\t\n\t\t\n\t\t\n\t\t\tCentrum voor Wiskunde en Informatica Amsterdam\n\t\t\n\t\n\n","document":{"$oid":"60c2ed3a7723bebd866546f9"},"refKey":29},
{"_key":"60c2ed3a7723bebd866546fe","_id":"references/60c2ed3a7723bebd866546fe","_rev":"_cfFlA72---","tei":"\n\t\n\t\tPROPKA3: Consistent Treatment of Internal and Surface Residues in Empirical pKaPredictions\n\t\t\n\t\t\tMatsH MOlsson\n\t\t\n\t\t\n\t\t\tChrestenRSøndergaard\n\t\t\n\t\t\n\t\t\tMichalRostkowski\n\t\t\n\t\t\n\t\t\tJanHJensen\n\t\t\n\t\t10.1021/ct100578z\n\t\t26596171\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t7\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c2ed3a7723bebd866546f9"},"refKey":38},
{"_key":"60c2ed4b7723bebd86654714","_id":"references/60c2ed4b7723bebd86654714","_rev":"_cfFlA8C---","tei":"\n\t\n\t\tDNAskew: Statistical Analysis of Base Compositional Asymmetry and Prediction of Replication Boundaries in the Genome Sequences\n\t\t\n\t\t\tXiang-RuMa\n\t\t\n\t\t\n\t\t\tShao-BoXiao\n\t\t\n\t\t\n\t\t\tAi-ZhenGuo\n\t\t\n\t\t\n\t\t\tJian-QiangLü\n\t\t\n\t\t\n\t\t\tHuan-ChunChen\n\t\t\n\t\t10.1093/abbs/36.1.16\n\t\t14732869\n\t\t\n\t\n\t\n\t\tActa Biochimica et Biophysica Sinica\n\t\t1672-9145\n\t\t1745-7270\n\t\t\n\t\t\t36\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ed4b7723bebd86654713"},"refKey":15},
{"_key":"60c2ed567723bebd86654729","_id":"references/60c2ed567723bebd86654729","_rev":"_cfFlA8O---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMVKuleshov\n\t\t\n\t\t\n\t\t\tMRJones\n\t\t\n\t\t\n\t\t\tADRouillard\n\t\t\n\t\t\n\t\t\tNFFernandez\n\t\t\n\t\t\n\t\t\tQDuan\n\t\t\n\t\t\n\t\t\tZWang\n\t\t\n\t\t\n\t\t\tSKoplev\n\t\t\n\t\t\n\t\t\tSLJenkins\n\t\t\n\t\t\n\t\t\tKMJagodnik\n\t\t\n\t\t\n\t\t\tALachmann\n\t\t\n\t\t\n\t\t\tMGMcdermott\n\t\t\n\t\t\n\t\t\tCDMonteiro\n\t\t\n\t\t\n\t\t\tGWGundersen\n\t\t\n\t\t\n\t\t\tAMa'ayan\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ed567723bebd86654728"},"refKey":19},
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{"_key":"60c2ed567723bebd8665472b","_id":"references/60c2ed567723bebd8665472b","_rev":"_cfFlA8m---","tei":"\n\t\n\t\tThe DisGeNET knowledge platform for disease genomics: 2019 update\n\t\t\n\t\t\tJPinero\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t48\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ed567723bebd86654728"},"refKey":34},
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{"_key":"60c2edf47723bebd86654792","_id":"references/60c2edf47723bebd86654792","_rev":"_cfFlA9G---","tei":"\n\t\n\t\tThe R-package surveillance\n\t\t\n\t\t\tMichaelHöhle\n\t\t\n\t\t\n\t\t\tAndreaRiebler\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2edf47723bebd86654791"},"refKey":16},
{"_key":"60c2edf67723bebd86654795","_id":"references/60c2edf67723bebd86654795","_rev":"_cfFlA9S---","tei":"\n\t\n\t\tMEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph\n\t\t\n\t\t\tDLi\n\t\t\n\t\t\n\t\t\tCMLiu\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tKSadakane\n\t\t\n\t\t\n\t\t\tTWLam\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2edf67723bebd86654794"},"refKey":56},
{"_key":"60c2edf67723bebd86654796","_id":"references/60c2edf67723bebd86654796","_rev":"_cfFlA9e---","tei":"\n\t\n\t\tMAFFT-DASH: integrated protein sequence and structural alignment\n\t\t\n\t\t\tJohnRozewicki\n\t\t\n\t\t\n\t\t\tSonglingLi\n\t\t\n\t\t\n\t\t\tKarlouMarAmada\n\t\t\n\t\t\n\t\t\tDaronMStandley\n\t\t\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\t0000-0003-4133-8393\n\t\t\n\t\t10.1093/nar/gkz342\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2edf67723bebd86654794"},"refKey":58},
{"_key":"60c2edf67723bebd86654797","_id":"references/60c2edf67723bebd86654797","_rev":"_cfFlA9q---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2edf67723bebd86654794"},"refKey":57},
{"_key":"60c2ee0c7723bebd866547aa","_id":"references/60c2ee0c7723bebd866547aa","_rev":"_cfFlA92---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ee0c7723bebd866547a9"},"refKey":56},
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{"_key":"60c2ee9d7723bebd86654852","_id":"references/60c2ee9d7723bebd86654852","_rev":"_cfFlBA----","tei":"\n\t\n\t\tA travel guide to Cytoscape plugins\n\t\t\n\t\t\tSRintaro\n\t\t\n\t\t\n\t\t\tESMichael\n\t\t\n\t\t\n\t\t\tOKeiichiro\n\t\t\n\t\t\n\t\t\tRJohannes\n\t\t\n\t\t\n\t\t\tPWang\n\t\t\n\t\t\n\t\t\tSamadLotia\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ee9d7723bebd86654851"},"refKey":24},
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{"_key":"60c2eeed7723bebd866548b1","_id":"references/60c2eeed7723bebd866548b1","_rev":"_cfFlBA6---","tei":"\n\t\n\t\tPrediction of proprotein convertase cleavage sites\n\t\t\n\t\t\tPeterDuckert\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tNikolajBlom\n\t\t\n\t\t10.1093/protein/gzh013\n\t\t14985543\n\t\tark:/67375/HXZ-LR8NJT07-B\n\t\tC34CC9C917981982126A525E5FA37466B56A17EC\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Engineering, Design and Selection\n\t\t1741-0126\n\t\t1741-0134\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2eeed7723bebd866548b0"},"refKey":10},
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{"_key":"60c2eeed7723bebd866548b3","_id":"references/60c2eeed7723bebd866548b3","_rev":"_cfFlBBO---","tei":"\n\t\n\t\tLocating proteins in the cell using TargetP, SignalP and related tools\n\t\t\n\t\t\tOlofEmanuelsson\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tHenrikNielsen\n\t\t\n\t\t10.1038/nprot.2007.131\n\t\t17446895\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t2\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2eeed7723bebd866548b0"},"refKey":11},
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{"_key":"60c2eeed7723bebd866548b5","_id":"references/60c2eeed7723bebd866548b5","_rev":"_cfFlBBm---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tBjörnLarsson\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1006/jmbi.2000.4315\n\t\t11152613\n\t\tS0022-2836(00)94315-8\n\t\tark:/67375/6H6-ZB6KWVJ7-M\n\t\t172A90B8F942FA711EF8E2CF5DB2DE13B7F2D351\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2eeed7723bebd866548b0"},"refKey":36},
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{"_key":"60c2eeed7723bebd866548bb","_id":"references/60c2eeed7723bebd866548bb","_rev":"_cfFlBCu---","tei":"\n\t\n\t\tPrediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence\n\t\t\n\t\t\tNikolajBlom\n\t\t\n\t\t\n\t\t\tThomasSicheritz-Pontén\n\t\t\n\t\t\n\t\t\tRamneekGupta\n\t\t\n\t\t\n\t\t\tSteenGammeltoft\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t10.1002/pmic.200300771\n\t\t15174133\n\t\tark:/67375/WNG-HD5ZNZ2S-G\n\t\t2FC5878BEFE279DA3613D377D3C9BC82A545F1BB\n\t\t\n\t\n\t\n\t\tPROTEOMICS\n\t\tPROTEOMICS\n\t\t1615-9853\n\t\t1615-9861\n\t\t\n\t\t\t4\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2eeed7723bebd866548b0"},"refKey":3},
{"_key":"60c2eeed7723bebd866548bc","_id":"references/60c2eeed7723bebd866548bc","_rev":"_cfFlBC6---","tei":"\n\t\n\t\tSWISS-MODEL and the Swiss-Pdb Viewer: An environment for comparative protein modeling\n\t\t\n\t\t\tNicolasGuex\n\t\t\n\t\t\n\t\t\tManuelCPeitsch\n\t\t\n\t\t10.1002/elps.1150181505\n\t\t9504803\n\t\tark:/67375/WNG-JM4T1Z8G-K\n\t\t80A3D30408CDDCFAD6FB0CF212ABBA114995BAF3\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\tElectrophoresis\n\t\t0173-0835\n\t\t1522-2683\n\t\t\n\t\t\t18\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2eeed7723bebd866548b0"},"refKey":20},
{"_key":"60c2eeed7723bebd866548bd","_id":"references/60c2eeed7723bebd866548bd","_rev":"_cfFlBDG---","tei":"\n\t\n\t\tPrecision mapping of the human O-GalNAc glycoproteome through SimpleCell technology\n\t\t\n\t\t\tCatharinaSteentoft\n\t\t\n\t\t\n\t\t\tSergeyYVakhrushev\n\t\t\n\t\t\n\t\t\tHirenJJoshi\n\t\t\n\t\t\n\t\t\tYunKong\n\t\t\n\t\t\n\t\t\tMaleneBVester-Christensen\n\t\t\n\t\t\n\t\t\tKatrine T-B GSchjoldager\n\t\t\n\t\t\n\t\t\tKirstineLavrsen\n\t\t\n\t\t\n\t\t\tSallyDabelsteen\n\t\t\n\t\t\n\t\t\tNisBPedersen\n\t\t\n\t\t\n\t\t\tLaraMarcos-Silva\n\t\t\n\t\t\n\t\t\tRamneekGupta\n\t\t\n\t\t\n\t\t\tEricPaul Bennett\n\t\t\n\t\t\n\t\t\tUllaMandel\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tHansHWandall\n\t\t\n\t\t\n\t\t\tStevenBLevery\n\t\t\n\t\t\n\t\t\tHenrikClausen\n\t\t\n\t\t10.1038/emboj.2013.79\n\t\t23584533\n\t\tPMC3655468\n\t\tark:/67375/WNG-S0B0LRCW-T\n\t\t56B7774EED3A9AF84694AC6DD706DF0474655E67\n\t\t\n\t\t\n\t\n\t\n\t\tThe EMBO Journal\n\t\tEMBO J\n\t\t0261-4189\n\t\t1460-2075\n\t\t\n\t\t\t32\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2eeed7723bebd866548b0"},"refKey":64},
{"_key":"60c2eeed7723bebd866548be","_id":"references/60c2eeed7723bebd866548be","_rev":"_cfFlBDS---","tei":"\n\t\n\t\tPrediction of N-glycosylation sites in human proteins\n\t\t\n\t\t\tRGupta\n\t\t\n\t\t\n\t\t\tEJung\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\t\n\t\t\t46\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2eeed7723bebd866548b0"},"refKey":21},
{"_key":"60c2eeed7723bebd866548bf","_id":"references/60c2eeed7723bebd866548bf","_rev":"_cfFlBDa---","tei":"\n\t\n\t\tThe STRING database in 2017: quality-controlled protein–protein association networks, made broadly accessible\n\t\t\n\t\t\tDamianSzklarczyk\n\t\t\n\t\t\n\t\t\tJohnHMorris\n\t\t\n\t\t\n\t\t\tHelenCook\n\t\t\n\t\t\n\t\t\tMichaelKuhn\n\t\t\n\t\t\n\t\t\tStefanWyder\n\t\t\n\t\t\n\t\t\tMilanSimonovic\n\t\t\n\t\t\n\t\t\tAlbertoSantos\n\t\t\n\t\t\n\t\t\tNadezhdaTDoncheva\n\t\t\n\t\t\n\t\t\tAlexanderRoth\n\t\t\n\t\t\n\t\t\tPeerBork\n\t\t\n\t\t\n\t\t\tLarsJJensen\n\t\t\n\t\t\n\t\t\tChristianVon mering\n\t\t\t0000-0001-7734-9102\n\t\t\n\t\t10.1093/nar/gkw937\n\t\t27924014\n\t\tPMC5210637\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2eeed7723bebd866548b0"},"refKey":67},
{"_key":"60c2eeed7723bebd866548c0","_id":"references/60c2eeed7723bebd866548c0","_rev":"_cfFlBDq---","tei":"\n\t\n\t\tThe SWISS-PROT protein sequence database and its supplement TrEMBL in 2000\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\t10.1093/nar/28.1.45\n\t\t10592178\n\t\tPMC102476\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t28\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2eeed7723bebd866548b0"},"refKey":0},
{"_key":"60c2eef77723bebd866548fd","_id":"references/60c2eef77723bebd866548fd","_rev":"_cfFlBD2---","tei":"\n\t\n\t\tConserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets\n\t\t\n\t\t\tB PLewis\n\t\t\n\t\t\n\t\t\tC BBurge\n\t\t\n\t\t\n\t\t\tDBartel\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t120\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2eef77723bebd866548fc"},"refKey":16},
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{"_key":"60c2eef77723bebd866548ff","_id":"references/60c2eef77723bebd866548ff","_rev":"_cfFlBEK---","tei":"\n\t\n\t\tTargetIdentifier: a webserver for identifying full-length cDNAs from EST sequences\n\t\t\n\t\t\tX JJMin\n\t\t\n\t\t\n\t\t\tGButler\n\t\t\n\t\t\n\t\t\tRStorms\n\t\t\n\t\t\n\t\t\tATsang\n\t\t\n\t\t10.1093/nar/gki436\n\t\t15980559\n\t\tPMC1160197\n\t\tark:/67375/HXZ-1GHPZKXM-H\n\t\t7C268816329FDA5640319262636944D00657CF1D\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2eef77723bebd866548fc"},"refKey":15},
{"_key":"60c2eef77723bebd86654900","_id":"references/60c2eef77723bebd86654900","_rev":"_cfFlBEW---","tei":"\n\t\n\t\tMining functional differentiation between EST-based transcriptomes\n\t\t\n\t\t\tZ ZChen\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tJ JLiu\n\t\t\n\t\n\t\n\t\tBioMed Central Bioinformatics\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t72\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2eef77723bebd866548fc"},"refKey":19},
{"_key":"60c2eef77723bebd86654901","_id":"references/60c2eef77723bebd86654901","_rev":"_cfFlBEi---","tei":"\n\t\n\t\tStreamlined gene ontology annotation for batch anonymous sequences with statistics\n\t\t\n\t\t\tZ ZChen\n\t\t\n\t\t\n\t\t\tC HXue\n\t\t\n\t\t\n\t\t\tSZhu\n\t\t\n\t\n\t\n\t\tBiochem Biophys\n\t\t\n\t\t\t32\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2eef77723bebd866548fc"},"refKey":17},
{"_key":"60c2eef77723bebd86654902","_id":"references/60c2eef77723bebd86654902","_rev":"_cfFlBEu---","tei":"\n\t\n\t\tInterProScan-An integration platform for the signature-recognition methods in InterPro\n\t\t\n\t\t\tE MZdobnov\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t17\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2eef77723bebd866548fc"},"refKey":18},
{"_key":"60c2ef407723bebd86654940","_id":"references/60c2ef407723bebd86654940","_rev":"_cfFlBE6---","tei":"\n\t\n\t\tMobilewalla: A Mobile Application Search Engine\n\t\t\n\t\t\tAnindyaDatta\n\t\t\n\t\t\n\t\t\tKaushikDutta\n\t\t\n\t\t\n\t\t\tSangarKajanan\n\t\t\n\t\t\n\t\t\tNarginPervin\n\t\t\n\t\t10.1007/978-3-642-32320-1_12\n\t\t\n\t\n\t\n\t\tLecture Notes of the Institute for Computer Sciences, Social Informatics and Telecommunications Engineering\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ef407723bebd8665493f"},"refKey":5},
{"_key":"60c2ef407723bebd86654941","_id":"references/60c2ef407723bebd86654941","_rev":"_cfFlBFG---","tei":"\n\t\n\t\tA Mobile App Search Engine\n\t\t\n\t\t\tAnindyaDatta\n\t\t\n\t\t\n\t\t\tSangaralingamKajanan\n\t\t\n\t\t\n\t\t\tNargisPervin\n\t\t\n\t\t10.1007/s11036-012-0413-z\n\t\tark:/67375/VQC-3XQXL2DJ-R\n\t\tC2418725DA495DDDA99D83CEAFA32B36EE3258CE\n\t\t\n\t\n\t\n\t\tMobile Networks and Applications\n\t\tMobile Netw Appl\n\t\t1383-469X\n\t\t1572-8153\n\t\t\n\t\t\t18\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c2ef407723bebd8665493f"},"refKey":6},
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{"_key":"60c2ef407723bebd86654943","_id":"references/60c2ef407723bebd86654943","_rev":"_cfFlBFe---","tei":"\n\t\n\t\tNLTK: the natural language toolkit\n\t\t\n\t\t\tELoper\n\t\t\n\t\t\n\t\t\tSBird\n\t\t\n\t\t10.3115/1118108.1118117\n\t\t\n\t\n\t\n\t\tACL Workshop on Effective Tools and Methodologies for Teaching Natural Language Processing and Computational Linguistics\n\t\t\t\t\n\t\t\t\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ef407723bebd8665493f"},"refKey":11},
{"_key":"60c2ef407723bebd86654944","_id":"references/60c2ef407723bebd86654944","_rev":"_cfFlBFm---","tei":"\n\t\n\t\tSemantic Matching in APP Search\n\t\t\n\t\t\tJuchaoZhuo\n\t\t\n\t\t\n\t\t\tZeqianHuang\n\t\t\n\t\t\n\t\t\tYunfengLiu\n\t\t\n\t\t\n\t\t\tZhanhuiKang\n\t\t\n\t\t\n\t\t\tXunCao\n\t\t\n\t\t\n\t\t\tMingzhiLi\n\t\t\n\t\t\n\t\t\tLongJin\n\t\t\n\t\t10.1145/2684822.2697046\n\t\t\n\t\n\t\n\t\tProceedings of the Eighth ACM International Conference on Web Search and Data Mining - WSDM '15\n\t\t\t\tthe Eighth ACM International Conference on Web Search and Data Mining - WSDM '15\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ef407723bebd8665493f"},"refKey":22},
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{"_key":"60c2ef6c7723bebd8665497d","_id":"references/60c2ef6c7723bebd8665497d","_rev":"_cfFlBGW---","tei":"\n\t\n\t\tSearching for Drug Synergy in Complex Dose–Response Landscapes Using an Interaction Potency Model\n\t\t\n\t\t\tBhagwanYadav\n\t\t\n\t\t\n\t\t\tKristerWennerberg\n\t\t\n\t\t\n\t\t\tTeroAittokallio\n\t\t\n\t\t\n\t\t\tJingTang\n\t\t\n\t\t10.1016/j.csbj.2015.09.001\n\t\t26949479\n\t\tPMC4759128\n\t\t\n\t\n\t\n\t\tComputational and Structural Biotechnology Journal\n\t\tComputational and Structural Biotechnology Journal\n\t\t2001-0370\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2ef6c7723bebd8665497c"},"refKey":48},
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{"_key":"60c2f0217723bebd86654a1c","_id":"references/60c2f0217723bebd86654a1c","_rev":"_cfFlBI----","tei":"\n\t\n\t\tAn oligonucleotide barcode for species identification in Trichoderma and Hypocrea\n\t\t\n\t\t\tIrinaSDruzhinina\n\t\t\n\t\t\n\t\t\tAlexeiGKopchinskiy\n\t\t\n\t\t\n\t\t\tMonikaKomoń\n\t\t\n\t\t\n\t\t\tJohnBissett\n\t\t\n\t\t\n\t\t\tGeorgeSzakacs\n\t\t\n\t\t\n\t\t\tChristianPKubicek\n\t\t\n\t\t10.1016/j.fgb.2005.06.007\n\t\t16154784\n\t\t\n\t\n\t\n\t\tFungal Genetics and Biology\n\t\tFungal Genetics and Biology\n\t\t1087-1845\n\t\t\n\t\t\t42\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2f0217723bebd86654a1a"},"refKey":29},
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{"_key":"60c2f08c7723bebd86654ad1","_id":"references/60c2f08c7723bebd86654ad1","_rev":"_cfFlBLC---","tei":"\n\t\n\t\tMulticoil2: Predicting Coiled Coils and Their Oligomerization States from Sequence in the Twilight Zone\n\t\t\n\t\t\tJasonTrigg\n\t\t\n\t\t\n\t\t\tKarlGutwin\n\t\t\n\t\t\n\t\t\tAmyEKeating\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t10.1371/journal.pone.0023519\n\t\t21901122\n\t\tPMC3162000\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t8\n\t\t\te23519\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c2f08c7723bebd86654acf"},"refKey":20},
{"_key":"60c2f08c7723bebd86654ad2","_id":"references/60c2f08c7723bebd86654ad2","_rev":"_cfFlBLO---","tei":"\n\t\n\t\tMultiCoil: A program for predicting two-and three-stranded coiled coils\n\t\t\n\t\t\tEthanWolf\n\t\t\n\t\t\n\t\t\tPeterSKim\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t10.1002/pro.5560060606\n\t\t9194178\n\t\tPMC2143730\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t6\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2f08c7723bebd86654acf"},"refKey":21},
{"_key":"60c2f0957723bebd86654ad8","_id":"references/60c2f0957723bebd86654ad8","_rev":"_cfFlBLa---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2f0957723bebd86654ad7"},"refKey":50},
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{"_key":"60c2f09b7723bebd86654aea","_id":"references/60c2f09b7723bebd86654aea","_rev":"_cfFlBLy---","tei":"\n\t\n\t\tA statistical approach for inferring the 3D structure of the genome\n\t\t\n\t\t\tNVaroquaux\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f09b7723bebd86654ae9"},"refKey":45},
{"_key":"60c2f09b7723bebd86654aeb","_id":"references/60c2f09b7723bebd86654aeb","_rev":"_cfFlBL6---","tei":"\n\t\n\t\tCOMRADES determines in vivo RNA structures and interactions\n\t\t\n\t\t\tOZiv\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t15\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f09b7723bebd86654ae9"},"refKey":27},
{"_key":"60c2f09b7723bebd86654aec","_id":"references/60c2f09b7723bebd86654aec","_rev":"_cfFlBMG---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome biology\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f09b7723bebd86654ae9"},"refKey":31},
{"_key":"60c2f09b7723bebd86654aed","_id":"references/60c2f09b7723bebd86654aed","_rev":"_cfFlBMW---","tei":"\n\t\n\t\tHyb: A bioinformatics pipeline for the analysis of CLASH (crosslinking, ligation and sequencing of hybrids) data\n\t\t\n\t\t\tAnthonyJTravis\n\t\t\n\t\t\n\t\t\tJonathanMoody\n\t\t\n\t\t\n\t\t\tAleksandraHelwak\n\t\t\n\t\t\n\t\t\tDavidTollervey\n\t\t\n\t\t\n\t\t\tGrzegorzKudla\n\t\t\n\t\t10.1016/j.ymeth.2013.10.015\n\t\t24211736\n\t\tPMC3969109\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t65\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2f09b7723bebd86654ae9"},"refKey":41},
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{"_key":"60c2f0ac7723bebd86654b0c","_id":"references/60c2f0ac7723bebd86654b0c","_rev":"_cfFlBMq---","tei":"\n\t\n\t\tProcessing of X-ray Diffraction Data Collected in Oscillation Mode\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\t\n\t\t\tJcw; MCarter\n\t\t\n\t\t\n\t\t\tSR\n\t\t\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tAcademic Press\n\t\t\n\t\n\n","document":{"$oid":"60c2f0ac7723bebd86654b0a"},"refKey":51},
{"_key":"60c2f0ac7723bebd86654b0d","_id":"references/60c2f0ac7723bebd86654b0d","_rev":"_cfFlBM2---","tei":"\n\t\n\t\tMOLREP: an automated program for molecular replacement\n\t\t\n\t\t\tAVagin\n\t\t\n\t\t\n\t\t\tATeplyakov\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f0ac7723bebd86654b0a"},"refKey":53},
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{"_key":"60c2f0f47723bebd86654b34","_id":"references/60c2f0f47723bebd86654b34","_rev":"_cfFlBNO---","tei":"\n\t\n\t\tBio informatics enrichment tools: Paths toward the com prehensive functional analysis of large gene lists\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNucleic Acids Re\n\t\t\n\t\t\t37\n\t\t\t113\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f0f47723bebd86654b33"},"refKey":20},
{"_key":"60c2f0f47723bebd86654b35","_id":"references/60c2f0f47723bebd86654b35","_rev":"_cfFlBNa---","tei":"\n\t\n\t\tSys tematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f0f47723bebd86654b33"},"refKey":21},
{"_key":"60c2f1017723bebd86654b4a","_id":"references/60c2f1017723bebd86654b4a","_rev":"_cfFlBNm---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDaWeiHuang\n\t\t\n\t\t\n\t\t\tBradTSherman\n\t\t\n\t\t\n\t\t\tRichardALempicki\n\t\t\n\t\t10.1038/nprot.2008.211\n\t\t19131956\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2f1017723bebd86654b49"},"refKey":33},
{"_key":"60c2f1017723bebd86654b4b","_id":"references/60c2f1017723bebd86654b4b","_rev":"_cfFlBNy---","tei":"\n\t\n\t\tBioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tDaWeiHuang\n\t\t\n\t\t\n\t\t\tBradTSherman\n\t\t\n\t\t\n\t\t\tRichardALempicki\n\t\t\n\t\t10.1093/nar/gkn923\n\t\t19033363\n\t\tPMC2615629\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2f1017723bebd86654b49"},"refKey":34},
{"_key":"60c2f1017723bebd86654b4c","_id":"references/60c2f1017723bebd86654b4c","_rev":"_cfFlBO----","tei":"\n\t\n\t\tThe Reactome Pathway Knowledgebase\n\t\t\n\t\t\tAntonioFabregat\n\t\t\t0000-0002-3288-8599\n\t\t\n\t\t\n\t\t\tStevenJupe\n\t\t\n\t\t\n\t\t\tLisaMatthews\n\t\t\n\t\t\n\t\t\tKonstantinosSidiropoulos\n\t\t\n\t\t\n\t\t\tMarcGillespie\n\t\t\n\t\t\n\t\t\tPhaniGarapati\n\t\t\n\t\t\n\t\t\tRobinHaw\n\t\t\n\t\t\n\t\t\tBijayJassal\n\t\t\n\t\t\n\t\t\tFlorianKorninger\n\t\t\n\t\t\n\t\t\tBruceMay\n\t\t\n\t\t\n\t\t\tMarijaMilacic\n\t\t\n\t\t\n\t\t\tCorinaDuenasRoca\n\t\t\n\t\t\n\t\t\tKarenRothfels\n\t\t\n\t\t\n\t\t\tCristofferSevilla\n\t\t\n\t\t\n\t\t\tVeronicaShamovsky\n\t\t\n\t\t\n\t\t\tSolomonShorser\n\t\t\n\t\t\n\t\t\tThawfeekVarusai\n\t\t\n\t\t\n\t\t\tGuilhermeViteri\n\t\t\n\t\t\n\t\t\tJoelWeiser\n\t\t\n\t\t\n\t\t\tGuanmingWu\n\t\t\n\t\t\n\t\t\tLincolnStein\n\t\t\n\t\t\n\t\t\tHenningHermjakob\n\t\t\n\t\t\n\t\t\tPeterD’eustachio\n\t\t\t0000-0002-5494-626X\n\t\t\n\t\t10.1093/nar/gkx1132\n\t\t29145629\n\t\tPMC5753187\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2f1017723bebd86654b49"},"refKey":35},
{"_key":"60c2f1017723bebd86654b4d","_id":"references/60c2f1017723bebd86654b4d","_rev":"_cfFlBOK---","tei":"\n\t\n\t\tCytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t10.1101/gr.1239303\n\t\t14597658\n\t\tPMC403769\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c2f1017723bebd86654b49"},"refKey":38},
{"_key":"60c2f11d7723bebd86654b62","_id":"references/60c2f11d7723bebd86654b62","_rev":"_cfFlBOW---","tei":"\n\t\n\t\tDistribution of problems, medications and lab results in electronic health records: the Pareto principle at work\n\t\t\n\t\t\tAWright\n\t\t\n\t\t\n\t\t\tDWBates\n\t\t\n\t\n\t\n\t\tAppl Clin Inform\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f11d7723bebd86654b61"},"refKey":12},
{"_key":"60c2f1607723bebd86654b84","_id":"references/60c2f1607723bebd86654b84","_rev":"_cfFlBOi---","tei":"\n\t\n\t\tReference points for comparisons of two-dimensional maps of proteins from different human cell types defined in a pH scale where isoelectric points correlate with polypeptide compositions\n\t\t\n\t\t\tBengtBjellqvist\n\t\t\n\t\t\n\t\t\tBodilBasse\n\t\t\n\t\t\n\t\t\tEydfinnurOlsen\n\t\t\n\t\t\n\t\t\tJulioECelis\n\t\t\n\t\t10.1002/elps.1150150171\n\t\t8055880\n\t\tark:/67375/WNG-0FFXSWVL-F\n\t\tC25BEDE7566CA39F3256432F686366479E1E329A\n\t\n\t\n\t\tElectrophoresis\n\t\tElectrophoresis\n\t\t0173-0835\n\t\t1522-2683\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c2f1607723bebd86654b83"},"refKey":46},
{"_key":"60c2f1607723bebd86654b85","_id":"references/60c2f1607723bebd86654b85","_rev":"_cfFlBOu---","tei":"\n\t\n\t\tProtein Identification and Analysis Tools on the ExPASy Server\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tSDuvaud\n\t\t\n\t\t\n\t\t\tMRWilkins\n\t\t\n\t\t\n\t\t\tRDAppel\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\n\t\n\t\tThe Proteomics Protocols Handbook Edited by: Walker JM\n\t\t\t\tTotowa\n\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f1607723bebd86654b83"},"refKey":47},
{"_key":"60c2f18c7723bebd86654b9b","_id":"references/60c2f18c7723bebd86654b9b","_rev":"_cfFlBO6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMJCrawley\n\t\t\n\t\t\n\t\t\tRThe\n\t\t\n\t\t\n\t\t\tBook\n\t\t\n\t\t\n\t\t\t\n\t\t\tWiley-Blackwell\n\t\t\n\t\n\n","document":{"$oid":"60c2f18c7723bebd86654b9a"},"refKey":41},
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{"_key":"60c2f1947723bebd86654ba1","_id":"references/60c2f1947723bebd86654ba1","_rev":"_cfFlBPS---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f1947723bebd86654ba0"},"refKey":22},
{"_key":"60c2f1947723bebd86654ba2","_id":"references/60c2f1947723bebd86654ba2","_rev":"_cfFlBPe---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f1947723bebd86654ba0"},"refKey":23},
{"_key":"60c2f1987723bebd86654ba5","_id":"references/60c2f1987723bebd86654ba5","_rev":"_cfFlBPq---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f1987723bebd86654ba4"},"refKey":8},
{"_key":"60c2f19e7723bebd86654ba9","_id":"references/60c2f19e7723bebd86654ba9","_rev":"_cfFlBP2---","tei":"\n\t\n\t\tWIWS: a protein structure bioinformatics Web service collection\n\t\t\n\t\t\tMLHekkelman\n\t\t\n\t\t\n\t\t\tTA HTe Beek\n\t\t\n\t\t\n\t\t\tSRPettifer\n\t\t\n\t\t\n\t\t\tDThorne\n\t\t\n\t\t\n\t\t\tTKAttwood\n\t\t\n\t\t\n\t\t\tGVriend\n\t\t\n\t\t10.1093/nar/gkq453\n\t\t20501602\n\t\tPMC2896166\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2f19e7723bebd86654ba8"},"refKey":9},
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{"_key":"60c2f1ab7723bebd86654bc0","_id":"references/60c2f1ab7723bebd86654bc0","_rev":"_cfFlBQO---","tei":"\n\t\n\t\tLibrary Haskell-Coop\n\t\t\n\t\t\tDAhman\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f1ab7723bebd86654bbf"},"refKey":0},
{"_key":"60c2f1d07723bebd86654bfc","_id":"references/60c2f1d07723bebd86654bfc","_rev":"_cfFlBQa---","tei":"\n\t\n\t\tUnderstanding multicellular function and disease with human tissue-specific networks\n\t\t\n\t\t\tCSGreene\n\t\t\n\t\t\n\t\t\tAKrishnan\n\t\t\n\t\t\n\t\t\tAKWong\n\t\t\n\t\t\n\t\t\tERicciotti\n\t\t\n\t\t\n\t\t\tRAZelaya\n\t\t\n\t\t\n\t\t\tDSHimmelstein\n\t\t\n\t\n\t\n\t\tNat. Genet\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f1d07723bebd86654bfb"},"refKey":23},
{"_key":"60c2f1d07723bebd86654bfd","_id":"references/60c2f1d07723bebd86654bfd","_rev":"_cfFlBQm---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\t\n\t\t\tALGable\n\t\t\n\t\t\n\t\t\tDLyon\n\t\t\n\t\t\n\t\t\tAJunge\n\t\t\n\t\t\n\t\t\tSWyder\n\t\t\n\t\t\n\t\t\tJHuerta-Cepas\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f1d07723bebd86654bfb"},"refKey":27},
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{"_key":"60c2f1d07723bebd86654c00","_id":"references/60c2f1d07723bebd86654c00","_rev":"_cfFlBRK---","tei":"\n\t\n\t\tMorpheus: a user-friendly modeling environment for multiscale and multicellular systems biology\n\t\t\n\t\t\tJörnStarruß\n\t\t\n\t\t\n\t\t\tWalterDe Back\n\t\t\n\t\t\n\t\t\tLutzBrusch\n\t\t\n\t\t\n\t\t\tAndreasDeutsch\n\t\t\n\t\t10.1093/bioinformatics/btt772\n\t\t24443380\n\t\tPMC3998129\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2f1d07723bebd86654bfb"},"refKey":35},
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{"_key":"60c2f1d07723bebd86654c02","_id":"references/60c2f1d07723bebd86654c02","_rev":"_cfFlBRi---","tei":"\n\t\n\t\tA time-efficient, linear-space local similarity algorithm\n\t\t\n\t\t\tXiaoqiuHuang\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t10.1016/0196-8858(91)90017-d\n\t\n\t\n\t\tAdvances in Applied Mathematics\n\t\tAdvances in Applied Mathematics\n\t\t0196-8858\n\t\t\n\t\t\t12\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2f1d07723bebd86654bfb"},"refKey":32},
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{"_key":"60c2f1fe7723bebd86654c39","_id":"references/60c2f1fe7723bebd86654c39","_rev":"_cfFlBR6---","tei":"\n\t\n\t\tFake News Detection on Social Media\n\t\t\n\t\t\tKaiShu\n\t\t\n\t\t\n\t\t\tAmySliva\n\t\t\n\t\t\n\t\t\tSuhangWang\n\t\t\n\t\t\n\t\t\tJiliangTang\n\t\t\n\t\t\n\t\t\tHuanLiu\n\t\t\n\t\t10.1145/3137597.3137600\n\t\t\n\t\n\t\n\t\tACM SIGKDD Explorations Newsletter\n\t\tSIGKDD Explor. Newsl.\n\t\t1931-0145\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c2f1fe7723bebd86654c38"},"refKey":3},
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{"_key":"60c2f2e57723bebd86654cc4","_id":"references/60c2f2e57723bebd86654cc4","_rev":"_cfFlBTG---","tei":"\n\t\n\t\tTopHat: discovering splice junctions with RNA-Seq\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tLPachter\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f2e57723bebd86654cc2"},"refKey":23},
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{"_key":"60c2f3167723bebd86654d19","_id":"references/60c2f3167723bebd86654d19","_rev":"_cfFlBVK---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using tempest (formerly path-o-gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f3167723bebd86654d17"},"refKey":33},
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{"_key":"60c2f3187723bebd86654d25","_id":"references/60c2f3187723bebd86654d25","_rev":"_cfFlBV6---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2f3187723bebd86654d21"},"refKey":7},
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{"_key":"60c2f6cd7723bebd86655051","_id":"references/60c2f6cd7723bebd86655051","_rev":"_cfFlBhu---","tei":"\n\t\n\t\tThe complexity of probabilistic verification\n\t\t\n\t\t\tCostasCourcoubetis\n\t\t\n\t\t\n\t\t\tMihalisYannakakis\n\t\t\n\t\t10.1145/210332.210339\n\t\n\t\n\t\tJournal of the ACM\n\t\tJACM\n\t\t0004-5411\n\t\t\n\t\t\t42\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c2f6cd7723bebd8665504d"},"refKey":3},
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{"_key":"60c2fb737723bebd86655496","_id":"references/60c2fb737723bebd86655496","_rev":"_cfFlBz2---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tLFerretti\n\t\t\t\n\t\t\t\tR Development Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\tCWymant\n\t\t\t\n\t\t\t\tR Development Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\tMKendall\n\t\t\t\n\t\t\t\tR Development Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\tLZhao\n\t\t\t\n\t\t\t\tR Development Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\tANurtay\n\t\t\t\n\t\t\t\tR Development Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\tLAbeler-Dörner\n\t\t\t\n\t\t\t\tR Development Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\tMParker\n\t\t\t\n\t\t\t\tR Development Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\tDBonsall\n\t\t\t\n\t\t\t\tR Development Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\tCFraser\n\t\t\t\n\t\t\t\tR Development Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t20\n\t\t\tVienna, Austria\n\t\t\n\t\n\t: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c2fb737723bebd86655495"},"refKey":19},
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{"_key":"60c2fb997723bebd866554ad","_id":"references/60c2fb997723bebd866554ad","_rev":"_cfFlB0O---","tei":"\n\t\n\t\t): a computer program to calculate F-statistics\n\t\n\t\n\t\tGoudet J: FSTAT (version\n\t\t\n\t\t\t1\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tJ Hered\n\n","document":{"$oid":"60c2fb997723bebd866554ac"},"refKey":13},
{"_key":"60c2fbbf7723bebd866554bf","_id":"references/60c2fbbf7723bebd866554bf","_rev":"_cfFlB0a---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fbbf7723bebd866554be"},"refKey":28},
{"_key":"60c2fbbf7723bebd866554c0","_id":"references/60c2fbbf7723bebd866554c0","_rev":"_cfFlB0m---","tei":"\n\t\n\t\t\n\t\t\tBBushnell\n\t\t\n\t\tBBMap: A Fast (Accurate, Splice-Aware Aligner)\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fbbf7723bebd866554be"},"refKey":3},
{"_key":"60c2fbbf7723bebd866554c1","_id":"references/60c2fbbf7723bebd866554c1","_rev":"_cfFlB0u---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tGenome Project Data Processing Subgroup\n\t\t\t\t\n\t\t\t\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fbbf7723bebd866554be"},"refKey":23},
{"_key":"60c2fbbf7723bebd866554c2","_id":"references/60c2fbbf7723bebd866554c2","_rev":"_cfFlB06---","tei":"\n\t\n\t\tPorted to R by Thomas Lumley (versions 3.13, 4.4, version 4.13)., B. R. gee: Generalized Estimation Equation solver\n\t\t\n\t\t\tVJCarey\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t13\n\t\t\t11\n\t\t\n\t\n\n","document":{"$oid":"60c2fbbf7723bebd866554be"},"refKey":4},
{"_key":"60c2fbbf7723bebd866554c3","_id":"references/60c2fbbf7723bebd866554c3","_rev":"_cfFlB1G---","tei":"\n\t\n\t\tAnalyzing spatial autocorrelation in species distributions using Gaussian and logit models\n\t\t\n\t\t\tGCarl\n\t\t\n\t\t\n\t\t\tIKühn\n\t\t\n\t\t10.1016/j.ecolmodel.2007.04.024\n\t\n\t\n\t\tEcological Modelling\n\t\tEcological Modelling\n\t\t0304-3800\n\t\t\n\t\t\t207\n\t\t\t2-4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2fbbf7723bebd866554be"},"refKey":5},
{"_key":"60c2fbbf7723bebd866554c4","_id":"references/60c2fbbf7723bebd866554c4","_rev":"_cfFlB1S---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tTechnology Molecular Cell\n\t\t\n\t\t\t9\n\t\t\t1133\n\t\t\t\n\t\t\n\t\n\tNat. Methods\n\n","document":{"$oid":"60c2fbbf7723bebd866554be"},"refKey":22},
{"_key":"60c2fbbf7723bebd866554c5","_id":"references/60c2fbbf7723bebd866554c5","_rev":"_cfFlB1e---","tei":"\n\t\n\t\tMEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph\n\t\t\n\t\t\tDLi\n\t\t\n\t\t\n\t\t\tCMLiu\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tKSadakane\n\t\t\n\t\t\n\t\t\tTWLam\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fbbf7723bebd866554be"},"refKey":24},
{"_key":"60c2fbbf7723bebd866554c6","_id":"references/60c2fbbf7723bebd866554c6","_rev":"_cfFlB1q---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fbbf7723bebd866554be"},"refKey":12},
{"_key":"60c2fbfc7723bebd86655504","_id":"references/60c2fbfc7723bebd86655504","_rev":"_cfFlB12---","tei":"\n\t\n\t\tApplication of the MAFFT sequence alignment program to large data—reexamination of the usefulness of chained guide trees\n\t\t\n\t\t\tKazunoriDYamada\n\t\t\n\t\t\n\t\t\tKentaroTomii\n\t\t\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\n\t\t10.1093/bioinformatics/btw412\n\t\t27378296\n\t\tPMC5079479\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2fbfc7723bebd86655503"},"refKey":53},
{"_key":"60c2fc347723bebd8665552d","_id":"references/60c2fc347723bebd8665552d","_rev":"_cfFlB2----","tei":"\n\t\n\t\tMicrosoft robotics studio: A technical introduction\n\t\t\n\t\t\tJJackson\n\t\t\n\t\t10.1109/m-ra.2007.905745\n\t\n\t\n\t\tIEEE Robotics & Automation Magazine\n\t\tIEEE Robot. Automat. Mag.\n\t\t1070-9932\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c2fc347723bebd8665552c"},"refKey":32},
{"_key":"60c2fc347723bebd8665552e","_id":"references/60c2fc347723bebd8665552e","_rev":"_cfFlB2K---","tei":"\n\t\n\t\tProgramming distributed applications with COM+ and Microsoft Visual Basic 6.0\n\t\t\n\t\t\tTPattison\n\t\t\n\t\t\n\t\t\tDBox\n\t\t\n\t\t\n\t\t\t\n\t\t\tMicrosoft Press\n\t\t\n\t\n\n","document":{"$oid":"60c2fc347723bebd8665552c"},"refKey":33},
{"_key":"60c2fc347723bebd8665552f","_id":"references/60c2fc347723bebd8665552f","_rev":"_cfFlB2W---","tei":"\n\t\n\t\tDevelopment and Comparison of Open Source based Web GIS Frameworks on WAMP and Apache Tomcat Web Servers\n\t\t\n\t\t\tSAgrawal\n\t\t\n\t\t\n\t\t\tRDGupta\n\t\t\n\t\t10.5194/isprsarchives-xl-4-1-2014\n\t\t\n\t\n\t\n\t\tISPRS - International Archives of the Photogrammetry, Remote Sensing and Spatial Information Sciences\n\t\tInt. Arch. Photogramm. Remote Sens. Spatial Inf. Sci.\n\t\t2194-9034\n\t\t\n\t\t\tXL-4\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tCopernicus GmbH\n\t\t\n\t\n\n","document":{"$oid":"60c2fc347723bebd8665552c"},"refKey":34},
{"_key":"60c2fc3f7723bebd86655542","_id":"references/60c2fc3f7723bebd86655542","_rev":"_cfFlB2i---","tei":"\n\t\n\t\t\n\t\t\tSCao\n\t\t\n\t\t\n\t\t\tWLu\n\t\t\n\t\t\n\t\t\tQXu\n\t\t\n\t\tGrarep: Learning graph representations with global structural information\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fc3f7723bebd86655541"},"refKey":6},
{"_key":"60c2fc3f7723bebd86655543","_id":"references/60c2fc3f7723bebd86655543","_rev":"_cfFlB2u---","tei":"\n\t\n\t\tNetwork Representation Learning with Rich Text Information\n\t\t\n\t\t\tYCheng\n\t\t\n\t\t\n\t\t\tLZhiyuan\n\t\t\n\t\t\n\t\t\tZDeli\n\t\t\n\t\t\n\t\t\tSMaosong\n\t\t\n\t\t\n\t\t\tEYChang\n\t\t\n\t\n\t\n\t\t24th International Joint Conference on Artificial Intelligence\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fc3f7723bebd86655541"},"refKey":7},
{"_key":"60c2fc3f7723bebd86655544","_id":"references/60c2fc3f7723bebd86655544","_rev":"_cfFlB26---","tei":"\n\t\n\t\tLINE: Large-scale Information Network Embedding\n\t\t\n\t\t\tJTang\n\t\t\n\t\t\n\t\t\tMQu\n\t\t\n\t\t\n\t\t\tMWang\n\t\t\n\t\t\n\t\t\tMZhang\n\t\t\n\t\t\n\t\t\tJYan\n\t\t\n\t\t\n\t\t\tQMei\n\t\t\n\t\n\t\n\t\tthe 24th International Conference on World Wide Web\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fc3f7723bebd86655541"},"refKey":33},
{"_key":"60c2fc3f7723bebd86655545","_id":"references/60c2fc3f7723bebd86655545","_rev":"_cfFlB3C---","tei":"\n\t\n\t\t\n\t\t\tLF RRibeiro\n\t\t\n\t\t\n\t\t\tPH PSaverese\n\t\t\n\t\t\n\t\t\tDRFigueiredo\n\t\t\n\t\tstruc2vec: Learning Node Representations from Structural Identity. In knowledge discovery and data mining\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fc3f7723bebd86655541"},"refKey":27},
{"_key":"60c2fc497723bebd8665554d","_id":"references/60c2fc497723bebd8665554d","_rev":"_cfFlB3O---","tei":"\n\t\n\t\tMega7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fc497723bebd8665554c"},"refKey":24},
{"_key":"60c2fc497723bebd8665554e","_id":"references/60c2fc497723bebd8665554e","_rev":"_cfFlB3a---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using CLUSTAL omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\n\t\n\t\tMol Syst Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fc497723bebd8665554c"},"refKey":22},
{"_key":"60c2fc4d7723bebd86655552","_id":"references/60c2fc4d7723bebd86655552","_rev":"_cfFlB3m---","tei":"\n\t\n\t\tape 5.0: an environment for modern phylogenetics and evolutionary analyses in R\n\t\t\n\t\t\tEParadis\n\t\t\n\t\t\n\t\t\tKSchliep\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fc4d7723bebd86655551"},"refKey":22},
{"_key":"60c2fc4d7723bebd86655553","_id":"references/60c2fc4d7723bebd86655553","_rev":"_cfFlB3y---","tei":"\n\t\n\t\tIQ-TREE 2: new models and efficient methods for phylogenetic inference in the genomic era\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tOChernomor\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fc4d7723bebd86655551"},"refKey":20},
{"_key":"60c2fc4d7723bebd86655554","_id":"references/60c2fc4d7723bebd86655554","_rev":"_cfFlB4----","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fc4d7723bebd86655551"},"refKey":19},
{"_key":"60c2fc627723bebd86655579","_id":"references/60c2fc627723bebd86655579","_rev":"_cfFlB4K---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c2fc627723bebd86655578"},"refKey":17},
{"_key":"60c2fc6d7723bebd86655582","_id":"references/60c2fc6d7723bebd86655582","_rev":"_cfFlB4S---","tei":"\n\t\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fc6d7723bebd86655581"},"refKey":27},
{"_key":"60c2fce47723bebd866555b5","_id":"references/60c2fce47723bebd866555b5","_rev":"_cfFlB4e---","tei":"\n\t\n\t\tClasses and methods for spatial data in R\n\t\t\n\t\t\tEPebesma\n\t\t\n\t\t\n\t\t\tRBivand\n\t\t\n\t\t\n\t\t\n\t\n\tInternet. cited 16 May 2020\n\n","document":{"$oid":"60c2fce47723bebd866555b4"},"refKey":92},
{"_key":"60c2fce47723bebd866555b6","_id":"references/60c2fce47723bebd866555b6","_rev":"_cfFlB4q---","tei":"\n\t\n\t\tGeodist: Fast, Dependency-Free Geodesic Distance Calculations\n\t\t\n\t\t\tMPadgham\n\t\t\n\t\t\n\t\t\tDMSumner\n\t\t\n\t\t\n\t\t\tCffKarney\n\t\t\n\t\t\n\t\t\n\t\n\tInternet. cited 16 May 2020\n\n","document":{"$oid":"60c2fce47723bebd866555b4"},"refKey":88},
{"_key":"60c2fce97723bebd866555be","_id":"references/60c2fce97723bebd866555be","_rev":"_cfFlB42---","tei":"\n\t\n\t\tIntroduction to Mediation, Moderation, and Conditional Process Analysis: A Regression-Based Approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford Press\n\t\t\tNew York, NY\n\t\t\n\t\n\t2nd Edn\n\n","document":{"$oid":"60c2fce97723bebd866555bd"},"refKey":37},
{"_key":"60c2fd3a7723bebd866555e3","_id":"references/60c2fd3a7723bebd866555e3","_rev":"_cfFlB5C---","tei":"\n\t\n\t\tThe Liège automata-based symbolic handler\n\t\t\n\t\n\t\n\t\tAvailable at\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c2fd3a7723bebd866555e2"},"refKey":15},
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{"_key":"60c2fd747723bebd86655605","_id":"references/60c2fd747723bebd86655605","_rev":"_cfFlB5a---","tei":"\n\t\n\t\tPrediction of CTL epitopes using QM, SVM and ANN techniques\n\t\t\n\t\t\tManojBhasin\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1016/j.vaccine.2004.02.005\n\t\t15297074\n\t\t\n\t\n\t\n\t\tVaccine\n\t\tVaccine\n\t\t0264-410X\n\t\t\n\t\t\t22\n\t\t\t23-24\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2fd747723bebd86655604"},"refKey":7},
{"_key":"60c2fd7f7723bebd86655611","_id":"references/60c2fd7f7723bebd86655611","_rev":"_cfFlB5m---","tei":"\n\t\n\t\tTargetSpy: a supervised machine learning approach for microRNA target prediction\n\t\t\n\t\t\tMartinSturm\n\t\t\n\t\t\n\t\t\tMichaelHackenberg\n\t\t\n\t\t\n\t\t\tDavidLangenberger\n\t\t\n\t\t\n\t\t\tDmitrijFrishman\n\t\t\n\t\t10.1186/1471-2105-11-292\n\t\t20509939\n\t\tPMC2889937\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t292\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2fd7f7723bebd86655610"},"refKey":64},
{"_key":"60c2fd7f7723bebd86655612","_id":"references/60c2fd7f7723bebd86655612","_rev":"_cfFlB5u---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tAaronRQuinlan\n\t\t\n\t\t\n\t\t\tIraMHall\n\t\t\n\t\t10.1093/bioinformatics/btq033\n\t\t20110278\n\t\tPMC2832824\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2fd7f7723bebd86655610"},"refKey":66},
{"_key":"60c2fd7f7723bebd86655613","_id":"references/60c2fd7f7723bebd86655613","_rev":"_cfFlB56---","tei":"\n\t\n\t\tRNAhybrid: microRNA target prediction easy, fast and flexible\n\t\t\n\t\t\tJKruger\n\t\t\n\t\t\n\t\t\tMRehmsmeier\n\t\t\n\t\t10.1093/nar/gkl243\n\t\t16845047\n\t\tPMC1538877\n\t\tark:/67375/HXZ-7BRS87FG-5\n\t\t1188ED000F1950B8D8EFD47DB4532AEF9273EFA6\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2fd7f7723bebd86655610"},"refKey":67},
{"_key":"60c2fd7f7723bebd86655614","_id":"references/60c2fd7f7723bebd86655614","_rev":"_cfFlB6G---","tei":"\n\t\n\t\tsRNAtoolbox: an integrated collection of small RNA research tools\n\t\t\n\t\t\tAntonioRueda\n\t\t\n\t\t\n\t\t\tGuillermoBarturen\n\t\t\n\t\t\n\t\t\tRicardoLebrón\n\t\t\n\t\t\n\t\t\tCristinaGómez-Martín\n\t\t\n\t\t\n\t\t\tÁngelAlganza\n\t\t\n\t\t\n\t\t\tJoséLOliver\n\t\t\n\t\t\n\t\t\tMichaelHackenberg\n\t\t\n\t\t10.1093/nar/gkv555\n\t\t26019179\n\t\tPMC4489306\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c2fd7f7723bebd86655610"},"refKey":65},
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{"_key":"60c2fe137723bebd866556d6","_id":"references/60c2fe137723bebd866556d6","_rev":"_cfFlB6e---","tei":"\n\t\n\t\tSelective 2′-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) for direct, versatile and accurate RNA structure analysis\n\t\t\n\t\t\tMatthewJSmola\n\t\t\n\t\t\n\t\t\tGreggoryMRice\n\t\t\n\t\t\n\t\t\tStevenBusan\n\t\t\n\t\t\n\t\t\tNathanASiegfried\n\t\t\n\t\t\n\t\t\tKevinMWeeks\n\t\t\n\t\t10.1038/nprot.2015.103\n\t\t26426499\n\t\tPMC4900152\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t10\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2fe137723bebd866556d4"},"refKey":31},
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{"_key":"60c2fe287723bebd86655715","_id":"references/60c2fe287723bebd86655715","_rev":"_cfFlB7K---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c2fe287723bebd86655714"},"refKey":24},
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{"_key":"60c2fe717723bebd86655769","_id":"references/60c2fe717723bebd86655769","_rev":"_cfFlB92---","tei":"\n\t\n\t\tKraken: ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDerrickEWood\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2014-15-3-r46\n\t\t24580807\n\t\tPMC4053813\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t15\n\t\t\t3\n\t\t\tR46\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2fe717723bebd86655764"},"refKey":98},
{"_key":"60c2fe717723bebd8665576a","_id":"references/60c2fe717723bebd8665576a","_rev":"_cfFlC-C---","tei":"\n\t\n\t\tInference of Macromolecular Assemblies from Crystalline State\n\t\t\n\t\t\tEvgenyKrissinel\n\t\t\n\t\t\n\t\t\tKimHenrick\n\t\t\n\t\t10.1016/j.jmb.2007.05.022\n\t\t17681537\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t372\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c2fe717723bebd86655764"},"refKey":110},
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{"_key":"60c2ff987723bebd86655882","_id":"references/60c2ff987723bebd86655882","_rev":"_cfFlCBq---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tCCamacho\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tVAvagyan\n\t\t\n\t\t\n\t\t\tNMa\n\t\t\n\t\t\n\t\t\tJPapadopoulos\n\t\t\n\t\t\n\t\t\tKBealer\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ff987723bebd86655881"},"refKey":17},
{"_key":"60c2ff987723bebd86655883","_id":"references/60c2ff987723bebd86655883","_rev":"_cfFlCB2---","tei":"\n\t\n\t\tHHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment\n\t\t\n\t\t\tMichaelRemmert\n\t\t\n\t\t\n\t\t\tAndreasBiegert\n\t\t\n\t\t\n\t\t\tAndreasHauser\n\t\t\n\t\t\n\t\t\tJohannesSöding\n\t\t\n\t\t10.1038/nmeth.1818\n\t\t22198341\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c2ff987723bebd86655881"},"refKey":18},
{"_key":"60c2ffa57723bebd86655891","_id":"references/60c2ffa57723bebd86655891","_rev":"_cfFlCC----","tei":"\n\t\n\t\tFaBox: an online toolbox for fasta sequences\n\t\t\n\t\t\tPVillesen\n\t\t\n\t\n\t\n\t\tMol Ecol Resources\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ffa57723bebd86655890"},"refKey":52},
{"_key":"60c2ffc07723bebd866558a7","_id":"references/60c2ffc07723bebd866558a7","_rev":"_cfFlCCK---","tei":"\n\t\n\t\tFast and SNP-tolerant detection of complex variants and splicing in short reads\n\t\t\n\t\t\tTDWu\n\t\t\n\t\t\n\t\t\tSNacu\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ffc07723bebd866558a6"},"refKey":68},
{"_key":"60c2ffe87723bebd866558c6","_id":"references/60c2ffe87723bebd866558c6","_rev":"_cfFlCCW---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ffe87723bebd866558c5"},"refKey":38},
{"_key":"60c2ffe87723bebd866558c7","_id":"references/60c2ffe87723bebd866558c7","_rev":"_cfFlCCi---","tei":"\n\t\n\t\tScalable web services for the PSIPRED Protein Analysis Workbench\n\t\t\n\t\t\tDW ABuchan\n\t\t\n\t\t\n\t\t\tFMinneci\n\t\t\n\t\t\n\t\t\tTC ONugent\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ffe87723bebd866558c5"},"refKey":41},
{"_key":"60c2ffe87723bebd866558c8","_id":"references/60c2ffe87723bebd866558c8","_rev":"_cfFlCCu---","tei":"\n\t\n\t\tProtein secondary structure prediction based on position-specific scoring matrices\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\t\n\t\t\t292\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ffe87723bebd866558c5"},"refKey":42},
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{"_key":"60c2ffe87723bebd866558ca","_id":"references/60c2ffe87723bebd866558ca","_rev":"_cfFlCDG--_","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ffe87723bebd866558c5"},"refKey":40},
{"_key":"60c2ffe87723bebd866558cb","_id":"references/60c2ffe87723bebd866558cb","_rev":"_cfFlCDS---","tei":"\n\t\n\t\tDiANNA 1.1: an extension of the DiANNA web server for ternary cysteine classification\n\t\t\n\t\t\tFFerre\n\t\t\n\t\t\n\t\t\tPClote\n\t\t\n\t\t10.1093/nar/gkl189\n\t\t16844987\n\t\tPMC1538812\n\t\tark:/67375/HXZ-QH04NC7R-R\n\t\t315FB9CADF451561EA16F4B57C404D098145A6E1\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c2ffe87723bebd866558c5"},"refKey":43},
{"_key":"60c2ffe87723bebd866558cc","_id":"references/60c2ffe87723bebd866558cc","_rev":"_cfFlCDa---","tei":"\n\t\n\t\tDnaSP v5: a software for comprehensive analysis of DNA polymorphism data\n\t\t\n\t\t\tPLibrado\n\t\t\n\t\t\n\t\t\tJRozas\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2ffe87723bebd866558c5"},"refKey":37},
{"_key":"60c2fff87723bebd866558e5","_id":"references/60c2fff87723bebd866558e5","_rev":"_cfFlCDm---","tei":"\n\t\n\t\tUsing the margins command to estimate and interpret adjusted predictions and marginal effects\n\t\t\n\t\t\tRWilliams\n\t\t\n\t\n\t\n\t\tStata J\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c2fff87723bebd866558e4"},"refKey":55},
{"_key":"60c300147723bebd866558ee","_id":"references/60c300147723bebd866558ee","_rev":"_cfFlCDy---","tei":"\n\t\n\t\tStan: A Probabilistic Programming Language\n\t\t\n\t\t\tBobCarpenter\n\t\t\n\t\t\n\t\t\tAndrewGelman\n\t\t\n\t\t\n\t\t\tMatthewDHoffman\n\t\t\n\t\t\n\t\t\tDanielLee\n\t\t\n\t\t\n\t\t\tBenGoodrich\n\t\t\n\t\t\n\t\t\tMichaelBetancourt\n\t\t\n\t\t\n\t\t\tMarcusBrubaker\n\t\t\n\t\t\n\t\t\tJiqiangGuo\n\t\t\n\t\t\n\t\t\tPeterLi\n\t\t\n\t\t\n\t\t\tAllenRiddell\n\t\t\n\t\t10.18637/jss.v076.i01\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t76\n\t\t\t1\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c300147723bebd866558ed"},"refKey":23},
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{"_key":"60c300467723bebd86655906","_id":"references/60c300467723bebd86655906","_rev":"_cfFlCEK---","tei":"\n\t\n\t\tGROMACS: Fast, flexible, and free\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tGerritGroenhof\n\t\t\n\t\t\n\t\t\tAlanEMark\n\t\t\n\t\t\n\t\t\tHermanJ CBerendsen\n\t\t\n\t\t10.1002/jcc.20291\n\t\t16211538\n\t\tark:/67375/WNG-FZWKDCST-G\n\t\t1B9A91E56BE3B9919FC3D0665CD10F2EB65C307A\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c300467723bebd86655904"},"refKey":11},
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{"_key":"60c300e37723bebd86655982","_id":"references/60c300e37723bebd86655982","_rev":"_cfFlCFm---","tei":"\n\t\n\t\tlmerTest Package: Tests in Linear Mixed Effects Models\n\t\t\n\t\t\tAlexandraKuznetsova\n\t\t\n\t\t\n\t\t\tPerBBrockhoff\n\t\t\n\t\t\n\t\t\tRuneH BChristensen\n\t\t\n\t\t10.18637/jss.v082.i13\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t82\n\t\t\t13\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c300e37723bebd86655981"},"refKey":38},
{"_key":"60c300e37723bebd86655983","_id":"references/60c300e37723bebd86655983","_rev":"_cfFlCFy---","tei":"\n\t\n\t\tOpenSim: Open-Source Software to Create and Analyze Dynamic Simulations of Movement\n\t\t\n\t\t\tScottLDelp\n\t\t\n\t\t\n\t\t\tFrankCAnderson\n\t\t\n\t\t\n\t\t\tAllisonSArnold\n\t\t\n\t\t\n\t\t\tPeterLoan\n\t\t\n\t\t\n\t\t\tAymanHabib\n\t\t\n\t\t\n\t\t\tChandTJohn\n\t\t\n\t\t\n\t\t\tEranGuendelman\n\t\t\n\t\t\n\t\t\tDarrylGThelen\n\t\t\n\t\t10.1109/tbme.2007.901024\n\t\t18018689\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Biomedical Engineering\n\t\tIEEE Trans. Biomed. Eng.\n\t\t0018-9294\n\t\t\n\t\t\t54\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c300e37723bebd86655981"},"refKey":10},
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{"_key":"60c3021d7723bebd86655ad2","_id":"references/60c3021d7723bebd86655ad2","_rev":"_cfFlCLy---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\t0000-0002-3210-2656\n\t\t\n\t\t\n\t\t\tStefansMezulis\n\t\t\n\t\t\n\t\t\tChristopherMYates\n\t\t\n\t\t\n\t\t\tMarkNWass\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\t0000-0002-1884-5445\n\t\t\n\t\t10.1038/nprot.2015.053\n\t\t25950237\n\t\tPMC5298202\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3021d7723bebd86655ad1"},"refKey":55},
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{"_key":"60c3029e7723bebd86655b81","_id":"references/60c3029e7723bebd86655b81","_rev":"_cfFlCPm---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3029e7723bebd86655b7d"},"refKey":10},
{"_key":"60c3029e7723bebd86655b82","_id":"references/60c3029e7723bebd86655b82","_rev":"_cfFlCPy---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3029e7723bebd86655b7d"},"refKey":0},
{"_key":"60c3029e7723bebd86655b83","_id":"references/60c3029e7723bebd86655b83","_rev":"_cfFlCQ----","tei":"\n\t\n\t\tA fully automatic method yielding initial models from high-resolution electron cryo-microscopy maps\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tOlegVSobolev\n\t\t\n\t\t10.1101/267138\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3029e7723bebd86655b7d"},"refKey":57},
{"_key":"60c3029e7723bebd86655b84","_id":"references/60c3029e7723bebd86655b84","_rev":"_cfFlCQK---","tei":"\n\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\t\t\n\t\t\t\n\t\t\t27\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3029e7723bebd86655b7d"},"refKey":20},
{"_key":"60c302a87723bebd86655ba5","_id":"references/60c302a87723bebd86655ba5","_rev":"_cfFlCQW---","tei":"\n\t\n\t\tMedCalc statistical software\n\t\t\n\t\t\tFSchoonjans\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c302a87723bebd86655ba4"},"refKey":29},
{"_key":"60c302ac7723bebd86655ba8","_id":"references/60c302ac7723bebd86655ba8","_rev":"_cfFlCQi---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Cryst\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c302ac7723bebd86655ba7"},"refKey":4},
{"_key":"60c302ac7723bebd86655ba9","_id":"references/60c302ac7723bebd86655ba9","_rev":"_cfFlCQu---","tei":"\n\t\n\t\tThe 'Buccaneer' software for automated protein chain tracing\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\t10.1107/s0108767306098266\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t62\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c302ac7723bebd86655ba7"},"refKey":2},
{"_key":"60c302ac7723bebd86655baa","_id":"references/60c302ac7723bebd86655baa","_rev":"_cfFlCQ6---","tei":"\n\t\n\t\tAuto-Rickshaw: an online tool for validation of an X-ray diffraction experiment\n\t\t\n\t\t\tSPanjikar\n\t\t\n\t\t\n\t\t\tVParthasarathy\n\t\t\n\t\t\n\t\t\tVSLamzin\n\t\t\n\t\t\n\t\t\tMSWeiss\n\t\t\n\t\t\n\t\t\tPATucker\n\t\t\n\t\t10.1107/s0108767308097511\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t64\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c302ac7723bebd86655ba7"},"refKey":19},
{"_key":"60c302ac7723bebd86655bab","_id":"references/60c302ac7723bebd86655bab","_rev":"_cfFlCRG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tGBunko ´czi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tBHintze\n\t\t\n\t\t\n\t\t\tL.-WHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRDOeffner\n\t\t\n\t\t\n\t\t\tBKPoon\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tMDSammito\n\t\t\n\t\t\n\t\t\tOVSobolev\n\t\t\n\t\t\n\t\t\tDHStockwell\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tAGUrzhumtsev\n\t\t\n\t\t\n\t\t\tLLVideau\n\t\t\n\t\t\n\t\t\tCJWilliams\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tActa Cryst\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c302ac7723bebd86655ba7"},"refKey":10},
{"_key":"60c302ac7723bebd86655bac","_id":"references/60c302ac7723bebd86655bac","_rev":"_cfFlCRS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t\n\t\t\tL.-WHung\n\t\t\n\t\n\t\n\t\tActa Cryst\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c302ac7723bebd86655ba7"},"refKey":25},
{"_key":"60c302ac7723bebd86655bad","_id":"references/60c302ac7723bebd86655bad","_rev":"_cfFlCRe---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGMSheldrick\n\t\t\n\t\n\t\n\t\tNat. Commun\n\t\tB. D. & Allis, C. D.\n\t\t\n\t\t\t71\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tNature\n\n","document":{"$oid":"60c302ac7723bebd86655ba7"},"refKey":24},
{"_key":"60c302c37723bebd86655bc5","_id":"references/60c302c37723bebd86655bc5","_rev":"_cfFlCRq---","tei":"\n\t\n\t\tDifferential expression analysis for sequence count data\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t10.1038/npre.2010.4282.1\n\t\t\n\t\n\t\n\t\tNature Precedings\n\t\tNat Prec\n\t\t1756-0357\n\t\t\n\t\t\tR106\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c302c37723bebd86655bc4"},"refKey":4},
{"_key":"60c302c37723bebd86655bc6","_id":"references/60c302c37723bebd86655bc6","_rev":"_cfFlCR2---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t10\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c302c37723bebd86655bc4"},"refKey":44},
{"_key":"60c302c37723bebd86655bc7","_id":"references/60c302c37723bebd86655bc7","_rev":"_cfFlCSC---","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBLi\n\t\t\n\t\t\n\t\t\tCNDewey\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t12\n\t\t\t323\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c302c37723bebd86655bc4"},"refKey":48},
{"_key":"60c302c37723bebd86655bc8","_id":"references/60c302c37723bebd86655bc8","_rev":"_cfFlCSO---","tei":"\n\t\n\t\tbaySeq: Empirical Bayesian methods for identifying differential expression in sequence count data\n\t\t\n\t\t\tThomasJHardcastle\n\t\t\n\t\t\n\t\t\tKrystynaAKelly\n\t\t\n\t\t10.1186/1471-2105-11-422\n\t\t20698981\n\t\tPMC2928208\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t422\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c302c37723bebd86655bc4"},"refKey":34},
{"_key":"60c302c37723bebd86655bc9","_id":"references/60c302c37723bebd86655bc9","_rev":"_cfFlCSa---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c302c37723bebd86655bc4"},"refKey":2},
{"_key":"60c302d57723bebd86655be2","_id":"references/60c302d57723bebd86655be2","_rev":"_cfFlCSm---","tei":"\n\t\n\t\tRebeca: Theory, Applications, and Tools\n\t\t\n\t\t\tMarjanSirjani\n\t\t\n\t\t\n\t\t\tFSDe Boer\n\t\t\n\t\t\n\t\t\tMMBonsangue\n\t\t\n\t\t\n\t\t\tSGraf\n\t\t\n\t\t\n\t\t\tDe Roever\n\t\t\n\t\t10.1007/978-3-540-74792-5_5\n\t\tark:/67375/HCB-ZNWHMP3F-P\n\t\tB9E99CFFEE6CC6B2DF74938DE7FFFF19E10C89C4\n\t\t\n\t\n\t\n\t\tFormal Methods for Components and Objects\n\t\t\t\t\n\t\t\tW.-P\n\t\t\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t4709\n\t\t\t\n\t\t\n\t\n\tFMCO 2006. LNCS\n\n","document":{"$oid":"60c302d57723bebd86655be1"},"refKey":10},
{"_key":"60c302d57723bebd86655be3","_id":"references/60c302d57723bebd86655be3","_rev":"_cfFlCSy---","tei":"\n\t\n\t\tModeling and verification of reactive systems using Rebeca\n\t\t\n\t\t\tMSirjani\n\t\t\n\t\t\n\t\t\tAMovaghar\n\t\t\n\t\t\n\t\t\tAShali\n\t\t\n\t\t\n\t\t\tFSDe Boer\n\t\t\n\t\n\t\n\t\tFundam. Informaticae\n\t\t\n\t\t\t63\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c302d57723bebd86655be1"},"refKey":15},
{"_key":"60c302e97723bebd86655c03","_id":"references/60c302e97723bebd86655c03","_rev":"_cfFlCT----","tei":"\n\t\n\t\tRStudio: Integrated Development for R. RSudio, Inc\n\t\t\n\t\t\n\t\t\t\n\t\t\tBoston, MA\n\t\t\n\t\n\n","document":{"$oid":"60c302e97723bebd86655c02"},"refKey":50},
{"_key":"60c303947723bebd86655c46","_id":"references/60c303947723bebd86655c46","_rev":"_cfFlCTK---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c303947723bebd86655c45"},"refKey":53},
{"_key":"60c303947723bebd86655c47","_id":"references/60c303947723bebd86655c47","_rev":"_cfFlCTW---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNoelMO'boyle\n\t\t\n\t\t\n\t\t\tMichaelBanck\n\t\t\n\t\t\n\t\t\tCraigAJames\n\t\t\n\t\t\n\t\t\tChrisMorley\n\t\t\n\t\t\n\t\t\tTimVandermeersch\n\t\t\n\t\t\n\t\t\tGeoffreyRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t21982300\n\t\tPMC3198950\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c303947723bebd86655c45"},"refKey":56},
{"_key":"60c303b07723bebd86655c53","_id":"references/60c303b07723bebd86655c53","_rev":"_cfFlCTi---","tei":"\n\t\n\t\tProcessing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c303b07723bebd86655c52"},"refKey":5},
{"_key":"60c303b07723bebd86655c54","_id":"references/60c303b07723bebd86655c54","_rev":"_cfFlCTq---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c303b07723bebd86655c52"},"refKey":7},
{"_key":"60c303b07723bebd86655c55","_id":"references/60c303b07723bebd86655c55","_rev":"_cfFlCT2---","tei":"\n\t\n\t\tMOLREP: an automated program for molecular replacement\n\t\t\n\t\t\tAVagin\n\t\t\n\t\t\n\t\t\tATeplyakov\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c303b07723bebd86655c52"},"refKey":6},
{"_key":"60c303b07723bebd86655c56","_id":"references/60c303b07723bebd86655c56","_rev":"_cfFlCUC---","tei":"\n\t\n\t\tThe case for open-source software in drug discovery\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\n\t\n\t\tDrug Discov. Today\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c303b07723bebd86655c52"},"refKey":9},
{"_key":"60c303bc7723bebd86655c6b","_id":"references/60c303bc7723bebd86655c6b","_rev":"_cfFlCUO---","tei":"\n\t\n\t\tAnalysis and prediction of affinity of TAP binding peptides using cascade SVM\n\t\t\n\t\t\tMBhasin\n\t\t\n\t\t\n\t\t\tGPRaghava\n\t\t\n\t\t10.1110/ps.03373104\n\t\t14978300\n\t\tPMC2286721\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t13\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c303bc7723bebd86655c6a"},"refKey":35},
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{"_key":"60c303bc7723bebd86655c6d","_id":"references/60c303bc7723bebd86655c6d","_rev":"_cfFlCUm---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c303bc7723bebd86655c6a"},"refKey":63},
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{"_key":"60c303bc7723bebd86655c70","_id":"references/60c303bc7723bebd86655c70","_rev":"_cfFlCVG---","tei":"\n\t\n\t\tHigh-throughput prediction of protein antigenicity using protein microarray data\n\t\t\n\t\t\tChristopheNMagnan\n\t\t\n\t\t\n\t\t\tMichaelZeller\n\t\t\n\t\t\n\t\t\tMatthewAKayala\n\t\t\n\t\t\n\t\t\tAdamVigil\n\t\t\n\t\t\n\t\t\tArloRandall\n\t\t\n\t\t\n\t\t\tPhilipLFelgner\n\t\t\n\t\t\n\t\t\tPierreBaldi\n\t\t\n\t\t10.1093/bioinformatics/btq551\n\t\t20934990\n\t\tPMC2982151\n\t\tark:/67375/HXZ-D4HXJ7KW-Q\n\t\t7A45A76423A7A3531F80506C09E3145760301E10\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c303bc7723bebd86655c6a"},"refKey":32},
{"_key":"60c303bc7723bebd86655c71","_id":"references/60c303bc7723bebd86655c71","_rev":"_cfFlCVS---","tei":"\n\t\n\t\tLarge-scale validation of methods for cytotoxic T-lymphocyte epitope prediction\n\t\t\n\t\t\tMetteVLarsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tSorenBuus\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1186/1471-2105-8-424\n\t\t17973982\n\t\tPMC2194739\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t424\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c303bc7723bebd86655c6a"},"refKey":34},
{"_key":"60c303bc7723bebd86655c72","_id":"references/60c303bc7723bebd86655c72","_rev":"_cfFlCVe---","tei":"\n\t\n\t\tVaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines\n\t\t\n\t\t\tIADoytchinova\n\t\t\n\t\t\n\t\t\tDRFlower\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c303bc7723bebd86655c6a"},"refKey":33},
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{"_key":"60c303bc7723bebd86655c74","_id":"references/60c303bc7723bebd86655c74","_rev":"_cfFlCV2---","tei":"\n\t\n\t\tImproved method for predicting linear B-cell epitopes\n\t\t\n\t\t\tJELarsen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunome Res\n\t\t\n\t\t\t2\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c303bc7723bebd86655c6a"},"refKey":36},
{"_key":"60c303bc7723bebd86655c75","_id":"references/60c303bc7723bebd86655c75","_rev":"_cfFlCWC---","tei":"\n\t\n\t\tSignalP 4.0: discriminating signal peptides from transmembrane regions\n\t\t\n\t\t\tTNPetersen\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c303bc7723bebd86655c6a"},"refKey":29},
{"_key":"60c303bc7723bebd86655c76","_id":"references/60c303bc7723bebd86655c76","_rev":"_cfFlCWK---","tei":"\n\t\n\t\tFeature-based prediction of non-classical and leaderless protein secretion\n\t\t\n\t\t\tJDBendtsen\n\t\t\n\t\t\n\t\t\tLJJensen\n\t\t\n\t\t\n\t\t\tNBlom\n\t\t\n\t\t\n\t\t\tVonHeijne\n\t\t\n\t\t\n\t\t\tGBrunak\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tProtein Eng Des Sel\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c303bc7723bebd86655c6a"},"refKey":30},
{"_key":"60c303bc7723bebd86655c77","_id":"references/60c303bc7723bebd86655c77","_rev":"_cfFlCWW---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c303bc7723bebd86655c6a"},"refKey":31},
{"_key":"60c303be7723bebd86655c97","_id":"references/60c303be7723bebd86655c97","_rev":"_cfFlCWi---","tei":"\n\t\n\t\tMorePower 6.0 for ANOVA with relational confidence intervals and Bayesian analysis\n\t\t\n\t\t\tJamieI DCampbell\n\t\t\n\t\t\n\t\t\tValerieAThompson\n\t\t\n\t\t10.3758/s13428-012-0186-0\n\t\t22437511\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehav Res\n\t\t1554-3528\n\t\t\n\t\t\t44\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c303be7723bebd86655c96"},"refKey":9},
{"_key":"60c303fe7723bebd86655cbf","_id":"references/60c303fe7723bebd86655cbf","_rev":"_cfFlCWu---","tei":"\n\t\n\t\tSOPMA: significant improvements in protein secondary structure prediction by consensus prediction from multiple alignments\n\t\t\n\t\t\tCGeourjon\n\t\t\n\t\t\n\t\t\tGDeléage\n\t\t\n\t\t10.1093/bioinformatics/11.6.681\n\t\tark:/67375/HXZ-3NCG9X08-F\n\t\tF28C01AB29C5F411E08EAED1E7B846C54236DDE3\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t11\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c303fe7723bebd86655cbe"},"refKey":26},
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{"_key":"60c304267723bebd86655d03","_id":"references/60c304267723bebd86655d03","_rev":"_cfFlCXe---","tei":"\n\t\n\t\tSPREAD: spatial phylogenetic reconstruction of evolutionary dynamics\n\t\t\n\t\t\tFBielejec\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t10.1093/bioinformatics/btr481\n\t\t21911333\n\t\tPMC3187652\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c304267723bebd86655d02"},"refKey":30},
{"_key":"60c304267723bebd86655d04","_id":"references/60c304267723bebd86655d04","_rev":"_cfFlCXm---","tei":"\n\t\n\t\tVery high resolution interpolated climate surfaces for global land areas\n\t\t\n\t\t\tRJHijmans\n\t\t\n\t\t\n\t\t\tSECameron\n\t\t\n\t\t\n\t\t\tJLParra\n\t\t\n\t\t\n\t\t\tPGJones\n\t\t\n\t\t\n\t\t\tAJarvis\n\t\t\n\t\n\t\n\t\tInt J Climatol\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c304267723bebd86655d02"},"refKey":35},
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{"_key":"60c3045e7723bebd86655d1e","_id":"references/60c3045e7723bebd86655d1e","_rev":"_cfFlCYW---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3045e7723bebd86655d1a"},"refKey":39},
{"_key":"60c3045f7723bebd86655d2d","_id":"references/60c3045f7723bebd86655d2d","_rev":"_cfFlCYi---","tei":"\n\t\n\t\tIBM SPSS statistics for windows, version 22.0. Armonk: IBM Corp\n\t\t\n\t\t\tIbmCorp\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3045f7723bebd86655d2c"},"refKey":21},
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{"_key":"60c304b97723bebd86655d4c","_id":"references/60c304b97723bebd86655d4c","_rev":"_cfFlCY6---","tei":"\n\t\n\t\tA web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSJo\n\t\t\n\t\t\n\t\t\tTKim\n\t\t\n\t\t\n\t\t\tVGIyer\n\t\t\n\t\t\n\t\t\tWIm\n\t\t\n\t\t\n\t\t\tCharmm-Gui\n\t\t\n\t\n\t\n\t\tJ. Comp. Chem\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c304b97723bebd86655d4a"},"refKey":64},
{"_key":"60c304b97723bebd86655d4d","_id":"references/60c304b97723bebd86655d4d","_rev":"_cfFlCZC---","tei":"\n\t\n\t\tCHARMM-GUI Input Generator for NAMD, Gromacs, Amber, Openmm, and CHARMM/OpenMM Simulations using the CHARMM36 Additive Force Field\n\t\t\n\t\t\tJuminLee\n\t\t\n\t\t\n\t\t\tXiCheng\n\t\t\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t\n\t\t\tJefferyBKlauda\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1016/j.bpj.2015.11.3431\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t110\n\t\t\t3\n\t\t\t641a\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c304b97723bebd86655d4a"},"refKey":65},
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{"_key":"60c304d87723bebd86655d61","_id":"references/60c304d87723bebd86655d61","_rev":"_cfFlCZa---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c304d87723bebd86655d60"},"refKey":51},
{"_key":"60c304d87723bebd86655d62","_id":"references/60c304d87723bebd86655d62","_rev":"_cfFlCZm---","tei":"\n\t\n\t\tThe CCP4 suite: programs for protein crystallography\n\t\n\t\n\t\tActa Crystallogr Sect D Biol Crystallogr\n\t\t\n\t\t\t50\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tCollaborative Computational Project\n\t\t\n\t\n\n","document":{"$oid":"60c304d87723bebd86655d60"},"refKey":47},
{"_key":"60c304d87723bebd86655d63","_id":"references/60c304d87723bebd86655d63","_rev":"_cfFlCZy---","tei":"\n\t\n\t\tCoot: model-building tools for molecular graphics\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\n\t\n\t\tActa Crystallogr Sect D Biol Crystallogr\n\t\t\n\t\t\t60\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c304d87723bebd86655d60"},"refKey":50},
{"_key":"60c3050e7723bebd86655d78","_id":"references/60c3050e7723bebd86655d78","_rev":"_cfFlCa----","tei":"\n\t\n\t\tAn ultra-fast singlenode solution for large and complex metagenomics assembly via succinct de Bruijn graph\n\t\t\n\t\t\tDLi\n\t\t\n\t\t\n\t\t\tCMLiu\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tKSadakane\n\t\t\n\t\t\n\t\t\tTWLam\n\t\t\n\t\t\n\t\t\tMegahit\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3050e7723bebd86655d77"},"refKey":7},
{"_key":"60c3050e7723bebd86655d79","_id":"references/60c3050e7723bebd86655d79","_rev":"_cfFlCaK---","tei":"\n\t\n\t\tFull-length transcriptome assembly from RNA-Seq data without a reference genome\n\t\t\n\t\t\tMGGrabherr\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3050e7723bebd86655d77"},"refKey":29},
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{"_key":"60c305237723bebd86655d99","_id":"references/60c305237723bebd86655d99","_rev":"_cfFlCae---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t10\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c305237723bebd86655d98"},"refKey":33},
{"_key":"60c3052e7723bebd86655da7","_id":"references/60c3052e7723bebd86655da7","_rev":"_cfFlCaq---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3052e7723bebd86655da6"},"refKey":56},
{"_key":"60c3052e7723bebd86655da8","_id":"references/60c3052e7723bebd86655da8","_rev":"_cfFlCa2---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3052e7723bebd86655da6"},"refKey":38},
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{"_key":"60c3053b7723bebd86655dc5","_id":"references/60c3053b7723bebd86655dc5","_rev":"_cfFlCcS---","tei":"\n\t\n\t\tA New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tNeilMFerguson\n\t\t\n\t\t\n\t\t\tChristopheFraser\n\t\t\n\t\t\n\t\t\tSimonCauchemez\n\t\t\n\t\t10.1093/aje/kwt133\n\t\t24043437\n\t\tPMC3816335\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t1476-6256\n\t\t\n\t\t\t178\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3053b7723bebd86655dc0"},"refKey":19},
{"_key":"60c3053b7723bebd86655dc6","_id":"references/60c3053b7723bebd86655dc6","_rev":"_cfFlCce---","tei":"\n\t\n\t\tEstimate Time Varying Reproduction Numbers from Epidemic Curves. R Package Version 2.2-2. 2020\n\t\t\n\t\t\tACori\n\t\t\n\t\t\n\t\t\tSCauchemez\n\t\t\n\t\t\n\t\t\tNMFerguson\n\t\t\n\t\t\n\t\t\tCFraser\n\t\t\n\t\t\n\t\t\tEDahlqwist\n\t\t\n\t\t\n\t\t\tPADemarsh\n\t\t\n\t\t\n\t\t\tTJombart\n\t\t\n\t\t\n\t\t\tZNKamvar\n\t\t\n\t\t\n\t\t\tJLessler\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t30\n\t\t\n\t\n\n","document":{"$oid":"60c3053b7723bebd86655dc0"},"refKey":31},
{"_key":"60c3053b7723bebd86655dc7","_id":"references/60c3053b7723bebd86655dc7","_rev":"_cfFlCcq---","tei":"\n\t\n\t\tElegant Graphics for Data Analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t10.1007/978-0-387-98141-3\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\tNew York, NY, USA\n\t\t\n\t\n\n","document":{"$oid":"60c3053b7723bebd86655dc0"},"refKey":13},
{"_key":"60c305517723bebd86655dd6","_id":"references/60c305517723bebd86655dd6","_rev":"_cfFlCc2---","tei":"\n\t\n\t\tMassive parallelization of serial inference algorithms for a complex generalized linear model\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tSESimpson\n\t\t\n\t\t\n\t\t\tIZorych\n\t\t\n\t\t\n\t\t\tPRyan\n\t\t\n\t\t\n\t\t\tDMadigan\n\t\t\n\t\n\t\n\t\tACM Trans Model Comput Simul\n\t\t\n\t\t\t23\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c305517723bebd86655dd5"},"refKey":39},
{"_key":"60c3058e7723bebd86655de9","_id":"references/60c3058e7723bebd86655de9","_rev":"_cfFlCd----","tei":"\n\t\n\t\tProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMWiederstein\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3058e7723bebd86655de8"},"refKey":20},
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{"_key":"60c3058e7723bebd86655deb","_id":"references/60c3058e7723bebd86655deb","_rev":"_cfFlCdW---","tei":"\n\t\n\t\tProtein identification and analysis tools on the ExPASy server\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\n\t\n\t\tThe Proteomics Protocols Handbook\n\t\t\t\t\n\t\t\tJMWalker\n\t\t\n\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3058e7723bebd86655de8"},"refKey":13},
{"_key":"60c305c67723bebd86655e27","_id":"references/60c305c67723bebd86655e27","_rev":"_cfFlCdi---","tei":"\n\t\n\t\tA basic introduction to fixed-effect and randomeffects models for meta-analysis\n\t\t\n\t\t\tMBorenstein\n\t\t\n\t\t\n\t\t\tLVHedges\n\t\t\n\t\t\n\t\t\tJPHiggins\n\t\t\n\t\t\n\t\t\tHRRothstein\n\t\t\n\t\n\t\n\t\tRes Synth Methods\n\t\t\n\t\t\t1\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c305c67723bebd86655e26"},"refKey":25},
{"_key":"60c305ee7723bebd86655e3e","_id":"references/60c305ee7723bebd86655e3e","_rev":"_cfFlCdu---","tei":"\n\t\n\t\tMega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c305ee7723bebd86655e3d"},"refKey":54},
{"_key":"60c305ee7723bebd86655e3f","_id":"references/60c305ee7723bebd86655e3f","_rev":"_cfFlCd6---","tei":"\n\t\n\t\tjMODELTEST: phylogenetic model averaging\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c305ee7723bebd86655e3d"},"refKey":44},
{"_key":"60c3060a7723bebd86655e4e","_id":"references/60c3060a7723bebd86655e4e","_rev":"_cfFlCeG---","tei":"\n\t\n\t\tThe reproductive number of COVID-19 is higher compared to SARS coronavirus\n\t\t\n\t\t\tYLiu\n\t\t\n\t\t\n\t\t\tAAGayle\n\t\t\n\t\t\n\t\t\tAWilder-Smith\n\t\t\n\t\t\n\t\t\tJRocklöv\n\t\t\n\t\n\t\n\t\tJ. Travel Med\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3060a7723bebd86655e4d"},"refKey":2},
{"_key":"60c3061e7723bebd86655e54","_id":"references/60c3061e7723bebd86655e54","_rev":"_cfFlCeO---","tei":"\n\t\n\t\tPython for data analysis: Data wrangling with Pandas, NumPy, and IPython\n\t\t\n\t\t\tWMckinney\n\t\t\n\t\t\n\t\t\t\n\t\t\tReilly Media, Inc\n\t\t\n\t\n\n","document":{"$oid":"60c3061e7723bebd86655e53"},"refKey":31},
{"_key":"60c3061e7723bebd86655e55","_id":"references/60c3061e7723bebd86655e55","_rev":"_cfFlCea---","tei":"\n\t\n\t\tReactive vega: A streaming dataflow architecture for declarative interactive visualization\n\t\t\n\t\t\tASatyanarayan\n\t\t\n\t\t\n\t\t\tRRussell\n\t\t\n\t\t\n\t\t\tJHoffswell\n\t\t\n\t\t\n\t\t\tJHeer\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Visualization and Computer Graphics\n\t\t\n\t\t\t22\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3061e7723bebd86655e53"},"refKey":44},
{"_key":"60c3061e7723bebd86655e56","_id":"references/60c3061e7723bebd86655e56","_rev":"_cfFlCem---","tei":"\n\t\n\t\tScikit-learn: Machine learning in python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tVMichel\n\t\t\n\t\t\n\t\t\tBThirion\n\t\t\n\t\t\n\t\t\tOGrisel\n\t\t\n\t\t\n\t\t\tMBlondel\n\t\t\n\t\t\n\t\t\tPPrettenhofer\n\t\t\n\t\t\n\t\t\tRWeiss\n\t\t\n\t\t\n\t\t\tVDubourg\n\t\t\n\t\n\t\n\t\tJournal of machine Learning research\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3061e7723bebd86655e53"},"refKey":35},
{"_key":"60c3061e7723bebd86655e57","_id":"references/60c3061e7723bebd86655e57","_rev":"_cfFlCey---","tei":"\n\t\n\t\tVega-Lite: A Grammar of Interactive Graphics\n\t\t\n\t\t\tArvindSatyanarayan\n\t\t\t0000-0001-5564-635X\n\t\t\n\t\t\n\t\t\tDominikMoritz\n\t\t\t0000-0002-3110-1053\n\t\t\n\t\t\n\t\t\tKanitWongsuphasawat\n\t\t\n\t\t\n\t\t\tJefferyHeer\n\t\t\n\t\t10.31219/osf.io/mqzyx\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Visualization and Computer Graphics\n\t\t\n\t\t\t23\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCenter for Open Science\n\t\t\n\t\n\n","document":{"$oid":"60c3061e7723bebd86655e53"},"refKey":43},
{"_key":"60c3061e7723bebd86655e58","_id":"references/60c3061e7723bebd86655e58","_rev":"_cfFlCf----","tei":"\n\t\n\t\tggplot2: elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c3061e7723bebd86655e53"},"refKey":52},
{"_key":"60c3061e7723bebd86655e59","_id":"references/60c3061e7723bebd86655e59","_rev":"_cfFlCfK---","tei":"\n\t\n\t\tThe numpy array: a structure for efficient numerical computation\n\t\t\n\t\t\tSVWalt\n\t\t\n\t\t\n\t\t\tSCColbert\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\t\n\t\t\t13\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3061e7723bebd86655e53"},"refKey":51},
{"_key":"60c3061e7723bebd86655e5a","_id":"references/60c3061e7723bebd86655e5a","_rev":"_cfFlCfW---","tei":"\n\t\n\t\tMllib: Machine learning in apache spark\n\t\t\n\t\t\tXMeng\n\t\t\n\t\t\n\t\t\tJBradley\n\t\t\n\t\t\n\t\t\tBYavuz\n\t\t\n\t\t\n\t\t\tESparks\n\t\t\n\t\t\n\t\t\tSVenkataraman\n\t\t\n\t\t\n\t\t\tDLiu\n\t\t\n\t\t\n\t\t\tJFreeman\n\t\t\n\t\t\n\t\t\tDTsai\n\t\t\n\t\t\n\t\t\tMAmde\n\t\t\n\t\t\n\t\t\tSOwen\n\t\t\n\t\n\t\n\t\tThe Journal of Machine Learning Research\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3061e7723bebd86655e53"},"refKey":32},
{"_key":"60c3061e7723bebd86655e5b","_id":"references/60c3061e7723bebd86655e5b","_rev":"_cfFlCfi---","tei":"\n\t\n\t\tD 3 : Data-Driven Documents\n\t\t\n\t\t\tMBostock\n\t\t\n\t\t\n\t\t\tVOgievetsky\n\t\t\n\t\t\n\t\t\tJHeer\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Visualization and Computer Graphics\n\t\t\n\t\t\t17\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3061e7723bebd86655e53"},"refKey":3},
{"_key":"60c3061e7723bebd86655e5c","_id":"references/60c3061e7723bebd86655e5c","_rev":"_cfFlCfu---","tei":"\n\t\n\t\tResilient distributed datasets: A fault-tolerant abstraction for in-memory cluster computing\n\t\t\n\t\t\tMZaharia\n\t\t\n\t\t\n\t\t\tMChowdhury\n\t\t\n\t\t\n\t\t\tTDas\n\t\t\n\t\t\n\t\t\tADave\n\t\t\n\t\t\n\t\t\tJMa\n\t\t\n\t\t\n\t\t\tMMccauley\n\t\t\n\t\t\n\t\t\tMJFranklin\n\t\t\n\t\t\n\t\t\tSShenker\n\t\t\n\t\t\n\t\t\tIStoica\n\t\t\n\t\n\t\n\t\tProceedings of the 9th USENIX Conference on Networked Systems Design and Implementation\n\t\t\t\tthe 9th USENIX Conference on Networked Systems Design and ImplementationUSA\n\t\t\n\t\t\t\n\t\t\t12\n\t\t\n\t\n\n","document":{"$oid":"60c3061e7723bebd86655e53"},"refKey":56},
{"_key":"60c3061e7723bebd86655e5d","_id":"references/60c3061e7723bebd86655e5d","_rev":"_cfFlCf2---","tei":"\n\t\n\t\tStatsmodels: Econometric and statistical modeling with python\n\t\t\n\t\t\tSSeabold\n\t\t\n\t\t\n\t\t\tJPerktold\n\t\t\n\t\n\t\n\t\tProceedings of the 9th Python in Science Conference\n\t\t\t\tthe 9th Python in Science Conference\n\t\t\n\t\t\tScipy\n\t\t\t\n\t\t\t57\n\t\t\t61\n\t\t\n\t\n\n","document":{"$oid":"60c3061e7723bebd86655e53"},"refKey":45},
{"_key":"60c306247723bebd86655e7f","_id":"references/60c306247723bebd86655e7f","_rev":"_cfFlCgC---","tei":"\n\t\n\t\tOxford Nanopore Technologies\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c306247723bebd86655e7e"},"refKey":63},
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{"_key":"60c306487723bebd86655eb1","_id":"references/60c306487723bebd86655eb1","_rev":"_cfFlCga---","tei":"\n\t\n\t\tDrawing Graphs with Dot\n\t\t\n\t\t\tEKoutsofios\n\t\t\n\t\t\n\t\t\tSCNorth\n\t\t\n\t\t\n\t\t\t\n\t\t\tMurray Hill, NJ, USA\n\t\t\n\t\t\n\t\t\tAT&T Bell Laboratories\n\t\t\n\t\n\n","document":{"$oid":"60c306487723bebd86655eaf"},"refKey":39},
{"_key":"60c306487723bebd86655eb2","_id":"references/60c306487723bebd86655eb2","_rev":"_cfFlCgm---","tei":"\n\t\n\t\tSTATISTICA (data analysis software system), version 6\n\t\t\n\t\t\tStatsoft\n\t\t\n\t\t\n\t\t\tInc\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c306487723bebd86655eaf"},"refKey":59},
{"_key":"60c306817723bebd86655ed4","_id":"references/60c306817723bebd86655ed4","_rev":"_cfFlCgy---","tei":"\n\t\n\t\tThe 3.1 Å cryo-EM structure of the porcine epidemic diarrhea virus spike protein in the prefusion conformation\n\t\t\n\t\t\tDanielWrapp\n\t\t\n\t\t\n\t\t\tJasonSMclellan\n\t\t\n\t\t10.1128/jvi.00923-19\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJ Virol\n\t\t0022-538X\n\t\t1098-5514\n\t\t\n\t\t\t367\n\t\t\t6483\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c306817723bebd86655ed3"},"refKey":28},
{"_key":"60c306817723bebd86655ed5","_id":"references/60c306817723bebd86655ed5","_rev":"_cfFlCh----","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c306817723bebd86655ed3"},"refKey":26},
{"_key":"60c306817723bebd86655ed6","_id":"references/60c306817723bebd86655ed6","_rev":"_cfFlChG---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c306817723bebd86655ed3"},"refKey":37},
{"_key":"60c306817723bebd86655ed7","_id":"references/60c306817723bebd86655ed7","_rev":"_cfFlChS---","tei":"\n\t\n\t\tInference of macromolecular assemblies from crystalline state\n\t\t\n\t\t\tEKrissinel\n\t\t\n\t\t\n\t\t\tKHenrick\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t372\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c306817723bebd86655ed3"},"refKey":34},
{"_key":"60c3068e7723bebd86655eed","_id":"references/60c3068e7723bebd86655eed","_rev":"_cfFlChe---","tei":"\n\t\n\t\tFactoMineR: AnRPackage for Multivariate Analysis\n\t\t\n\t\t\tSébastienLê\n\t\t\n\t\t\n\t\t\tJulieJosse\n\t\t\n\t\t\n\t\t\tFrançoisHusson\n\t\t\n\t\t10.18637/jss.v025.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t25\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c3068e7723bebd86655eec"},"refKey":15},
{"_key":"60c3068e7723bebd86655eee","_id":"references/60c3068e7723bebd86655eee","_rev":"_cfFlChq---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCarolineASchneider\n\t\t\n\t\t\n\t\t\tWayneSRasband\n\t\t\n\t\t\n\t\t\tKevinWEliceiri\n\t\t\n\t\t10.1038/nmeth.2089\n\t\t22930834\n\t\tPMC5554542\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3068e7723bebd86655eec"},"refKey":14},
{"_key":"60c3069a7723bebd86655f06","_id":"references/60c3069a7723bebd86655f06","_rev":"_cfFlCh2---","tei":"\n\t\n\t\tSoftware news and updates AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tHRuth\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3069a7723bebd86655f05"},"refKey":26},
{"_key":"60c306a37723bebd86655f12","_id":"references/60c306a37723bebd86655f12","_rev":"_cfFlCiC---","tei":"\n\t\n\t\tCoot: model-building tools for molecular graphics\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\n\t\n\t\tActa Crystallog. D\n\t\t\n\t\t\t60\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c306a37723bebd86655f11"},"refKey":64},
{"_key":"60c306ad7723bebd86655f1d","_id":"references/60c306ad7723bebd86655f1d","_rev":"_cfFlCiO---","tei":"\n\t\n\t\tQuality of YouTube patient information on prostate cancer screening\n\t\t\n\t\t\tBibhusanBasnet\n\t\t\n\t\t\n\t\t\tSurajBhattarai\n\t\t\n\t\t\n\t\t\tAmitKhanal\n\t\t\n\t\t\n\t\t\tManishaUpadhyay\n\t\t\n\t\t\n\t\t\tAshmaBaruwal\n\t\t\n\t\t10.1080/08998280.2019.1594493\n\t\n\t\n\t\tBaylor University Medical Center Proceedings\n\t\tBaylor University Medical Center Proceedings\n\t\t0899-8280\n\t\t1525-3252\n\t\t\n\t\t\t32\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c306ad7723bebd86655f1c"},"refKey":15},
{"_key":"60c306ad7723bebd86655f1e","_id":"references/60c306ad7723bebd86655f1e","_rev":"_cfFlCia---","tei":"\n\t\n\t\tAre internet videos useful sources of information during global public health emergencies? A case study of YouTube videos during the 2015–16 Zika virus pandemic\n\t\t\n\t\t\tKaustubhBora\n\t\t\n\t\t\n\t\t\tDulmoniDas\n\t\t\n\t\t\n\t\t\tBhupenBarman\n\t\t\n\t\t\n\t\t\tProbodhBorah\n\t\t\n\t\t10.1080/20477724.2018.1507784\n\t\t30156974\n\t\n\t\n\t\tPathogens and Global Health\n\t\tPathogens and Global Health\n\t\t2047-7724\n\t\t2047-7732\n\t\t\n\t\t\t112\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c306ad7723bebd86655f1c"},"refKey":19},
{"_key":"60c306ad7723bebd86655f1f","_id":"references/60c306ad7723bebd86655f1f","_rev":"_cfFlCii---","tei":"\n\t\n\t\tYouTube as source of information on 2019 novel coronavirus outbreak: a cross sectional study of English and Mandarin content\n\t\t\n\t\t\tPKhatri\n\t\t\n\t\t\n\t\t\tSRSingh\n\t\t\n\t\t\n\t\t\tNKBelani\n\t\t\n\t\t\n\t\t\tYLYeong\n\t\t\n\t\t\n\t\t\tRLohan\n\t\t\n\t\t\n\t\t\tYMLim\n\t\t\n\t\t\n\t\t\tWzyTeo\n\t\t\n\t\t10.1016/j.tmaid.2020.101636\n\t\n\t\n\t\tTravel Med Infect Dis\n\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c306ad7723bebd86655f1c"},"refKey":20},
{"_key":"60c306ad7723bebd86655f20","_id":"references/60c306ad7723bebd86655f20","_rev":"_cfFlCiu---","tei":"\n\t\n\t\tYouTube As a Source of Information on the H1N1 Influenza Pandemic\n\t\t\n\t\t\tAmbarishPandey\n\t\t\n\t\t\n\t\t\tNiveditaPatni\n\t\t\n\t\t\n\t\t\tMansherSingh\n\t\t\n\t\t\n\t\t\tAkshaySood\n\t\t\n\t\t\n\t\t\tGayatriSingh\n\t\t\n\t\t10.1016/j.amepre.2009.11.007\n\t\t20171526\n\t\n\t\n\t\tAmerican Journal of Preventive Medicine\n\t\tAmerican Journal of Preventive Medicine\n\t\t0749-3797\n\t\t\n\t\t\t38\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c306ad7723bebd86655f1c"},"refKey":21},
{"_key":"60c306f07723bebd86655f58","_id":"references/60c306f07723bebd86655f58","_rev":"_cfFlCi6---","tei":"\n\t\n\t\tNosoSim: an agent-based model of nosocomial pathogens circulation in hospitals\n\t\t\n\t\t\tLauraTemime\n\t\t\n\t\t\n\t\t\tLidiaKardas-Sloma\n\t\t\n\t\t\n\t\t\tLullaOpatowski\n\t\t\n\t\t\n\t\t\tChristianBrun-Buisson\n\t\t\n\t\t\n\t\t\tPierre-YvesBoëlle\n\t\t\n\t\t\n\t\t\tDidierGuillemot\n\t\t\n\t\t10.1016/j.procs.2010.04.251\n\t\n\t\n\t\tProcedia Computer Science\n\t\tProcedia Computer Science\n\t\t1877-0509\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c306f07723bebd86655f57"},"refKey":45},
{"_key":"60c307007723bebd86655f65","_id":"references/60c307007723bebd86655f65","_rev":"_cfFlCjG---","tei":"\n\t\n\t\tScikit-learn: machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\n\t\n\t\tJ. Mach. Learn. Res\n\t\t\n\t\t\t12\n\t\t\t85\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307007723bebd86655f64"},"refKey":10},
{"_key":"60c307007723bebd86655f66","_id":"references/60c307007723bebd86655f66","_rev":"_cfFlCjS---","tei":"\n\t\n\t\tMulti-label classification using a fuzzy rough neighborhood consensus\n\t\t\n\t\t\tSarahVluymans\n\t\t\n\t\t\n\t\t\tChrisCornelis\n\t\t\n\t\t\n\t\t\tFranciscoHerrera\n\t\t\n\t\t\n\t\t\tYvanSaeys\n\t\t\n\t\t10.1016/j.ins.2017.12.034\n\t\n\t\n\t\tInformation Sciences\n\t\tInformation Sciences\n\t\t0020-0255\n\t\t\n\t\t\t433-434\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c307007723bebd86655f64"},"refKey":15},
{"_key":"60c307007723bebd86655f67","_id":"references/60c307007723bebd86655f67","_rev":"_cfFlCje---","tei":"\n\t\n\t\tDynamic affinity-based classification of multi-class imbalanced data with one-versus-one decomposition: a fuzzy rough set approach\n\t\t\n\t\t\tSarahVluymans\n\t\t\t0000-0003-1782-8114\n\t\t\n\t\t\n\t\t\tAlbertoFernández\n\t\t\n\t\t\n\t\t\tYvanSaeys\n\t\t\n\t\t\n\t\t\tChrisCornelis\n\t\t\n\t\t\n\t\t\tFranciscoHerrera\n\t\t\n\t\t10.1007/s10115-017-1126-1\n\t\t\n\t\n\t\n\t\tKnowledge and Information Systems\n\t\tKnowl Inf Syst\n\t\t0219-1377\n\t\t0219-3116\n\t\t\n\t\t\t56\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c307007723bebd86655f64"},"refKey":17},
{"_key":"60c307007723bebd86655f68","_id":"references/60c307007723bebd86655f68","_rev":"_cfFlCjq---","tei":"\n\t\n\t\tImplementing algorithms of rough set theory and fuzzy rough set theory in the R package “RoughSets”\n\t\t\n\t\t\tLalaSeptemRiza\n\t\t\n\t\t\n\t\t\tAndrzejJanusz\n\t\t\n\t\t\n\t\t\tChristophBergmeir\n\t\t\n\t\t\n\t\t\tChrisCornelis\n\t\t\n\t\t\n\t\t\tFranciscoHerrera\n\t\t\n\t\t\n\t\t\tDominikŚle¸zak\n\t\t\n\t\t\n\t\t\tJoséManuelBenítez\n\t\t\n\t\t10.1016/j.ins.2014.07.029\n\t\n\t\n\t\tInformation Sciences\n\t\tInformation Sciences\n\t\t0020-0255\n\t\t\n\t\t\t287\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c307007723bebd86655f64"},"refKey":11},
{"_key":"60c307007723bebd86655f69","_id":"references/60c307007723bebd86655f69","_rev":"_cfFlCj2---","tei":"\n\t\n\t\tThe WEKA data mining software: an update\n\t\t\n\t\t\tMHall\n\t\t\n\t\t\n\t\t\tEFrank\n\t\t\n\t\t\n\t\t\tGHolmes\n\t\t\n\t\t\n\t\t\tBPfahringer\n\t\t\n\t\t\n\t\t\tPReutemann\n\t\t\n\t\t\n\t\t\tIHWitten\n\t\t\n\t\n\t\n\t\tACM SIGKDD Explor. Newslett\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307007723bebd86655f64"},"refKey":2},
{"_key":"60c307007723bebd86655f6a","_id":"references/60c307007723bebd86655f6a","_rev":"_cfFlCk----","tei":"\n\t\n\t\tFuzzy-Rough Data Mining\n\t\t\n\t\t\tRichardJensen\n\t\t\n\t\t10.4018/978-1-4666-5202-6.ch092\n\t\t\n\t\n\t\n\t\tEncyclopedia of Business Analytics and Optimization\n\t\t\t\t\n\t\t\tIGI Global\n\t\t\t2010\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307007723bebd86655f64"},"refKey":3},
{"_key":"60c307037723bebd86655f79","_id":"references/60c307037723bebd86655f79","_rev":"_cfFlCkK---","tei":"\n\t\n\t\tNucleic Acids in Plants\n\t\t\n\t\t\tTimothyAHall\n\t\t\n\t\t10.1201/9781351075084\n\t\n\t\n\t\tNucleic. Acids. Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\tCRC Press\n\t\t\n\t\n\n","document":{"$oid":"60c307037723bebd86655f78"},"refKey":42},
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{"_key":"60c307147723bebd86655f8d","_id":"references/60c307147723bebd86655f8d","_rev":"_cfFlCki---","tei":"\n\t\n\t\tA method to predict the impact of regulatory variants from DNA sequence\n\t\t\n\t\t\tDongwonLee\n\t\t\n\t\t\n\t\t\tDavidUGorkin\n\t\t\n\t\t\n\t\t\tMaggieBaker\n\t\t\n\t\t\n\t\t\tBenjaminJStrober\n\t\t\n\t\t\n\t\t\tAlessandroLAsoni\n\t\t\n\t\t\n\t\t\tAndrewSMccallion\n\t\t\n\t\t\n\t\t\tMichaelABeer\n\t\t\n\t\t10.1038/ng.3331\n\t\t26075791\n\t\tPMC4520745\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t47\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c307147723bebd86655f8b"},"refKey":32},
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{"_key":"60c307147723bebd86655f8f","_id":"references/60c307147723bebd86655f8f","_rev":"_cfFlCk6---","tei":"\n\t\n\t\tThe UCSC Genome Browser database: 2017 update\n\t\t\n\t\t\tCTyner\n\t\t\n\t\t\n\t\t\tGPBarber\n\t\t\n\t\t\n\t\t\tJCasper\n\t\t\n\t\t\n\t\t\tHClawson\n\t\t\n\t\t\n\t\t\tMDiekhans\n\t\t\n\t\t\n\t\t\tCEisenhart\n\t\t\n\t\t\n\t\t\tCMFischer\n\t\t\n\t\t\n\t\t\tDGibson\n\t\t\n\t\t\n\t\t\tJNGonzalez\n\t\t\n\t\t\n\t\t\tLGuruvadoo\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307147723bebd86655f8b"},"refKey":64},
{"_key":"60c307147723bebd86655f90","_id":"references/60c307147723bebd86655f90","_rev":"_cfFlClG---","tei":"\n\t\n\t\tJASPAR 2020: update of the open-access database of transcription factor binding profiles\n\t\t\n\t\t\tOFornes\n\t\t\n\t\t\n\t\t\tJACastro-Mondragon\n\t\t\n\t\t\n\t\t\tAKhan\n\t\t\n\t\t\n\t\t\tRVan Der Lee\n\t\t\n\t\t\n\t\t\tXZhang\n\t\t\n\t\t\n\t\t\tPARichmond\n\t\t\n\t\t\n\t\t\tBPModi\n\t\t\n\t\t\n\t\t\tSCorreard\n\t\t\n\t\t\n\t\t\tMGheorghe\n\t\t\n\t\t\n\t\t\tDBaranasic\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307147723bebd86655f8b"},"refKey":18},
{"_key":"60c307147723bebd86655f91","_id":"references/60c307147723bebd86655f91","_rev":"_cfFlClS---","tei":"\n\t\n\t\tVariation across 141,456 human exomes and genomes reveals the spectrum of loss-of-function intolerance across human protein-coding genes\n\t\t\n\t\t\tKJKarczewski\n\t\t\n\t\t\n\t\t\tLCFrancioli\n\t\t\n\t\t\n\t\t\tGTiao\n\t\t\n\t\t\n\t\t\tBBCummings\n\t\t\n\t\t\n\t\t\tJAlföldi\n\t\t\n\t\t\n\t\t\tQWang\n\t\t\n\t\t\n\t\t\tRLCollins\n\t\t\n\t\t\n\t\t\tKMLaricchia\n\t\t\n\t\t\n\t\t\tAGanna\n\t\t\n\t\t\n\t\t\tDPBirnbaum\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307147723bebd86655f8b"},"refKey":24},
{"_key":"60c307147723bebd86655f92","_id":"references/60c307147723bebd86655f92","_rev":"_cfFlCle---","tei":"\n\t\n\t\tDoubletFinder: Doublet detection in single-cell RNA sequencing data using artificial nearest neighbors\n\t\t\n\t\t\tChristopherSMcginnis\n\t\t\t0000-0001-6923-9341\n\t\t\n\t\t\n\t\t\tLyndsayMMurrow\n\t\t\n\t\t\n\t\t\tZevJGartner\n\t\t\t0000-0001-7803-1219\n\t\t\n\t\t10.1101/352484\n\t\t\n\t\n\t\n\t\tCell Syst\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c307147723bebd86655f8b"},"refKey":39},
{"_key":"60c307147723bebd86655f93","_id":"references/60c307147723bebd86655f93","_rev":"_cfFlClm---","tei":"\n\t\n\t\tFast, sensitive and accurate integration of single-cell data with Harmony\n\t\t\n\t\t\tIKorsunsky\n\t\t\n\t\t\n\t\t\tNMillard\n\t\t\n\t\t\n\t\t\tJFan\n\t\t\n\t\t\n\t\t\tKSlowikowski\n\t\t\n\t\t\n\t\t\tFZhang\n\t\t\n\t\t\n\t\t\tKWei\n\t\t\n\t\t\n\t\t\tYBaglaenko\n\t\t\n\t\t\n\t\t\tMBrenner\n\t\t\n\t\t\n\t\t\tPRLoh\n\t\t\n\t\t\n\t\t\tSRaychaudhuri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307147723bebd86655f8b"},"refKey":26},
{"_key":"60c307147723bebd86655f94","_id":"references/60c307147723bebd86655f94","_rev":"_cfFlCly---","tei":"\n\t\n\t\tModel-based analysis of ChIP-Seq (MACS)\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tTLiu\n\t\t\n\t\t\n\t\t\tCAMeyer\n\t\t\n\t\t\n\t\t\tJEeckhoute\n\t\t\n\t\t\n\t\t\tDSJohnson\n\t\t\n\t\t\n\t\t\tBEBernstein\n\t\t\n\t\t\n\t\t\tCNusbaum\n\t\t\n\t\t\n\t\t\tRMMyers\n\t\t\n\t\t\n\t\t\tMBrown\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307147723bebd86655f8b"},"refKey":76},
{"_key":"60c3071a7723bebd86655fb3","_id":"references/60c3071a7723bebd86655fb3","_rev":"_cfFlCm----","tei":"\n\t\n\t\tCytoscape: A software Environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t2498\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3071a7723bebd86655fb2"},"refKey":83},
{"_key":"60c3071a7723bebd86655fb4","_id":"references/60c3071a7723bebd86655fb4","_rev":"_cfFlCmK---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3071a7723bebd86655fb2"},"refKey":81},
{"_key":"60c3071a7723bebd86655fb5","_id":"references/60c3071a7723bebd86655fb5","_rev":"_cfFlCmW---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3071a7723bebd86655fb2"},"refKey":82},
{"_key":"60c3071a7723bebd86655fb6","_id":"references/60c3071a7723bebd86655fb6","_rev":"_cfFlCmi---","tei":"\n\t\n\t\tMinimap2: pairwise alignment for nucleotide sequences\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3071a7723bebd86655fb2"},"refKey":49},
{"_key":"60c3071a7723bebd86655fb7","_id":"references/60c3071a7723bebd86655fb7","_rev":"_cfFlCmu---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3071a7723bebd86655fb2"},"refKey":80},
{"_key":"60c307277723bebd86655fcc","_id":"references/60c307277723bebd86655fcc","_rev":"_cfFlCm6---","tei":"\n\t\n\t\tRapid and accurate calculation of protein 1H, 13C and 15N chemical shifts\n\t\t\n\t\t\tSNeal\n\t\t\n\t\t\n\t\t\tANip\n\t\t\n\t\t\n\t\t\tHZhang\n\t\t\n\t\t\n\t\t\tDWishart\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307277723bebd86655fcb"},"refKey":48},
{"_key":"60c307277723bebd86655fcd","_id":"references/60c307277723bebd86655fcd","_rev":"_cfFlCnG---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVersion 1.5.0.4.\n\n","document":{"$oid":"60c307277723bebd86655fcb"},"refKey":59},
{"_key":"60c307277723bebd86655fce","_id":"references/60c307277723bebd86655fce","_rev":"_cfFlCnO---","tei":"\n\t\n\t\tFast and Accurate Predictions of Protein NMR Chemical Shifts from Interatomic Distances\n\t\t\n\t\t\tKaiJKohlhoff\n\t\t\n\t\t\n\t\t\tPaulRobustelli\n\t\t\n\t\t\n\t\t\tAndreaCavalli\n\t\t\n\t\t\n\t\t\tXavierSalvatella\n\t\t\n\t\t\n\t\t\tMicheleVendruscolo\n\t\t\n\t\t10.1021/ja903772t\n\t\t19739624\n\t\t\n\t\n\t\n\t\tJournal of the American Chemical Society\n\t\tJ. Am. Chem. Soc.\n\t\t0002-7863\n\t\t1520-5126\n\t\t\n\t\t\t131\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c307277723bebd86655fcb"},"refKey":49},
{"_key":"60c307277723bebd86655fcf","_id":"references/60c307277723bebd86655fcf","_rev":"_cfFlCna---","tei":"\n\t\n\t\tSPARTA+: a modest improvement in empirical NMR chemical shift prediction by means\n\t\t\n\t\t\tYangSAd\n\t\t\n\t\t\n\t\t\tB\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307277723bebd86655fcb"},"refKey":50},
{"_key":"60c307277723bebd86655fd0","_id":"references/60c307277723bebd86655fd0","_rev":"_cfFlCnm---","tei":"\n\t\n\t\tAutomated prediction of 15N, 13Ca, 13Cb and 13C' chemical shifts in proteins using a density functional database\n\t\t\n\t\t\tXPXu\n\t\t\n\t\t\n\t\t\tDCase\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307277723bebd86655fcb"},"refKey":45},
{"_key":"60c307857723bebd86656007","_id":"references/60c307857723bebd86656007","_rev":"_cfFlCny---","tei":"\n\t\n\t\tFluPhone project: understanding spread of infectious disease and behavioural responses\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of Cambridge\n\t\t\n\t\n\n","document":{"$oid":"60c307857723bebd86656006"},"refKey":8},
{"_key":"60c307927723bebd86656013","_id":"references/60c307927723bebd86656013","_rev":"_cfFlCo----","tei":"\n\t\n\t\tCopraRNA and IntaRNA: predicting small RNA targets, networks and interaction domains\n\t\t\n\t\t\tPRWright\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307927723bebd86656012"},"refKey":22},
{"_key":"60c307927723bebd86656014","_id":"references/60c307927723bebd86656014","_rev":"_cfFlCoK---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307927723bebd86656012"},"refKey":46},
{"_key":"60c307927723bebd86656015","_id":"references/60c307927723bebd86656015","_rev":"_cfFlCoW---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\n\t\n\t\tJ. Comput. Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307927723bebd86656012"},"refKey":42},
{"_key":"60c307927723bebd86656016","_id":"references/60c307927723bebd86656016","_rev":"_cfFlCoe---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307927723bebd86656012"},"refKey":44},
{"_key":"60c307d27723bebd8665604d","_id":"references/60c307d27723bebd8665604d","_rev":"_cfFlCoq---","tei":"\n\t\n\t\tAn Automated Method for Finding Molecular Complexes in Large Protein Interaction Networks\n\t\t\n\t\t\tGaryDBader\n\t\t\n\t\t\n\t\t\tChristopherW VHogue\n\t\t\n\t\n\t\n\t\tBMC bioinformatics\n\t\t\n\t\t\t4\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307d27723bebd8665604c"},"refKey":7},
{"_key":"60c307d47723bebd8665605a","_id":"references/60c307d47723bebd8665605a","_rev":"_cfFlCo2---","tei":"\n\t\n\t\tThe adequacy of response rates to online and paper surveys: what can be done\n\t\t\n\t\t\tDDNulty\n\t\t\n\t\n\t\n\t\tAssess Eval High Educ\n\t\t\n\t\t\t33\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307d47723bebd86656059"},"refKey":19},
{"_key":"60c307d57723bebd8665605d","_id":"references/60c307d57723bebd8665605d","_rev":"_cfFlCpC---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJ. Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307d57723bebd8665605c"},"refKey":41},
{"_key":"60c307d57723bebd8665605e","_id":"references/60c307d57723bebd8665605e","_rev":"_cfFlCpO---","tei":"\n\t\n\t\tRELION-3: new tools for automated high-resolution cryo-EM structure determination\n\t\t\n\t\t\tJasenkoZivanov\n\t\t\t0000-0001-8407-0759\n\t\t\n\t\t\n\t\t\tTakanoriNakane\n\t\t\t0000-0003-2697-2767\n\t\t\n\t\t\n\t\t\tBjörnForsberg\n\t\t\t0000-0002-6247-4063\n\t\t\n\t\t\n\t\t\tDariKimanius\n\t\t\t0000-0002-2662-6373\n\t\t\n\t\t\n\t\t\tWimJ HHagen\n\t\t\t0000-0001-6229-2692\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\t0000-0002-2734-2794\n\t\t\n\t\t\n\t\t\tSjorsH WScheres\n\t\t\t0000-0002-0462-6540\n\t\t\n\t\t10.1101/421123\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t7\n\t\t\t163\n\t\t\n\t\n\n","document":{"$oid":"60c307d57723bebd8665605c"},"refKey":38},
{"_key":"60c307d57723bebd8665605f","_id":"references/60c307d57723bebd8665605f","_rev":"_cfFlCpa---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c307d57723bebd8665605c"},"refKey":39},
{"_key":"60c307d57723bebd86656060","_id":"references/60c307d57723bebd86656060","_rev":"_cfFlCpm---","tei":"\n\t\n\t\tUCSF ChimeraX: meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307d57723bebd8665605c"},"refKey":52},
{"_key":"60c307d57723bebd86656061","_id":"references/60c307d57723bebd86656061","_rev":"_cfFlCpy---","tei":"\n\t\n\t\tUse of knowledge-based restraints inphenix.refineto improve macromolecular refinement at low resolution\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1107/s0907444911047834\n\t\t22505258\n\t\tPMC3322597\n\t\tark:/67375/WNG-ZHXR9KPK-3\n\t\t563896D819D2E983505836CC463026F83568E7B8\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t68\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c307d57723bebd8665605c"},"refKey":47},
{"_key":"60c307d87723bebd8665607b","_id":"references/60c307d87723bebd8665607b","_rev":"_cfFlCq----","tei":"\n\t\n\t\tThe InterPro database, an integrated documentation resource for protein families, domains and functional sites\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\t\n\t\t\tTKAttwood\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tMBiswas\n\t\t\n\t\t\n\t\t\tPBucher\n\t\t\n\t\t\n\t\t\tLCerutti\n\t\t\n\t\t\n\t\t\tFCorpet\n\t\t\n\t\t\n\t\t\tMDCroning\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tLFalquet\n\t\t\n\t\t\n\t\t\tWFleischmann\n\t\t\n\t\t\n\t\t\tJGouzy\n\t\t\n\t\t\n\t\t\tHHermjakob\n\t\t\n\t\t\n\t\t\tNHulo\n\t\t\n\t\t\n\t\t\tIJonassen\n\t\t\n\t\t\n\t\t\tDKahn\n\t\t\n\t\t\n\t\t\tAKanapin\n\t\t\n\t\t\n\t\t\tYKaravidopoulou\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tBMarx\n\t\t\n\t\t\n\t\t\tNJMulder\n\t\t\n\t\t\n\t\t\tTMOinn\n\t\t\n\t\t\n\t\t\tMPagni\n\t\t\n\t\t\n\t\t\tFServant\n\t\t\n\t\t\n\t\t\tCJSigrist\n\t\t\n\t\t\n\t\t\tEMZdobnov\n\t\t\n\t\t10.1093/nar/29.1.37\n\t\t11125043\n\t\tPMC29841\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c307d87723bebd8665607a"},"refKey":1},
{"_key":"60c307d87723bebd8665607c","_id":"references/60c307d87723bebd8665607c","_rev":"_cfFlCqK---","tei":"\n\t\n\t\tThe Pfam protein families database\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tLCerruti\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tLEtwiller\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tSGriffiths-Jones\n\t\t\n\t\t\n\t\t\tKLHowe\n\t\t\n\t\t\n\t\t\tMMarshall\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tNucl. Acids. Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307d87723bebd8665607a"},"refKey":3},
{"_key":"60c307d87723bebd8665607d","_id":"references/60c307d87723bebd8665607d","_rev":"_cfFlCqa---","tei":"\n\t\n\t\tImprovement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments\n\t\t\n\t\t\tGTalavera\n\t\t\n\t\t\n\t\t\tJCastresana\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t56\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307d87723bebd8665607a"},"refKey":39},
{"_key":"60c307d87723bebd8665607e","_id":"references/60c307d87723bebd8665607e","_rev":"_cfFlCqy---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJ.-FDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307d87723bebd8665607a"},"refKey":13},
{"_key":"60c307d87723bebd8665607f","_id":"references/60c307d87723bebd8665607f","_rev":"_cfFlCrC---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307d87723bebd8665607a"},"refKey":40},
{"_key":"60c307d87723bebd86656080","_id":"references/60c307d87723bebd86656080","_rev":"_cfFlCrS---","tei":"\n\t\n\t\tjModelTest: phylogenetic model averaging\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c307d87723bebd8665607a"},"refKey":34},
{"_key":"60c307db7723bebd8665608c","_id":"references/60c307db7723bebd8665608c","_rev":"_cfFlCri---","tei":"\n\t\n\t\tPOPGENE Microsoft Windows-Based Freeware for Population Genetic Analysis. Release 1.31\n\t\t\n\t\t\tFCYeh\n\t\t\n\t\t\n\t\t\tRCYang\n\t\t\n\t\t\n\t\t\tTBoyle\n\t\t\n\t\t\n\t\t\t\n\t\t\tEdmonton, Canada\n\t\t\n\t\t\n\t\t\tUniversity of Alberta\n\t\t\n\t\n\n","document":{"$oid":"60c307db7723bebd8665608b"},"refKey":26},
{"_key":"60c3081f7723bebd866560bd","_id":"references/60c3081f7723bebd866560bd","_rev":"_cfFlCry---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing. Vienna: R Foundation for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3081f7723bebd866560bc"},"refKey":13},
{"_key":"60c3082f7723bebd866560c0","_id":"references/60c3082f7723bebd866560c0","_rev":"_cfFlCs----","tei":"\n\t\n\t\tCas-analyzer: an online tool for assessing genome editing results using NGS data\n\t\t\n\t\t\tJeongbinPark\n\t\t\n\t\t\n\t\t\tKayeongLim\n\t\t\n\t\t\n\t\t\tJin-SooKim\n\t\t\n\t\t\n\t\t\tSangsuBae\n\t\t\n\t\t10.1093/bioinformatics/btw561\n\t\t27559154\n\t\tPMC5254075\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3082f7723bebd866560bf"},"refKey":25},
{"_key":"60c308637723bebd866560d2","_id":"references/60c308637723bebd866560d2","_rev":"_cfFlCsO---","tei":"\n\t\n\t\tPcleavage: an SVM based method for prediction of constitutive proteasome and immunoproteasome cleavage sites in antigenic sequences\n\t\t\n\t\t\tMBhasin\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1093/nar/gki587\n\t\t15988831\n\t\tPMC1160263\n\t\tark:/67375/HXZ-T96G5H5H-Z\n\t\t5509A3763874E1C557E598DA17EDD8AFB4947701\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c308637723bebd866560d1"},"refKey":11},
{"_key":"60c308637723bebd866560d3","_id":"references/60c308637723bebd866560d3","_rev":"_cfFlCse---","tei":"\n\t\n\t\tThe role of the proteasome in generating cytotoxic T-cell epitopes: insights obtained from improved predictions of proteasomal cleavage\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tCanKeşmir\n\t\t\n\t\t10.1007/s00251-005-0781-7\n\t\t15744535\n\t\tark:/67375/VQC-MCD00XGQ-K\n\t\t39F7B3B6047B81325A8236A88C470A724E104264\n\t\n\t\n\t\tImmunogenetics\n\t\tImmunogenetics\n\t\t0093-7711\n\t\t1432-1211\n\t\t\n\t\t\t57\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c308637723bebd866560d1"},"refKey":108},
{"_key":"60c308a17723bebd866560fd","_id":"references/60c308a17723bebd866560fd","_rev":"_cfFlCsq---","tei":"\n\t\n\t\tMAFFT version 5: improvement in accuracy of multiple sequence alignment\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tHToh\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\t10.1093/nar/gki198\n\t\t15661851\n\t\tPMC548345\n\t\tark:/67375/HXZ-5GKR6N1M-5\n\t\t88D98880597984321DF1C853C0EE04D93910D636\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c308a17723bebd866560fc"},"refKey":5},
{"_key":"60c308a17723bebd866560fe","_id":"references/60c308a17723bebd866560fe","_rev":"_cfFlCs6---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tAdrianPlatts\n\t\t\n\t\t\n\t\t\tLeLilyWang\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tLuanWang\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\tPMC3679285\n\t\t\n\t\t\n\t\n\t\n\t\tFly\n\t\tFly\n\t\t1933-6934\n\t\t1933-6942\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c308a17723bebd866560fc"},"refKey":4},
{"_key":"60c308bd7723bebd86656118","_id":"references/60c308bd7723bebd86656118","_rev":"_cfFlCtG---","tei":"\n\t\n\t\tFast and SNP-tolerant detection of complex variants and splicing in short reads\n\t\t\n\t\t\tTDWu\n\t\t\n\t\t\n\t\t\tSNacu\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c308bd7723bebd86656117"},"refKey":18},
{"_key":"60c308bd7723bebd86656119","_id":"references/60c308bd7723bebd86656119","_rev":"_cfFlCtW---","tei":"\n\t\n\t\tPRICE: software for the targeted assembly of components of (Meta) genomic sequence data\n\t\t\n\t\t\tJGRuby\n\t\t\n\t\t\n\t\t\tPBellare\n\t\t\n\t\t\n\t\t\tJLDerisi\n\t\t\n\t\n\t\n\t\tBethesda)\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c308bd7723bebd86656117"},"refKey":14},
{"_key":"60c308ca7723bebd86656121","_id":"references/60c308ca7723bebd86656121","_rev":"_cfFlCti---","tei":"\n\t\n\t\t\n\t\t\tSBird\n\t\t\n\t\t\n\t\t\tEKlein\n\t\t\n\t\t\n\t\t\tELoper\n\t\t\n\t\tNatural Language Processing with Python\n\t\t\t\tSebastopol, CA, USA\n\t\t\n\t\t\tO'Reilly Media, Inc\n\t\t\t\n\t\t\n\t\n\t1st ed.\n\n","document":{"$oid":"60c308ca7723bebd86656120"},"refKey":42},
{"_key":"60c308e37723bebd8665612f","_id":"references/60c308e37723bebd8665612f","_rev":"_cfFlCtu---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c308e37723bebd8665612e"},"refKey":64},
{"_key":"60c308e37723bebd86656130","_id":"references/60c308e37723bebd86656130","_rev":"_cfFlCt6---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c308e37723bebd8665612e"},"refKey":58},
{"_key":"60c308e37723bebd86656131","_id":"references/60c308e37723bebd86656131","_rev":"_cfFlCuG---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tAdrianPlatts\n\t\t\n\t\t\n\t\t\tLeLilyWang\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tLuanWang\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\tPMC3679285\n\t\t\n\t\n\t\n\t\tFly\n\t\tFly\n\t\t1933-6934\n\t\t1933-6942\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c308e37723bebd8665612e"},"refKey":56},
{"_key":"60c308e37723bebd86656132","_id":"references/60c308e37723bebd86656132","_rev":"_cfFlCuS---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c308e37723bebd8665612e"},"refKey":55},
{"_key":"60c308e37723bebd86656133","_id":"references/60c308e37723bebd86656133","_rev":"_cfFlCue---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1093/bioinformatics/bty407\n\t\t29790939\n\t\tPMC6247931\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c308e37723bebd8665612e"},"refKey":63},
{"_key":"60c308e67723bebd8665613e","_id":"references/60c308e67723bebd8665613e","_rev":"_cfFlCuq---","tei":"\n\t\n\t\tExtracting binary signals from microarray time-course data\n\t\t\n\t\t\tDebashisSahoo\n\t\t\n\t\t\n\t\t\tDavidLDill\n\t\t\n\t\t\n\t\t\tRobTibshirani\n\t\t\n\t\t\n\t\t\tSylviaKPlevritis\n\t\t\n\t\t10.1093/nar/gkm284\n\t\t17517782\n\t\tPMC1920252\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c308e67723bebd8665613d"},"refKey":73},
{"_key":"60c308e67723bebd8665613f","_id":"references/60c308e67723bebd8665613f","_rev":"_cfFlCu2---","tei":"\n\t\n\t\tErratum: Near-optimal probabilistic RNA-seq quantification\n\t\t\n\t\t\tNicolasLBray\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tPállMelsted\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nbt0816-888d\n\t\t27504780\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t34\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c308e67723bebd8665613d"},"refKey":64},
{"_key":"60c308ea7723bebd86656147","_id":"references/60c308ea7723bebd86656147","_rev":"_cfFlCvC---","tei":"\n\t\n\t\tThe REDCap Consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c308ea7723bebd86656146"},"refKey":11},
{"_key":"60c308ea7723bebd86656148","_id":"references/60c308ea7723bebd86656148","_rev":"_cfFlCvO---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c308ea7723bebd86656146"},"refKey":12},
{"_key":"60c308f07723bebd8665614d","_id":"references/60c308f07723bebd8665614d","_rev":"_cfFlCva---","tei":"\n\t\n\t\tPubmed parser: a Python parser for PubMed Open-Access XML subset and MEDLINE XML dataset XML dataset\n\t\t\n\t\t\tTAchakulvisut\n\t\t\n\t\t\n\t\t\tDAcuna\n\t\t\n\t\t\n\t\t\tKKording\n\t\t\n\t\t10.21105/joss.01979\n\t\t\n\t\n\t\n\t\tJournal of Open Source Software\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c308f07723bebd8665614c"},"refKey":0},
{"_key":"60c308f07723bebd8665614e","_id":"references/60c308f07723bebd8665614e","_rev":"_cfFlCvm---","tei":"\n\t\n\t\tPubTator central: automated concept annotation for biomedical full text articles\n\t\t\n\t\t\tChih-HsuanWei\n\t\t\t0000-0001-5094-7321\n\t\t\n\t\t\n\t\t\tAlexisAllot\n\t\t\n\t\t\n\t\t\tRobertLeaman\n\t\t\n\t\t\n\t\t\tZhiyongLu\n\t\t\t0000-0002-8301-9553\n\t\t\n\t\t10.1093/nar/gkz389\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c308f07723bebd8665614c"},"refKey":38},
{"_key":"60c309287723bebd86656186","_id":"references/60c309287723bebd86656186","_rev":"_cfFlCvy---","tei":"\n\t\n\t\tEmbeddings from deep learning transfer GO annotations beyond homology\n\t\t\n\t\t\tMLittmann\n\t\t\n\t\t\n\t\t\tMHeinzinger\n\t\t\n\t\t\n\t\t\tCDallago\n\t\t\n\t\t\n\t\t\tTOlenyi\n\t\t\n\t\t\n\t\t\tBRost\n\t\t\n\t\n\t\n\t\tSci. Rep\n\t\t\n\t\t\t11\n\t\t\t1160\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c309287723bebd86656185"},"refKey":18},
{"_key":"60c309287723bebd86656187","_id":"references/60c309287723bebd86656187","_rev":"_cfFlCw----","tei":"\n\t\n\t\tProtTrans: Towards cracking the language of life's code through self-supervised deep learning and high performance computing\n\t\t\n\t\t\tAElnaggar\n\t\t\n\t\t\n\t\t\tMHeinzinger\n\t\t\n\t\t\n\t\t\tCDallago\n\t\t\n\t\t\n\t\t\tGRihawi\n\t\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tLJones\n\t\t\n\t\t\n\t\t\tTGibbs\n\t\t\n\t\t\n\t\t\tTFeher\n\t\t\n\t\t\n\t\t\tCAngerer\n\t\t\n\t\t\n\t\t\tDBhowmik\n\t\t\n\t\t\n\t\t\t\n\t\t\tArXiv Prepr\n\t\t\n\t\n\n","document":{"$oid":"60c309287723bebd86656185"},"refKey":13},
{"_key":"60c309287723bebd86656188","_id":"references/60c309287723bebd86656188","_rev":"_cfFlCwK---","tei":"\n\t\n\t\tProt-Vista: visualization of protein sequence annotations\n\t\t\n\t\t\tXWatkins\n\t\t\n\t\t\n\t\t\tLJGarcia\n\t\t\n\t\t\n\t\t\tSPundir\n\t\t\n\t\t\n\t\t\tMJMartin\n\t\t\n\t\t\n\t\t\tUConsortium\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c309287723bebd86656185"},"refKey":54},
{"_key":"60c309287723bebd86656189","_id":"references/60c309287723bebd86656189","_rev":"_cfFlCwW---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c309287723bebd86656185"},"refKey":23},
{"_key":"60c309287723bebd8665618a","_id":"references/60c309287723bebd8665618a","_rev":"_cfFlCwi---","tei":"\n\t\n\t\tProbabilistic variable-length segmentation of protein sequences for discriminative motif discovery (DiMotif) and sequence embedding (ProtVecX)\n\t\t\n\t\t\tEhsaneddinAsgari\n\t\t\t0000-0002-6518-7238\n\t\t\n\t\t\n\t\t\tAliceMchardy\n\t\t\t0000-0003-2370-3430\n\t\t\n\t\t\n\t\t\tMohammadR KMofrad\n\t\t\t0000-0001-7004-4859\n\t\t\n\t\t10.1101/345843\n\t\t\n\t\n\t\n\t\tSci. Rep\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c309287723bebd86656185"},"refKey":49},
{"_key":"60c309287723bebd8665618b","_id":"references/60c309287723bebd8665618b","_rev":"_cfFlCwu---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c309287723bebd86656185"},"refKey":24},
{"_key":"60c309287723bebd8665618c","_id":"references/60c309287723bebd8665618c","_rev":"_cfFlCw6---","tei":"\n\t\n\t\tAquaria: simplifying discovery and insight from protein structures\n\t\t\n\t\t\tSeánIO'donoghue\n\t\t\t0000-0001-9520-6623\n\t\t\n\t\t\n\t\t\tKennethSSabir\n\t\t\n\t\t\n\t\t\tMariaKalemanov\n\t\t\n\t\t\n\t\t\tChristianStolte\n\t\t\t0000-0002-8228-4195\n\t\t\n\t\t\n\t\t\tBenjaminWellmann\n\t\t\n\t\t\n\t\t\tVivianHo\n\t\t\n\t\t\n\t\t\tManfredRoos\n\t\t\n\t\t\n\t\t\tNelsonPerdigão\n\t\t\n\t\t\n\t\t\tFabianABuske\n\t\t\n\t\t\n\t\t\tJulianHeinrich\n\t\t\n\t\t\n\t\t\tBurkhardRost\n\t\t\n\t\t\n\t\t\tAndreaSchafferhans\n\t\t\t0000-0002-5569-6186\n\t\t\n\t\t10.1038/nmeth.3258\n\t\t25633501\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c309287723bebd86656185"},"refKey":20},
{"_key":"60c309287723bebd8665618d","_id":"references/60c309287723bebd8665618d","_rev":"_cfFlCxG---","tei":"\n\t\n\t\t\n\t\t\tSIO'donoghue\n\t\t\n\t\t\n\t\t\tASchafferhans\n\t\t\n\t\t\n\t\t\tNSikta\n\t\t\n\t\t\n\t\t\tCStolte\n\t\t\n\t\t\n\t\t\tSKaur\n\t\t\n\t\t\n\t\t\tBKHo\n\t\t\n\t\t\n\t\t\tSAnderson\n\t\t\n\t\t\n\t\t\tJProcter\n\t\t\n\t\t\n\t\t\tCDallago\n\t\t\n\t\t\n\t\t\tNBordin\n\t\t\n\t\tSARS-CoV-2 structural coverage map reveals state changes that disrupt host immunity Bioinformatics\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c309287723bebd86656185"},"refKey":22},
{"_key":"60c309287723bebd8665618e","_id":"references/60c309287723bebd8665618e","_rev":"_cfFlCxS---","tei":"\n\t\n\t\tMolArt: a molecular structure annotation and visualization tool\n\t\t\n\t\t\tDavidHoksza\n\t\t\t0000-0003-4679-0557\n\t\t\n\t\t\n\t\t\tPiotrGawron\n\t\t\n\t\t\n\t\t\tMarekOstaszewski\n\t\t\n\t\t\n\t\t\tReinhardSchneider\n\t\t\n\t\t10.1093/bioinformatics/bty489\n\t\t29931246\n\t\tPMC6247942\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c309287723bebd86656185"},"refKey":21},
{"_key":"60c3093a7723bebd866561b5","_id":"references/60c3093a7723bebd866561b5","_rev":"_cfFlCxe---","tei":"\n\t\n\t\tMOLMOL: a program for display and analysis of macromolecular structures\n\t\t\n\t\t\tRKoradi\n\t\t\n\t\t\n\t\t\tMBilleter\n\t\t\n\t\t\n\t\t\tKWüthrich\n\t\t\n\t\n\t\n\t\tJ. Mol. Graphics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3093a7723bebd866561b4"},"refKey":46},
{"_key":"60c3093a7723bebd866561b6","_id":"references/60c3093a7723bebd866561b6","_rev":"_cfFlCxq---","tei":"\n\t\n\t\tAutomated sequence-specific protein NMR assignment using the memetic algorithm MATCH\n\t\t\n\t\t\tJochenVolk\n\t\t\n\t\t\n\t\t\tTorstenHerrmann\n\t\t\n\t\t\n\t\t\tKurtWüthrich\n\t\t\n\t\t10.1007/s10858-008-9243-5\n\t\t18512031\n\t\tark:/67375/VQC-QWXMQFBV-X\n\t\tA885C1DEFC63B20C2BF851F1CAD24E4832A44E36\n\t\t\n\t\n\t\n\t\tJournal of Biomolecular NMR\n\t\tJ Biomol NMR\n\t\t0925-2738\n\t\t1573-5001\n\t\t\n\t\t\t41\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c3093a7723bebd866561b4"},"refKey":40},
{"_key":"60c3093a7723bebd866561b7","_id":"references/60c3093a7723bebd866561b7","_rev":"_cfFlCx2---","tei":"\n\t\n\t\tPoint-centered domain decomposition for parallel molecular dynamics simulation\n\t\t\n\t\t\tRKoradi\n\t\t\n\t\t\n\t\t\tMBilleter\n\t\t\n\t\t\n\t\t\tPGüntert\n\t\t\n\t\t10.1016/s0010-4655(99)00436-1\n\t\tS0010-4655(99)00436-1\n\t\tark:/67375/6H6-0MRF6ZQ7-V\n\t\t2103CCB3CC8E7590EB6D17C3A4A597002744ED5A\n\t\n\t\n\t\tComputer Physics Communications\n\t\tComputer Physics Communications\n\t\t0010-4655\n\t\t\n\t\t\t124\n\t\t\t2-3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3093a7723bebd866561b4"},"refKey":43},
{"_key":"60c3093a7723bebd866561b8","_id":"references/60c3093a7723bebd866561b8","_rev":"_cfFlCyC---","tei":"\n\t\n\t\tThe new program OPAL for molecular dynamics simulations and energy refinements of biological macromolecules\n\t\t\n\t\t\tPLuginb�hl\n\t\t\n\t\t\n\t\t\tPG�ntert\n\t\t\n\t\t\n\t\t\tMBilleter\n\t\t\n\t\t\n\t\t\tKW�thrich\n\t\t\n\t\t10.1007/bf00211160\n\t\t8914272\n\t\tark:/67375/1BB-Z6L446WS-N\n\t\tA0E0CC55CFEA6ACB1E33152D21C6F6D7F17369E7\n\t\n\t\n\t\tJournal of Biomolecular NMR\n\t\tJ Biomol NMR\n\t\t0925-2738\n\t\t1573-5001\n\t\t\n\t\t\t8\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3093a7723bebd866561b4"},"refKey":44},
{"_key":"60c3093a7723bebd866561b9","_id":"references/60c3093a7723bebd866561b9","_rev":"_cfFlCyO---","tei":"\n\t\n\t\tProtein NMR structure determination with automated NOE-identification in the NOESY spectra using the new software ATNOS\n\t\t\n\t\t\tTHerrmann\n\t\t\n\t\t\n\t\t\tPGüntert\n\t\t\n\t\t\n\t\t\tKWüthrich\n\t\t\n\t\n\t\n\t\tJ. Biomol. NMR\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3093a7723bebd866561b4"},"refKey":20},
{"_key":"60c3093a7723bebd866561ba","_id":"references/60c3093a7723bebd866561ba","_rev":"_cfFlCya---","tei":"\n\t\n\t\tProtein NMR Structure Determination with Automated NOE Assignment Using the New Software CANDID and the Torsion Angle Dynamics Algorithm DYANA\n\t\t\n\t\t\tTorstenHerrmann\n\t\t\n\t\t\n\t\t\tPeterGüntert\n\t\t\n\t\t\n\t\t\tKurtWüthrich\n\t\t\n\t\t10.1016/s0022-2836(02)00241-3\n\t\t12051947\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t319\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3093a7723bebd866561b4"},"refKey":21},
{"_key":"60c3093a7723bebd866561bb","_id":"references/60c3093a7723bebd866561bb","_rev":"_cfFlCym---","tei":"\n\t\n\t\tTorsion angle dynamics for NMR structure calculation with the new program DYANA\n\t\t\n\t\t\tPGüntert\n\t\t\n\t\t\n\t\t\tCMumenthaler\n\t\t\n\t\t\n\t\t\tKWüthrich\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t273\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3093a7723bebd866561b4"},"refKey":22},
{"_key":"60c3093c7723bebd866561cb","_id":"references/60c3093c7723bebd866561cb","_rev":"_cfFlCyy---","tei":"\n\t\n\t\tOverview of theCCP4 suite and current developments\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tCharlesCBallard\n\t\t\n\t\t\n\t\t\tKevinDCowtan\n\t\t\n\t\t\n\t\t\tEleanorJDodson\n\t\t\n\t\t\n\t\t\tPaulEmsley\n\t\t\n\t\t\n\t\t\tPhilREvans\n\t\t\n\t\t\n\t\t\tRonanMKeegan\n\t\t\n\t\t\n\t\t\tEugeneBKrissinel\n\t\t\n\t\t\n\t\t\tAndrewG WLeslie\n\t\t\n\t\t\n\t\t\tAirlieMccoy\n\t\t\n\t\t\n\t\t\tStuartJMcnicholas\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tElizabethAPotterton\n\t\t\n\t\t\n\t\t\tHaroldRPowell\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tAlexeiVagin\n\t\t\n\t\t\n\t\t\tKeithSWilson\n\t\t\n\t\t10.1107/s0907444910045749\n\t\t21460441\n\t\tPMC3069738\n\t\tark:/67375/WNG-2WD8BNN1-X\n\t\tEA86D1B0B076B7089F0E9BB8FED9AAE79E2C4083\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3093c7723bebd866561ca"},"refKey":63},
{"_key":"60c309417723bebd866561d7","_id":"references/60c309417723bebd866561d7","_rev":"_cfFlCz----","tei":"\n\t\n\t\tComparative protein modeling by satisfaction of spatial restraints\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1107/s0108767396095578\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t52\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c309417723bebd866561d6"},"refKey":57},
{"_key":"60c309487723bebd866561dc","_id":"references/60c309487723bebd866561dc","_rev":"_cfFlCzK---","tei":"\n\t\n\t\tCausal Inference Using Graphical Models with theRPackagepcalg\n\t\t\n\t\t\tMarkusKalisch\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tDiegoColombo\n\t\t\n\t\t\n\t\t\tMarloesHMaathuis\n\t\t\n\t\t\n\t\t\tPeterBühlmann\n\t\t\n\t\t10.18637/jss.v047.i11\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t47\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c309487723bebd866561db"},"refKey":34},
{"_key":"60c3094f7723bebd866561e3","_id":"references/60c3094f7723bebd866561e3","_rev":"_cfFlCzW---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tCKnyaz\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMega X\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3094f7723bebd866561e2"},"refKey":42},
{"_key":"60c3096c7723bebd866561fb","_id":"references/60c3096c7723bebd866561fb","_rev":"_cfFlCzi---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJournal of molecular biology\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3096c7723bebd866561fa"},"refKey":16},
{"_key":"60c3096e7723bebd86656213","_id":"references/60c3096e7723bebd86656213","_rev":"_cfFlCzu---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c3096e7723bebd86656212"},"refKey":15},
{"_key":"60c309847723bebd8665621d","_id":"references/60c309847723bebd8665621d","_rev":"_cfFlCz6---","tei":"\n\t\n\t\tThe mutational constraint spectrum quantified from variation in 141,456 humans\n\t\t\n\t\t\tKJKarczewski\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t581\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c309847723bebd8665621c"},"refKey":52},
{"_key":"60c309847723bebd8665621e","_id":"references/60c309847723bebd8665621e","_rev":"_cfFlC0G---","tei":"\n\t\n\t\tThe MR-Base platform supports systematic causal inference across the human phenome\n\t\t\n\t\t\tGibranHemani\n\t\t\t0000-0003-0920-1055\n\t\t\n\t\t\n\t\t\tJieZheng\n\t\t\t0000-0002-6623-6839\n\t\t\n\t\t\n\t\t\tBenjaminElsworth\n\t\t\n\t\t\n\t\t\tKaitlinHWade\n\t\t\t0000-0003-3362-6280\n\t\t\n\t\t\n\t\t\tValeriiaHaberland\n\t\t\n\t\t\n\t\t\tDenisBaird\n\t\t\t0000-0003-4600-6013\n\t\t\n\t\t\n\t\t\tCharlesLaurin\n\t\t\n\t\t\n\t\t\tStephenBurgess\n\t\t\t0000-0001-5365-8760\n\t\t\n\t\t\n\t\t\tJackBowden\n\t\t\n\t\t\n\t\t\tRyanLangdon\n\t\t\n\t\t\n\t\t\tVanessaYTan\n\t\t\t0000-0001-7938-127X\n\t\t\n\t\t\n\t\t\tJamesYarmolinsky\n\t\t\n\t\t\n\t\t\tHashemAShihab\n\t\t\n\t\t\n\t\t\tNicholasJTimpson\n\t\t\n\t\t\n\t\t\tDavidMEvans\n\t\t\n\t\t\n\t\t\tCarolineRelton\n\t\t\t0000-0003-2052-4840\n\t\t\n\t\t\n\t\t\tRichardMMartin\n\t\t\t0000-0002-7992-7719\n\t\t\n\t\t\n\t\t\tGeorgeDavey Smith\n\t\t\t0000-0002-1407-8314\n\t\t\n\t\t\n\t\t\tTomRGaunt\n\t\t\t0000-0003-0924-3247\n\t\t\n\t\t\n\t\t\tPhilipCHaycock\n\t\t\t0000-0001-5001-3350\n\t\t\n\t\t10.7554/elife.34408\n\t\t29846171\n\t\tPMC5976434\n\t\n\t\n\t\teLife\n\t\t2050-084X\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\teLife Sciences Publications, Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c309847723bebd8665621c"},"refKey":64},
{"_key":"60c309847723bebd8665621f","_id":"references/60c309847723bebd8665621f","_rev":"_cfFlC0S---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\n\t\n\t\tAm. J. Hum. Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c309847723bebd8665621c"},"refKey":51},
{"_key":"60c309867723bebd8665622a","_id":"references/60c309867723bebd8665622a","_rev":"_cfFlC0e---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPVirtanen\n\t\t\n\t\t\n\t\t\tRGommers\n\t\t\n\t\t\n\t\t\tTEOliphant\n\t\t\n\t\t\n\t\t\tMHaberland\n\t\t\n\t\t\n\t\t\tTReddy\n\t\t\n\t\t\n\t\t\tDCournapeau\n\t\t\n\t\t\n\t\t\tEBurovski\n\t\t\n\t\t\n\t\t\tPPeterson\n\t\t\n\t\t\n\t\t\tWWeckesser\n\t\t\n\t\t\n\t\t\tJBright\n\t\t\n\t\t\n\t\t\tSJVan Der Walt\n\t\t\n\t\t\n\t\t\tMBrett\n\t\t\n\t\t\n\t\t\tJWilson\n\t\t\n\t\t\n\t\t\tKJMillman\n\t\t\n\t\t\n\t\t\tNMayorov\n\t\t\n\t\t\n\t\t\tAR JNelson\n\t\t\n\t\t\n\t\t\tEJones\n\t\t\n\t\t\n\t\t\tRKern\n\t\t\n\t\t\n\t\t\tELarson\n\t\t\n\t\t\n\t\t\tCJCarey\n\t\t\n\t\t\n\t\t\tİPolat\n\t\t\n\t\t\n\t\t\tYFeng\n\t\t\n\t\t\n\t\t\tEWMoore\n\t\t\n\t\t\n\t\t\tJVanderplas\n\t\t\n\t\t\n\t\t\tDLaxalde\n\t\t\n\t\t\n\t\t\tJPerktold\n\t\t\n\t\t\n\t\t\tRCimrman\n\t\t\n\t\t\n\t\t\tIHenriksen\n\t\t\n\t\t\n\t\t\tEAQuintero\n\t\t\n\t\t\n\t\t\tCRHarris\n\t\t\n\t\t\n\t\t\tAMArchibald\n\t\t\n\t\t\n\t\t\tAHRibeiro\n\t\t\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tPVan Mulbregt\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tand SciPy 1.0 Contributors, "SciPy 1.0: Fundamental Algorithms for Scientific Computing in Python\n\n","document":{"$oid":"60c309867723bebd86656229"},"refKey":19},
{"_key":"60c309867723bebd8665622b","_id":"references/60c309867723bebd8665622b","_rev":"_cfFlC0q---","tei":"\n\t\n\t\tPUBLICATIONS\n\t\t\n\t\t\tTEOliphant\n\t\t\n\t\t10.1017/cbo9780511711312.001\n\t\n\t\n\t\tAnnals of a Publishing House\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2006\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c309867723bebd86656229"},"refKey":20},
{"_key":"60c309867723bebd8665622c","_id":"references/60c309867723bebd8665622c","_rev":"_cfFlC02---","tei":"\n\t\n\t\tMatplotlib: A 2d graphics environment\n\t\t\n\t\t\tJDHunter\n\t\t\n\t\n\t\n\t\tComputing in science & engineering\n\t\t\t\t\n\t\t\t\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c309867723bebd86656229"},"refKey":21},
{"_key":"60c309957723bebd86656239","_id":"references/60c309957723bebd86656239","_rev":"_cfFlC1C---","tei":"\n\t\n\t\tUnsupervised classification of health content on reddit\n\t\t\n\t\t\tJMBarros\n\t\t\n\t\t\n\t\t\tPBuitelaar\n\t\t\n\t\t\n\t\t\tJDuggan\n\t\t\n\t\t\n\t\t\tDRebholz-Schuhmann\n\t\t\n\t\n\t\n\t\tProc. 9th Int. Conf. Digital Public Health\n\t\t\t\t9th Int. Conf. Digital Public Health\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c309957723bebd86656238"},"refKey":3},
{"_key":"60c309fc7723bebd86656276","_id":"references/60c309fc7723bebd86656276","_rev":"_cfFlC1O---","tei":"\n\t\n\t\tDawnRank: discovering personalized driver genes in cancer\n\t\t\n\t\t\tJackPHou\n\t\t\n\t\t\n\t\t\tJianMa\n\t\t\n\t\t10.1186/preaccept-1835019729127471\n\t\t25177370\n\t\tPMC4148527\n\t\t\n\t\n\t\n\t\tGenome Medicine\n\t\tGenome Medicine\n\t\t1756-994X\n\t\t\n\t\t\t6\n\t\t\t7\n\t\t\t56\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c309fc7723bebd86656275"},"refKey":18},
{"_key":"60c30a157723bebd86656293","_id":"references/60c30a157723bebd86656293","_rev":"_cfFlC1a---","tei":"\n\t\n\t\tThe parallel search bench ZRAM and its applications\n\t\t\n\t\t\tABrüngger\n\t\t\n\t\t\n\t\t\tAMarzetta\n\t\t\n\t\t\n\t\t\tKFukuda\n\t\t\n\t\t\n\t\t\tJNievergelt\n\t\t\n\t\n\t\n\t\tAnn. Oper. Res\n\t\t\n\t\t\t90\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30a157723bebd86656292"},"refKey":2},
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{"_key":"60c30ad87723bebd86656309","_id":"references/60c30ad87723bebd86656309","_rev":"_cfFlC2----","tei":"\n\t\n\t\tPRO-CHECK: program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\thttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=10.1107/S0021889892009944\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30ad87723bebd86656308"},"refKey":31},
{"_key":"60c30ad87723bebd8665630a","_id":"references/60c30ad87723bebd8665630a","_rev":"_cfFlC2K---","tei":"\n\t\n\t\tCHARMM: A program for macromolecular energy, minimization, and dynamics calculations\n\t\t\n\t\t\tBRBrooks\n\t\t\n\t\t\n\t\t\tREBruccoleri\n\t\t\n\t\t\n\t\t\tBDOlafson\n\t\t\n\t\t\n\t\t\tDJStates\n\t\t\n\t\t\n\t\t\tSSwaminathan\n\t\t\n\t\t\n\t\t\tMKarplus\n\t\t\n\t\n\t\n\t\tJ Comp Chem\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30ad87723bebd86656308"},"refKey":30},
{"_key":"60c30ad87723bebd8665630b","_id":"references/60c30ad87723bebd8665630b","_rev":"_cfFlC2W---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\thttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=10.1093/nar/25.17.3389\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30ad87723bebd86656308"},"refKey":26},
{"_key":"60c30af17723bebd86656319","_id":"references/60c30af17723bebd86656319","_rev":"_cfFlC2e---","tei":"\n\t\n\t\tCalculating absolute and relative protein abundance from mass spectrometry-based protein expression data\n\t\t\n\t\t\tChristineVogel\n\t\t\n\t\t\n\t\t\tEdwardMMarcotte\n\t\t\n\t\t10.1038/nport.2008.132\n\t\t18772871\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t3\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c30af17723bebd86656318"},"refKey":90},
{"_key":"60c30af17723bebd8665631a","_id":"references/60c30af17723bebd8665631a","_rev":"_cfFlC2q---","tei":"\n\t\n\t\tMethods and Algorithms for Relative Quantitative Proteomics by Mass Spectrometry\n\t\t\n\t\t\tRuneMatthiesen\n\t\t\n\t\t\n\t\t\tAnaSofiaCarvalho\n\t\t\n\t\t10.1007/978-1-60327-194-3_10\n\t\t19957151\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t593\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30af17723bebd86656318"},"refKey":91},
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{"_key":"60c30b167723bebd86656332","_id":"references/60c30b167723bebd86656332","_rev":"_cfFlC3C---","tei":"\n\t\n\t\tModelFinder: fast model selection for accurate phylogenetic estimates\n\t\t\n\t\t\tSubhaKalyaanamoorthy\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t\n\t\t\tThomasK FWong\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tLarsSJermiin\n\t\t\n\t\t10.1038/nmeth.4285\n\t\t28481363\n\t\tPMC5453245\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Meth\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c30b167723bebd86656331"},"refKey":13},
{"_key":"60c30b167723bebd86656333","_id":"references/60c30b167723bebd86656333","_rev":"_cfFlC3O---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c30b167723bebd86656331"},"refKey":12},
{"_key":"60c30b4a7723bebd86656352","_id":"references/60c30b4a7723bebd86656352","_rev":"_cfFlC3a---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c30b4a7723bebd86656351"},"refKey":10},
{"_key":"60c30b4a7723bebd86656353","_id":"references/60c30b4a7723bebd86656353","_rev":"_cfFlC3m---","tei":"\n\t\n\t\tSpreaD3: Interactive Visualization of Spatiotemporal History and Trait Evolutionary Processes\n\t\t\n\t\t\tFilipBielejec\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tBramVrancken\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\n\t\t10.1093/molbev/msw082\n\t\t27189542\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c30b4a7723bebd86656351"},"refKey":16},
{"_key":"60c30b4a7723bebd86656354","_id":"references/60c30b4a7723bebd86656354","_rev":"_cfFlC3y---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tTommyTLam\n\t\t\n\t\t\n\t\t\tLuizMax Carvalho\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t10.1093/ve/vew007\n\t\t27774300\n\t\tPMC4989882\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\tVirus Evol\n\t\t2057-1577\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\tvew007\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c30b4a7723bebd86656351"},"refKey":13},
{"_key":"60c30b4a7723bebd86656355","_id":"references/60c30b4a7723bebd86656355","_rev":"_cfFlC4----","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c30b4a7723bebd86656351"},"refKey":6},
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{"_key":"60c30b6d7723bebd86656385","_id":"references/60c30b6d7723bebd86656385","_rev":"_cfFlC4i---","tei":"\n\t\n\t\tPyEMMA 2: A Software Package for Estimation, Validation, and Analysis of Markov Models\n\t\t\n\t\t\tMartinKScherer\n\t\t\n\t\t\n\t\t\tBenjaminTrendelkamp-Schroer\n\t\t\n\t\t\n\t\t\tFabianPaul\n\t\t\n\t\t\n\t\t\tGuillermoPérez-Hernández\n\t\t\n\t\t\n\t\t\tMoritzHoffmann\n\t\t\n\t\t\n\t\t\tNuriaPlattner\n\t\t\n\t\t\n\t\t\tChristophWehmeyer\n\t\t\n\t\t\n\t\t\tJan-HendrikPrinz\n\t\t\n\t\t\n\t\t\tFrankNoé\n\t\t\n\t\t10.1021/acs.jctc.5b00743\n\t\t26574340\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t11\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c30b6d7723bebd86656384"},"refKey":88},
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{"_key":"60c30c077723bebd86656401","_id":"references/60c30c077723bebd86656401","_rev":"_cfFlC66---","tei":"\n\t\n\t\tXCMS online: a web-based platform to process untargeted metabolomic data\n\t\t\n\t\t\tRTautenhahn\n\t\t\n\t\t\n\t\t\tGJPatti\n\t\t\n\t\t\n\t\t\tDRinehart\n\t\t\n\t\t\n\t\t\tGSiuzdak\n\t\t\n\t\n\t\n\t\tAnal Chem\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30c077723bebd866563fd"},"refKey":68},
{"_key":"60c30c077723bebd86656402","_id":"references/60c30c077723bebd86656402","_rev":"_cfFlC7G---","tei":"\n\t\n\t\tMetabox: A Toolbox for Metabolomic Data Analysis, Interpretation and Integrative Exploration\n\t\t\n\t\t\tKwanjeeraWanichthanarak\n\t\t\n\t\t\n\t\t\tSiliFan\n\t\t\n\t\t\n\t\t\tDmitryGrapov\n\t\t\n\t\t\n\t\t\tDineshKumarBarupal\n\t\t\n\t\t\n\t\t\tOliverFiehn\n\t\t\t0000-0002-6261-8928\n\t\t\n\t\t10.1371/journal.pone.0171046\n\t\t28141874\n\t\tPMC5283729\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\te0171046\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c30c077723bebd866563fd"},"refKey":69},
{"_key":"60c30c2b7723bebd86656435","_id":"references/60c30c2b7723bebd86656435","_rev":"_cfFlC7S---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tOpenssl\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30c2b7723bebd86656434"},"refKey":33},
{"_key":"60c30c337723bebd86656440","_id":"references/60c30c337723bebd86656440","_rev":"_cfFlC7e---","tei":"\n\t\n\t\tTAGME: on-the-fly annotation of short text fragments (by Wikipedia entities)\n\t\t\n\t\t\tPFerragina\n\t\t\n\t\t\n\t\t\tUScaiella\n\t\t\n\t\n\t\n\t\tProceedings of the 19th ACM International Conference on Information and Knowledge Management, CIKM 2010\n\t\t\t\tthe 19th ACM International Conference on Information and Knowledge Management, CIKM 2010\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30c337723bebd8665643f"},"refKey":4},
{"_key":"60c30c337723bebd86656441","_id":"references/60c30c337723bebd86656441","_rev":"_cfFlC7q---","tei":"\n\t\n\t\tICEWS automated daily event data\n\t\t\n\t\t\tEBoschee\n\t\t\n\t\t\n\t\t\tJLautenschlager\n\t\t\n\t\t\n\t\t\tSO'brien\n\t\t\n\t\t\n\t\t\tSShellman\n\t\t\n\t\t\n\t\t\tJStarz\n\t\t\n\t\t\n\t\t\t\n\t\t\tHarvard Dataverse\n\t\t\n\t\n\n","document":{"$oid":"60c30c337723bebd8665643f"},"refKey":2},
{"_key":"60c30c337723bebd86656442","_id":"references/60c30c337723bebd86656442","_rev":"_cfFlC72---","tei":"\n\t\n\t\tAutomated coding of international event data using sparse parsing techniques\n\t\t\n\t\t\tPSchrodt\n\t\t\n\t\n\t\n\t\tAnnual Meeting of the International Studies Association\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30c337723bebd8665643f"},"refKey":8},
{"_key":"60c30c3b7723bebd86656446","_id":"references/60c30c3b7723bebd86656446","_rev":"_cfFlC8----","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30c3b7723bebd86656445"},"refKey":35},
{"_key":"60c30c3b7723bebd86656447","_id":"references/60c30c3b7723bebd86656447","_rev":"_cfFlC8K---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c30c3b7723bebd86656445"},"refKey":30},
{"_key":"60c30c3b7723bebd86656448","_id":"references/60c30c3b7723bebd86656448","_rev":"_cfFlC8W---","tei":"\n\t\n\t\tMEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices\n\t\t\n\t\t\tDinghuaLi\n\t\t\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tChi-ManLiu\n\t\t\n\t\t\n\t\t\tChi-MingLeung\n\t\t\n\t\t\n\t\t\tHing-FungTing\n\t\t\n\t\t\n\t\t\tKunihikoSadakane\n\t\t\n\t\t\n\t\t\tHiroshiYamashita\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t10.1016/j.ymeth.2016.02.020\n\t\t27012178\n\t\t\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c30c3b7723bebd86656445"},"refKey":25},
{"_key":"60c30c3b7723bebd86656449","_id":"references/60c30c3b7723bebd86656449","_rev":"_cfFlC8i---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c30c3b7723bebd86656445"},"refKey":33},
{"_key":"60c30c3b7723bebd8665644a","_id":"references/60c30c3b7723bebd8665644a","_rev":"_cfFlC8u---","tei":"\n\t\n\t\tGapFiller: a de novo assembly approach to fill the gap within paired reads\n\t\t\n\t\t\tFrancescaNadalin\n\t\t\n\t\t\n\t\t\tFrancescoVezzi\n\t\t\n\t\t\n\t\t\tAlbertoPolicriti\n\t\t\n\t\t10.1186/1471-2105-13-s14-s8\n\t\t23095524\n\t\tPMC3439727\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\tS14\n\t\t\tS8\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c30c3b7723bebd86656445"},"refKey":27},
{"_key":"60c30c3b7723bebd8665644b","_id":"references/60c30c3b7723bebd8665644b","_rev":"_cfFlC86---","tei":"\n\t\n\t\tScaffolding pre-assembled contigs using SSPACE\n\t\t\n\t\t\tMartenBoetzer\n\t\t\n\t\t\n\t\t\tChristiaanVHenkel\n\t\t\n\t\t\n\t\t\tHansJJansen\n\t\t\n\t\t\n\t\t\tDerekButler\n\t\t\n\t\t\n\t\t\tWalterPirovano\n\t\t\n\t\t10.1093/bioinformatics/btq683\n\t\t21149342\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c30c3b7723bebd86656445"},"refKey":28},
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{"_key":"60c30c3b7723bebd8665644d","_id":"references/60c30c3b7723bebd8665644d","_rev":"_cfFlC9S---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c30c3b7723bebd86656445"},"refKey":32},
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{"_key":"60c30c3b7723bebd8665644f","_id":"references/60c30c3b7723bebd8665644f","_rev":"_cfFlC9m---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c30c3b7723bebd86656445"},"refKey":24},
{"_key":"60c30c497723bebd8665646d","_id":"references/60c30c497723bebd8665646d","_rev":"_cfFlC9y---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\n\t\n\t\tR Foundation for Statistical Computing 25. StataCorp (2015) Stata Statistical Software: Release 14. College Station, TX: StataCorp LP\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30c497723bebd8665646c"},"refKey":23},
{"_key":"60c30c4c7723bebd86656472","_id":"references/60c30c4c7723bebd86656472","_rev":"_cfFlD-----","tei":"\n\t\n\t\tThe PyMOL molecular graphics system\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30c4c7723bebd86656471"},"refKey":10},
{"_key":"60c30c4c7723bebd86656473","_id":"references/60c30c4c7723bebd86656473","_rev":"_cfFlD-K---","tei":"\n\t\n\t\tMolscript: a program to produce both detailed and schematic plots of protein structures\n\t\t\n\t\t\tPJKraulis\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30c4c7723bebd86656471"},"refKey":21},
{"_key":"60c30c767723bebd86656485","_id":"references/60c30c767723bebd86656485","_rev":"_cfFlD-W---","tei":"\n\t\n\t\tA Lipidome Atlas in MS-DIAL 4\n\t\t\n\t\t\tHTsugawa\n\t\t\n\t\t\n\t\t\tKIkeda\n\t\t\n\t\t\n\t\t\tMTakahashi\n\t\t\n\t\t\n\t\t\tASatoh\n\t\t\n\t\t\n\t\t\tYMori\n\t\t\n\t\t\n\t\t\tHUchino\n\t\t\n\t\t\n\t\t\tNOkahashi\n\t\t\n\t\t\n\t\t\tYYamada\n\t\t\n\t\t\n\t\t\tITada\n\t\t\n\t\t\n\t\t\tPBonini\n\t\t\n\t\t\n\t\t\tYHigashi\n\t\t\n\t\t\n\t\t\tYOkazaki\n\t\t\n\t\t\n\t\t\tZZhou\n\t\t\n\t\t\n\t\t\tZJZhu\n\t\t\n\t\t\n\t\t\tJKoelmel\n\t\t\n\t\t\n\t\t\tTCajka\n\t\t\n\t\t\n\t\t\tOFiehn\n\t\t\n\t\t\n\t\t\tKSaito\n\t\t\n\t\t\n\t\t\tMArita\n\t\t\n\t\t\n\t\t\tMArita\n\t\t\n\t\t10.1038/s41587-020-0531-2?ref=pdf\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30c767723bebd86656484"},"refKey":23},
{"_key":"60c30c767723bebd86656486","_id":"references/60c30c767723bebd86656486","_rev":"_cfFlD-i---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tNHoffmann\n\t\t\n\t\t\n\t\t\tJHartler\n\t\t\n\t\t\n\t\t\tRAhrends\n\t\t\n\t\t10.1021/acs.analchem.9b01987\n\t\n\t\n\t\tAnal. Chem\n\t\t\n\t\t\t91\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30c767723bebd86656484"},"refKey":31},
{"_key":"60c30c767723bebd86656487","_id":"references/60c30c767723bebd86656487","_rev":"_cfFlD-u---","tei":"\n\t\n\t\tLipidBlast in silico tandem mass spectrometry database for lipid identification\n\t\t\n\t\t\tTobiasKind\n\t\t\n\t\t\n\t\t\tKwang-HyeonLiu\n\t\t\n\t\t\n\t\t\tDoYupLee\n\t\t\n\t\t\n\t\t\tBrianDefelice\n\t\t\n\t\t\n\t\t\tJohnKMeissen\n\t\t\n\t\t\n\t\t\tOliverFiehn\n\t\t\n\t\t10.1038/nmeth.2551\n\t\t23817071\n\t\tPMC3731409\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t10\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c30c767723bebd86656484"},"refKey":18},
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{"_key":"60c30de57723bebd866565f0","_id":"references/60c30de57723bebd866565f0","_rev":"_cfFlDD----","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30de57723bebd866565ee"},"refKey":73},
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{"_key":"60c30ded7723bebd866565fa","_id":"references/60c30ded7723bebd866565fa","_rev":"_cfFlDDW---","tei":"\n\t\n\t\tA cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples\n\t\t\n\t\t\tSNNaccache\n\t\t\n\t\t\n\t\t\tSFederman\n\t\t\n\t\t\n\t\t\tNVeeraraghavan\n\t\t\n\t\t\n\t\t\tMZaharia\n\t\t\n\t\t\n\t\t\tDLee\n\t\t\n\t\t\n\t\t\tESamayoa\n\t\t\n\t\t\n\t\t\tJBouquet\n\t\t\n\t\t\n\t\t\tALGreninger\n\t\t\n\t\t\n\t\t\tK-CLuk\n\t\t\n\t\t\n\t\t\tBEnge\n\t\t\n\t\t\n\t\t\tDAWadford\n\t\t\n\t\t\n\t\t\tSLMessenger\n\t\t\n\t\t\n\t\t\tGLGenrich\n\t\t\n\t\t\n\t\t\tKPellegrino\n\t\t\n\t\t\n\t\t\tGGrard\n\t\t\n\t\t\n\t\t\tELeroy\n\t\t\n\t\t\n\t\t\tBSSchneider\n\t\t\n\t\t\n\t\t\tJNFair\n\t\t\n\t\t\n\t\t\tMAMartinez\n\t\t\n\t\t\n\t\t\tPIsa\n\t\t\n\t\t\n\t\t\tJACrump\n\t\t\n\t\t\n\t\t\tJLDerisi\n\t\t\n\t\t\n\t\t\tTSittler\n\t\t\n\t\t\n\t\t\tJHackett\n\t\t\n\t\t\n\t\t\tSMiller\n\t\t\n\t\t\n\t\t\tCYChiu\n\t\t\n\t\t10.1101/gr.171934.113\n\t\t24899342\n\t\tPMC4079973\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t24\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c30ded7723bebd866565f8"},"refKey":29},
{"_key":"60c30e227723bebd8665661e","_id":"references/60c30e227723bebd8665661e","_rev":"_cfFlDDi---","tei":"\n\t\n\t\tIBM. IBM SPSS Statistics for Macintosh, Version 26.0. Armonk, NY: IBM Corp\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30e227723bebd8665661d"},"refKey":43},
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{"_key":"60c30e777723bebd8665664e","_id":"references/60c30e777723bebd8665664e","_rev":"_cfFlDEG---","tei":"\n\t\n\t\tClustal W and clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30e777723bebd8665664d"},"refKey":32},
{"_key":"60c30e777723bebd8665664f","_id":"references/60c30e777723bebd8665664f","_rev":"_cfFlDES---","tei":"\n\t\n\t\tCHARMM-GUI: a web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSJo\n\t\t\n\t\t\n\t\t\tTKim\n\t\t\n\t\t\n\t\t\tVGIyer\n\t\t\n\t\t\n\t\t\tWIm\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30e777723bebd8665664d"},"refKey":36},
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{"_key":"60c30ea57723bebd86656690","_id":"references/60c30ea57723bebd86656690","_rev":"_cfFlDEy---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tTommyTLam\n\t\t\n\t\t\n\t\t\tLuizMax Carvalho\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t10.1093/ve/vew007\n\t\t27774300\n\t\tPMC4989882\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\tVirus Evol\n\t\t2057-1577\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\tvew007\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c30ea57723bebd8665668d"},"refKey":36},
{"_key":"60c30ead7723bebd866566a3","_id":"references/60c30ead7723bebd866566a3","_rev":"_cfFlDF----","tei":"\n\t\n\t\tCyclic nitroxides inhibit the toxicity of nitric oxide-derived oxidants: mechanisms and implications\n\t\t\n\t\t\tOharaAugusto\n\t\t\n\t\t\n\t\t\tDanielFTrindade\n\t\t\n\t\t\n\t\t\tEdlaineLinares\n\t\t\n\t\t\n\t\t\tSandraMVaz\n\t\t\n\t\t10.1590/s0001-37652008000100013\n\t\t18345386\n\t\t\n\t\n\t\n\t\tAnais da Academia Brasileira de Ciências\n\t\tAn. Acad. Bras. Ciênc.\n\t\t0001-3765\n\t\t\n\t\t\t80\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFapUNIFESP (SciELO)\n\t\t\n\t\n\n","document":{"$oid":"60c30ead7723bebd866566a2"},"refKey":14},
{"_key":"60c30ead7723bebd866566a4","_id":"references/60c30ead7723bebd866566a4","_rev":"_cfFlDFK---","tei":"\n\t\n\t\tInhibition of in vivo leishmanicidal mechanisms by tempol: Nitric oxide down-regulation and oxidant scavenging\n\t\t\n\t\t\tEdlaineLinares\n\t\t\n\t\t\n\t\t\tSelmaGiorgio\n\t\t\n\t\t\n\t\t\tOharaAugusto\n\t\t\n\t\t10.1016/j.freeradbiomed.2008.01.027\n\t\t18313408\n\t\n\t\n\t\tFree Radical Biology and Medicine\n\t\tFree Radical Biology and Medicine\n\t\t0891-5849\n\t\t\n\t\t\t44\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c30ead7723bebd866566a2"},"refKey":28},
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{"_key":"60c30ee57723bebd86656703","_id":"references/60c30ee57723bebd86656703","_rev":"_cfFlDGC---","tei":"\n\t\n\t\tVerification of protein structures: Patterns of nonbonded atomic interactions\n\t\t\n\t\t\tChrisColovos\n\t\t\n\t\t\n\t\t\tToddOYeates\n\t\t\n\t\t10.1002/pro.5560020916\n\t\t8401235\n\t\tPMC2142462\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t2\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c30ee57723bebd86656700"},"refKey":22},
{"_key":"60c30ee57723bebd86656704","_id":"references/60c30ee57723bebd86656704","_rev":"_cfFlDGO---","tei":"\n\t\n\t\tQMEAN: A comprehensive scoring function for model quality assessment\n\t\t\n\t\t\tPascalBenkert\n\t\t\n\t\t\n\t\t\tSilvioC ETosatto\n\t\t\n\t\t\n\t\t\tDietmarSchomburg\n\t\t\n\t\t10.1002/prot.21715\n\t\t17932912\n\t\tark:/67375/WNG-V73Z4RPK-D\n\t\t16E04392F65E521BF44F3B3AB9AAEDE2EFCEE442\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t71\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c30ee57723bebd86656700"},"refKey":23},
{"_key":"60c30ee57723bebd86656705","_id":"references/60c30ee57723bebd86656705","_rev":"_cfFlDGa---","tei":"\n\t\n\t\tModeller: Generation and Refinement of Homology-Based Protein Structure Models\n\t\t\n\t\t\tAndrásFiser\n\t\t\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t10.1016/s0076-6879(03)74020-8\n\t\t14696385\n\t\t\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t374\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c30ee57723bebd86656700"},"refKey":19},
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{"_key":"60c311697723bebd86656911","_id":"references/60c311697723bebd86656911","_rev":"_cfFlDMO---","tei":"\n\t\n\t\tThe Ensembl Variant Effect Predictor\n\t\t\n\t\t\tWilliamMclaren\n\t\t\n\t\t\n\t\t\tLaurentGil\n\t\t\n\t\t\n\t\t\tSarahEHunt\n\t\t\n\t\t\n\t\t\tHarpreetSinghRiat\n\t\t\n\t\t\n\t\t\tGrahamR SRitchie\n\t\t\n\t\t\n\t\t\tAnjaThormann\n\t\t\n\t\t\n\t\t\tPaulFlicek\n\t\t\n\t\t\n\t\t\tFionaCunningham\n\t\t\n\t\t10.1101/042374\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t17\n\t\t\t2016\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c311697723bebd8665690d"},"refKey":2},
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{"_key":"60c3124e7723bebd86656a35","_id":"references/60c3124e7723bebd86656a35","_rev":"_cfFlDQq---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3124e7723bebd86656a33"},"refKey":56},
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{"_key":"60c312767723bebd86656a50","_id":"references/60c312767723bebd86656a50","_rev":"_cfFlDRC---","tei":"\n\t\n\t\tMaximum likelihood identification of Gaussian autoregressive moving average models\n\t\t\n\t\t\tHtrotuguAkaike\n\t\t\n\t\t10.1093/biomet/60.2.255\n\t\tark:/67375/HXZ-3XDFK1C9-Z\n\t\t588597DF2283E1565DC65BB3F45DB18BE31D194A\n\t\t\n\t\n\t\n\t\tBiometrika\n\t\tBiometrika\n\t\t0006-3444\n\t\t1464-3510\n\t\t\n\t\t\t60\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c312767723bebd86656a4f"},"refKey":0},
{"_key":"60c312767723bebd86656a51","_id":"references/60c312767723bebd86656a51","_rev":"_cfFlDRO---","tei":"\n\t\n\t\tEnvironmental and psychological effects on reactions to\n\t\t\n\t\t\tRMcelreath\n\t\t\n\t\tCOVID-19 15\n\t\n\t\n\t\tStatistical rethinking: A Bayesian course with examples in R and Stan\n\t\t\t\tBoca Raton\n\t\t\n\t\t\tFLCRC Press\n\t\t\t\n\t\t\t122\n\t\t\n\t\n\n","document":{"$oid":"60c312767723bebd86656a4f"},"refKey":13},
{"_key":"60c312847723bebd86656a58","_id":"references/60c312847723bebd86656a58","_rev":"_cfFlDRa---","tei":"\n\t\n\t\tNMRPipe: A Multidimensional Spectral Processing System Based on UNIX pipes\n\t\t\n\t\t\tFDelaglio\n\t\t\n\t\t\n\t\t\tSGrzesiek\n\t\t\n\t\t\n\t\t\tWVuister\n\t\t\n\t\t\n\t\t\tGZhu\n\t\t\n\t\t\n\t\t\tJPfeifer\n\t\t\n\t\n\t\n\t\tJ Biomolec NMR\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c312847723bebd86656a57"},"refKey":38},
{"_key":"60c312e87723bebd86656a8f","_id":"references/60c312e87723bebd86656a8f","_rev":"_cfFlDRm---","tei":"\n\t\n\t\tPackage 'pwr': basic functions for power analysis\n\t\t\n\t\t\tSChampely\n\t\t\n\t\t\n\t\t\tCEkstrom\n\t\t\n\t\t\n\t\t\tPDalgaard\n\t\t\n\t\t\n\t\t\tJGill\n\t\t\n\t\t\n\t\t\tSWeibelzahl\n\t\t\n\t\t\n\t\t\tAAnandkumar\n\t\t\n\t\t\n\t\t\tCFord\n\t\t\n\t\t\n\t\t\tRVolcic\n\t\t\n\t\t\n\t\t\tDeRosario\n\t\t\n\t\t\n\t\t\tH\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c312e87723bebd86656a8e"},"refKey":24},
{"_key":"60c312e87723bebd86656a90","_id":"references/60c312e87723bebd86656a90","_rev":"_cfFlDRy---","tei":"\n\t\n\t\tDefault Bayes factors for ANOVA designs\n\t\t\n\t\t\tJeffreyNRouder\n\t\t\n\t\t\n\t\t\tRichardDMorey\n\t\t\n\t\t\n\t\t\tPaulLSpeckman\n\t\t\n\t\t\n\t\t\tJordanMProvince\n\t\t\n\t\t10.1016/j.jmp.2012.08.001\n\t\tdoi:10. 1016/j.jmp.2012.08.001\n\t\n\t\n\t\tJournal of Mathematical Psychology\n\t\tJournal of Mathematical Psychology\n\t\t0022-2496\n\t\t\n\t\t\t56\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c312e87723bebd86656a8e"},"refKey":36},
{"_key":"60c313007723bebd86656aa1","_id":"references/60c313007723bebd86656aa1","_rev":"_cfFlDS----","tei":"\n\t\n\t\tConducting Meta-Analyses in R with the metafor Package\n\t\t\n\t\t\tViechtbauer W\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c313007723bebd86656aa0"},"refKey":28},
{"_key":"60c3133d7723bebd86656aeb","_id":"references/60c3133d7723bebd86656aeb","_rev":"_cfFlDSK---","tei":"\n\t\n\t\tTelemedicine in the time of coronavirus\n\t\t\n\t\t\tBCalton\n\t\t\n\t\t\n\t\t\tNAbedini\n\t\t\n\t\t\n\t\t\tMFratkin\n\t\t\n\t\n\t\n\t\tJournal of Pain Symptom Management\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3133d7723bebd86656aea"},"refKey":8},
{"_key":"60c3133d7723bebd86656aec","_id":"references/60c3133d7723bebd86656aec","_rev":"_cfFlDSW---","tei":"\n\t\n\t\tTwitter as a powerful tool for communication between pain physicians during COVID-19 pandemic\n\t\t\n\t\t\tPGhosh\n\t\t\n\t\t\n\t\t\tGSchwartz\n\t\t\n\t\t\n\t\t\tSNarouze\n\t\t\n\t\t10.1136/rapm-2020-101530\n\t\t\n\t\n\t\n\t\tRegional Anesthesia and Pain Medicine\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3133d7723bebd86656aea"},"refKey":14},
{"_key":"60c3133d7723bebd86656aed","_id":"references/60c3133d7723bebd86656aed","_rev":"_cfFlDSe---","tei":"\n\t\n\t\tVirtually perfect? Telemedicine for Covid-19\n\t\t\n\t\t\tJEHollander\n\t\t\n\t\t\n\t\t\tBGCarr\n\t\t\n\t\t10.1056/NEJMp2003539\n\t\t\n\t\n\t\n\t\tNew England Journal of Medicine\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3133d7723bebd86656aea"},"refKey":17},
{"_key":"60c3133d7723bebd86656aee","_id":"references/60c3133d7723bebd86656aee","_rev":"_cfFlDSq---","tei":"\n\t\n\t\tWorld leaders' usage of Twitter in response to the COVID-19 pandemic: A content analysis\n\t\t\n\t\t\tSRRufai\n\t\t\n\t\t\n\t\t\tCBunce\n\t\t\n\t\n\t\n\t\tJournal of Public Health\n\t\t\n\t\t\t42\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3133d7723bebd86656aea"},"refKey":37},
{"_key":"60c3133d7723bebd86656aef","_id":"references/60c3133d7723bebd86656aef","_rev":"_cfFlDS2---","tei":"\n\t\n\t\tPain management during the COVID-19 pandemic in China: Lessons learned\n\t\t\n\t\t\tXJSong\n\t\t\n\t\t\n\t\t\tDLXiong\n\t\t\n\t\t\n\t\t\tZYWang\n\t\t\n\t\t\n\t\t\tDYang\n\t\t\n\t\t\n\t\t\tLZhou\n\t\t\n\t\t\n\t\t\tRCLi\n\t\t\n\t\t10.1093/pm/pnaa143\n\t\t\n\t\n\t\n\t\tPain Medicine\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3133d7723bebd86656aea"},"refKey":44},
{"_key":"60c313857723bebd86656b10","_id":"references/60c313857723bebd86656b10","_rev":"_cfFlDTC---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCarolineASchneider\n\t\t\n\t\t\n\t\t\tWayneSRasband\n\t\t\n\t\t\n\t\t\tKevinWEliceiri\n\t\t\n\t\t10.1038/nmeth.2089\n\t\t22930834\n\t\tPMC5554542\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c313857723bebd86656b0f"},"refKey":42},
{"_key":"60c313937723bebd86656b24","_id":"references/60c313937723bebd86656b24","_rev":"_cfFlDTO---","tei":"\n\t\n\t\tMoRFchibi SYSTEM: software tools for the identification of MoRFs in protein sequences\n\t\t\n\t\t\tNawarMalhis\n\t\t\n\t\t\n\t\t\tMatthewJacobson\n\t\t\n\t\t\n\t\t\tJörgGsponer\n\t\t\n\t\t10.1093/nar/gkw409\n\t\t27174932\n\t\tPMC4987941\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c313937723bebd86656b23"},"refKey":86},
{"_key":"60c313937723bebd86656b25","_id":"references/60c313937723bebd86656b25","_rev":"_cfFlDTa---","tei":"\n\t\n\t\tANCHOR: web server for predicting protein binding regions in disordered proteins\n\t\t\n\t\t\tZDosztanyi\n\t\t\n\t\t\n\t\t\tBMeszaros\n\t\t\n\t\t\n\t\t\tISimon\n\t\t\n\t\t10.1093/bioinformatics/btp518\n\t\t19717576\n\t\tPMC2759549\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c313937723bebd86656b23"},"refKey":87},
{"_key":"60c313937723bebd86656b26","_id":"references/60c313937723bebd86656b26","_rev":"_cfFlDTm---","tei":"\n\t\n\t\tMoRFpred, a computational tool for sequence-based prediction and characterization of short disorder-to-order transitioning binding regions in proteins\n\t\t\n\t\t\tFatemehMiriDisfani\n\t\t\n\t\t\n\t\t\tWei-LunHsu\n\t\t\n\t\t\n\t\t\tMarcinJMizianty\n\t\t\n\t\t\n\t\t\tChristopherJOldfield\n\t\t\n\t\t\n\t\t\tBinXue\n\t\t\n\t\t\n\t\t\tAKeithDunker\n\t\t\n\t\t\n\t\t\tVladimirNUversky\n\t\t\n\t\t\n\t\t\tLukaszKurgan\n\t\t\n\t\t10.1093/bioinformatics/bts209\n\t\t22689782\n\t\tPMC3371841\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c313937723bebd86656b23"},"refKey":88},
{"_key":"60c313937723bebd86656b27","_id":"references/60c313937723bebd86656b27","_rev":"_cfFlDTy---","tei":"\n\t\n\t\tDISOPRED3: precise disordered region predictions with annotated protein-binding activity\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t\n\t\t\tDomenicoCozzetto\n\t\t\n\t\t10.1093/bioinformatics/btu744\n\t\t25391399\n\t\tPMC4380029\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c313937723bebd86656b23"},"refKey":89},
{"_key":"60c3139f7723bebd86656b34","_id":"references/60c3139f7723bebd86656b34","_rev":"_cfFlDU----","tei":"\n\t\n\t\tMacromolecular phasing with SHELXE\n\t\t\n\t\t\tGMSheldrick\n\t\t\n\t\t10.1524/zkri.217.12.644.20662\n\t\n\t\n\t\tZeitschrift für Kristallographie - Crystalline Materials\n\t\t2194-4946\n\t\t2196-7105\n\t\t\n\t\t\t217\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tWalter de Gruyter GmbH\n\t\t\n\t\n\n","document":{"$oid":"60c3139f7723bebd86656b33"},"refKey":46},
{"_key":"60c3139f7723bebd86656b35","_id":"references/60c3139f7723bebd86656b35","_rev":"_cfFlDUG---","tei":"\n\t\n\t\tRecent changes to the MOSFLM package for processing film and image plate data. Joint CCP4 and ESF-EACMB Newsl\n\t\t\n\t\t\tAG WLeslie\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tProtein Crystallogr. 26\n\n","document":{"$oid":"60c3139f7723bebd86656b33"},"refKey":22},
{"_key":"60c3139f7723bebd86656b36","_id":"references/60c3139f7723bebd86656b36","_rev":"_cfFlDUS---","tei":"\n\t\n\t\tThe CCP4 suite: programs for protein crystallography\n\t\n\t\n\t\tActa Crystallogr D Biol. Crystallogr\n\t\t\n\t\t\t50\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tCollaborative Computational Project\n\n","document":{"$oid":"60c3139f7723bebd86656b33"},"refKey":5},
{"_key":"60c3139f7723bebd86656b37","_id":"references/60c3139f7723bebd86656b37","_rev":"_cfFlDUe---","tei":"\n\t\n\t\tSubstructure solution withSHELXD\n\t\t\n\t\t\tThomasRSchneider\n\t\t\n\t\t\n\t\t\tGeorgeMSheldrick\n\t\t\n\t\t10.1107/s0907444902011678\n\t\t12351820\n\t\tark:/67375/WNG-M9SCTD3T-P\n\t\t5FF8E240ED5C20BDE7F7E16159794BD5F6F9E81C\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t58\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3139f7723bebd86656b33"},"refKey":45},
{"_key":"60c313c77723bebd86656b8d","_id":"references/60c313c77723bebd86656b8d","_rev":"_cfFlDUq---","tei":"\n\t\n\t\tBag of Tricks for Efficient Text Classification\n\t\t\n\t\t\tAJoulin\n\t\t\n\t\t\n\t\t\tEGrave\n\t\t\n\t\t\n\t\t\tPBojanowski\n\t\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\n\t\n\t\tProceedings of the 15th Conference of the European Chapter\n\t\t\t\tthe 15th Conference of the European Chapter\n\t\t\n\t\t\tShort Papers. Association for Computational Linguistics\n\t\t\t\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c313c77723bebd86656b8c"},"refKey":26},
{"_key":"60c313c77723bebd86656b8e","_id":"references/60c313c77723bebd86656b8e","_rev":"_cfFlDU2---","tei":"\n\t\n\t\tLoss in Translation: Learning Bilingual Word Mapping with a Retrieval Criterion\n\t\t\n\t\t\tArmandJoulin\n\t\t\n\t\t\n\t\t\tPiotrBojanowski\n\t\t\n\t\t\n\t\t\tTomasMikolov\n\t\t\n\t\t\n\t\t\tHervéJégou\n\t\t\n\t\t\n\t\t\tEdouardGrave\n\t\t\n\t\t10.18653/v1/d18-1330\n\t\t\n\t\n\t\n\t\tProceedings of the 2018 Conference on Empirical Methods in Natural Language Processing\n\t\t\t\tthe 2018 Conference on Empirical Methods in Natural Language Processing\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c313c77723bebd86656b8c"},"refKey":27},
{"_key":"60c313dc7723bebd86656ba0","_id":"references/60c313dc7723bebd86656ba0","_rev":"_cfFlDVC---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 15. College Station, TX: StataCorp LP\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c313dc7723bebd86656b9f"},"refKey":31},
{"_key":"60c313e67723bebd86656ba4","_id":"references/60c313e67723bebd86656ba4","_rev":"_cfFlDVO---","tei":"\n\t\n\t\tImproved methods for predicting peptide binding affinity to MHC class II molecules\n\t\t\n\t\t\tKamillaKjaergaardJensen\n\t\t\t0000-0001-9217-7142\n\t\t\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\t0000-0002-8036-2647\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t\n\t\t\tJasonAGreenbaum\n\t\t\n\t\t\n\t\t\tZhenYan\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\t0000-0001-7885-4311\n\t\t\n\t\t10.1111/imm.12889\n\t\t29315598\n\t\t\n\t\t\n\t\n\t\n\t\tImmunology\n\t\tImmunology\n\t\t0019-2805\n\t\t\n\t\t\t154\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c313e67723bebd86656ba3"},"refKey":13},
{"_key":"60c313e67723bebd86656ba5","_id":"references/60c313e67723bebd86656ba5","_rev":"_cfFlDVa---","tei":"\n\t\n\t\tComparative Protein Structure Modeling Using MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1002/cpps.20\n\t\t27801516\n\t\t\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Protein Science\n\t\t\n\t\t\t86\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c313e67723bebd86656ba3"},"refKey":34},
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{"_key":"60c3146c7723bebd86656c60","_id":"references/60c3146c7723bebd86656c60","_rev":"_cfFlDYG---","tei":"\n\t\n\t\tComputational Prediction of Short Linear Motifs from Protein Sequences\n\t\t\n\t\t\tRichardJEdwards\n\t\t\n\t\t\n\t\t\tNicolasPalopoli\n\t\t\n\t\t10.1007/978-1-4939-2285-7_6\n\t\t25555723\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tPZhou\n\t\t\tJHuang\n\t\t\n\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3146c7723bebd86656c59"},"refKey":38},
{"_key":"60c3146c7723bebd86656c61","_id":"references/60c3146c7723bebd86656c61","_rev":"_cfFlDYS---","tei":"\n\t\n\t\tDiscovering Sequence Motifs with Arbitrary Insertions and Deletions\n\t\t\n\t\t\tMartinCFrith\n\t\t\n\t\t\n\t\t\tNeilF WSaunders\n\t\t\n\t\t\n\t\t\tBostjanKobe\n\t\t\n\t\t\n\t\t\tTimothyLBailey\n\t\t\n\t\t10.1371/journal.pcbi.1000071\n\t\t18437229\n\t\tPMC2323616\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t4\n\t\t\t5\n\t\t\te1000071\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c3146c7723bebd86656c59"},"refKey":46},
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{"_key":"60c3149a7723bebd86656ca6","_id":"references/60c3149a7723bebd86656ca6","_rev":"_cfFlDZ2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMRowcliffe\n\t\t\n\t\t\n\t\n\t\n\t\tAnimal Activity Statistics. 1.3. R package\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3149a7723bebd86656ca4"},"refKey":49},
{"_key":"60c3149a7723bebd86656ca7","_id":"references/60c3149a7723bebd86656ca7","_rev":"_cfFlDaC---","tei":"\n\t\n\t\tunmarked: AnRPackage for Fitting Hierarchical Models of Wildlife Occurrence and Abundance\n\t\t\n\t\t\tIanFiske\n\t\t\n\t\t\n\t\t\tRichardChandler\n\t\t\n\t\t10.18637/jss.v043.i10\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t43\n\t\t\t10\n\t\t\t10\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c3149a7723bebd86656ca4"},"refKey":16},
{"_key":"60c3149a7723bebd86656ca8","_id":"references/60c3149a7723bebd86656ca8","_rev":"_cfFlDaO---","tei":"\n\t\n\t\tMuMIn: Multi-Model Inference. 1.43.6. R Package\n\t\t\n\t\t\t´kBarton\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3149a7723bebd86656ca4"},"refKey":3},
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{"_key":"60c314a67723bebd86656cad","_id":"references/60c314a67723bebd86656cad","_rev":"_cfFlDam---","tei":"\n\t\n\t\tOnline Appendix for\n\t\t\n\t\t\tEFrank\n\t\t\n\t\t\n\t\t\tMAHall\n\t\t\n\t\t\n\t\t\tIHWitten\n\t\t\n\t\t\n\t\t\tWorkbench\n\t\t\n\t\n\t\n\t\tData Mining: Practical Machine Learning Tools and Techniques\n\t\t\t\t\n\t\t\tMorgan Kaufmann\n\t\t\t\n\t\t\t4\n\t\t\n\t\n\n","document":{"$oid":"60c314a67723bebd86656cab"},"refKey":14},
{"_key":"60c314a77723bebd86656cb4","_id":"references/60c314a77723bebd86656cb4","_rev":"_cfFlDay---","tei":"\n\t\n\t\tElectrostatics of nanosystems: Application to microtubules and the ribosome\n\t\t\n\t\t\tNABaker\n\t\t\n\t\t\n\t\t\tDSept\n\t\t\n\t\t\n\t\t\tSJoseph\n\t\t\n\t\t\n\t\t\tMJHolst\n\t\t\n\t\t\n\t\t\tJAMccammon\n\t\t\n\t\t10.1073/pnas.181342398\n\t\t11517324\n\t\tPMC56910\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c314a77723bebd86656cb3"},"refKey":58},
{"_key":"60c314a77723bebd86656cb5","_id":"references/60c314a77723bebd86656cb5","_rev":"_cfFlDb----","tei":"\n\t\n\t\tg_mmpbsa—A GROMACS Tool for High-Throughput MM-PBSA Calculations\n\t\t\n\t\t\tRashmiKumari\n\t\t\n\t\t\n\t\t\tRajendraKumar\n\t\t\n\t\t\n\t\t\tAndrewLynn\n\t\t\n\t\t10.1021/ci500020m\n\t\t24850022\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t54\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c314a77723bebd86656cb3"},"refKey":59},
{"_key":"60c314a77723bebd86656cb6","_id":"references/60c314a77723bebd86656cb6","_rev":"_cfFlDbK---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c314a77723bebd86656cb3"},"refKey":32},
{"_key":"60c314a77723bebd86656cb7","_id":"references/60c314a77723bebd86656cb7","_rev":"_cfFlDbS---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c314a77723bebd86656cb3"},"refKey":33},
{"_key":"60c314a77723bebd86656cb8","_id":"references/60c314a77723bebd86656cb8","_rev":"_cfFlDbe---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c314a77723bebd86656cb3"},"refKey":31},
{"_key":"60c314a77723bebd86656cb9","_id":"references/60c314a77723bebd86656cb9","_rev":"_cfFlDbq---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c314a77723bebd86656cb3"},"refKey":82},
{"_key":"60c314a77723bebd86656cba","_id":"references/60c314a77723bebd86656cba","_rev":"_cfFlDb2---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNoelMO'boyle\n\t\t\n\t\t\n\t\t\tMichaelBanck\n\t\t\n\t\t\n\t\t\tCraigAJames\n\t\t\n\t\t\n\t\t\tChrisMorley\n\t\t\n\t\t\n\t\t\tTimVandermeersch\n\t\t\n\t\t\n\t\t\tGeoffreyRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t21982300\n\t\tPMC3198950\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c314a77723bebd86656cb3"},"refKey":30},
{"_key":"60c314a77723bebd86656cbb","_id":"references/60c314a77723bebd86656cbb","_rev":"_cfFlDcC---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tWBryanArendall\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tDanielAKeedy\n\t\t\n\t\t\n\t\t\tRobertMImmormino\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tLauraWMurray\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t10.1107/s0907444909042073\n\t\t20057044\n\t\tPMC2803126\n\t\tark:/67375/WNG-BJVGXQ30-W\n\t\t581B530166BA83A1EC7EFD28535AB1F9DD0F6CFB\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c314a77723bebd86656cb3"},"refKey":77},
{"_key":"60c314b37723bebd86656ced","_id":"references/60c314b37723bebd86656ced","_rev":"_cfFlDcO---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c314b37723bebd86656cec"},"refKey":70},
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{"_key":"60c314fc7723bebd86656d29","_id":"references/60c314fc7723bebd86656d29","_rev":"_cfFlDdS---","tei":"\n\t\n\t\tScalable Algorithms for Molecular Dynamics Simulations on Commodity Clusters, SC '06\n\t\t\n\t\t\tKJBowers\n\t\t\n\t\t\n\t\t\tDEChow\n\t\t\n\t\t\n\t\t\tHXu\n\t\t\n\t\t\n\t\t\tRODror\n\t\t\n\t\t\n\t\t\tMPEastwood\n\t\t\n\t\t\n\t\t\tBAGregersen\n\t\t\n\t\t\n\t\t\tJLKlepeis\n\t\t\n\t\t\n\t\t\tIKolossvary\n\t\t\n\t\t\n\t\t\tMAMoraes\n\t\t\n\t\t\n\t\t\tFDSacerdoti\n\t\t\n\t\n\t\n\t\tProceedings of the 2006 ACM/IEEE Conference on Supercomputing\n\t\t\t\tthe 2006 ACM/IEEE Conference on SupercomputingTampa, FL, USA\n\t\t\n\t\t\t\n\t\t\t43\n\t\t\n\t\n\n","document":{"$oid":"60c314fc7723bebd86656d26"},"refKey":70},
{"_key":"60c315177723bebd86656d46","_id":"references/60c315177723bebd86656d46","_rev":"_cfFlDde---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t10.1093/bioinformatics/btp616\n\t\t19910308\n\t\tPMC2796818\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c315177723bebd86656d45"},"refKey":118},
{"_key":"60c315177723bebd86656d47","_id":"references/60c315177723bebd86656d47","_rev":"_cfFlDdq---","tei":"\n\t\n\t\tWGCNA: an R package for weighted correlation network analysis\n\t\t\n\t\t\tPeterLangfelder\n\t\t\n\t\t\n\t\t\tSteveHorvath\n\t\t\n\t\t10.1186/1471-2105-9-559\n\t\t19114008\n\t\tPMC2631488\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t559\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c315177723bebd86656d45"},"refKey":121},
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{"_key":"60c315927723bebd86656d9c","_id":"references/60c315927723bebd86656d9c","_rev":"_cfFlDe6---","tei":"\n\t\n\t\tAssessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tRLüthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t356\n\t\t\t6364\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c315927723bebd86656d97"},"refKey":38},
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{"_key":"60c315927723bebd86656da0","_id":"references/60c315927723bebd86656da0","_rev":"_cfFlDfm---","tei":"\n\t\n\t\tA semiempirical free energy force field with charge-based desolvation\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t28\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c315927723bebd86656d97"},"refKey":33},
{"_key":"60c315927723bebd86656da1","_id":"references/60c315927723bebd86656da1","_rev":"_cfFlDfy---","tei":"\n\t\n\t\tAutomated docking using a Lamarckian genetic algorithm and an empirical binding free energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tRSHalliday\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t19\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c315927723bebd86656d97"},"refKey":34},
{"_key":"60c316027723bebd86656df5","_id":"references/60c316027723bebd86656df5","_rev":"_cfFlDg----","tei":"\n\t\n\t\tThe Mixed Methods Appraisal Tool (MMAT) version 2018 for information professionals and researchers\n\t\t\n\t\t\tQNHong\n\t\t\n\t\t\n\t\t\tSFàbregues\n\t\t\n\t\t\n\t\t\tGBartlett\n\t\t\n\t\n\t\n\t\tEduc Inf\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c316027723bebd86656df4"},"refKey":17},
{"_key":"60c316177723bebd86656e06","_id":"references/60c316177723bebd86656e06","_rev":"_cfFlDgK---","tei":"\n\t\n\t\tSpatial modelling of healthcare utilisation for treatment of fever in Namibia\n\t\t\n\t\t\tVictorAAlegana\n\t\t\n\t\t\n\t\t\tJimAWright\n\t\t\n\t\t\n\t\t\tUusikuPentrina\n\t\t\n\t\t\n\t\t\tAbdisalanMNoor\n\t\t\n\t\t\n\t\t\tRobertWSnow\n\t\t\n\t\t\n\t\t\tPeterMAtkinson\n\t\t\n\t\t10.1186/1476-072x-11-6\n\t\t22336441\n\t\tPMC3292929\n\t\t\n\t\t\n\t\n\t\n\t\tInternational Journal of Health Geographics\n\t\tInternational Journal of Health Geographics\n\t\t1476-072X\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t6\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c316177723bebd86656e05"},"refKey":39},
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{"_key":"60c316337723bebd86656e1b","_id":"references/60c316337723bebd86656e1b","_rev":"_cfFlDgu---","tei":"\n\t\n\t\tThe Barcode, UMI, Set format and BUStools\n\t\t\n\t\t\tPállMelsted\n\t\t\t0000-0002-8418-6724\n\t\t\n\t\t\n\t\t\tVasilisNtranos\n\t\t\t0000-0002-2477-0670\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\t0000-0002-9164-6231\n\t\t\n\t\t10.1101/472571\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c316337723bebd86656e19"},"refKey":55},
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{"_key":"60c316c67723bebd86656ebe","_id":"references/60c316c67723bebd86656ebe","_rev":"_cfFlDjO---","tei":"\n\t\n\t\tUncertainty in perception and the Hierarchical Gaussian Filter\n\t\t\n\t\t\tChristophDMathys\n\t\t\n\t\t\n\t\t\tEkaterinaILomakina\n\t\t\n\t\t\n\t\t\tJeanDaunizeau\n\t\t\n\t\t\n\t\t\tSandraIglesias\n\t\t\n\t\t\n\t\t\tKayHBrodersen\n\t\t\n\t\t\n\t\t\tKarlJFriston\n\t\t\n\t\t\n\t\t\tKlaasEStephan\n\t\t\n\t\t10.3389/fnhum.2014.00825\n\t\t25477800\n\t\tPMC4237059\n\t\n\t\n\t\tFrontiers in Human Neuroscience\n\t\tFront. Hum. Neurosci.\n\t\t1662-5161\n\t\t\n\t\t\t8\n\t\t\t825\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c316c67723bebd86656ebc"},"refKey":9},
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{"_key":"60c316f67723bebd86656ee4","_id":"references/60c316f67723bebd86656ee4","_rev":"_cfFlDjm---","tei":"\n\t\n\t\tTrimmomatic: A flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c316f67723bebd86656ee2"},"refKey":57},
{"_key":"60c316f67723bebd86656ee5","_id":"references/60c316f67723bebd86656ee5","_rev":"_cfFlDjy---","tei":"\n\t\n\t\tUsing MUMmer to Identify Similar Regions in Large Sequence Sets\n\t\t\n\t\t\tArthurLDelcher\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\n\t\t10.1002/0471250953.bi1003s00\n\t\t18428693\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t\n\t\t\t00\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c316f67723bebd86656ee2"},"refKey":56},
{"_key":"60c316f67723bebd86656ee6","_id":"references/60c316f67723bebd86656ee6","_rev":"_cfFlDk----","tei":"\n\t\n\t\tReorganization of functionally connected brain subnetworks in high-functioning autism\n\t\t\n\t\t\tEnricoGlerean\n\t\t\n\t\t\n\t\t\tRajKPan\n\t\t\n\t\t\n\t\t\tJuhaSalmi\n\t\t\n\t\t\n\t\t\tRainerKujala\n\t\t\n\t\t\n\t\t\tJuhaMLahnakoski\n\t\t\n\t\t\n\t\t\tUlrikaRoine\n\t\t\n\t\t\n\t\t\tLauriNummenmaa\n\t\t\n\t\t\n\t\t\tSamiLeppämäki\n\t\t\n\t\t\n\t\t\tTainaNieminen-Von Wendt\n\t\t\n\t\t\n\t\t\tPekkaTani\n\t\t\n\t\t\n\t\t\tJariSaramäki\n\t\t\n\t\t\n\t\t\tMikkoSams\n\t\t\n\t\t\n\t\t\tIiroPJääskeläinen\n\t\t\n\t\t10.1002/hbm.23084\n\t\t26686668\n\t\t\n\t\n\t\n\t\tHuman Brain Mapping\n\t\tHum. Brain Mapp.\n\t\t1065-9471\n\t\t\n\t\t\t37\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c316f67723bebd86656ee2"},"refKey":67},
{"_key":"60c3170a7723bebd86656f09","_id":"references/60c3170a7723bebd86656f09","_rev":"_cfFlDkK---","tei":"\n\t\n\t\tSciPy 1.0-Fundamental Algorithms for Scientific Computing in Python\n\t\t\n\t\t\tPVirtanen\n\t\t\n\t\t\n\t\t\tRGommers\n\t\t\n\t\t\n\t\t\tTEOliphant\n\t\t\n\t\t\n\t\t\tMHaberland\n\t\t\n\t\t\n\t\t\tTReddy\n\t\t\n\t\t\n\t\t\tDCournapeau\n\t\t\n\t\tarXiv:190710121. 2019\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c3170a7723bebd86656f08"},"refKey":82},
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{"_key":"60c3190e7723bebd866570e6","_id":"references/60c3190e7723bebd866570e6","_rev":"_cfFlDqe---","tei":"\n\t\n\t\tBLAST: improvements for better sequence analysis\n\t\t\n\t\t\tJYe\n\t\t\n\t\t\n\t\t\tSMcginnis\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t10.1093/nar/gkl164\n\t\t16845079\n\t\tPMC1538791\n\t\tark:/67375/HXZ-2ND39DF7-L\n\t\t1516EF9E672AEF60C146578104C76996DE2A54ED\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3190e7723bebd866570e3"},"refKey":33},
{"_key":"60c3190e7723bebd866570e7","_id":"references/60c3190e7723bebd866570e7","_rev":"_cfFlDqu---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJulieDThompson\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t\n\t\t\tTobyJGibson\n\t\t\n\t\t10.1093/nar/22.22.4673\n\t\t7984417\n\t\tPMC308517\n\t\tark:/67375/HXZ-F03BKBVP-7\n\t\t779EA0D5394D5256976CC2873144010B7F618F65\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3190e7723bebd866570e3"},"refKey":41},
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{"_key":"60c319247723bebd866570fd","_id":"references/60c319247723bebd866570fd","_rev":"_cfFlDrO---","tei":"\n\t\n\t\tSPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing\n\t\t\n\t\t\tAntonBankevich\n\t\t\n\t\t\n\t\t\tSergeyNurk\n\t\t\n\t\t\n\t\t\tDmitryAntipov\n\t\t\n\t\t\n\t\t\tAlexeyAGurevich\n\t\t\n\t\t\n\t\t\tMikhailDvorkin\n\t\t\n\t\t\n\t\t\tAlexanderSKulikov\n\t\t\n\t\t\n\t\t\tValeryMLesin\n\t\t\n\t\t\n\t\t\tSergeyINikolenko\n\t\t\n\t\t\n\t\t\tSonPham\n\t\t\n\t\t\n\t\t\tAndreyDPrjibelski\n\t\t\n\t\t\n\t\t\tAlexeyVPyshkin\n\t\t\n\t\t\n\t\t\tAlexanderVSirotkin\n\t\t\n\t\t\n\t\t\tNikolayVyahhi\n\t\t\n\t\t\n\t\t\tGlennTesler\n\t\t\n\t\t\n\t\t\tMaxAAlekseyev\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1089/cmb.2012.0021\n\t\t22506599\n\t\tPMC3342519\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c319247723bebd866570fc"},"refKey":23},
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{"_key":"60c319887723bebd86657146","_id":"references/60c319887723bebd86657146","_rev":"_cfFlDsO---","tei":"\n\t\n\t\tPerformance and accuracy of four open-source tools for in silico serotyping of Salmonella spp. based on whole-genome short-read sequencing data\n\t\t\n\t\t\tLUelze\n\t\t\n\t\t\n\t\t\tMBorowiak\n\t\t\n\t\t\n\t\t\tCDeneke\n\t\t\n\t\t\n\t\t\tISzabo\n\t\t\n\t\t\n\t\t\tJFischer\n\t\t\n\t\t\n\t\t\tSHTausch\n\t\t\n\t\t\n\t\t\tBMalorny\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c319887723bebd86657145"},"refKey":6},
{"_key":"60c319887723bebd86657147","_id":"references/60c319887723bebd86657147","_rev":"_cfFlDse---","tei":"\n\t\n\t\tSeqSero2: rapid and improved Salmonella serotype determination using whole genome sequencing data\n\t\t\n\t\t\tShaokangZhang\n\t\t\n\t\t\n\t\t\tHendrikCDen-Bakker\n\t\t\n\t\t\n\t\t\tShaotingLi\n\t\t\n\t\t\n\t\t\tJessicaChen\n\t\t\n\t\t\n\t\t\tBlakeADinsmore\n\t\t\n\t\t\n\t\t\tCharlotteLane\n\t\t\n\t\t\n\t\t\tACLauer\n\t\t\n\t\t\n\t\t\tPatriciaIFields\n\t\t\n\t\t\n\t\t\tXiangyuDeng\n\t\t\n\t\t10.1128/aem.01746-19\n\t\t\n\t\n\t\n\t\tApplied and Environmental Microbiology\n\t\tAppl Environ Microbiol\n\t\t0099-2240\n\t\t1098-5336\n\t\t\n\t\t\t85\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c319887723bebd86657145"},"refKey":0},
{"_key":"60c319917723bebd86657152","_id":"references/60c319917723bebd86657152","_rev":"_cfFlDsy---","tei":"\n\t\n\t\tPLIP: fully automated protein–ligand interaction profiler\n\t\t\n\t\t\tSebastianSalentin\n\t\t\n\t\t\n\t\t\tSvenSchreiber\n\t\t\n\t\t\n\t\t\tVJoachimHaupt\n\t\t\n\t\t\n\t\t\tMelissaFAdasme\n\t\t\n\t\t\n\t\t\tMichaelSchroeder\n\t\t\n\t\t10.1093/nar/gkv315\n\t\t25873628\n\t\tPMC4489249\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c319917723bebd86657151"},"refKey":32},
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{"_key":"60c319ea7723bebd86657180","_id":"references/60c319ea7723bebd86657180","_rev":"_cfFlDty---","tei":"\n\t\n\t\tASReml User Guide, Release 2.0. VSN International Ltd\n\t\t\n\t\t\tARGilmour\n\t\t\n\t\t\n\t\t\tBJGogel\n\t\t\n\t\t\n\t\t\tBRCullis\n\t\t\n\t\t\n\t\t\tRThompson\n\t\t\n\t\t\n\t\t\t\n\t\t\tHemel Hempstead\n\t\t\n\t\n\n","document":{"$oid":"60c319ea7723bebd8665717e"},"refKey":17},
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{"_key":"60c31bd27723bebd8665732b","_id":"references/60c31bd27723bebd8665732b","_rev":"_cfFlD0O---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31bd27723bebd86657328"},"refKey":33},
{"_key":"60c31bd27723bebd8665732c","_id":"references/60c31bd27723bebd8665732c","_rev":"_cfFlD0a---","tei":"\n\t\n\t\tBioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31bd27723bebd86657328"},"refKey":34},
{"_key":"60c31bd27723bebd8665732d","_id":"references/60c31bd27723bebd8665732d","_rev":"_cfFlD0m---","tei":"\n\t\n\t\tQUICK identification and SPR validation of signal transducers and activators of transcription 3 (Stat3) interacting proteins\n\t\t\n\t\t\tPengZheng\n\t\t\n\t\t\n\t\t\tQiuZhong\n\t\t\n\t\t\n\t\t\tQianXiong\n\t\t\n\t\t\n\t\t\tMingkunYang\n\t\t\n\t\t\n\t\t\tJiaZhang\n\t\t\n\t\t\n\t\t\tChongyangLi\n\t\t\n\t\t\n\t\t\tLi-JunBi\n\t\t\n\t\t\n\t\t\tFengGe\n\t\t\n\t\t10.1016/j.jprot.2011.10.020\n\t\t22075167\n\t\n\t\n\t\tJournal of Proteomics\n\t\tJournal of Proteomics\n\t\t1874-3919\n\t\t\n\t\t\t75\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c31bd27723bebd86657328"},"refKey":16},
{"_key":"60c31be07723bebd86657348","_id":"references/60c31be07723bebd86657348","_rev":"_cfFlD0y---","tei":"\n\t\n\t\tMedCATTrainer: a biomedical free text annotation interface with active learning and research use case specific customisation\n\t\t\n\t\t\tTSearle\n\t\t\n\t\t\n\t\t\tZKraljevic\n\t\t\n\t\t\n\t\t\tRBendayan\n\t\t\n\t\t\n\t\t\tDBean\n\t\t\n\t\t\n\t\t\tRDobson\n\t\t\n\t\n\t\n\t\tProceedings of the 2019 Conference on Empirical Methods in Natural Language Processing and the 9th International Joint Conference on Natural Language Processing\n\t\t\t\tthe 2019 Conference on Empirical Methods in Natural Language Processing and the 9th International Joint Conference on Natural Language ProcessingStroudsburg, PA\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tSystem Demonstrations\n\n","document":{"$oid":"60c31be07723bebd86657347"},"refKey":17},
{"_key":"60c31be07723bebd86657349","_id":"references/60c31be07723bebd86657349","_rev":"_cfFlD1----","tei":"\n\t\n\t\tSemantic computational analysis of anticoagulation use in atrial fibrillation from real world data\n\t\t\n\t\t\tDMBean\n\t\t\n\t\t\n\t\t\tJTeo\n\t\t\n\t\t\n\t\t\tHWu\n\t\t\n\t\t\n\t\t\tROliveira\n\t\t\n\t\t\n\t\t\tRPatel\n\t\t\n\t\t\n\t\t\tRBendayan\n\t\t\n\t\t\n\t\t\tAMShah\n\t\t\n\t\t\n\t\t\tRjbDobson\n\t\t\n\t\t\n\t\t\tPAScott\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31be07723bebd86657347"},"refKey":15},
{"_key":"60c31c107723bebd86657374","_id":"references/60c31c107723bebd86657374","_rev":"_cfFlD1K---","tei":"\n\t\n\t\tfeatureCounts: an efficient general purpose program for assigning sequence reads to genomic features\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\t10.1093/bioinformatics/btt656\n\t\t24227677\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c31c107723bebd86657373"},"refKey":37},
{"_key":"60c31c107723bebd86657375","_id":"references/60c31c107723bebd86657375","_rev":"_cfFlD1S---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31c107723bebd86657373"},"refKey":35},
{"_key":"60c31c257723bebd86657387","_id":"references/60c31c257723bebd86657387","_rev":"_cfFlD1e---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)--a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJournal of biomedical informatics\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31c257723bebd86657386"},"refKey":11},
{"_key":"60c31c907723bebd866573e8","_id":"references/60c31c907723bebd866573e8","_rev":"_cfFlD1q---","tei":"\n\t\n\t\tFieldTrip: Open Source Software for Advanced Analysis of MEG, EEG, and Invasive Electrophysiological Data\n\t\t\n\t\t\tRobertOostenveld\n\t\t\t0000-0002-1974-1293\n\t\t\n\t\t\n\t\t\tPascalFries\n\t\t\n\t\t\n\t\t\tEricMaris\n\t\t\n\t\t\n\t\t\tJan-MathijsSchoffelen\n\t\t\n\t\t10.1155/2011/156869\n\t\t21253357\n\t\tPMC3021840\n\t\t\n\t\n\t\n\t\tComputational Intelligence and Neuroscience\n\t\tComputational Intelligence and Neuroscience\n\t\t1687-5265\n\t\t1687-5273\n\t\t\n\t\t\t2011\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c31c907723bebd866573e6"},"refKey":50},
{"_key":"60c31c907723bebd866573eb","_id":"references/60c31c907723bebd866573eb","_rev":"_cfFlD12---","tei":"\n\t\n\t\tRDP: detection of recombination amongst aligned sequences\n\t\t\n\t\t\tDMartin\n\t\t\n\t\t\n\t\t\tERybicki\n\t\t\n\t\t10.1093/bioinformatics/16.6.562\n\t\t10980155\n\t\t1460-2059\n\t\tark:/67375/HXZ-HFGKCW1P-T\n\t\t23BD6F406EB9238187A4D94959477721DBE8EFE2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c31c907723bebd866573e7"},"refKey":31},
{"_key":"60c31c907723bebd866573ed","_id":"references/60c31c907723bebd866573ed","_rev":"_cfFlD2C---","tei":"\n\t\n\t\tClustal W and clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31c907723bebd866573e7"},"refKey":29},
{"_key":"60c31c907723bebd866573ee","_id":"references/60c31c907723bebd866573ee","_rev":"_cfFlD2O---","tei":"\n\t\n\t\tDendroscope: an interactive viewer for large phylogenetic trees\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tDCRichter\n\t\t\n\t\t\n\t\t\tCRausch\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t8\n\t\t\t460\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31c907723bebd866573e7"},"refKey":26},
{"_key":"60c31c907723bebd866573ef","_id":"references/60c31c907723bebd866573ef","_rev":"_cfFlD2W---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31c907723bebd866573e7"},"refKey":41},
{"_key":"60c31c907723bebd866573f0","_id":"references/60c31c907723bebd866573f0","_rev":"_cfFlD2i---","tei":"\n\t\n\t\tGeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions\n\t\t\n\t\t\tJBesemer\n\t\t\n\t\t\n\t\t\tALomsadze\n\t\t\n\t\t\n\t\t\tMBorodovsky\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31c907723bebd866573e7"},"refKey":7},
{"_key":"60c31c907723bebd866573f1","_id":"references/60c31c907723bebd866573f1","_rev":"_cfFlD2u---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31c907723bebd866573e7"},"refKey":2},
{"_key":"60c31c907723bebd866573f2","_id":"references/60c31c907723bebd866573f2","_rev":"_cfFlD26---","tei":"\n\t\n\t\tOrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy\n\t\t\n\t\t\tDMEmms\n\t\t\n\t\t\n\t\t\tSKelly\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t16\n\t\t\t157\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31c907723bebd866573e7"},"refKey":16},
{"_key":"60c31c9d7723bebd86657407","_id":"references/60c31c9d7723bebd86657407","_rev":"_cfFlD3G---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c31c9d7723bebd86657406"},"refKey":29},
{"_key":"60c31ca87723bebd86657415","_id":"references/60c31ca87723bebd86657415","_rev":"_cfFlD3S---","tei":"\n\t\n\t\tFast Program for Clustering and Comparing Large Sets of Protein or Nucleotide Sequences\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1007/978-1-4899-7478-5_221\n\t\n\t\n\t\tEncyclopedia of Metagenomics\n\t\t\t\t\n\t\t\tSpringer US\n\t\t\t\n\t\t\t22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31ca87723bebd86657414"},"refKey":38},
{"_key":"60c31ca87723bebd86657416","_id":"references/60c31ca87723bebd86657416","_rev":"_cfFlD3e---","tei":"\n\t\n\t\tMultiple sequence alignment with the Clustal series of programs\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tHSugawara\n\t\t\n\t\t\n\t\t\tTKoike\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31ca87723bebd86657414"},"refKey":55},
{"_key":"60c31ca87723bebd86657417","_id":"references/60c31ca87723bebd86657417","_rev":"_cfFlD3m---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31ca87723bebd86657414"},"refKey":56},
{"_key":"60c31ca87723bebd86657418","_id":"references/60c31ca87723bebd86657418","_rev":"_cfFlD3y---","tei":"\n\t\n\t\tA basic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJMol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31ca87723bebd86657414"},"refKey":2},
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{"_key":"60c31d837723bebd866574b3","_id":"references/60c31d837723bebd866574b3","_rev":"_cfFlD4i---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31d837723bebd866574b2"},"refKey":23},
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{"_key":"60c31de67723bebd866574e9","_id":"references/60c31de67723bebd866574e9","_rev":"_cfFlD52---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31de67723bebd866574e6"},"refKey":1},
{"_key":"60c31e297723bebd86657511","_id":"references/60c31e297723bebd86657511","_rev":"_cfFlD6C---","tei":"\n\t\n\t\tHTSeq - A Python framework to work with high-throughput sequencing data\n\t\t\n\t\t\tSimonAnders\n\t\t\t0000-0003-4868-1805\n\t\t\n\t\t\n\t\t\tPaulTheodorPyl\n\t\t\t0000-0002-7651-883X\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\t0000-0002-0474-2218\n\t\t\n\t\t10.1101/002824\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c31e297723bebd86657510"},"refKey":0},
{"_key":"60c31e297723bebd86657512","_id":"references/60c31e297723bebd86657512","_rev":"_cfFlD6O---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMJohnson\n\t\t\n\t\t\n\t\t\tIZaretskaya\n\t\t\n\t\t\n\t\t\tYRaytselis\n\t\t\n\t\t\n\t\t\tYMerezhuk\n\t\t\n\t\t\n\t\t\tSMcginnis\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31e297723bebd86657510"},"refKey":5},
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{"_key":"60c31e557723bebd8665753c","_id":"references/60c31e557723bebd8665753c","_rev":"_cfFlD7S---","tei":"\n\t\n\t\tTOPALi: software for automatic identification of recombinant sequences within DNA multiple alignments\n\t\t\n\t\t\tIMilne\n\t\t\n\t\t\n\t\t\tFWright\n\t\t\n\t\t\n\t\t\tGRowe\n\t\t\n\t\t\n\t\t\tDFMarshall\n\t\t\n\t\t\n\t\t\tDHusmeier\n\t\t\n\t\t\n\t\t\tGMcguire\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31e557723bebd86657537"},"refKey":70},
{"_key":"60c31e557723bebd8665753d","_id":"references/60c31e557723bebd8665753d","_rev":"_cfFlD7e---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31e557723bebd86657537"},"refKey":60},
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{"_key":"60c31e607723bebd86657565","_id":"references/60c31e607723bebd86657565","_rev":"_cfFlD72---","tei":"\n\t\n\t\tThe R0 package: A toolbox to estimate reproduction numbers for epidemic outbreaks\n\t\t\n\t\t\tTObadia\n\t\t\n\t\t\n\t\t\tRHaneef\n\t\t\n\t\t\n\t\t\tP.-YBoëlle\n\t\t\n\t\n\t\n\t\tBMC Medical Informatics and Decision Making\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t147\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31e607723bebd86657564"},"refKey":11},
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{"_key":"60c31f927723bebd866576d8","_id":"references/60c31f927723bebd866576d8","_rev":"_cfFlEDq---","tei":"\n\t\n\t\tOpen language learning for information extraction\n\t\t\n\t\t\tMSchmitz\n\t\t\n\t\t\n\t\t\tRBart\n\t\t\n\t\t\n\t\t\tSSoderland\n\t\t\n\t\t\n\t\t\tOEtzioni\n\t\t\n\t\n\t\n\t\tProceedings of Conference on Empirical Methods in Natural Language Processing and Computational Natural Language Learning\n\t\t\t\tConference on Empirical Methods in Natural Language Processing and Computational Natural Language Learning\n\t\t\n\t\t\tEMNLP-CONLL\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31f927723bebd866576d6"},"refKey":14},
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{"_key":"60c31fa97723bebd866576f1","_id":"references/60c31fa97723bebd866576f1","_rev":"_cfFlEE----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRLinding\n\t\t\n\t\t\n\t\t\tRBRussell\n\t\t\n\t\t\n\t\t\tVNeduva\n\t\t\n\t\t\n\t\t\tTGibson\n\t\t\n\t\n\t\n\t\tJ. Nucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31fa97723bebd866576f0"},"refKey":20},
{"_key":"60c31ffe7723bebd86657737","_id":"references/60c31ffe7723bebd86657737","_rev":"_cfFlEEK---","tei":"\n\t\n\t\tThe InterPro database, an integrated documentation resource for protein families, domains and functional sites\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\t\n\t\t\tTKAttwood\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tMBiswas\n\t\t\n\t\t\n\t\t\tPBucher\n\t\t\n\t\t\n\t\t\tLCerutti\n\t\t\n\t\t\n\t\t\tFCorpet\n\t\t\n\t\t\n\t\t\tMDCroning\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tLFalquet\n\t\t\n\t\t\n\t\t\tWFleischmann\n\t\t\n\t\t\n\t\t\tJGouzy\n\t\t\n\t\t\n\t\t\tHHermjakob\n\t\t\n\t\t\n\t\t\tNHulo\n\t\t\n\t\t\n\t\t\tIJonassen\n\t\t\n\t\t\n\t\t\tDKahn\n\t\t\n\t\t\n\t\t\tAKanapin\n\t\t\n\t\t\n\t\t\tYKaravidopoulou\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tBMarx\n\t\t\n\t\t\n\t\t\tNJMulder\n\t\t\n\t\t\n\t\t\tTMOinn\n\t\t\n\t\t\n\t\t\tMPagni\n\t\t\n\t\t\n\t\t\tFServant\n\t\t\n\t\t\n\t\t\tCJSigrist\n\t\t\n\t\t\n\t\t\tEMZdobnov\n\t\t\n\t\t10.1093/nar/29.1.37\n\t\t11125043\n\t\tPMC29841\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c31ffe7723bebd86657736"},"refKey":0},
{"_key":"60c31ffe7723bebd86657738","_id":"references/60c31ffe7723bebd86657738","_rev":"_cfFlEEW---","tei":"\n\t\n\t\tThe Pfam protein families database\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tLCerruti\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tLEtwiller\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tSGriffiths-Jones\n\t\t\n\t\t\n\t\t\tKLHowe\n\t\t\n\t\t\n\t\t\tMMarshall\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31ffe7723bebd86657736"},"refKey":1},
{"_key":"60c31ffe7723bebd86657739","_id":"references/60c31ffe7723bebd86657739","_rev":"_cfFlEEi---","tei":"\n\t\n\t\tTMbase: a database of membrane spanning proteins segments\n\t\t\n\t\t\tKSHofmann\n\t\t\n\t\n\t\n\t\tBiol. Chem. Hoppe-Seyler\n\t\t\n\t\t\t374\n\t\t\t166\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31ffe7723bebd86657736"},"refKey":17},
{"_key":"60c31ffe7723bebd8665773a","_id":"references/60c31ffe7723bebd8665773a","_rev":"_cfFlEEu---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tGHeijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tProc. Int. Conf. Intell. Syst. Mol. Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c31ffe7723bebd86657736"},"refKey":38},
{"_key":"60c320067723bebd8665774a","_id":"references/60c320067723bebd8665774a","_rev":"_cfFlEE6---","tei":"\n\t\n\t\t[20] Processing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZbyszekOtwinowski\n\t\t\n\t\t\n\t\t\tWladekMinor\n\t\t\n\t\t10.1016/s0076-6879(97)76066-x\n\t\t27799103\n\t\t\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t276\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c320067723bebd86657749"},"refKey":86},
{"_key":"60c320067723bebd8665774b","_id":"references/60c320067723bebd8665774b","_rev":"_cfFlEFG---","tei":"\n\t\n\t\tUnraveling hot spots in binding interfaces: progress and challenges\n\t\t\n\t\t\tWarrenLDelano\n\t\t\n\t\t10.1016/s0959-440x(02)00283-x\n\t\t11839484\n\t\t\n\t\n\t\n\t\tCurrent Opinion in Structural Biology\n\t\tCurrent Opinion in Structural Biology\n\t\t0959-440X\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c320067723bebd86657749"},"refKey":22},
{"_key":"60c320067723bebd8665774c","_id":"references/60c320067723bebd8665774c","_rev":"_cfFlEFO---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c320067723bebd86657749"},"refKey":1},
{"_key":"60c3201f7723bebd86657760","_id":"references/60c3201f7723bebd86657760","_rev":"_cfFlEFa---","tei":"\n\t\n\t\tphytools: an R package for phylogenetic comparative biology (and other things)\n\t\t\n\t\t\tLJRevell\n\t\t\n\t\n\t\n\t\tMethods Ecol. Evol\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3201f7723bebd8665775f"},"refKey":43},
{"_key":"60c320387723bebd86657774","_id":"references/60c320387723bebd86657774","_rev":"_cfFlEFm---","tei":"\n\t\n\t\tProgram DYNAFIT for the Analysis of Enzyme Kinetic Data: Application to HIV Proteinase\n\t\t\n\t\t\tPKuzmic\n\t\t\n\t\t10.1006/abio.1996.0238\n\t\t8660575\n\t\tS0003-2697(96)90238-9\n\t\tark:/67375/6H6-N8MHC6G9-1\n\t\tB8FD9B89130634FBA9E3CFB815E10605B1554A1B\n\t\t\n\t\n\t\n\t\tAnalytical Biochemistry\n\t\tAnalytical Biochemistry\n\t\t0003-2697\n\t\t\n\t\t\t237\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c320387723bebd86657773"},"refKey":63},
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{"_key":"60c321327723bebd866578cf","_id":"references/60c321327723bebd866578cf","_rev":"_cfFlEMK---","tei":"\n\t\n\t\t3Drefine: an interactive web server for efficient protein structure refinement\n\t\t\n\t\t\tDebswapnaBhattacharya\n\t\t\n\t\t\n\t\t\tJacksonNowotny\n\t\t\n\t\t\n\t\t\tRenzhiCao\n\t\t\n\t\t\n\t\t\tJianlinCheng\n\t\t\n\t\t10.1093/nar/gkw336\n\t\t27131371\n\t\tPMC4987902\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c321327723bebd866578c6"},"refKey":4},
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{"_key":"60c321327723bebd866578d1","_id":"references/60c321327723bebd866578d1","_rev":"_cfFlEMi---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/s0021889892009944\n\t\tark:/67375/WNG-1V02WKNX-V\n\t\t7FF6EABFE5D6E9AB8536E310B9782B625E4CA368\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c321327723bebd866578c6"},"refKey":35},
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{"_key":"60c321327723bebd866578d3","_id":"references/60c321327723bebd866578d3","_rev":"_cfFlEM6---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c321327723bebd866578c6"},"refKey":7},
{"_key":"60c321327723bebd866578d4","_id":"references/60c321327723bebd866578d4","_rev":"_cfFlENG---","tei":"\n\t\n\t\tLigPlotþ: Multiple ligand-protein interaction diagrams for drug discovery\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMBSwindells\n\t\t\n\t\t\n\t\t\t\n\t\t\tACS Publications\n\t\t\n\t\n\n","document":{"$oid":"60c321327723bebd866578c6"},"refKey":36},
{"_key":"60c321327723bebd866578d5","_id":"references/60c321327723bebd866578d5","_rev":"_cfFlENS---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system\n\t\t\n\t\t\tWDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tDeLano Scientific\n\t\t\n\t\n\n","document":{"$oid":"60c321327723bebd866578c6"},"refKey":13},
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{"_key":"60c321797723bebd86657969","_id":"references/60c321797723bebd86657969","_rev":"_cfFlEOC---","tei":"\n\t\n\t\tNullSeq: A Tool for Generating Random Coding Sequences with Desired Amino Acid and GC Contents\n\t\t\n\t\t\tSophiaSLiu\n\t\t\n\t\t\n\t\t\tAdamJHockenberry\n\t\t\n\t\t\n\t\t\tAndreaLancichinetti\n\t\t\n\t\t\n\t\t\tMichaelCJewett\n\t\t\n\t\t\n\t\t\tLuísA NAmaral\n\t\t\t0000-0002-3762-789X\n\t\t\n\t\t10.1371/journal.pcbi.1005184\n\t\t27835644\n\t\tPMC5106001\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t12\n\t\t\t11\n\t\t\te1005184\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c321797723bebd86657966"},"refKey":9},
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{"_key":"60c3220d7723bebd866579f6","_id":"references/60c3220d7723bebd866579f6","_rev":"_cfFlEPe---","tei":"\n\t\n\t\tVisualizing density maps with UCSF Chimera\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2006.06.010\n\t\t16963278\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3220d7723bebd866579f5"},"refKey":54},
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{"_key":"60c322637723bebd86657a40","_id":"references/60c322637723bebd86657a40","_rev":"_cfFlEQO---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c322637723bebd86657a3e"},"refKey":32},
{"_key":"60c322637723bebd86657a41","_id":"references/60c322637723bebd86657a41","_rev":"_cfFlEQa---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tL.-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c322637723bebd86657a3e"},"refKey":33},
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{"_key":"60c322717723bebd86657a50","_id":"references/60c322717723bebd86657a50","_rev":"_cfFlEQy---","tei":"\n\t\n\t\tFlexibility in formal workplace learning: Technology applications for engagement through the lens of Universal Design for Learning\n\t\t\n\t\t\tSLGronseth\n\t\t\n\t\t\n\t\t\tHMHutchins\n\t\t\n\t\n\t\n\t\tTechTrends\n\t\t\n\t\t\t64\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c322717723bebd86657a4e"},"refKey":35},
{"_key":"60c322717723bebd86657a51","_id":"references/60c322717723bebd86657a51","_rev":"_cfFlER----","tei":"\n\t\n\t\tVideo-based discussion: Promoting presence through interactions in online higher education courses\n\t\t\n\t\t\tLMahmoudi\n\t\t\n\t\t\n\t\t\tSGronseth\n\t\t\n\t\tE. Ossiannilsson\n\t\t\n\t\t\t\n\t\t\tIGI Global\n\t\t\t\n\t\t\tHershey, PA\n\t\t\n\t\n\tUbiquitous inclusive learning in a digital era\n\n","document":{"$oid":"60c322717723bebd86657a4e"},"refKey":60},
{"_key":"60c322717723bebd86657a52","_id":"references/60c322717723bebd86657a52","_rev":"_cfFlERK---","tei":"\n\t\n\t\tTeachers flip over Flipgrid\n\t\t\n\t\t\tTVander Ark\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t83164\n\t\t\t1\n\t\t\n\t\n\n","document":{"$oid":"60c322717723bebd86657a4e"},"refKey":81},
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{"_key":"60c322d67723bebd86657a84","_id":"references/60c322d67723bebd86657a84","_rev":"_cfFlERi---","tei":"\n\t\n\t\tggplot2: elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York, NY\n\t\t\n\t\n\n","document":{"$oid":"60c322d67723bebd86657a83"},"refKey":48},
{"_key":"60c322d67723bebd86657a85","_id":"references/60c322d67723bebd86657a85","_rev":"_cfFlERu---","tei":"\n\t\n\t\tVSEARCH: a versatile open source tool for metagenomics\n\t\t\n\t\t\tTorbjørnRognes\n\t\t\n\t\t\n\t\t\tTomášFlouri\n\t\t\n\t\t\n\t\t\tBenNichols\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tFrédéricMahé\n\t\t\n\t\t10.7717/peerj.2584\n\t\t27781170\n\t\tPMC5075697\n\t\t\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t4\n\t\t\te2584\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c322d67723bebd86657a83"},"refKey":44},
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{"_key":"60c323047723bebd86657aae","_id":"references/60c323047723bebd86657aae","_rev":"_cfFlESG---","tei":"\n\t\n\t\tScansite 2.0: proteome-wide prediction of cell signaling interactions using short sequence motifs\n\t\t\n\t\t\tJCObenauer\n\t\t\n\t\t\n\t\t\tLCCantley\n\t\t\n\t\t\n\t\t\tMBYaffe\n\t\t\n\t\t10.1093/nar/gkg584\n\t\t12824383\n\t\tPMC168990\n\t\tark:/67375/HXZ-JSHP7W8T-N\n\t\t452D39C2FC93794BE320EC46AB0B6DA8B2A7EEF7\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c323047723bebd86657aac"},"refKey":39},
{"_key":"60c323047723bebd86657aaf","_id":"references/60c323047723bebd86657aaf","_rev":"_cfFlESS---","tei":"\n\t\n\t\tUsing the miraEST Assembler for Reliable and Automated mRNA Transcript Assembly and SNP Detection in Sequenced ESTs\n\t\t\n\t\t\tBChevreux\n\t\t\n\t\t\n\t\t\tTPfisterer\n\t\t\n\t\t\n\t\t\tBDrescher\n\t\t\n\t\t\n\t\t\tAJDriesel\n\t\t\n\t\t\n\t\t\tWE GMu ¨ller\n\t\t\n\t\t\n\t\t\tTWetter\n\t\t\n\t\t\n\t\t\tSSuhai\n\t\t\n\t\t10.1101/gr.1917404\n\t\t15140833\n\t\tPMC419793\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c323047723bebd86657aac"},"refKey":23},
{"_key":"60c323047723bebd86657ab0","_id":"references/60c323047723bebd86657ab0","_rev":"_cfFlESe---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t\n\t\t\tBioinform\n\t\t\n\t\t\n\t\t\t\n\t\t\t5\n\t\t\t113\n\t\t\n\t\n\n","document":{"$oid":"60c323047723bebd86657aac"},"refKey":29},
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{"_key":"60c323527723bebd86657af3","_id":"references/60c323527723bebd86657af3","_rev":"_cfFlETi---","tei":"\n\t\n\t\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c323527723bebd86657af2"},"refKey":20},
{"_key":"60c3239a7723bebd86657b46","_id":"references/60c3239a7723bebd86657b46","_rev":"_cfFlETu---","tei":"\n\t\n\t\tmclust 5: clustering, classification and density estimation using Gaussian finite mixture models. The R\n\t\t\n\t\t\tLScrucca\n\t\t\n\t\t\n\t\t\tMFop\n\t\t\n\t\t\n\t\t\tTBMurphy\n\t\t\n\t\t\n\t\t\tAERaftery\n\t\t\n\t\t10.32614/RJ-2016-021\n\t\t\n\t\n\t\n\t\tJournal\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3239a7723bebd86657b45"},"refKey":14},
{"_key":"60c3239a7723bebd86657b47","_id":"references/60c3239a7723bebd86657b47","_rev":"_cfFlET6---","tei":"\n\t\n\t\tA New R package for Mapping Global Data\n\t\t\n\t\t\tASouth\n\t\t\n\t\t\n\t\t\tRworldmap\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3239a7723bebd86657b45"},"refKey":16},
{"_key":"60c323be7723bebd86657b5c","_id":"references/60c323be7723bebd86657b5c","_rev":"_cfFlEUC---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c323be7723bebd86657b5b"},"refKey":42},
{"_key":"60c323fa7723bebd86657b75","_id":"references/60c323fa7723bebd86657b75","_rev":"_cfFlEUO---","tei":"\n\t\n\t\tThe ClusPro web server for protein–protein docking\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tKathrynAPorter\n\t\t\n\t\t\n\t\t\tDzmitryPadhorny\n\t\t\n\t\t\n\t\t\tChristineYueh\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t10.1038/nprot.2016.169\n\t\t28079879\n\t\tPMC5540229\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c323fa7723bebd86657b74"},"refKey":28},
{"_key":"60c323fa7723bebd86657b76","_id":"references/60c323fa7723bebd86657b76","_rev":"_cfFlEUa---","tei":"\n\t\n\t\tThe HADDOCK2.2 Web Server: User-Friendly Integrative Modeling of Biomolecular Complexes\n\t\t\n\t\t\tGC PVan Zundert\n\t\t\n\t\t\n\t\t\tJP G L MRodrigues\n\t\t\n\t\t\n\t\t\tMTrellet\n\t\t\n\t\t\n\t\t\tCSchmitz\n\t\t\n\t\t\n\t\t\tPLKastritis\n\t\t\n\t\t\n\t\t\tEKaraca\n\t\t\n\t\t\n\t\t\tAS JMelquiond\n\t\t\n\t\t\n\t\t\tMVan Dijk\n\t\t\n\t\t\n\t\t\tSJDe Vries\n\t\t\n\t\t\n\t\t\tAM J JBonvin\n\t\t\n\t\t10.1016/j.jmb.2015.09.014\n\t\t26410586\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t428\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c323fa7723bebd86657b74"},"refKey":49},
{"_key":"60c323fa7723bebd86657b77","_id":"references/60c323fa7723bebd86657b77","_rev":"_cfFlEUm---","tei":"\n\t\n\t\tPatchDock and SymmDock: servers for rigid and symmetric docking\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tYInbar\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tHJWolfson\n\t\t\n\t\t10.1093/nar/gki481\n\t\t15980490\n\t\tPMC1160241\n\t\tark:/67375/HXZ-5SHH9NN3-T\n\t\t69025555577394917D43758F4E26C6EAF09BA9A4\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c323fa7723bebd86657b74"},"refKey":39},
{"_key":"60c323fa7723bebd86657b78","_id":"references/60c323fa7723bebd86657b78","_rev":"_cfFlEUy---","tei":"\n\t\n\t\tZDOCK server: interactive docking prediction of protein-protein complexes and symmetric multimers\n\t\t\n\t\t\tBGPierce\n\t\t\n\t\t\n\t\t\tKWiehe\n\t\t\n\t\t\n\t\t\tHHwang\n\t\t\n\t\t\n\t\t\tB-HKim\n\t\t\n\t\t\n\t\t\tTVreven\n\t\t\n\t\t\n\t\t\tZWeng\n\t\t\n\t\t10.1093/bioinformatics/btu097\n\t\t24532726\n\t\tPMC4058926\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c323fa7723bebd86657b74"},"refKey":35},
{"_key":"60c323fa7723bebd86657b79","_id":"references/60c323fa7723bebd86657b79","_rev":"_cfFlEV----","tei":"\n\t\n\t\tThe FoldX web server: an online force field\n\t\t\n\t\t\tJSchymkowitz\n\t\t\n\t\t\n\t\t\tJBorg\n\t\t\n\t\t\n\t\t\tFStricher\n\t\t\n\t\t\n\t\t\tRNys\n\t\t\n\t\t\n\t\t\tFRousseau\n\t\t\n\t\t\n\t\t\tLSerrano\n\t\t\n\t\t10.1093/nar/gki387\n\t\t15980494\n\t\tPMC1160148\n\t\tark:/67375/HXZ-V6X7NMFL-H\n\t\tA51143A3E07B7E7A7C24EC25C3CEF7EAFEF10791\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c323fa7723bebd86657b74"},"refKey":41},
{"_key":"60c323fa7723bebd86657b7a","_id":"references/60c323fa7723bebd86657b7a","_rev":"_cfFlEVK---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system\n\t\t\n\t\t\tLSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVersion 1.5\n\n","document":{"$oid":"60c323fa7723bebd86657b74"},"refKey":40},
{"_key":"60c323fa7723bebd86657b7b","_id":"references/60c323fa7723bebd86657b7b","_rev":"_cfFlEVW---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\t\n\t\t\tJCHess\n\t\t\n\t\t\n\t\t\tBLindahl\n\t\t\n\t\t\n\t\t\tE\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c323fa7723bebd86657b74"},"refKey":1},
{"_key":"60c3241a7723bebd86657bc7","_id":"references/60c3241a7723bebd86657bc7","_rev":"_cfFlEVi---","tei":"\n\t\n\t\tBayesian Regression Models for Interval-censored Data in R\n\t\t\n\t\t\tCliffordAnderson-Bergman\n\t\t\n\t\t10.32614/rj-2017-050\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\tThe R Journal\n\t\t2073-4859\n\t\t\n\t\t\t9\n\t\t\t2\n\t\t\t487\n\t\t\t\n\t\t\tThe R Foundation\n\t\t\n\t\n\n","document":{"$oid":"60c3241a7723bebd86657bc6"},"refKey":15},
{"_key":"60c324207723bebd86657bd0","_id":"references/60c324207723bebd86657bd0","_rev":"_cfFlEVu---","tei":"\n\t\n\t\t\n\t\t\tNABaker\n\t\t\n\t\t\n\t\t\tDSept\n\t\t\n\t\t\n\t\t\tSJoseph\n\t\t\n\t\t\n\t\t\tMJHolst\n\t\t\n\t\t\n\t\t\tJAMccammon\n\t\t\n\t\tProc. Natl Acad. Sci. USA\n\t\t\t\tNatl Acad. Sci. USA\n\t\t\n\t\t\t\n\t\t\t98\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c324207723bebd86657bcf"},"refKey":2},
{"_key":"60c324207723bebd86657bd1","_id":"references/60c324207723bebd86657bd1","_rev":"_cfFlEV2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPVKonarev\n\t\t\n\t\t\n\t\t\tVVVolkov\n\t\t\n\t\t\n\t\t\tAVSokolova\n\t\t\n\t\t\n\t\t\tMH JKoch\n\t\t\n\t\t\n\t\t\tDISvergun\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c324207723bebd86657bcf"},"refKey":22},
{"_key":"60c324207723bebd86657bd2","_id":"references/60c324207723bebd86657bd2","_rev":"_cfFlEWC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c324207723bebd86657bcf"},"refKey":31},
{"_key":"60c324207723bebd86657bd3","_id":"references/60c324207723bebd86657bd3","_rev":"_cfFlEWO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c324207723bebd86657bcf"},"refKey":15},
{"_key":"60c324207723bebd86657bd4","_id":"references/60c324207723bebd86657bd4","_rev":"_cfFlEWa---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tXRobert\n\t\t\n\t\t\n\t\t\tPGouet\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c324207723bebd86657bcf"},"refKey":32},
{"_key":"60c324247723bebd86657be1","_id":"references/60c324247723bebd86657be1","_rev":"_cfFlEWm---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c324247723bebd86657be0"},"refKey":0},
{"_key":"60c324247723bebd86657be2","_id":"references/60c324247723bebd86657be2","_rev":"_cfFlEWy---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c324247723bebd86657be0"},"refKey":17},
{"_key":"60c3245e7723bebd86657bef","_id":"references/60c3245e7723bebd86657bef","_rev":"_cfFlEX----","tei":"\n\t\n\t\tStan: A Probabilistic Programming Language\n\t\t\n\t\t\tBobCarpenter\n\t\t\n\t\t\n\t\t\tAndrewGelman\n\t\t\n\t\t\n\t\t\tMatthewDHoffman\n\t\t\n\t\t\n\t\t\tDanielLee\n\t\t\n\t\t\n\t\t\tBenGoodrich\n\t\t\n\t\t\n\t\t\tMichaelBetancourt\n\t\t\n\t\t\n\t\t\tMarcusBrubaker\n\t\t\n\t\t\n\t\t\tJiqiangGuo\n\t\t\n\t\t\n\t\t\tPeterLi\n\t\t\n\t\t\n\t\t\tAllenRiddell\n\t\t\n\t\t10.18637/jss.v076.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t76\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c3245e7723bebd86657bee"},"refKey":11},
{"_key":"60c3245e7723bebd86657bf0","_id":"references/60c3245e7723bebd86657bf0","_rev":"_cfFlEXK---","tei":"\n\t\n\t\tIHME COVID-19 health service utilization forecasting team, Murray CJ. Forecasting COVID-19 impact on hospital bed-days, ICU-days, ventilator-days and deaths by US state in the next 4 months\n\t\t10.1101/2020.03.27.20043752\n\t\n\t\n\t\tmedRxiv\n\t\t\n\t\t\t2020\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3245e7723bebd86657bee"},"refKey":8},
{"_key":"60c3248a7723bebd86657c10","_id":"references/60c3248a7723bebd86657c10","_rev":"_cfFlEXW---","tei":"\n\t\n\t\tTunable online MUS/MSS enumeration\n\t\t\n\t\t\tJaroslavBendík\n\t\t\n\t\t\n\t\t\tNikolaBeneš\n\t\t\n\t\t\n\t\t\tIvanaČerná\n\t\t\n\t\t\n\t\t\tJiříBarnat\n\t\t\n\t\n\t\n\t\t:13. Schloss Dagstuhl -Leibniz-Zentrum fuer Informatik\n\t\t\t\t\n\t\t\t\n\t\t\t65\n\t\t\t\n\t\t\n\t\n\tFSTTCS\n\n","document":{"$oid":"60c3248a7723bebd86657c0f"},"refKey":6},
{"_key":"60c3248a7723bebd86657c11","_id":"references/60c3248a7723bebd86657c11","_rev":"_cfFlEXe---","tei":"\n\t\n\t\tFast, flexible MUS enumeration\n\t\t\n\t\t\tHMark\n\t\t\n\t\t\n\t\t\tAlessandroLiffiton\n\t\t\n\t\t\n\t\t\tAmmarPreviti\n\t\t\n\t\t\n\t\t\tJoãoMalik\n\t\t\n\t\t\n\t\t\tMarques-Silva\n\t\t\n\t\n\t\n\t\tConstraints\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3248a7723bebd86657c0f"},"refKey":21},
{"_key":"60c3248a7723bebd86657c12","_id":"references/60c3248a7723bebd86657c12","_rev":"_cfFlEXq---","tei":"\n\t\n\t\tUsing Minimal Correction Sets to More Efficiently Compute Minimal Unsatisfiable Sets\n\t\t\n\t\t\tFahiemBacchus\n\t\t\n\t\t\n\t\t\tGeorgeKatsirelos\n\t\t\n\t\t10.1007/978-3-319-21668-3_5\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t9207\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3248a7723bebd86657c0f"},"refKey":0},
{"_key":"60c3248a7723bebd86657c13","_id":"references/60c3248a7723bebd86657c13","_rev":"_cfFlEX2---","tei":"\n\t\n\t\tProject AMASS (Architecture-driven, Multi-concern and Seamless Assurance and Certification of Cyber-Physical Systems). https:// amass-ecsel\n\t\tAccessed: 2019-22-10\n\t\n\t\n\t\tAMASS project partners\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c3248a7723bebd86657c0f"},"refKey":25},
{"_key":"60c3248a7723bebd86657c14","_id":"references/60c3248a7723bebd86657c14","_rev":"_cfFlEYC---","tei":"\n\t\n\t\tRecursive Online Enumeration of All Minimal Unsatisfiable Subsets\n\t\t\n\t\t\tJaroslavBendík\n\t\t\n\t\t\n\t\t\tIvanaČerná\n\t\t\n\t\t\n\t\t\tNikolaBeneš\n\t\t\n\t\t10.1007/978-3-030-01090-4_9\n\t\t\n\t\n\t\n\t\tAutomated Technology for Verification and Analysis\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3248a7723bebd86657c0f"},"refKey":8},
{"_key":"60c3248a7723bebd86657c15","_id":"references/60c3248a7723bebd86657c15","_rev":"_cfFlEYO---","tei":"\n\t\n\t\tMUSer2: An efficient MUS extractor\n\t\t\n\t\t\tAntonBelov\n\t\t\n\t\t\n\t\t\tJoãoMarques-Silva\n\t\t\n\t\n\t\n\t\tJSAT\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3248a7723bebd86657c0f"},"refKey":4},
{"_key":"60c3248a7723bebd86657c16","_id":"references/60c3248a7723bebd86657c16","_rev":"_cfFlEYa---","tei":"\n\t\n\t\tCore-Guided Minimal Correction Set and Core Enumeration\n\t\t\n\t\t\tNinaNarodytska\n\t\t\n\t\t\n\t\t\tNikolajBjørner\n\t\t\n\t\t\n\t\t\tMaria-CristinaMarinescu\n\t\t\n\t\t\n\t\t\tMoolySagiv\n\t\t\n\t\t10.24963/ijcai.2018/188\n\t\t\n\t\n\t\n\t\tProceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence\n\t\t\t\tthe Twenty-Seventh International Joint Conference on Artificial Intelligence\n\t\t\n\t\t\tInternational Joint Conferences on Artificial Intelligence Organization\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3248a7723bebd86657c0f"},"refKey":24},
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{"_key":"60c325ea7723bebd86657d50","_id":"references/60c325ea7723bebd86657d50","_rev":"_cfFlEd2---","tei":"\n\t\n\t\tSMTCoq: a plug-in for integrating SMT solvers into Coq\n\t\t\n\t\t\tBEkici\n\t\t\n\t\n\t\n\t\tCAV 2017\n\t\t\t\t\n\t\t\tRMajumdar\n\t\t\tVKunčak\n\t\t\n\t\t\n\t\t\t10427\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c325ea7723bebd86657d4b"},"refKey":20},
{"_key":"60c325ea7723bebd86657d52","_id":"references/60c325ea7723bebd86657d52","_rev":"_cfFlEe----","tei":"\n\t\n\t\tFormal verification of an optimizing compiler\n\t\t\n\t\t\tXavierLeroy\n\t\t\n\t\t10.1109/memcod.2007.371254\n\t\n\t\n\t\t2007 5th IEEE/ACM International Conference on Formal Methods and Models for Codesign (MEMOCODE 2007)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t52\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c325ea7723bebd86657d4b"},"refKey":27},
{"_key":"60c325ea7723bebd86657d54","_id":"references/60c325ea7723bebd86657d54","_rev":"_cfFlEeK---","tei":"\n\t\n\t\tHammer for Coq: Automation for Dependent Type Theory\n\t\t\n\t\t\tŁukaszCzajka\n\t\t\n\t\t\n\t\t\tCezaryKaliszyk\n\t\t\t0000-0002-8273-6059\n\t\t\n\t\t10.1007/s10817-018-9458-4\n\t\t30069074\n\t\tPMC6044314\n\t\t\n\t\n\t\n\t\tJournal of Automated Reasoning\n\t\tJ Autom Reasoning\n\t\t0168-7433\n\t\t1573-0670\n\t\t\n\t\t\t61\n\t\t\t1-4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c325ea7723bebd86657d4b"},"refKey":13},
{"_key":"60c326147723bebd86657d74","_id":"references/60c326147723bebd86657d74","_rev":"_cfFlEeW---","tei":"\n\t\n\t\tDetermining cell type abundance and expression from bulk tissues with digital cytometry\n\t\t\n\t\t\tAaronMNewman\n\t\t\t0000-0002-1857-8172\n\t\t\n\t\t\n\t\t\tChloéBSteen\n\t\t\n\t\t\n\t\t\tChihLongLiu\n\t\t\n\t\t\n\t\t\tAndrewJGentles\n\t\t\t0000-0002-0941-9858\n\t\t\n\t\t\n\t\t\tAadelAChaudhuri\n\t\t\n\t\t\n\t\t\tFlorianScherer\n\t\t\n\t\t\n\t\t\tMichaelSKhodadoust\n\t\t\n\t\t\n\t\t\tMohammadSEsfahani\n\t\t\n\t\t\n\t\t\tBogdanALuca\n\t\t\n\t\t\n\t\t\tDavidSteiner\n\t\t\n\t\t\n\t\t\tMaximilianDiehn\n\t\t\t0000-0003-2032-0581\n\t\t\n\t\t\n\t\t\tAshAAlizadeh\n\t\t\t0000-0002-5153-5625\n\t\t\n\t\t10.1038/s41587-019-0114-2\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t37\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c326147723bebd86657d73"},"refKey":29},
{"_key":"60c326147723bebd86657d75","_id":"references/60c326147723bebd86657d75","_rev":"_cfFlEei---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c326147723bebd86657d73"},"refKey":84},
{"_key":"60c326147723bebd86657d76","_id":"references/60c326147723bebd86657d76","_rev":"_cfFlEeu---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c326147723bebd86657d73"},"refKey":86},
{"_key":"60c326147723bebd86657d77","_id":"references/60c326147723bebd86657d77","_rev":"_cfFlEe6---","tei":"\n\t\n\t\tImproved metagenomic analysis with Kraken 2\n\t\t\n\t\t\tDerrickEWood\n\t\t\t0000-0002-7429-1854\n\t\t\n\t\t\n\t\t\tJenniferLu\n\t\t\t0000-0001-9167-2002\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\t0000-0003-2437-1976\n\t\t\n\t\t10.1101/762302\n\t\t\n\t\n\t\n\t\tGenome biology\n\t\t\n\t\t\t20\n\t\t\t257\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c326147723bebd86657d73"},"refKey":87},
{"_key":"60c326147723bebd86657d78","_id":"references/60c326147723bebd86657d78","_rev":"_cfFlEfG---","tei":"\n\t\n\t\tMultiscale Embedded Gene Co-expression Network Analysis\n\t\t\n\t\t\tWMSong\n\t\t\n\t\t\n\t\t\tBZhang\n\t\t\n\t\n\t\n\t\tPLoS computational biology\n\t\t\n\t\t\t11\n\t\t\te1004574\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c326147723bebd86657d73"},"refKey":32},
{"_key":"60c326147723bebd86657d79","_id":"references/60c326147723bebd86657d79","_rev":"_cfFlEfS---","tei":"\n\t\n\t\txCell: Digitally portraying the tissue cellular heterogeneity landscape\n\t\t\n\t\t\tDvirAran\n\t\t\t0000-0001-6334-5039\n\t\t\n\t\t\n\t\t\tZichengHu\n\t\t\n\t\t\n\t\t\tAtulJButte\n\t\t\t0000-0002-7433-2740\n\t\t\n\t\t10.1101/114165\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t18\n\t\t\t220\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c326147723bebd86657d73"},"refKey":30},
{"_key":"60c326477723bebd86657da3","_id":"references/60c326477723bebd86657da3","_rev":"_cfFlEfa---","tei":"\n\t\n\t\tCounterfactual analysis in R: a vignette\n\t\t\n\t\t\tMingliChen\n\t\t\n\t\t\n\t\t\tBlaiseMelly\n\t\t\n\t\t\n\t\t\tIvanFernandez-Val\n\t\t\n\t\t\n\t\t\tVictorChernozhukov\n\t\t\n\t\t10.1920/wp.cem.2017.6417\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe IFS\n\t\t\n\t\n\tcited 19 May 2020\n\n","document":{"$oid":"60c326477723bebd86657da2"},"refKey":24},
{"_key":"60c326b27723bebd86657df5","_id":"references/60c326b27723bebd86657df5","_rev":"_cfFlEfm---","tei":"\n\t\n\t\tResources: expanded annotation database and novel algorithms to better extract biology from large gene lists\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tQTan\n\t\t\n\t\t\n\t\t\tJKir\n\t\t\n\t\t\n\t\t\tDLiu\n\t\t\n\t\t\n\t\t\tDBryant\n\t\t\n\t\t17576678\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBioinformatics\n\n","document":{"$oid":"60c326b27723bebd86657df4"},"refKey":18},
{"_key":"60c326b27723bebd86657df6","_id":"references/60c326b27723bebd86657df6","_rev":"_cfFlEfy---","tei":"\n\t\n\t\tToppCluster: a multiple gene list feature analyzer for comparative enrichment clustering and network-based dissection of biological systems\n\t\t\n\t\t\tVKaimal\n\t\t\n\t\t\n\t\t\tEEBardes\n\t\t\n\t\t\n\t\t\tSCTabar\n\t\t\n\t\t\n\t\t\tAGJegga\n\t\t\n\t\t\n\t\t\tBJAronow\n\t\t\n\t\t10.1093/nar/gkq418\n\t\t20484371\n\t\tPMC2896202\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c326b27723bebd86657df4"},"refKey":19},
{"_key":"60c326b27723bebd86657df7","_id":"references/60c326b27723bebd86657df7","_rev":"_cfFlEg----","tei":"\n\t\n\t\tWGCNA: an R package for weighted correlation network analysis\n\t\t\n\t\t\tPeterLangfelder\n\t\t\n\t\t\n\t\t\tSteveHorvath\n\t\t\n\t\t10.1186/1471-2105-9-559\n\t\t19114008\n\t\tPMC2631488\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t559\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c326b27723bebd86657df4"},"refKey":17},
{"_key":"60c326b27723bebd86657df8","_id":"references/60c326b27723bebd86657df8","_rev":"_cfFlEgK---","tei":"\n\t\n\t\tToppGene Suite for gene list enrichment analysis and candidate gene prioritization\n\t\t\n\t\t\tJChen\n\t\t\n\t\t\n\t\t\tEEBardes\n\t\t\n\t\t\n\t\t\tBJAronow\n\t\t\n\t\t\n\t\t\tAGJegga\n\t\t\n\t\t10.1093/nar/gkp427\n\t\t19465376\n\t\tPMC2703978\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c326b27723bebd86657df4"},"refKey":44},
{"_key":"60c326b97723bebd86657e15","_id":"references/60c326b97723bebd86657e15","_rev":"_cfFlEgW---","tei":"\n\t\n\t\tpwr: Basic functions for power analysis (ver.1.2-2\n\t\t\n\t\t\tSChampely\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c326b97723bebd86657e14"},"refKey":16},
{"_key":"60c326ce7723bebd86657e20","_id":"references/60c326ce7723bebd86657e20","_rev":"_cfFlEgi---","tei":"\n\t\n\t\tCD271+ Bone Marrow Mesenchymal Stem Cells May Provide a Niche for Dormant Mycobacterium tuberculosis\n\t\t\n\t\t\tBDas\n\t\t\n\t\t\n\t\t\tSSKashino\n\t\t\n\t\t\n\t\t\tIPulu\n\t\t\n\t\t\n\t\t\tDKalita\n\t\t\n\t\t\n\t\t\tVSwami\n\t\t\n\t\t\n\t\t\tHYeger\n\t\t\n\t\t\n\t\t\tDWFelsher\n\t\t\n\t\t\n\t\t\tACampos-Neto\n\t\t\n\t\t10.1126/scitranslmed.3004912\n\t\t23363977\n\t\tPMC3616630\n\t\t\n\t\n\t\n\t\tScience Translational Medicine\n\t\tScience Translational Medicine\n\t\t1946-6234\n\t\t1946-6242\n\t\t\n\t\t\t5\n\t\t\t170\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c326ce7723bebd86657e1f"},"refKey":22},
{"_key":"60c326ef7723bebd86657e35","_id":"references/60c326ef7723bebd86657e35","_rev":"_cfFlEgu---","tei":"\n\t\n\t\tGrupo InfoStat; FCA. Universidad Nacional de Córdoba\n\t\t\n\t\t\tJADi Rienzo\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCórdoba, Argentina\n\t\t\n\t\n\tInfoStat'\n\n","document":{"$oid":"60c326ef7723bebd86657e34"},"refKey":15},
{"_key":"60c327407723bebd86657e6b","_id":"references/60c327407723bebd86657e6b","_rev":"_cfFlEg6---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. Vienna: R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c327407723bebd86657e6a"},"refKey":38},
{"_key":"60c327547723bebd86657e73","_id":"references/60c327547723bebd86657e73","_rev":"_cfFlEhC---","tei":"\n\t\n\t\tStata survival analysis reference manual\n\t\t\n\t\t\tLStatacorp\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c327547723bebd86657e72"},"refKey":19},
{"_key":"60c327627723bebd86657e79","_id":"references/60c327627723bebd86657e79","_rev":"_cfFlEhO---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c327627723bebd86657e78"},"refKey":35},
{"_key":"60c327627723bebd86657e7a","_id":"references/60c327627723bebd86657e7a","_rev":"_cfFlEha---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c327627723bebd86657e78"},"refKey":30},
{"_key":"60c327627723bebd86657e7b","_id":"references/60c327627723bebd86657e7b","_rev":"_cfFlEhm---","tei":"\n\t\n\t\tMEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices\n\t\t\n\t\t\tDinghuaLi\n\t\t\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tChi-ManLiu\n\t\t\n\t\t\n\t\t\tChi-MingLeung\n\t\t\n\t\t\n\t\t\tHing-FungTing\n\t\t\n\t\t\n\t\t\tKunihikoSadakane\n\t\t\n\t\t\n\t\t\tHiroshiYamashita\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t10.1016/j.ymeth.2016.02.020\n\t\t27012178\n\t\t\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c327627723bebd86657e78"},"refKey":25},
{"_key":"60c327627723bebd86657e7c","_id":"references/60c327627723bebd86657e7c","_rev":"_cfFlEhy---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c327627723bebd86657e78"},"refKey":33},
{"_key":"60c327627723bebd86657e7d","_id":"references/60c327627723bebd86657e7d","_rev":"_cfFlEi----","tei":"\n\t\n\t\tGapFiller: a de novo assembly approach to fill the gap within paired reads\n\t\t\n\t\t\tFrancescaNadalin\n\t\t\n\t\t\n\t\t\tFrancescoVezzi\n\t\t\n\t\t\n\t\t\tAlbertoPolicriti\n\t\t\n\t\t10.1186/1471-2105-13-s14-s8\n\t\t23095524\n\t\tPMC3439727\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\tS14\n\t\t\tS8\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c327627723bebd86657e78"},"refKey":27},
{"_key":"60c327627723bebd86657e7e","_id":"references/60c327627723bebd86657e7e","_rev":"_cfFlEiK---","tei":"\n\t\n\t\tScaffolding pre-assembled contigs using SSPACE\n\t\t\n\t\t\tMartenBoetzer\n\t\t\n\t\t\n\t\t\tChristiaanVHenkel\n\t\t\n\t\t\n\t\t\tHansJJansen\n\t\t\n\t\t\n\t\t\tDerekButler\n\t\t\n\t\t\n\t\t\tWalterPirovano\n\t\t\n\t\t10.1093/bioinformatics/btq683\n\t\t21149342\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c327627723bebd86657e78"},"refKey":28},
{"_key":"60c327627723bebd86657e7f","_id":"references/60c327627723bebd86657e7f","_rev":"_cfFlEiW---","tei":"\n\t\n\t\tABACAS: algorithm-based automatic contiguation of assembled sequences\n\t\t\n\t\t\tSAssefa\n\t\t\n\t\t\n\t\t\tTMKeane\n\t\t\n\t\t\n\t\t\tTDOtto\n\t\t\n\t\t\n\t\t\tCNewbold\n\t\t\n\t\t\n\t\t\tMBerriman\n\t\t\n\t\t10.1093/bioinformatics/btp347\n\t\t19497936\n\t\tPMC2712343\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c327627723bebd86657e78"},"refKey":29},
{"_key":"60c327627723bebd86657e80","_id":"references/60c327627723bebd86657e80","_rev":"_cfFlEii---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c327627723bebd86657e78"},"refKey":32},
{"_key":"60c327627723bebd86657e81","_id":"references/60c327627723bebd86657e81","_rev":"_cfFlEiq---","tei":"\n\t\n\t\tViral Metagenomics Revealed Sendai Virus and Coronavirus Infection of Malayan Pangolins (Manis javanica)\n\t\t\n\t\t\tPLiu\n\t\t\n\t\t\n\t\t\tWChen\n\t\t\n\t\t\n\t\t\tJPChen\n\t\t\n\t\n\t\n\t\tViruses\n\t\t\n\t\t\t11\n\t\t\t11\n\t\t\t979\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c327627723bebd86657e78"},"refKey":9},
{"_key":"60c327627723bebd86657e82","_id":"references/60c327627723bebd86657e82","_rev":"_cfFlEi2---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c327627723bebd86657e78"},"refKey":24},
{"_key":"60c3277a7723bebd86657e95","_id":"references/60c3277a7723bebd86657e95","_rev":"_cfFlEjG---","tei":"\n\t\n\t\tAnswer Set Solving in Practice\n\t\t\n\t\t\tMGebser\n\t\t\n\t\t\n\t\t\tRKaminski\n\t\t\n\t\t\n\t\t\tBKaufmann\n\t\t\n\t\t\n\t\t\tTSchaub\n\t\t\n\t\t\n\t\t\t\n\t\t\tMorgan Claypool Publishers\n\t\t\tSan Rafael\n\t\t\n\t\n\n","document":{"$oid":"60c3277a7723bebd86657e94"},"refKey":10},
{"_key":"60c3277a7723bebd86657e96","_id":"references/60c3277a7723bebd86657e96","_rev":"_cfFlEjS---","tei":"\n\t\n\t\tAnswer Set Programming\n\t\t\n\t\t\tVladimirLifschitz\n\t\t\n\t\t10.1007/978-3-030-24658-7\n\t\t\n\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\tBerlin\n\t\t\n\t\n\n","document":{"$oid":"60c3277a7723bebd86657e94"},"refKey":12},
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{"_key":"60c327e97723bebd86657ee0","_id":"references/60c327e97723bebd86657ee0","_rev":"_cfFlEjq---","tei":"\n\t\n\t\tG* Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFFaul\n\t\t\n\t\t\n\t\t\tEErdfelder\n\t\t\n\t\t\n\t\t\tAGLang\n\t\t\n\t\t\n\t\t\tABuchner\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c327e97723bebd86657edf"},"refKey":17},
{"_key":"60c3281f7723bebd86657eef","_id":"references/60c3281f7723bebd86657eef","_rev":"_cfFlEj2---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3281f7723bebd86657eee"},"refKey":18},
{"_key":"60c3281f7723bebd86657ef0","_id":"references/60c3281f7723bebd86657ef0","_rev":"_cfFlEkC---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3281f7723bebd86657eee"},"refKey":43},
{"_key":"60c3281f7723bebd86657ef1","_id":"references/60c3281f7723bebd86657ef1","_rev":"_cfFlEkO---","tei":"\n\t\n\t\tVisualizing density maps with UCSF Chimera\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2006.06.010\n\t\t16963278\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3281f7723bebd86657eee"},"refKey":42},
{"_key":"60c3281f7723bebd86657ef2","_id":"references/60c3281f7723bebd86657ef2","_rev":"_cfFlEka---","tei":"\n\t\n\t\tSide-chain-directed model and map validation for 3D Electron Cryomicroscopy\n\t\t\n\t\t\tBenjaminABarad\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\n\t\t10.1101/014738\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3281f7723bebd86657eee"},"refKey":5},
{"_key":"60c3281f7723bebd86657ef3","_id":"references/60c3281f7723bebd86657ef3","_rev":"_cfFlEkm---","tei":"\n\t\n\t\tAtomic-accuracy models from 4.5-A ˚cryo-electron microscopy data with density-guided iterative local refinement\n\t\t\n\t\t\tFDimaio\n\t\t\n\t\t\n\t\t\tYSong\n\t\t\n\t\t\n\t\t\tXLi\n\t\t\n\t\t\n\t\t\tMJBrunner\n\t\t\n\t\t\n\t\t\tCXu\n\t\t\n\t\t\n\t\t\tVConticello\n\t\t\n\t\t\n\t\t\tEEgelman\n\t\t\n\t\t\n\t\t\tTMarlovits\n\t\t\n\t\t\n\t\t\tYCheng\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3281f7723bebd86657eee"},"refKey":36},
{"_key":"60c3281f7723bebd86657ef4","_id":"references/60c3281f7723bebd86657ef4","_rev":"_cfFlEky---","tei":"\n\t\n\t\tAutomatically Fixing Errors in Glycoprotein Structures with Rosetta\n\t\t\n\t\t\tBrandonFrenz\n\t\t\n\t\t\n\t\t\tSebastianRämisch\n\t\t\n\t\t\n\t\t\tAndrewJBorst\n\t\t\n\t\t\n\t\t\tAlexandraCWalls\n\t\t\n\t\t\n\t\t\tJaredAdolf-Bryfogle\n\t\t\n\t\t\n\t\t\tWilliamRSchief\n\t\t\n\t\t\n\t\t\tDavidVeesler\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\t0000-0002-7524-8938\n\t\t\n\t\t10.1016/j.str.2018.09.006\n\t\t30344107\n\t\t\n\t\n\t\n\t\tStructure\n\t\tStructure\n\t\t0969-2126\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tStructure\n\n","document":{"$oid":"60c3281f7723bebd86657eee"},"refKey":39},
{"_key":"60c3281f7723bebd86657ef5","_id":"references/60c3281f7723bebd86657ef5","_rev":"_cfFlEl----","tei":"\n\t\n\t\tAutomated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\t0000-0001-5025-9596\n\t\t\n\t\t\n\t\t\tYifanSong\n\t\t\n\t\t\n\t\t\tBenjaminABarad\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t10.1101/050286\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\te17219\n\t\t\n\t\n\n","document":{"$oid":"60c3281f7723bebd86657eee"},"refKey":103},
{"_key":"60c3281f7723bebd86657ef6","_id":"references/60c3281f7723bebd86657ef6","_rev":"_cfFlElK---","tei":"\n\t\n\t\tPhaser crystallographic software\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3281f7723bebd86657eee"},"refKey":71},
{"_key":"60c3281f7723bebd86657ef7","_id":"references/60c3281f7723bebd86657ef7","_rev":"_cfFlElW---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tGBunko ´czi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tBHintze\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3281f7723bebd86657eee"},"refKey":65},
{"_key":"60c3284a7723bebd86657f0a","_id":"references/60c3284a7723bebd86657f0a","_rev":"_cfFlEli---","tei":"\n\t\n\t\tUCINET\n\t\t\n\t\t\tStephenPBorgatti\n\t\t\n\t\t\n\t\t\tMartinGEverett\n\t\t\n\t\t\n\t\t\tLintonCFreeman\n\t\t\n\t\t10.1007/978-1-4614-7163-9_316-1\n\t\n\t\n\t\tEncyclopedia of Social Network Analysis and Mining\n\t\t\t\tHarvard, MA, USA\n\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3284a7723bebd86657f09"},"refKey":23},
{"_key":"60c3284a7723bebd86657f0b","_id":"references/60c3284a7723bebd86657f0b","_rev":"_cfFlElu---","tei":"\n\t\n\t\te igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\n\t\n\t\tInterJournal\n\t\t\n\t\t\t1695\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3284a7723bebd86657f09"},"refKey":22},
{"_key":"60c328507723bebd86657f10","_id":"references/60c328507723bebd86657f10","_rev":"_cfFlEl6---","tei":"\n\t\n\t\tade4: analysis of environmental data: exploratory and Euclidean methods in environmental sciences\n\t\t\n\t\t\tJThioulouse\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 1.3 Á2\n\n","document":{"$oid":"60c328507723bebd86657f0f"},"refKey":64},
{"_key":"60c328507723bebd86657f11","_id":"references/60c328507723bebd86657f11","_rev":"_cfFlEmC---","tei":"\n\t\n\t\tFRAGSTATS: spatial pattern snalysis program for categorical maps\n\t\t\n\t\t\tKMcgarigal\n\t\t\n\t\t\n\t\n\t\n\t\tUniv. of Massachusetts Amherst\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c328507723bebd86657f0f"},"refKey":38},
{"_key":"60c328627723bebd86657f1d","_id":"references/60c328627723bebd86657f1d","_rev":"_cfFlEmO---","tei":"\n\t\n\t\tBluetrace: A privacy-preserving protocol for communitydriven contact tracing across borders\n\t\t\n\t\t\tJasonBay\n\t\t\n\t\t\n\t\t\tJoelKek\n\t\t\n\t\t\n\t\t\tAlvinTan\n\t\t\n\t\t\n\t\t\tShengChai\n\t\t\n\t\t\n\t\t\tLaiHau\n\t\t\n\t\t\n\t\t\tJaniceYongquan\n\t\t\n\t\t\n\t\t\tTang AnhTan\n\t\t\n\t\t\n\t\t\tQuy\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tGovernment Technology Agency-Singapore, Tech. Rep\n\t\t\n\t\n\n","document":{"$oid":"60c328627723bebd86657f1c"},"refKey":9},
{"_key":"60c328677723bebd86657f24","_id":"references/60c328677723bebd86657f24","_rev":"_cfFlEma---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c328677723bebd86657f23"},"refKey":30},
{"_key":"60c328677723bebd86657f25","_id":"references/60c328677723bebd86657f25","_rev":"_cfFlEmm---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c328677723bebd86657f23"},"refKey":27},
{"_key":"60c328797723bebd86657f39","_id":"references/60c328797723bebd86657f39","_rev":"_cfFlEmy---","tei":"\n\t\n\t\tVerification of protein structures: Patterns of nonbonded atomic interactions\n\t\t\n\t\t\tChrisColovos\n\t\t\n\t\t\n\t\t\tToddOYeates\n\t\t\n\t\t10.1002/pro.5560020916\n\t\t8401235\n\t\tPMC2142462\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t2\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c328797723bebd86657f38"},"refKey":9},
{"_key":"60c328797723bebd86657f3a","_id":"references/60c328797723bebd86657f3a","_rev":"_cfFlEn----","tei":"\n\t\n\t\tGROMACS: Fast, flexible, and free\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tGerritGroenhof\n\t\t\n\t\t\n\t\t\tAlanEMark\n\t\t\n\t\t\n\t\t\tHermanJ CBerendsen\n\t\t\n\t\t10.1002/jcc.20291\n\t\t16211538\n\t\tark:/67375/WNG-FZWKDCST-G\n\t\t1B9A91E56BE3B9919FC3D0665CD10F2EB65C307A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c328797723bebd86657f38"},"refKey":46},
{"_key":"60c328797723bebd86657f3b","_id":"references/60c328797723bebd86657f3b","_rev":"_cfFlEnK---","tei":"\n\t\n\t\t20] VERIFY3D: Assessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\t\n\t\t\tRL€ Uthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\n\t\n\t\tMethods in enzymology\n\t\t\t\t\n\t\t\tAcademic Press\n\t\t\t\n\t\t\t277\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c328797723bebd86657f38"},"refKey":13},
{"_key":"60c328797723bebd86657f3c","_id":"references/60c328797723bebd86657f3c","_rev":"_cfFlEne---","tei":"\n\t\n\t\tPROCHECK: A program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c328797723bebd86657f38"},"refKey":31},
{"_key":"60c328797723bebd86657f3d","_id":"references/60c328797723bebd86657f3d","_rev":"_cfFlEnq---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c328797723bebd86657f38"},"refKey":45},
{"_key":"60c328797723bebd86657f3e","_id":"references/60c328797723bebd86657f3e","_rev":"_cfFlEn2---","tei":"\n\t\n\t\tGROMOS96 43a1 performance on the characterization of glycoprotein conformational ensembles through molecular dynamics simulations\n\t\t\n\t\t\tLaercioPol-Fachin\n\t\t\n\t\t\n\t\t\tClaudiaLemelleFernandes\n\t\t\n\t\t\n\t\t\tHugoVerli\n\t\t\n\t\t10.1016/j.carres.2008.12.025\n\t\t19185293\n\t\t\n\t\n\t\n\t\tCarbohydrate Research\n\t\tCarbohydrate Research\n\t\t0008-6215\n\t\t\n\t\t\t344\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c328797723bebd86657f38"},"refKey":38},
{"_key":"60c328797723bebd86657f3f","_id":"references/60c328797723bebd86657f3f","_rev":"_cfFlEoC---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system\n\t\t\n\t\t\tDWl\n\t\t\n\t\t\n\t\t\t\n\t\t\tDeLano Scientific\n\t\t\n\t\n\n","document":{"$oid":"60c328797723bebd86657f38"},"refKey":49},
{"_key":"60c3288b7723bebd86657f5c","_id":"references/60c3288b7723bebd86657f5c","_rev":"_cfFlEoS---","tei":"\n\t\n\t\tIntegrative genomics viewer\n\t\t\n\t\t\tJTRobinson\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3288b7723bebd86657f5b"},"refKey":35},
{"_key":"60c3288b7723bebd86657f5d","_id":"references/60c3288b7723bebd86657f5d","_rev":"_cfFlEoe---","tei":"\n\t\n\t\tIntegrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration\n\t\t\n\t\t\tHThorvaldsdóttir\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3288b7723bebd86657f5b"},"refKey":40},
{"_key":"60c328d47723bebd86657f77","_id":"references/60c328d47723bebd86657f77","_rev":"_cfFlEoq---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c328d47723bebd86657f76"},"refKey":0},
{"_key":"60c328d47723bebd86657f78","_id":"references/60c328d47723bebd86657f78","_rev":"_cfFlEo2---","tei":"\n\t\n\t\tMAFFT: multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c328d47723bebd86657f76"},"refKey":30},
{"_key":"60c328d47723bebd86657f79","_id":"references/60c328d47723bebd86657f79","_rev":"_cfFlEpC---","tei":"\n\t\n\t\tAnalysis of Phylogenetics and Evolution with R\n\t\t\n\t\t\tEmmanuelParadis\n\t\t\n\t\t\n\t\t\tJClaude\n\t\t\n\t\t\n\t\t\tKStrimmer\n\t\t\n\t\t10.1007/978-1-4614-1743-9\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tSpringer New York\n\t\t\n\t\n\n","document":{"$oid":"60c328d47723bebd86657f76"},"refKey":42},
{"_key":"60c329037723bebd86657fa2","_id":"references/60c329037723bebd86657fa2","_rev":"_cfFlEpO---","tei":"\n\t\n\t\tAutodock4 and AutoDockTools4: automated docking with selective receptor flexiblity\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tMEPique\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c329037723bebd86657fa1"},"refKey":69},
{"_key":"60c329037723bebd86657fa3","_id":"references/60c329037723bebd86657fa3","_rev":"_cfFlEpa---","tei":"\n\t\n\t\tBenchmarking fold detection by DaliLite v.5\n\t\t\n\t\t\tLiisaHolm\n\t\t\n\t\t\n\t\t\tAElofsson\n\t\t\n\t\t10.1093/bioinformatics/btz536\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c329037723bebd86657fa1"},"refKey":68},
{"_key":"60c329037723bebd86657fa4","_id":"references/60c329037723bebd86657fa4","_rev":"_cfFlEpm---","tei":"\n\t\n\t\tOpen babel: an open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\n\t\n\t\tJ Chem\n\t\t\n\t\t\t3\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c329037723bebd86657fa1"},"refKey":45},
{"_key":"60c329287723bebd86657fc7","_id":"references/60c329287723bebd86657fc7","_rev":"_cfFlEpy---","tei":"\n\t\n\t\tQuality of YouTube patient information on prostate cancer screening\n\t\t\n\t\t\tBibhusanBasnet\n\t\t\n\t\t\n\t\t\tSurajBhattarai\n\t\t\n\t\t\n\t\t\tAmitKhanal\n\t\t\n\t\t\n\t\t\tManishaUpadhyay\n\t\t\n\t\t\n\t\t\tAshmaBaruwal\n\t\t\n\t\t10.1080/08998280.2019.1594493\n\t\n\t\n\t\tBaylor University Medical Center Proceedings\n\t\tBaylor University Medical Center Proceedings\n\t\t0899-8280\n\t\t1525-3252\n\t\t\n\t\t\t32\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c329287723bebd86657fc6"},"refKey":15},
{"_key":"60c329287723bebd86657fc8","_id":"references/60c329287723bebd86657fc8","_rev":"_cfFlEq----","tei":"\n\t\n\t\tAre internet videos useful sources of information during global public health emergencies? A case study of YouTube videos during the 2015–16 Zika virus pandemic\n\t\t\n\t\t\tKaustubhBora\n\t\t\n\t\t\n\t\t\tDulmoniDas\n\t\t\n\t\t\n\t\t\tBhupenBarman\n\t\t\n\t\t\n\t\t\tProbodhBorah\n\t\t\n\t\t10.1080/20477724.2018.1507784\n\t\t30156974\n\t\n\t\n\t\tPathogens and Global Health\n\t\tPathogens and Global Health\n\t\t2047-7724\n\t\t2047-7732\n\t\t\n\t\t\t112\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c329287723bebd86657fc6"},"refKey":19},
{"_key":"60c329287723bebd86657fc9","_id":"references/60c329287723bebd86657fc9","_rev":"_cfFlEqK---","tei":"\n\t\n\t\tYouTube as source of information on 2019 novel coronavirus outbreak: a cross sectional study of English and Mandarin content\n\t\t\n\t\t\tPKhatri\n\t\t\n\t\t\n\t\t\tSRSingh\n\t\t\n\t\t\n\t\t\tNKBelani\n\t\t\n\t\t\n\t\t\tYLYeong\n\t\t\n\t\t\n\t\t\tRLohan\n\t\t\n\t\t\n\t\t\tYMLim\n\t\t\n\t\t\n\t\t\tWzyTeo\n\t\t\n\t\t10.1016/j.tmaid.2020.101636?utm_medium=email&utm_source=transaction\n\t\n\t\n\t\tTravel Med Infect Dis\n\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c329287723bebd86657fc6"},"refKey":20},
{"_key":"60c329287723bebd86657fca","_id":"references/60c329287723bebd86657fca","_rev":"_cfFlEqW---","tei":"\n\t\n\t\tYouTube As a Source of Information on the H1N1 Influenza Pandemic\n\t\t\n\t\t\tAmbarishPandey\n\t\t\n\t\t\n\t\t\tNiveditaPatni\n\t\t\n\t\t\n\t\t\tMansherSingh\n\t\t\n\t\t\n\t\t\tAkshaySood\n\t\t\n\t\t\n\t\t\tGayatriSingh\n\t\t\n\t\t10.1016/j.amepre.2009.11.007\n\t\t20171526\n\t\n\t\n\t\tAmerican Journal of Preventive Medicine\n\t\tAmerican Journal of Preventive Medicine\n\t\t0749-3797\n\t\t\n\t\t\t38\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c329287723bebd86657fc6"},"refKey":21},
{"_key":"60c3298c7723bebd86658038","_id":"references/60c3298c7723bebd86658038","_rev":"_cfFlEqi---","tei":"\n\t\n\t\tImproving the sensitivity of progressive multiple sequence alignment through sequence weighting, positionspecific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tWClustal\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3298c7723bebd86658037"},"refKey":26},
{"_key":"60c3298c7723bebd86658039","_id":"references/60c3298c7723bebd86658039","_rev":"_cfFlEqu---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis (MEGA) for macOS\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t31904846\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3298c7723bebd86658037"},"refKey":27},
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{"_key":"60c3298c7723bebd8665803b","_id":"references/60c3298c7723bebd8665803b","_rev":"_cfFlErG---","tei":"\n\t\n\t\tVerification of protein structures: patterns of nonbonded atomic interactions\n\t\t\n\t\t\tCColovos\n\t\t\n\t\t\n\t\t\tTOYeates\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3298c7723bebd86658037"},"refKey":35},
{"_key":"60c3298c7723bebd8665803c","_id":"references/60c3298c7723bebd8665803c","_rev":"_cfFlErS---","tei":"\n\t\n\t\tA method to identify protein sequences that fold into a known three-dimensional structure\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\t\n\t\t\tRLüthy\n\t\t\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\t\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t253\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3298c7723bebd86658037"},"refKey":36},
{"_key":"60c3298c7723bebd8665803d","_id":"references/60c3298c7723bebd8665803d","_rev":"_cfFlEre---","tei":"\n\t\n\t\tAssessment of protein models with threedimensional profiles\n\t\t\n\t\t\tRLüthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t356\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3298c7723bebd86658037"},"refKey":37},
{"_key":"60c329997723bebd8665805f","_id":"references/60c329997723bebd8665805f","_rev":"_cfFlErq---","tei":"\n\t\n\t\tSETOR: Hardware-lighted three-dimensional solid model representations of macromolecules\n\t\t\n\t\t\tStephenVEvans\n\t\t\n\t\t10.1016/0263-7855(93)87009-t\n\t\t8347566\n\t\t0263-7855(93)87009-T\n\t\tark:/67375/6H6-TRK2R24G-L\n\t\t393C1D83741F9C0C0F1D9C83580C0EFB43BE5E55\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t11\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c329997723bebd8665805e"},"refKey":65},
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{"_key":"60c3299e7723bebd86658077","_id":"references/60c3299e7723bebd86658077","_rev":"_cfFlEt----","tei":"\n\t\n\t\tG:Profiler: A web server for functional enrichment analysis and conversions of gene lists (2019 update)\n\t\t\n\t\t\tURaudvere\n\t\t\n\t\t\n\t\t\tLKolberg\n\t\t\n\t\t\n\t\t\tIKuzmin\n\t\t\n\t\t\n\t\t\tTArak\n\t\t\n\t\t\n\t\t\tPAdler\n\t\t\n\t\t\n\t\t\tHPeterson\n\t\t\n\t\t\n\t\t\tJVilo\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3299e7723bebd86658074"},"refKey":34},
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{"_key":"60c329d27723bebd866580c3","_id":"references/60c329d27723bebd866580c3","_rev":"_cfFlEtq---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for windows 95/98/NT. Nucleic Acids Symposium Series\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tInformation Retrieval Ltd\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c329d27723bebd866580c2"},"refKey":18},
{"_key":"60c329d27723bebd866580c4","_id":"references/60c329d27723bebd866580c4","_rev":"_cfFlEt2---","tei":"\n\t\n\t\tEnhancements and modifications of primer design program Primer3\n\t\t\n\t\t\tTKoressaar\n\t\t\n\t\t\n\t\t\tMRemm\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c329d27723bebd866580c2"},"refKey":31},
{"_key":"60c329d27723bebd866580c5","_id":"references/60c329d27723bebd866580c5","_rev":"_cfFlEuG---","tei":"\n\t\n\t\tPart IV: Health and Health Management on U.S. Feedlots With a Capacity of 1,000 or More Head. National Animal Health Monitoring System Beef Feedlot Study\n\t\t\n\t\t\tAUntergasser\n\t\t\n\t\t\n\t\t\tICutcutache\n\t\t\n\t\t\n\t\t\tTKoressaar\n\t\t\n\t\t\n\t\t\tJYe\n\t\t\n\t\t\n\t\t\tBCFaircloth\n\t\t\n\t\t\n\t\t\tMRemm\n\t\t\n\t\t\n\t\t\tSGRozen\n\t\t\n\t\te115. USDA-APHIS-VS\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\n\t\n\tPrimer3-new capabilities and interfaces\n\n","document":{"$oid":"60c329d27723bebd866580c2"},"refKey":54},
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{"_key":"60c329da7723bebd866580df","_id":"references/60c329da7723bebd866580df","_rev":"_cfFlEue---","tei":"\n\t\n\t\tEvaluation of 3D Printed Temporal Bone Models in Preparation for Middle Cranial Fossa Surgery\n\t\t\n\t\t\tMonikaEFreiser\n\t\t\n\t\t\n\t\t\tAnishGhodadra\n\t\t\n\t\t\n\t\t\tBarryEHirsch\n\t\t\n\t\t\n\t\t\tAndrewAMccall\n\t\t\n\t\t10.1097/mao.0000000000002073\n\t\t30624410\n\t\t\n\t\n\t\n\t\tOtology & Neurotology\n\t\tOtology & Neurotology\n\t\t1531-7129\n\t\t\n\t\t\t40\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOvid Technologies (Wolters Kluwer Health)\n\t\t\n\t\n\n","document":{"$oid":"60c329da7723bebd866580de"},"refKey":32},
{"_key":"60c329da7723bebd866580e0","_id":"references/60c329da7723bebd866580e0","_rev":"_cfFlEuu---","tei":"\n\t\n\t\t3D-printed model for hands-on training in dental traumatology\n\t\t\n\t\t\tMReymus\n\t\t\t0000-0001-9040-5623\n\t\t\n\t\t\n\t\t\tCFotiadou\n\t\t\n\t\t\n\t\t\tRHickel\n\t\t\n\t\t\n\t\t\tCDiegritz\n\t\t\n\t\t10.1111/iej.12947\n\t\t29729097\n\t\t\n\t\n\t\n\t\tInternational Endodontic Journal\n\t\tInt Endod J\n\t\t0143-2885\n\t\t\n\t\t\t51\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c329da7723bebd866580de"},"refKey":36},
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{"_key":"60c329da7723bebd866580e2","_id":"references/60c329da7723bebd866580e2","_rev":"_cfFlEvG---","tei":"\n\t\n\t\t3D printed models in mandibular reconstruction with bony free flaps\n\t\t\n\t\t\tBanaszewskiJacek\n\t\t\n\t\t\n\t\t\tPabiszczakMaciej\n\t\t\n\t\t\n\t\t\tPastusiakTomasz\n\t\t\n\t\t\n\t\t\tBuczkowskaAgata\n\t\t\n\t\t\n\t\t\tKuczkoWiesław\n\t\t\n\t\t\n\t\t\tWichniarekRadosław\n\t\t\n\t\t\n\t\t\tGórskiFilip\n\t\t\n\t\t10.1007/s10856-018-6029-5\n\t\t29396606\n\t\tPMC5797190\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Materials Science: Materials in Medicine\n\t\tJ Mater Sci: Mater Med\n\t\t0957-4530\n\t\t1573-4838\n\t\t\n\t\t\t29\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c329da7723bebd866580de"},"refKey":41},
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{"_key":"60c329da7723bebd866580e4","_id":"references/60c329da7723bebd866580e4","_rev":"_cfFlEve---","tei":"\n\t\n\t\tEvaluation and Validation of the Shape Accuracy of FDM Fabricated Medical Models\n\t\t\n\t\t\tIhabEKatatny\n\t\t\n\t\t\n\t\t\tSyedHMasood\n\t\t\n\t\t\n\t\t\tYosSMorsi\n\t\t\n\t\t10.4028/www.scientific.net/amr.83-86.275\n\t\t\n\t\n\t\n\t\tAdvanced Materials Research\n\t\tAMR\n\t\t1662-8985\n\t\t\n\t\t\t83-86\n\t\t\t\n\t\t\t\n\t\t\tTrans Tech Publications\n\t\t\n\t\n\n","document":{"$oid":"60c329da7723bebd866580de"},"refKey":81},
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{"_key":"60c329f27723bebd866580f9","_id":"references/60c329f27723bebd866580f9","_rev":"_cfFlEv2---","tei":"\n\t\n\t\tBioGRID: a general repository for interaction datasets\n\t\t\n\t\t\tCStark\n\t\t\n\t\t10.1093/nar/gkj109\n\t\t16381927\n\t\tPMC1347471\n\t\tark:/67375/HXZ-HQ4R93Z2-C\n\t\t610C140DA297A8E338E41B11BE8EFB4328F83AEC\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\t90001\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c329f27723bebd866580f7"},"refKey":52},
{"_key":"60c329f27723bebd866580fa","_id":"references/60c329f27723bebd866580fa","_rev":"_cfFlEwG---","tei":"\n\t\n\t\tThe MIntAct project—IntAct as a common curation platform for 11 molecular interaction databases\n\t\t\n\t\t\tSandraOrchard\n\t\t\n\t\t\n\t\t\tMaisAmmari\n\t\t\n\t\t\n\t\t\tBrunoAranda\n\t\t\n\t\t\n\t\t\tLionelBreuza\n\t\t\n\t\t\n\t\t\tLeonardoBriganti\n\t\t\n\t\t\n\t\t\tFionaBroackes-Carter\n\t\t\n\t\t\n\t\t\tNancyHCampbell\n\t\t\n\t\t\n\t\t\tGayatriChavali\n\t\t\n\t\t\n\t\t\tCarolChen\n\t\t\n\t\t\n\t\t\tNoemiDel-Toro\n\t\t\n\t\t\n\t\t\tMargaretDuesbury\n\t\t\n\t\t\n\t\t\tMarineDumousseau\n\t\t\n\t\t\n\t\t\tEugeniaGaleota\n\t\t\n\t\t\n\t\t\tUrsulaHinz\n\t\t\n\t\t\n\t\t\tMartaIannuccelli\n\t\t\n\t\t\n\t\t\tSruthiJagannathan\n\t\t\n\t\t\n\t\t\tRafaelJimenez\n\t\t\n\t\t\n\t\t\tJyotiKhadake\n\t\t\n\t\t\n\t\t\tAstridLagreid\n\t\t\n\t\t\n\t\t\tLuanaLicata\n\t\t\n\t\t\n\t\t\tRuthCLovering\n\t\t\n\t\t\n\t\t\tBirgitMeldal\n\t\t\n\t\t\n\t\t\tAnnaNMelidoni\n\t\t\n\t\t\n\t\t\tMilaMilagros\n\t\t\n\t\t\n\t\t\tDanielePeluso\n\t\t\n\t\t\n\t\t\tLiviaPerfetto\n\t\t\n\t\t\n\t\t\tPabloPorras\n\t\t\n\t\t\n\t\t\tArathiRaghunath\n\t\t\n\t\t\n\t\t\tSylvieRicard-Blum\n\t\t\n\t\t\n\t\t\tBerndRoechert\n\t\t\n\t\t\n\t\t\tAndreStutz\n\t\t\n\t\t\n\t\t\tMichaelTognolli\n\t\t\n\t\t\n\t\t\tKimVan Roey\n\t\t\n\t\t\n\t\t\tGianniCesareni\n\t\t\n\t\t\n\t\t\tHenningHermjakob\n\t\t\n\t\t10.1093/nar/gkt1115\n\t\t24234451\n\t\tPMC3965093\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl. Acids Res.\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c329f27723bebd866580f7"},"refKey":53},
{"_key":"60c32a047723bebd86658117","_id":"references/60c32a047723bebd86658117","_rev":"_cfFlEwO---","tei":"\n\t\n\t\tMicroRNA targets in drosophila\n\t\t\n\t\t\tAJEnright\n\t\t\n\t\t\n\t\t\tBJohn\n\t\t\n\t\t\n\t\t\tUGaul\n\t\t\n\t\t\n\t\t\tTTuschl\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\t\n\t\t\tDSMarks\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\tR1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c32a047723bebd86658116"},"refKey":31},
{"_key":"60c32a047723bebd86658118","_id":"references/60c32a047723bebd86658118","_rev":"_cfFlEwa---","tei":"\n\t\n\t\tHuman MicroRNA Targets\n\t\t\n\t\t\tBinoJohn\n\t\t\n\t\t\n\t\t\tAntonJEnright\n\t\t\n\t\t\n\t\t\tAlexeiAravin\n\t\t\n\t\t\n\t\t\tThomasTuschl\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t\n\t\t\tDeboraSMarks\n\t\t\n\t\t10.1371/journal.pbio.0020363\n\t\t15502875\n\t\tPMC521178\n\t\t\n\t\n\t\n\t\tPLoS Biology\n\t\tPLoS Biol\n\t\t1545-7885\n\t\t\n\t\t\t2\n\t\t\t11\n\t\t\te363\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c32a047723bebd86658116"},"refKey":32},
{"_key":"60c32a3a7723bebd86658146","_id":"references/60c32a3a7723bebd86658146","_rev":"_cfFlEwm---","tei":"\n\t\n\t\tReal-space refinement in Phenix for cryo-EM and crystallography\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tBillyKPoon\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tOlegVSobolev\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1101/249607\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c32a3a7723bebd86658145"},"refKey":43},
{"_key":"60c32a3a7723bebd86658147","_id":"references/60c32a3a7723bebd86658147","_rev":"_cfFlEwy---","tei":"\n\t\n\t\tCTFFIND4: Fast and accurate defocus estimation from electron micrographs\n\t\t\n\t\t\tAlexisRohou\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\n\t\t10.1101/020917\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t192\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c32a3a7723bebd86658145"},"refKey":38},
{"_key":"60c32a827723bebd86658185","_id":"references/60c32a827723bebd86658185","_rev":"_cfFlEx----","tei":"\n\t\n\t\tEnrichr: interactive and collaborative HTML5 gene list enrichment analysis tool\n\t\t\n\t\t\tEdwardYChen\n\t\t\n\t\t\n\t\t\tChristopherMTan\n\t\t\n\t\t\n\t\t\tYanKou\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tGabrielaMeirelles\n\t\t\n\t\t\n\t\t\tNeilRClark\n\t\t\n\t\t\n\t\t\tAviMa’ayan\n\t\t\n\t\t10.1186/1471-2105-14-128\n\t\t23586463\n\t\tPMC3637064\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t128\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c32a827723bebd86658184"},"refKey":3},
{"_key":"60c32a827723bebd86658186","_id":"references/60c32a827723bebd86658186","_rev":"_cfFlExK---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis\n\t\t\n\t\t\tMVKuleshov\n\t\t\n\t\t\n\t\t\tM RJones\n\t\t\n\t\t\n\t\t\tADRouillard\n\t\t\n\t\t\n\t\t\tNFFernandez\n\t\t\n\t\t\n\t\t\tQDuan\n\t\t\n\t\t\n\t\t\tZWang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c32a827723bebd86658184"},"refKey":17},
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{"_key":"60c32afd7723bebd86658212","_id":"references/60c32afd7723bebd86658212","_rev":"_cfFlExu---","tei":"\n\t\n\t\tPharmMapper server: a web server for potential drug target identification using pharmacophore mapping approach\n\t\t\n\t\t\tXiaofengLiu\n\t\t\n\t\t\n\t\t\tSishengOuyang\n\t\t\n\t\t\n\t\t\tBiaoYu\n\t\t\n\t\t\n\t\t\tYaboLiu\n\t\t\n\t\t\n\t\t\tKaiHuang\n\t\t\n\t\t\n\t\t\tJiayuGong\n\t\t\n\t\t\n\t\t\tSiyuanZheng\n\t\t\n\t\t\n\t\t\tZhihuaLi\n\t\t\n\t\t\n\t\t\tHonglinLi\n\t\t\n\t\t\n\t\t\tHualiangJiang\n\t\t\n\t\t10.1093/nar/gkq300\n\t\t20430828\n\t\tPMC2896160\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c32afd7723bebd86658211"},"refKey":16},
{"_key":"60c32afd7723bebd86658213","_id":"references/60c32afd7723bebd86658213","_rev":"_cfFlEx6---","tei":"\n\t\n\t\tCytoscape Web: an interactive web-based network browser\n\t\t\n\t\t\tChristianTLopes\n\t\t\n\t\t\n\t\t\tMaxFranz\n\t\t\n\t\t\n\t\t\tFarzanaKazi\n\t\t\n\t\t\n\t\t\tSylvaLDonaldson\n\t\t\n\t\t\n\t\t\tQuaidMorris\n\t\t\n\t\t\n\t\t\tGaryDBader\n\t\t\n\t\t10.1093/bioinformatics/btq430\n\t\t20656902\n\t\tPMC2935447\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c32afd7723bebd86658211"},"refKey":17},
{"_key":"60c32afd7723bebd86658214","_id":"references/60c32afd7723bebd86658214","_rev":"_cfFlEyC---","tei":"\n\t\n\t\tComputing topological parameters of biological networks\n\t\t\n\t\t\tYassenAssenov\n\t\t\n\t\t\n\t\t\tFidelRamírez\n\t\t\n\t\t\n\t\t\tSven-EricSchelhorn\n\t\t\n\t\t\n\t\t\tThomasLengauer\n\t\t\n\t\t\n\t\t\tMarioAlbrecht\n\t\t\n\t\t10.1093/bioinformatics/btm554\n\t\t18006545\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c32afd7723bebd86658211"},"refKey":0},
{"_key":"60c32b057723bebd86658224","_id":"references/60c32b057723bebd86658224","_rev":"_cfFlEyO---","tei":"\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\tTJ PHubbard\n\t\t\n\t\t\n\t\t\t\n\t\t\t35\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c32b057723bebd86658223"},"refKey":38},
{"_key":"60c32b057723bebd86658225","_id":"references/60c32b057723bebd86658225","_rev":"_cfFlEya---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c32b057723bebd86658223"},"refKey":45},
{"_key":"60c32b057723bebd86658226","_id":"references/60c32b057723bebd86658226","_rev":"_cfFlEym---","tei":"\n\t\n\t\tThe Subread aligner: fast, accurate and scalable read mapping by seed-and-vote\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t10\n\t\t\te108\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c32b057723bebd86658223"},"refKey":39},
{"_key":"60c32b057723bebd86658227","_id":"references/60c32b057723bebd86658227","_rev":"_cfFlEyy---","tei":"\n\t\n\t\tFastQC: a quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\n\t\n\t\tBabraham Bioinformatics\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c32b057723bebd86658223"},"refKey":34},
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{"_key":"60c32b057723bebd86658229","_id":"references/60c32b057723bebd86658229","_rev":"_cfFlEzK---","tei":"\n\t\n\t\tTopHat: discovering splice junctions with RNA-Seq\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tLPachter\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c32b057723bebd86658223"},"refKey":35},
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{"_key":"60c32b057723bebd86658242","_id":"references/60c32b057723bebd86658242","_rev":"_cfFlEze---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1.2r3pre, Schrödinger, LLC\n\t\t\n\t\n\n","document":{"$oid":"60c32b057723bebd86658241"},"refKey":81},
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{"_key":"60c32f0d7723bebd86658531","_id":"references/60c32f0d7723bebd86658531","_rev":"_cfFlE9i---","tei":"\n\t\n\t\tDecoding non-unique oligonucleotide hybridization experiments of targets related by a phylogenetic tree\n\t\t\n\t\t\tASchliep\n\t\t\n\t\t\n\t\t\tSRahmann\n\t\t\n\t\t10.1093/bioinformatics/btl254\n\t\t16873503\n\t\tark:/67375/HXZ-81D60Q3B-M\n\t\tC57BE9FE754927D234CD0D99B03B9D2D52F79D57\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c32f0d7723bebd86658527"},"refKey":50},
{"_key":"60c32f0d7723bebd86658532","_id":"references/60c32f0d7723bebd86658532","_rev":"_cfFlE9u---","tei":"\n\t\n\t\tModels of Somatic Hypermutation Targeting and Substitution Based on Synonymous Mutations from High-Throughput Immunoglobulin Sequencing Data\n\t\t\n\t\t\tGurYaari\n\t\t\n\t\t\n\t\t\tJasonAVander Heiden\n\t\t\n\t\t\n\t\t\tMohamedUduman\n\t\t\n\t\t\n\t\t\tDanielGadala-Maria\n\t\t\n\t\t\n\t\t\tNamitaGupta\n\t\t\n\t\t\n\t\t\tJoelN HStern\n\t\t\n\t\t\n\t\t\tKevinCO’connor\n\t\t\n\t\t\n\t\t\tDavidAHafler\n\t\t\n\t\t\n\t\t\tUriLaserson\n\t\t\n\t\t\n\t\t\tFrancoisVigneault\n\t\t\n\t\t\n\t\t\tStevenHKleinstein\n\t\t\n\t\t10.3389/fimmu.2013.00358\n\t\t24298272\n\t\tPMC3828525\n\t\t\n\t\n\t\n\t\tFrontiers in Immunology\n\t\tFront. Immunol.\n\t\t1664-3224\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c32f0d7723bebd86658527"},"refKey":49},
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{"_key":"60c32f837723bebd8665857c","_id":"references/60c32f837723bebd8665857c","_rev":"_cfFlF-O---","tei":"\n\t\n\t\tThe microRNA.org resource: targets and expression\n\t\t\n\t\t\tDBetel\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t36\n\t\t\tsuppl_1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c32f837723bebd8665857b"},"refKey":8},
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{"_key":"60c32f8b7723bebd8665858c","_id":"references/60c32f8b7723bebd8665858c","_rev":"_cfFlF_O---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows–Wheeler transform\n\t\t\n\t\t\tHengLi\n\t\t\n\t\t\n\t\t\tRichardDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp698\n\t\t20080505\n\t\tPMC2828108\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c32f8b7723bebd86658589"},"refKey":10},
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{"_key":"60c3323e7723bebd86658795","_id":"references/60c3323e7723bebd86658795","_rev":"_cfFlFIG---","tei":"\n\t\n\t\tUsing EMBL‐EBI Services via Web Interface and Programmatically via Web Services\n\t\t\n\t\t\tFábioMadeira\n\t\t\n\t\t\n\t\t\tNandanaMadhusoodanan\n\t\t\n\t\t\n\t\t\tJoonLee\n\t\t\n\t\t\n\t\t\tAdrianR NTivey\n\t\t\n\t\t\n\t\t\tRodrigoLopez\n\t\t\n\t\t10.1002/cpbi.74\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t1934-340X\n\t\t\n\t\t\t66\n\t\t\t1\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3323e7723bebd86658794"},"refKey":11},
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{"_key":"60c334ad7723bebd86658a31","_id":"references/60c334ad7723bebd86658a31","_rev":"_cfFlFPm---","tei":"\n\t\n\t\tThe naturalist in Australia, by W. Saville-Kent ...\n\t\t\n\t\t\tWilliamSavilleKent\n\t\t\n\t\t\n\t\t\tWilliamSavilleKent\n\t\t\n\t\t10.5962/bhl.title.18339\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tChapman & Hall, limited,\n\t\t\n\t\n\n","document":{"$oid":"60c334ad7723bebd86658a30"},"refKey":63},
{"_key":"60c334c27723bebd86658a47","_id":"references/60c334c27723bebd86658a47","_rev":"_cfFlFPy---","tei":"\n\t\n\t\tClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks\n\t\t\n\t\t\tGabrielaBindea\n\t\t\n\t\t\n\t\t\tBernhardMlecnik\n\t\t\n\t\t\n\t\t\tHubertHackl\n\t\t\n\t\t\n\t\t\tPornpimolCharoentong\n\t\t\n\t\t\n\t\t\tMarieTosolini\n\t\t\n\t\t\n\t\t\tAmosKirilovsky\n\t\t\n\t\t\n\t\t\tWolf-HermanFridman\n\t\t\n\t\t\n\t\t\tFranckPagès\n\t\t\n\t\t\n\t\t\tZlatkoTrajanoski\n\t\t\n\t\t\n\t\t\tJérômeGalon\n\t\t\n\t\t10.1093/bioinformatics/btp101\n\t\t19237447\n\t\tPMC2666812\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c334c27723bebd86658a46"},"refKey":43},
{"_key":"60c334c27723bebd86658a48","_id":"references/60c334c27723bebd86658a48","_rev":"_cfFlFP6---","tei":"\n\t\n\t\tGene ORGANizer: linking genes to the organs they affect\n\t\t\n\t\t\tDavidGokhman\n\t\t\n\t\t\n\t\t\tGuyKelman\n\t\t\n\t\t\n\t\t\tAdirAmartely\n\t\t\n\t\t\n\t\t\tGuyGershon\n\t\t\n\t\t\n\t\t\tShiraTsur\n\t\t\n\t\t\n\t\t\tLiranCarmel\n\t\t\n\t\t10.1093/nar/gkx302\n\t\t28444223\n\t\tPMC5570240\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c334c27723bebd86658a46"},"refKey":41},
{"_key":"60c334c27723bebd86658a49","_id":"references/60c334c27723bebd86658a49","_rev":"_cfFlFQG---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDaWeiHuang\n\t\t\n\t\t\n\t\t\tBradTSherman\n\t\t\n\t\t\n\t\t\tRichardALempicki\n\t\t\n\t\t10.1038/nprot.2008.211\n\t\t19131956\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c334c27723bebd86658a46"},"refKey":42},
{"_key":"60c334c27723bebd86658a4a","_id":"references/60c334c27723bebd86658a4a","_rev":"_cfFlFQS---","tei":"\n\t\n\t\tBiological Network Exploration with Cytoscape 3\n\t\t\n\t\t\tGangSu\n\t\t\n\t\t\n\t\t\tJohnHMorris\n\t\t\n\t\t\n\t\t\tBarryDemchak\n\t\t\n\t\t\n\t\t\tGaryDBader\n\t\t\n\t\t10.1002/0471250953.bi0813s47\n\t\t25199793\n\t\tPMC4174321\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t\n\t\t\t47\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\t8.13.1-8.13.24. [CrossRef\n\n","document":{"$oid":"60c334c27723bebd86658a46"},"refKey":40},
{"_key":"60c335037723bebd86658a7f","_id":"references/60c335037723bebd86658a7f","_rev":"_cfFlFQe---","tei":"\n\t\n\t\tSecond-generation PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tCCChang\n\t\t\n\t\n\t\n\t\tGigascience\n\t\t\n\t\t\t4\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335037723bebd86658a7e"},"refKey":25},
{"_key":"60c335037723bebd86658a80","_id":"references/60c335037723bebd86658a80","_rev":"_cfFlFQm---","tei":"\n\t\n\t\tEfficient Bayesian mixed-model analysis increases association power in large cohorts\n\t\t\n\t\t\tPo-RuLoh\n\t\t\n\t\t\n\t\t\tGeorgeTucker\n\t\t\n\t\t\n\t\t\tBrendanKBulik-Sullivan\n\t\t\n\t\t\n\t\t\tBjarniJVilhjálmsson\n\t\t\n\t\t\n\t\t\tHilaryKFinucane\n\t\t\n\t\t\n\t\t\tRanyMSalem\n\t\t\n\t\t\n\t\t\tDanielIChasman\n\t\t\n\t\t\n\t\t\tPaulMRidker\n\t\t\n\t\t\n\t\t\tBenjaminMNeale\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t\n\t\t\tNickPatterson\n\t\t\n\t\t\n\t\t\tAlkesLPrice\n\t\t\n\t\t10.1038/ng.3190\n\t\t25642633\n\t\tPMC4342297\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t47\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c335037723bebd86658a7e"},"refKey":29},
{"_key":"60c335037723bebd86658a81","_id":"references/60c335037723bebd86658a81","_rev":"_cfFlFQy---","tei":"\n\t\n\t\tMixed-model association for biobank-scale datasets\n\t\t\n\t\t\tPo-RuLoh\n\t\t\t0000-0001-5542-9064\n\t\t\n\t\t\n\t\t\tGlebKichaev\n\t\t\n\t\t\n\t\t\tStevenGazal\n\t\t\t0000-0003-4510-5730\n\t\t\n\t\t\n\t\t\tArminPSchoech\n\t\t\n\t\t\n\t\t\tAlkesLPrice\n\t\t\t0000-0002-2971-7975\n\t\t\n\t\t10.1038/s41588-018-0144-6\n\t\t29892013\n\t\tPMC6309610\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t50\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c335037723bebd86658a7e"},"refKey":30},
{"_key":"60c335247723bebd86658aa6","_id":"references/60c335247723bebd86658aa6","_rev":"_cfFlFR----","tei":"\n\t\n\t\tMetascape provides a biologist-oriented resource for the analysis of systems-level datasets\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tLPache\n\t\t\n\t\t\n\t\t\tMChang\n\t\t\n\t\t\n\t\t\tAHKhodabakhshi\n\t\t\n\t\t\n\t\t\tOTanaseichuk\n\t\t\n\t\t10.1038/s41467-019-09234-6\n\t\t\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t10\n\t\t\t1523\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335247723bebd86658aa5"},"refKey":12},
{"_key":"60c335247723bebd86658aa7","_id":"references/60c335247723bebd86658aa7","_rev":"_cfFlFRK---","tei":"\n\t\n\t\tAn automated method for finding molecular complexes in large protein interaction networks\n\t\t\n\t\t\tGDBader\n\t\t\n\t\t\n\t\t\tCwvHogue\n\t\t\n\t\t10.1186/1471-2105-4-2\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335247723bebd86658aa5"},"refKey":11},
{"_key":"60c3352c7723bebd86658ab4","_id":"references/60c3352c7723bebd86658ab4","_rev":"_cfFlFRS---","tei":"\n\t\n\t\t\n\t\t\tThibautJombart\n\t\t\n\t\t\n\t\t\tPierreNouvellet\n\t\t\n\t\t\n\t\t\tSangeetaBhatia\n\t\t\n\t\t\n\t\t\tZhianNKamvarprojections\n\t\t\n\t\t\n\t\tProject future case incidence\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3352c7723bebd86658ab3"},"refKey":9},
{"_key":"60c3356d7723bebd86658ae5","_id":"references/60c3356d7723bebd86658ae5","_rev":"_cfFlFRe---","tei":"\n\t\n\t\tPrediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence\n\t\t\n\t\t\tNBlom\n\t\t\n\t\t\n\t\t\tTSicheritz-Ponten\n\t\t\n\t\t\n\t\t\tRGupta\n\t\t\n\t\t\n\t\t\tSGammeltoft\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\n\t\n\t\tProteomics\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3356d7723bebd86658ae4"},"refKey":7},
{"_key":"60c3358c7723bebd86658af7","_id":"references/60c3358c7723bebd86658af7","_rev":"_cfFlFRq---","tei":"\n\t\n\t\tAVPpred: collection and prediction of highly effective antiviral peptides\n\t\t\n\t\t\tNishantThakur\n\t\t\n\t\t\n\t\t\tAbidQureshi\n\t\t\n\t\t\n\t\t\tManojKumar\n\t\t\n\t\t10.1093/nar/gks450\n\t\t22638580\n\t\tPMC3394244\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3358c7723bebd86658af6"},"refKey":49},
{"_key":"60c3358c7723bebd86658af8","_id":"references/60c3358c7723bebd86658af8","_rev":"_cfFlFR2---","tei":"\n\t\n\t\tMeta-iAVP: A sequence-based meta-predictor for improving the prediction of antiviral peptides using effective feature representation\n\t\t\n\t\t\tNSchaduangrat\n\t\t\n\t\t\n\t\t\tCNantasenamat\n\t\t\n\t\t\n\t\t\tVPrachayasittikul\n\t\t\n\t\t\n\t\t\tWShoombuatong\n\t\t\n\t\t10.3390/ijms20225743\n\t\n\t\n\t\tInt. J. Mol. Sci\n\t\t\n\t\t\t20\n\t\t\t5743\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3358c7723bebd86658af6"},"refKey":42},
{"_key":"60c3358c7723bebd86658af9","_id":"references/60c3358c7723bebd86658af9","_rev":"_cfFlFS----","tei":"\n\t\n\t\tPEP-FOLD3: fasterde novostructure prediction for linear peptides in solution and in complex\n\t\t\n\t\t\tAlexisLamiable\n\t\t\n\t\t\n\t\t\tPierreThévenet\n\t\t\n\t\t\n\t\t\tJulienRey\n\t\t\n\t\t\n\t\t\tMarekVavrusa\n\t\t\n\t\t\n\t\t\tPhilippeDerreumaux\n\t\t\n\t\t\n\t\t\tPierreTufféry\n\t\t\n\t\t10.1093/nar/gkw329\n\t\t27131374\n\t\tPMC4987898\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3358c7723bebd86658af6"},"refKey":21},
{"_key":"60c335947723bebd86658b16","_id":"references/60c335947723bebd86658b16","_rev":"_cfFlFSK---","tei":"\n\t\n\t\tImproved pairwise alignment of genomic DNA\n\t\t\n\t\t\tRSHarris\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tPennsylvania State University\n\t\t\n\t\n\tPh.D. thesis]: [State College (PA)\n\n","document":{"$oid":"60c335947723bebd86658b15"},"refKey":14},
{"_key":"60c335947723bebd86658b17","_id":"references/60c335947723bebd86658b17","_rev":"_cfFlFSW---","tei":"\n\t\n\t\tPerformance of genetic programming optimised Bowtie2 on genome comparison and analytic testing (GCAT) benchmarks\n\t\t\n\t\t\tWBLangdon\n\t\t\n\t\n\t\n\t\tBioData Min\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335947723bebd86658b15"},"refKey":21},
{"_key":"60c335947723bebd86658b18","_id":"references/60c335947723bebd86658b18","_rev":"_cfFlFSi---","tei":"\n\t\n\t\tClustal Omega, accurate alignment of very large numbers of sequences\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t1079\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335947723bebd86658b15"},"refKey":40},
{"_key":"60c335947723bebd86658b19","_id":"references/60c335947723bebd86658b19","_rev":"_cfFlFSq---","tei":"\n\t\n\t\tSweepFinder2: increased sensitivity, robustness and flexibility\n\t\t\n\t\t\tMDegiorgio\n\t\t\n\t\t\n\t\t\tCDHuber\n\t\t\n\t\t\n\t\t\tMJHubisz\n\t\t\n\t\t\n\t\t\tIHellmann\n\t\t\n\t\t\n\t\t\tRNielsen\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335947723bebd86658b15"},"refKey":6},
{"_key":"60c335947723bebd86658b1a","_id":"references/60c335947723bebd86658b1a","_rev":"_cfFlFS2---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tSLi H Genome Project Data Processing\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335947723bebd86658b15"},"refKey":24},
{"_key":"60c335947723bebd86658b1b","_id":"references/60c335947723bebd86658b1b","_rev":"_cfFlFTC---","tei":"\n\t\n\t\tThe genome analysis toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335947723bebd86658b15"},"refKey":27},
{"_key":"60c335947723bebd86658b1c","_id":"references/60c335947723bebd86658b1c","_rev":"_cfFlFTO---","tei":"\n\t\n\t\tA framework for variation discovery and genotyping using next-generation DNA sequencing data\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t43\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335947723bebd86658b15"},"refKey":7},
{"_key":"60c335947723bebd86658b1d","_id":"references/60c335947723bebd86658b1d","_rev":"_cfFlFTW---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004a\n\t\t\t5\n\t\t\t113\n\t\t\n\t\n\n","document":{"$oid":"60c335947723bebd86658b15"},"refKey":9},
{"_key":"60c335947723bebd86658b1e","_id":"references/60c335947723bebd86658b1e","_rev":"_cfFlFTi---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004b\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335947723bebd86658b15"},"refKey":10},
{"_key":"60c335fd7723bebd86658b5c","_id":"references/60c335fd7723bebd86658b5c","_rev":"_cfFlFTu---","tei":"\n\t\n\t\tNatural language processing with python\n\t\t\n\t\t\tSBird\n\t\t\n\t\t\n\t\t\tEKlein\n\t\t\n\t\t\n\t\t\tELoper\n\t\t\n\t\t\n\t\t\t\n\t\t\tSebastopol: O'Reilly Media Inc.\n\t\t\n\t\n\t1st ed\n\n","document":{"$oid":"60c335fd7723bebd86658b5b"},"refKey":13},
{"_key":"60c335fd7723bebd86658b64","_id":"references/60c335fd7723bebd86658b64","_rev":"_cfFlFT6---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positionspecific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c335fd7723bebd86658b63"},"refKey":29},
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{"_key":"60c338d67723bebd86658e79","_id":"references/60c338d67723bebd86658e79","_rev":"_cfFlFZu---","tei":"\n\t\n\t\tTissue-Specific Amino Acid Transporter Partners ACE2 and Collectrin Differentially Interact With Hartnup Mutations\n\t\t\n\t\t\tSimoneM RCamargo\n\t\t\n\t\t\n\t\t\tDustinSinger\n\t\t\n\t\t\n\t\t\tVictoriaMakrides\n\t\t\n\t\t\n\t\t\tKatjaHuggel\n\t\t\n\t\t\n\t\t\tKlaasMPos\n\t\t\n\t\t\n\t\t\tCarstenAWagner\n\t\t\n\t\t\n\t\t\tKeijiKuba\n\t\t\n\t\t\n\t\t\tUrsulaDanilczyk\n\t\t\n\t\t\n\t\t\tFlemmingSkovby\n\t\t\n\t\t\n\t\t\tRobertKleta\n\t\t\n\t\t\n\t\t\tJosefMPenninger\n\t\t\n\t\t\n\t\t\tFrançoisVerrey\n\t\t\n\t\t10.1053/j.gastro.2008.10.055\n\t\t19185582\n\t\n\t\n\t\tGastroenterology\n\t\tGastroenterology\n\t\t0016-5085\n\t\t\n\t\t\t136\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c338d67723bebd86658e74"},"refKey":37},
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{"_key":"60c338db7723bebd86658e93","_id":"references/60c338db7723bebd86658e93","_rev":"_cfFlFaa---","tei":"\n\t\n\t\tThe PANTHER database of protein families, subfamilies, functions and pathways\n\t\t\n\t\t\tHMi\n\t\t\n\t\t\n\t\t\tBLazareva-Ulitsky\n\t\t\n\t\t\n\t\t\tRLoo\n\t\t\n\t\t\n\t\t\tAKejariwal\n\t\t\n\t\t\n\t\t\tJVandergriff\n\t\t\n\t\t10.1093/nar/gki078\n\t\t15608197\n\t\tPMC540032\n\t\tark:/67375/HXZ-C7449JZ7-9\n\t\tD7F6CFD24DC4A0F21EB7FB0D54ED59A9B319AB25\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tDatabase issue\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c338db7723bebd86658e92"},"refKey":20},
{"_key":"60c338db7723bebd86658e94","_id":"references/60c338db7723bebd86658e94","_rev":"_cfFlFam---","tei":"\n\t\n\t\tSignificance analysis of microarrays applied to the ionizing radiation response\n\t\t\n\t\t\tVGTusher\n\t\t\n\t\t\n\t\t\tRTibshirani\n\t\t\n\t\t\n\t\t\tGChu\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t98\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c338db7723bebd86658e92"},"refKey":19},
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{"_key":"60c3394a7723bebd86658ec9","_id":"references/60c3394a7723bebd86658ec9","_rev":"_cfFlFbS---","tei":"\n\t\n\t\tPosterior Summarization in Bayesian Phylogenetics Using Tracer 1.7\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syy032\n\t\t29718447\n\t\tPMC6101584\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t67\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3394a7723bebd86658ec8"},"refKey":40},
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{"_key":"60c3394a7723bebd86658ecc","_id":"references/60c3394a7723bebd86658ecc","_rev":"_cfFlFby---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3394a7723bebd86658ec8"},"refKey":20},
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{"_key":"60c339927723bebd86658f03","_id":"references/60c339927723bebd86658f03","_rev":"_cfFlFd----","tei":"\n\t\n\t\tImproved prediction of protein side-chain conformations with SCWRL4\n\t\t\n\t\t\tGeorgiiGKrivov\n\t\t\n\t\t\n\t\t\tMaximVShapovalov\n\t\t\n\t\t\n\t\t\tRolandLDunbrack\n\t\t\n\t\t10.1002/prot.22488\n\t\t19603484\n\t\tPMC2885146\n\t\tark:/67375/WNG-ZZNNVM1M-0\n\t\t53D1A2FF47F0D7B011FC788746CF29AC621DADA4\n\t\t\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t77\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c339927723bebd86658f02"},"refKey":93},
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{"_key":"60c339ba7723bebd86658f4a","_id":"references/60c339ba7723bebd86658f4a","_rev":"_cfFlFeW---","tei":"\n\t\n\t\tA state space framework for automatic forecasting using exponential smoothing methods\n\t\t\n\t\t\tRHyndman\n\t\t\n\t\t\n\t\t\tABKoehler\n\t\t\n\t\t\n\t\t\tRDSnyder\n\t\t\n\t\t\n\t\t\tSGrose\n\t\t\n\t\n\t\n\t\tInternational Journal of Forecasting\n\t\t\n\t\t\t18\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c339ba7723bebd86658f47"},"refKey":22},
{"_key":"60c339d07723bebd86658f62","_id":"references/60c339d07723bebd86658f62","_rev":"_cfFlFei---","tei":"\n\t\n\t\tThe UCSC genome browser and associated tools\n\t\t\n\t\t\tRMKuhn\n\t\t\n\t\t\n\t\t\tDHaussler\n\t\t\n\t\t\n\t\t\tWJKent\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c339d07723bebd86658f61"},"refKey":22},
{"_key":"60c339db7723bebd86658f75","_id":"references/60c339db7723bebd86658f75","_rev":"_cfFlFeu---","tei":"\n\t\n\t\tCoDockPP: A Multistage Approach for Global and Site-Specific Protein–Protein Docking\n\t\t\n\t\t\tRenKong\n\t\t\t0000-0001-9010-1750\n\t\t\n\t\t\n\t\t\tFengWang\n\t\t\t0000-0002-0275-8267\n\t\t\n\t\t\n\t\t\tJianZhang\n\t\t\t0000-0002-6558-791X\n\t\t\n\t\t\n\t\t\tFengfeiWang\n\t\t\t0000-0003-3423-211X\n\t\t\n\t\t\n\t\t\tShanChang\n\t\t\t0000-0001-7169-9398\n\t\t\n\t\t10.1021/acs.jcim.9b00445\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t59\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c339db7723bebd86658f74"},"refKey":47},
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{"_key":"60c339e47723bebd86658fdd","_id":"references/60c339e47723bebd86658fdd","_rev":"_cfFlFga---","tei":"\n\t\n\t\tHigh resolution single particle refinement in EMAN2.1\n\t\t\n\t\t\tJamesMBell\n\t\t\n\t\t\n\t\t\tMuyuanChen\n\t\t\n\t\t\n\t\t\tPhilipRBaldwin\n\t\t\n\t\t\n\t\t\tStevenJLudtke\n\t\t\n\t\t10.1016/j.ymeth.2016.02.018\n\t\t26931650\n\t\tPMC4848122\n\t\t\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t100\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":43},
{"_key":"60c339e47723bebd86658fde","_id":"references/60c339e47723bebd86658fde","_rev":"_cfFlFgm---","tei":"\n\t\n\t\tCTFFIND4: Fast and accurate defocus estimation from electron micrographs\n\t\t\n\t\t\tAlexisRohou\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\n\t\t10.1101/020917\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t192\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":44},
{"_key":"60c339e47723bebd86658fdf","_id":"references/60c339e47723bebd86658fdf","_rev":"_cfFlFgy---","tei":"\n\t\n\t\tGctf: real-time CTF determination and correction\n\t\t\n\t\t\tKaiZhang\n\t\t\n\t\t10.1101/022376\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t193\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":45},
{"_key":"60c339e47723bebd86658fe0","_id":"references/60c339e47723bebd86658fe0","_rev":"_cfFlFg6---","tei":"\n\t\n\t\tACE: Automated CTF Estimation\n\t\t\n\t\t\tSatyaPMallick\n\t\t\n\t\t\n\t\t\tBridgetCarragher\n\t\t\n\t\t\n\t\t\tClintonSPotter\n\t\t\n\t\t\n\t\t\tDavidJKriegman\n\t\t\n\t\t10.1016/j.ultramic.2005.02.004\n\t\t15935913\n\t\t\n\t\n\t\n\t\tUltramicroscopy\n\t\tUltramicroscopy\n\t\t0304-3991\n\t\t\n\t\t\t104\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":46},
{"_key":"60c339e47723bebd86658fe1","_id":"references/60c339e47723bebd86658fe1","_rev":"_cfFlFhG---","tei":"\n\t\n\t\tTEMPy: a Python library for assessment of three-dimensional electron microscopy density fits\n\t\t\n\t\t\tIreneFarabella\n\t\t\n\t\t\n\t\t\tDavenVasishtan\n\t\t\n\t\t\n\t\t\tAgnelPraveenJoseph\n\t\t\n\t\t\n\t\t\tArunPrasadPandurangan\n\t\t\n\t\t\n\t\t\tHarpalSahota\n\t\t\n\t\t\n\t\t\tMayaTopf\n\t\t\n\t\t10.1107/s1600576715010092\n\t\t26306092\n\t\tPMC4520291\n\t\tark:/67375/WNG-MVMKMJT2-X\n\t\tB49AD61BA81660005D2FF7F02AAC613733A7736D\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t1600-5767\n\t\t\n\t\t\t48\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":100},
{"_key":"60c339e47723bebd86658fe2","_id":"references/60c339e47723bebd86658fe2","_rev":"_cfFlFhS---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system, Version 1.8 in 96. Brunger AT (1992) Free R value: a novel statistical quantity for assessing the accuracy of crystal structures\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t355\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":94},
{"_key":"60c339e47723bebd86658fe3","_id":"references/60c339e47723bebd86658fe3","_rev":"_cfFlFhi---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":84},
{"_key":"60c339e47723bebd86658fe4","_id":"references/60c339e47723bebd86658fe4","_rev":"_cfFlFhq---","tei":"\n\t\n\t\tSPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields\n\t\t\n\t\t\tJFrank\n\t\t\n\t\t\n\t\t\tMRadermacher\n\t\t\n\t\t\n\t\t\tPPenczek\n\t\t\n\t\t\n\t\t\tJZhu\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tMLadjadj\n\t\t\n\t\t\n\t\t\tALeith\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t116\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":62},
{"_key":"60c339e47723bebd86658fe5","_id":"references/60c339e47723bebd86658fe5","_rev":"_cfFlFh2---","tei":"\n\t\n\t\tScipion: a software framework toward integration, reproducibility and validation in 3D electron microscopy\n\t\t\n\t\t\tJMDe La Rosa-Trevin\n\t\t\n\t\t\n\t\t\tAQuintana\n\t\t\n\t\t\n\t\t\tDelCano\n\t\t\n\t\t\n\t\t\tLZaldivar\n\t\t\n\t\t\n\t\t\tAFoche\n\t\t\n\t\t\n\t\t\tIGutierrez\n\t\t\n\t\t\n\t\t\tJGomez-Blanco\n\t\t\n\t\t\n\t\t\tJBurguet-Castell\n\t\t\n\t\t\n\t\t\tJCuenca-Alba\n\t\t\n\t\t\n\t\t\tJAbrishami\n\t\t\n\t\t\n\t\t\tVVargas\n\t\t\n\t\t\n\t\t\tJOton\n\t\t\n\t\t\n\t\t\tJSharov\n\t\t\n\t\t\n\t\t\tGVilas\n\t\t\n\t\t\n\t\t\tJLNavas\n\t\t\n\t\t\n\t\t\tJConesa\n\t\t\n\t\t\n\t\t\tPKazemi\n\t\t\n\t\t\n\t\t\tMMarabini\n\t\t\n\t\t\n\t\t\tRSorzano\n\t\t\n\t\t\n\t\t\tCOCarazo\n\t\t\n\t\t\n\t\t\tJM\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t195\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":65},
{"_key":"60c339e47723bebd86658fe6","_id":"references/60c339e47723bebd86658fe6","_rev":"_cfFlFiC---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":27},
{"_key":"60c339e47723bebd86658fe7","_id":"references/60c339e47723bebd86658fe7","_rev":"_cfFlFiO---","tei":"\n\t\n\t\tTools for macromolecular model building and refinement into electron cryo-microscopy reconstructions\n\t\t\n\t\t\tAlanBrown\n\t\t\n\t\t\n\t\t\tFeiLong\n\t\t\n\t\t\n\t\t\tRobertANicholls\n\t\t\n\t\t\n\t\t\tJaanToots\n\t\t\n\t\t\n\t\t\tPaulEmsley\n\t\t\n\t\t\n\t\t\tGaribMurshudov\n\t\t\n\t\t10.1107/s1399004714021683\n\t\t25615868\n\t\tPMC4304694\n\t\tark:/67375/WNG-Z1CLF1RH-D\n\t\tA0483F7E5CAEB3C58340F9737E286D47A69AADAC\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Cryst D Biol Crystallogr\n\t\t1399-0047\n\t\t\n\t\t\t71\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":87},
{"_key":"60c339e47723bebd86658fe8","_id":"references/60c339e47723bebd86658fe8","_rev":"_cfFlFiW---","tei":"\n\t\n\t\tAutomated molecular microscopy: the new Leginon system\n\t\t\n\t\t\tCSuloway\n\t\t\n\t\t\n\t\t\tJPulokas\n\t\t\n\t\t\n\t\t\tDFellmann\n\t\t\n\t\t\n\t\t\tACheng\n\t\t\n\t\t\n\t\t\tFGuerra\n\t\t\n\t\t\n\t\t\tJQuispe\n\t\t\n\t\t\n\t\t\tSStagg\n\t\t\n\t\t\n\t\t\tCSPotter\n\t\t\n\t\t\n\t\t\tBCarragher\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t151\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":34},
{"_key":"60c339e47723bebd86658fe9","_id":"references/60c339e47723bebd86658fe9","_rev":"_cfFlFii---","tei":"\n\t\n\t\tProtein Structure Fitting and Refinement Guided by Cryo-EM Density\n\t\t\n\t\t\tMayaTopf\n\t\t\n\t\t\n\t\t\tKerenLasker\n\t\t\n\t\t\n\t\t\tBenWebb\n\t\t\n\t\t\n\t\t\tHaimWolfson\n\t\t\n\t\t\n\t\t\tWahChiu\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1016/j.str.2007.11.016\n\t\t18275820\n\t\tPMC2409374\n\t\t\n\t\n\t\n\t\tStructure\n\t\tStructure\n\t\t0969-2126\n\t\t\n\t\t\t16\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":90},
{"_key":"60c339e47723bebd86658fea","_id":"references/60c339e47723bebd86658fea","_rev":"_cfFlFiu---","tei":"\n\t\n\t\tRefinement of atomic models in high resolution EM reconstructions using Flex-EM and local assessment\n\t\t\n\t\t\tAgnelPraveenJoseph\n\t\t\n\t\t\n\t\t\tSonyMalhotra\n\t\t\n\t\t\n\t\t\tTomBurnley\n\t\t\n\t\t\n\t\t\tChrisWood\n\t\t\n\t\t\n\t\t\tDanielKClare\n\t\t\n\t\t\n\t\t\tMartynWinn\n\t\t\t0000-0003-0496-6796\n\t\t\n\t\t\n\t\t\tMayaTopf\n\t\t\t0000-0002-8185-1215\n\t\t\n\t\t10.1016/j.ymeth.2016.03.007\n\t\t26988127\n\t\tPMC4854230\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t100\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":91},
{"_key":"60c339e47723bebd86658feb","_id":"references/60c339e47723bebd86658feb","_rev":"_cfFlFi6---","tei":"\n\t\n\t\tAutomated electron microscope tomography using robust prediction of specimen movements\n\t\t\n\t\t\tDNMastronarde\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t152\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":35},
{"_key":"60c339e47723bebd86658fec","_id":"references/60c339e47723bebd86658fec","_rev":"_cfFlFjC---","tei":"\n\t\n\t\tCollaborative Computational Project for Electron cryo-Microscopy\n\t\t\n\t\t\tChrisWood\n\t\t\n\t\t\n\t\t\tTomBurnley\n\t\t\n\t\t\n\t\t\tArdanPatwardhan\n\t\t\n\t\t\n\t\t\tSjorsScheres\n\t\t\n\t\t\n\t\t\tMayaTopf\n\t\t\n\t\t\n\t\t\tAlanRoseman\n\t\t\n\t\t\n\t\t\tMartynWinn\n\t\t\n\t\t10.1107/s1399004714018070\n\t\t25615866\n\t\tPMC4304692\n\t\tark:/67375/WNG-P9FZ1W8D-M\n\t\t5B50C6072182BF73EDC3BE5D05663A695DDA470D\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Cryst D Biol Crystallogr\n\t\t1399-0047\n\t\t\n\t\t\t71\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":52},
{"_key":"60c339e47723bebd86658fed","_id":"references/60c339e47723bebd86658fed","_rev":"_cfFlFjO---","tei":"\n\t\n\t\tRecent developments in theCCP-EMsoftware suite\n\t\t\n\t\t\tTomBurnley\n\t\t\n\t\t\n\t\t\tColinMPalmer\n\t\t\t0000-0002-4883-1546\n\t\t\n\t\t\n\t\t\tMartynWinn\n\t\t\t0000-0003-0496-6796\n\t\t\n\t\t10.1107/s2059798317007859\n\t\t28580908\n\t\tPMC5458488\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Structural Biology\n\t\tActa Cryst Sect D Struct Biol\n\t\t2059-7983\n\t\t\n\t\t\t73\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":53},
{"_key":"60c339e47723bebd86658fee","_id":"references/60c339e47723bebd86658fee","_rev":"_cfFlFja---","tei":"\n\t\n\t\tLikelihood-based classification of cryo-EM images using FREALIGN\n\t\t\n\t\t\tDmitryLyumkis\n\t\t\n\t\t\n\t\t\tAxelFBrilot\n\t\t\n\t\t\n\t\t\tDouglasLTheobald\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\n\t\t10.1016/j.jsb.2013.07.005\n\t\t23872434\n\t\tPMC3824613\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t183\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":64},
{"_key":"60c339e47723bebd86658fef","_id":"references/60c339e47723bebd86658fef","_rev":"_cfFlFjm---","tei":"\n\t\n\t\tMolecular dynamics flexible fitting: A practical guide to combine cryo-electron microscopy and X-ray crystallography\n\t\t\n\t\t\tLeonardoGTrabuco\n\t\t\n\t\t\n\t\t\tElizabethVilla\n\t\t\n\t\t\n\t\t\tEduardSchreiner\n\t\t\n\t\t\n\t\t\tChristopherBHarrison\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/j.ymeth.2009.04.005\n\t\t19398010\n\t\tPMC2753685\n\t\t\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t49\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":92},
{"_key":"60c339e47723bebd86658ff0","_id":"references/60c339e47723bebd86658ff0","_rev":"_cfFlFju---","tei":"\n\t\n\t\tAsynchronous data acquisition and on-the-fly analysis of dose fractionated cryoEM images by UCSFImage\n\t\t\n\t\t\tXuemingLi\n\t\t\n\t\t\n\t\t\tShawnZheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t10.1016/j.jsb.2015.09.003\n\t\t26370395\n\t\tPMC4633327\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t192\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":36},
{"_key":"60c339e47723bebd86658ff1","_id":"references/60c339e47723bebd86658ff1","_rev":"_cfFlFj6---","tei":"\n\t\n\t\tA Bayesian Approach to Beam-Induced Motion Correction in Cryo-EM Single-Particle Analysis\n\t\t\n\t\t\tJasenkoZivanov\n\t\t\t0000-0001-8407-0759\n\t\t\n\t\t\n\t\t\tTakanoriNakane\n\t\t\t0000-0003-2697-2767\n\t\t\n\t\t\n\t\t\tSjorsH WScheres\n\t\t\t0000-0002-0462-6540\n\t\t\n\t\t10.1101/384537\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":63},
{"_key":"60c339e47723bebd86658ff2","_id":"references/60c339e47723bebd86658ff2","_rev":"_cfFlFkG---","tei":"\n\t\n\t\tAlignment of direct detection device micrographs using a robust Optical Flow approach\n\t\t\n\t\t\tVahidAbrishami\n\t\t\n\t\t\n\t\t\tJavierVargas\n\t\t\n\t\t\n\t\t\tXuemingLi\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tRobertoMarabini\n\t\t\n\t\t\n\t\t\tCarlosÓscar SánchezSorzano\n\t\t\n\t\t\n\t\t\tJoséMaríaCarazo\n\t\t\n\t\t10.1016/j.jsb.2015.02.001\n\t\t25681631\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t189\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":28},
{"_key":"60c339e47723bebd86658ff3","_id":"references/60c339e47723bebd86658ff3","_rev":"_cfFlFkS---","tei":"\n\t\n\t\tXmipp 3.0: An improved software suite for image processing in electron microscopy\n\t\t\n\t\t\tJMDe La Rosa-Trevín\n\t\t\n\t\t\n\t\t\tJOtón\n\t\t\n\t\t\n\t\t\tRMarabini\n\t\t\n\t\t\n\t\t\tAZaldívar\n\t\t\n\t\t\n\t\t\tJVargas\n\t\t\n\t\t\n\t\t\tJMCarazo\n\t\t\n\t\t\n\t\t\tCO SSorzano\n\t\t\n\t\t10.1016/j.jsb.2013.09.015\n\t\t24075951\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t184\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":29},
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{"_key":"60c339e47723bebd86658ff7","_id":"references/60c339e47723bebd86658ff7","_rev":"_cfFlFl----","tei":"\n\t\n\t\tQuantifying the local resolution of cryo-EM density maps\n\t\t\n\t\t\tAKucukelbir\n\t\t\n\t\t\n\t\t\tFJSigworth\n\t\t\n\t\t\n\t\t\tHDTagare\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c339e47723bebd86658fdc"},"refKey":80},
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{"_key":"60c33bfa7723bebd8665923b","_id":"references/60c33bfa7723bebd8665923b","_rev":"_cfFlFqO---","tei":"\n\t\n\t\tPhylogenetic Analysis Using Parsimony Version 4\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\t\n\t\t\tPaup\n\t\t\n\t\t\n\t\t\t\n\t\t\tSinauer Associates\n\t\t\tSunderland, Massachusetts\n\t\t\n\t\n\n","document":{"$oid":"60c33bfa7723bebd8665923a"},"refKey":38},
{"_key":"60c33bfa7723bebd8665923c","_id":"references/60c33bfa7723bebd8665923c","_rev":"_cfFlFqa---","tei":"\n\t\n\t\tLipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33bfa7723bebd8665923a"},"refKey":35},
{"_key":"60c33bfa7723bebd8665923d","_id":"references/60c33bfa7723bebd8665923d","_rev":"_cfFlFqi---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33bfa7723bebd8665923a"},"refKey":37},
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{"_key":"60c33c2a7723bebd86659279","_id":"references/60c33c2a7723bebd86659279","_rev":"_cfFlFry---","tei":"\n\t\n\t\tCalculating an optimal box size for ligand docking and virtual screening against experimental and predicted binding pockets\n\t\t\n\t\t\tWeiPFeinstein\n\t\t\n\t\t\n\t\t\tMichalBrylinski\n\t\t\n\t\t10.1186/s13321-015-0067-5\n\t\t26082804\n\t\tPMC4468813\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJ Cheminform\n\t\t1758-2946\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c33c2a7723bebd86659277"},"refKey":38},
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{"_key":"60c33c2a7723bebd86659280","_id":"references/60c33c2a7723bebd86659280","_rev":"_cfFlFtG---","tei":"\n\t\n\t\tProtein–ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tAmbrishRoy\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1093/bioinformatics/btt447\n\t\t23975762\n\t\tPMC3789548\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c33c2a7723bebd86659277"},"refKey":22},
{"_key":"60c33c2a7723bebd86659281","_id":"references/60c33c2a7723bebd86659281","_rev":"_cfFlFtS---","tei":"\n\t\n\t\tBSP-SLIM: A blind low-resolution ligand-protein docking approach using predicted protein structures\n\t\t\n\t\t\tHuiSunLee\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/prot.23165\n\t\t21971880\n\t\tPMC3240723\n\t\tark:/67375/WNG-S9ZXJ6MT-4\n\t\tC3F18C74A4D2A7787196F5C8D5DA9E83BE8FC951\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t80\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c33c2a7723bebd86659277"},"refKey":31},
{"_key":"60c33c2a7723bebd86659282","_id":"references/60c33c2a7723bebd86659282","_rev":"_cfFlFta---","tei":"\n\t\n\t\tSoftware news and update AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33c2a7723bebd86659277"},"refKey":32},
{"_key":"60c33c2a7723bebd86659283","_id":"references/60c33c2a7723bebd86659283","_rev":"_cfFlFtm---","tei":"\n\t\n\t\tOpen Babel: An Open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\t\n\t\t\tCMorley\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\n\t\n\t\tJ Cheminform\n\t\t\n\t\t\t3\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33c2a7723bebd86659277"},"refKey":46},
{"_key":"60c33c2a7723bebd86659284","_id":"references/60c33c2a7723bebd86659284","_rev":"_cfFlFty---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33c2a7723bebd86659277"},"refKey":4},
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{"_key":"60c33c527723bebd866592fc","_id":"references/60c33c527723bebd866592fc","_rev":"_cfFlFuq---","tei":"\n\t\n\t\tCo-training Embeddings of Knowledge Graphs and Entity Descriptions for Cross-lingual Entity Alignment\n\t\t\n\t\t\tMuhaoChen\n\t\t\n\t\t\n\t\t\tYingtaoTian\n\t\t\n\t\t\n\t\t\tKai-WeiChang\n\t\t\n\t\t\n\t\t\tStevenSkiena\n\t\t\n\t\t\n\t\t\tCarloZaniolo\n\t\t\n\t\t10.24963/ijcai.2018/556\n\t\t\n\t\n\t\n\t\tProceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence\n\t\t\t\tthe Twenty-Seventh International Joint Conference on Artificial Intelligence\n\t\t\n\t\t\tInternational Joint Conferences on Artificial Intelligence Organization\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33c527723bebd866592f9"},"refKey":6},
{"_key":"60c33c527723bebd866592fd","_id":"references/60c33c527723bebd866592fd","_rev":"_cfFlFu2---","tei":"\n\t\n\t\tDistributed representations of words and phrases and their compositionality\n\t\t\n\t\t\tTomasMikolov\n\t\t\n\t\t\n\t\t\tIlyaSutskever\n\t\t\n\t\t\n\t\t\tKaiChen\n\t\t\n\t\t\n\t\t\tGregSCorrado\n\t\t\n\t\t\n\t\t\tJeffDean\n\t\t\n\t\n\t\n\t\tAdvances in neural information processing systems\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33c527723bebd866592f9"},"refKey":22},
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{"_key":"60c33ca07723bebd866593b0","_id":"references/60c33ca07723bebd866593b0","_rev":"_cfFlFwC---","tei":"\n\t\n\t\tPractical regression test selection with dynamic file dependencies\n\t\t\n\t\t\tMilosGligoric\n\t\t\n\t\t\n\t\t\tLamyaaEloussi\n\t\t\n\t\t\n\t\t\tDarkoMarinov\n\t\t\n\t\t10.1145/2771783.2771784\n\t\n\t\n\t\tProceedings of the 2015 International Symposium on Software Testing and Analysis - ISSTA 2015\n\t\t\t\tthe 2015 International Symposium on Software Testing and Analysis - ISSTA 2015New York, NY, USA\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33ca07723bebd866593ab"},"refKey":30},
{"_key":"60c33ca07723bebd866593b1","_id":"references/60c33ca07723bebd866593b1","_rev":"_cfFlFwO---","tei":"\n\t\n\t\tA New Extraction for Coq\n\t\t\n\t\t\tPierreLetouzey\n\t\t\n\t\t10.1007/3-540-39185-1_12\n\t\tark:/67375/HCB-20NLRL04-L\n\t\tE64D06CEBD622F1518676B2D7650BF42D1468FDD\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tHGeuvers\n\t\t\tFWiedijk\n\t\t\n\t\tHeidelberg; Germany\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t2646\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33ca07723bebd866593ab"},"refKey":49},
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{"_key":"60c33cc97723bebd86659411","_id":"references/60c33cc97723bebd86659411","_rev":"_cfFlFwi---","tei":"\n\t\n\t\tA real-time radio transient pipeline for ARTS\n\t\t\n\t\t\tAlessioSclocco\n\t\t\n\t\t\n\t\t\tJoeriVan Leeuwen\n\t\t\n\t\t\n\t\t\tHenriEBal\n\t\t\n\t\t\n\t\t\tRobVVan Nieuwpoort\n\t\t\n\t\t10.1109/globalsip.2015.7418239\n\t\t\n\t\t\n\t\n\t\n\t\t2015 IEEE Global Conference on Signal and Information Processing (GlobalSIP)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33cc97723bebd86659410"},"refKey":24},
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{"_key":"60c33ec97723bebd866595be","_id":"references/60c33ec97723bebd866595be","_rev":"_cfFlF2K---","tei":"\n\t\n\t\tGeneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMeintjes\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33ec97723bebd866595bd"},"refKey":7},
{"_key":"60c33ec97723bebd866595bf","_id":"references/60c33ec97723bebd866595bf","_rev":"_cfFlF2W---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33ec97723bebd866595bd"},"refKey":8},
{"_key":"60c33ee47723bebd866595d4","_id":"references/60c33ee47723bebd866595d4","_rev":"_cfFlF2i---","tei":"\n\t\n\t\tBioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symposium Series\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33ee47723bebd866595d3"},"refKey":11},
{"_key":"60c33ee47723bebd866595d5","_id":"references/60c33ee47723bebd866595d5","_rev":"_cfFlF2u---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t10.1093/molbev/msm092\n\t\t17488738\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c33ee47723bebd866595d3"},"refKey":35},
{"_key":"60c33efe7723bebd866595e7","_id":"references/60c33efe7723bebd866595e7","_rev":"_cfFlF26---","tei":"\n\t\n\t\tElectric field simulations for transcranial brain stimulation using FEM: an efficient implementation and error analysis\n\t\t\n\t\t\tGBSaturnino\n\t\t\n\t\t\n\t\t\tKHMadsen\n\t\t\n\t\t\n\t\t\tAThielscher\n\t\t\n\t\n\t\n\t\tJournal of neural engineering\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33efe7723bebd866595e6"},"refKey":44},
{"_key":"60c33efe7723bebd866595e8","_id":"references/60c33efe7723bebd866595e8","_rev":"_cfFlF3C---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSimnibs\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33efe7723bebd866595e6"},"refKey":45},
{"_key":"60c33efe7723bebd866595e9","_id":"references/60c33efe7723bebd866595e9","_rev":"_cfFlF3O---","tei":"\n\t\n\t\tA novel approach to localize cortical TMS effects\n\t\t\n\t\t\tKonstantinWeise\n\t\t\t0000-0003-1283-2042\n\t\t\n\t\t\n\t\t\tOleNumssen\n\t\t\n\t\t\n\t\t\tAxelThielscher\n\t\t\n\t\t\n\t\t\tGesaHartwigsen\n\t\t\n\t\t\n\t\t\tThomasRKnösche\n\t\t\n\t\t10.1101/595603\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t209\n\t\t\t116486\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c33efe7723bebd866595e6"},"refKey":49},
{"_key":"60c33efe7723bebd866595ea","_id":"references/60c33efe7723bebd866595ea","_rev":"_cfFlF3a---","tei":"\n\t\n\t\tA pipeline for the simulation of transcranial direct current stimulation for realistic human head models using SCIRun/BioMesh3D\n\t\t\n\t\t\tMDannhauer\n\t\t\n\t\t\n\t\t\tDBrooks\n\t\t\n\t\t\n\t\t\tDTucker\n\t\t\n\t\t\n\t\t\tRMacleod\n\t\t\n\t\t10.1109/embc.2012.6347236\n\t\t23367171\n\t\tPMC3651514\n\t\t\n\t\n\t\n\t\t2012 Annual International Conference of the IEEE Engineering in Medicine and Biology Society\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33efe7723bebd866595e6"},"refKey":30},
{"_key":"60c33f0d7723bebd8665960b","_id":"references/60c33f0d7723bebd8665960b","_rev":"_cfFlF3m---","tei":"\n\t\n\t\tDeploying an interactive machine learning system in an evidence-based practice center\n\t\t\n\t\t\tBCWallace\n\t\t\n\t\t\n\t\t\tKSmall\n\t\t\n\t\t\n\t\t\tCEBrodley\n\t\t\n\t\t\n\t\t\tJLau\n\t\t\n\t\t\n\t\t\tTATrikalinos\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tPaper presentation\n\n","document":{"$oid":"60c33f0d7723bebd8665960a"},"refKey":57},
{"_key":"60c33f267723bebd8665962f","_id":"references/60c33f267723bebd8665962f","_rev":"_cfFlF3y---","tei":"\n\t\n\t\tLocally Operated Detachable End-effector Manipulator for Endoscopic Surgery\n\t\t\n\t\t\tToshikazuKawai\n\t\t\n\t\t\n\t\t\tJunHashida\n\t\t\n\t\t\n\t\t\tMyongyuShin\n\t\t\n\t\t\n\t\t\tYujiNishizawa\n\t\t\n\t\t\n\t\t\tTatsuoNakamura\n\t\t\n\t\t\n\t\t\tNaoyaMorita\n\t\t\n\t\t\n\t\t\tTomoyaMurotani\n\t\t\n\t\t\n\t\t\tShuichiMochizuki\n\t\t\n\t\t10.5759/jscas.14.5\n\t\t\n\t\n\t\n\t\tJournal of Japan Society of Computer Aided Surgery\n\t\tJJSCAS\n\t\t1344-9486\n\t\t1884-5770\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tThe Japan Society of Computer Aided Surgery\n\t\t\n\t\n\tin Japanese\n\n","document":{"$oid":"60c33f267723bebd8665962e"},"refKey":18},
{"_key":"60c33f6a7723bebd8665964f","_id":"references/60c33f6a7723bebd8665964f","_rev":"_cfFlF36---","tei":"\n\t\n\t\tStatsmodels: econometric and statistical modelling with Python\n\t\t\n\t\t\tSeabold\n\t\t\n\t\n\t\n\t\tProc. 9th Python in Science Conference\n\t\t\t\t\n\t\t\tSVan Der Walt\n\t\t\tMillman\n\t\t\n\t\t9th Python in Science Conference\n\t\t\n\t\t\t\n\t\t\t92\n\t\t\n\t\n\n","document":{"$oid":"60c33f6a7723bebd8665964e"},"refKey":53},
{"_key":"60c33f6a7723bebd86659650","_id":"references/60c33f6a7723bebd86659650","_rev":"_cfFlF4G---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\tR: a Language and Environment for Statistical Computing (R Foundation for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c33f6a7723bebd8665964e"},"refKey":54},
{"_key":"60c33fb67723bebd866596cc","_id":"references/60c33fb67723bebd866596cc","_rev":"_cfFlF4S---","tei":"\n\t\n\t\tAssessment of automatic ligand building inARP/wARP\n\t\t\n\t\t\tGuillaumeXEvrard\n\t\t\n\t\t\n\t\t\tGerritGLanger\n\t\t\n\t\t\n\t\t\tAnastassisPerrakis\n\t\t\n\t\t\n\t\t\tVictorSLamzin\n\t\t\n\t\t10.1107/s0907444906023389\n\t\t17164533\n\t\tPMC2483501\n\t\tark:/67375/WNG-0JM0JQ7D-X\n\t\t5BADE84CB66EC20CD1C4DE73CB2DACA4D120F78E\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t63\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c33fb67723bebd866596cb"},"refKey":46},
{"_key":"60c340127723bebd86659710","_id":"references/60c340127723bebd86659710","_rev":"_cfFlF4e---","tei":"\n\t\n\t\tMolProbity: more and better reference data for improved all-atom structure validation\n\t\t\n\t\t\tCJWilliams\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tLLVideau\n\t\t\n\t\t\n\t\t\tLNDeis\n\t\t\n\t\t\n\t\t\tVVerma\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tBJHintze\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c340127723bebd8665970f"},"refKey":73},
{"_key":"60c340127723bebd86659711","_id":"references/60c340127723bebd86659711","_rev":"_cfFlF4q---","tei":"\n\t\n\t\tThe Phenix software for automated determination of macromolecular structures\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tGrosseKunstleve\n\t\t\n\t\t\n\t\t\tRW\n\t\t\n\t\n\t\n\t\tMethods\n\t\t\n\t\t\t55\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c340127723bebd8665970f"},"refKey":2},
{"_key":"60c340127723bebd86659712","_id":"references/60c340127723bebd86659712","_rev":"_cfFlF4y---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c340127723bebd8665970f"},"refKey":32},
{"_key":"60c340127723bebd86659713","_id":"references/60c340127723bebd86659713","_rev":"_cfFlF5----","tei":"\n\t\n\t\tPhaser crystallographic software\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c340127723bebd8665970f"},"refKey":55},
{"_key":"60c340267723bebd8665972f","_id":"references/60c340267723bebd8665972f","_rev":"_cfFlF5K---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c340267723bebd8665972e"},"refKey":4},
{"_key":"60c340547723bebd8665976a","_id":"references/60c340547723bebd8665976a","_rev":"_cfFlF5W---","tei":"\n\t\n\t\tMEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t10.1093/molbev/msr121\n\t\t21546353\n\t\tPMC3203626\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t28\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c340547723bebd86659769"},"refKey":28},
{"_key":"60c3406a7723bebd8665977d","_id":"references/60c3406a7723bebd8665977d","_rev":"_cfFlF5e---","tei":"\n\t\n\t\tSqueezeNet: AlexNetlevel accuracy with 50x fewer parameters and< 0.5 MB model size\n\t\t\n\t\t\tFNIandola\n\t\t\n\t\t\n\t\t\tSHan\n\t\t\n\t\t\n\t\t\tMWMoskewicz\n\t\t\n\t\t\n\t\t\tKAshraf\n\t\t\n\t\t\n\t\t\tWJDally\n\t\t\n\t\t\n\t\t\tKKeutzer\n\t\t\n\t\tarXiv:1602.07360\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c3406a7723bebd8665977c"},"refKey":29},
{"_key":"60c340737723bebd86659787","_id":"references/60c340737723bebd86659787","_rev":"_cfFlF5q---","tei":"\n\t\n\t\tGeoSoCa: exploiting geographical, social and categorical correlations for point-of-interest recommendations\n\t\t\n\t\t\tJDZhang\n\t\t\n\t\t\n\t\t\tCYChow\n\t\t\n\t\n\t\n\t\tProceedings of the 38th International ACM SIGIR\n\t\t\t\tthe 38th International ACM SIGIR\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c340737723bebd86659786"},"refKey":25},
{"_key":"60c340bd7723bebd866597b0","_id":"references/60c340bd7723bebd866597b0","_rev":"_cfFlF52---","tei":"\n\t\n\t\tThe neighbor-joining method: a new method for reconstructing phylogenetic trees\n\t\t\n\t\t\tNSaitou\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c340bd7723bebd866597af"},"refKey":41},
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{"_key":"60c347b67723bebd86659cf3","_id":"references/60c347b67723bebd86659cf3","_rev":"_cfFlGHe---","tei":"\n\t\n\t\tFast Program for Clustering and Comparing Large Sets of Protein or Nucleotide Sequences\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1007/978-1-4899-7478-5_221\n\t\n\t\n\t\tEncyclopedia of Metagenomics\n\t\t\t\t\n\t\t\tSpringer US\n\t\t\t\n\t\t\t22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c347b67723bebd86659cf2"},"refKey":20},
{"_key":"60c347b67723bebd86659cf4","_id":"references/60c347b67723bebd86659cf4","_rev":"_cfFlGHm---","tei":"\n\t\n\t\tClustal W and clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c347b67723bebd86659cf2"},"refKey":19},
{"_key":"60c347b67723bebd86659cf5","_id":"references/60c347b67723bebd86659cf5","_rev":"_cfFlGHy---","tei":"\n\t\n\t\tPrimer3-new capabilities and interfaces\n\t\t\n\t\t\tAUntergasser\n\t\t\n\t\t\n\t\t\tICutcutache\n\t\t\n\t\t\n\t\t\tTKoressaar\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t40\n\t\t\t15\n\t\t\te115\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c347b67723bebd86659cf2"},"refKey":21},
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{"_key":"60c347e97723bebd86659d34","_id":"references/60c347e97723bebd86659d34","_rev":"_cfFlGIK---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c347e97723bebd86659d33"},"refKey":63},
{"_key":"60c347e97723bebd86659d35","_id":"references/60c347e97723bebd86659d35","_rev":"_cfFlGIS---","tei":"\n\t\n\t\tFUSIM: a software tool for simulating fusion transcripts\n\t\t\n\t\t\tAndrewEBruno\n\t\t\n\t\t\n\t\t\tJeffreyCMiecznikowski\n\t\t\n\t\t\n\t\t\tMaochunQin\n\t\t\n\t\t\n\t\t\tJianminWang\n\t\t\n\t\t\n\t\t\tSongLiu\n\t\t\n\t\t10.1186/1471-2105-14-13\n\t\t23323884\n\t\tPMC3637076\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t13\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c347e97723bebd86659d33"},"refKey":54},
{"_key":"60c347e97723bebd86659d36","_id":"references/60c347e97723bebd86659d36","_rev":"_cfFlGIe---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c347e97723bebd86659d33"},"refKey":61},
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{"_key":"60c348a57723bebd86659e16","_id":"references/60c348a57723bebd86659e16","_rev":"_cfFlGMC---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c348a57723bebd86659e12"},"refKey":23},
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{"_key":"60c348a57723bebd86659e19","_id":"references/60c348a57723bebd86659e19","_rev":"_cfFlGMu---","tei":"\n\t\n\t\tPAML 4: Phylogenetic Analysis by Maximum Likelihood\n\t\t\n\t\t\tZYang\n\t\t\n\t\t10.1093/molbev/msm088\n\t\t17483113\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c348a57723bebd86659e12"},"refKey":100},
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{"_key":"60c34b3d7723bebd8665a090","_id":"references/60c34b3d7723bebd8665a090","_rev":"_cfFlGX6---","tei":"\n\t\n\t\tAutomated identification of single nucleotide polymorphisms from sequencing data\n\t\t\n\t\t\tMTakahashi\n\t\t\n\t\t\n\t\t\tFMatsuda\n\t\t\n\t\t\n\t\t\tNMargetic\n\t\t\n\t\t\n\t\t\tMLathrop\n\t\t\n\t\t10.1109/csb.2002.1039332\n\t\n\t\n\t\tProceedings. IEEE Computer Society Bioinformatics Conference\n\t\t\t\tIEEE Computer Society Bioinformatics Conference\n\t\t\n\t\t\tIEEE Comput. Soc\n\t\t\t2003\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34b3d7723bebd8665a08d"},"refKey":83},
{"_key":"60c34b3d7723bebd8665a091","_id":"references/60c34b3d7723bebd8665a091","_rev":"_cfFlGYC---","tei":"\n\t\n\t\tA comparison of Bayesian methods for haplotype reconstruction from population genotype data\n\t\t\n\t\t\tMStephens\n\t\t\n\t\t\n\t\t\tPDonnelly\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t73\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34b3d7723bebd8665a08d"},"refKey":80},
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{"_key":"60c34bbd7723bebd8665a12c","_id":"references/60c34bbd7723bebd8665a12c","_rev":"_cfFlGcK---","tei":"\n\t\n\t\tSwissParam: a fast force field generation tool for small organic molecules\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tMACuendet\n\t\t\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34bbd7723bebd8665a129"},"refKey":52},
{"_key":"60c34bd87723bebd8665a148","_id":"references/60c34bd87723bebd8665a148","_rev":"_cfFlGcW---","tei":"\n\t\n\t\tRStan: the R interface to Stan\n\t\t\n\t\t\tStanDevelopment Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34bd87723bebd8665a147"},"refKey":74},
{"_key":"60c34bd87723bebd8665a149","_id":"references/60c34bd87723bebd8665a149","_rev":"_cfFlGce---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c34bd87723bebd8665a147"},"refKey":73},
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{"_key":"60c34c047723bebd8665a1a8","_id":"references/60c34c047723bebd8665a1a8","_rev":"_cfFlGdC---","tei":"\n\t\n\t\tAPE: Analyses of Phylogenetics and Evolution in R language\n\t\t\n\t\t\tEParadis\n\t\t\n\t\t\n\t\t\tJClaude\n\t\t\n\t\t\n\t\t\tKStrimmer\n\t\t\n\t\t10.1093/bioinformatics/btg412\n\t\t14734327\n\t\tark:/67375/HXZ-56DHPLK3-H\n\t\t5D32943A4FCE86ED876034DB4F46AB78CCEF542E\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34c047723bebd8665a1a7"},"refKey":55},
{"_key":"60c34c047723bebd8665a1a9","_id":"references/60c34c047723bebd8665a1a9","_rev":"_cfFlGdK---","tei":"\n\t\n\t\tThe ade4 package: implementing the duality diagram for ecologists\n\t\t\n\t\t\tSDray\n\t\t\n\t\t\n\t\t\tABDufour\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34c047723bebd8665a1a7"},"refKey":56},
{"_key":"60c34c047723bebd8665a1aa","_id":"references/60c34c047723bebd8665a1aa","_rev":"_cfFlGdW---","tei":"\n\t\n\t\tSeqinR 1.0-2: A Contributed Package to the R Project for Statistical Computing Devoted to Biological Sequences Retrieval and Analysis\n\t\t\n\t\t\tDelphineCharif\n\t\t\n\t\t\n\t\t\tJeanRLobry\n\t\t\n\t\t10.1007/978-3-540-35306-5_10\n\t\tark:/67375/HCB-L69H3WCB-D\n\t\t614751033F60262E6F2C28C51797816F3DF07C6B\n\t\n\t\n\t\tStructural Approaches to Sequence Evolution\n\t\t\t\tBerlin, Germany\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBastolla U, Porto M, Roman HE, Vendruscolo M\n\n","document":{"$oid":"60c34c047723bebd8665a1a7"},"refKey":57},
{"_key":"60c34c2a7723bebd8665a1bb","_id":"references/60c34c2a7723bebd8665a1bb","_rev":"_cfFlGdi---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1093/bioinformatics/bty407\n\t\t29790939\n\t\tPMC6247931\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34c2a7723bebd8665a1ba"},"refKey":7},
{"_key":"60c34c2a7723bebd8665a1bc","_id":"references/60c34c2a7723bebd8665a1bc","_rev":"_cfFlGdu---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34c2a7723bebd8665a1ba"},"refKey":17},
{"_key":"60c34c2a7723bebd8665a1bd","_id":"references/60c34c2a7723bebd8665a1bd","_rev":"_cfFlGd2---","tei":"\n\t\n\t\tFastQC: A Quality Control Tool for High Throughput Sequence Data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34c2a7723bebd8665a1ba"},"refKey":0},
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{"_key":"60c34c2a7723bebd8665a1bf","_id":"references/60c34c2a7723bebd8665a1bf","_rev":"_cfFlGeO---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\t10.1093/bioinformatics/btr509\n\t\t21903627\n\t\tPMC3198575\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34c2a7723bebd8665a1ba"},"refKey":16},
{"_key":"60c34c2a7723bebd8665a1c0","_id":"references/60c34c2a7723bebd8665a1c0","_rev":"_cfFlGea---","tei":"\n\t\n\t\tImproved metagenomic analysis with Kraken 2\n\t\t\n\t\t\tDerrickEWood\n\t\t\t0000-0002-7429-1854\n\t\t\n\t\t\n\t\t\tJenniferLu\n\t\t\t0000-0001-9167-2002\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\t0000-0003-2437-1976\n\t\t\n\t\t10.1101/762302\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t257\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c34c2a7723bebd8665a1ba"},"refKey":28},
{"_key":"60c34c2a7723bebd8665a1c1","_id":"references/60c34c2a7723bebd8665a1c1","_rev":"_cfFlGei---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34c2a7723bebd8665a1ba"},"refKey":9},
{"_key":"60c34c2a7723bebd8665a1c2","_id":"references/60c34c2a7723bebd8665a1c2","_rev":"_cfFlGeu---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nmeth.3317\n\t\t25751142\n\t\tPMC4655817\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c34c2a7723bebd8665a1ba"},"refKey":10},
{"_key":"60c34c2a7723bebd8665a1c3","_id":"references/60c34c2a7723bebd8665a1c3","_rev":"_cfFlGe6---","tei":"\n\t\n\t\tDomain enhanced lookup time accelerated BLAST\n\t\t\n\t\t\tGrzegorzMBoratyn\n\t\t\n\t\t\n\t\t\tAlejandroASchäffer\n\t\t\n\t\t\n\t\t\tRichaAgarwala\n\t\t\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1745-6150-7-12\n\t\t22510480\n\t\tPMC3438057\n\t\t\n\t\n\t\n\t\tBiology Direct\n\t\tBiology Direct\n\t\t1745-6150\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t12\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c34c2a7723bebd8665a1ba"},"refKey":2},
{"_key":"60c34c2a7723bebd8665a1c4","_id":"references/60c34c2a7723bebd8665a1c4","_rev":"_cfFlGfG---","tei":"\n\t\n\t\tTimeTree: A Resource for Timelines, Timetrees, and Divergence Times\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelSuleski\n\t\t\n\t\t\n\t\t\tSBlairHedges\n\t\t\n\t\t10.1093/molbev/msx116\n\t\t28387841\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t34\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34c2a7723bebd8665a1ba"},"refKey":13},
{"_key":"60c34c2a7723bebd8665a1c5","_id":"references/60c34c2a7723bebd8665a1c5","_rev":"_cfFlGfO---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tAaronRQuinlan\n\t\t\n\t\t\n\t\t\tIraMHall\n\t\t\n\t\t10.1093/bioinformatics/btq033\n\t\t20110278\n\t\tPMC2832824\n\t\tdoi: 10.1093/ bioinformatics/btq033\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34c2a7723bebd8665a1ba"},"refKey":22},
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{"_key":"60c34c837723bebd8665a225","_id":"references/60c34c837723bebd8665a225","_rev":"_cfFlGfy---","tei":"\n\t\n\t\tVersion 9.4. SAS Institute Inc\n\t\n\t\n\t\tSAS\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34c837723bebd8665a224"},"refKey":12},
{"_key":"60c34c8b7723bebd8665a245","_id":"references/60c34c8b7723bebd8665a245","_rev":"_cfFlGg----","tei":"\n\t\n\t\tOpenEpi: Open Source Epidemiologic Statistics for Public Health, Version\n\t\t\n\t\t\tAGDean\n\t\t\n\t\t\n\t\t\tKMSullivan\n\t\t\n\t\t\n\t\t\tMMSoe\n\t\t\n\t\t\n\t\n\tRetrieved December 21 2021 from www.OpenEpi.com\n\n","document":{"$oid":"60c34c8b7723bebd8665a244"},"refKey":20},
{"_key":"60c34caf7723bebd8665a258","_id":"references/60c34caf7723bebd8665a258","_rev":"_cfFlGgK---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\n\t\n\t\tJ. Comput. Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34caf7723bebd8665a257"},"refKey":26},
{"_key":"60c34cc17723bebd8665a269","_id":"references/60c34cc17723bebd8665a269","_rev":"_cfFlGgS---","tei":"\n\t\n\t\tA framework for variation discovery and genotyping using next-generation DNA sequencing data\n\t\t\n\t\t\tMarkADepristo\n\t\t\n\t\t\n\t\t\tEricBanks\n\t\t\n\t\t\n\t\t\tRyanPoplin\n\t\t\n\t\t\n\t\t\tKiranVGarimella\n\t\t\n\t\t\n\t\t\tJaredRMaguire\n\t\t\n\t\t\n\t\t\tChristopherHartl\n\t\t\n\t\t\n\t\t\tAnthonyAPhilippakis\n\t\t\n\t\t\n\t\t\tGuillermoDel Angel\n\t\t\n\t\t\n\t\t\tManuelARivas\n\t\t\n\t\t\n\t\t\tMattHanna\n\t\t\n\t\t\n\t\t\tAaronMckenna\n\t\t\n\t\t\n\t\t\tTimJFennell\n\t\t\n\t\t\n\t\t\tAndrewMKernytsky\n\t\t\n\t\t\n\t\t\tAndreyYSivachenko\n\t\t\n\t\t\n\t\t\tKristianCibulskis\n\t\t\n\t\t\n\t\t\tStaceyBGabriel\n\t\t\n\t\t\n\t\t\tDavidAltshuler\n\t\t\n\t\t\n\t\t\tMarkJDaly\n\t\t\n\t\t10.1038/ng.806\n\t\t21478889\n\t\tPMC3083463\n\t\t\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t43\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c34cc17723bebd8665a268"},"refKey":9},
{"_key":"60c34cc17723bebd8665a26a","_id":"references/60c34cc17723bebd8665a26a","_rev":"_cfFlGge---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tASivachenko\n\t\t\n\t\t\n\t\t\tKCibulskis\n\t\t\n\t\t\n\t\t\tAKernytsky\n\t\t\n\t\t\n\t\t\tKGarimella\n\t\t\n\t\t\n\t\t\tDAltshuler\n\t\t\n\t\t\n\t\t\tSGabriel\n\t\t\n\t\t\n\t\t\tMDaly\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t10.1101/gr.107524.110\n\t\t20644199\n\t\tPMC2928508\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t20\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c34cc17723bebd8665a268"},"refKey":38},
{"_key":"60c34cc17723bebd8665a26b","_id":"references/60c34cc17723bebd8665a26b","_rev":"_cfFlGgq---","tei":"\n\t\n\t\tFrom FastQ Data to High-Confidence Variant Calls: The Genome Analysis Toolkit Best Practices Pipeline\n\t\t\n\t\t\tGeraldineAVan Der Auwera\n\t\t\n\t\t\n\t\t\tMauricioOCarneiro\n\t\t\n\t\t\n\t\t\tChristopherHartl\n\t\t\n\t\t\n\t\t\tRyanPoplin\n\t\t\n\t\t\n\t\t\tGuillermoDel Angel\n\t\t\n\t\t\n\t\t\tAmiLevy-Moonshine\n\t\t\n\t\t\n\t\t\tTadeuszJordan\n\t\t\n\t\t\n\t\t\tKhalidShakir\n\t\t\n\t\t\n\t\t\tDavidRoazen\n\t\t\n\t\t\n\t\t\tJoelThibault\n\t\t\n\t\t\n\t\t\tEricBanks\n\t\t\n\t\t\n\t\t\tKiranVGarimella\n\t\t\n\t\t\n\t\t\tDavidAltshuler\n\t\t\n\t\t\n\t\t\tStaceyGabriel\n\t\t\n\t\t\n\t\t\tMarkADepristo\n\t\t\n\t\t10.1002/0471250953.bi1110s43\n\t\t25431634\n\t\tPMC4243306\n\t\t\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c34cc17723bebd8665a268"},"refKey":44},
{"_key":"60c34cc17723bebd8665a26c","_id":"references/60c34cc17723bebd8665a26c","_rev":"_cfFlGg2---","tei":"\n\t\n\t\tMAGeCK enables robust identification of essential genes from genome-scale CRISPR/Cas9 knockout screens\n\t\t\n\t\t\tWeiLi\n\t\t\n\t\t\n\t\t\tHanXu\n\t\t\n\t\t\n\t\t\tTengfeiXiao\n\t\t\n\t\t\n\t\t\tLeCong\n\t\t\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tFengZhang\n\t\t\n\t\t\n\t\t\tRafaelAIrizarry\n\t\t\n\t\t\n\t\t\tJunSLiu\n\t\t\n\t\t\n\t\t\tMylesBrown\n\t\t\n\t\t\n\t\t\tXShirleyLiu\n\t\t\n\t\t10.1186/s13059-014-0554-4\n\t\t25476604\n\t\tPMC4290824\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t554\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c34cc17723bebd8665a268"},"refKey":31},
{"_key":"60c34cc17723bebd8665a26d","_id":"references/60c34cc17723bebd8665a26d","_rev":"_cfFlGh----","tei":"\n\t\n\t\tGgplot2: Elegant Graphics for Data Analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t10.1007/978-0-387-98141-3\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c34cc17723bebd8665a268"},"refKey":46},
{"_key":"60c34cc17723bebd8665a26e","_id":"references/60c34cc17723bebd8665a26e","_rev":"_cfFlGhK---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tAdrianPlatts\n\t\t\n\t\t\n\t\t\tLeLilyWang\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tLuanWang\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\tPMC3679285\n\t\t\n\t\t\n\t\n\t\n\t\tFly\n\t\tFly\n\t\t1933-6934\n\t\t1933-6942\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c34cc17723bebd8665a268"},"refKey":8},
{"_key":"60c34cc17723bebd8665a26f","_id":"references/60c34cc17723bebd8665a26f","_rev":"_cfFlGhW---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with BWA-MEM\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34cc17723bebd8665a268"},"refKey":30},
{"_key":"60c34cc17723bebd8665a270","_id":"references/60c34cc17723bebd8665a270","_rev":"_cfFlGhi---","tei":"\n\t\n\t\tUsing Drosophila melanogaster as a Model for Genotoxic Chemical Mutational Studies with a New Program, SnpSift\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tViralMPatel\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t10.3389/fgene.2012.00035\n\t\t22435069\n\t\tPMC3304048\n\t\t\n\t\t\n\t\n\t\n\t\tFrontiers in Genetics\n\t\tFront. Gene.\n\t\t1664-8021\n\t\t\n\t\t\t3\n\t\t\t35\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c34cc17723bebd8665a268"},"refKey":7},
{"_key":"60c34cc17723bebd8665a271","_id":"references/60c34cc17723bebd8665a271","_rev":"_cfFlGhq---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\t1000 Genome Project Data Processing Subgroup\n\n","document":{"$oid":"60c34cc17723bebd8665a268"},"refKey":28},
{"_key":"60c34cc47723bebd8665a285","_id":"references/60c34cc47723bebd8665a285","_rev":"_cfFlGh2---","tei":"\n\t\n\t\tDiscovering motifs in ranked lists of DNA sequences\n\t\t\n\t\t\tEEden\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t3\n\t\t\t3\n\t\t\te39\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34cc47723bebd8665a284"},"refKey":49},
{"_key":"60c34cc47723bebd8665a286","_id":"references/60c34cc47723bebd8665a286","_rev":"_cfFlGiC---","tei":"\n\t\n\t\tGOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists\n\t\t\n\t\t\tEEden\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t10\n\t\t\t48\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34cc47723bebd8665a284"},"refKey":50},
{"_key":"60c34cc47723bebd8665a287","_id":"references/60c34cc47723bebd8665a287","_rev":"_cfFlGiO---","tei":"\n\t\n\t\tTopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\t\n\t\t\t14\n\t\t\tR36\n\t\t\n\t\n\n","document":{"$oid":"60c34cc47723bebd8665a284"},"refKey":44},
{"_key":"60c34d067723bebd8665a2bf","_id":"references/60c34d067723bebd8665a2bf","_rev":"_cfFlGiW---","tei":"\n\t\n\t\tStatistical parametric maps in functional imaging: a general linear approach\n\t\t\n\t\t\tKJFriston\n\t\t\n\t\t\n\t\t\tAPHolmes\n\t\t\n\t\t\n\t\t\tKJWorsley\n\t\t\n\t\t\n\t\t\tJ-PPoline\n\t\t\n\t\t\n\t\t\tCDFrith\n\t\t\n\t\t\n\t\t\tRS JFrackowiak\n\t\t\n\t\n\t\n\t\tHuman Brain Mapping\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34d067723bebd8665a2be"},"refKey":11},
{"_key":"60c34d1a7723bebd8665a2c6","_id":"references/60c34d1a7723bebd8665a2c6","_rev":"_cfFlGii---","tei":"\n\t\n\t\tRobust empirical calibration of p -values using observational data\n\t\t\n\t\t\tMartijnJSchuemie\n\t\t\t0000-0002-0817-5361\n\t\t\n\t\t\n\t\t\tGeorgeHripcsak\n\t\t\n\t\t\n\t\t\tPatrickBRyan\n\t\t\n\t\t\n\t\t\tDavidMadigan\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1002/sim.6977\n\t\t27592566\n\t\tPMC5108459\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t\n\t\t\t35\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c34d1a7723bebd8665a2c5"},"refKey":12},
{"_key":"60c34d267723bebd8665a2d1","_id":"references/60c34d267723bebd8665a2d1","_rev":"_cfFlGiu---","tei":"\n\t\n\t\tMiTAP for SARS detection\n\t\t\n\t\t\tLaurieEDamianos\n\t\t\n\t\t\n\t\t\tMaratGPolyak\n\t\t\n\t\t\n\t\t\tSamuelBayer\n\t\t\n\t\t\n\t\t\tMichaelAChisholm\n\t\t\n\t\t\n\t\t\tJohnHenderson\n\t\t\n\t\t\n\t\t\tLynetteHirschman\n\t\t\n\t\t\n\t\t\tWilliamMorgan\n\t\t\n\t\t\n\t\t\tMarcUbaldino\n\t\t\n\t\t\n\t\t\tGuidoZarrella\n\t\t\n\t\t\n\t\t\tJamesMWilson\n\t\t\n\t\t10.3115/1614025.1614029\n\t\t\n\t\n\t\n\t\tDemonstration Papers at HLT-NAACL 2004 on XX - HLT-NAACL '04\n\t\t\t\tBoston, USA\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34d267723bebd8665a2d0"},"refKey":16},
{"_key":"60c34d267723bebd8665a2d7","_id":"references/60c34d267723bebd8665a2d7","_rev":"_cfFlGi6---","tei":"\n\t\n\t\tVariation in government responses to COVID-19, BSG-WP-2020/031, Version 4.0\n\t\t\n\t\t\tTHale\n\t\t\n\t\t\n\t\t\tAPetherick\n\t\t\n\t\t\n\t\t\tTPhillips\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tOxford (UK): Blavatnik School of Government\n\n","document":{"$oid":"60c34d267723bebd8665a2d6"},"refKey":8},
{"_key":"60c34d2c7723bebd8665a2da","_id":"references/60c34d2c7723bebd8665a2da","_rev":"_cfFlGjC---","tei":"\n\t\n\t\tProcessing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34d2c7723bebd8665a2d9"},"refKey":44},
{"_key":"60c34d2c7723bebd8665a2db","_id":"references/60c34d2c7723bebd8665a2db","_rev":"_cfFlGjO---","tei":"\n\t\n\t\tExpanding screening space through the use of alternative reservoirs in vapor-diffusion experiments\n\t\t\n\t\t\tJanetNewman\n\t\t\n\t\t10.1107/s0907444905002726\n\t\t15805606\n\t\tark:/67375/WNG-D7C0DMQF-H\n\t\t70E6EFB13965F7311BC30B85C99565532A7C90D2\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t61\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c34d2c7723bebd8665a2d9"},"refKey":41},
{"_key":"60c34d357723bebd8665a2ee","_id":"references/60c34d357723bebd8665a2ee","_rev":"_cfFlGja---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34d357723bebd8665a2ed"},"refKey":44},
{"_key":"60c34d357723bebd8665a2ef","_id":"references/60c34d357723bebd8665a2ef","_rev":"_cfFlGjm---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\n\t\n\t\tJ Cheminform\n\t\t\n\t\t\t3\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34d357723bebd8665a2ed"},"refKey":38},
{"_key":"60c34d357723bebd8665a2f0","_id":"references/60c34d357723bebd8665a2f0","_rev":"_cfFlGju---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSchrödingerLigprep\n\t\t\n\t\t\n\t\t\tLlcSchrödinger\n\t\t\n\t\t\n\t\t\t\n\t\t\tNew York, NY, USA\n\t\t\n\t\n\n","document":{"$oid":"60c34d357723bebd8665a2ed"},"refKey":36},
{"_key":"60c34d357723bebd8665a2f1","_id":"references/60c34d357723bebd8665a2f1","_rev":"_cfFlGj6---","tei":"\n\t\n\t\trDock: a fast, versatile and open source program for docking ligands to proteins and nucleic acids\n\t\t\n\t\t\tSRuiz-Carmona\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t10\n\t\t\te1003571\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34d357723bebd8665a2ed"},"refKey":46},
{"_key":"60c34d357723bebd8665a2f2","_id":"references/60c34d357723bebd8665a2f2","_rev":"_cfFlGkG---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34d357723bebd8665a2ed"},"refKey":37},
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{"_key":"60c34d4e7723bebd8665a316","_id":"references/60c34d4e7723bebd8665a316","_rev":"_cfFlGlO---","tei":"\n\t\n\t\tABySS: A parallel assembler for short read sequence data ABySS : A parallel assembler for short read sequence data\n\t\t\n\t\t\tJTSimpson\n\t\t\n\t\t\n\t\t\tKWong\n\t\t\n\t\t\n\t\t\tSDJackman\n\t\t\n\t\t\n\t\t\tJEShein\n\t\t\n\t\t\n\t\t\tSJJones\n\t\t\n\t\t\n\t\t\tBirol\n\t\t\n\t\t10.1101/gr.089532.108\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34d4e7723bebd8665a311"},"refKey":64},
{"_key":"60c34d6c7723bebd8665a328","_id":"references/60c34d6c7723bebd8665a328","_rev":"_cfFlGla---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34d6c7723bebd8665a327"},"refKey":4},
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{"_key":"60c34e327723bebd8665a3c4","_id":"references/60c34e327723bebd8665a3c4","_rev":"_cfFlGnG---","tei":"\n\t\n\t\tAutomatic differentiation in pytorch\n\t\t\n\t\t\tAPaszke\n\t\t\n\t\n\t\n\t\tProceedings of the 2017 Neural Information Processing Systems Workshop Autodiff\n\t\t\t\tthe 2017 Neural Information Processing Systems Workshop Autodiff\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34e327723bebd8665a3c3"},"refKey":3},
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{"_key":"60c34e597723bebd8665a416","_id":"references/60c34e597723bebd8665a416","_rev":"_cfFlGpO---","tei":"\n\t\n\t\tJava Treeview--extensible visualization of microarray data\n\t\t\n\t\t\tAJSaldanha\n\t\t\n\t\t10.1093/bioinformatics/bth349.41.GeneCodisv4.0\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34e597723bebd8665a411"},"refKey":39},
{"_key":"60c34e597723bebd8665a417","_id":"references/60c34e597723bebd8665a417","_rev":"_cfFlGpa---","tei":"\n\t\n\t\tExpression Atlas: gene and protein expression across multiple studies and organisms\n\t\t\n\t\t\tIrenePapatheodorou\n\t\t\n\t\t\n\t\t\tNunoAFonseca\n\t\t\t0000-0003-4832-578X\n\t\t\n\t\t\n\t\t\tMariaKeays\n\t\t\t0000-0003-2034-601X\n\t\t\n\t\t\n\t\t\tYAmyTang\n\t\t\n\t\t\n\t\t\tElisabetBarrera\n\t\t\t0000-0002-7245-9692\n\t\t\n\t\t\n\t\t\tWojciechBazant\n\t\t\n\t\t\n\t\t\tMelissaBurke\n\t\t\n\t\t\n\t\t\tAnjaFüllgrabe\n\t\t\t0000-0002-8674-0039\n\t\t\n\t\t\n\t\t\tAlfonso Muñoz-PomerFuentes\n\t\t\n\t\t\n\t\t\tNancyGeorge\n\t\t\n\t\t\n\t\t\tLauraHuerta\n\t\t\t0000-0002-8748-599X\n\t\t\n\t\t\n\t\t\tSatuKoskinen\n\t\t\n\t\t\n\t\t\tSuhaibMohammed\n\t\t\n\t\t\n\t\t\tMatthewGeniza\n\t\t\n\t\t\n\t\t\tJustinPreece\n\t\t\n\t\t\n\t\t\tPankajJaiswal\n\t\t\t0000-0002-1005-8383\n\t\t\n\t\t\n\t\t\tAndrewFJarnuczak\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tOliverStegle\n\t\t\n\t\t\n\t\t\tJuanAntonioVizcaino\n\t\t\t0000-0002-3905-4335\n\t\t\n\t\t\n\t\t\tAlvisBrazma\n\t\t\n\t\t\n\t\t\tRobertPetryszak\n\t\t\n\t\t10.1093/nar/gkx1158\n\t\t29165655\n\t\tPMC5753389\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34e597723bebd8665a411"},"refKey":46},
{"_key":"60c34e7a7723bebd8665a442","_id":"references/60c34e7a7723bebd8665a442","_rev":"_cfFlGpm---","tei":"\n\t\n\t\tBRAT: a webbased tool for nlp-assisted text annotation\n\t\t\n\t\t\tPStenetorp\n\t\t\n\t\t\n\t\t\tSPyysalo\n\t\t\n\t\t\n\t\t\tGTopić\n\t\t\n\t\t\n\t\t\tTOhta\n\t\t\n\t\t\n\t\t\tSAnaniadou\n\t\t\n\t\t\n\t\t\tJTsujii\n\t\t\n\t\n\t\n\t\tProceedings of the demonstrations session at EACL\n\t\t\t\tthe demonstrations session at EACL\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34e7a7723bebd8665a441"},"refKey":54},
{"_key":"60c34e7a7723bebd8665a443","_id":"references/60c34e7a7723bebd8665a443","_rev":"_cfFlGpy---","tei":"\n\t\n\t\tSemi-supervised multitask learning for sequence labeling\n\t\t\n\t\t\tMRei\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the 55th annual meeting of the association for computational linguistics\n\t\t\t\tthe 55th annual meeting of the association for computational linguisticsVancouver, Canada\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34e7a7723bebd8665a441"},"refKey":61},
{"_key":"60c34e7a7723bebd8665a444","_id":"references/60c34e7a7723bebd8665a444","_rev":"_cfFlGq----","tei":"\n\t\n\t\tEffective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program\n\t\t\n\t\t\tARAronson\n\t\t\n\t\n\t\n\t\tProceedings of the AMIA symposium American medical informatics association\n\t\t\t\tthe AMIA symposium American medical informatics association\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34e7a7723bebd8665a441"},"refKey":53},
{"_key":"60c34e7a7723bebd8665a445","_id":"references/60c34e7a7723bebd8665a445","_rev":"_cfFlGqK---","tei":"\n\t\n\t\tEnriching word vectors with subword information\n\t\t\n\t\t\tPBojanowski\n\t\t\n\t\t\n\t\t\tEGrave\n\t\t\n\t\t\n\t\t\tAJoulin\n\t\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\n\t\n\t\tT Assoc Comp Ling\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34e7a7723bebd8665a441"},"refKey":64},
{"_key":"60c34e7a7723bebd8665a446","_id":"references/60c34e7a7723bebd8665a446","_rev":"_cfFlGqW---","tei":"\n\t\n\t\tSpacy 2: Natural language understanding with Bloom embeddings, convolutional neural networks and incremental parsing\n\t\t\n\t\t\tMHonnibal\n\t\t\n\t\t\n\t\t\tIMontani\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tTo appear.\n\n","document":{"$oid":"60c34e7a7723bebd8665a441"},"refKey":49},
{"_key":"60c34e7a7723bebd8665a447","_id":"references/60c34e7a7723bebd8665a447","_rev":"_cfFlGqe---","tei":"\n\t\n\t\tDeep contextualized word representations\n\t\t\n\t\t\tMPeters\n\t\t\n\t\t\n\t\t\tMNeumann\n\t\t\n\t\t\n\t\t\tMIyyer\n\t\t\n\t\t\n\t\t\tMGardner\n\t\t\n\t\t\n\t\t\tCClark\n\t\t\n\t\t\n\t\t\tKLee\n\t\t\n\t\n\t\n\t\tProceedings of the 2018 conference of the North American chapter of the association for computational linguistics\n\t\t\t\tthe 2018 conference of the North American chapter of the association for computational linguisticsNew Orleans, LA\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34e7a7723bebd8665a441"},"refKey":76},
{"_key":"60c34ea47723bebd8665a463","_id":"references/60c34ea47723bebd8665a463","_rev":"_cfFlGqq---","tei":"\n\t\n\t\tMatplotlib: A 2D Graphics Environment\n\t\t\n\t\t\tJohnDHunter\n\t\t\n\t\t10.1109/mcse.2007.55\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\tComput. Sci. Eng.\n\t\t1521-9615\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c34ea47723bebd8665a462"},"refKey":65},
{"_key":"60c34ea47723bebd8665a464","_id":"references/60c34ea47723bebd8665a464","_rev":"_cfFlGq2---","tei":"\n\t\n\t\tPUBLICATIONS\n\t\t\n\t\t\tTEOliphant\n\t\t\n\t\t10.1017/cbo9780511711312.001\n\t\n\t\n\t\tAnnals of a Publishing House\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2006\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34ea47723bebd8665a462"},"refKey":61},
{"_key":"60c34ea47723bebd8665a465","_id":"references/60c34ea47723bebd8665a465","_rev":"_cfFlGrC---","tei":"\n\t\n\t\tSciPy 1.0: Fundamental Algorithms for Scientific Computing in PYTHON\n\t\t\n\t\t\tPVirtanen\n\t\t\n\t\t10.1038/s41592-019-0686-2\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t17\n\t\t\t261\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34ea47723bebd8665a462"},"refKey":62},
{"_key":"60c34ea47723bebd8665a466","_id":"references/60c34ea47723bebd8665a466","_rev":"_cfFlGrO---","tei":"\n\t\n\t\t\n\t\t\tDForeman-Mackey\n\t\t\n\t\t\n\t\t\tWFarr\n\t\t\n\t\t\n\t\t\tMSinha\n\t\t\n\t\t\n\t\t\tAArchibald\n\t\t\n\t\t\n\t\t\tDHogg\n\t\t\n\t\t\n\t\t\tJSanders\n\t\t\n\t\t\n\t\t\tJZuntz\n\t\t\n\t\t\n\t\t\tPWilliams\n\t\t\n\t\t\n\t\t\tANelson\n\t\t\n\t\t\n\t\t\tMVal-Borro\n\t\t\n\t\t\n\t\t\tTErhardt\n\t\t\n\t\t\n\t\t\tIPashchenko\n\t\t\n\t\t\n\t\t\tOPla\n\t\t\n\t\t10.21105/joss.01864\n\t\n\t\n\t\tEMCEE V3: A PYTHON Ensemble Sampling Toolkit for Affine-Invariant MCMC\n\t\t\t\t\n\t\t\t\n\t\t\t4\n\t\t\t1864\n\t\t\n\t\n\n","document":{"$oid":"60c34ea47723bebd8665a462"},"refKey":35},
{"_key":"60c34ea47723bebd8665a467","_id":"references/60c34ea47723bebd8665a467","_rev":"_cfFlGra---","tei":"\n\t\n\t\tScatterplot Matrices in PYTHON\n\t\t\n\t\t\tDForeman-Mackey\n\t\t\n\t\t10.5281/zenodo.45906\n\t\t\n\t\n\t\n\t\tJ. Open Source Software\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34ea47723bebd8665a462"},"refKey":64},
{"_key":"60c34ea47723bebd8665a468","_id":"references/60c34ea47723bebd8665a468","_rev":"_cfFlGrm---","tei":"\n\t\n\t\t\n\t\t\tGVan Rossum\n\t\t\n\t\t\n\t\t\tFLDrake\n\t\t\n\t\tPYTHON3 Reference Manual\n\t\t\t\tCreateSpace, Scotts Valley, CA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34ea47723bebd8665a462"},"refKey":60},
{"_key":"60c34eb57723bebd8665a47a","_id":"references/60c34eb57723bebd8665a47a","_rev":"_cfFlGru---","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSudiptoSaha\n\t\t\n\t\t\n\t\t\tGpsP SRaghava\n\t\t\n\t\t10.1002/prot.21078\n\t\t16894596\n\t\tark:/67375/WNG-PBJLFFDS-Q\n\t\t962AE5C732980F572DE0640D65F024AE7EF06A67\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t65\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":33},
{"_key":"60c34eb57723bebd8665a47b","_id":"references/60c34eb57723bebd8665a47b","_rev":"_cfFlGr6---","tei":"\n\t\n\t\tThe pepATTRACT web server for blind, large-scale peptide–protein docking\n\t\t\n\t\t\tSjoerdJDe vries\n\t\t\n\t\t\n\t\t\tJulienRey\n\t\t\n\t\t\n\t\t\tChristinaE MSchindler\n\t\t\n\t\t\n\t\t\tMartinZacharias\n\t\t\n\t\t\n\t\t\tPierreTuffery\n\t\t\n\t\t10.1093/nar/gkx335\n\t\t28460116\n\t\tPMC5570166\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":36},
{"_key":"60c34eb57723bebd8665a47c","_id":"references/60c34eb57723bebd8665a47c","_rev":"_cfFlGsG---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":38},
{"_key":"60c34eb57723bebd8665a47d","_id":"references/60c34eb57723bebd8665a47d","_rev":"_cfFlGsS---","tei":"\n\t\n\t\tGapped sequence alignment using artificial neural networks: application to the MHC class I system\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1093/bioinformatics/btv639\n\t\t26515819\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":24},
{"_key":"60c34eb57723bebd8665a47e","_id":"references/60c34eb57723bebd8665a47e","_rev":"_cfFlGse---","tei":"\n\t\n\t\tThe HADDOCK2. 2 web server: user-friendly integrative modeling of biomolecular complexes\n\t\t\n\t\t\tGcpVan Zundert\n\t\t\n\t\t\n\t\t\tJRodrigues\n\t\t\n\t\t\n\t\t\tMTrellet\n\t\t\n\t\t\n\t\t\tCSchmitz\n\t\t\n\t\t\n\t\t\tPLKastritis\n\t\t\n\t\t\n\t\t\tEKaraca\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t428\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":39},
{"_key":"60c34eb57723bebd8665a47f","_id":"references/60c34eb57723bebd8665a47f","_rev":"_cfFlGsm---","tei":"\n\t\n\t\tHADDOCK: a proteinÀ protein docking approach based on biochemical or biophysical information\n\t\t\n\t\t\tCDominguez\n\t\t\n\t\t\n\t\t\tRBoelens\n\t\t\n\t\t\n\t\t\tAmjjBonvin\n\t\t\n\t\n\t\n\t\tJ Am Chem Soc\n\t\t\n\t\t\t125\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":40},
{"_key":"60c34eb57723bebd8665a480","_id":"references/60c34eb57723bebd8665a480","_rev":"_cfFlGsy---","tei":"\n\t\n\t\tSolvated docking: introducing water into the modelling of biomolecular complexes\n\t\t\n\t\t\tAaltD JVan Dijk\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\n\t\t10.1093/bioinformatics/btl395\n\t\t16899489\n\t\tark:/67375/HXZ-1M1J8ZL4-J\n\t\t5D18CC9F6F7C47B03DCB5A381DFB3589B712EC1A\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":41},
{"_key":"60c34eb57723bebd8665a481","_id":"references/60c34eb57723bebd8665a481","_rev":"_cfFlGt----","tei":"\n\t\n\t\tPredicting population coverage of T-cell epitope-based diagnostics and vaccines\n\t\t\n\t\t\tH-HBui\n\t\t\n\t\t\n\t\t\tJSidney\n\t\t\n\t\t\n\t\t\tKDinh\n\t\t\n\t\t\n\t\t\tSSouthwood\n\t\t\n\t\t\n\t\t\tMJNewman\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\t10.1186/1471-2105-7-153\n\t\t\n\t\n\t\n\t\tBMC Bioinf\n\t\t\n\t\t\t7\n\t\t\t153\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":32},
{"_key":"60c34eb57723bebd8665a482","_id":"references/60c34eb57723bebd8665a482","_rev":"_cfFlGtK---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tBjörnLarsson\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1006/jmbi.2000.4315\n\t\t11152613\n\t\tS0022-2836(00)94315-8\n\t\tark:/67375/6H6-ZB6KWVJ7-M\n\t\t172A90B8F942FA711EF8E2CF5DB2DE13B7F2D351\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":20},
{"_key":"60c34eb57723bebd8665a483","_id":"references/60c34eb57723bebd8665a483","_rev":"_cfFlGtS---","tei":"\n\t\n\t\tPrediction of IL4 Inducing Peptides\n\t\t\n\t\t\tSandeepKumarDhanda\n\t\t\t0000-0003-1381-7434\n\t\t\n\t\t\n\t\t\tSudheerGupta\n\t\t\n\t\t\n\t\t\tPoojaVir\n\t\t\t0000-0002-6816-5122\n\t\t\n\t\t\n\t\t\tGpsP SRaghava\n\t\t\n\t\t10.1155/2013/263952\n\t\t24489573\n\t\tPMC3893860\n\t\t\n\t\t\n\t\n\t\n\t\tClinical and Developmental Immunology\n\t\tClinical and Developmental Immunology\n\t\t1740-2522\n\t\t1740-2530\n\t\t\n\t\t\t2013\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":31},
{"_key":"60c34eb57723bebd8665a484","_id":"references/60c34eb57723bebd8665a484","_rev":"_cfFlGte---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":37},
{"_key":"60c34eb57723bebd8665a485","_id":"references/60c34eb57723bebd8665a485","_rev":"_cfFlGtq---","tei":"\n\t\n\t\tImproved protein structure prediction using predicted interresidue orientations\n\t\t\n\t\t\tJYang\n\t\t\n\t\t\n\t\t\tIAnishchenko\n\t\t\n\t\t\n\t\t\tHPark\n\t\t\n\t\t\n\t\t\tZPeng\n\t\t\n\t\t\n\t\t\tSOvchinnikov\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\t10.1073/pnas.1914677117\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci\n\t\t\n\t\t\t117\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34eb57723bebd8665a479"},"refKey":34},
{"_key":"60c34ee57723bebd8665a4bf","_id":"references/60c34ee57723bebd8665a4bf","_rev":"_cfFlGt2---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D: Biol. Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34ee57723bebd8665a4be"},"refKey":18},
{"_key":"60c34ee57723bebd8665a4c0","_id":"references/60c34ee57723bebd8665a4c0","_rev":"_cfFlGu----","tei":"\n\t\n\t\tRecent changes to the MOSFLM package for processing film and image plate data\n\t\t\n\t\t\tAG WLeslie\n\t\t\n\t\n\t\n\t\tNewsletter Prot. Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tJoint CCP4 + ESF-EAMCB\n\n","document":{"$oid":"60c34ee57723bebd8665a4be"},"refKey":17},
{"_key":"60c34ee57723bebd8665a4c1","_id":"references/60c34ee57723bebd8665a4c1","_rev":"_cfFlGuK---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System Delano Scientific\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tSan Carlos, CA, USA\n\t\t\n\t\n\n","document":{"$oid":"60c34ee57723bebd8665a4be"},"refKey":6},
{"_key":"60c34ee57723bebd8665a4c2","_id":"references/60c34ee57723bebd8665a4c2","_rev":"_cfFlGuW---","tei":"\n\t\n\t\tUCSF Chimera -a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34ee57723bebd8665a4be"},"refKey":20},
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{"_key":"60c34f1d7723bebd8665a510","_id":"references/60c34f1d7723bebd8665a510","_rev":"_cfFlGu2---","tei":"\n\t\n\t\tQuantifying the local resolution of cryo-EM density maps\n\t\t\n\t\t\tAKucukelbir\n\t\t\n\t\t\n\t\t\tFJSigworth\n\t\t\n\t\t\n\t\t\tHDTagare\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34f1d7723bebd8665a50d"},"refKey":32},
{"_key":"60c34f1d7723bebd8665a511","_id":"references/60c34f1d7723bebd8665a511","_rev":"_cfFlGvC---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tGBunko ´czi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tBHintze\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34f1d7723bebd8665a50d"},"refKey":34},
{"_key":"60c34f1d7723bebd8665a512","_id":"references/60c34f1d7723bebd8665a512","_rev":"_cfFlGvK---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c34f1d7723bebd8665a50d"},"refKey":76},
{"_key":"60c34f1d7723bebd8665a513","_id":"references/60c34f1d7723bebd8665a513","_rev":"_cfFlGvW---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34f1d7723bebd8665a50d"},"refKey":47},
{"_key":"60c34f2c7723bebd8665a52d","_id":"references/60c34f2c7723bebd8665a52d","_rev":"_cfFlGvi---","tei":"\n\t\n\t\tPytorch: an imperative style, high-performance deep learning library\n\t\t\n\t\t\tAPaszke\n\t\t\n\t\t\n\t\t\tSGross\n\t\t\n\t\t\n\t\t\tFMassa\n\t\t\n\t\t\n\t\t\tALerer\n\t\t\n\t\t\n\t\t\tJBradbury\n\t\t\n\t\t\n\t\t\tGChanan\n\t\t\n\t\t\n\t\t\tTKilleen\n\t\t\n\t\t\n\t\t\tZLin\n\t\t\n\t\t\n\t\t\tNGimelshein\n\t\t\n\t\t\n\t\t\tLAntiga\n\t\t\n\t\n\t\n\t\tAdvances in Neural Information Processing Systems\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34f2c7723bebd8665a52c"},"refKey":30},
{"_key":"60c34f2c7723bebd8665a52e","_id":"references/60c34f2c7723bebd8665a52e","_rev":"_cfFlGvq---","tei":"\n\t\n\t\t\n\t\t\tTAi\n\t\t\n\t\t\n\t\t\tZYang\n\t\t\n\t\t\n\t\t\tHHou\n\t\t\n\t\t\n\t\t\tCZhan\n\t\t\n\t\t\n\t\t\tCChen\n\t\t\n\t\t\n\t\t\tWLv\n\t\t\n\t\t\n\t\t\tQTao\n\t\t\n\t\t\n\t\t\tZSun\n\t\t\n\t\t\n\t\t\tLXia\n\t\t\n\t\tCOVID-19\n\t\n\t\n\t\tCorrelation of chest CT and RT-PCR testing in coronavirus disease 2019\n\t\t\t\t\n\t\t\t\n\t\t\t296\n\t\t\n\t\n\tChina: a report of 1014 cases\n\n","document":{"$oid":"60c34f2c7723bebd8665a52c"},"refKey":4},
{"_key":"60c34f347723bebd8665a536","_id":"references/60c34f347723bebd8665a536","_rev":"_cfFlGv2---","tei":"\n\t\n\t\tGOATOOLS: A python library for gene ontology analyses\n\t\t\n\t\t\tDVKlopfenstein\n\t\t\n\t\t\n\t\t\tLZhang\n\t\t\n\t\t\n\t\t\tBSPedersen\n\t\t\n\t\t\n\t\t\tFRamirez\n\t\t\n\t\t\n\t\t\tAWarwick Vesztrocy\n\t\t\n\t\t\n\t\t\tANaldi\n\t\t\n\t\t\n\t\t\tCJMungall\n\t\t\n\t\t\n\t\t\tJMYunes\n\t\t\n\t\t\n\t\t\tOBotvinnik\n\t\t\n\t\t\n\t\t\tMWeigel\n\t\t\n\t\n\t\n\t\tSci. Rep\n\t\t\n\t\t\t8\n\t\t\t10872\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34f347723bebd8665a535"},"refKey":30},
{"_key":"60c34f347723bebd8665a537","_id":"references/60c34f347723bebd8665a537","_rev":"_cfFlGwC---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMVKuleshov\n\t\t\n\t\t\n\t\t\tMRJones\n\t\t\n\t\t\n\t\t\tADRouillard\n\t\t\n\t\t\n\t\t\tNFFernandez\n\t\t\n\t\t\n\t\t\tQDuan\n\t\t\n\t\t\n\t\t\tZWang\n\t\t\n\t\t\n\t\t\tSKoplev\n\t\t\n\t\t\n\t\t\tSLJenkins\n\t\t\n\t\t\n\t\t\tKMJagodnik\n\t\t\n\t\t\n\t\t\tALachmann\n\t\t\n\t\n\t\n\t\tNucleic. Acids. Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34f347723bebd8665a535"},"refKey":31},
{"_key":"60c34f347723bebd8665a538","_id":"references/60c34f347723bebd8665a538","_rev":"_cfFlGwO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAGaulton\n\t\t\n\t\t\n\t\t\tAHersey\n\t\t\n\t\t\n\t\t\tMNowotka\n\t\t\n\t\t\n\t\t\tAPBento\n\t\t\n\t\t\n\t\t\tJChambers\n\t\t\n\t\t\n\t\t\tDMendez\n\t\t\n\t\t\n\t\t\tPMutowo\n\t\t\n\t\t\n\t\t\tFAtkinson\n\t\t\n\t\t\n\t\t\tLJBellis\n\t\t\n\t\t\n\t\t\tECibrian-Uhalte\n\t\t\n\t\n\t\n\t\tNucleic. Acids. Res\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34f347723bebd8665a535"},"refKey":29},
{"_key":"60c34f557723bebd8665a588","_id":"references/60c34f557723bebd8665a588","_rev":"_cfFlGwW---","tei":"\n\t\n\t\tAutoSpill: a method for calculating spillover coefficients in high-parameter flow cytometry\n\t\t\n\t\t\tCPRoca\n\t\t\n\t\t\n\t\n\tbioRxiv 2020.06.29.177196 (2020\n\n","document":{"$oid":"60c34f557723bebd8665a587"},"refKey":54},
{"_key":"60c34f557723bebd8665a589","_id":"references/60c34f557723bebd8665a589","_rev":"_cfFlGwi---","tei":"\n\t\n\t\tHMDD v3.0: a database for experimentally supported human microRNA-disease associations\n\t\t\n\t\t\tZHuang\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34f557723bebd8665a587"},"refKey":58},
{"_key":"60c34f627723bebd8665a5a8","_id":"references/60c34f627723bebd8665a5a8","_rev":"_cfFlGwu---","tei":"\n\t\n\t\tSolving QBF with Counterexample Guided Refinement\n\t\t\n\t\t\tMikolášJanota\n\t\t\n\t\t\n\t\t\tWilliamKlieber\n\t\t\n\t\t\n\t\t\tJoaoMarques-Silva\n\t\t\n\t\t\n\t\t\tEdmundClarke\n\t\t\n\t\t10.1007/978-3-642-31612-8_10\n\t\t\n\t\t\n\t\n\t\n\t\tTheory and Applications of Satisfiability Testing – SAT 2012\n\t\t\t\t\n\t\t\tACimatti\n\t\t\tRSebastiani\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t7317\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c34f627723bebd8665a5a7"},"refKey":14},
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{"_key":"60c351717723bebd8665a71c","_id":"references/60c351717723bebd8665a71c","_rev":"_cfFlG1i---","tei":"\n\t\n\t\tCLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers\n\t\t\n\t\t\tRachidOunit\n\t\t\n\t\t\n\t\t\tSteveWanamaker\n\t\t\n\t\t\n\t\t\tTimothyJClose\n\t\t\n\t\t\n\t\t\tStefanoLonardi\n\t\t\n\t\t10.1186/s12864-015-1419-2\n\t\t25879410\n\t\tPMC4428112\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t236\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c351717723bebd8665a71b"},"refKey":41},
{"_key":"60c351717723bebd8665a71d","_id":"references/60c351717723bebd8665a71d","_rev":"_cfFlG1q---","tei":"\n\t\n\t\tIdentification of acquired antimicrobial resistance genes\n\t\t\n\t\t\tEZankari\n\t\t\n\t\t\n\t\t\tHHasman\n\t\t\n\t\t\n\t\t\tSCosentino\n\t\t\n\t\t\n\t\t\tMVestergaard\n\t\t\n\t\t\n\t\t\tSRasmussen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tFMAarestrup\n\t\t\n\t\t\n\t\t\tMVLarsen\n\t\t\n\t\t10.1093/jac/dks261\n\t\t22782487\n\t\tPMC3468078\n\t\t\n\t\n\t\n\t\tJournal of Antimicrobial Chemotherapy\n\t\tJournal of Antimicrobial Chemotherapy\n\t\t0305-7453\n\t\t1460-2091\n\t\t\n\t\t\t67\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c351717723bebd8665a71b"},"refKey":64},
{"_key":"60c351717723bebd8665a71e","_id":"references/60c351717723bebd8665a71e","_rev":"_cfFlG12---","tei":"\n\t\n\t\tKraken: ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDerrickEWood\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2014-15-3-r46\n\t\t24580807\n\t\tPMC4053813\n\t\tdoi: 10.1186/ gb-2014-15-3-r46\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t15\n\t\t\t3\n\t\t\tR46\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c351717723bebd8665a71b"},"refKey":61},
{"_key":"60c351717723bebd8665a71f","_id":"references/60c351717723bebd8665a71f","_rev":"_cfFlG2C---","tei":"\n\t\n\t\tMetaPhlAn2 for enhanced metagenomic taxonomic profiling\n\t\t\n\t\t\tDuyTinTruong\n\t\t\n\t\t\n\t\t\tEricAFranzosa\n\t\t\n\t\t\n\t\t\tTimothyLTickle\n\t\t\n\t\t\n\t\t\tMatthiasScholz\n\t\t\n\t\t\n\t\t\tGeorgeWeingart\n\t\t\n\t\t\n\t\t\tEdoardoPasolli\n\t\t\n\t\t\n\t\t\tAdrianTett\n\t\t\n\t\t\n\t\t\tCurtisHuttenhower\n\t\t\n\t\t\n\t\t\tNicolaSegata\n\t\t\n\t\t10.1038/nmeth.3589\n\t\t26418763\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c351717723bebd8665a71b"},"refKey":55},
{"_key":"60c3519d7723bebd8665a761","_id":"references/60c3519d7723bebd8665a761","_rev":"_cfFlG2O---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3519d7723bebd8665a760"},"refKey":3},
{"_key":"60c351af7723bebd8665a772","_id":"references/60c351af7723bebd8665a772","_rev":"_cfFlG2W---","tei":"\n\t\n\t\tRanking multiple docking solutions based on the conservation of inter-residue contacts\n\t\t\n\t\t\tRominaOliva\n\t\t\n\t\t\n\t\t\tAnnaVangone\n\t\t\n\t\t\n\t\t\tLuigiCavallo\n\t\t\n\t\t10.1002/prot.24314\n\t\t23609916\n\t\tark:/67375/WNG-XMRZ2XRV-L\n\t\t4E9B404F8AD5D573AA249863CF057F77E97B6144\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t81\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":11},
{"_key":"60c351af7723bebd8665a773","_id":"references/60c351af7723bebd8665a773","_rev":"_cfFlG2i---","tei":"\n\t\n\t\tCONSRANK: a server for the analysis, comparison and ranking of docking models based on inter-residue contacts\n\t\t\n\t\t\tEChermak\n\t\t\n\t\t\n\t\t\tAPetta\n\t\t\n\t\t\n\t\t\tLSerra\n\t\t\n\t\t\n\t\t\tAVangone\n\t\t\n\t\t\n\t\t\tVScarano\n\t\t\n\t\t\n\t\t\tLCavallo\n\t\t\n\t\t\n\t\t\tROliva\n\t\t\n\t\t10.1093/bioinformatics/btu837\n\t\t25535242\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":12},
{"_key":"60c351af7723bebd8665a774","_id":"references/60c351af7723bebd8665a774","_rev":"_cfFlG2u---","tei":"\n\t\n\t\tEfficient Restraints for Protein–Protein Docking by Comparison of Observed Amino Acid Substitution Patterns with those Predicted from Local Environment\n\t\t\n\t\t\tVijayalakshmiChelliah\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t\n\t\t\tJuanFernández-Recio\n\t\t\n\t\t10.1016/j.jmb.2006.01.001\n\t\t16488431\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t357\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":22},
{"_key":"60c351af7723bebd8665a775","_id":"references/60c351af7723bebd8665a775","_rev":"_cfFlG22---","tei":"\n\t\n\t\tOn the usefulness of ion-mobility mass spectrometry and SAXS data in scoring docking decoys\n\t\t\n\t\t\tEzgiKaraca\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\n\t\t10.1107/s0907444913007063\n\t\t23633577\n\t\tark:/67375/WNG-NXBNSDJ1-2\n\t\t7DCDA3C4C10B2B9D56AF302BADBC23653E65ED4D\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t69\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":32},
{"_key":"60c351af7723bebd8665a776","_id":"references/60c351af7723bebd8665a776","_rev":"_cfFlG3C---","tei":"\n\t\n\t\tHDOCK: a web server for protein–protein and protein–DNA/RNA docking based on a hybrid strategy\n\t\t\n\t\t\tYumengYan\n\t\t\n\t\t\n\t\t\tDiZhang\n\t\t\n\t\t\n\t\t\tPeiZhou\n\t\t\n\t\t\n\t\t\tBotongLi\n\t\t\n\t\t\n\t\t\tSheng-YouHuang\n\t\t\n\t\t10.1093/nar/gkx407\n\t\t28521030\n\t\tPMC5793843\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":14},
{"_key":"60c351af7723bebd8665a777","_id":"references/60c351af7723bebd8665a777","_rev":"_cfFlG3O---","tei":"\n\t\n\t\tVoroMQA: Assessment of protein structure quality using interatomic contact areas\n\t\t\n\t\t\tKlimentOlechnovič\n\t\t\n\t\t\n\t\t\tČeslovasVenclovas\n\t\t\n\t\t10.1002/prot.25278\n\t\t28263393\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t85\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":10},
{"_key":"60c351af7723bebd8665a778","_id":"references/60c351af7723bebd8665a778","_rev":"_cfFlG3a---","tei":"\n\t\n\t\tIntegrating Cross-Linking Experiments with Ab Initio Protein–Protein Docking\n\t\t\n\t\t\tThomVreven\n\t\t\n\t\t\n\t\t\tDevinKSchweppe\n\t\t\n\t\t\n\t\t\tJuanDChavez\n\t\t\n\t\t\n\t\t\tChadRWeisbrod\n\t\t\n\t\t\n\t\t\tSayakaShibata\n\t\t\n\t\t\n\t\t\tChunxiangZheng\n\t\t\n\t\t\n\t\t\tJamesEBruce\n\t\t\n\t\t\n\t\t\tZhipingWeng\n\t\t\n\t\t10.1016/j.jmb.2018.04.010\n\t\t29665372\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t430\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":37},
{"_key":"60c351af7723bebd8665a779","_id":"references/60c351af7723bebd8665a779","_rev":"_cfFlG3m---","tei":"\n\t\n\t\tIntegrating statistical pair potentials into protein complex prediction\n\t\t\n\t\t\tJulianMintseris\n\t\t\n\t\t\n\t\t\tBrianPierce\n\t\t\n\t\t\n\t\t\tKevinWiehe\n\t\t\n\t\t\n\t\t\tRobertAnderson\n\t\t\n\t\t\n\t\t\tRongChen\n\t\t\n\t\t\n\t\t\tZhipingWeng\n\t\t\n\t\t10.1002/prot.21502\n\t\t17623839\n\t\tark:/67375/WNG-JRBD9M24-C\n\t\t0DC8DC123CA80754E4E62931A8BB632509E576D4\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t69\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":23},
{"_key":"60c351af7723bebd8665a77a","_id":"references/60c351af7723bebd8665a77a","_rev":"_cfFlG3u---","tei":"\n\t\n\t\tLightDock goes information-driven\n\t\t\n\t\t\tJorgeRoel-Touris\n\t\t\t0000-0002-6588-624X\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\t0000-0001-7369-1322\n\t\t\n\t\t\n\t\t\tBrianJiménez-García\n\t\t\n\t\t10.1093/bioinformatics/btz642\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":24},
{"_key":"60c351af7723bebd8665a77b","_id":"references/60c351af7723bebd8665a77b","_rev":"_cfFlG36---","tei":"\n\t\n\t\tStructural Characterization of Protein–Protein Complexes by Integrating Computational Docking with Small-angle Scattering Data\n\t\t\n\t\t\tCarlesPons\n\t\t\n\t\t\n\t\t\tMarcoD’abramo\n\t\t\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t\n\t\t\tModestoOrozco\n\t\t\n\t\t\n\t\t\tPauBernadó\n\t\t\n\t\t\n\t\t\tJuanFernández-Recio\n\t\t\n\t\t10.1016/j.jmb.2010.08.029\n\t\t20804770\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t403\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":29},
{"_key":"60c351af7723bebd8665a77c","_id":"references/60c351af7723bebd8665a77c","_rev":"_cfFlG4G---","tei":"\n\t\n\t\tStuctural characterization of protein-protein interactions with pyDock SAXS\n\t\t\n\t\t\tBJimenez-Garcia\n\t\t\n\t\t\n\t\t\tPBernado\n\t\t\n\t\t\n\t\t\tJFernandez-Recio\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t2112\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":30},
{"_key":"60c351af7723bebd8665a77d","_id":"references/60c351af7723bebd8665a77d","_rev":"_cfFlG4S---","tei":"\n\t\n\t\tpyDockSAXS: protein–protein complex structure by SAXS and computational docking\n\t\t\n\t\t\tBrianJiménez-García\n\t\t\n\t\t\n\t\t\tCarlesPons\n\t\t\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t\n\t\t\tPauBernadó\n\t\t\n\t\t\n\t\t\tJuanFernández-Recio\n\t\t\n\t\t10.1093/nar/gkv368\n\t\t25897115\n\t\tPMC4489248\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":31},
{"_key":"60c351af7723bebd8665a77e","_id":"references/60c351af7723bebd8665a77e","_rev":"_cfFlG4a---","tei":"\n\t\n\t\tModeling Structure and Dynamics of Protein Complexes with SAXS Profiles\n\t\t\n\t\t\tDinaSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tMichalHammel\n\t\t\n\t\t10.1007/978-1-4939-7759-8_29\n\t\t29605933\n\t\tPMC6022765\n\t\t\n\t\n\t\n\t\tProtein Complex Assembly\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1764\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":33},
{"_key":"60c351af7723bebd8665a77f","_id":"references/60c351af7723bebd8665a77f","_rev":"_cfFlG4m---","tei":"\n\t\n\t\tMacromolecular docking restrained by a small angle X-ray scattering profile\n\t\t\n\t\t\tDinaSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tMichalHammel\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1016/j.jsb.2010.09.023\n\t\t20920583\n\t\tPMC3040266\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t173\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c351af7723bebd8665a771"},"refKey":34},
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{"_key":"60c353577723bebd8665a914","_id":"references/60c353577723bebd8665a914","_rev":"_cfFlG86---","tei":"\n\t\n\t\tClassification and regression by randomForest\n\t\t\n\t\t\tALiaw\n\t\t\n\t\t\n\t\t\tMWiener\n\t\t\n\t\n\t\n\t\tR News\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c353577723bebd8665a913"},"refKey":31},
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{"_key":"60c353637723bebd8665a921","_id":"references/60c353637723bebd8665a921","_rev":"_cfFlG9O---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c353637723bebd8665a920"},"refKey":33},
{"_key":"60c353727723bebd8665a935","_id":"references/60c353727723bebd8665a935","_rev":"_cfFlG9a---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c353727723bebd8665a934"},"refKey":32},
{"_key":"60c353727723bebd8665a936","_id":"references/60c353727723bebd8665a936","_rev":"_cfFlG9m---","tei":"\n\t\n\t\tMosdepth: quick coverage calculation for genomes and exomes\n\t\t\n\t\t\tBrentSPedersen\n\t\t\n\t\t\n\t\t\tAaronRQuinlan\n\t\t\n\t\t10.1093/bioinformatics/btx699\n\t\t29096012\n\t\tPMC6030888\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c353727723bebd8665a934"},"refKey":33},
{"_key":"60c353727723bebd8665a937","_id":"references/60c353727723bebd8665a937","_rev":"_cfFlG9y---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c353727723bebd8665a934"},"refKey":31},
{"_key":"60c353727723bebd8665a938","_id":"references/60c353727723bebd8665a938","_rev":"_cfFlG96---","tei":"\n\t\n\t\tLoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasets\n\t\t\n\t\t\tAndreasWilm\n\t\t\n\t\t\n\t\t\tPaulinePoh KimAw\n\t\t\n\t\t\n\t\t\tDenisBertrand\n\t\t\n\t\t\n\t\t\tGraceHui TingYeo\n\t\t\n\t\t\n\t\t\tSweeHoeOng\n\t\t\n\t\t\n\t\t\tChangHuaWong\n\t\t\n\t\t\n\t\t\tChieaChuenKhor\n\t\t\n\t\t\n\t\t\tRosemaryPetric\n\t\t\n\t\t\n\t\t\tMartinLloydHibberd\n\t\t\n\t\t\n\t\t\tNiranjanNagarajan\n\t\t\n\t\t10.1093/nar/gks918\n\t\t23066108\n\t\tPMC3526318\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c353727723bebd8665a934"},"refKey":34},
{"_key":"60c353887723bebd8665a94d","_id":"references/60c353887723bebd8665a94d","_rev":"_cfFlH-G---","tei":"\n\t\n\t\tFormal specification and verification of smart contracts for azure blockchain\n\t\t\n\t\t\tSKLahiri\n\t\t\n\t\t\n\t\t\tSChen\n\t\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tIDillig\n\t\t\n\t\tabs/1812.08829\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c353887723bebd8665a94c"},"refKey":23},
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{"_key":"60c353887723bebd8665a950","_id":"references/60c353887723bebd8665a950","_rev":"_cfFlH-m---","tei":"\n\t\n\t\tThe Coq development team: The coq proof assistant reference manual version\n\t\t\n\t\t\n\t\t\t\n\t\t\t8\n\t\t\n\t\n\n","document":{"$oid":"60c353887723bebd8665a94c"},"refKey":37},
{"_key":"60c353b37723bebd8665a979","_id":"references/60c353b37723bebd8665a979","_rev":"_cfFlH-y---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with\n\t\t\n\t\t\tHLi\n\t\t\n\t\tarXiv:1303.3997\n\t\t\n\t\t\t\n\t\t\n\t\n\tBWA-MEM. arXiv\n\n","document":{"$oid":"60c353b37723bebd8665a978"},"refKey":38},
{"_key":"60c353b37723bebd8665a97a","_id":"references/60c353b37723bebd8665a97a","_rev":"_cfFlH_----","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\t1000 Genome Project Data Processing Subgroup\n\n","document":{"$oid":"60c353b37723bebd8665a978"},"refKey":33},
{"_key":"60c353b37723bebd8665a97b","_id":"references/60c353b37723bebd8665a97b","_rev":"_cfFlH_K---","tei":"\n\t\n\t\tA complete bacterial genome assembled de novo using only nanopore sequencing data\n\t\t\n\t\t\tNicholasJLoman\n\t\t\n\t\t\n\t\t\tJoshuaQuick\n\t\t\n\t\t\n\t\t\tJaredTSimpson\n\t\t\n\t\t10.1038/nmeth.3444\n\t\t26076426\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c353b37723bebd8665a978"},"refKey":34},
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{"_key":"60c3542f7723bebd8665aa31","_id":"references/60c3542f7723bebd8665aa31","_rev":"_cfFlHCy---","tei":"\n\t\n\t\tErratum: Near-optimal probabilistic RNA-seq quantification\n\t\t\n\t\t\tNicolasLBray\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tPállMelsted\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nbt0816-888d\n\t\t27504780\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t34\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c3542f7723bebd8665aa2c"},"refKey":14},
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{"_key":"60c3546f7723bebd8665aa56","_id":"references/60c3546f7723bebd8665aa56","_rev":"_cfFlHDG---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3546f7723bebd8665aa55"},"refKey":3},
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{"_key":"60c3546f7723bebd8665aa59","_id":"references/60c3546f7723bebd8665aa59","_rev":"_cfFlHDm---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2009-10-3-r25\n\t\t19261174\n\t\tPMC2690996\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\tR25\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3546f7723bebd8665aa55"},"refKey":36},
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{"_key":"60c354b17723bebd8665aa7d","_id":"references/60c354b17723bebd8665aa7d","_rev":"_cfFlHEi---","tei":"\n\t\n\t\tComputational tradeoffs in multiplex PCR assay design for SNP genotyping\n\t\t\n\t\t\tJRachlin\n\t\t\n\t\t\n\t\t\tCDing\n\t\t\n\t\t\n\t\t\tCCantor\n\t\t\n\t\t\n\t\t\tSKasif\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t6\n\t\t\t102\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c354b17723bebd8665aa79"},"refKey":28},
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{"_key":"60c354b17723bebd8665aa7f","_id":"references/60c354b17723bebd8665aa7f","_rev":"_cfFlHE6---","tei":"\n\t\n\t\tProfile hidden Markov models\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c354b17723bebd8665aa79"},"refKey":31},
{"_key":"60c354b67723bebd8665aaa7","_id":"references/60c354b67723bebd8665aaa7","_rev":"_cfFlHFG---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c354b67723bebd8665aaa6"},"refKey":42},
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{"_key":"60c355387723bebd8665aaf7","_id":"references/60c355387723bebd8665aaf7","_rev":"_cfFlHFq---","tei":"\n\t\n\t\tA framework for social media data analytics using Elasticsearch and Kibana\n\t\t\n\t\t\tNeelShah\n\t\t\n\t\t\n\t\t\tDarrylWillick\n\t\t\n\t\t\n\t\t\tVijayMago\n\t\t\n\t\t10.1007/s11276-018-01896-2\n\t\n\t\n\t\tWireless Networks\n\t\tWireless Netw\n\t\t1022-0038\n\t\t1572-8196\n\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tin press\n\n","document":{"$oid":"60c355387723bebd8665aaf5"},"refKey":23},
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{"_key":"60c3563c7723bebd8665ac29","_id":"references/60c3563c7723bebd8665ac29","_rev":"_cfFlHGW---","tei":"\n\t\n\t\tAnylogic Simulator\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tLast Accessed on\n\n","document":{"$oid":"60c3563c7723bebd8665ac28"},"refKey":38},
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{"_key":"60c356eb7723bebd8665ad14","_id":"references/60c356eb7723bebd8665ad14","_rev":"_cfFlHIi---","tei":"\n\t\n\t\tBayesian Deconvolution of Mass and Ion Mobility Spectra: From Binary Interactions to Polydisperse Ensembles\n\t\t\n\t\t\tMichaelTMarty\n\t\t\n\t\t\n\t\t\tAndrewJBaldwin\n\t\t\n\t\t\n\t\t\tErikGMarklund\n\t\t\n\t\t\n\t\t\tGeorgK AHochberg\n\t\t\n\t\t\n\t\t\tJustinL PBenesch\n\t\t\n\t\t\n\t\t\tCarolVRobinson\n\t\t\n\t\t10.1021/acs.analchem.5b00140\n\t\t25799115\n\t\tPMC4594776\n\t\t\n\t\n\t\n\t\tAnalytical Chemistry\n\t\tAnal. Chem.\n\t\t0003-2700\n\t\t1520-6882\n\t\t\n\t\t\t87\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c356eb7723bebd8665ad13"},"refKey":49},
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{"_key":"60c3576c7723bebd8665ad92","_id":"references/60c3576c7723bebd8665ad92","_rev":"_cfFlHLy---","tei":"\n\t\n\t\tCactus: Algorithms for genome multiple sequence alignment\n\t\t\n\t\t\tBPaten\n\t\t\n\t\t\n\t\t\tDEarl\n\t\t\n\t\t\n\t\t\tNNguyen\n\t\t\n\t\t\n\t\t\tMDiekhans\n\t\t\n\t\t\n\t\t\tDZerbino\n\t\t\n\t\t\n\t\t\tDHaussler\n\t\t\n\t\t10.1101/gr.123356.111\n\t\t21665927\n\t\tPMC3166836\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3576c7723bebd8665ad8e"},"refKey":26},
{"_key":"60c3576c7723bebd8665ad93","_id":"references/60c3576c7723bebd8665ad93","_rev":"_cfFlHM----","tei":"\n\t\n\t\tGene prediction with a hidden Markov model and a new intron submodel\n\t\t\n\t\t\tMStanke\n\t\t\n\t\t\n\t\t\tSWaack\n\t\t\n\t\t10.1093/bioinformatics/btg1080\n\t\t14534192\n\t\t1460-2059\n\t\tark:/67375/HXZ-SZ67DC7V-K\n\t\t5F8542E0C635209DA949CF59ACBC0BEBA3EF2A49\n\t\tdoi: 10.1093/ bioinformatics/btg1080\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\tSuppl 2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3576c7723bebd8665ad8e"},"refKey":34},
{"_key":"60c357917723bebd8665adbd","_id":"references/60c357917723bebd8665adbd","_rev":"_cfFlHMK---","tei":"\n\t\n\t\tProbabilistic programming in Python using PyMC3\n\t\t\n\t\t\tJohnSalvatier\n\t\t\n\t\t\n\t\t\tThomasVWiecki\n\t\t\n\t\t\n\t\t\tChristopherFonnesbeck\n\t\t\n\t\t10.7287/peerj.preprints.1686\n\t\t\n\t\n\t\n\t\tPeerJ Computer Science\n\t\t\n\t\t\t2\n\t\t\te55\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c357917723bebd8665adbc"},"refKey":55},
{"_key":"60c357a37723bebd8665adc6","_id":"references/60c357a37723bebd8665adc6","_rev":"_cfFlHMS---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c357a37723bebd8665adc5"},"refKey":75},
{"_key":"60c357a37723bebd8665adc7","_id":"references/60c357a37723bebd8665adc7","_rev":"_cfFlHMe---","tei":"\n\t\n\t\tCRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins\n\t\t\n\t\t\tDavidCouvin\n\t\t\n\t\t\n\t\t\tAudeBernheim\n\t\t\n\t\t\n\t\t\tClaireToffano-Nioche\n\t\t\n\t\t\n\t\t\tMarieTouchon\n\t\t\n\t\t\n\t\t\tJurajMichalik\n\t\t\n\t\t\n\t\t\tBertrandNéron\n\t\t\n\t\t\n\t\t\tEduardoP CRocha\n\t\t\t0000-0001-7704-822X\n\t\t\n\t\t\n\t\t\tGillesVergnaud\n\t\t\n\t\t\n\t\t\tDanielGautheret\n\t\t\n\t\t\n\t\t\tChristinePourcel\n\t\t\n\t\t10.1093/nar/gky425\n\t\t29790974\n\t\tPMC6030898\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c357a37723bebd8665adc5"},"refKey":76},
{"_key":"60c357a37723bebd8665adc8","_id":"references/60c357a37723bebd8665adc8","_rev":"_cfFlHMq---","tei":"\n\t\n\t\tR: a language and environment for statistical computing (R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c357a37723bebd8665adc5"},"refKey":87},
{"_key":"60c357a37723bebd8665adc9","_id":"references/60c357a37723bebd8665adc9","_rev":"_cfFlHM2---","tei":"\n\t\n\t\tHidden Markov model speed heuristic and iterative HMM search procedure\n\t\t\n\t\t\tLSJohnson\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tEPortugaly\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t11\n\t\t\t431\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c357a37723bebd8665adc5"},"refKey":82},
{"_key":"60c357a37723bebd8665adca","_id":"references/60c357a37723bebd8665adca","_rev":"_cfFlHNC---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c357a37723bebd8665adc5"},"refKey":72},
{"_key":"60c357a37723bebd8665adcb","_id":"references/60c357a37723bebd8665adcb","_rev":"_cfFlHNO---","tei":"\n\t\n\t\tSnakemake—a scalable bioinformatics workflow engine\n\t\t\n\t\t\tJohannesKöster\n\t\t\n\t\t\n\t\t\tSvenRahmann\n\t\t\n\t\t10.1093/bioinformatics/bty350\n\t\t29788404\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c357a37723bebd8665adc5"},"refKey":93},
{"_key":"60c357a37723bebd8665adcc","_id":"references/60c357a37723bebd8665adcc","_rev":"_cfFlHNa---","tei":"\n\t\n\t\tsourmash: a library for MinHash sketching of DNA\n\t\t\n\t\t\tCTBrown\n\t\t\n\t\t\n\t\t\tLIrber\n\t\t\n\t\n\t\n\t\tJ. Open Source Softw\n\t\t\n\t\t\t1\n\t\t\t27\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c357a37723bebd8665adc5"},"refKey":65},
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{"_key":"60c357b87723bebd8665ae0e","_id":"references/60c357b87723bebd8665ae0e","_rev":"_cfFlHOG---","tei":"\n\t\n\t\tMetaPocket: A Meta Approach to Improve Protein Ligand Binding Site Prediction\n\t\t\n\t\t\tBingdingHuang\n\t\t\n\t\t10.1089/omi.2009.0045\n\t\t19645590\n\t\t\n\t\t\n\t\n\t\n\t\tOMICS: A Journal of Integrative Biology\n\t\tOMICS: A Journal of Integrative Biology\n\t\t1536-2310\n\t\t1557-8100\n\t\t\n\t\t\t13\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c357b87723bebd8665ae0c"},"refKey":37},
{"_key":"60c357b87723bebd8665ae0f","_id":"references/60c357b87723bebd8665ae0f","_rev":"_cfFlHOS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAMichael\n\t\t\n\t\t\n\t\t\tCAhlmann-Eltze\n\t\t\n\t\t\n\t\t\tAndersSHuber\n\t\t\n\t\t\n\t\t\tWPackage\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c357b87723bebd8665ae0c"},"refKey":27},
{"_key":"60c357b87723bebd8665ae10","_id":"references/60c357b87723bebd8665ae10","_rev":"_cfFlHOe---","tei":"\n\t\n\t\tDeepDTA: deep drug–target binding affinity prediction\n\t\t\n\t\t\tHakimeÖztürk\n\t\t\n\t\t\n\t\t\tArzucanÖzgür\n\t\t\n\t\t\n\t\t\tElifOzkirimli\n\t\t\n\t\t10.1093/bioinformatics/bty593\n\t\t30423097\n\t\tPMC6129291\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c357b87723bebd8665ae0c"},"refKey":46},
{"_key":"60c357b87723bebd8665ae11","_id":"references/60c357b87723bebd8665ae11","_rev":"_cfFlHOm---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c357b87723bebd8665ae0c"},"refKey":24},
{"_key":"60c357b87723bebd8665ae12","_id":"references/60c357b87723bebd8665ae12","_rev":"_cfFlHOy---","tei":"\n\t\n\t\tStructure validation by C alpha geomF\n\t\t\n\t\t\tSCLovell\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tWBAdrendall\n\t\t\n\t\t\n\t\t\tPI WDe Bakker\n\t\t\n\t\t\n\t\t\tJMWord\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tSAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tE WMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t10.1002/prot.10286\n\t\t\n\t\n\t\n\t\tProteins-Structure Function and Genetics\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tJ Mol Biol\n\n","document":{"$oid":"60c357b87723bebd8665ae0c"},"refKey":34},
{"_key":"60c357b87723bebd8665ae13","_id":"references/60c357b87723bebd8665ae13","_rev":"_cfFlHP----","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c357b87723bebd8665ae0c"},"refKey":25},
{"_key":"60c357b87723bebd8665ae14","_id":"references/60c357b87723bebd8665ae14","_rev":"_cfFlHPK---","tei":"\n\t\n\t\tSWISS-MODEL: an automated protein homology-modeling server\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tNGuex\n\t\t\n\t\t\n\t\t\tMCPeitsch\n\t\t\n\t\t10.1093/nar/gkg520\n\t\t12824332\n\t\tPMC168927\n\t\tark:/67375/HXZ-ZGZG4B3V-C\n\t\tFD3DFE298FA3BFF15DD8573F36B4AD66B4421562\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c357b87723bebd8665ae0c"},"refKey":33},
{"_key":"60c357b87723bebd8665ae15","_id":"references/60c357b87723bebd8665ae15","_rev":"_cfFlHPS---","tei":"\n\t\n\t\t2 » � Eø � I,Ð Ôμ € A © 19 9 2 nature publishing group\n\t\t\n\t\t\tCTKresge\n\t\t\n\t\t\n\t\t\tMELeonowicz\n\t\t\n\t\t\n\t\t\tWJRoth\n\t\t\n\t\t\n\t\t\tJCVartuli\n\t\t\n\t\t\n\t\t\tJSBeck\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t359\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c357b87723bebd8665ae0c"},"refKey":36},
{"_key":"60c357b87723bebd8665ae16","_id":"references/60c357b87723bebd8665ae16","_rev":"_cfFlHPe---","tei":"\n\t\n\t\tWebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tEJJaehnig\n\t\t\n\t\t\n\t\t\tZShi\n\t\t\n\t\t\n\t\t\tBZhang\n\t\t\n\t\t10.1093/nar/gkz401\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c357b87723bebd8665ae0c"},"refKey":30},
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{"_key":"60c357c27723bebd8665ae39","_id":"references/60c357c27723bebd8665ae39","_rev":"_cfFlHPy---","tei":"\n\t\n\t\tA simple, fast and accurate method to estimate large phylogenies by maximum-likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSystematic Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c357c27723bebd8665ae37"},"refKey":43},
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{"_key":"60c358a77723bebd8665af80","_id":"references/60c358a77723bebd8665af80","_rev":"_cfFlHVC---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMächler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\tarXiv:1406.5823\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c358a77723bebd8665af7f"},"refKey":25},
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{"_key":"60c35b437723bebd8665b170","_id":"references/60c35b437723bebd8665b170","_rev":"_cfFlHda---","tei":"\n\t\n\t\tA Novel Interface for Sharing the Human Cell IPF Atlas\n\t\t\n\t\t\tNNeumark\n\t\t\n\t\t\n\t\t\tTAdams\n\t\t\n\t\t\n\t\t\tJCSchupp\n\t\t\n\t\t\n\t\t\tXYan\n\t\t\n\t\t\n\t\t\tSPoli De Frias\n\t\t\n\t\t\n\t\t\tNKaminski\n\t\t\n\t\t10.1164/ajrccm-conference.2019.199.1_meetingabstracts.a6076\n\t\t\n\t\n\t\n\t\tD29. LUNG MULTI-OMICS TO MECHANISM\n\t\t\t\t\n\t\t\tAmerican Thoracic Society\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c35b437723bebd8665b16c"},"refKey":4},
{"_key":"60c35b557723bebd8665b18c","_id":"references/60c35b557723bebd8665b18c","_rev":"_cfFlHdm---","tei":"\n\t\n\t\tCytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\t10.1101/gr.1239303\n\t\t14597658\n\t\tPMC403769\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c35b557723bebd8665b18b"},"refKey":44},
{"_key":"60c35b767723bebd8665b1a3","_id":"references/60c35b767723bebd8665b1a3","_rev":"_cfFlHdu---","tei":"\n\t\n\t\tAntileishmanial Activity, Cytotoxicity and Mechanism of Action of Clioquinol Against Leishmania infantum and Leishmania amazonensis Species\n\t\t\n\t\t\tGrasieleDe Sousa VieiraTavares\n\t\t\n\t\t\n\t\t\tDéboraVasconcelos CostaMendonça\n\t\t\n\t\t\n\t\t\tDanielaPagliaraLage\n\t\t\n\t\t\n\t\t\tJulianaDa TrindadeGranato\n\t\t\n\t\t\n\t\t\tFlavianoMeloOttoni\n\t\t\n\t\t\n\t\t\tFernandaLudolf\n\t\t\n\t\t\n\t\t\tMiguelAngelChávez-Fumagalli\n\t\t\n\t\t\n\t\t\tMarianaCostaDuarte\n\t\t\n\t\t\n\t\t\tCarlosAlberto PereiraTavares\n\t\t\n\t\t\n\t\t\tRicardoJoséAlves\n\t\t\n\t\t\n\t\t\tElaineSoaresCoimbra\n\t\t\n\t\t\n\t\t\tEduardoAntonio FerrazCoelho\n\t\t\n\t\t10.1111/bcpt.12990\n\t\t29481714\n\t\t\n\t\n\t\n\t\tBasic & Clinical Pharmacology & Toxicology\n\t\tBasic Clin Pharmacol Toxicol\n\t\t1742-7835\n\t\t\n\t\t\t123\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c35b767723bebd8665b1a2"},"refKey":15},
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{"_key":"60c35ba37723bebd8665b1c8","_id":"references/60c35ba37723bebd8665b1c8","_rev":"_cfFlHeG---","tei":"\n\t\n\t\tBiostrings: efficient manipulation of biological strings\n\t\t\n\t\t\tHPages\n\t\t\n\t\t\n\t\t\tPAboyoun\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\t\n\t\t\tSDebroy\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c35ba37723bebd8665b1c7"},"refKey":23},
{"_key":"60c35ba37723bebd8665b1c9","_id":"references/60c35ba37723bebd8665b1c9","_rev":"_cfFlHeS---","tei":"\n\t\n\t\tSeqinR 1.0-2: A Contributed Package to the R Project for Statistical Computing Devoted to Biological Sequences Retrieval and Analysis\n\t\t\n\t\t\tDelphineCharif\n\t\t\n\t\t\n\t\t\tJeanRLobry\n\t\t\n\t\t10.1007/978-3-540-35306-5_10\n\t\tark:/67375/HCB-L69H3WCB-D\n\t\t614751033F60262E6F2C28C51797816F3DF07C6B\n\t\n\t\n\t\tStructural Approaches to Sequence Evolution\n\t\t\t\t\n\t\t\tMBastolla\n\t\t\tHEPorto\n\t\t\tMRoman\n\t\t\tVendruscolo\n\t\t\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c35ba37723bebd8665b1c7"},"refKey":3},
{"_key":"60c35bb37723bebd8665b1de","_id":"references/60c35bb37723bebd8665b1de","_rev":"_cfFlHee---","tei":"\n\t\n\t\tAirLab: a cloud-based platform to manage and share antibody-based single-cell research\n\t\t\n\t\t\tRaúlCatena\n\t\t\n\t\t\n\t\t\tAlazÖzcan\n\t\t\n\t\t\n\t\t\tAndreaJacobs\n\t\t\n\t\t\n\t\t\tStephaneChevrier\n\t\t\n\t\t\n\t\t\tBerndBodenmiller\n\t\t\n\t\t10.1186/s13059-016-1006-0\n\t\t27356760\n\t\tPMC4928244\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t142\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c35bb37723bebd8665b1dd"},"refKey":75},
{"_key":"60c35bb87723bebd8665b1f5","_id":"references/60c35bb87723bebd8665b1f5","_rev":"_cfFlHeq---","tei":"\n\t\n\t\tOpenVirtualToxLab—A platform for generating and exchanging in silico toxicity data\n\t\t\n\t\t\tAngeloVedani\n\t\t\n\t\t\n\t\t\tMaxDobler\n\t\t\n\t\t\n\t\t\tZhenquanHu\n\t\t\n\t\t\n\t\t\tMartinSmieško\n\t\t\n\t\t10.1016/j.toxlet.2014.09.004\n\t\t25240273\n\t\n\t\n\t\tToxicology Letters\n\t\tToxicology Letters\n\t\t0378-4274\n\t\t\n\t\t\t232\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c35bb87723bebd8665b1f4"},"refKey":22},
{"_key":"60c35bb87723bebd8665b1f6","_id":"references/60c35bb87723bebd8665b1f6","_rev":"_cfFlHe2---","tei":"\n\t\n\t\tVirtualToxLab — A platform for estimating the toxic potential of drugs, chemicals and natural products\n\t\t\n\t\t\tAngeloVedani\n\t\t\n\t\t\n\t\t\tMaxDobler\n\t\t\n\t\t\n\t\t\tMartinSmieško\n\t\t\n\t\t10.1016/j.taap.2012.03.018\n\t\t22521603\n\t\n\t\n\t\tToxicology and Applied Pharmacology\n\t\tToxicology and Applied Pharmacology\n\t\t0041-008X\n\t\t\n\t\t\t261\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c35bb87723bebd8665b1f4"},"refKey":79},
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{"_key":"60c35bcf7723bebd8665b223","_id":"references/60c35bcf7723bebd8665b223","_rev":"_cfFlHfu---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tGHeijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tProc. Int. Conf. Intell. Syst. Mol. Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c35bcf7723bebd8665b221"},"refKey":19},
{"_key":"60c35bcf7723bebd8665b224","_id":"references/60c35bcf7723bebd8665b224","_rev":"_cfFlHf6---","tei":"\n\t\n\t\tTMbase -a database of membrane spanning protein segments\n\t\t\n\t\t\tKHofmann\n\t\t\n\t\t\n\t\t\tWStoffel\n\t\t\n\t\n\t\n\t\tBiol. Chem. Hoppe Seyler\n\t\t\n\t\t\t374\n\t\t\t166\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c35bcf7723bebd8665b221"},"refKey":20},
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{"_key":"60c35be47723bebd8665b245","_id":"references/60c35be47723bebd8665b245","_rev":"_cfFlHgm---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDaWeiHuang\n\t\t\n\t\t\n\t\t\tBradTSherman\n\t\t\n\t\t\n\t\t\tRichardALempicki\n\t\t\n\t\t10.1038/nprot.2008.211\n\t\t19131956\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c35be47723bebd8665b243"},"refKey":28},
{"_key":"60c35c057723bebd8665b261","_id":"references/60c35c057723bebd8665b261","_rev":"_cfFlHgy---","tei":"\n\t\n\t\tR: A language for data analysis and graphics\n\t\t\n\t\t\tRIhaka\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\n\t\n\t\tJ. Comput. Graphical Statist\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tNature\n\n","document":{"$oid":"60c35c057723bebd8665b260"},"refKey":8},
{"_key":"60c35c057723bebd8665b262","_id":"references/60c35c057723bebd8665b262","_rev":"_cfFlHg6---","tei":"\n\t\n\t\tThe International HapMap Project web site\n\t\t\n\t\t\tGAThorisson\n\t\t\n\t\t\n\t\t\tAVSmith\n\t\t\n\t\t\n\t\t\tLKrishnan\n\t\t\n\t\t\n\t\t\tLDStein\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c35c057723bebd8665b260"},"refKey":16},
{"_key":"60c35c167723bebd8665b268","_id":"references/60c35c167723bebd8665b268","_rev":"_cfFlHhG---","tei":"\n\t\n\t\tGoogle Trends; explore search term PPE\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c35c167723bebd8665b267"},"refKey":6},
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{"_key":"60c35ebd7723bebd8665b522","_id":"references/60c35ebd7723bebd8665b522","_rev":"_cfFlHtu---","tei":"\n\t\n\t\tCENTROIDFOLD: a web server for RNA secondary structure prediction\n\t\t\n\t\t\tKSato\n\t\t\n\t\t\n\t\t\tMHamada\n\t\t\n\t\t\n\t\t\tKAsai\n\t\t\n\t\t\n\t\t\tTMituyama\n\t\t\n\t\t10.1093/nar/gkp367\n\t\t19435882\n\t\tPMC2703931\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c35ebd7723bebd8665b51e"},"refKey":35},
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{"_key":"60c35f227723bebd8665b5b2","_id":"references/60c35f227723bebd8665b5b2","_rev":"_cfFlHwi---","tei":"\n\t\n\t\tBuilding predictive models in R using the caret package\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t28\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c35f227723bebd8665b5b1"},"refKey":43},
{"_key":"60c35f227723bebd8665b5b3","_id":"references/60c35f227723bebd8665b5b3","_rev":"_cfFlHwu---","tei":"\n\t\n\t\tTest-Based Exact Confidence Intervals for the Difference of Two Binomial Proportions\n\t\t\n\t\t\tIvanS FChan\n\t\t\n\t\t\n\t\t\tZhongxinZhang\n\t\t\n\t\t10.1111/j.0006-341x.1999.01202.x\n\t\t11315068\n\t\tark:/67375/WNG-N219RT0D-6\n\t\t2C24D57FE5A94CC1B9BE9759183F89ECFFDBFEC9\n\t\n\t\n\t\tBiometrics\n\t\t0006-341X\n\t\t\n\t\t\t55\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c35f227723bebd8665b5b1"},"refKey":44},
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{"_key":"60c360647723bebd8665b741","_id":"references/60c360647723bebd8665b741","_rev":"_cfFlH3K---","tei":"\n\t\n\t\tColorimetry\n\t\t\n\t\t\tINimeroff\n\t\t\n\t\t10.6028/nbs.mono.104\n\t\t\n\t\t\t\n\t\t\tNational Bureau of Standards\n\t\t\t104\n\t\t\t47\n\t\t\n\t\t\n\t\t\tColorimetry National Bureau of Standards. Monograph\n\t\t\n\t\n\n","document":{"$oid":"60c360647723bebd8665b734"},"refKey":8},
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{"_key":"60c360747723bebd8665b754","_id":"references/60c360747723bebd8665b754","_rev":"_cfFlH4O---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tAdrianPlatts\n\t\t\n\t\t\n\t\t\tLeLilyWang\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tLuanWang\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\tPMC3679285\n\t\t\n\t\t\n\t\n\t\n\t\tFly\n\t\tFly\n\t\t1933-6934\n\t\t1933-6942\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c360747723bebd8665b74f"},"refKey":17},
{"_key":"60c360747723bebd8665b755","_id":"references/60c360747723bebd8665b755","_rev":"_cfFlH4a---","tei":"\n\t\n\t\tSupervised Multiblock Analysis in R with the ade4 Package\n\t\t\n\t\t\tStéphanieBougeard\n\t\t\n\t\t\n\t\t\tStéphaneDray\n\t\t\n\t\t10.18637/jss.v086.i01\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t86\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c360747723bebd8665b74f"},"refKey":11},
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{"_key":"60c360747723bebd8665b758","_id":"references/60c360747723bebd8665b758","_rev":"_cfFlH5----","tei":"\n\t\n\t\tInference of Population Structure using Dense Haplotype Data\n\t\t\n\t\t\tDanielJohnLawson\n\t\t\n\t\t\n\t\t\tGarrettHellenthal\n\t\t\n\t\t\n\t\t\tSimonMyers\n\t\t\n\t\t\n\t\t\tDanielFalush\n\t\t\n\t\t10.1371/journal.pgen.1002453\n\t\t22291602\n\t\tPMC3266881\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS Genetics\n\t\tPLoS Genet\n\t\t1553-7404\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\te1002453\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c360747723bebd8665b74f"},"refKey":60},
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{"_key":"60c360747723bebd8665b75c","_id":"references/60c360747723bebd8665b75c","_rev":"_cfFlH5u---","tei":"\n\t\n\t\tA proposal for the reference-based annotation of de novo transposable element insertions\n\t\t\n\t\t\tCaseyMBergman\n\t\t\n\t\t10.4161/mge.19479\n\t\t22754753\n\t\tPMC3383450\n\t\t\n\t\t\n\t\n\t\n\t\tMobile Genetic Elements\n\t\tMobile Genetic Elements\n\t\t2159-256X\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c360747723bebd8665b74f"},"refKey":4},
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{"_key":"60c362aa7723bebd8665b8f5","_id":"references/60c362aa7723bebd8665b8f5","_rev":"_cfFlI_O---","tei":"\n\t\n\t\tBayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tRemcoRBouckaert\n\t\t\n\t\t10.1017/cbo9781139095112.007\n\t\n\t\n\t\tBayesian Evolutionary Analysis with BEAST\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2007\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c362aa7723bebd8665b8f4"},"refKey":21},
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{"_key":"60c362c27723bebd8665b911","_id":"references/60c362c27723bebd8665b911","_rev":"_cfFlI_u---","tei":"\n\t\n\t\tImproved metagenomic analysis with Kraken 2\n\t\t\n\t\t\tDerrickEWood\n\t\t\t0000-0002-7429-1854\n\t\t\n\t\t\n\t\t\tJenniferLu\n\t\t\t0000-0001-9167-2002\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\t0000-0003-2437-1976\n\t\t\n\t\t10.1101/762302\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t762302\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c362c27723bebd8665b910"},"refKey":33},
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{"_key":"60c3636a7723bebd8665b9b2","_id":"references/60c3636a7723bebd8665b9b2","_rev":"_cfFlIDS---","tei":"\n\t\n\t\tRStan: the R interface to Stan\n\t\t\n\t\t\tStanDevelopment Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3636a7723bebd8665b9b0"},"refKey":33},
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{"_key":"60c363d17723bebd8665b9fb","_id":"references/60c363d17723bebd8665b9fb","_rev":"_cfFlIE----","tei":"\n\t\n\t\tComplex heatmaps reveal patterns and correlations in multidimensional genomic data\n\t\t\n\t\t\tZGu\n\t\t\n\t\t\n\t\t\tREils\n\t\t\n\t\t\n\t\t\tMSchlesner\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c363d17723bebd8665b9fa"},"refKey":50},
{"_key":"60c363fe7723bebd8665ba21","_id":"references/60c363fe7723bebd8665ba21","_rev":"_cfFlIEK---","tei":"\n\t\n\t\tCHARMM-GUI: A web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tTaehoonKim\n\t\t\n\t\t\n\t\t\tVidyashankaraGIyer\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.20945\n\t\t18351591\n\t\tark:/67375/WNG-B51MBQFN-X\n\t\t3C9C30FE6273AB7B8632EBBA4EF6F91FEFB8F531\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tJournal of Computational Chemistry\n\n","document":{"$oid":"60c363fe7723bebd8665ba20"},"refKey":12},
{"_key":"60c3641a7723bebd8665ba3b","_id":"references/60c3641a7723bebd8665ba3b","_rev":"_cfFlIEW---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3641a7723bebd8665ba3a"},"refKey":27},
{"_key":"60c3641b7723bebd8665ba42","_id":"references/60c3641b7723bebd8665ba42","_rev":"_cfFlIEi---","tei":"\n\t\n\t\tFitting a mixture model by expectation maximization to discover motifs in biopolymers\n\t\t\n\t\t\tTLBailey\n\t\t\n\t\t\n\t\t\tCElkan\n\t\t\n\t\n\t\n\t\tProc. Int. Conf. Intell. Syst. Mol. Biol\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3641b7723bebd8665ba41"},"refKey":2},
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{"_key":"60c364487723bebd8665ba52","_id":"references/60c364487723bebd8665ba52","_rev":"_cfFlIFS---","tei":"\n\t\n\t\tStatistical power analyses using G*Power 3.1: Tests for correlation and regression analyses\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t10.3758/brm.41.4.1149\n\t\t19897823\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c364487723bebd8665ba51"},"refKey":29},
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{"_key":"60c365697723bebd8665bb60","_id":"references/60c365697723bebd8665bb60","_rev":"_cfFlIHu---","tei":"\n\t\n\t\tModern Applied Statistics with S-PLUS\n\t\t\n\t\t\tWNVenables\n\t\t\n\t\t\n\t\t\tBDRipley\n\t\t\n\t\t10.1007/978-1-4757-3121-7\n\t\t\n\t\t\t\n\t\t\tSpringer New York\n\t\t\tNew York\n\t\t\n\t\n\t4th ed\n\n","document":{"$oid":"60c365697723bebd8665bb5f"},"refKey":11},
{"_key":"60c365697723bebd8665bb61","_id":"references/60c365697723bebd8665bb61","_rev":"_cfFlIH6---","tei":"\n\t\n\t\tElegant Graphics for Data Analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c365697723bebd8665bb5f"},"refKey":13},
{"_key":"60c365707723bebd8665bb65","_id":"references/60c365707723bebd8665bb65","_rev":"_cfFlIIG---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC\n\t\t\n\t\n\n","document":{"$oid":"60c365707723bebd8665bb64"},"refKey":71},
{"_key":"60c365707723bebd8665bb66","_id":"references/60c365707723bebd8665bb66","_rev":"_cfFlIIS---","tei":"\n\t\n\t\tSWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information\n\t\t\n\t\t\tMBiasini\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c365707723bebd8665bb64"},"refKey":69},
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{"_key":"60c365707723bebd8665bb68","_id":"references/60c365707723bebd8665bb68","_rev":"_cfFlIIq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tStatisticsMatlab\n\t\t\n\t\t\n\t\t\tToolbox\n\t\t\n\t\t\n\t\t\tThe MathWorks, Inc\n\t\t\n\t\n\n","document":{"$oid":"60c365707723bebd8665bb64"},"refKey":65},
{"_key":"60c365707723bebd8665bb69","_id":"references/60c365707723bebd8665bb69","_rev":"_cfFlII2---","tei":"\n\t\n\t\tGeneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c365707723bebd8665bb64"},"refKey":64},
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{"_key":"60c3658c7723bebd8665bb8b","_id":"references/60c3658c7723bebd8665bb8b","_rev":"_cfFlIJS---","tei":"\n\t\n\t\tClustalW and ClustalX version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibsonand\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3658c7723bebd8665bb8a"},"refKey":15},
{"_key":"60c3658c7723bebd8665bb8c","_id":"references/60c3658c7723bebd8665bb8c","_rev":"_cfFlIJe---","tei":"\n\t\n\t\tProtein structure prediction on the web: a case study using the Phyre server\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tMjeSternberg\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3658c7723bebd8665bb8a"},"refKey":14},
{"_key":"60c3658c7723bebd8665bb8d","_id":"references/60c3658c7723bebd8665bb8d","_rev":"_cfFlIJq---","tei":"\n\t\n\t\tJalview version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDmaMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3658c7723bebd8665bb8a"},"refKey":16},
{"_key":"60c365a37723bebd8665bbb2","_id":"references/60c365a37723bebd8665bbb2","_rev":"_cfFlIJ2---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-A metadatadriven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\n\t\n\t\tJ. Biomed. Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c365a37723bebd8665bbb1"},"refKey":31},
{"_key":"60c365c77723bebd8665bbc9","_id":"references/60c365c77723bebd8665bbc9","_rev":"_cfFlIKC---","tei":"\n\t\n\t\tStatistical power analyses using G*Power 3.1: Tests for correlation and regression analyses\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t10.3758/brm.41.4.1149\n\t\t19897823\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c365c77723bebd8665bbc8"},"refKey":25},
{"_key":"60c365d97723bebd8665bbd5","_id":"references/60c365d97723bebd8665bbd5","_rev":"_cfFlIKO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tOr-Library\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t13\n\t\t\n\t\n\n","document":{"$oid":"60c365d97723bebd8665bbd4"},"refKey":7},
{"_key":"60c365f67723bebd8665bbff","_id":"references/60c365f67723bebd8665bbff","_rev":"_cfFlIKa---","tei":"\n\t\n\t\tEpiEstim: Estimate Time Varying Reproduction Numbers from Epidemic Curves\n\t\t\n\t\t\tCoriA\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c365f67723bebd8665bbfe"},"refKey":17},
{"_key":"60c365f67723bebd8665bc00","_id":"references/60c365f67723bebd8665bc00","_rev":"_cfFlIKm---","tei":"\n\t\n\t\tEstimating the time-varying reproduction number of SARS-CoV-2 using national and subnational case counts\n\t\t\n\t\t\tSAbbott\n\t\t\n\t\t\n\t\t\tJHellewell\n\t\t\n\t\t\n\t\t\tRThompson\n\t\t\n\t\t\n\t\t\tKSherratt\n\t\t\n\t\t\n\t\t\tHGibbs\n\t\t\n\t\t\n\t\t\tNBosse\n\t\t\n\t\t\n\t\n\tversion 1; peer review: awaiting peer review\n\n","document":{"$oid":"60c365f67723bebd8665bbfe"},"refKey":38},
{"_key":"60c365f67723bebd8665bc01","_id":"references/60c365f67723bebd8665bc01","_rev":"_cfFlIKy---","tei":"\n\t\n\t\tImproved inference of time-varying reproduction numbers during infectious disease outbreaks\n\t\t\n\t\t\tRNThompson\n\t\t\n\t\t\n\t\t\tJEStockwin\n\t\t\n\t\t\n\t\t\tRDVan Gaalen\n\t\t\n\t\t\n\t\t\tJAPolonsky\n\t\t\n\t\t\n\t\t\tZNKamvar\n\t\t\n\t\t\n\t\t\tPADemarsh\n\t\t\n\t\t\n\t\t\tEDahlqwist\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tEMiguel\n\t\t\n\t\t\n\t\t\tTJombart\n\t\t\n\t\t\n\t\t\tJLessler\n\t\t\n\t\t\n\t\t\tSCauchemez\n\t\t\n\t\t\n\t\t\tACori\n\t\t\n\t\t10.1016/j.epidem.2019.100356\n\t\t\n\t\n\t\n\t\tEpidemics\n\t\tEpidemics\n\t\t1755-4365\n\t\t\n\t\t\t29\n\t\t\t100356\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c365f67723bebd8665bbfe"},"refKey":12},
{"_key":"60c366097723bebd8665bc21","_id":"references/60c366097723bebd8665bc21","_rev":"_cfFlIL----","tei":"\n\t\n\t\tPASTA: Ultra-Large Multiple Sequence Alignment for Nucleotide and Amino-Acid Sequences\n\t\t\n\t\t\tSiavashMirarab\n\t\t\n\t\t\n\t\t\tNamNguyen\n\t\t\n\t\t\n\t\t\tShengGuo\n\t\t\n\t\t\n\t\t\tLi-SanWang\n\t\t\n\t\t\n\t\t\tJunhyongKim\n\t\t\n\t\t\n\t\t\tTandyWarnow\n\t\t\n\t\t10.1089/cmb.2014.0156\n\t\t25549288\n\t\tPMC4424971\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t22\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c366097723bebd8665bc20"},"refKey":30},
{"_key":"60c366097723bebd8665bc22","_id":"references/60c366097723bebd8665bc22","_rev":"_cfFlILK---","tei":"\n\t\n\t\tDendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tCelineScornavacca\n\t\t\n\t\t10.1093/sysbio/sys062\n\t\t22780991\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t61\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c366097723bebd8665bc20"},"refKey":31},
{"_key":"60c3660e7723bebd8665bc27","_id":"references/60c3660e7723bebd8665bc27","_rev":"_cfFlILW---","tei":"\n\t\n\t\tT-coffee: a novel method for fast and accurate multiple sequence alignment\n\t\t\n\t\t\tCNotredame\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJHeringa\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t302\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3660e7723bebd8665bc26"},"refKey":33},
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{"_key":"60c366487723bebd8665bc3b","_id":"references/60c366487723bebd8665bc3b","_rev":"_cfFlILu---","tei":"\n\t\n\t\tRStudio: Integrated Development for R\n\t\t\n\t\t\tStudio Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tRStudio, Inc\n\t\t\n\t\n\n","document":{"$oid":"60c366487723bebd8665bc39"},"refKey":41},
{"_key":"60c3667f7723bebd8665bc47","_id":"references/60c3667f7723bebd8665bc47","_rev":"_cfFlIL2---","tei":"\n\t\n\t\tDynamical modeling and multi-experiment fitting with PottersWheel\n\t\t\n\t\t\tThomasMaiwald\n\t\t\n\t\t\n\t\t\tJensTimmer\n\t\t\n\t\t10.1093/bioinformatics/btn350\n\t\t18614583\n\t\tPMC2530888\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3667f7723bebd8665bc46"},"refKey":20},
{"_key":"60c3668e7723bebd8665bc5d","_id":"references/60c3668e7723bebd8665bc5d","_rev":"_cfFlIMC---","tei":"\n\t\n\t\tA programmatic introduction to Neo4j\n\t\t\n\t\t\tJimWebber\n\t\t\n\t\t10.1145/2384716.2384777\n\t\n\t\n\t\tProceedings of the 3rd annual conference on Systems, programming, and applications: software for humanity - SPLASH '12\n\t\t\t\tthe 3rd annual conference on Systems, programming, and applications: software for humanity - SPLASH '12\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3668e7723bebd8665bc5c"},"refKey":30},
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{"_key":"60c366b77723bebd8665bc77","_id":"references/60c366b77723bebd8665bc77","_rev":"_cfFlIMu---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with\n\t\t\n\t\t\tHLi\n\t\t\n\t\tarXiv:1303.3997\n\t\t\n\t\t\t\n\t\t\n\t\n\tBWA-MEM. arXiv preprint\n\n","document":{"$oid":"60c366b77723bebd8665bc76"},"refKey":6},
{"_key":"60c366b77723bebd8665bc78","_id":"references/60c366b77723bebd8665bc78","_rev":"_cfFlIM6---","tei":"\n\t\n\t\tMinimap2: pairwise alignment for nucleotide sequences\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c366b77723bebd8665bc76"},"refKey":8},
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{"_key":"60c3688b7723bebd8665be02","_id":"references/60c3688b7723bebd8665be02","_rev":"_cfFlISm---","tei":"\n\t\n\t\tTensorFlow: a system for large-scale machine learning\n\t\t\n\t\t\tMAbadi\n\t\t\n\t\t\n\t\t\tPBarham\n\t\t\n\t\t\n\t\t\tJChen\n\t\t\n\t\t\n\t\t\tZChen\n\t\t\n\t\t\n\t\t\tADavis\n\t\t\n\t\t\n\t\t\tJDean\n\t\t\n\t\n\t\n\t\t12th {USENIX} Symposium on Operating Systems Design and Implementation\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3688b7723bebd8665be01"},"refKey":35},
{"_key":"60c3688b7723bebd8665be03","_id":"references/60c3688b7723bebd8665be03","_rev":"_cfFlISy---","tei":"\n\t\n\t\tData structures for statistical computing in python\n\t\t\n\t\t\tWMckinney\n\t\t\n\t\n\t\n\t\tProceedings of the 9th Python in Science Conference\n\t\t\t\tthe 9th Python in Science ConferenceAustin, TX, 445\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3688b7723bebd8665be01"},"refKey":36},
{"_key":"60c3688b7723bebd8665be04","_id":"references/60c3688b7723bebd8665be04","_rev":"_cfFlIT----","tei":"\n\t\n\t\tA guide to NumPy\n\t\t\n\t\t\tTEOliphant\n\t\t\n\t\t\n\t\t\t\n\t\t\tTrelgol Publishing USA\n\t\t\t1\n\t\t\n\t\n\n","document":{"$oid":"60c3688b7723bebd8665be01"},"refKey":37},
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{"_key":"60c368d37723bebd8665be42","_id":"references/60c368d37723bebd8665be42","_rev":"_cfFlITS---","tei":"\n\t\n\t\tThe Pfam protein families database\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tLCoin\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tVHollich\n\t\t\n\t\t\n\t\t\tSGriffiths-Jones\n\t\t\n\t\t\n\t\t\tAKhanna\n\t\t\n\t\t\n\t\t\tMMarshall\n\t\t\n\t\t\n\t\t\tSMoxon\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tDJStudholme\n\t\t\n\t\t\n\t\t\tCYeats\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t10.1093/nar/gkh121\n\t\t14681378\n\t\tPMC308855\n\t\tark:/67375/HXZ-BVL62CCL-R\n\t\t21C3D4FF2ADDE60A5C4F05830BD16EA2EFF835BA\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t90001\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c368d37723bebd8665be41"},"refKey":94},
{"_key":"60c368d37723bebd8665be43","_id":"references/60c368d37723bebd8665be43","_rev":"_cfFlITe---","tei":"\n\t\n\t\tCheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes\n\t\t\n\t\t\tDonovanHParks\n\t\t\t0000-0001-6662-9010\n\t\t\n\t\t\n\t\t\tMichaelImelfort\n\t\t\n\t\t\n\t\t\tConnorTSkennerton\n\t\t\n\t\t\n\t\t\tPhilipHugenholtz\n\t\t\n\t\t\n\t\t\tGeneWTyson\n\t\t\n\t\t10.1101/gr.186072.114\n\t\t25977477\n\t\tPMC4484387\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t25\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c368d37723bebd8665be41"},"refKey":32},
{"_key":"60c368d37723bebd8665be44","_id":"references/60c368d37723bebd8665be44","_rev":"_cfFlITq---","tei":"\n\t\n\t\tInfernal 1.0: inference of RNA alignments\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tDLKolbe\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t10.1093/bioinformatics/btp157\n\t\t19307242\n\t\tPMC2732312\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c368d37723bebd8665be41"},"refKey":97},
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{"_key":"60c368e17723bebd8665be77","_id":"references/60c368e17723bebd8665be77","_rev":"_cfFlIUW---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c368e17723bebd8665be75"},"refKey":18},
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{"_key":"60c368e97723bebd8665be92","_id":"references/60c368e97723bebd8665be92","_rev":"_cfFlIVi---","tei":"\n\t\n\t\tThe PyMOL Molecular System\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tDeLano Scientific\n\t\t\tSan Carlos, CA\n\t\t\n\t\n\n","document":{"$oid":"60c368e97723bebd8665be90"},"refKey":68},
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{"_key":"60c36afe7723bebd8665c0be","_id":"references/60c36afe7723bebd8665c0be","_rev":"_cfFlIdW---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36afe7723bebd8665c0b6"},"refKey":66},
{"_key":"60c36afe7723bebd8665c0bf","_id":"references/60c36afe7723bebd8665c0bf","_rev":"_cfFlIdi---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t5\n\t\t\t113\n\t\t\n\t\n\n","document":{"$oid":"60c36afe7723bebd8665c0b6"},"refKey":67},
{"_key":"60c36afe7723bebd8665c0c0","_id":"references/60c36afe7723bebd8665c0c0","_rev":"_cfFlIdu---","tei":"\n\t\n\t\tTemplate-based protein structure modeling using the RaptorX web server\n\t\t\n\t\t\tMortenKällberg\n\t\t\n\t\t\n\t\t\tHaipengWang\n\t\t\n\t\t\n\t\t\tShengWang\n\t\t\n\t\t\n\t\t\tJianPeng\n\t\t\n\t\t\n\t\t\tZhiyongWang\n\t\t\n\t\t\n\t\t\tHuiLu\n\t\t\n\t\t\n\t\t\tJinboXu\n\t\t\n\t\t10.1038/nprot.2012.085\n\t\t22814390\n\t\tPMC4730388\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t7\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c36afe7723bebd8665c0b6"},"refKey":55},
{"_key":"60c36afe7723bebd8665c0c1","_id":"references/60c36afe7723bebd8665c0c1","_rev":"_cfFlId6---","tei":"\n\t\n\t\tRaptorX server: a resource for template-based protein structure modeling\n\t\t\n\t\t\tMKallberg\n\t\t\n\t\t\n\t\t\tGMargaryan\n\t\t\n\t\t\n\t\t\tSWang\n\t\t\n\t\t\n\t\t\tJMa\n\t\t\n\t\t\n\t\t\tJXu\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t1137\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36afe7723bebd8665c0b6"},"refKey":56},
{"_key":"60c36b017723bebd8665c0e3","_id":"references/60c36b017723bebd8665c0e3","_rev":"_cfFlIeC---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36b017723bebd8665c0e2"},"refKey":40},
{"_key":"60c36b017723bebd8665c0e4","_id":"references/60c36b017723bebd8665c0e4","_rev":"_cfFlIeO---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36b017723bebd8665c0e2"},"refKey":42},
{"_key":"60c36b017723bebd8665c0e5","_id":"references/60c36b017723bebd8665c0e5","_rev":"_cfFlIea---","tei":"\n\t\n\t\tProtocol for rapid unsupervised cryo-EM structure determination using cryoSPARC software\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tJohnRubinstein\n\t\t\n\t\t\n\t\t\tDavidFleet\n\t\t\n\t\t\n\t\t\tMarcusBrubaker\n\t\t\n\t\t10.1038/protex.2017.009\n\t\n\t\n\t\tProtocol Exchange\n\t\tProtocol Exchange\n\t\t2043-0116\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c36b017723bebd8665c0e2"},"refKey":45},
{"_key":"60c36b4d7723bebd8665c125","_id":"references/60c36b4d7723bebd8665c125","_rev":"_cfFlIem---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c36b4d7723bebd8665c124"},"refKey":27},
{"_key":"60c36b4d7723bebd8665c126","_id":"references/60c36b4d7723bebd8665c126","_rev":"_cfFlIeu---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c36b4d7723bebd8665c124"},"refKey":19},
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{"_key":"60c36b647723bebd8665c13c","_id":"references/60c36b647723bebd8665c13c","_rev":"_cfFlIfG---","tei":"\n\t\n\t\tUCSF Chimera: a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36b647723bebd8665c13a"},"refKey":24},
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{"_key":"60c36b647723bebd8665c13e","_id":"references/60c36b647723bebd8665c13e","_rev":"_cfFlIfe---","tei":"\n\t\n\t\tComputational protein–ligand docking and virtual drug screening with the AutoDock suite\n\t\t\n\t\t\tStefanoForli\n\t\t\t0000-0002-5964-7111\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tMichaelEPique\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1038/nprot.2016.051\n\t\t27077332\n\t\tPMC4868550\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t11\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c36b647723bebd8665c13a"},"refKey":7},
{"_key":"60c36b647723bebd8665c13f","_id":"references/60c36b647723bebd8665c13f","_rev":"_cfFlIfm---","tei":"\n\t\n\t\tiGEMDOCK: a graphical environment of enhancing GEMDOCK using pharmacological interactions and post-screening analysis\n\t\t\n\t\t\tKai-ChengHsu\n\t\t\n\t\t\n\t\t\tYen-FuChen\n\t\t\n\t\t\n\t\t\tShen-RongLin\n\t\t\n\t\t\n\t\t\tJinn-MoonYang\n\t\t\n\t\t10.1186/1471-2105-12-s1-s33\n\t\t21342564\n\t\tPMC3044289\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\tSuppl 1\n\t\t\tS33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c36b647723bebd8665c13a"},"refKey":10},
{"_key":"60c36b647723bebd8665c140","_id":"references/60c36b647723bebd8665c140","_rev":"_cfFlIfy---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36b647723bebd8665c13a"},"refKey":30},
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{"_key":"60c36b807723bebd8665c175","_id":"references/60c36b807723bebd8665c175","_rev":"_cfFlIgK---","tei":"\n\t\n\t\tCHARMM-GUI Input Generator for NAMD, GROMACS, AMBER, OpenMM, and CHARMM/OpenMM Simulations Using the CHARMM36 Additive Force Field\n\t\t\n\t\t\tJuminLee\n\t\t\n\t\t\n\t\t\tXiCheng\n\t\t\n\t\t\n\t\t\tJasonMSwails\n\t\t\n\t\t\n\t\t\tMinSunYeom\n\t\t\n\t\t\n\t\t\tPeterKEastman\n\t\t\n\t\t\n\t\t\tJustinALemkul\n\t\t\n\t\t\n\t\t\tShuaiWei\n\t\t\n\t\t\n\t\t\tJoshuaBuckner\n\t\t\n\t\t\n\t\t\tJongCheolJeong\n\t\t\n\t\t\n\t\t\tYifeiQi\n\t\t\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tVijaySPande\n\t\t\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tCharlesLBrooks\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t\n\t\t\tJefferyBKlauda\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1021/acs.jctc.5b00935\n\t\t26631602\n\t\tPMC4712441\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c36b807723bebd8665c174"},"refKey":59},
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{"_key":"60c36b807723bebd8665c177","_id":"references/60c36b807723bebd8665c177","_rev":"_cfFlIge---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System. Schrodinger, LLC. (54) Neuwirth, E. RColorBrewer: ColorBrewer Palettes\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36b807723bebd8665c174"},"refKey":65},
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{"_key":"60c36c347723bebd8665c23a","_id":"references/60c36c347723bebd8665c23a","_rev":"_cfFlIli---","tei":"\n\t\n\t\tUnderstanding Helicases as a Means of Virus Control\n\t\t\n\t\t\tDNFrick\n\t\t\n\t\t\n\t\t\tAMLam\n\t\t\n\t\t10.2174/138161206776361147\n\t\t16611118\n\t\tPMC3571686\n\t\t\n\t\t\n\t\n\t\n\t\tCurrent Pharmaceutical Design\n\t\tCPD\n\t\t1381-6128\n\t\t\n\t\t\t12\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tBentham Science Publishers Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c36c347723bebd8665c234"},"refKey":57},
{"_key":"60c36c4c7723bebd8665c260","_id":"references/60c36c4c7723bebd8665c260","_rev":"_cfFlIlu---","tei":"\n\t\n\t\tStructure validation by Cα geometry: ϕ,ψ and Cβ deviation\n\t\t\n\t\t\tSimonCLovell\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tWBryanArendall\n\t\t\n\t\t\n\t\t\tPaulI WDe Bakker\n\t\t\n\t\t\n\t\t\tJMichaelWord\n\t\t\n\t\t\n\t\t\tMichaelGPrisant\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t10.1002/prot.10286\n\t\t12557186\n\t\tark:/67375/WNG-8112WZ4L-8\n\t\t745C439FE8A705A12BC149869FE655440A7308E2\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t50\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c36c4c7723bebd8665c25f"},"refKey":32},
{"_key":"60c36c4c7723bebd8665c261","_id":"references/60c36c4c7723bebd8665c261","_rev":"_cfFlIl6---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c36c4c7723bebd8665c25f"},"refKey":31},
{"_key":"60c36c4c7723bebd8665c262","_id":"references/60c36c4c7723bebd8665c262","_rev":"_cfFlImG---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\t0000-0002-3210-2656\n\t\t\n\t\t\n\t\t\tStefansMezulis\n\t\t\n\t\t\n\t\t\tChristopherMYates\n\t\t\n\t\t\n\t\t\tMarkNWass\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\t0000-0002-1884-5445\n\t\t\n\t\t10.1038/nprot.2015.053\n\t\t25950237\n\t\tPMC5298202\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c36c4c7723bebd8665c25f"},"refKey":30},
{"_key":"60c36c4c7723bebd8665c263","_id":"references/60c36c4c7723bebd8665c263","_rev":"_cfFlImS---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c36c4c7723bebd8665c25f"},"refKey":34},
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{"_key":"60c36c4c7723bebd8665c265","_id":"references/60c36c4c7723bebd8665c265","_rev":"_cfFlImm---","tei":"\n\t\n\t\tZDOCK server: interactive docking prediction of protein-protein complexes and symmetric multimers\n\t\t\n\t\t\tBGPierce\n\t\t\n\t\t\n\t\t\tKWiehe\n\t\t\n\t\t\n\t\t\tHHwang\n\t\t\n\t\t\n\t\t\tB-HKim\n\t\t\n\t\t\n\t\t\tTVreven\n\t\t\n\t\t\n\t\t\tZWeng\n\t\t\n\t\t10.1093/bioinformatics/btu097\n\t\t24532726\n\t\tPMC4058926\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c36c4c7723bebd8665c25f"},"refKey":40},
{"_key":"60c36cc07723bebd8665c2a7","_id":"references/60c36cc07723bebd8665c2a7","_rev":"_cfFlImy---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36cc07723bebd8665c2a6"},"refKey":50},
{"_key":"60c36cc07723bebd8665c2a8","_id":"references/60c36cc07723bebd8665c2a8","_rev":"_cfFlIn----","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36cc07723bebd8665c2a6"},"refKey":48},
{"_key":"60c36cc07723bebd8665c2a9","_id":"references/60c36cc07723bebd8665c2a9","_rev":"_cfFlInK---","tei":"\n\t\n\t\tCRYSOL-a program to evaluate X-ray solution scattering of biological macromolecules from atomic coordinates\n\t\t\n\t\t\tDSvergun\n\t\t\n\t\t\n\t\t\tCBarberato\n\t\t\n\t\t\n\t\t\tMHKoch\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36cc07723bebd8665c2a6"},"refKey":38},
{"_key":"60c36d4e7723bebd8665c2fc","_id":"references/60c36d4e7723bebd8665c2fc","_rev":"_cfFlInW---","tei":"\n\t\n\t\tDetecting overlapping coding sequences with pairwise alignments\n\t\t\n\t\t\tAEFirth\n\t\t\n\t\t\n\t\t\tCMBrown\n\t\t\n\t\t10.1093/bioinformatics/bti007\n\t\t15347574\n\t\tark:/67375/HXZ-TGKC2B3K-W\n\t\tE65D5A8F5BE7E583D92FC1A5CE7F01A597BB1985\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c36d4e7723bebd8665c2fb"},"refKey":32},
{"_key":"60c36d4e7723bebd8665c2fd","_id":"references/60c36d4e7723bebd8665c2fd","_rev":"_cfFlIni---","tei":"\n\t\n\t\tDetecting overlapping coding sequences with pairwise alignments\n\t\t\n\t\t\tAEFirth\n\t\t\n\t\t\n\t\t\tCMBrown\n\t\t\n\t\t10.1093/bioinformatics/bti007\n\t\t15347574\n\t\tark:/67375/HXZ-TGKC2B3K-W\n\t\tE65D5A8F5BE7E583D92FC1A5CE7F01A597BB1985\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c36d4e7723bebd8665c2fb"},"refKey":82},
{"_key":"60c36d4e7723bebd8665c2fe","_id":"references/60c36d4e7723bebd8665c2fe","_rev":"_cfFlInu---","tei":"\n\t\n\t\tPHYLIP (phylogeny inference package), version 3.6a\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36d4e7723bebd8665c2fb"},"refKey":83},
{"_key":"60c36dba7723bebd8665c346","_id":"references/60c36dba7723bebd8665c346","_rev":"_cfFlIn6---","tei":"\n\t\n\t\tJalview Version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36dba7723bebd8665c345"},"refKey":27},
{"_key":"60c36dba7723bebd8665c347","_id":"references/60c36dba7723bebd8665c347","_rev":"_cfFlIoG---","tei":"\n\t\n\t\tGeneral atomic and molecular electronic structure system\n\t\t\n\t\t\tMWSchmidt\n\t\t\n\t\t\n\t\t\tKKBaldridge\n\t\t\n\t\t\n\t\t\tJABoatz\n\t\t\n\t\t\n\t\t\tSTElbert\n\t\t\n\t\t\n\t\t\tMSGordon\n\t\t\n\t\t\n\t\t\tJHJensen\n\t\t\n\t\t\n\t\t\tSKoseki\n\t\t\n\t\t\n\t\t\tNMatsunaga\n\t\t\n\t\t\n\t\t\tKANguyen\n\t\t\n\t\t\n\t\t\tSSu\n\t\t\n\t\t\n\t\t\tTLWindus\n\t\t\n\t\t\n\t\t\tMDupuis\n\t\t\n\t\t\n\t\t\tJAMontgomery\n\t\t\n\t\t\n\t\t\tJr\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36dba7723bebd8665c345"},"refKey":29},
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{"_key":"60c36dcf7723bebd8665c35b","_id":"references/60c36dcf7723bebd8665c35b","_rev":"_cfFlIoe---","tei":"\n\t\n\t\tReScan, a multiplex diagnostic pipeline, pans human sera for SARS-CoV-2 antigens\n\t\t\n\t\t\tCRZamecnik\n\t\t\n\t\t\n\t\t\tJVRajan\n\t\t\n\t\t\n\t\t\tKAYamauchi\n\t\t\n\t\t\n\t\t\tSAMann\n\t\t\n\t\t\n\t\t\tGMSowa\n\t\t\n\t\t\n\t\t\tKCZorn\n\t\t\n\t\t\n\t\t\tBDAlvarenga\n\t\t\n\t\t\n\t\t\tMStone\n\t\t\n\t\t\n\t\t\tPJNorris\n\t\t\n\t\t\n\t\t\tWGu\n\t\t\n\t\t10.1101/2020.05.11.20092528\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36dcf7723bebd8665c35a"},"refKey":69},
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{"_key":"60c36dd07723bebd8665c368","_id":"references/60c36dd07723bebd8665c368","_rev":"_cfFlIo2---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36dd07723bebd8665c367"},"refKey":32},
{"_key":"60c36dd27723bebd8665c36c","_id":"references/60c36dd27723bebd8665c36c","_rev":"_cfFlIp----","tei":"\n\t\n\t\tPredicting linear B‐cell epitopes using string kernels\n\t\t\n\t\t\tYasserEl‐manzalawy\n\t\t\n\t\t\n\t\t\tDrenaDobbs\n\t\t\n\t\t\n\t\t\tVasantHonavar\n\t\t\n\t\t10.1002/jmr.893\n\t\t18496882\n\t\tPMC2683948\n\t\tark:/67375/WNG-WGM67G2V-3\n\t\t6483283356B180D4365629B79073ABBEDE5C41A3\n\t\t\n\t\n\t\n\t\tJournal of Molecular Recognition\n\t\tJ. Mol. Recognit.\n\t\t0952-3499\n\t\t1099-1352\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c36dd27723bebd8665c36b"},"refKey":8},
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{"_key":"60c36e627723bebd8665c442","_id":"references/60c36e627723bebd8665c442","_rev":"_cfFlItO---","tei":"\n\t\n\t\tThe RAST Server: Rapid Annotations using Subsystems Technology\n\t\t\n\t\t\tRamyKAziz\n\t\t\n\t\t\n\t\t\tDanielaBartels\n\t\t\n\t\t\n\t\t\tAaronABest\n\t\t\n\t\t\n\t\t\tMatthewDejongh\n\t\t\n\t\t\n\t\t\tTerrenceDisz\n\t\t\n\t\t\n\t\t\tRobertAEdwards\n\t\t\n\t\t\n\t\t\tKevinFormsma\n\t\t\n\t\t\n\t\t\tSvetlanaGerdes\n\t\t\n\t\t\n\t\t\tElizabethMGlass\n\t\t\n\t\t\n\t\t\tMichaelKubal\n\t\t\n\t\t\n\t\t\tFolkerMeyer\n\t\t\n\t\t\n\t\t\tGaryJOlsen\n\t\t\n\t\t\n\t\t\tRobertOlson\n\t\t\n\t\t\n\t\t\tAndreiLOsterman\n\t\t\n\t\t\n\t\t\tRossAOverbeek\n\t\t\n\t\t\n\t\t\tLeslieKMcneil\n\t\t\n\t\t\n\t\t\tDanielPaarmann\n\t\t\n\t\t\n\t\t\tTobiasPaczian\n\t\t\n\t\t\n\t\t\tBruceParrello\n\t\t\n\t\t\n\t\t\tGordonDPusch\n\t\t\n\t\t\n\t\t\tClaudiaReich\n\t\t\n\t\t\n\t\t\tRickStevens\n\t\t\n\t\t\n\t\t\tOlgaVassieva\n\t\t\n\t\t\n\t\t\tVeronikaVonstein\n\t\t\n\t\t\n\t\t\tAndreasWilke\n\t\t\n\t\t\n\t\t\tOlgaZagnitko\n\t\t\n\t\t10.1186/1471-2164-9-75\n\t\t18261238\n\t\tPMC2265698\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t75\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c36e627723bebd8665c43f"},"refKey":8},
{"_key":"60c36e627723bebd8665c443","_id":"references/60c36e627723bebd8665c443","_rev":"_cfFlIta---","tei":"\n\t\n\t\tImprovements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center\n\t\t\n\t\t\tAliceRWattam\n\t\t\n\t\t\n\t\t\tJamesJDavis\n\t\t\n\t\t\n\t\t\tRidaAssaf\n\t\t\n\t\t\n\t\t\tSébastienBoisvert\n\t\t\n\t\t\n\t\t\tThomasBrettin\n\t\t\n\t\t\n\t\t\tChristopherBun\n\t\t\n\t\t\n\t\t\tNealConrad\n\t\t\n\t\t\n\t\t\tEmilyMDietrich\n\t\t\n\t\t\n\t\t\tTerryDisz\n\t\t\n\t\t\n\t\t\tJosephLGabbard\n\t\t\n\t\t\n\t\t\tSvetlanaGerdes\n\t\t\n\t\t\n\t\t\tChristopherSHenry\n\t\t\n\t\t\n\t\t\tRonaldWKenyon\n\t\t\n\t\t\n\t\t\tDustinMachi\n\t\t\n\t\t\n\t\t\tChunhongMao\n\t\t\n\t\t\n\t\t\tEricKNordberg\n\t\t\n\t\t\n\t\t\tGaryJOlsen\n\t\t\n\t\t\n\t\t\tDanielEMurphy-Olson\n\t\t\n\t\t\n\t\t\tRobertOlson\n\t\t\n\t\t\n\t\t\tRossOverbeek\n\t\t\n\t\t\n\t\t\tBruceParrello\n\t\t\n\t\t\n\t\t\tGordonDPusch\n\t\t\n\t\t\n\t\t\tMaulikShukla\n\t\t\n\t\t\n\t\t\tVeronikaVonstein\n\t\t\n\t\t\n\t\t\tAndrewWarren\n\t\t\n\t\t\n\t\t\tFangfangXia\n\t\t\n\t\t\n\t\t\tHyunseungYoo\n\t\t\n\t\t\n\t\t\tRickLStevens\n\t\t\n\t\t10.1093/nar/gkw1017\n\t\t27899627\n\t\tPMC5210524\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c36e627723bebd8665c43f"},"refKey":89},
{"_key":"60c36e627723bebd8665c444","_id":"references/60c36e627723bebd8665c444","_rev":"_cfFlItm---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c36e627723bebd8665c43f"},"refKey":53},
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{"_key":"60c36e757723bebd8665c461","_id":"references/60c36e757723bebd8665c461","_rev":"_cfFlIt6---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c36e757723bebd8665c460"},"refKey":51},
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{"_key":"60c36ea37723bebd8665c494","_id":"references/60c36ea37723bebd8665c494","_rev":"_cfFlIu2---","tei":"\n\t\n\t\tIMGT/3Dstructure-DB and IMGT/StructuralQuery, a database and a tool for immunoglobulin, T cell receptor and MHC structural data\n\t\t\n\t\t\tQKaas\n\t\t\n\t\t10.1093/nar/gkh042\n\t\t14681396\n\t\tPMC308776\n\t\tark:/67375/HXZ-MG4LB0VG-T\n\t\t72B1774E6E1637F62581D7363952517EC6FA25F7\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t90001\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c36ea37723bebd8665c491"},"refKey":13},
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{"_key":"60c3713d7723bebd8665c708","_id":"references/60c3713d7723bebd8665c708","_rev":"_cfFlI6i---","tei":"\n\t\n\t\tThe OWL API: a java API for OWL ontologies\n\t\t\n\t\t\tMHorridge\n\t\t\n\t\t\n\t\t\tSBechhofer\n\t\t\n\t\t10.3233/SW-2011-0025\n\t\t\n\t\n\t\n\t\tSemant Web\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3713d7723bebd8665c707"},"refKey":18},
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{"_key":"60c371527723bebd8665c72c","_id":"references/60c371527723bebd8665c72c","_rev":"_cfFlI7G---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t23\n\t\t\n\t\n\n","document":{"$oid":"60c371527723bebd8665c72b"},"refKey":19},
{"_key":"60c371567723bebd8665c732","_id":"references/60c371567723bebd8665c732","_rev":"_cfFlI7S---","tei":"\n\t\n\t\tEstimating SARS-CoV-2 seroprevalence and epidemiological parameters with uncertainty from serological surveys\n\t\t\n\t\t\tDBLarremore\n\t\t\n\t\t\n\t\t\tBKFosdick\n\t\t\n\t\t\n\t\t\tKMBubar\n\t\t\n\t\t10.1101/2020.04.15.20067066\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tPreprint. cited 12 September 2020\n\n","document":{"$oid":"60c371567723bebd8665c731"},"refKey":4},
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{"_key":"60c371c57723bebd8665c7c4","_id":"references/60c371c57723bebd8665c7c4","_rev":"_cfFlI72---","tei":"\n\t\n\t\tVirusDetect: An automated pipeline for efficient virus discovery using deep sequencing of small RNAs\n\t\t\n\t\t\tYiZheng\n\t\t\n\t\t\n\t\t\tShanGao\n\t\t\n\t\t\n\t\t\tChellappanPadmanabhan\n\t\t\n\t\t\n\t\t\tRugangLi\n\t\t\n\t\t\n\t\t\tMarcoGalvez\n\t\t\n\t\t\n\t\t\tDinaGutierrez\n\t\t\n\t\t\n\t\t\tSegundoFuentes\n\t\t\n\t\t\n\t\t\tKai-ShuLing\n\t\t\n\t\t\n\t\t\tJanKreuze\n\t\t\n\t\t\n\t\t\tZhangjunFei\n\t\t\n\t\t10.1016/j.virol.2016.10.017\n\t\t27825033\n\t\n\t\n\t\tVirology\n\t\tVirology\n\t\t0042-6822\n\t\t\n\t\t\t500\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c371c57723bebd8665c7c3"},"refKey":21},
{"_key":"60c371c57723bebd8665c7c5","_id":"references/60c371c57723bebd8665c7c5","_rev":"_cfFlI8C---","tei":"\n\t\n\t\tFastq_clean: An optimized pipeline to clean the Illumina sequencing data with quality control\n\t\t\n\t\t\tMiZhang\n\t\t\n\t\t\n\t\t\tHongheSun\n\t\t\n\t\t\n\t\t\tZhangjunFei\n\t\t\n\t\t\n\t\t\tFengZhan\n\t\t\n\t\t\n\t\t\tXiujunGong\n\t\t\n\t\t\n\t\t\tShanGao\n\t\t\n\t\t10.1109/bibm.2014.6999309\n\t\n\t\n\t\t2014 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c371c57723bebd8665c7c3"},"refKey":22},
{"_key":"60c371c57723bebd8665c7c6","_id":"references/60c371c57723bebd8665c7c6","_rev":"_cfFlI8O---","tei":"\n\t\n\t\tImproved protein structure prediction using predicted interresidue orientations\n\t\t\n\t\t\tJYang\n\t\t\n\t\t\n\t\t\tIAnishchenko\n\t\t\n\t\t\n\t\t\tHPark\n\t\t\n\t\t\n\t\t\tZPeng\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of ences\n\t\t\t\tthe National Academy of ences\n\t\t\n\t\t\t\n\t\t\t117\n\t\t\t201914677\n\t\t\n\t\n\tto thank Editage (www.editage.cn) for English language translation. This manuscript was online as a preprint on July 22 nd , 2020 at\n\n","document":{"$oid":"60c371c57723bebd8665c7c3"},"refKey":29},
{"_key":"60c371e97723bebd8665c7d5","_id":"references/60c371e97723bebd8665c7d5","_rev":"_cfFlI8a---","tei":"\n\t\n\t\tKAnalyze: a fast versatile pipelined K-mer toolkit\n\t\t\n\t\t\tPeterAudano\n\t\t\n\t\t\n\t\t\tFredrikVannberg\n\t\t\n\t\t10.1093/bioinformatics/btu152\n\t\t24642064\n\t\tPMC4080738\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c371e97723bebd8665c7d4"},"refKey":1},
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{"_key":"60c371e97723bebd8665c7d8","_id":"references/60c371e97723bebd8665c7d8","_rev":"_cfFlI9G---","tei":"\n\t\n\t\tThese Are Not the K-mers You Are Looking For: Efficient Online K-mer Counting Using a Probabilistic Data Structure\n\t\t\n\t\t\tQingpengZhang\n\t\t\n\t\t\n\t\t\tJasonPell\n\t\t\n\t\t\n\t\t\tRosangelaCanino-Koning\n\t\t\n\t\t\n\t\t\tAdinaChuangHowe\n\t\t\n\t\t\n\t\t\tCTitusBrown\n\t\t\n\t\t10.1371/journal.pone.0101271\n\t\t25062443\n\t\tPMC4111482\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\te101271\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c371e97723bebd8665c7d4"},"refKey":28},
{"_key":"60c371e97723bebd8665c7d9","_id":"references/60c371e97723bebd8665c7d9","_rev":"_cfFlI9S---","tei":"\n\t\n\t\tKrakenHLL: Confident and fast metagenomics classification using unique k-mer counts\n\t\t\n\t\t\tFPBreitwieser\n\t\t\t0000-0001-6192-0853\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1101/262956\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tbioRxiv\n\n","document":{"$oid":"60c371e97723bebd8665c7d4"},"refKey":3},
{"_key":"60c371e97723bebd8665c7da","_id":"references/60c371e97723bebd8665c7da","_rev":"_cfFlI9i---","tei":"\n\t\n\t\tCLARK: Fast and Accurate Classification of Metagenomic and Genomic Sequences Using Discriminative k-Mers\n\t\t\n\t\t\tROunit\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t16\n\t\t\t236\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c371e97723bebd8665c7d4"},"refKey":14},
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{"_key":"60c3727e7723bebd8665c871","_id":"references/60c3727e7723bebd8665c871","_rev":"_cfFlJAO---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallog. sect. D\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3727e7723bebd8665c870"},"refKey":45},
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{"_key":"60c372cb7723bebd8665c8da","_id":"references/60c372cb7723bebd8665c8da","_rev":"_cfFlJDq---","tei":"\n\t\n\t\tA guided tour into subcellular colocalization analysis in light microscopy\n\t\t\n\t\t\tSBolte\n\t\t\n\t\t\n\t\t\tFPCordelières\n\t\t\n\t\t10.1111/j.1365-2818.2006.01706.x\n\t\t17210054\n\t\n\t\n\t\tJournal of Microscopy\n\t\tJ Microsc\n\t\t0022-2720\n\t\t1365-2818\n\t\t\n\t\t\t224\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c372cb7723bebd8665c8d8"},"refKey":41},
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{"_key":"60c3740d7723bebd8665c992","_id":"references/60c3740d7723bebd8665c992","_rev":"_cfFlJF6---","tei":"\n\t\n\t\tA wrapper tool around Cutadapt and FastQC to consistently apply quality and adapter trimming to FastQ files\n\t\t\n\t\t\tFKrueger\n\t\t\n\t\t\n\t\t\tTrim Galore\n\t\t\n\t\t10.1128/genomeA.00370-18\n\t\n\t\n\t\tGenome Announc\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3740d7723bebd8665c991"},"refKey":75},
{"_key":"60c3740d7723bebd8665c993","_id":"references/60c3740d7723bebd8665c993","_rev":"_cfFlJGG---","tei":"\n\t\n\t\tAligning sequence reads\n\t\t\n\t\t\tHLi\n\t\t\n\t\tarXiv:1303.3997\n\t\n\t\n\t\tclone sequences and assembly contigs with BWA-MEM. arXiv 2013\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c3740d7723bebd8665c991"},"refKey":77},
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{"_key":"60c3740d7723bebd8665c995","_id":"references/60c3740d7723bebd8665c995","_rev":"_cfFlJGe---","tei":"\n\t\n\t\tUsing the Velvetde novoAssembler for Short-Read Sequencing Technologies\n\t\t\n\t\t\tDanielRZerbino\n\t\t\n\t\t10.1002/0471250953.bi1105s31\n\t\t20836074\n\t\tPMC2952100\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Bioinform\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3740d7723bebd8665c991"},"refKey":56},
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{"_key":"60c3740d7723bebd8665c998","_id":"references/60c3740d7723bebd8665c998","_rev":"_cfFlJHG---","tei":"\n\t\n\t\tFunctional analysis of metagenomes and metatranscriptomes using SEED and KEGG\n\t\t\n\t\t\tSuparnaMitra\n\t\t\n\t\t\n\t\t\tPaulRupek\n\t\t\n\t\t\n\t\t\tDanielCRichter\n\t\t\n\t\t\n\t\t\tTimUrich\n\t\t\n\t\t\n\t\t\tJackAGilbert\n\t\t\n\t\t\n\t\t\tFolkerMeyer\n\t\t\n\t\t\n\t\t\tAndreasWilke\n\t\t\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t10.1186/1471-2105-12-s1-s21\n\t\t21342551\n\t\tPMC3044276\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\tS1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSuppl. S1), S21. [CrossRef\n\n","document":{"$oid":"60c3740d7723bebd8665c991"},"refKey":58},
{"_key":"60c3740d7723bebd8665c999","_id":"references/60c3740d7723bebd8665c999","_rev":"_cfFlJHS---","tei":"\n\t\n\t\tMEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tSinaBeier\n\t\t\n\t\t\n\t\t\tIsabellFlade\n\t\t\n\t\t\n\t\t\tAnnaGórska\n\t\t\t0000-0003-3305-8711\n\t\t\n\t\t\n\t\t\tMohamedEl-Hadidi\n\t\t\t0000-0002-0360-3654\n\t\t\n\t\t\n\t\t\tSuparnaMitra\n\t\t\t0000-0002-9378-1496\n\t\t\n\t\t\n\t\t\tHans-JoachimRuscheweyh\n\t\t\n\t\t\n\t\t\tRewatiTappu\n\t\t\n\t\t10.1371/journal.pcbi.1004957\n\t\t27327495\n\t\tPMC4915700\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\te1004957\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c3740d7723bebd8665c991"},"refKey":59},
{"_key":"60c3740d7723bebd8665c99a","_id":"references/60c3740d7723bebd8665c99a","_rev":"_cfFlJHe---","tei":"\n\t\n\t\tThe metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes\n\t\t\n\t\t\tFMeyer\n\t\t\n\t\t\n\t\t\tDPaarmann\n\t\t\n\t\t\n\t\t\tMD'souza\n\t\t\n\t\t\n\t\t\tROlson\n\t\t\n\t\t\n\t\t\tEMGlass\n\t\t\n\t\t\n\t\t\tMKubal\n\t\t\n\t\t\n\t\t\tTPaczian\n\t\t\n\t\t\n\t\t\tARodriguez\n\t\t\n\t\t\n\t\t\tRStevens\n\t\t\n\t\t\n\t\t\tAWilke\n\t\t\n\t\t\n\t\t\tJWilkening\n\t\t\n\t\t\n\t\t\tRAEdwards\n\t\t\n\t\t10.1186/1471-2105-9-386\n\t\t18803844\n\t\tPMC2563014\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t386\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3740d7723bebd8665c991"},"refKey":60},
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{"_key":"60c3749a7723bebd8665ca67","_id":"references/60c3749a7723bebd8665ca67","_rev":"_cfFlJJ----","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3749a7723bebd8665ca65"},"refKey":47},
{"_key":"60c3749d7723bebd8665ca6a","_id":"references/60c3749d7723bebd8665ca6a","_rev":"_cfFlJJK---","tei":"\n\t\n\t\tLanguage support for fast and reliable message-based communication in singularity OS\n\t\t\n\t\t\tManuelFähndrich\n\t\t\n\t\t\n\t\t\tMarkAiken\n\t\t\n\t\t\n\t\t\tChrisHawblitzel\n\t\t\n\t\t\n\t\t\tOrionHodson\n\t\t\n\t\t\n\t\t\tGalenHunt\n\t\t\n\t\t\n\t\t\tJamesRLarus\n\t\t\n\t\t\n\t\t\tStevenLevi\n\t\t\n\t\t10.1145/1217935.1217953\n\t\t\n\t\n\t\n\t\tProceedings of the 2006 EuroSys conference on - EuroSys '06\n\t\t\t\tthe 2006 EuroSys conference on - EuroSys '06\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3749d7723bebd8665ca69"},"refKey":18},
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{"_key":"60c374ea7723bebd8665caed","_id":"references/60c374ea7723bebd8665caed","_rev":"_cfFlJKS---","tei":"\n\t\n\t\tMUT-APR: MUTation-Based Automated Program Repair Research Tool\n\t\t\n\t\t\tFatmahYAssiri\n\t\t\n\t\t\n\t\t\tJamesMBieman\n\t\t\n\t\t10.1007/978-3-030-03405-4_17\n\t\n\t\n\t\tAdvances in Intelligent Systems and Computing\n\t\t\t\t\n\t\t\tKArai\n\t\t\tSKapoor\n\t\t\tRBhatia\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t887\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c374ea7723bebd8665caea"},"refKey":2},
{"_key":"60c374ea7723bebd8665caee","_id":"references/60c374ea7723bebd8665caee","_rev":"_cfFlJKa---","tei":"\n\t\n\t\tAutomatic Program Repair Using Formal Verification and Expression Templates\n\t\t\n\t\t\tThanh-ToanNguyen\n\t\t\n\t\t\n\t\t\tQuang-TrungTa\n\t\t\n\t\t\n\t\t\tWei-NganChin\n\t\t\n\t\t10.1007/978-3-030-11245-5_4\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tCEnea\n\t\t\tRPiskac\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11388\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c374ea7723bebd8665caea"},"refKey":34},
{"_key":"60c374ea7723bebd8665caef","_id":"references/60c374ea7723bebd8665caef","_rev":"_cfFlJKm---","tei":"\n\t\n\t\tAngelix: scalable multiline program patch synthesis via symbolic analysis\n\t\t\n\t\t\tSMechtaev\n\t\t\n\t\t\n\t\t\tJYi\n\t\t\n\t\t\n\t\t\tARoychoudhury\n\t\t\n\t\t\n\t\t\t\n\t\t\tICSE\n\t\t\n\t\n\n","document":{"$oid":"60c374ea7723bebd8665caea"},"refKey":29},
{"_key":"60c374ee7723bebd8665cafd","_id":"references/60c374ee7723bebd8665cafd","_rev":"_cfFlJKy---","tei":"\n\t\n\t\tOccurrence of Isospora suis in Germany, Switzerland and Austria. Journal of Veterinary Medicine B Infectious Diseases and Veterinary Public Health\n\t\t\n\t\t\tHCMundt\n\t\t\n\t\t\n\t\t\tACohnen\n\t\t\n\t\t\n\t\t\tADaugschies\n\t\t\n\t\t\n\t\t\tAJoachim\n\t\t\n\t\t\n\t\t\tHProsl\n\t\t\n\t\t\n\t\t\tRSchmäschke\n\t\t\n\t\t\n\t\t\tBWestphal\n\t\t\n\t\t\n\t\t\t\n\t\t\t52\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c374ee7723bebd8665cafc"},"refKey":12},
{"_key":"60c374f07723bebd8665cb61","_id":"references/60c374f07723bebd8665cb61","_rev":"_cfFlJL----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tM-INicolae\n\t\t\n\t\t\n\t\t\tMSinn\n\t\t\n\t\t\n\t\t\tMNTran\n\t\t\n\t\tarXiv:1807.01069\n\t\t\n\t\t\t\n\t\t\n\t\n\tAdversarial Robustness Toolbox v1.0.0. arXiv e-prints\n\n","document":{"$oid":"60c374f07723bebd8665cb60"},"refKey":34},
{"_key":"60c374fe7723bebd8665cb6e","_id":"references/60c374fe7723bebd8665cb6e","_rev":"_cfFlJLK---","tei":"\n\t\n\t\tBayesian random-effects meta-analysis using the bayesmeta R package\n\t\t\n\t\t\tCRöver\n\t\t\n\t\tarXiv1711.08683\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv Prepr.\n\n","document":{"$oid":"60c374fe7723bebd8665cb6d"},"refKey":9},
{"_key":"60c375457723bebd8665cb8a","_id":"references/60c375457723bebd8665cb8a","_rev":"_cfFlJLW---","tei":"\n\t\n\t\tFlask Web Development: Developing Web Applications with Python\n\t\t\n\t\t\tMGrinberg\n\t\t\n\t\t\n\t\t\t\n\t\t\tO'Reilly Media, Inc\n\t\t\tSebastopol, CA, USA\n\t\t\n\t\n\t1st ed.\n\n","document":{"$oid":"60c375457723bebd8665cb89"},"refKey":50},
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{"_key":"60c375457723bebd8665cb8d","_id":"references/60c375457723bebd8665cb8d","_rev":"_cfFlJL2---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing; R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\t13\n\t\t\n\t\n\n","document":{"$oid":"60c375457723bebd8665cb89"},"refKey":40},
{"_key":"60c375457723bebd8665cb8e","_id":"references/60c375457723bebd8665cb8e","_rev":"_cfFlJMC---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.2011.75\n\t\t21988835\n\t\tPMC3261699\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMolecular Systems Biology\n\t\t1744-4292\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c375457723bebd8665cb89"},"refKey":31},
{"_key":"60c375457723bebd8665cb8f","_id":"references/60c375457723bebd8665cb8f","_rev":"_cfFlJMO---","tei":"\n\t\n\t\tPredictProtein—an open resource for online prediction of protein structural and functional features\n\t\t\n\t\t\tGuyYachdav\n\t\t\n\t\t\n\t\t\tEddaKloppmann\n\t\t\n\t\t\n\t\t\tLaszloKajan\n\t\t\n\t\t\n\t\t\tMaximilianHecht\n\t\t\n\t\t\n\t\t\tTatyanaGoldberg\n\t\t\n\t\t\n\t\t\tTobiasHamp\n\t\t\n\t\t\n\t\t\tPeterHönigschmid\n\t\t\n\t\t\n\t\t\tAndreaSchafferhans\n\t\t\n\t\t\n\t\t\tManfredRoos\n\t\t\n\t\t\n\t\t\tMichaelBernhofer\n\t\t\n\t\t\n\t\t\tLotharRichter\n\t\t\n\t\t\n\t\t\tHaimAshkenazy\n\t\t\n\t\t\n\t\t\tMarcoPunta\n\t\t\n\t\t\n\t\t\tAvnerSchlessinger\n\t\t\n\t\t\n\t\t\tYanaBromberg\n\t\t\n\t\t\n\t\t\tReinhardSchneider\n\t\t\n\t\t\n\t\t\tGerritVriend\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t\n\t\t\tNirBen-Tal\n\t\t\n\t\t\n\t\t\tBurkhardRost\n\t\t\n\t\t10.1093/nar/gku366\n\t\t24799431\n\t\tPMC4086098\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c375457723bebd8665cb89"},"refKey":14},
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{"_key":"60c375457723bebd8665cb92","_id":"references/60c375457723bebd8665cb92","_rev":"_cfFlJMy---","tei":"\n\t\n\t\tThe Pfam protein families database in 2019\n\t\t\n\t\t\tSEl-Gebali\n\t\t\n\t\t\n\t\t\tJMistry\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tALuciani\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tMQureshi\n\t\t\n\t\t\n\t\t\tLJRichardson\n\t\t\n\t\t\n\t\t\tGASalazar\n\t\t\n\t\t\n\t\t\tASmart\n\t\t\n\t\t10.1093/nar/gky995\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c375457723bebd8665cb89"},"refKey":10},
{"_key":"60c375457723bebd8665cb93","_id":"references/60c375457723bebd8665cb93","_rev":"_cfFlJN----","tei":"\n\t\n\t\tInterPro in 2019: Improving coverage, classification and access to protein sequence annotations\n\t\t\n\t\t\tALMitchell\n\t\t\n\t\t\n\t\t\tTKAttwood\n\t\t\n\t\t\n\t\t\tPCBabbitt\n\t\t\n\t\t\n\t\t\tMBlum\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t\n\t\t\tABridge\n\t\t\n\t\t\n\t\t\tSDBrown\n\t\t\n\t\t\n\t\t\tHYChang\n\t\t\n\t\t\n\t\t\tSEl-Gebali\n\t\t\n\t\t\n\t\t\tMIFraser\n\t\t\n\t\t10.1093/nar/gky1100\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c375457723bebd8665cb89"},"refKey":11},
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{"_key":"60c3754d7723bebd8665cbc6","_id":"references/60c3754d7723bebd8665cbc6","_rev":"_cfFlJNi---","tei":"\n\t\n\t\tPOPGENE version 1.31, the userfriendly shareware for population genetic analysis\n\t\t\n\t\t\tFCYeh\n\t\t\n\t\t\n\t\t\tRCYang\n\t\t\n\t\t\n\t\t\tTBoyle\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Biotechnology Center\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of Alberta\n\t\t\n\t\n\n","document":{"$oid":"60c3754d7723bebd8665cbc4"},"refKey":53},
{"_key":"60c375c17723bebd8665cbdb","_id":"references/60c375c17723bebd8665cbdb","_rev":"_cfFlJNu---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c375c17723bebd8665cbda"},"refKey":23},
{"_key":"60c375c57723bebd8665cbe4","_id":"references/60c375c57723bebd8665cbe4","_rev":"_cfFlJN6---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1.3r1\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c375c57723bebd8665cbe3"},"refKey":22},
{"_key":"60c375c57723bebd8665cbe5","_id":"references/60c375c57723bebd8665cbe5","_rev":"_cfFlJOG---","tei":"\n\t\n\t\tPhasercrystallographic software\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tLaurentCStoroni\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t10.1107/s0021889807021206\n\t\t19461840\n\t\tPMC2483472\n\t\tark:/67375/WNG-4GVX4PS6-V\n\t\t197D1845A540D1878B0E50058B5141B05749167F\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t40\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c375c57723bebd8665cbe3"},"refKey":15},
{"_key":"60c375c57723bebd8665cbe6","_id":"references/60c375c57723bebd8665cbe6","_rev":"_cfFlJOS---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c375c57723bebd8665cbe3"},"refKey":0},
{"_key":"60c375c57723bebd8665cbe7","_id":"references/60c375c57723bebd8665cbe7","_rev":"_cfFlJOe---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tPavolSkubák\n\t\t\n\t\t\n\t\t\tAndreyALebedev\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tRobertoASteiner\n\t\t\n\t\t\n\t\t\tRobertANicholls\n\t\t\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tFeiLong\n\t\t\n\t\t\n\t\t\tAlexeiAVagin\n\t\t\n\t\t10.1107/s0907444911001314\n\t\t21460454\n\t\tPMC3069751\n\t\tark:/67375/WNG-803CZV1W-1\n\t\tA0888E7BC1F9B7777B324A0979A74D1B188F073A\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c375c57723bebd8665cbe3"},"refKey":18},
{"_key":"60c375eb7723bebd8665cbff","_id":"references/60c375eb7723bebd8665cbff","_rev":"_cfFlJOq---","tei":"\n\t\n\t\tSkyline: an open source document editor for creating and analyzing targeted proteomics experiments\n\t\t\n\t\t\tBrendanMaclean\n\t\t\n\t\t\n\t\t\tDanielaMTomazela\n\t\t\n\t\t\n\t\t\tNicholasShulman\n\t\t\n\t\t\n\t\t\tMatthewChambers\n\t\t\n\t\t\n\t\t\tGregoryLFinney\n\t\t\n\t\t\n\t\t\tBarbaraFrewen\n\t\t\n\t\t\n\t\t\tRandallKern\n\t\t\n\t\t\n\t\t\tDavidLTabb\n\t\t\n\t\t\n\t\t\tDanielCLiebler\n\t\t\n\t\t\n\t\t\tMichaelJMaccoss\n\t\t\n\t\t10.1093/bioinformatics/btq054\n\t\t20147306\n\t\tPMC2844992\n\t\tark:/67375/HXZ-TW4HTQ9Q-9\n\t\tC817443FF3E643C0B243A311BDCE7D7F4B792E3A\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c375eb7723bebd8665cbfe"},"refKey":22},
{"_key":"60c376057723bebd8665cc09","_id":"references/60c376057723bebd8665cc09","_rev":"_cfFlJO2---","tei":"\n\t\n\t\t\n\t\t\tHWickham\n\t\t\n\t\tElegant Graphics for Data Analysis\n\t\t\t\tNew York\n\t\t\n\t\t\tSpringer-Verlag\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c376057723bebd8665cc08"},"refKey":63},
{"_key":"60c376117723bebd8665cc21","_id":"references/60c376117723bebd8665cc21","_rev":"_cfFlJP----","tei":"\n\t\n\t\tScanpy for analysis of large-scale single-cell gene expression data\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tPhilippAngerer\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/174029\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t19\n\t\t\t15\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c376117723bebd8665cc20"},"refKey":48},
{"_key":"60c376117723bebd8665cc22","_id":"references/60c376117723bebd8665cc22","_rev":"_cfFlJPK---","tei":"\n\t\n\t\tTooManyCells identifies and visualizes relationships of single-cell clades\n\t\t\n\t\t\tGregoryWSchwartz\n\t\t\n\t\t\n\t\t\tJelenaPetrovic\n\t\t\n\t\t\n\t\t\tMariaFasolino\n\t\t\n\t\t\n\t\t\tYeqiaoZhou\n\t\t\n\t\t\n\t\t\tStanleyCai\n\t\t\n\t\t\n\t\t\tLanweiXu\n\t\t\n\t\t\n\t\t\tWarrenSPear\n\t\t\n\t\t\n\t\t\tGolnazVahedi\n\t\t\n\t\t\n\t\t\tRobertBFaryabi\n\t\t\n\t\t10.1101/519660\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c376117723bebd8665cc20"},"refKey":17},
{"_key":"60c376117723bebd8665cc23","_id":"references/60c376117723bebd8665cc23","_rev":"_cfFlJPW---","tei":"\n\t\n\t\tCompact Integration of Multi-Network Topology for Functional Analysis of Genes\n\t\t\n\t\t\tHCho\n\t\t\n\t\t\n\t\t\tBBerger\n\t\t\n\t\t\n\t\t\tJPeng\n\t\t\n\t\n\t\n\t\tCell Syst\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\te545\n\n","document":{"$oid":"60c376117723bebd8665cc20"},"refKey":23},
{"_key":"60c376117723bebd8665cc24","_id":"references/60c376117723bebd8665cc24","_rev":"_cfFlJPi---","tei":"\n\t\n\t\tGoing the Distance for Protein Function Prediction: A New Distance Metric for Protein Interaction Networks\n\t\t\n\t\t\tMengfeiCao\n\t\t\n\t\t\n\t\t\tHaoZhang\n\t\t\n\t\t\n\t\t\tJisooPark\n\t\t\n\t\t\n\t\t\tNoahMDaniels\n\t\t\n\t\t\n\t\t\tMarkECrovella\n\t\t\n\t\t\n\t\t\tLenoreJCowen\n\t\t\n\t\t\n\t\t\tBenjaminHescott\n\t\t\n\t\t10.1371/journal.pone.0076339\n\t\t24194834\n\t\tPMC3806810\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t10\n\t\t\te76339\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c376117723bebd8665cc20"},"refKey":24},
{"_key":"60c376117723bebd8665cc25","_id":"references/60c376117723bebd8665cc25","_rev":"_cfFlJPu---","tei":"\n\t\n\t\tdeepNF: Deep network fusion for protein function prediction\n\t\t\n\t\t\tVladimirGligorijević\n\t\t\t0000-0002-5165-0973\n\t\t\n\t\t\n\t\t\tMeetBarot\n\t\t\n\t\t\n\t\t\tRichardBonneau\n\t\t\n\t\t10.1101/223339\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c376117723bebd8665cc20"},"refKey":25},
{"_key":"60c376117723bebd8665cc26","_id":"references/60c376117723bebd8665cc26","_rev":"_cfFlJP6---","tei":"\n\t\n\t\tDDOT: A Swiss Army Knife for Investigating Data-Driven Biological Ontologies\n\t\t\n\t\t\tMichaelKuYu\n\t\t\n\t\t\n\t\t\tJianzhuMa\n\t\t\n\t\t\n\t\t\tKeiichiroOno\n\t\t\n\t\t\n\t\t\tFanZheng\n\t\t\n\t\t\n\t\t\tSamsonHFong\n\t\t\n\t\t\n\t\t\tAaronGary\n\t\t\n\t\t\n\t\t\tJingChen\n\t\t\n\t\t\n\t\t\tBarryDemchak\n\t\t\n\t\t\n\t\t\tDexterPratt\n\t\t\n\t\t\n\t\t\tTreyIdeker\n\t\t\n\t\t10.1016/j.cels.2019.02.003\n\t\t\n\t\n\t\n\t\tCell Systems\n\t\tCell Systems\n\t\t2405-4712\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\te263\n\n","document":{"$oid":"60c376117723bebd8665cc20"},"refKey":49},
{"_key":"60c376117723bebd8665cc27","_id":"references/60c376117723bebd8665cc27","_rev":"_cfFlJQG---","tei":"\n\t\n\t\tJoint analysis of heterogeneous single-cell RNA-seq dataset collections\n\t\t\n\t\t\tNikolasBarkas\n\t\t\t0000-0002-4675-0718\n\t\t\n\t\t\n\t\t\tViktorPetukhov\n\t\t\n\t\t\n\t\t\tDariaNikolaeva\n\t\t\n\t\t\n\t\t\tYaroslavLozinsky\n\t\t\n\t\t\n\t\t\tSamuelDemharter\n\t\t\n\t\t\n\t\t\tKonstantinKhodosevich\n\t\t\n\t\t\n\t\t\tPeterVKharchenko\n\t\t\t0000-0002-6036-5875\n\t\t\n\t\t10.1038/s41592-019-0466-z\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t16\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c376117723bebd8665cc20"},"refKey":18},
{"_key":"60c376117723bebd8665cc28","_id":"references/60c376117723bebd8665cc28","_rev":"_cfFlJQS---","tei":"\n\t\n\t\tAccuracy Evaluation of Overlapping and Multi-Resolution Clustering Algorithms on Large Datasets\n\t\t\n\t\t\tArtemLutov\n\t\t\n\t\t\n\t\t\tMouradKhayati\n\t\t\n\t\t\n\t\t\tPhilippeCudre-Mauroux\n\t\t\n\t\t10.1109/bigcomp.2019.8679398\n\t\t\n\t\n\t\n\t\t2019 IEEE International Conference on Big Data and Smart Computing (BigComp)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t2019\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c376117723bebd8665cc20"},"refKey":52},
{"_key":"60c376117723bebd8665cc29","_id":"references/60c376117723bebd8665cc29","_rev":"_cfFlJQe---","tei":"\n\t\n\t\tProfiler: a web server for functional enrichment analysis and conversions of gene lists (2019 update)\n\t\t\n\t\t\tURaudvere\n\t\t\n\t\t\n\t\t\tLKolberg\n\t\t\n\t\t\n\t\t\tIKuzmin\n\t\t\n\t\t\n\t\t\tTArak\n\t\t\n\t\t\n\t\t\tPAdler\n\t\t\n\t\t\n\t\t\tHPeterson\n\t\t\n\t\t\n\t\t\tJVilo\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c376117723bebd8665cc20"},"refKey":53},
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{"_key":"60c377727723bebd8665cd98","_id":"references/60c377727723bebd8665cd98","_rev":"_cfFlJVi---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c377727723bebd8665cd97"},"refKey":21},
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{"_key":"60c3783c7723bebd8665ce18","_id":"references/60c3783c7723bebd8665ce18","_rev":"_cfFlJXW---","tei":"\n\t\n\t\tThe evolution of methodologies for genomic prediction\n\t\t\n\t\t\tDorianGarrick\n\t\t\n\t\t\n\t\t\tJackDekkers\n\t\t\n\t\t\n\t\t\tRohanFernando\n\t\t\n\t\t10.1016/j.livsci.2014.05.031\n\t\n\t\n\t\tLivestock Science\n\t\tLivestock Science\n\t\t1871-1413\n\t\t\n\t\t\t166\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3783c7723bebd8665ce17"},"refKey":19},
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{"_key":"60c378b77723bebd8665ce86","_id":"references/60c378b77723bebd8665ce86","_rev":"_cfFlJZ----","tei":"\n\t\n\t\tAccurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tDePreter\n\t\t\n\t\t\n\t\t\tKPattyn\n\t\t\n\t\t\n\t\t\tFPoppe\n\t\t\n\t\t\n\t\t\tBVan Roy\n\t\t\n\t\t\n\t\t\tN\n\t\t\n\t\t\n\t\t\tDePaepe\n\t\t\n\t\t\n\t\t\tASpeleman\n\t\t\n\t\t\n\t\t\tF\n\t\t\n\t\tresearch0034.1-research0034.11\n\t\n\t\n\t\tGenom Biol\n\t\t\n\t\t\t3\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c378b77723bebd8665ce85"},"refKey":16},
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{"_key":"60c379427723bebd8665cf59","_id":"references/60c379427723bebd8665cf59","_rev":"_cfFlJdy---","tei":"\n\t\n\t\tA Fast Flexible Docking Method using an Incremental Construction Algorithm\n\t\t\n\t\t\tMatthiasRarey\n\t\t\n\t\t\n\t\t\tBerndKramer\n\t\t\n\t\t\n\t\t\tThomasLengauer\n\t\t\n\t\t\n\t\t\tGerhardKlebe\n\t\t\n\t\t10.1006/jmbi.1996.0477\n\t\t8780787\n\t\tS0022-2836(96)90477-5\n\t\tark:/67375/6H6-KZF2QWF4-4\n\t\tF66F5BD4CAA28D99062DF70CF99157C7E2F4FDFD\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t261\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c379427723bebd8665cf54"},"refKey":7},
{"_key":"60c379427723bebd8665cf5a","_id":"references/60c379427723bebd8665cf5a","_rev":"_cfFlJe----","tei":"\n\t\n\t\tDevelopment and validation of a genetic algorithm for flexible docking\n\t\t\n\t\t\tGJones\n\t\t\n\t\t\n\t\t\tPWillett\n\t\t\n\t\t\n\t\t\tRCGlen\n\t\t\n\t\t\n\t\t\tARLeach\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t267\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c379427723bebd8665cf54"},"refKey":8},
{"_key":"60c379427723bebd8665cf5b","_id":"references/60c379427723bebd8665cf5b","_rev":"_cfFlJeG---","tei":"\n\t\n\t\tGlide: a new approach for rapid, accurate docking and scoring. 2. Enrichment factors in database screening\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tHSBeard\n\t\t\n\t\t\n\t\t\tLLFrye\n\t\t\n\t\n\t\n\t\tJ Med Chem\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c379427723bebd8665cf54"},"refKey":9},
{"_key":"60c379427723bebd8665cf5c","_id":"references/60c379427723bebd8665cf5c","_rev":"_cfFlJeS---","tei":"\n\t\n\t\tGlide: a new approach for rapid, accurate docking and scoring. 1. Method and assessment of docking accuracy\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tJLBanks\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\t\n\t\t\tJJKlicic\n\t\t\n\t\n\t\n\t\tJ Med Chem\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c379427723bebd8665cf54"},"refKey":10},
{"_key":"60c379427723bebd8665cf5d","_id":"references/60c379427723bebd8665cf5d","_rev":"_cfFlJee---","tei":"\n\t\n\t\tLigScore: a novel scoring function for predicting binding affinities\n\t\t\n\t\t\tAndréKrammer\n\t\t\n\t\t\n\t\t\tPaulDKirchhoff\n\t\t\n\t\t\n\t\t\tXJiang\n\t\t\n\t\t\n\t\t\tCMVenkatachalam\n\t\t\n\t\t\n\t\t\tMarvinWaldman\n\t\t\n\t\t10.1016/j.jmgm.2004.11.007\n\t\t15781182\n\t\n\t\n\t\tJournal of Molecular Graphics and Modelling\n\t\tJournal of Molecular Graphics and Modelling\n\t\t1093-3263\n\t\t\n\t\t\t23\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c379427723bebd8665cf54"},"refKey":16},
{"_key":"60c3795c7723bebd8665cf89","_id":"references/60c3795c7723bebd8665cf89","_rev":"_cfFlJeq---","tei":"\n\t\n\t\tTowards automated crystallographic structure refinement withphenix.refine\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tMaratMustyakimov\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1107/s0907444912001308\n\t\t22505256\n\t\tPMC3322595\n\t\tark:/67375/WNG-MXJ2DPRR-0\n\t\tBD670148C9B6E82421013A29392A96BB55B63272\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t68\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c3795c7723bebd8665cf88"},"refKey":29},
{"_key":"60c3795c7723bebd8665cf8a","_id":"references/60c3795c7723bebd8665cf8a","_rev":"_cfFlJe2---","tei":"\n\t\n\t\tChEMBL web services: streamlining access to drug discovery data and utilities\n\t\t\n\t\t\tMarkDavies\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tGeorgePapadatos\n\t\t\n\t\t\n\t\t\tNathanDedman\n\t\t\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tLouisaBellis\n\t\t\n\t\t\n\t\t\tJohnPOverington\n\t\t\n\t\t10.1093/nar/gkv352\n\t\t25883136\n\t\tPMC4489243\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3795c7723bebd8665cf88"},"refKey":36},
{"_key":"60c3795c7723bebd8665cf8b","_id":"references/60c3795c7723bebd8665cf8b","_rev":"_cfFlJfC---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPhilipREvans\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t10.1107/s0907444913000061\n\t\t23793146\n\t\tPMC3689523\n\t\tark:/67375/WNG-5NGXND0Q-1\n\t\tBB88595D0B6EDD2B9D3A2D34A0E0E6807A0B5A6E\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t69\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c3795c7723bebd8665cf88"},"refKey":27},
{"_key":"60c3795c7723bebd8665cf8c","_id":"references/60c3795c7723bebd8665cf8c","_rev":"_cfFlJfO---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c3795c7723bebd8665cf88"},"refKey":34},
{"_key":"60c3795c7723bebd8665cf8d","_id":"references/60c3795c7723bebd8665cf8d","_rev":"_cfFlJfa---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNoelMO'boyle\n\t\t\n\t\t\n\t\t\tMichaelBanck\n\t\t\n\t\t\n\t\t\tCraigAJames\n\t\t\n\t\t\n\t\t\tChrisMorley\n\t\t\n\t\t\n\t\t\tTimVandermeersch\n\t\t\n\t\t\n\t\t\tGeoffreyRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t21982300\n\t\tPMC3198950\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\t33 CrossRef Medline\n\n","document":{"$oid":"60c3795c7723bebd8665cf88"},"refKey":35},
{"_key":"60c379827723bebd8665cfbd","_id":"references/60c379827723bebd8665cfbd","_rev":"_cfFlJfm---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c379827723bebd8665cfbc"},"refKey":57},
{"_key":"60c379827723bebd8665cfbe","_id":"references/60c379827723bebd8665cfbe","_rev":"_cfFlJfy---","tei":"\n\t\n\t\tMetaboAnalyst: a web server for metabolomic data analysis and interpretation\n\t\t\n\t\t\tJXia\n\t\t\n\t\t\n\t\t\tNPsychogios\n\t\t\n\t\t\n\t\t\tNYoung\n\t\t\n\t\t\n\t\t\tDSWishart\n\t\t\n\t\t10.1093/nar/gkp356\n\t\t19429898\n\t\tPMC2703878\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c379827723bebd8665cfbc"},"refKey":64},
{"_key":"60c379827723bebd8665cfbf","_id":"references/60c379827723bebd8665cfbf","_rev":"_cfFlJg----","tei":"\n\t\n\t\tSignificance analysis of microarrays applied to the ionizing radiation response\n\t\t\n\t\t\tVGTusher\n\t\t\n\t\t\n\t\t\tR &Tibshirani\n\t\t\n\t\t\n\t\t\tGChu\n\t\t\n\t\t10.1073/pnas.091062498\n\t\t11309499\n\t\tPMC33173\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c379827723bebd8665cfbc"},"refKey":58},
{"_key":"60c3799b7723bebd8665cfff","_id":"references/60c3799b7723bebd8665cfff","_rev":"_cfFlJgK---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3799b7723bebd8665cffe"},"refKey":32},
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{"_key":"60c37a037723bebd8665d03e","_id":"references/60c37a037723bebd8665d03e","_rev":"_cfFlJgm---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c37a037723bebd8665d03d"},"refKey":58},
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{"_key":"60c37a037723bebd8665d041","_id":"references/60c37a037723bebd8665d041","_rev":"_cfFlJhS---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c37a037723bebd8665d03d"},"refKey":71},
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{"_key":"60c37a037723bebd8665d043","_id":"references/60c37a037723bebd8665d043","_rev":"_cfFlJhq---","tei":"\n\t\n\t\tComputational Docking of Biomolecular Complexes with AutoDock\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t10.1101/pdb.prot5200\n\t\t20147154\n\t\t\n\t\n\t\n\t\tCold Spring Harbor Protocols\n\t\tCold Spring Harbor Protocols\n\t\t1559-6095\n\t\t\n\t\t\t2009\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c37a037723bebd8665d03d"},"refKey":28},
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{"_key":"60c37d5c7723bebd8665d42b","_id":"references/60c37d5c7723bebd8665d42b","_rev":"_cfFlJty---","tei":"\n\t\n\t\tViewstamped replication: a new primary copy method to support highly-available distributed systems\n\t\t\n\t\t\tBMOki\n\t\t\n\t\t\n\t\t\tBHLiskov\n\t\t\n\t\t10.1145/62546.62549\n\t\t\n\t\n\t\n\t\tProceedings of the Seventh Annual ACM Symposium on Principles of Distributed Computing\n\t\t\t\tthe Seventh Annual ACM Symposium on Principles of Distributed ComputingNew York\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37d5c7723bebd8665d428"},"refKey":41},
{"_key":"60c37d5d7723bebd8665d438","_id":"references/60c37d5d7723bebd8665d438","_rev":"_cfFlJu----","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tComputational and Mathematical Methods in Medicine\n\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c37d5d7723bebd8665d437"},"refKey":31},
{"_key":"60c37d727723bebd8665d443","_id":"references/60c37d727723bebd8665d443","_rev":"_cfFlJuK---","tei":"\n\t\n\t\tMXCuBE3: A New Era of MX-Beamline Control Begins\n\t\t\n\t\t\tUweMueller\n\t\t\n\t\t\n\t\t\tMarjoleinThunnissen\n\t\t\n\t\t\n\t\t\tJieNan\n\t\t\n\t\t\n\t\t\tMikelEguiraun\n\t\t\n\t\t\n\t\t\tFredrickBolmsten\n\t\t\n\t\t\n\t\t\tAntonioMilàn-Otero\n\t\t\n\t\t\n\t\t\tMathiasGuijarro\n\t\t\n\t\t\n\t\t\tMarkusOscarsson\n\t\t\n\t\t\n\t\t\tDanieleDe Sanctis\n\t\t\n\t\t\n\t\t\tGordonLeonard\n\t\t\n\t\t10.1080/08940886.2017.1267564\n\t\n\t\n\t\tSynchrotron Radiation News\n\t\tSynchrotron Radiation News\n\t\t0894-0886\n\t\t1931-7344\n\t\t\n\t\t\t30\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c37d727723bebd8665d442"},"refKey":28},
{"_key":"60c37d727723bebd8665d444","_id":"references/60c37d727723bebd8665d444","_rev":"_cfFlJuW---","tei":"\n\t\n\t\tEDNA: a framework for plugin-based applications applied to X-ray experiment online data analysis\n\t\t\n\t\t\tMarie-FrançoiseIncardona\n\t\t\n\t\t\n\t\t\tGlebPBourenkov\n\t\t\n\t\t\n\t\t\tKarlLevik\n\t\t\n\t\t\n\t\t\tRomeuAPieritz\n\t\t\n\t\t\n\t\t\tAlexanderNPopov\n\t\t\n\t\t\n\t\t\tOlofSvensson\n\t\t\n\t\t10.1107/s0909049509036681\n\t\t19844027\n\t\tark:/67375/WNG-F4TPSZKV-M\n\t\tD4F34C15017872FB09ED2E54BC0F586BC1C4139E\n\t\n\t\n\t\tJournal of Synchrotron Radiation\n\t\tJ Synchrotron Radiat\n\t\t0909-0495\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c37d727723bebd8665d442"},"refKey":18},
{"_key":"60c37db47723bebd8665d4a2","_id":"references/60c37db47723bebd8665d4a2","_rev":"_cfFlJui---","tei":"\n\t\n\t\tAll-cause excess mortality observed by age group and regions in the first wave of the COVID-19 pandemic in England\n\t\t\n\t\t\tMASinnathamby\n\t\t\n\t\t\n\t\t\tHWhitaker\n\t\t\n\t\t\n\t\t\tLCoughlan\n\t\t\n\t\t\n\t\t\tJLBernal\n\t\t\n\t\t\n\t\t\tMRamsay\n\t\t\n\t\t\n\t\t\tNAndrews\n\t\t\n\t\n\t\n\t\tEurosurveillance\n\t\t\n\t\t\t25\n\t\t\t28\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37db47723bebd8665d4a1"},"refKey":4},
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{"_key":"60c37e027723bebd8665d4ee","_id":"references/60c37e027723bebd8665d4ee","_rev":"_cfFlJw----","tei":"\n\t\n\t\tRoad Traffic Event Detection Using Twitter Data, Machine Learning, and Apache Spark\n\t\t\n\t\t\tEAlomari\n\t\t\n\t\t\n\t\t\tRMehmood\n\t\t\n\t\t\n\t\t\tIKatib\n\t\t\n\t\t10.1109/SmartWorld-UIC-ATC-SCALCOM-IOP-SCI.2019.00332\n\t\n\t\n\t\tProceedings of the 2019 IEEE SmartWorld, Ubiquitous Intelligence & Computing, Advanced & Trusted Computing, Scalable Computing & Communications, Cloud & Big Data Computing, Internet of People and Smart City Innovation\n\t\t\t\tthe 2019 IEEE SmartWorld, Ubiquitous Intelligence & Computing, Advanced & Trusted Computing, Scalable Computing & Communications, Cloud & Big Data Computing, Internet of People and Smart City InnovationLeicester, UK\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37e027723bebd8665d4ea"},"refKey":9},
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{"_key":"60c37e587723bebd8665d564","_id":"references/60c37e587723bebd8665d564","_rev":"_cfFlJw6---","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37e587723bebd8665d561"},"refKey":15},
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{"_key":"60c37e677723bebd8665d574","_id":"references/60c37e677723bebd8665d574","_rev":"_cfFlJxO---","tei":"\n\t\n\t\tLearning bayesian networks with the bnlearn R package\n\t\t\n\t\t\tMScutari\n\t\t\n\t\tarXiv 0908.3817\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37e677723bebd8665d573"},"refKey":48},
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{"_key":"60c37e877723bebd8665d588","_id":"references/60c37e877723bebd8665d588","_rev":"_cfFlJxm---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37e877723bebd8665d587"},"refKey":22},
{"_key":"60c37ea67723bebd8665d5a0","_id":"references/60c37ea67723bebd8665d5a0","_rev":"_cfFlJxy---","tei":"\n\t\n\t\tThe mutational constraint spectrum quantified from variation in 141,456 humans\n\t\t\n\t\t\tKJKarczewski\n\t\t\n\t\t\n\t\t\tLCFrancioli\n\t\t\n\t\t\n\t\t\tGTiao\n\t\t\n\t\t\n\t\t\tBBCummings\n\t\t\n\t\t\n\t\t\tJAlföldi\n\t\t\n\t\t\n\t\t\tQWang\n\t\t\n\t\t\n\t\t\tRLCollins\n\t\t\n\t\t\n\t\t\tKMLaricchia\n\t\t\n\t\t\n\t\t\tAGanna\n\t\t\n\t\t\n\t\t\tDPBirnbaum\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t581\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37ea67723bebd8665d59f"},"refKey":9},
{"_key":"60c37ea67723bebd8665d5a1","_id":"references/60c37ea67723bebd8665d5a1","_rev":"_cfFlJy----","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tASivachenko\n\t\t\n\t\t\n\t\t\tKCibulskis\n\t\t\n\t\t\n\t\t\tAKernytsky\n\t\t\n\t\t\n\t\t\tKGarimella\n\t\t\n\t\t\n\t\t\tDAltshuler\n\t\t\n\t\t\n\t\t\tSGabriel\n\t\t\n\t\t\n\t\t\tMDaly\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37ea67723bebd8665d59f"},"refKey":5},
{"_key":"60c37ea67723bebd8665d5a2","_id":"references/60c37ea67723bebd8665d5a2","_rev":"_cfFlJyK---","tei":"\n\t\n\t\tFrom FastQ Data to High-Confidence Variant Calls: The Genome Analysis Toolkit Best Practices Pipeline\n\t\t\n\t\t\tGAVan Der Auwera\n\t\t\n\t\t\n\t\t\tMOCarneiro\n\t\t\n\t\t\n\t\t\tCHartl\n\t\t\n\t\t\n\t\t\tRPoplin\n\t\t\n\t\t\n\t\t\tGDel Angel\n\t\t\n\t\t\n\t\t\tALevy-Moonshine\n\t\t\n\t\t\n\t\t\tTJordan\n\t\t\n\t\t\n\t\t\tKShakir\n\t\t\n\t\t\n\t\t\tDRoazen\n\t\t\n\t\t\n\t\t\tJThibault\n\t\t\n\t\t11.10.1-11.10.33\n\t\n\t\n\t\tCurr. Protoc. Bioinforma\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37ea67723bebd8665d59f"},"refKey":6},
{"_key":"60c37ea67723bebd8665d5a3","_id":"references/60c37ea67723bebd8665d5a3","_rev":"_cfFlJyW---","tei":"\n\t\n\t\tATAV -a comprehensive platform for population-scale genomic analyses\n\t\t\n\t\t\tZRen\n\t\t\n\t\t\n\t\t\tGPovysil\n\t\t\n\t\t\n\t\t\tDBGoldstein\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tBioRxiv 2020.06.08.136507\n\n","document":{"$oid":"60c37ea67723bebd8665d59f"},"refKey":8},
{"_key":"60c37ea67723bebd8665d5a4","_id":"references/60c37ea67723bebd8665d5a4","_rev":"_cfFlJyi---","tei":"\n\t\n\t\tAnalysis of protein-coding genetic variation in 60,706 humans\n\t\t\n\t\t\tMonkolLek\n\t\t\n\t\t\n\t\t\tKonradJKarczewski\n\t\t\n\t\t\n\t\t\tEricVMinikel\n\t\t\n\t\t\n\t\t\tKaitlinESamocha\n\t\t\n\t\t\n\t\t\tEricBanks\n\t\t\n\t\t\n\t\t\tTimothyFennell\n\t\t\n\t\t\n\t\t\tAnneHO’donnell-Luria\n\t\t\n\t\t\n\t\t\tJamesSWare\n\t\t\n\t\t\n\t\t\tAndrewJHill\n\t\t\n\t\t\n\t\t\tBerylBCummings\n\t\t\n\t\t\n\t\t\tTaruTukiainen\n\t\t\n\t\t\n\t\t\tDanielPBirnbaum\n\t\t\n\t\t\n\t\t\tJackAKosmicki\n\t\t\n\t\t\n\t\t\tLaramieEDuncan\n\t\t\n\t\t\n\t\t\tKarolEstrada\n\t\t\n\t\t\n\t\t\tFengmeiZhao\n\t\t\n\t\t\n\t\t\tJamesZou\n\t\t\n\t\t\n\t\t\tEmmaPierce-Hoffman\n\t\t\n\t\t\n\t\t\tJoanneBerghout\n\t\t\n\t\t\n\t\t\tDavidNCooper\n\t\t\n\t\t\n\t\t\tNicoleDeflaux\n\t\t\n\t\t\n\t\t\tMarkDepristo\n\t\t\n\t\t\n\t\t\tRonDo\n\t\t\n\t\t\n\t\t\tJasonFlannick\n\t\t\n\t\t\n\t\t\tMenachemFromer\n\t\t\n\t\t\n\t\t\tLauraGauthier\n\t\t\n\t\t\n\t\t\tJackieGoldstein\n\t\t\n\t\t\n\t\t\tNamrataGupta\n\t\t\n\t\t\n\t\t\tDanielHowrigan\n\t\t\n\t\t\n\t\t\tAdamKiezun\n\t\t\n\t\t\n\t\t\tMitjaIKurki\n\t\t\n\t\t\n\t\t\tAmiLevyMoonshine\n\t\t\n\t\t\n\t\t\tPradeepNatarajan\n\t\t\n\t\t\n\t\t\tLorenaOrozco\n\t\t\n\t\t\n\t\t\tGinaMPeloso\n\t\t\n\t\t\n\t\t\tRyanPoplin\n\t\t\n\t\t\n\t\t\tManuelARivas\n\t\t\n\t\t\n\t\t\tValentinRuano-Rubio\n\t\t\n\t\t\n\t\t\tSamuelARose\n\t\t\n\t\t\n\t\t\tDouglasMRuderfer\n\t\t\n\t\t\n\t\t\tKhalidShakir\n\t\t\n\t\t\n\t\t\tPeterDStenson\n\t\t\n\t\t\n\t\t\tChristineStevens\n\t\t\n\t\t\n\t\t\tBrettPThomas\n\t\t\n\t\t\n\t\t\tGraceTiao\n\t\t\n\t\t\n\t\t\tMariaTTusie-Luna\n\t\t\n\t\t\n\t\t\tBenWeisburd\n\t\t\n\t\t\n\t\t\tHong-HeeWon\n\t\t\n\t\t\n\t\t\tDongmeiYu\n\t\t\n\t\t\n\t\t\tDavidMAltshuler\n\t\t\n\t\t\n\t\t\tDiegoArdissino\n\t\t\n\t\t\n\t\t\tMichaelBoehnke\n\t\t\n\t\t\n\t\t\tJohnDanesh\n\t\t\n\t\t\n\t\t\tStaceyDonnelly\n\t\t\n\t\t\n\t\t\tRobertoElosua\n\t\t\n\t\t\n\t\t\tJoseCFlorez\n\t\t\n\t\t\n\t\t\tStaceyBGabriel\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tStephenJGlatt\n\t\t\n\t\t\n\t\t\tChristinaMHultman\n\t\t\n\t\t\n\t\t\tSekarKathiresan\n\t\t\n\t\t\n\t\t\tMarkkuLaakso\n\t\t\n\t\t\n\t\t\tStevenMccarroll\n\t\t\n\t\t\n\t\t\tMarkIMccarthy\n\t\t\n\t\t\n\t\t\tDermotMcgovern\n\t\t\n\t\t\n\t\t\tRuthMcpherson\n\t\t\n\t\t\n\t\t\tBenjaminMNeale\n\t\t\n\t\t\n\t\t\tAarnoPalotie\n\t\t\n\t\t\n\t\t\tShaunMPurcell\n\t\t\n\t\t\n\t\t\tDanishSaleheen\n\t\t\n\t\t\n\t\t\tJeremiahMScharf\n\t\t\n\t\t\n\t\t\tPamelaSklar\n\t\t\n\t\t\n\t\t\tPatrickFSullivan\n\t\t\n\t\t\n\t\t\tJaakkoTuomilehto\n\t\t\n\t\t\n\t\t\tMingTTsuang\n\t\t\n\t\t\n\t\t\tHughCWatkins\n\t\t\n\t\t\n\t\t\tJamesGWilson\n\t\t\n\t\t\n\t\t\tMarkJDaly\n\t\t\n\t\t\n\t\t\tDanielGMacarthur\n\t\t\n\t\t10.1101/030338\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t536\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c37ea67723bebd8665d59f"},"refKey":20},
{"_key":"60c37ea67723bebd8665d5a5","_id":"references/60c37ea67723bebd8665d5a5","_rev":"_cfFlJyu---","tei":"\n\t\n\t\tThe Sentieon Genomics Tools - A fast and accurate solution to variant calling from next-generation sequence data\n\t\t\n\t\t\tDonaldFreed\n\t\t\t0000-0003-4534-7254\n\t\t\n\t\t\n\t\t\tRafaelAldana\n\t\t\n\t\t\n\t\t\tJessicaAWeber\n\t\t\n\t\t\n\t\t\tJeremySEdwards\n\t\t\n\t\t10.1101/115717\n\t\t\n\t\n\t\n\t\tBioRxiv\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c37ea67723bebd8665d59f"},"refKey":25},
{"_key":"60c37ed27723bebd8665d5c4","_id":"references/60c37ed27723bebd8665d5c4","_rev":"_cfFlJy2---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tTGur\n\t\t\n\t\t\n\t\t\tNMadhusoodanan\n\t\t\n\t\t\n\t\t\tPBasutkar\n\t\t\n\t\t\n\t\t\tArnTivey\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t10.1093/nar/gkz268\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37ed27723bebd8665d5c3"},"refKey":25},
{"_key":"60c37ed27723bebd8665d5c5","_id":"references/60c37ed27723bebd8665d5c5","_rev":"_cfFlJzC---","tei":"\n\t\n\t\tThe Pfam protein families database in 2019\n\t\t\n\t\t\tSEl-Gebali\n\t\t\n\t\t\n\t\t\tJMistry\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tALuciani\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tMQureshi\n\t\t\n\t\t\n\t\t\tLJRichardson\n\t\t\n\t\t\n\t\t\tGASalazar\n\t\t\n\t\t\n\t\t\tASmart\n\t\t\n\t\t\n\t\t\tEllSonnhammer\n\t\t\n\t\t\n\t\t\tLHirsh\n\t\t\n\t\t\n\t\t\tLPaladin\n\t\t\n\t\t\n\t\t\tDPiovesan\n\t\t\n\t\t\n\t\t\tSceTosatto\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t10.1093/nar/gky995\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37ed27723bebd8665d5c3"},"refKey":26},
{"_key":"60c37ed27723bebd8665d5c6","_id":"references/60c37ed27723bebd8665d5c6","_rev":"_cfFlJzO---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\t0000-0002-3210-2656\n\t\t\n\t\t\n\t\t\tStefansMezulis\n\t\t\n\t\t\n\t\t\tChristopherMYates\n\t\t\n\t\t\n\t\t\tMarkNWass\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\t0000-0002-1884-5445\n\t\t\n\t\t10.1038/nprot.2015.053\n\t\t25950237\n\t\tPMC5298202\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c37ed27723bebd8665d5c3"},"refKey":32},
{"_key":"60c37ed27723bebd8665d5c7","_id":"references/60c37ed27723bebd8665d5c7","_rev":"_cfFlJza---","tei":"\n\t\n\t\tPrediction of lipoprotein signal peptides in Gram-negative bacteria\n\t\t\n\t\t\tAgnieszkaSJuncker\n\t\t\n\t\t\n\t\t\tHanniWillenbrock\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tHenrikNielsen\n\t\t\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t10.1110/ps.0303703\n\t\t12876315\n\t\tPMC2323952\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t12\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c37ed27723bebd8665d5c3"},"refKey":33},
{"_key":"60c37ed27723bebd8665d5c8","_id":"references/60c37ed27723bebd8665d5c8","_rev":"_cfFlJzm---","tei":"\n\t\n\t\tSignalP 5.0 improves signal peptide predictions using deep neural networks\n\t\t\n\t\t\tAlmagroArmenteros\n\t\t\n\t\t\n\t\t\tJJTsirigos\n\t\t\n\t\t\n\t\t\tKDSønderby\n\t\t\n\t\t\n\t\t\tCKPetersen\n\t\t\n\t\t\n\t\t\tTNWinther\n\t\t\n\t\t\n\t\t\tOBrunak\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\t\n\t\t\tVonHeijne\n\t\t\n\t\t\n\t\t\tGNielsen\n\t\t\n\t\t\n\t\t\tH\n\t\t\n\t\t10.1038/s41587-019-0036-z\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37ed27723bebd8665d5c3"},"refKey":34},
{"_key":"60c37ed27723bebd8665d5c9","_id":"references/60c37ed27723bebd8665d5c9","_rev":"_cfFlJzy---","tei":"\n\t\n\t\tThe TOPCONS web server for consensus prediction of membrane protein topology and signal peptides\n\t\t\n\t\t\tKonstantinosDTsirigos\n\t\t\n\t\t\n\t\t\tChristophPeters\n\t\t\n\t\t\n\t\t\tNanjiangShu\n\t\t\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tArneElofsson\n\t\t\n\t\t10.1093/nar/gkv485\n\t\t25969446\n\t\tPMC4489233\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c37ed27723bebd8665d5c3"},"refKey":61},
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{"_key":"60c37f557723bebd8665d69c","_id":"references/60c37f557723bebd8665d69c","_rev":"_cfFlJ1u---","tei":"\n\t\n\t\tHPC-REDItools: A novel HPC-aware tool for improved large scale RNA-editing analysis\n\t\t\n\t\t\tTFlati\n\t\t\n\t\t\n\t\t\tSGioiosa\n\t\t\n\t\t\n\t\t\tNSpallanzani\n\t\t\n\t\t\n\t\t\tITagliaferri\n\t\t\n\t\t\n\t\t\tMDiroma\n\t\t\n\t\t\n\t\t\tGPesole\n\t\t\n\t\t\n\t\t\tGChillemi\n\t\t\n\t\t\n\t\t\tEPicardi\n\t\t\n\t\t\n\t\t\tTCastrignanò\n\t\t\n\t\t10.1101/2020.04.30.069732\n\t\tbioRxiv 2020.04.30.069732 [Preprint]. 30\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37f557723bebd8665d699"},"refKey":38},
{"_key":"60c37f557723bebd8665d69d","_id":"references/60c37f557723bebd8665d69d","_rev":"_cfFlJ16---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37f557723bebd8665d699"},"refKey":65},
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{"_key":"60c37f557723bebd8665d69f","_id":"references/60c37f557723bebd8665d69f","_rev":"_cfFlJ2S---","tei":"\n\t\n\t\tInvestigating RNA editing in deep transcriptome datasets with REDItools and REDIportal\n\t\t\n\t\t\tCLo Giudice\n\t\t\n\t\t\n\t\t\tMATangaro\n\t\t\n\t\t\n\t\t\tGPesole\n\t\t\n\t\t\n\t\t\tEPicardi\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37f557723bebd8665d699"},"refKey":37},
{"_key":"60c37f557723bebd8665d6a0","_id":"references/60c37f557723bebd8665d6a0","_rev":"_cfFlJ2e---","tei":"\n\t\n\t\tThe sequence alignment/ map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tGenome Project Data Processing Subgroup\n\t\t\t\t\n\t\t\t\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37f557723bebd8665d699"},"refKey":62},
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{"_key":"60c37f8e7723bebd8665d6df","_id":"references/60c37f8e7723bebd8665d6df","_rev":"_cfFlJ2y---","tei":"\n\t\n\t\tProcessing X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c37f8e7723bebd8665d6de"},"refKey":42},
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{"_key":"60c37f957723bebd8665d6f3","_id":"references/60c37f957723bebd8665d6f3","_rev":"_cfFlJ3i---","tei":"\n\t\n\t\tPrediction of CTL epitopes using QM, SVM and ANN techniques\n\t\t\n\t\t\tManojBhasin\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1016/j.vaccine.2004.02.005\n\t\t15297074\n\t\n\t\n\t\tVaccine\n\t\tVaccine\n\t\t0264-410X\n\t\t\n\t\t\t22\n\t\t\t23-24\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c37f957723bebd8665d6f2"},"refKey":3},
{"_key":"60c37f957723bebd8665d6f4","_id":"references/60c37f957723bebd8665d6f4","_rev":"_cfFlJ3u---","tei":"\n\t\n\t\tPrediction of MHC class I binding peptides using profile motifs\n\t\t\n\t\t\tPedroAReche\n\t\t\n\t\t\n\t\t\tJohn-PaulGlutting\n\t\t\n\t\t\n\t\t\tEllisLReinherz\n\t\t\n\t\t10.1016/s0198-8859(02)00432-9\n\t\t12175724\n\t\t\n\t\n\t\n\t\tHuman Immunology\n\t\tHuman Immunology\n\t\t0198-8859\n\t\t\n\t\t\t63\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c37f957723bebd8665d6f2"},"refKey":27},
{"_key":"60c380137723bebd8665d739","_id":"references/60c380137723bebd8665d739","_rev":"_cfFlJ36---","tei":"\n\t\n\t\tOpenMx 2.0: Extended Structural Equation and Statistical Modeling\n\t\t\n\t\t\tMCNeale\n\t\t\n\t\t\n\t\t\tMDHunter\n\t\t\n\t\t\n\t\t\tJNPritikin\n\t\t\n\t\n\t\n\t\tPsychometrika\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c380137723bebd8665d738"},"refKey":28},
{"_key":"60c380137723bebd8665d73a","_id":"references/60c380137723bebd8665d73a","_rev":"_cfFlJ4G---","tei":"\n\t\n\t\tFitting linear mixed-effects models using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMächler\n\t\t\n\t\t\n\t\t\tBMBolker\n\t\t\n\t\t\n\t\t\tSCWalker\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c380137723bebd8665d738"},"refKey":31},
{"_key":"60c380577723bebd8665d758","_id":"references/60c380577723bebd8665d758","_rev":"_cfFlJ4O---","tei":"\n\t\n\t\tComputer-assisted qualitative data analysis software: a review\n\t\t\n\t\t\tDJBanner\n\t\t\n\t\t\n\t\t\tJWAlbarrran\n\t\t\n\t\n\t\n\t\tCan J Cardiovasc Nurs\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c380577723bebd8665d757"},"refKey":30},
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{"_key":"60c382f97723bebd8665d9e1","_id":"references/60c382f97723bebd8665d9e1","_rev":"_cfFlK_C---","tei":"\n\t\n\t\tPAML: a program package for phylogenetic analysis by maximum likelihood\n\t\t\n\t\t\tZYang\n\t\t\n\t\n\t\n\t\tComputer Applications in the Biosciences\n\t\t\n\t\t\t13\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c382f97723bebd8665d9dd"},"refKey":16},
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{"_key":"60c383177723bebd8665da4d","_id":"references/60c383177723bebd8665da4d","_rev":"_cfFlK_a---","tei":"\n\t\n\t\tInductive representation learning on large graphs\n\t\t\n\t\t\tWLHamilton\n\t\t\n\t\t\n\t\t\tZYing\n\t\t\n\t\t\n\t\t\tJLeskovec\n\t\t\n\t\n\t\n\t\tNIPS\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383177723bebd8665da4b"},"refKey":6},
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{"_key":"60c383277723bebd8665da7c","_id":"references/60c383277723bebd8665da7c","_rev":"_cfFlKBS---","tei":"\n\t\n\t\tClassifying Cardiotocography Data based on Rough Neural Network\n\t\t\n\t\t\tBelalAmin\n\t\t\n\t\t\n\t\t\tMonaGamal\n\t\t\n\t\t\n\t\t\tAA.\n\t\t\n\t\t\n\t\t\tIMEl-Henawy\n\t\t\n\t\t\n\t\t\tKhaledMahfouz\n\t\t\n\t\t10.14569/ijacsa.2019.0100846\n\t\t\n\t\n\t\n\t\tInternational Journal of Advanced Computer Science and Applications\n\t\tIJACSA\n\t\t2158-107X\n\t\t2156-5570\n\t\t\n\t\t\t10\n\t\t\t8\n\t\t\t\n\t\t\tThe Science and Information Organization\n\t\t\n\t\n\n","document":{"$oid":"60c383277723bebd8665da79"},"refKey":32},
{"_key":"60c383277723bebd8665da7d","_id":"references/60c383277723bebd8665da7d","_rev":"_cfFlKBa---","tei":"\n\t\n\t\tModified decision table classifier by using decision support and confidence in online shopping dataset\n\t\t\n\t\t\tJKaur\n\t\t\n\t\t\n\t\t\tSBaghla\n\t\t\n\t\n\t\n\t\tInternational Journal of Computer Engineering & Technology\n\t\t\n\t\t\t8\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383277723bebd8665da79"},"refKey":33},
{"_key":"60c383277723bebd8665da7e","_id":"references/60c383277723bebd8665da7e","_rev":"_cfFlKBm---","tei":"\n\t\n\t\tUses the bagging algorithm of classification method with WEKA tool for prediction technique\n\t\t\n\t\t\tPShrivastava\n\t\t\n\t\t\n\t\t\tMShukla\n\t\t\n\t\n\t\n\t\tInternational Journal of Advanced Computational Engineering and Networking\n\t\t\n\t\t\t2\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383277723bebd8665da79"},"refKey":34},
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{"_key":"60c383277723bebd8665da80","_id":"references/60c383277723bebd8665da80","_rev":"_cfFlKC----","tei":"\n\t\n\t\tAnalysis and comparison study of data mining algorithms using rapid miner\n\t\t\n\t\t\tTKannapiran\n\t\t\n\t\t\n\t\t\tManoj\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383277723bebd8665da79"},"refKey":36},
{"_key":"60c383277723bebd8665da81","_id":"references/60c383277723bebd8665da81","_rev":"_cfFlKCK---","tei":"\n\t\n\t\tDetermination of Fetal State from Cardiotocogram Using LS-SVM with Particle Swarm Optimization and Binary Decision Tree\n\t\t\n\t\t\tErsenYılmaz\n\t\t\t0000-0002-6620-655X\n\t\t\n\t\t\n\t\t\tÇağlarKılıkçıer\n\t\t\n\t\t10.1155/2013/487179\n\t\t24288574\n\t\tPMC3830816\n\t\tID 487179\n\t\t\n\t\n\t\n\t\tComputational and Mathematical Methods in Medicine\n\t\tComputational and Mathematical Methods in Medicine\n\t\t1748-670X\n\t\t1748-6718\n\t\t\n\t\t\t2013\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c383277723bebd8665da79"},"refKey":37},
{"_key":"60c383277723bebd8665da82","_id":"references/60c383277723bebd8665da82","_rev":"_cfFlKCW---","tei":"\n\t\n\t\tBinary classification using ensemble neural networks and interval neutrosophic sets\n\t\t\n\t\t\tPawalaiKraipeerapun\n\t\t\n\t\t\n\t\t\tChunCheFung\n\t\t\n\t\t10.1016/j.neucom.2008.07.017\n\t\t\n\t\n\t\n\t\tNeurocomputing\n\t\tNeurocomputing\n\t\t0925-2312\n\t\t\n\t\t\t72\n\t\t\t13-15\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c383277723bebd8665da79"},"refKey":38},
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{"_key":"60c383277723bebd8665da87","_id":"references/60c383277723bebd8665da87","_rev":"_cfFlKDO---","tei":"\n\t\n\t\tApplications of neutrosophic and intuitionistic fuzzy set on image processing\n\t\t\n\t\t\tDKoundal\n\t\t\n\t\t\n\t\t\tSGupta\n\t\t\n\t\t\n\t\t\tSSingh\n\t\t\n\t\n\t\n\t\tProceedings of the National Conference on Green Technologies: Smart and Efficient Management\n\t\t\t\tthe National Conference on Green Technologies: Smart and Efficient ManagementBhopal, India\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383277723bebd8665da79"},"refKey":43},
{"_key":"60c383277723bebd8665da88","_id":"references/60c383277723bebd8665da88","_rev":"_cfFlKDa---","tei":"\n\t\n\t\tPerformance evaluation of machine learning algorithms in biomedical document classification\n\t\t\n\t\t\tBBehera\n\t\t\n\t\t\n\t\t\tGKumaravelan\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383277723bebd8665da79"},"refKey":44},
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{"_key":"60c383367723bebd8665da95","_id":"references/60c383367723bebd8665da95","_rev":"_cfFlKDy---","tei":"\n\t\n\t\tRecent developments in the MAFFT multiple sequence alignment program\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tHToh\n\t\t\n\t\t10.1093/bib/bbn013\n\t\t18372315\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c383367723bebd8665da94"},"refKey":6},
{"_key":"60c3835d7723bebd8665dac5","_id":"references/60c3835d7723bebd8665dac5","_rev":"_cfFlKE----","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids. Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3835d7723bebd8665dac4"},"refKey":15},
{"_key":"60c383817723bebd8665dadd","_id":"references/60c383817723bebd8665dadd","_rev":"_cfFlKEG---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1093/bioinformatics/btu033\n\t\t24451623\n\t\tPMC3998144\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c383817723bebd8665dadc"},"refKey":46},
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{"_key":"60c383817723bebd8665dadf","_id":"references/60c383817723bebd8665dadf","_rev":"_cfFlKEe---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBenjaminBuchfink\n\t\t\n\t\t\n\t\t\tChaoXie\n\t\t\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t10.1038/nmeth.3176\n\t\t25402007\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c383817723bebd8665dadc"},"refKey":38},
{"_key":"60c383817723bebd8665dae0","_id":"references/60c383817723bebd8665dae0","_rev":"_cfFlKEq---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c383817723bebd8665dadc"},"refKey":42},
{"_key":"60c383817723bebd8665dae1","_id":"references/60c383817723bebd8665dae1","_rev":"_cfFlKE2---","tei":"\n\t\n\t\tEpidemiology Tools. R package version 0.5-10\n\t\t\n\t\t\tTAragon\n\t\t\n\t\t\n\t\t\tEpitools\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t20\n\t\t\n\t\n\n","document":{"$oid":"60c383817723bebd8665dadc"},"refKey":55},
{"_key":"60c383817723bebd8665dae2","_id":"references/60c383817723bebd8665dae2","_rev":"_cfFlKFC---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\t10.1093/nar/gkf436\n\t\t12136088\n\t\tPMC135756\n\t\tark:/67375/HXZ-NRP1F2B9-4\n\t\t5EA93CBE48016E67AE51670E4623847EAB8A8265\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c383817723bebd8665dadc"},"refKey":43},
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{"_key":"60c383927723bebd8665dafb","_id":"references/60c383927723bebd8665dafb","_rev":"_cfFlKFa---","tei":"\n\t\n\t\tProfiling serum cytokines in COVID-19 patients reveals IL-6 and IL-10 are disease severity predictors\n\t\t\n\t\t\tHHan\n\t\t\n\t\n\t\n\t\tEmerg Microbes Infect\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383927723bebd8665dafa"},"refKey":81},
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{"_key":"60c383b27723bebd8665db26","_id":"references/60c383b27723bebd8665db26","_rev":"_cfFlKFy---","tei":"\n\t\n\t\tGlyRot: GitHub\n\t\t\n\t\t\tABernardi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383b27723bebd8665db25"},"refKey":45},
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{"_key":"60c383b27723bebd8665db28","_id":"references/60c383b27723bebd8665db28","_rev":"_cfFlKGK---","tei":"\n\t\n\t\tMCPB_Glycam_merge: GitHub\n\t\t\n\t\t\tABernardi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383b27723bebd8665db25"},"refKey":43},
{"_key":"60c383b27723bebd8665db29","_id":"references/60c383b27723bebd8665db29","_rev":"_cfFlKGa---","tei":"\n\t\n\t\tAsparagine and glutamine: using hydrogen atom contacts in the choice of side-chain amide orientation 1 1Edited by J. Thornton\n\t\t\n\t\t\tJMichaelWord\n\t\t\n\t\t\n\t\t\tSimonCLovell\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t10.1006/jmbi.1998.2401\n\t\t9917408\n\t\tS0022-2836(98)92401-9\n\t\tark:/67375/6H6-JDPG71GD-1\n\t\t386C3EEB29B8FB28DAF82234D86AC02E96A73792\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\tJ. Thornton\n\t\t0022-2836\n\t\t\n\t\t\t285\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c383b27723bebd8665db25"},"refKey":40},
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{"_key":"60c383e47723bebd8665db59","_id":"references/60c383e47723bebd8665db59","_rev":"_cfFlKHK---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c383e47723bebd8665db58"},"refKey":73},
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{"_key":"60c383f07723bebd8665db8e","_id":"references/60c383f07723bebd8665db8e","_rev":"_cfFlKH2---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap) -a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383f07723bebd8665db8d"},"refKey":31},
{"_key":"60c383f07723bebd8665db8f","_id":"references/60c383f07723bebd8665db8f","_rev":"_cfFlKIC---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software platform partners\n\t\t\n\t\t\tPHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c383f07723bebd8665db8d"},"refKey":32},
{"_key":"60c384087723bebd8665db9a","_id":"references/60c384087723bebd8665db9a","_rev":"_cfFlKIO---","tei":"\n\t\n\t\tComparing two correlated C indices with right-censored survival outcome: a one-shot nonparametric approach\n\t\t\n\t\t\tLeKang\n\t\t\t0000-0002-4277-902X\n\t\t\n\t\t\n\t\t\tWeijieChen\n\t\t\n\t\t\n\t\t\tNicholasAPetrick\n\t\t\n\t\t\n\t\t\tBrandonDGallas\n\t\t\n\t\t10.1002/sim.6370\n\t\t25399736\n\t\tPMC4314453\n\t\t\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t\n\t\t\t34\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c384087723bebd8665db99"},"refKey":27},
{"_key":"60c384607723bebd8665dbd6","_id":"references/60c384607723bebd8665dbd6","_rev":"_cfFlKIa---","tei":"\n\t\n\t\tFASconCAT-G: extensive functions for multiple sequence alignment preparations concerning phylogenetic studies\n\t\t\n\t\t\tPatrickKück\n\t\t\n\t\t\n\t\t\tGaryCLongo\n\t\t\n\t\t10.1186/s12983-014-0081-x\n\t\t25426157\n\t\tPMC4243772\n\t\t\n\t\n\t\n\t\tFrontiers in Zoology\n\t\tFront Zool\n\t\t1742-9994\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t81\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c384607723bebd8665dbd5"},"refKey":23},
{"_key":"60c384607723bebd8665dbd7","_id":"references/60c384607723bebd8665dbd7","_rev":"_cfFlKIm---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384607723bebd8665dbd5"},"refKey":24},
{"_key":"60c384607723bebd8665dbd8","_id":"references/60c384607723bebd8665dbd8","_rev":"_cfFlKIy---","tei":"\n\t\n\t\tBEDTools: the swiss-army tool for genome feature analysis\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\n\t\n\t\tCurr Protocols Bioinf\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384607723bebd8665dbd5"},"refKey":22},
{"_key":"60c3847d7723bebd8665dbef","_id":"references/60c3847d7723bebd8665dbef","_rev":"_cfFlKJ----","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing (R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3847d7723bebd8665dbee"},"refKey":43},
{"_key":"60c384937723bebd8665dbfd","_id":"references/60c384937723bebd8665dbfd","_rev":"_cfFlKJK---","tei":"\n\t\n\t\tApplication of Artificial Intelligence in Microwave Radiometry (MWR)\n\t\t\n\t\t\tChristoforosGalazis\n\t\t\n\t\t\n\t\t\tSergeyVesnin\n\t\t\n\t\t\n\t\t\tIgorGoryanin\n\t\t\n\t\t10.5220/0007567901120122\n\t\n\t\n\t\tProceedings of the 12th International Joint Conference on Biomedical Engineering Systems and Technologies\n\t\t\t\tthe 12th International Joint Conference on Biomedical Engineering Systems and Technologies\n\t\t\n\t\t\tSCITEPRESS - Science and Technology Publications\n\t\t\t\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384937723bebd8665dbfc"},"refKey":26},
{"_key":"60c384957723bebd8665dc03","_id":"references/60c384957723bebd8665dc03","_rev":"_cfFlKJW---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.2011.75\n\t\t21988835\n\t\tPMC3261699\n\t\t\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMolecular Systems Biology\n\t\t1744-4292\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c384957723bebd8665dc02"},"refKey":33},
{"_key":"60c384af7723bebd8665dc16","_id":"references/60c384af7723bebd8665dc16","_rev":"_cfFlKJe---","tei":"\n\t\n\t\tInverse modelling, sensitivity and monte carlo analysis in R using package FME\n\t\t\n\t\t\tKSoetaert\n\t\t\n\t\t\n\t\t\tTPetzoldt\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384af7723bebd8665dc15"},"refKey":36},
{"_key":"60c384b07723bebd8665dc1a","_id":"references/60c384b07723bebd8665dc1a","_rev":"_cfFlKJq---","tei":"\n\t\n\t\tVerifying multi-threaded software using smt-based context-bounded model checking\n\t\t\n\t\t\tLucasCordeiro\n\t\t\n\t\t\n\t\t\tBerndFischer\n\t\t\n\t\t10.1145/1985793.1985839\n\t\t\n\t\n\t\n\t\tProceeding of the 33rd international conference on Software engineering - ICSE '11\n\t\t\t\teeding of the 33rd international conference on Software engineering - ICSE '11\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384b07723bebd8665dc19"},"refKey":2},
{"_key":"60c384b07723bebd8665dc1b","_id":"references/60c384b07723bebd8665dc1b","_rev":"_cfFlKJ2---","tei":"\n\t\n\t\tESBMC v6.0: Verifying C Programs Using k-Induction and Invariant Inference\n\t\t\n\t\t\tMikhailRGadelha\n\t\t\n\t\t\n\t\t\tFelipeMonteiro\n\t\t\n\t\t\n\t\t\tLucasCordeiro\n\t\t\n\t\t\n\t\t\tDenisNicole\n\t\t\n\t\t10.1007/978-3-030-17502-3_15\n\t\t\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11429\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384b07723bebd8665dc19"},"refKey":6},
{"_key":"60c384b07723bebd8665dc1c","_id":"references/60c384b07723bebd8665dc1c","_rev":"_cfFlKKC---","tei":"\n\t\n\t\tInternational Competition on Software Testing (Test-Comp)\n\t\t\n\t\t\tDirkBeyer\n\t\t\t0000-0003-4832-7662\n\t\t\n\t\t10.1007/978-3-030-17502-3_11\n\t\t\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384b07723bebd8665dc19"},"refKey":0},
{"_key":"60c384c37723bebd8665dc59","_id":"references/60c384c37723bebd8665dc59","_rev":"_cfFlKKO---","tei":"\n\t\n\t\tEstimating the Number of Infections and the Impact of Non-Pharmaceutical Interventions on COVID-19 in 11 European Countries. Imperial College London, MRC Centre for Global Infectious Disease Analysis\n\t\t\n\t\t\tSFlaxman\n\t\t\n\t\t\n\t\t\tSMishra\n\t\t\n\t\t\n\t\t\tAGandy\n\t\t\n\t\t\n\t\t\tHJ TUnwin\n\t\t\n\t\t\n\t\t\tHCoupland\n\t\t\n\t\t\n\t\t\tTMellan\n\t\t\n\t\t\n\t\t\tHZhu\n\t\t\n\t\t\n\t\t\tTBerah\n\t\t\n\t\t\n\t\t\tJEaton\n\t\t\n\t\t\n\t\t\tPPerez Guzman\n\t\t\n\t\t\n\t\n\t\n\t\tReport\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384c37723bebd8665dc58"},"refKey":3},
{"_key":"60c384cd7723bebd8665dc5c","_id":"references/60c384cd7723bebd8665dc5c","_rev":"_cfFlKKa---","tei":"\n\t\n\t\tLIBSVM: a library for support vector machines\n\t\t\n\t\t\tCCChang\n\t\t\n\t\t\n\t\t\tCJLin\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384cd7723bebd8665dc5b"},"refKey":69},
{"_key":"60c384cd7723bebd8665dc5d","_id":"references/60c384cd7723bebd8665dc5d","_rev":"_cfFlKKi---","tei":"\n\t\n\t\tMachine learning approaches for epitope prediction\n\t\t\n\t\t\tY: WlsvmEl-Manzalawy\n\t\t\n\t\t10.31274/etd-180810-677\n\t\t\n\t\t\n\t\t\n\t\t\t2005\n\t\t\tIowa State University\n\t\t\n\t\n\n","document":{"$oid":"60c384cd7723bebd8665dc5b"},"refKey":70},
{"_key":"60c384cd7723bebd8665dc5e","_id":"references/60c384cd7723bebd8665dc5e","_rev":"_cfFlKKu---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384cd7723bebd8665dc5b"},"refKey":0},
{"_key":"60c384cd7723bebd8665dc5f","_id":"references/60c384cd7723bebd8665dc5f","_rev":"_cfFlKK6---","tei":"\n\t\n\t\tLipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384cd7723bebd8665dc5b"},"refKey":1},
{"_key":"60c384cd7723bebd8665dc60","_id":"references/60c384cd7723bebd8665dc60","_rev":"_cfFlKLG---","tei":"\n\t\n\t\tImproved tools for biological sequence comparison\n\t\t\n\t\t\tWRPearson\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci\n\t\t\n\t\t\t85\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384cd7723bebd8665dc5b"},"refKey":2},
{"_key":"60c384d47723bebd8665dc6b","_id":"references/60c384d47723bebd8665dc6b","_rev":"_cfFlKLS---","tei":"\n\t\n\t\tPrimer-BLAST: A tool to design target-specific primers for polymerse chain reaction\n\t\t\n\t\t\tYCoulouris\n\t\t\n\t\t\n\t\t\tIZaretskaya\n\t\t\n\t\t\n\t\t\tICutcutache\n\t\t\n\t\t\n\t\t\tSRozen\n\t\t\n\t\t\n\t\t\tTMadden\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t13\n\t\t\t134\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c384d47723bebd8665dc6a"},"refKey":24},
{"_key":"60c3850e7723bebd8665dc83","_id":"references/60c3850e7723bebd8665dc83","_rev":"_cfFlKLe---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3850e7723bebd8665dc82"},"refKey":23},
{"_key":"60c3850e7723bebd8665dc84","_id":"references/60c3850e7723bebd8665dc84","_rev":"_cfFlKLq---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNoelMO'boyle\n\t\t\n\t\t\n\t\t\tMichaelBanck\n\t\t\n\t\t\n\t\t\tCraigAJames\n\t\t\n\t\t\n\t\t\tChrisMorley\n\t\t\n\t\t\n\t\t\tTimVandermeersch\n\t\t\n\t\t\n\t\t\tGeoffreyRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t21982300\n\t\tPMC3198950\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3850e7723bebd8665dc82"},"refKey":21},
{"_key":"60c3850e7723bebd8665dc85","_id":"references/60c3850e7723bebd8665dc85","_rev":"_cfFlKL2---","tei":"\n\t\n\t\tLINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tCoreyFlynn\n\t\t\n\t\t\n\t\t\tMarioNiepel\n\t\t\n\t\t\n\t\t\tMarcHafner\n\t\t\n\t\t\n\t\t\tJeremyLMuhlich\n\t\t\n\t\t\n\t\t\tNicolasFFernandez\n\t\t\n\t\t\n\t\t\tAndrewDRouillard\n\t\t\n\t\t\n\t\t\tChristopherMTan\n\t\t\n\t\t\n\t\t\tEdwardYChen\n\t\t\n\t\t\n\t\t\tToddRGolub\n\t\t\n\t\t\n\t\t\tPeterKSorger\n\t\t\n\t\t\n\t\t\tAravindSubramanian\n\t\t\n\t\t\n\t\t\tAviMa'ayan\n\t\t\n\t\t10.1093/nar/gku476\n\t\t24906883\n\t\tPMC4086130\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3850e7723bebd8665dc82"},"refKey":24},
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{"_key":"60c385287723bebd8665dcd8","_id":"references/60c385287723bebd8665dcd8","_rev":"_cfFlKMW---","tei":"\n\t\n\t\tadegenet: a R package for the multivariate analysis of genetic markers\n\t\t\n\t\t\tThibautJombart\n\t\t\n\t\t10.1093/bioinformatics/btn129\n\t\t18397895\n\t\tark:/67375/HXZ-WG5DKZ7B-4\n\t\t7244D0DA0CD5A93CF2FF2CA999A1BB83FD793ED0\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c385287723bebd8665dcd7"},"refKey":57},
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{"_key":"60c385287723bebd8665dcda","_id":"references/60c385287723bebd8665dcda","_rev":"_cfFlKMu---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\n\t\n\t\tInterJournal, Complex Systems\n\t\t\n\t\t\t1695\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c385287723bebd8665dcd7"},"refKey":54},
{"_key":"60c3855b7723bebd8665dd03","_id":"references/60c3855b7723bebd8665dd03","_rev":"_cfFlKM6---","tei":"\n\t\n\t\tThe BUGS project: Evolution, critique and future directions\n\t\t\n\t\t\tDavidLunn\n\t\t\n\t\t\n\t\t\tDavidSpiegelhalter\n\t\t\n\t\t\n\t\t\tAndrewThomas\n\t\t\n\t\t\n\t\t\tNickyBest\n\t\t\n\t\t10.1002/sim.3680\n\t\t19630097\n\t\tark:/67375/WNG-PX160H1V-9\n\t\t79B6C5A6896C50B75EDD017C6ACE40AEADA7D0F5\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t\n\t\t\t28\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3855b7723bebd8665dd02"},"refKey":47},
{"_key":"60c3855b7723bebd8665dd04","_id":"references/60c3855b7723bebd8665dd04","_rev":"_cfFlKNG---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. Vienna: Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3855b7723bebd8665dd02"},"refKey":58},
{"_key":"60c3855b7723bebd8665dd05","_id":"references/60c3855b7723bebd8665dd05","_rev":"_cfFlKNO---","tei":"\n\t\n\t\tR You Still Using Excel? The Advantages of Modern Software Tools for Health Technology Assessment\n\t\t\n\t\t\tDevinIncerti\n\t\t\n\t\t\n\t\t\tHowardThom\n\t\t\n\t\t\n\t\t\tGianlucaBaio\n\t\t\n\t\t\n\t\t\tJeroenPJansen\n\t\t\n\t\t10.1016/j.jval.2019.01.003\n\t\n\t\n\t\tValue in Health\n\t\tValue in Health\n\t\t1098-3015\n\t\t\n\t\t\t22\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3855b7723bebd8665dd02"},"refKey":59},
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{"_key":"60c3858d7723bebd8665dd31","_id":"references/60c3858d7723bebd8665dd31","_rev":"_cfFlKPC---","tei":"\n\t\n\t\tStarSpace: embed all the things!\n\t\t\n\t\t\tLWu\n\t\t\n\t\t\n\t\t\tAFisch\n\t\t\n\t\t\n\t\t\tSChopra\n\t\t\n\t\t\n\t\t\tKAdams\n\t\t\n\t\t\n\t\t\tABordes\n\t\t\n\t\t\n\t\t\tJWeston\n\t\t\n\t\n\t\n\t\tProceedings of the Thirty-Second AAAI Conference on Artificial Intelligence\n\t\t\t\tthe Thirty-Second AAAI Conference on Artificial Intelligence\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3858d7723bebd8665dd2f"},"refKey":3},
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{"_key":"60c3858d7723bebd8665dd43","_id":"references/60c3858d7723bebd8665dd43","_rev":"_cfFlKPi---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3858d7723bebd8665dd40"},"refKey":55},
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{"_key":"60c385af7723bebd8665dd69","_id":"references/60c385af7723bebd8665dd69","_rev":"_cfFlKQq---","tei":"\n\t\n\t\tThe PSIPRED protein structure prediction server\n\t\t\n\t\t\tLJMcguffin\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c385af7723bebd8665dd66"},"refKey":18},
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{"_key":"60c385cf7723bebd8665dd8a","_id":"references/60c385cf7723bebd8665dd8a","_rev":"_cfFlKR----","tei":"\n\t\n\t\tPsychological Perspectives on Pathways Linking Socioeconomic Status and Physical Health\n\t\t\n\t\t\tKarenAMatthews\n\t\t\n\t\t\n\t\t\tLindaCGallo\n\t\t\n\t\t10.1146/annurev.psych.031809.130711\n\t\t20636127\n\t\tPMC3121154\n\t\t\n\t\n\t\n\t\tAnnual Review of Psychology\n\t\tAnnu. Rev. Psychol.\n\t\t0066-4308\n\t\t1545-2085\n\t\t\n\t\t\t62\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAnnual Reviews\n\t\t\n\t\n\n","document":{"$oid":"60c385cf7723bebd8665dd89"},"refKey":15},
{"_key":"60c386147723bebd8665dda9","_id":"references/60c386147723bebd8665dda9","_rev":"_cfFlKRK---","tei":"\n\t\n\t\tLow nucleotide diversity in chimpanzees and bonobos\n\t\t\n\t\t\tNYu\n\t\t\n\t\t\n\t\t\tMIJensen-Seaman\n\t\t\n\t\t\n\t\t\tLChemnick\n\t\t\n\t\t\n\t\t\tJRKidd\n\t\t\n\t\t\n\t\t\tASDeinard\n\t\t\n\t\t\n\t\t\tORyder\n\t\t\n\t\t\n\t\t\tKKKidd\n\t\t\n\t\t\n\t\t\tW-HLi\n\t\t\n\t\n\t\n\t\tGenetics\n\t\t\n\t\t\t164\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c386147723bebd8665dda8"},"refKey":65},
{"_key":"60c386187723bebd8665ddb3","_id":"references/60c386187723bebd8665ddb3","_rev":"_cfFlKRW---","tei":"\n\t\n\t\tInferring causal impact using Bayesian structural time-series models\n\t\t\n\t\t\tKayHBrodersen\n\t\t\n\t\t\n\t\t\tFabianGallusser\n\t\t\n\t\t\n\t\t\tJimKoehler\n\t\t\n\t\t\n\t\t\tNicolasRemy\n\t\t\n\t\t\n\t\t\tStevenLScott\n\t\t\n\t\t10.1214/14-aoas788\n\t\t\n\t\n\t\n\t\tThe Annals of Applied Statistics\n\t\tAnn. Appl. Stat.\n\t\t1932-6157\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Mathematical Statistics\n\t\t\n\t\n\n","document":{"$oid":"60c386187723bebd8665ddb2"},"refKey":3},
{"_key":"60c386277723bebd8665ddc4","_id":"references/60c386277723bebd8665ddc4","_rev":"_cfFlKRi---","tei":"\n\t\n\t\tComparative protein modeling by satisfaction of spatial restraints\n\t\t\n\t\t\tAV S Ali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1107/s0108767396095578\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t52\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c386277723bebd8665ddc3"},"refKey":49},
{"_key":"60c386277723bebd8665ddc5","_id":"references/60c386277723bebd8665ddc5","_rev":"_cfFlKRu---","tei":"\n\t\n\t\tConvergent Solutions to Binding at a Protein-Protein Interface\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tMHUltsch\n\t\t\n\t\t\n\t\t\tJAWells\n\t\t\n\t\t10.1126/science.287.5456.1279\n\t\t10678837\n\t\t\n\t\n\t\n\t\tScience\n\t\t0036-8075\n\t\t1095-9203\n\t\t\n\t\t\t287\n\t\t\t5456\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c386277723bebd8665ddc3"},"refKey":55},
{"_key":"60c386387723bebd8665ddd2","_id":"references/60c386387723bebd8665ddd2","_rev":"_cfFlKR6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMVKuleshov\n\t\t\n\t\t\n\t\t\tMRJones\n\t\t\n\t\t\n\t\t\tADRouillard\n\t\t\n\t\t\n\t\t\tNFFernandez\n\t\t\n\t\t\n\t\t\tQDuan\n\t\t\n\t\t\n\t\t\tZWang\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c386387723bebd8665ddd1"},"refKey":35},
{"_key":"60c386387723bebd8665ddd3","_id":"references/60c386387723bebd8665ddd3","_rev":"_cfFlKSC---","tei":"\n\t\n\t\tBioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c386387723bebd8665ddd1"},"refKey":67},
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{"_key":"60c386637723bebd8665ddfe","_id":"references/60c386637723bebd8665ddfe","_rev":"_cfFlKSy---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t10.1093/nar/25.17.3389\n\t\t9254694\n\t\tPMC146917\n\t\tark:/67375/HXZ-50QJ2KXS-K\n\t\tA48E3FC193DA383D18E97DDF74E7811431AEE739\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t25\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c386637723bebd8665ddfb"},"refKey":18},
{"_key":"60c386697723bebd8665de1b","_id":"references/60c386697723bebd8665de1b","_rev":"_cfFlKT----","tei":"\n\t\n\t\tAn Algorithm for Induction of Decision Rules Consistent with the Dominance Principle\n\t\t\n\t\t\tSalvatoreGreco\n\t\t\n\t\t\n\t\t\tBenedettoMatarazzo\n\t\t\n\t\t\n\t\t\tRomanSlowinski\n\t\t\n\t\t\n\t\t\tJerzyStefanowski\n\t\t\n\t\t10.1007/3-540-45554-x_37\n\t\tark:/67375/HCB-6FB95SCZ-P\n\t\t6F4E9EDE6EAD2972BED41CF17C8B93F2BC44DEE7\n\t\t\n\t\n\t\n\t\tRough Sets and Current Trends in Computing\n\t\t\t\t\n\t\t\tWZiarko\n\t\t\tYYao\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c386697723bebd8665de1a"},"refKey":11},
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{"_key":"60c386d17723bebd8665de45","_id":"references/60c386d17723bebd8665de45","_rev":"_cfFlKTW---","tei":"\n\t\n\t\tScikit-learn: Machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\n\t\n\t\tJ Machine \\ldots\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c386d17723bebd8665de44"},"refKey":36},
{"_key":"60c386d17723bebd8665de46","_id":"references/60c386d17723bebd8665de46","_rev":"_cfFlKTe---","tei":"\n\t\n\t\tSCANPY: large-scale single-cell gene expression data analysis\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tPhilippAngerer\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1186/s13059-017-1382-0\n\t\t29409532\n\t\tPMC5802054\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t15\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c386d17723bebd8665de44"},"refKey":57},
{"_key":"60c386d97723bebd8665de56","_id":"references/60c386d97723bebd8665de56","_rev":"_cfFlKTq---","tei":"\n\t\n\t\tETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data\n\t\t\n\t\t\tJaimeHuerta-Cepas\n\t\t\n\t\t\n\t\t\tFrançoisSerra\n\t\t\n\t\t\n\t\t\tPeerBork\n\t\t\n\t\t10.1093/molbev/msw046\n\t\t26921390\n\t\tPMC4868116\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c386d97723bebd8665de55"},"refKey":39},
{"_key":"60c386d97723bebd8665de57","_id":"references/60c386d97723bebd8665de57","_rev":"_cfFlKT2---","tei":"\n\t\n\t\tAutomated Structural Comparisons Clarify the Phylogeny of the Right-Hand-Shaped Polymerases\n\t\t\n\t\t\tHeliA MMönttinen\n\t\t\n\t\t\n\t\t\tJanneJRavantti\n\t\t\n\t\t\n\t\t\tDavidIStuart\n\t\t\n\t\t\n\t\t\tMinnaMPoranen\n\t\t\n\t\t10.1093/molbev/msu219\n\t\t25063440\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t31\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c386d97723bebd8665de55"},"refKey":25},
{"_key":"60c386d97723bebd8665de58","_id":"references/60c386d97723bebd8665de58","_rev":"_cfFlKUC---","tei":"\n\t\n\t\tAutomatic comparison and classification of protein structures\n\t\t\n\t\t\tJanneRavantti\n\t\t\n\t\t\n\t\t\tDennisBamford\n\t\t\n\t\t\n\t\t\tDavidIStuart\n\t\t\n\t\t10.1016/j.jsb.2013.05.007\n\t\t23707633\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t183\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c386d97723bebd8665de55"},"refKey":33},
{"_key":"60c386d97723bebd8665de59","_id":"references/60c386d97723bebd8665de59","_rev":"_cfFlKUO---","tei":"\n\t\n\t\tInteractive Tree Of Life (ITOL) v4: Recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/nar/gkz239\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c386d97723bebd8665de55"},"refKey":38},
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{"_key":"60c388407723bebd8665df60","_id":"references/60c388407723bebd8665df60","_rev":"_cfFlKXO---","tei":"\n\t\n\t\tDnaSP 6: DNA Sequence Polymorphism Analysis of Large Data Sets\n\t\t\n\t\t\tJulioRozas\n\t\t\n\t\t\n\t\t\tAlbertFerrer-Mata\n\t\t\n\t\t\n\t\t\tJuanCarlosSánchez-Delbarrio\n\t\t\n\t\t\n\t\t\tSaraGuirao-Rico\n\t\t\n\t\t\n\t\t\tPabloLibrado\n\t\t\n\t\t\n\t\t\tSebastiánERamos-Onsins\n\t\t\n\t\t\n\t\t\tAlejandroSánchez-Gracia\n\t\t\n\t\t10.1093/molbev/msx248\n\t\t29029172\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t34\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c388407723bebd8665df56"},"refKey":140},
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{"_key":"60c389737723bebd8665e14c","_id":"references/60c389737723bebd8665e14c","_rev":"_cfFlKaG---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c389737723bebd8665e14b"},"refKey":50},
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{"_key":"60c389d17723bebd8665e197","_id":"references/60c389d17723bebd8665e197","_rev":"_cfFlKbO---","tei":"\n\t\n\t\tA conceptual peer review model for arXiv and other preprint databases\n\t\t\n\t\t\tLingfengWang\n\t\t\t0000-0001-6217-8865\n\t\t\n\t\t\n\t\t\tYaqingZhan\n\t\t\t0000-0002-2465-2092\n\t\t\n\t\t10.1002/leap.1229\n\t\tarXiv:2004.14781\n\t\n\t\n\t\tLearned Publishing\n\t\tLearned Publishing\n\t\t0953-1513\n\t\t1741-4857\n\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c389d17723bebd8665e193"},"refKey":25},
{"_key":"60c389d17723bebd8665e198","_id":"references/60c389d17723bebd8665e198","_rev":"_cfFlKba---","tei":"\n\t\n\t\tRotatE: Knowledge Graph Embedding by Relational Rotation in Complex sSpace\n\t\t\n\t\t\tZSun\n\t\t\n\t\t\n\t\t\tZDeng\n\t\t\n\t\t\n\t\t\tJNie\n\t\t\n\t\t\n\t\t\tJTang\n\t\t\n\t\tarXiv abs/1902.10197\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c389d17723bebd8665e193"},"refKey":22},
{"_key":"60c389d17723bebd8665e199","_id":"references/60c389d17723bebd8665e199","_rev":"_cfFlKbm---","tei":"\n\t\n\t\tAn overview of MetaMap: historical perspective and recent advances\n\t\t\n\t\t\tAlanRAronson\n\t\t\n\t\t\n\t\t\tFrançois-MichelLang\n\t\t\n\t\t10.1136/jamia.2009.002733\n\t\t20442139\n\t\tPMC2995713\n\t\t\n\t\n\t\n\t\tJournal of the American Medical Informatics Association\n\t\tJ Am Med Inform Assoc\n\t\t1067-5027\n\t\t1527-974X\n\t\t\n\t\t\t17\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c389d17723bebd8665e193"},"refKey":91},
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{"_key":"60c38adb7723bebd8665e253","_id":"references/60c38adb7723bebd8665e253","_rev":"_cfFlKeq---","tei":"\n\t\n\t\tPsychoPy—Psychophysics software in Python\n\t\t\n\t\t\tJonathanWPeirce\n\t\t\n\t\t10.1016/j.jneumeth.2006.11.017\n\t\t17254636\n\t\tPMC2018741\n\t\n\t\n\t\tJournal of Neuroscience Methods\n\t\tJournal of Neuroscience Methods\n\t\t0165-0270\n\t\t\n\t\t\t162\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c38adb7723bebd8665e24c"},"refKey":17},
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{"_key":"60c38adb7723bebd8665e259","_id":"references/60c38adb7723bebd8665e259","_rev":"_cfFlKgC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tOpensesame\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t24\n\t\t\n\t\n\n","document":{"$oid":"60c38adb7723bebd8665e24c"},"refKey":20},
{"_key":"60c38b327723bebd8665e28c","_id":"references/60c38b327723bebd8665e28c","_rev":"_cfFlKgS---","tei":"\n\t\n\t\tOpenSesame: An open-source, graphical experiment builder for the social sciences\n\t\t\n\t\t\tSebastiaanMathôt\n\t\t\n\t\t\n\t\t\tDanielSchreij\n\t\t\n\t\t\n\t\t\tJanTheeuwes\n\t\t\n\t\t10.3758/s13428-011-0168-7\n\t\t22083660\n\t\tPMC3356517\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehav Res\n\t\t1554-3528\n\t\t\n\t\t\t44\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c38b327723bebd8665e28b"},"refKey":41},
{"_key":"60c38b517723bebd8665e29b","_id":"references/60c38b517723bebd8665e29b","_rev":"_cfFlKge---","tei":"\n\t\n\t\tlgcp: AnRPackage for Inference with Spatial and Spatio-Temporal Log-Gaussian Cox Processes\n\t\t\n\t\t\tBenjaminMTaylor\n\t\t\n\t\t\n\t\t\tTilmanMDavies\n\t\t\n\t\t\n\t\t\tBarrySRowlingson\n\t\t\n\t\t\n\t\t\tPeterJDiggle\n\t\t\n\t\t10.18637/jss.v052.i04\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t52\n\t\t\t4\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c38b517723bebd8665e29a"},"refKey":62},
{"_key":"60c38b517723bebd8665e29c","_id":"references/60c38b517723bebd8665e29c","_rev":"_cfFlKgu---","tei":"\n\t\n\t\tHere be dragons: a tool for quantifying novelty due to covariate range and correlation change when projecting species distribution models\n\t\t\n\t\t\tMohsenBMesgaran\n\t\t\n\t\t\n\t\t\tRogerDCousens\n\t\t\n\t\t\n\t\t\tBruceLWebber\n\t\t\t0000-0001-5934-6557\n\t\t\n\t\t10.1111/ddi.12209\n\t\tark:/67375/WNG-SW5DVS6K-W\n\t\t3607B9CF408A3D9B1F7FABB318D53A1621511C5F\n\t\t\n\t\n\t\n\t\tDiversity and Distributions\n\t\tDiversity Distrib.\n\t\t1366-9516\n\t\t\n\t\t\t20\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c38b517723bebd8665e29a"},"refKey":36},
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{"_key":"60c38b807723bebd8665e2c2","_id":"references/60c38b807723bebd8665e2c2","_rev":"_cfFlKhG---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c38b807723bebd8665e2c0"},"refKey":7},
{"_key":"60c38b897723bebd8665e2ca","_id":"references/60c38b897723bebd8665e2ca","_rev":"_cfFlKhW---","tei":"\n\t\n\t\tProcessing of X-ray snapshots from crystals in random orientations\n\t\t\n\t\t\tWolfgangKabsch\n\t\t\n\t\t\n\t\t\tXds\n\t\t\n\t\t10.1107/s1399004714013534\n\t\t25084339\n\t\tPMC4118830\n\t\tark:/67375/WNG-J93F6N59-V\n\t\t969F358A6652451E77225855C4844E1989CB1003\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Cryst D Biol Crystallogr\n\t\t1399-0047\n\t\t\n\t\t\t70\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c38b897723bebd8665e2c9"},"refKey":28},
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{"_key":"60c38bdd7723bebd8665e310","_id":"references/60c38bdd7723bebd8665e310","_rev":"_cfFlKhu---","tei":"\n\t\n\t\tPython: A programming language for software integration and development\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c38bdd7723bebd8665e30f"},"refKey":61},
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{"_key":"60c38bdd7723bebd8665e314","_id":"references/60c38bdd7723bebd8665e314","_rev":"_cfFlKii---","tei":"\n\t\n\t\tpkCSM: Predicting Small-Molecule Pharmacokinetic and Toxicity Properties Using Graph-Based Signatures\n\t\t\n\t\t\tDouglasE VPires\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t\n\t\t\tDavidBAscher\n\t\t\n\t\t10.1021/acs.jmedchem.5b00104\n\t\t25860834\n\t\tPMC4434528\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t58\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c38bdd7723bebd8665e30f"},"refKey":56},
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{"_key":"60c38c037723bebd8665e378","_id":"references/60c38c037723bebd8665e378","_rev":"_cfFlKlq---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c38c037723bebd8665e371"},"refKey":1},
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{"_key":"60c38e0d7723bebd8665e508","_id":"references/60c38e0d7723bebd8665e508","_rev":"_cfFlKr----","tei":"\n\t\n\t\tA pan-cancer analysis of synonymous mutations\n\t\t\n\t\t\tYogitaSharma\n\t\t\n\t\t\n\t\t\tMiladMiladi\n\t\t\t0000-0002-0173-3009\n\t\t\n\t\t\n\t\t\tSandeepDukare\n\t\t\n\t\t\n\t\t\tKarineBoulay\n\t\t\n\t\t\n\t\t\tMaiwenCaudron-Herger\n\t\t\n\t\t\n\t\t\tMatthiasGroß\n\t\t\n\t\t\n\t\t\tRolfBackofen\n\t\t\t0000-0001-8231-3323\n\t\t\n\t\t\n\t\t\tSvenDiederichs\n\t\t\t0000-0001-7901-4752\n\t\t\n\t\t10.1038/s41467-019-10489-2\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c38e0d7723bebd8665e505"},"refKey":96},
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{"_key":"60c38e677723bebd8665e567","_id":"references/60c38e677723bebd8665e567","_rev":"_cfFlKsO---","tei":"\n\t\n\t\tImproving the accuracy of transmembrane protein topology prediction using evolutionary information\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t10.1093/bioinformatics/btl677\n\t\t17237066\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c38e677723bebd8665e565"},"refKey":43},
{"_key":"60c38e677723bebd8665e568","_id":"references/60c38e677723bebd8665e568","_rev":"_cfFlKsa---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c38e677723bebd8665e565"},"refKey":37},
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{"_key":"60c38ecc7723bebd8665e5f8","_id":"references/60c38ecc7723bebd8665e5f8","_rev":"_cfFlKvS---","tei":"\n\t\n\t\tKOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases\n\t\t\n\t\t\tCXie\n\t\t\n\t\t\n\t\t\tXMao\n\t\t\n\t\t\n\t\t\tJHuang\n\t\t\n\t\t\n\t\t\tYDing\n\t\t\n\t\t\n\t\t\tJWu\n\t\t\n\t\t\n\t\t\tSDong\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c38ecc7723bebd8665e5f5"},"refKey":23},
{"_key":"60c38ed67723bebd8665e610","_id":"references/60c38ed67723bebd8665e610","_rev":"_cfFlKve---","tei":"\n\t\n\t\tMIRO and IRbase: IT Tools for the Epidemiological Monitoring of Insecticide Resistance in Mosquito Disease Vectors\n\t\t\n\t\t\tEmmanuelDialynas\n\t\t\n\t\t\n\t\t\tPantelisTopalis\n\t\t\n\t\t\n\t\t\tJohnVontas\n\t\t\n\t\t\n\t\t\tChristosLouis\n\t\t\n\t\t10.1371/journal.pntd.0000465\n\t\t19547750\n\t\tPMC2694272\n\t\t\n\t\n\t\n\t\tPLoS Neglected Tropical Diseases\n\t\tPLoS Negl Trop Dis\n\t\t1935-2735\n\t\t\n\t\t\t3\n\t\t\t6\n\t\t\te465\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c38ed67723bebd8665e60f"},"refKey":19},
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{"_key":"60c38eef7723bebd8665e627","_id":"references/60c38eef7723bebd8665e627","_rev":"_cfFlKvy---","tei":"\n\t\n\t\tIBM SPSS Statistics for Windows\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t24.0\n\t\t\n\t\t\t\n\t\t\tIBM Corp\n\t\t\tArmonk, NY\n\t\t\n\t\n\n","document":{"$oid":"60c38eef7723bebd8665e626"},"refKey":34},
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{"_key":"60c390597723bebd8665e733","_id":"references/60c390597723bebd8665e733","_rev":"_cfFlKyu---","tei":"\n\t\n\t\tDiverse biological processes coordinate the transcriptional response to nutritional changes in a Drosophila melanogaster multiparent population\n\t\t\n\t\t\tENg’oma\n\t\t\t0000-0002-6741-7922\n\t\t\n\t\t\n\t\t\tPAWilliams-Simon\n\t\t\t0000-0003-1947-476X\n\t\t\n\t\t\n\t\t\tARahman\n\t\t\n\t\t\n\t\t\tEGKing\n\t\t\t0000-0002-9393-4720\n\t\t\n\t\t10.1101/712984\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t21\n\t\t\t1\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c390597723bebd8665e731"},"refKey":5},
{"_key":"60c3905e7723bebd8665e752","_id":"references/60c3905e7723bebd8665e752","_rev":"_cfFlKy6---","tei":"\n\t\n\t\tRemoval of contaminants released from room surfaces by displacement and mixing ventilation: modeling and validation\n\t\t\n\t\t\tFluent Inc\n\t\t\n\t\t\n\t\t\tNHLebanon\n\t\t\n\t\t\n\t\t\tGHe\n\t\t\n\t\t\n\t\t\tXYang\n\t\t\n\t\t\n\t\t\tJSrebric\n\t\t\n\t\n\t\n\t\tIndoor Air\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tFLUENT 6.2 User's Guide\n\n","document":{"$oid":"60c3905e7723bebd8665e751"},"refKey":9},
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{"_key":"60c390b37723bebd8665e77b","_id":"references/60c390b37723bebd8665e77b","_rev":"_cfFlKza---","tei":"\n\t\n\t\tSolving ODEs with MATLAB\n\t\t\n\t\t\tLFShampine\n\t\t\n\t\t\n\t\t\tIGladwell\n\t\t\n\t\t\n\t\t\tSThompson\n\t\t\n\t\t10.1017/cbo9780511615542\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCambridge University Press\n\t\t\tCambridge\n\t\t\n\t\n\n","document":{"$oid":"60c390b37723bebd8665e77a"},"refKey":59},
{"_key":"60c390d07723bebd8665e789","_id":"references/60c390d07723bebd8665e789","_rev":"_cfFlKzm---","tei":"\n\t\n\t\tML schema core specification\n\t\t\n\t\t\tDEsteves\n\t\t\n\t\t\n\t\t\tALawrynowicz\n\t\t\n\t\t\n\t\t\tPPanov\n\t\t\n\t\t\n\t\t\tLSoldatova\n\t\t\n\t\t\n\t\t\tTSoru\n\t\t\n\t\t\n\t\t\tJVanschoren\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tW3C\n\t\t\n\t\n\n","document":{"$oid":"60c390d07723bebd8665e788"},"refKey":5},
{"_key":"60c390f37723bebd8665e7b1","_id":"references/60c390f37723bebd8665e7b1","_rev":"_cfFlKzy---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1.3r1\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c390f37723bebd8665e7b0"},"refKey":52},
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{"_key":"60c390f37723bebd8665e7bf","_id":"references/60c390f37723bebd8665e7bf","_rev":"_cfFlK1C---","tei":"\n\t\n\t\tEfficient Hierarchical Reasoning for Rapid RDF Stream Processing\n\t\t\n\t\t\tPBonte\n\t\t\n\t\t\n\t\t\tRTommasini\n\t\t\n\t\t\n\t\t\tDeTurck\n\t\t\n\t\t\n\t\t\tFOngenae\n\t\t\n\t\t\n\t\t\tFValle\n\t\t\n\t\t\n\t\t\tEDC-Sprite\n\t\t\n\t\t10.1145/3328905.3329502\n\t\t\n\t\n\t\n\t\tProceedings of the 13th ACM International Conference on Distributed and Event-based Systems. DEBS'19\n\t\t\t\tthe 13th ACM International Conference on Distributed and Event-based Systems. DEBS'19New York, NY, USA\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c390f37723bebd8665e7b9"},"refKey":126},
{"_key":"60c390f37723bebd8665e7c0","_id":"references/60c390f37723bebd8665e7c0","_rev":"_cfFlK1O---","tei":"\n\t\n\t\tBasic Geo (WGS84 lat/long) Vocabulary\n\t\t\n\t\t\t\n\t\t\t15\n\t\t\n\t\t\n\t\t\tW3C Semantic Web Interest Group\n\t\t\n\t\n\tcited\n\n","document":{"$oid":"60c390f37723bebd8665e7b9"},"refKey":68},
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{"_key":"60c391c77723bebd8665e839","_id":"references/60c391c77723bebd8665e839","_rev":"_cfFlK2----","tei":"\n\t\n\t\tResults of the WNUT2017 Shared Task on Novel and Emerging Entity Recognition\n\t\t\n\t\t\tLeonDerczynski\n\t\t\n\t\t\n\t\t\tEricNichols\n\t\t\n\t\t\n\t\t\tMariekeVan Erp\n\t\t\n\t\t\n\t\t\tNutLimsopatham\n\t\t\n\t\t10.18653/v1/w17-4418\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the 3rd Workshop on Noisy User-generated Text\n\t\t\t\tthe 3rd Workshop on Noisy User-generated Text\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c391c77723bebd8665e838"},"refKey":4},
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{"_key":"60c392ba7723bebd8665e8d7","_id":"references/60c392ba7723bebd8665e8d7","_rev":"_cfFlK3a---","tei":"\n\t\n\t\tmosdepth: quick coverage calculation for genomes and exomes\n\t\t\n\t\t\tBrentSPedersen\n\t\t\t0000-0003-1786-2216\n\t\t\n\t\t\n\t\t\tAaronRQuinlan\n\t\t\t0000-0003-1756-0859\n\t\t\n\t\t10.1101/185843\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c392ba7723bebd8665e8d3"},"refKey":29},
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{"_key":"60c392f07723bebd8665e900","_id":"references/60c392f07723bebd8665e900","_rev":"_cfFlK3y---","tei":"\n\t\n\t\tDetermining Time of Queries for Re-ranking Search Results\n\t\t\n\t\t\tNattiyaKanhabua\n\t\t\n\t\t\n\t\t\tKjetilNørvåg\n\t\t\n\t\t10.1007/978-3-642-15464-5_27\n\t\tark:/67375/HCB-SJV9SJN9-9\n\t\t9B22B75179E587A3D017E03BC305DA3CC8804327\n\t\t\n\t\n\t\n\t\tResearch and Advanced Technology for Digital Libraries\n\t\t\t\t\n\t\t\tIFrommholz\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t6273\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c392f07723bebd8665e8fe"},"refKey":21},
{"_key":"60c392f07723bebd8665e901","_id":"references/60c392f07723bebd8665e901","_rev":"_cfFlK36---","tei":"\n\t\n\t\tIdentifying similarities, periodicities and bursts for online search queries\n\t\t\n\t\t\tTGrainger\n\t\t\n\t\t\n\t\t\tTPotter\n\t\t\n\t\t\n\t\t\tY; MSeeley\n\t\t\n\t\t\n\t\t\tCMeek\n\t\t\n\t\t\n\t\t\tZVagena\n\t\t\n\t\t\n\t\t\tDGunopulos\n\t\t\n\t\n\t\n\t\tProceedings of the 2004 ACM SIGMOD International Conference on Management of Data\n\t\t\t\tthe 2004 ACM SIGMOD International Conference on Management of Data\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tSolr in Action. Manning, Cherry Hill (2014) 25. Vlachos,\n\n","document":{"$oid":"60c392f07723bebd8665e8fe"},"refKey":24},
{"_key":"60c392f07723bebd8665e902","_id":"references/60c392f07723bebd8665e902","_rev":"_cfFlK4G---","tei":"\n\t\n\t\tBidirectional attention flow for machine comprehension\n\t\t\n\t\t\tMSeo\n\t\t\n\t\t\n\t\t\tAKembhavi\n\t\t\n\t\t\n\t\t\tAFarhadi\n\t\t\n\t\t\n\t\t\tHHajishirzi\n\t\t\n\t\tarXiv:1611.01603\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c392f07723bebd8665e8fe"},"refKey":29},
{"_key":"60c392f07723bebd8665e903","_id":"references/60c392f07723bebd8665e903","_rev":"_cfFlK4S---","tei":"\n\t\n\t\tSUTime: a library for recognizing and normalizing time expressions\n\t\t\n\t\t\tAXChang\n\t\t\n\t\t\n\t\t\tCDManning\n\t\t\n\t\n\t\n\t\tLREC\n\t\t\n\t\t\t2012\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c392f07723bebd8665e8fe"},"refKey":28},
{"_key":"60c3933c7723bebd8665e941","_id":"references/60c3933c7723bebd8665e941","_rev":"_cfFlK4e---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3933c7723bebd8665e940"},"refKey":44},
{"_key":"60c3933c7723bebd8665e942","_id":"references/60c3933c7723bebd8665e942","_rev":"_cfFlK4q---","tei":"\n\t\n\t\tUCSF Chimera -a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3933c7723bebd8665e940"},"refKey":43},
{"_key":"60c3933c7723bebd8665e943","_id":"references/60c3933c7723bebd8665e943","_rev":"_cfFlK42---","tei":"\n\t\n\t\t\n\t\t\tKJBowers\n\t\t\n\t\t\n\t\t\tDEChow\n\t\t\n\t\t\n\t\t\tHXu\n\t\t\n\t\t\n\t\t\tRODror\n\t\t\n\t\t\n\t\t\tMPEastwood\n\t\t\n\t\t\n\t\t\tBAGregersen\n\t\t\n\t\tScalable algorithms for molecular dynamics simulations on commodity clusters, SC'06: Proceedings of the 2006 ACM/IEEE Conference on Supercomputing\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t43\n\t\t\n\t\n\n","document":{"$oid":"60c3933c7723bebd8665e940"},"refKey":45},
{"_key":"60c393647723bebd8665e971","_id":"references/60c393647723bebd8665e971","_rev":"_cfFlK5C---","tei":"\n\t\n\t\tProbability-based protein identification by searching sequence databases using mass spectrometry data\n\t\t\n\t\t\tDNPerkins\n\t\t\n\t\t\n\t\t\tDJPappin\n\t\t\n\t\t\n\t\t\tDMCreasy\n\t\t\n\t\t\n\t\t\tJSCottrell\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c393647723bebd8665e970"},"refKey":26},
{"_key":"60c393647723bebd8665e972","_id":"references/60c393647723bebd8665e972","_rev":"_cfFlK5O---","tei":"\n\t\n\t\tA probability-based approach for high-throughput protein phosphorylation analysis and site localization\n\t\t\n\t\t\tSABeausoleil\n\t\t\n\t\t\n\t\t\tJVillen\n\t\t\n\t\t\n\t\t\tSAGerber\n\t\t\n\t\t\n\t\t\tJRush\n\t\t\n\t\t\n\t\t\tSPGygi\n\t\t\n\t\n\t\n\t\tNat. Biotech\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c393647723bebd8665e970"},"refKey":28},
{"_key":"60c393647723bebd8665e973","_id":"references/60c393647723bebd8665e973","_rev":"_cfFlK5a---","tei":"\n\t\n\t\tPlatform-independent and label-free quantitation of proteomic data using MS1 extracted ion chromatograms in skyline: application to protein acetylation and phosphorylation\n\t\t\n\t\t\tBSchilling\n\t\t\n\t\t\n\t\t\tMJRardin\n\t\t\n\t\t\n\t\t\tBXMaclean\n\t\t\n\t\t\n\t\t\tAMZawadzka\n\t\t\n\t\t\n\t\t\tBEFrewen\n\t\t\n\t\t\n\t\t\tMPCusack\n\t\t\n\t\t\n\t\t\tDJSorensen\n\t\t\n\t\t\n\t\t\tMSBereman\n\t\t\n\t\t\n\t\t\tEJing\n\t\t\n\t\t\n\t\t\tCCWu\n\t\t\n\t\t\n\t\t\tEVerdin\n\t\t\n\t\t\n\t\t\tCRKahn\n\t\t\n\t\t\n\t\t\tMJMaccoss\n\t\t\n\t\t\n\t\t\tBWGibson\n\t\t\n\t\n\t\n\t\tMol. Cell. Proteomics\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c393647723bebd8665e970"},"refKey":19},
{"_key":"60c393647723bebd8665e974","_id":"references/60c393647723bebd8665e974","_rev":"_cfFlK5m---","tei":"\n\t\n\t\tSkyline: an open source document editor for creating and analyzing targeted proteomics experiments\n\t\t\n\t\t\tBMaclean\n\t\t\n\t\t\n\t\t\tDMTomazela\n\t\t\n\t\t\n\t\t\tNShulman\n\t\t\n\t\t\n\t\t\tMChambers\n\t\t\n\t\t\n\t\t\tGLFinney\n\t\t\n\t\t\n\t\t\tBFrewen\n\t\t\n\t\t\n\t\t\tRKern\n\t\t\n\t\t\n\t\t\tDLTabb\n\t\t\n\t\t\n\t\t\tDCLiebler\n\t\t\n\t\t\n\t\t\tMJMaccoss\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c393647723bebd8665e970"},"refKey":20},
{"_key":"60c3939d7723bebd8665e9b3","_id":"references/60c3939d7723bebd8665e9b3","_rev":"_cfFlK5y---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLLWang\n\t\t\n\t\t\n\t\t\tMCoon\n\t\t\n\t\t\n\t\t\tTNguyen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tSJLand\n\t\t\n\t\t\n\t\t\tXLu\n\t\t\n\t\t\n\t\t\tDMRuden\n\t\t\n\t\n\t\n\t\tSnpEff. Fly (Austin)\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3939d7723bebd8665e9b2"},"refKey":2},
{"_key":"60c3939d7723bebd8665e9b4","_id":"references/60c3939d7723bebd8665e9b4","_rev":"_cfFlK6----","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3939d7723bebd8665e9b2"},"refKey":15},
{"_key":"60c3939d7723bebd8665e9b5","_id":"references/60c3939d7723bebd8665e9b5","_rev":"_cfFlK6K---","tei":"\n\t\n\t\tFastQC -A quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3939d7723bebd8665e9b2"},"refKey":1},
{"_key":"60c393be7723bebd8665e9f2","_id":"references/60c393be7723bebd8665e9f2","_rev":"_cfFlK6W---","tei":"\n\t\n\t\tImageCLEF 2019: Multimedia Retrieval in Medicine, Lifelogging, Security and Nature\n\t\t\n\t\t\tBogdanIonescu\n\t\t\n\t\t\n\t\t\tHenningMüller\n\t\t\n\t\t\n\t\t\tRenaudPéteri\n\t\t\n\t\t\n\t\t\tYashinDicenteCid\n\t\t\n\t\t\n\t\t\tVitaliLiauchuk\n\t\t\n\t\t\n\t\t\tVassiliKovalev\n\t\t\n\t\t\n\t\t\tDzmitriKlimuk\n\t\t\n\t\t\n\t\t\tAlehTarasau\n\t\t\n\t\t\n\t\t\tAsmaBenAbacha\n\t\t\n\t\t\n\t\t\tSadidAHasan\n\t\t\n\t\t\n\t\t\tVivekDatla\n\t\t\n\t\t\n\t\t\tJoeyLiu\n\t\t\n\t\t\n\t\t\tDinaDemner-Fushman\n\t\t\n\t\t\n\t\t\tDuc-TienDang-Nguyen\n\t\t\n\t\t\n\t\t\tLucaPiras\n\t\t\n\t\t\n\t\t\tMichaelRiegler\n\t\t\n\t\t\n\t\t\tMinh-TrietTran\n\t\t\n\t\t\n\t\t\tMathiasLux\n\t\t\n\t\t\n\t\t\tCathalGurrin\n\t\t\n\t\t\n\t\t\tObiomaPelka\n\t\t\n\t\t\n\t\t\tChristophMFriedrich\n\t\t\n\t\t\n\t\t\tAlbaGarcìa Seco De Herrera\n\t\t\n\t\t\n\t\t\tNarcisoGarcia\n\t\t\n\t\t\n\t\t\tErginaKavallieratou\n\t\t\n\t\t\n\t\t\tCarlosRobertoDel Blanco\n\t\t\n\t\t\n\t\t\tCarlosCuevas\n\t\t\n\t\t\n\t\t\tNikosVasillopoulos\n\t\t\n\t\t\n\t\t\tKonstantinosKarampidis\n\t\t\n\t\t\n\t\t\tJonChamberlain\n\t\t\n\t\t\n\t\t\tAdrianClark\n\t\t\n\t\t\n\t\t\tAntonioCampello\n\t\t\n\t\t10.1007/978-3-030-28577-7_28\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tFCrestani\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11696\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c393be7723bebd8665e9f1"},"refKey":18},
{"_key":"60c393be7723bebd8665e9f3","_id":"references/60c393be7723bebd8665e9f3","_rev":"_cfFlK6i---","tei":"\n\t\n\t\tOverview of ImageCLEF 2018: Challenges, Datasets and Evaluation\n\t\t\n\t\t\tBogdanIonescu\n\t\t\n\t\t\n\t\t\tHenningMüller\n\t\t\n\t\t\n\t\t\tMauricioVillegas\n\t\t\n\t\t\n\t\t\tAlbaGarcía Seco De Herrera\n\t\t\n\t\t\n\t\t\tCarstenEickhoff\n\t\t\n\t\t\n\t\t\tVincentAndrearczyk\n\t\t\n\t\t\n\t\t\tYashinDicente Cid\n\t\t\n\t\t\n\t\t\tVitaliLiauchuk\n\t\t\n\t\t\n\t\t\tVassiliKovalev\n\t\t\n\t\t\n\t\t\tSadidAHasan\n\t\t\n\t\t\n\t\t\tYuanLing\n\t\t\n\t\t\n\t\t\tOladimejiFarri\n\t\t\n\t\t\n\t\t\tJoeyLiu\n\t\t\n\t\t\n\t\t\tMatthewLungren\n\t\t\n\t\t\n\t\t\tDuc-TienDang-Nguyen\n\t\t\n\t\t\n\t\t\tLucaPiras\n\t\t\n\t\t\n\t\t\tMichaelRiegler\n\t\t\n\t\t\n\t\t\tLitingZhou\n\t\t\n\t\t\n\t\t\tMathiasLux\n\t\t\n\t\t\n\t\t\tCathalGurrin\n\t\t\n\t\t10.1007/978-3-319-98932-7_28\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tPBellot\n\t\t\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11018\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c393be7723bebd8665e9f1"},"refKey":19},
{"_key":"60c393e27723bebd8665ea1b","_id":"references/60c393e27723bebd8665ea1b","_rev":"_cfFlK6u---","tei":"\n\t\n\t\tAccelerating structure-function mapping using the ViVa webtool to mine natural variation\n\t\t\n\t\t\tMorganOHamm\n\t\t\n\t\t\n\t\t\tBritneyLMoss\n\t\t\n\t\t\n\t\t\tAlexanderRLeydon\n\t\t\n\t\t\n\t\t\tHardikPGala\n\t\t\n\t\t\n\t\t\tAmyLanctot\n\t\t\n\t\t\n\t\t\tRománRamos\n\t\t\n\t\t\n\t\t\tHannahKlaeser\n\t\t\n\t\t\n\t\t\tAndrewCLemmex\n\t\t\n\t\t\n\t\t\tMollyeLZahler\n\t\t\n\t\t\n\t\t\tJenniferLNemhauser\n\t\t\n\t\t\n\t\t\tRClayWright\n\t\t\n\t\t10.1002/pld3.147\n\t\t\n\t\t\n\t\n\t\n\t\tPlant Direct\n\t\tPlant Direct\n\t\t2475-4455\n\t\t\n\t\t\t3\n\t\t\t7\n\t\t\te00147\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c393e27723bebd8665ea1a"},"refKey":5},
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{"_key":"60c394587723bebd8665ea87","_id":"references/60c394587723bebd8665ea87","_rev":"_cfFlK7C---","tei":"\n\t\n\t\tThe Ensembl gene annotation system\n\t\t\n\t\t\tBLAken\n\t\t\n\t\n\t\n\t\tDatabase (Oxford) 2016:baw093\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c394587723bebd8665ea86"},"refKey":2},
{"_key":"60c3946e7723bebd8665ea94","_id":"references/60c3946e7723bebd8665ea94","_rev":"_cfFlK7O---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tGenome Project Data Processing Subgroup\n\t\t\t\t\n\t\t\t\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3946e7723bebd8665ea93"},"refKey":40},
{"_key":"60c3946e7723bebd8665ea95","_id":"references/60c3946e7723bebd8665ea95","_rev":"_cfFlK7a---","tei":"\n\t\n\t\tLMAP: Lightweight Multigene Analyses in PAML\n\t\t\n\t\t\tEmanuelMaldonado\n\t\t\n\t\t\n\t\t\tDanielaAlmeida\n\t\t\n\t\t\n\t\t\tTibisayEscalona\n\t\t\n\t\t\n\t\t\tImranKhan\n\t\t\n\t\t\n\t\t\tVitorVasconcelos\n\t\t\n\t\t\n\t\t\tAgostinhoAntunes\n\t\t\n\t\t10.1186/s12859-016-1204-5\n\t\t27597435\n\t\tPMC5011788\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t354\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3946e7723bebd8665ea93"},"refKey":44},
{"_key":"60c3946e7723bebd8665ea96","_id":"references/60c3946e7723bebd8665ea96","_rev":"_cfFlK7m---","tei":"\n\t\n\t\tQUAST: quality assessment tool for genome assemblies\n\t\t\n\t\t\tAGurevich\n\t\t\n\t\t\n\t\t\tVSaveliev\n\t\t\n\t\t\n\t\t\tNVyahhi\n\t\t\n\t\t\n\t\t\tGTesler\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3946e7723bebd8665ea93"},"refKey":22},
{"_key":"60c3946f7723bebd8665ea97","_id":"references/60c3946f7723bebd8665ea97","_rev":"_cfFlK7y---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3946e7723bebd8665ea93"},"refKey":36},
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{"_key":"60c3946f7723bebd8665ea99","_id":"references/60c3946f7723bebd8665ea99","_rev":"_cfFlK8K---","tei":"\n\t\n\t\tWindow-Masker: window-based masker for sequenced genomes\n\t\t\n\t\t\tAMorgulis\n\t\t\n\t\t\n\t\t\tEMGertz\n\t\t\n\t\t\n\t\t\tAAScha ¨ffer\n\t\t\n\t\t\n\t\t\tRAgarwala\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3946e7723bebd8665ea93"},"refKey":48},
{"_key":"60c3946f7723bebd8665ea9a","_id":"references/60c3946f7723bebd8665ea9a","_rev":"_cfFlK8W---","tei":"\n\t\n\t\tSplign: algorithms for computing spliced alignments with identification of paralogs\n\t\t\n\t\t\tYuriKapustin\n\t\t\n\t\t\n\t\t\tAlexanderSouvorov\n\t\t\n\t\t\n\t\t\tTatianaTatusova\n\t\t\n\t\t\n\t\t\tDavidLipman\n\t\t\n\t\t10.1186/1745-6150-3-20\n\t\t18495041\n\t\tPMC2440734\n\t\t\n\t\n\t\n\t\tBiology Direct\n\t\tBiology Direct\n\t\t1745-6150\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t20\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3946e7723bebd8665ea93"},"refKey":28},
{"_key":"60c3946f7723bebd8665ea9b","_id":"references/60c3946f7723bebd8665ea9b","_rev":"_cfFlK8i---","tei":"\n\t\n\t\tPilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement\n\t\t\n\t\t\tBJWalker\n\t\t\n\t\t\n\t\t\tTAbeel\n\t\t\n\t\t\n\t\t\tTShea\n\t\t\n\t\t\n\t\t\tMPriest\n\t\t\n\t\t\n\t\t\tAAbouelliel\n\t\t\n\t\t\n\t\t\tSSakthikumar\n\t\t\n\t\t\n\t\t\tCACuomo\n\t\t\n\t\t\n\t\t\tQZeng\n\t\t\n\t\t\n\t\t\tJWortman\n\t\t\n\t\t\n\t\t\tSKYoung\n\t\t\n\t\t\n\t\t\tAMEarl\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3946e7723bebd8665ea93"},"refKey":76},
{"_key":"60c3949f7723bebd8665eac5","_id":"references/60c3949f7723bebd8665eac5","_rev":"_cfFlK8q---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAAScha ¨ffer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3949f7723bebd8665eac4"},"refKey":63},
{"_key":"60c394b67723bebd8665eace","_id":"references/60c394b67723bebd8665eace","_rev":"_cfFlK82---","tei":"\n\t\n\t\tMeasuring Docker Performance\n\t\t\n\t\t\tEmilianoCasalicchio\n\t\t\n\t\t\n\t\t\tVanessaPerciballi\n\t\t\n\t\t10.1145/3053600.3053605\n\t\t\n\t\n\t\n\t\tProceedings of the 8th ACM/SPEC on International Conference on Performance Engineering Companion - ICPE '17 Companion\n\t\t\t\tthe 8th ACM/SPEC on International Conference on Performance Engineering Companion - ICPE '17 CompanionNew York\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c394b67723bebd8665eacd"},"refKey":4},
{"_key":"60c394b67723bebd8665eacf","_id":"references/60c394b67723bebd8665eacf","_rev":"_cfFlK9C---","tei":"\n\t\n\t\tLinux performance and tuning guidelines. IBM, International Technical Support Organization\n\t\t\n\t\t\tECiliendo\n\t\t\n\t\t\n\t\t\tTKunimasa\n\t\t\n\t\t\n\t\t\tBBraswell\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c394b67723bebd8665eacd"},"refKey":5},
{"_key":"60c394be7723bebd8665ead7","_id":"references/60c394be7723bebd8665ead7","_rev":"_cfFlK9O---","tei":"\n\t\n\t\tThe VSGB 2.0 model: A next generation energy model for high resolution protein structure modeling\n\t\t\n\t\t\tJianingLi\n\t\t\n\t\t\n\t\t\tRobertAbel\n\t\t\n\t\t\n\t\t\tKaiZhu\n\t\t\n\t\t\n\t\t\tYixiangCao\n\t\t\n\t\t\n\t\t\tSuwenZhao\n\t\t\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t10.1002/prot.23106\n\t\t21905107\n\t\tPMC3206729\n\t\tark:/67375/WNG-Z1Z7KH0T-P\n\t\t932DE26ACB0DED493B70D38AFC7959E5E0768837\n\t\t\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t79\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c394be7723bebd8665ead6"},"refKey":39},
{"_key":"60c394be7723bebd8665ead8","_id":"references/60c394be7723bebd8665ead8","_rev":"_cfFlK9a---","tei":"\n\t\n\t\tApplying Physics-Based Scoring to Calculate Free Energies of Binding for Single Amino Acid Mutations in Protein-Protein Complexes\n\t\t\n\t\t\tHegeBeard\n\t\t\n\t\t\n\t\t\tAnuradhaCholleti\n\t\t\n\t\t\n\t\t\tDavidPearlman\n\t\t\n\t\t\n\t\t\tWoodySherman\n\t\t\n\t\t\n\t\t\tKathrynALoving\n\t\t\n\t\t10.1371/journal.pone.0082849\n\t\t24340062\n\t\tPMC3858304\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t12\n\t\t\te82849\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c394be7723bebd8665ead6"},"refKey":6},
{"_key":"60c394d27723bebd8665eaeb","_id":"references/60c394d27723bebd8665eaeb","_rev":"_cfFlK9m---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1073/pnas.0506580102\n\t\t16199517\n\t\tPMC1239896\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t102\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c394d27723bebd8665eaea"},"refKey":11},
{"_key":"60c394d27723bebd8665eaec","_id":"references/60c394d27723bebd8665eaec","_rev":"_cfFlK9y---","tei":"\n\t\n\t\tviSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia\n\t\t\n\t\t\tEl-Ad DavidAmir\n\t\t\n\t\t\n\t\t\tKaraLDavis\n\t\t\n\t\t\n\t\t\tMichelleDTadmor\n\t\t\n\t\t\n\t\t\tErinFSimonds\n\t\t\n\t\t\n\t\t\tJacobHLevine\n\t\t\n\t\t\n\t\t\tSeanCBendall\n\t\t\n\t\t\n\t\t\tDanielKShenfeld\n\t\t\n\t\t\n\t\t\tSmitaKrishnaswamy\n\t\t\n\t\t\n\t\t\tGarryPNolan\n\t\t\n\t\t\n\t\t\tDanaPe'er\n\t\t\n\t\t10.1038/nbt.2594\n\t\t23685480\n\t\tPMC4076922\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t31\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c394d27723bebd8665eaea"},"refKey":24},
{"_key":"60c394e77723bebd8665eaf7","_id":"references/60c394e77723bebd8665eaf7","_rev":"_cfFlL-----","tei":"\n\t\n\t\tAutomated docking using a Lamarckian genetic algorithm and empirical binding free energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tRSHalliday\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c394e77723bebd8665eaf6"},"refKey":22},
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{"_key":"60c395067723bebd8665eb09","_id":"references/60c395067723bebd8665eb09","_rev":"_cfFlL-W---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c395067723bebd8665eb08"},"refKey":24},
{"_key":"60c3952c7723bebd8665eb21","_id":"references/60c3952c7723bebd8665eb21","_rev":"_cfFlL-i---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis: A regression-based approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford publications\n\t\t\n\t\n\n","document":{"$oid":"60c3952c7723bebd8665eb20"},"refKey":61},
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{"_key":"60c395747723bebd8665eb43","_id":"references/60c395747723bebd8665eb43","_rev":"_cfFlL_G---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t10.1093/bioinformatics/btq461\n\t\t20709691\n\t\tark:/67375/HXZ-GJV3Q6N3-6\n\t\tE899EDEA476A0A93BC2365EEC6AA3B7EEEC99891\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c395747723bebd8665eb42"},"refKey":21},
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{"_key":"60c396117723bebd8665ebd1","_id":"references/60c396117723bebd8665ebd1","_rev":"_cfFlLAu---","tei":"\n\t\n\t\tProtein structure prediction on the Web: a case study using the Phyre server\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tMJSternberg\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c396117723bebd8665ebcc"},"refKey":40},
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{"_key":"60c396117723bebd8665ebd3","_id":"references/60c396117723bebd8665ebd3","_rev":"_cfFlLBG---","tei":"\n\t\n\t\tSMART 7: recent updates to the protein domain annotation resource\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tTDoerks\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c396117723bebd8665ebcc"},"refKey":34},
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{"_key":"60c396327723bebd8665ec03","_id":"references/60c396327723bebd8665ec03","_rev":"_cfFlLBe---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tDanielPeterson\n\t\t\n\t\t\n\t\t\tAlanFilipski\n\t\t\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t10.1093/molbev/mst197\n\t\t24132122\n\t\tPMC3840312\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c396327723bebd8665ec02"},"refKey":67},
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{"_key":"60c397e17723bebd8665edc2","_id":"references/60c397e17723bebd8665edc2","_rev":"_cfFlLHu---","tei":"\n\t\n\t\tInterProScan -an integration platform for the signature-recognition methods in InterPro\n\t\t\n\t\t\tEMZdobnov\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t17\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c397e17723bebd8665edbe"},"refKey":60},
{"_key":"60c398067723bebd8665ede3","_id":"references/60c398067723bebd8665ede3","_rev":"_cfFlLH6---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1101/274100\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c398067723bebd8665ede2"},"refKey":17},
{"_key":"60c398067723bebd8665ede4","_id":"references/60c398067723bebd8665ede4","_rev":"_cfFlLIG---","tei":"\n\t\n\t\tLoFreq: a sequencequality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasets\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tPpkAw\n\t\t\n\t\t\n\t\t\tDBertrand\n\t\t\n\t\t\n\t\t\tGhtYeo\n\t\t\n\t\t\n\t\t\tSHOng\n\t\t\n\t\t\n\t\t\tCHWong\n\t\t\n\t\t10.1093/nar/gks918.23\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c398067723bebd8665ede2"},"refKey":27},
{"_key":"60c398067723bebd8665ede5","_id":"references/60c398067723bebd8665ede5","_rev":"_cfFlLIS---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c398067723bebd8665ede2"},"refKey":24},
{"_key":"60c398067723bebd8665ede6","_id":"references/60c398067723bebd8665ede6","_rev":"_cfFlLIe---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with BWA-MEM. arXiv\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c398067723bebd8665ede2"},"refKey":21},
{"_key":"60c398067723bebd8665ede7","_id":"references/60c398067723bebd8665ede7","_rev":"_cfFlLIm---","tei":"\n\t\n\t\tSambamba: fast processing of NGS alignment formats\n\t\t\n\t\t\tArtemTarasov\n\t\t\n\t\t\n\t\t\tAlbertJVilella\n\t\t\n\t\t\n\t\t\tEdwinCuppen\n\t\t\n\t\t\n\t\t\tIsaacJNijman\n\t\t\n\t\t\n\t\t\tPjotrPrins\n\t\t\n\t\t10.1093/bioinformatics/btv098\n\t\t25697820\n\t\tPMC4765878\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c398067723bebd8665ede2"},"refKey":23},
{"_key":"60c398067723bebd8665ede8","_id":"references/60c398067723bebd8665ede8","_rev":"_cfFlLIy---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c398067723bebd8665ede2"},"refKey":22},
{"_key":"60c398067723bebd8665ede9","_id":"references/60c398067723bebd8665ede9","_rev":"_cfFlLJ----","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c398067723bebd8665ede2"},"refKey":25},
{"_key":"60c398117723bebd8665ee06","_id":"references/60c398117723bebd8665ee06","_rev":"_cfFlLJK---","tei":"\n\t\n\t\tThe STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tHCook\n\t\t\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\t\n\t\t\tSWyder\n\t\t\n\t\t\n\t\t\tMSimonovic\n\t\t\n\t\t\n\t\t\tASantos\n\t\t\n\t\t\n\t\t\tNTDoncheva\n\t\t\n\t\t\n\t\t\tARoth\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c398117723bebd8665ee05"},"refKey":81},
{"_key":"60c398407723bebd8665ee22","_id":"references/60c398407723bebd8665ee22","_rev":"_cfFlLJW---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c398407723bebd8665ee21"},"refKey":29},
{"_key":"60c398b67723bebd8665ee90","_id":"references/60c398b67723bebd8665ee90","_rev":"_cfFlLJi---","tei":"\n\t\n\t\tCoronavirus: The 2019 Novel Coronavirus COVID-19 (2019-nCoV) Dataset\n\t\t\n\t\t\tRKrispin\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 0.2.0.\n\n","document":{"$oid":"60c398b67723bebd8665ee8f"},"refKey":32},
{"_key":"60c398b67723bebd8665ee91","_id":"references/60c398b67723bebd8665ee91","_rev":"_cfFlLJu---","tei":"\n\t\n\t\tGlobal News, 2020. A timeline of the novel coronavirus in Ontario\n\t\t\n\t\t\tAFu\n\t\t\n\t\t\n\t\t\tBNarasimhan\n\t\t\n\t\t\n\t\t\tSBoyd\n\t\t\n\t\tarXiv:1711.07582\n\t\t\n\t\t\n\t\t\t\n\t\t\t14\n\t\t\n\t\n\tCVXR: An R package for disciplined convex optimization\n\n","document":{"$oid":"60c398b67723bebd8665ee8f"},"refKey":22},
{"_key":"60c399067723bebd8665eeee","_id":"references/60c399067723bebd8665eeee","_rev":"_cfFlLJ6---","tei":"\n\t\n\t\tPyTorch: An Imperative Style, High-Performance Deep Learning Library\n\t\t\n\t\t\tAPaszke\n\t\t\n\t\t\n\t\t\tSGross\n\t\t\n\t\t\n\t\t\tFMassa\n\t\t\n\t\t\n\t\t\tALerer\n\t\t\n\t\t\n\t\t\tJBradbury\n\t\t\n\t\t\n\t\t\tGChanan\n\t\t\n\t\t\n\t\t\tTKilleen\n\t\t\n\t\t\n\t\t\tZLin\n\t\t\n\t\t\n\t\t\tNGimelshein\n\t\t\n\t\n\t\n\t\tAdvances in Neural Information Processing Systems\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c399067723bebd8665eeed"},"refKey":8},
{"_key":"60c3990f7723bebd8665eef4","_id":"references/60c3990f7723bebd8665eef4","_rev":"_cfFlLKC---","tei":"\n\t\n\t\tThe variant call format and VCFtools\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tAAuton\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tCAAlbers\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t\n\t\t\tREHandsaker\n\t\t\n\t\t\n\t\t\tGLunter\n\t\t\n\t\t\n\t\t\tGTMarth\n\t\t\n\t\t\n\t\t\tSTSherry\n\t\t\n\t\t\n\t\t\tGMcvean\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btr330\n\t\t21653522\n\t\tPMC3137218\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3990f7723bebd8665eef3"},"refKey":34},
{"_key":"60c3990f7723bebd8665eef5","_id":"references/60c3990f7723bebd8665eef5","_rev":"_cfFlLKO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tADYates\n\t\t\n\t\t10.1093/nar/gkz966\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3990f7723bebd8665eef3"},"refKey":35},
{"_key":"60c3990f7723bebd8665eef6","_id":"references/60c3990f7723bebd8665eef6","_rev":"_cfFlLKa---","tei":"\n\t\n\t\tDynaMut: predicting the impact of mutations on protein conformation, flexibility and stability\n\t\t\n\t\t\tCarlosHmRodrigues\n\t\t\n\t\t\n\t\t\tDouglasEvPires\n\t\t\t0000-0002-3004-2119\n\t\t\n\t\t\n\t\t\tDavidBAscher\n\t\t\t0000-0003-2948-2413\n\t\t\n\t\t10.1093/nar/gky300\n\t\t29718330\n\t\tPMC6031064\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3990f7723bebd8665eef3"},"refKey":47},
{"_key":"60c3990f7723bebd8665eef7","_id":"references/60c3990f7723bebd8665eef7","_rev":"_cfFlLKm---","tei":"\n\t\n\t\tPredicting Functional Effect of Human Missense Mutations Using PolyPhen-2\n\t\t\n\t\t\tIvanAdzhubei\n\t\t\n\t\t\n\t\t\tDanielMJordan\n\t\t\n\t\t\n\t\t\tShamilRSunyaev\n\t\t\n\t\t10.1002/0471142905.hg0720s76\n\t\t23315928\n\t\tPMC4480630\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Human Genetics\n\t\tCurrent Protocols in Human Genetics\n\t\t1934-8266\n\t\t\n\t\t\t76\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3990f7723bebd8665eef3"},"refKey":40},
{"_key":"60c3990f7723bebd8665eef8","_id":"references/60c3990f7723bebd8665eef8","_rev":"_cfFlLKy---","tei":"\n\t\n\t\tFunctional annotations improve the predictive score of human disease-related mutations in proteins\n\t\t\n\t\t\tRemoCalabrese\n\t\t\n\t\t\n\t\t\tEmidioCapriotti\n\t\t\n\t\t\n\t\t\tPieroFariselli\n\t\t\n\t\t\n\t\t\tPierLuigiMartelli\n\t\t\n\t\t\n\t\t\tRitaCasadio\n\t\t\n\t\t10.1002/humu.21047\n\t\t19514061\n\t\tark:/67375/WNG-KPRD5QCW-6\n\t\t28F7375F40655AF164ADC8A8ABB88CC423A092BE\n\t\n\t\n\t\tHuman Mutation\n\t\tHum. Mutat.\n\t\t1059-7794\n\t\t1098-1004\n\t\t\n\t\t\t30\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3990f7723bebd8665eef3"},"refKey":46},
{"_key":"60c399257723bebd8665ef07","_id":"references/60c399257723bebd8665ef07","_rev":"_cfFlLL----","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\n\t\n\t\tProc. Natl Acad. Sci. USA\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c399257723bebd8665ef06"},"refKey":4},
{"_key":"60c399257723bebd8665ef08","_id":"references/60c399257723bebd8665ef08","_rev":"_cfFlLLK---","tei":"\n\t\n\t\tThe molecular signatures database hallmark gene set collection\n\t\t\n\t\t\tALiberzon\n\t\t\n\t\n\t\n\t\tCell Syst\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c399257723bebd8665ef06"},"refKey":6},
{"_key":"60c399257723bebd8665ef09","_id":"references/60c399257723bebd8665ef09","_rev":"_cfFlLLW---","tei":"\n\t\n\t\tSCENIC: Single-cell regulatory network inference and clustering\n\t\t\n\t\t\tSaraAibar\n\t\t\t0000-0001-6104-7134\n\t\t\n\t\t\n\t\t\tCarmenBravoGonzález-Blas\n\t\t\n\t\t\n\t\t\tThomasMoerman\n\t\t\n\t\t\n\t\t\tJasperWouters\n\t\t\n\t\t\n\t\t\tVânAnhHuynh-Thu\n\t\t\n\t\t\n\t\t\tHanaImrichova\n\t\t\n\t\t\n\t\t\tZeynepKalenderAtak\n\t\t\n\t\t\n\t\t\tGertHulselmans\n\t\t\n\t\t\n\t\t\tMichaelDewaele\n\t\t\n\t\t\n\t\t\tFlorianRambow\n\t\t\n\t\t\n\t\t\tPierreGeurts\n\t\t\n\t\t\n\t\t\tJanAerts\n\t\t\n\t\t\n\t\t\tJean-ChristopheMarine\n\t\t\n\t\t\n\t\t\tJoostVanDen Oord\n\t\t\n\t\t\n\t\t\tSteinAerts\n\t\t\n\t\t10.1101/144501\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c399257723bebd8665ef06"},"refKey":3},
{"_key":"60c399417723bebd8665ef2e","_id":"references/60c399417723bebd8665ef2e","_rev":"_cfFlLLi---","tei":"\n\t\n\t\tInteractive Tree of Life v2: online annotation and display of phylogenetic trees made easy\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c399417723bebd8665ef2d"},"refKey":72},
{"_key":"60c399417723bebd8665ef2f","_id":"references/60c399417723bebd8665ef2f","_rev":"_cfFlLLu---","tei":"\n\t\n\t\tFunctional Tradeoffs Underpin Salinity-Driven Divergence in Microbial Community Composition\n\t\t\n\t\t\tChrisLDupont\n\t\t\n\t\t\n\t\t\tJohnLarsson\n\t\t\n\t\t\n\t\t\tShibuYooseph\n\t\t\n\t\t\n\t\t\tKarolinaIninbergs\n\t\t\n\t\t\n\t\t\tJohannesGoll\n\t\t\n\t\t\n\t\t\tJohannesAsplund-Samuelsson\n\t\t\n\t\t\n\t\t\tJohnPMccrow\n\t\t\n\t\t\n\t\t\tNarinCelepli\n\t\t\n\t\t\n\t\t\tLisaZeiglerAllen\n\t\t\n\t\t\n\t\t\tMartinEkman\n\t\t\n\t\t\n\t\t\tAndrewJLucas\n\t\t\n\t\t\n\t\t\tÅkeHagström\n\t\t\n\t\t\n\t\t\tMathangiThiagarajan\n\t\t\n\t\t\n\t\t\tBjörnBrindefalk\n\t\t\n\t\t\n\t\t\tAlexanderRRichter\n\t\t\n\t\t\n\t\t\tAndersFAndersson\n\t\t\n\t\t\n\t\t\tAaronTenney\n\t\t\n\t\t\n\t\t\tDanielLundin\n\t\t\n\t\t\n\t\t\tAndreyTovchigrechko\n\t\t\n\t\t\n\t\t\tJohanA ANylander\n\t\t\n\t\t\n\t\t\tDanielBrami\n\t\t\n\t\t\n\t\t\tJonathanHBadger\n\t\t\n\t\t\n\t\t\tAndrewEAllen\n\t\t\n\t\t\n\t\t\tDouglasBRusch\n\t\t\n\t\t\n\t\t\tJeffHoffman\n\t\t\n\t\t\n\t\t\tErlingNorrby\n\t\t\n\t\t\n\t\t\tRobertFriedman\n\t\t\n\t\t\n\t\t\tJaronePinhassi\n\t\t\n\t\t\n\t\t\tJCraigVenter\n\t\t\n\t\t\n\t\t\tBirgittaBergman\n\t\t\n\t\t10.1371/journal.pone.0089549\n\t\t24586863\n\t\tPMC3937345\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t9\n\t\t\t2\n\t\t\te89549\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c399417723bebd8665ef2d"},"refKey":70},
{"_key":"60c399417723bebd8665ef30","_id":"references/60c399417723bebd8665ef30","_rev":"_cfFlLL2---","tei":"\n\t\n\t\tCheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes\n\t\t\n\t\t\tDonovanHParks\n\t\t\n\t\t\n\t\t\tMichaelImelfort\n\t\t\n\t\t\n\t\t\tConnorTSkennerton\n\t\t\n\t\t\n\t\t\tPhilipHugenholtz\n\t\t\n\t\t\n\t\t\tGeneWTyson\n\t\t\n\t\t10.7287/peerj.preprints.554v2\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c399417723bebd8665ef2d"},"refKey":69},
{"_key":"60c399897723bebd8665ef5e","_id":"references/60c399897723bebd8665ef5e","_rev":"_cfFlLMC---","tei":"\n\t\n\t\tA hierarchical approach to all-atom protein loop prediction\n\t\t\n\t\t\tMPJacobson\n\t\t\n\t\t\n\t\t\tDLPincus\n\t\t\n\t\t\n\t\t\tCSRapp\n\t\t\n\t\t\n\t\t\tTJDay\n\t\t\n\t\t\n\t\t\tBHonig\n\t\t\n\t\t\n\t\t\tDEShaw\n\t\t\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\t\n\t\t\t55\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c399897723bebd8665ef5d"},"refKey":53},
{"_key":"60c399897723bebd8665ef5f","_id":"references/60c399897723bebd8665ef5f","_rev":"_cfFlLMO---","tei":"\n\t\n\t\tOn the role of the crystal environment in determining protein side-chain conformations\n\t\t\n\t\t\tMPJacobson\n\t\t\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tZXiang\n\t\t\n\t\t\n\t\t\tBHonig\n\t\t\n\t\n\t\n\t\tJournal of molecular biology\n\t\t\n\t\t\t320\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c399897723bebd8665ef5d"},"refKey":54},
{"_key":"60c399e77723bebd8665ef8e","_id":"references/60c399e77723bebd8665ef8e","_rev":"_cfFlLMa---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c399e77723bebd8665ef8d"},"refKey":34},
{"_key":"60c399e77723bebd8665ef8f","_id":"references/60c399e77723bebd8665ef8f","_rev":"_cfFlLMm---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c399e77723bebd8665ef8d"},"refKey":30},
{"_key":"60c399f67723bebd8665efa1","_id":"references/60c399f67723bebd8665efa1","_rev":"_cfFlLMy---","tei":"\n\t\n\t\tOrigo: causal inference by compression\n\t\t\n\t\t\tKailashBudhathoki\n\t\t\t0000-0002-5255-8642\n\t\t\n\t\t\n\t\t\tJillesVreeken\n\t\t\t0000-0002-2310-2806\n\t\t\n\t\t10.1007/s10115-017-1130-5\n\t\t\n\t\n\t\n\t\tKnowledge and Information Systems\n\t\tKnowl Inf Syst\n\t\t0219-1377\n\t\t0219-3116\n\t\t\n\t\t\t56\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c399f67723bebd8665efa0"},"refKey":5},
{"_key":"60c399f67723bebd8665efa2","_id":"references/60c399f67723bebd8665efa2","_rev":"_cfFlLN----","tei":"\n\t\n\t\tCython: The Best of Both Worlds\n\t\t\n\t\t\tStefanBehnel\n\t\t\n\t\t\n\t\t\tRobertBradshaw\n\t\t\n\t\t\n\t\t\tCraigCitro\n\t\t\n\t\t\n\t\t\tLisandroDalcin\n\t\t\n\t\t\n\t\t\tKurtDag Sverre Seljebotn\n\t\t\n\t\t\n\t\t\tSmith\n\t\t\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\t\n\t\t\t13\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c399f67723bebd8665efa0"},"refKey":32},
{"_key":"60c399f67723bebd8665efa3","_id":"references/60c399f67723bebd8665efa3","_rev":"_cfFlLNK---","tei":"\n\t\n\t\tArray programming with NumPy\n\t\t\n\t\t\tCharlesRHarris\n\t\t\n\t\t\n\t\t\tKJarrodMillman\n\t\t\n\t\t\n\t\t\tJStéfan\n\t\t\n\t\t\n\t\t\tRalfVan Der Walt\n\t\t\n\t\t\n\t\t\tPauliGommers\n\t\t\n\t\t\n\t\t\tDavidVirtanen\n\t\t\n\t\t\n\t\t\tEricCournapeau\n\t\t\n\t\t\n\t\t\tJulianWieser\n\t\t\n\t\t\n\t\t\tSebastianTaylor\n\t\t\n\t\t\n\t\t\tNathanielJBerg\n\t\t\n\t\t\n\t\t\tRobertSmith\n\t\t\n\t\t\n\t\t\tMattiKern\n\t\t\n\t\t\n\t\t\tStephanPicus\n\t\t\n\t\t\n\t\t\tMartenHHoyer\n\t\t\n\t\t\n\t\t\tMatthewVan Kerkwijk\n\t\t\n\t\t\n\t\t\tAllanBrett\n\t\t\n\t\t\n\t\t\tJaimeHaldane\n\t\t\n\t\t\n\t\t\tMarkFernández Del Río\n\t\t\n\t\t\n\t\t\tPearuWiebe\n\t\t\n\t\t\n\t\t\tPierrePeterson\n\t\t\n\t\t\n\t\t\tKevinGérard-Marchant\n\t\t\n\t\t\n\t\t\tTylerSheppard\n\t\t\n\t\t\n\t\t\tWarrenReddy\n\t\t\n\t\t\n\t\t\tHameerWeckesser\n\t\t\n\t\t\n\t\t\tChristophAbbasi\n\t\t\n\t\t\n\t\t\tTravisEGohlke\n\t\t\n\t\t\n\t\t\tOliphant\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t585\n\t\t\t7825\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c399f67723bebd8665efa0"},"refKey":33},
{"_key":"60c39a017723bebd8665efae","_id":"references/60c39a017723bebd8665efae","_rev":"_cfFlLNW---","tei":"\n\t\n\t\tPROCHECK: A program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39a017723bebd8665efad"},"refKey":134},
{"_key":"60c39a017723bebd8665efaf","_id":"references/60c39a017723bebd8665efaf","_rev":"_cfFlLNe---","tei":"\n\t\n\t\tImproved tools for biological sequence comparison\n\t\t\n\t\t\tWRPearson\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. USA\n\t\t\n\t\t\t85\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39a017723bebd8665efad"},"refKey":164},
{"_key":"60c39a017723bebd8665efb0","_id":"references/60c39a017723bebd8665efb0","_rev":"_cfFlLNq---","tei":"\n\t\n\t\t[5] Rapid and sensitive sequence comparison with FASTP and FASTA\n\t\t\n\t\t\tWilliamRPearson\n\t\t\n\t\t10.1016/0076-6879(90)83007-v\n\t\t2156132\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t183\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39a017723bebd8665efad"},"refKey":163},
{"_key":"60c39a2e7723bebd8665efe0","_id":"references/60c39a2e7723bebd8665efe0","_rev":"_cfFlLN2---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39a2e7723bebd8665efdf"},"refKey":72},
{"_key":"60c39a2e7723bebd8665efe1","_id":"references/60c39a2e7723bebd8665efe1","_rev":"_cfFlLOC---","tei":"\n\t\n\t\tModeling COVID-19 scenarios for the United States\n\t\t\n\t\t\tRCReiner\n\t\t\n\t\t\n\t\t\tRMBarber\n\t\t\n\t\t\n\t\t\tJKCollins\n\t\t\n\t\t\n\t\t\tPZheng\n\t\t\n\t\t\n\t\t\tCAdolph\n\t\t\n\t\t\n\t\t\tJAlbright\n\t\t\n\t\n\t\n\t\tNature Medicine\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39a2e7723bebd8665efdf"},"refKey":8},
{"_key":"60c39a2e7723bebd8665efe2","_id":"references/60c39a2e7723bebd8665efe2","_rev":"_cfFlLOO---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39a2e7723bebd8665efdf"},"refKey":71},
{"_key":"60c39a2e7723bebd8665efe3","_id":"references/60c39a2e7723bebd8665efe3","_rev":"_cfFlLOa---","tei":"\n\t\n\t\tApple's COVID Mobility Data. Github: Github\n\t\t\n\t\t\tKHealy\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39a2e7723bebd8665efdf"},"refKey":55},
{"_key":"60c39a2e7723bebd8665efe4","_id":"references/60c39a2e7723bebd8665efe4","_rev":"_cfFlLOm---","tei":"\n\t\n\t\tFitting dynamic models to epidemic outbreaks with quantified uncertainty: A primer for parameter uncertainty, identifiability, and forecasts\n\t\t\n\t\t\tGerardoChowell\n\t\t\n\t\t10.1016/j.idm.2017.08.001\n\t\t29250607\n\t\tPMC5726591\n\t\t\n\t\n\t\n\t\tInfectious Disease Modelling\n\t\tInfectious Disease Modelling\n\t\t2468-0427\n\t\t\n\t\t\t2\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c39a2e7723bebd8665efdf"},"refKey":50},
{"_key":"60c39a2e7723bebd8665efe5","_id":"references/60c39a2e7723bebd8665efe5","_rev":"_cfFlLOy---","tei":"\n\t\n\t\tUnderstanding Spatial Heterogeneity of COVID-19 Pandemic Using Shape Analysis of Growth Rate Curves. medRxiv\n\t\t\n\t\t\tASrivastava\n\t\t\n\t\t\n\t\t\tGChowell\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39a2e7723bebd8665efdf"},"refKey":76},
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{"_key":"60c39a4c7723bebd8665effc","_id":"references/60c39a4c7723bebd8665effc","_rev":"_cfFlLPG---","tei":"\n\t\n\t\tHTSeq--a Python framework to work with high-throughput sequencing data\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t\n\t\t\tPTPyl\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t10.1093/bioinformatics/btu638\n\t\t25260700\n\t\tPMC4287950\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c39a4c7723bebd8665effa"},"refKey":25},
{"_key":"60c39a4c7723bebd8665effd","_id":"references/60c39a4c7723bebd8665effd","_rev":"_cfFlLPS---","tei":"\n\t\n\t\tExoLocator—an online view into genetic makeup of vertebrate proteins\n\t\t\n\t\t\tAikAunKhoo\n\t\t\n\t\t\n\t\t\tMarioOgrizek-Tomaš\n\t\t\n\t\t\n\t\t\tAnaBulović\n\t\t\n\t\t\n\t\t\tMatijaKorpar\n\t\t\n\t\t\n\t\t\tEceGürler\n\t\t\n\t\t\n\t\t\tIvanSlijepčević\n\t\t\n\t\t\n\t\t\tMileŠikić\n\t\t\n\t\t\n\t\t\tIvanaMihalek\n\t\t\n\t\t10.1093/nar/gkt1164\n\t\t24271393\n\t\tPMC3965120\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl. Acids Res.\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c39a4c7723bebd8665effa"},"refKey":26},
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{"_key":"60c39bc87723bebd8665f0e9","_id":"references/60c39bc87723bebd8665f0e9","_rev":"_cfFlLR2---","tei":"\n\t\n\t\tAccurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ\n\t\t\n\t\t\tJürgenCox\n\t\t\n\t\t\n\t\t\tMarcoYHein\n\t\t\n\t\t\n\t\t\tChristianALuber\n\t\t\n\t\t\n\t\t\tIgorParon\n\t\t\n\t\t\n\t\t\tNagarjunaNagaraj\n\t\t\n\t\t\n\t\t\tMatthiasMann\n\t\t\n\t\t10.1074/mcp.m113.031591\n\t\t24942700\n\t\tPMC4159666\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular & Cellular Proteomics\n\t\tMol Cell Proteomics\n\t\t1535-9476\n\t\t1535-9484\n\t\t\n\t\t\t13\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Biochemistry & Molecular Biology (ASBMB)\n\t\t\n\t\n\n","document":{"$oid":"60c39bc87723bebd8665f0e6"},"refKey":22},
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{"_key":"60c39c3c7723bebd8665f151","_id":"references/60c39c3c7723bebd8665f151","_rev":"_cfFlLS6---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2009-10-3-r25\n\t\t19261174\n\t\tPMC2690996\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\tR25\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c39c3c7723bebd8665f14b"},"refKey":16},
{"_key":"60c39c3c7723bebd8665f152","_id":"references/60c39c3c7723bebd8665f152","_rev":"_cfFlLTG---","tei":"\n\t\n\t\tWGCNA: an R package for weighted correlation network analysis\n\t\t\n\t\t\tPeterLangfelder\n\t\t\n\t\t\n\t\t\tSteveHorvath\n\t\t\n\t\t10.1186/1471-2105-9-559\n\t\t19114008\n\t\tPMC2631488\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t559\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c39c3c7723bebd8665f14b"},"refKey":23},
{"_key":"60c39c517723bebd8665f17e","_id":"references/60c39c517723bebd8665f17e","_rev":"_cfFlLTS---","tei":"\n\t\n\t\tSARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes\n\t\t\n\t\t\tWSungnak\n\t\t\n\t\t\n\t\t\tNHuang\n\t\t\n\t\t\n\t\t\tCBécavin\n\t\t\n\t\n\t\n\t\tNat Med\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39c517723bebd8665f17d"},"refKey":15},
{"_key":"60c39c587723bebd8665f185","_id":"references/60c39c587723bebd8665f185","_rev":"_cfFlLTe---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c39c587723bebd8665f184"},"refKey":35},
{"_key":"60c39c587723bebd8665f186","_id":"references/60c39c587723bebd8665f186","_rev":"_cfFlLTq---","tei":"\n\t\n\t\tNaviGO: interactive tool for visualization and functional similarity and coherence analysis with gene ontology\n\t\t\n\t\t\tQingWei\n\t\t\n\t\t\n\t\t\tIshitaKKhan\n\t\t\n\t\t\n\t\t\tZiyunDing\n\t\t\n\t\t\n\t\t\tSatwicaYerneni\n\t\t\n\t\t\n\t\t\tDaisukeKihara\n\t\t\t0000-0003-4091-6614\n\t\t\n\t\t10.1186/s12859-017-1600-5\n\t\t28320317\n\t\tPMC5359872\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t18\n\t\t\t1\n\t\t\t177\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c39c587723bebd8665f184"},"refKey":44},
{"_key":"60c39c587723bebd8665f187","_id":"references/60c39c587723bebd8665f187","_rev":"_cfFlLT2---","tei":"\n\t\n\t\tMMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets\n\t\t\n\t\t\tMartinSteinegger\n\t\t\t0000-0001-8781-9753\n\t\t\n\t\t\n\t\t\tJohannesSöding\n\t\t\t0000-0001-9642-8244\n\t\t\n\t\t10.1038/nbt.3988\n\t\t29035372\n\t\t\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c39c587723bebd8665f184"},"refKey":36},
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{"_key":"60c39c797723bebd8665f1a1","_id":"references/60c39c797723bebd8665f1a1","_rev":"_cfFlLUu---","tei":"\n\t\n\t\tCumulus provides cloud-based data analysis for large-scale single-cell and single-nucleus RNA-seq\n\t\t\n\t\t\tBLi\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39c797723bebd8665f19d"},"refKey":36},
{"_key":"60c39c797723bebd8665f1a2","_id":"references/60c39c797723bebd8665f1a2","_rev":"_cfFlLU6---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39c797723bebd8665f19d"},"refKey":98},
{"_key":"60c39c797723bebd8665f1a3","_id":"references/60c39c797723bebd8665f1a3","_rev":"_cfFlLVG---","tei":"\n\t\n\t\tScanpy for analysis of large-scale single-cell gene expression data\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tPhilippAngerer\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/174029\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t19\n\t\t\t15\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c39c797723bebd8665f19d"},"refKey":77},
{"_key":"60c39c797723bebd8665f1a4","_id":"references/60c39c797723bebd8665f1a4","_rev":"_cfFlLVS---","tei":"\n\t\n\t\tFast gene set enrichment analysis\n\t\t\n\t\t\tGKorotkevich\n\t\t\n\t\t\n\t\t\tVSukhov\n\t\t\n\t\t\n\t\t\tASergushichev\n\t\t\n\t\t10.1101/060012\n\t\n\t\n\t\tCold Spring Harbor Laboratory\n\t\t\n\t\t\t060012\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39c797723bebd8665f19d"},"refKey":106},
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{"_key":"60c39c797723bebd8665f1a6","_id":"references/60c39c797723bebd8665f1a6","_rev":"_cfFlLVm---","tei":"\n\t\n\t\tFast, sensitive and accurate integration of single-cell data with Harmony\n\t\t\n\t\t\tIKorsunsky\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39c797723bebd8665f19d"},"refKey":37},
{"_key":"60c39c987723bebd8665f1dc","_id":"references/60c39c987723bebd8665f1dc","_rev":"_cfFlLVy---","tei":"\n\t\n\t\tBuilding CBR systems with jcolibri\n\t\t\n\t\t\tBelénDíaz-Agudo\n\t\t\n\t\t\n\t\t\tPedroAGonzález-Calero\n\t\t\n\t\t\n\t\t\tJuanARecio-García\n\t\t\n\t\t\n\t\t\tAntonioASánchez-Ruiz-Granados\n\t\t\n\t\t10.1016/j.scico.2007.02.004\n\t\n\t\n\t\tScience of Computer Programming\n\t\tScience of Computer Programming\n\t\t0167-6423\n\t\t\n\t\t\t69\n\t\t\t1-3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c39c987723bebd8665f1db"},"refKey":35},
{"_key":"60c39cbc7723bebd8665f228","_id":"references/60c39cbc7723bebd8665f228","_rev":"_cfFlLW----","tei":"\n\t\n\t\tMash: fast genome and metagenome distance estimation using MinHash\n\t\t\n\t\t\tBrianDOndov\n\t\t\n\t\t\n\t\t\tToddJTreangen\n\t\t\n\t\t\n\t\t\tPállMelsted\n\t\t\n\t\t\n\t\t\tAdamBMallonee\n\t\t\n\t\t\n\t\t\tNicholasHBergman\n\t\t\n\t\t\n\t\t\tSergeyKoren\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\t0000-0003-2983-8934\n\t\t\n\t\t10.1101/029827\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c39cbc7723bebd8665f227"},"refKey":40},
{"_key":"60c39cbc7723bebd8665f229","_id":"references/60c39cbc7723bebd8665f229","_rev":"_cfFlLWK---","tei":"\n\t\n\t\tBinDash, software for fast genome distance estimation on a typical personal laptop\n\t\t\n\t\t\tXiaofeiZhao\n\t\t\t0000-0002-1665-2498\n\t\t\n\t\t10.1093/bioinformatics/bty651\n\t\t30052763\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c39cbc7723bebd8665f227"},"refKey":84},
{"_key":"60c39cbc7723bebd8665f22a","_id":"references/60c39cbc7723bebd8665f22a","_rev":"_cfFlLWW---","tei":"\n\t\n\t\tMash Screen: High-throughput sequence containment estimation for genome discovery\n\t\t\n\t\t\tBrianDOndov\n\t\t\t0000-0002-0740-1793\n\t\t\n\t\t\n\t\t\tGabrielJStarrett\n\t\t\t0000-0001-5871-5306\n\t\t\n\t\t\n\t\t\tAnnaSappington\n\t\t\t0000-0003-1442-0420\n\t\t\n\t\t\n\t\t\tAleksandraKostic\n\t\t\t0000-0003-4928-4350\n\t\t\n\t\t\n\t\t\tSergeyKoren\n\t\t\t0000-0002-1472-8962\n\t\t\n\t\t\n\t\t\tChristopherBBuck\n\t\t\t0000-0003-3165-8094\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\t0000-0003-2983-8934\n\t\t\n\t\t10.1101/557314\n\t\t\n\t\n\t\n\t\tGenome. Biol\n\t\t\n\t\t\t20\n\t\t\t232\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c39cbc7723bebd8665f227"},"refKey":96},
{"_key":"60c39cbc7723bebd8665f22b","_id":"references/60c39cbc7723bebd8665f22b","_rev":"_cfFlLWi---","tei":"\n\t\n\t\tImproving on hash-based probabilistic sequence classification using multiple spaced seeds and multi-index Bloom filters\n\t\t\n\t\t\tJustinChu\n\t\t\t0000-0003-0549-4997\n\t\t\n\t\t\n\t\t\tHamidMohamadi\n\t\t\n\t\t\n\t\t\tEmreErhan\n\t\t\n\t\t\n\t\t\tJefferyTse\n\t\t\n\t\t\n\t\t\tReadmanChiu\n\t\t\n\t\t\n\t\t\tSarahYeo\n\t\t\n\t\t\n\t\t\tInancBirol\n\t\t\n\t\t10.1101/434795\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tpre-print: not peer reviewed\n\n","document":{"$oid":"60c39cbc7723bebd8665f227"},"refKey":101},
{"_key":"60c39cbc7723bebd8665f22c","_id":"references/60c39cbc7723bebd8665f22c","_rev":"_cfFlLWu---","tei":"\n\t\n\t\tKraken: ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDEWood\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome. Biol\n\t\t\n\t\t\t15\n\t\t\tR46\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39cbc7723bebd8665f227"},"refKey":97},
{"_key":"60c39cbc7723bebd8665f22d","_id":"references/60c39cbc7723bebd8665f22d","_rev":"_cfFlLW6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMRCrusoe\n\t\t\n\t\t\n\t\t\tHFAlameldin\n\t\t\n\t\t\n\t\t\tSAwad\n\t\t\n\t\t\n\t\t\tEBoucher\n\t\t\n\t\t\n\t\t\tACaldwell\n\t\t\n\t\t\n\t\t\tRCartwright\n\t\t\n\t\t\n\t\t\tACharbonneau\n\t\t\n\t\t\n\t\t\tBConstantinides\n\t\t\n\t\t\n\t\t\tGEdvenson\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t48\n\t\t\t10\n\t\t\t5233\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39cbc7723bebd8665f227"},"refKey":90},
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{"_key":"60c39cc37723bebd8665f264","_id":"references/60c39cc37723bebd8665f264","_rev":"_cfFlLXS---","tei":"\n\t\n\t\tAutomated docking using a Lamarckian genetic algorithm and an empirical binding free energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tRSHalliday\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWEHart\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39cc37723bebd8665f263"},"refKey":16},
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{"_key":"60c39cc37723bebd8665f266","_id":"references/60c39cc37723bebd8665f266","_rev":"_cfFlLXm---","tei":"\n\t\n\t\tGROMACS: a package for molecular simulation and trajectory analysis\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tDSpoel\n\t\t\n\t\t\n\t\t\tVan Der\n\t\t\n\t\n\t\n\t\tJ Mol Model\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c39cc37723bebd8665f263"},"refKey":18},
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{"_key":"60c39edc7723bebd8665f4a4","_id":"references/60c39edc7723bebd8665f4a4","_rev":"_cfFlLea---","tei":"\n\t\n\t\tBLAST-based structural annotation of protein residues using Protein Data Bank\n\t\t\n\t\t\tHarinderSingh\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1186/s13062-016-0106-9\n\t\t26810894\n\t\tPMC4727276\n\t\t\n\t\t\n\t\n\t\n\t\tBiology Direct\n\t\tBiol Direct\n\t\t1745-6150\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c39edc7723bebd8665f4a3"},"refKey":36},
{"_key":"60c39edc7723bebd8665f4a5","_id":"references/60c39edc7723bebd8665f4a5","_rev":"_cfFlLem---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBenjaminBuchfink\n\t\t\n\t\t\n\t\t\tChaoXie\n\t\t\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t10.1038/nmeth.3176\n\t\t25402007\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c39edc7723bebd8665f4a3"},"refKey":31},
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{"_key":"60c39edc7723bebd8665f4a9","_id":"references/60c39edc7723bebd8665f4a9","_rev":"_cfFlLfa---","tei":"\n\t\n\t\tMEGAN analysis of metagenomic data\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tAFAuch\n\t\t\n\t\t\n\t\t\tJQi\n\t\t\n\t\t\n\t\t\tSCSchuster\n\t\t\n\t\t10.1101/gr.5969107\n\t\t17255551\n\t\tPMC1800929\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t17\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c39edc7723bebd8665f4a3"},"refKey":32},
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{"_key":"60c3a18d7723bebd8665f7a0","_id":"references/60c3a18d7723bebd8665f7a0","_rev":"_cfFlLrG---","tei":"\n\t\n\t\tOverington, the ChEMBL bioactivity database: an update\n\t\t\n\t\t\tAPBento\n\t\t\n\t\t\n\t\t\tAGaulton\n\t\t\n\t\t\n\t\t\tAHersey\n\t\t\n\t\t\n\t\t\tLJBellis\n\t\t\n\t\t\n\t\t\tJChambers\n\t\t\n\t\t\n\t\t\tMDavies\n\t\t\n\t\t\n\t\t\tFAKrüger\n\t\t\n\t\t\n\t\t\tYLight\n\t\t\n\t\t\n\t\t\tLMak\n\t\t\n\t\t\n\t\t\tSMcglinchey\n\t\t\n\t\t\n\t\t\tJPNowotka\n\t\t\n\t\t\n\t\t\tMPapadatos\n\t\t\n\t\t\n\t\t\tGSantos\n\t\t\n\t\t\n\t\t\tR\n\t\t\n\t\t10.1093/nar/gkt1031.\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3a18d7723bebd8665f79c"},"refKey":10},
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{"_key":"60c3a2677723bebd8665f831","_id":"references/60c3a2677723bebd8665f831","_rev":"_cfFlLsm---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3a2677723bebd8665f82f"},"refKey":17},
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{"_key":"60c3a46c7723bebd8665f9ba","_id":"references/60c3a46c7723bebd8665f9ba","_rev":"_cfFlLyy---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. USA\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3a46c7723bebd8665f9b8"},"refKey":49},
{"_key":"60c3a4867723bebd8665f9de","_id":"references/60c3a4867723bebd8665f9de","_rev":"_cfFlLz----","tei":"\n\t\n\t\tComputer-Assisted Synthetic Planning: The End of the Beginning\n\t\t\n\t\t\tSaraSzymkuć\n\t\t\n\t\t\n\t\t\tEwaPGajewska\n\t\t\n\t\t\n\t\t\tTomaszKlucznik\n\t\t\n\t\t\n\t\t\tKarolMolga\n\t\t\n\t\t\n\t\t\tPiotrDittwald\n\t\t\n\t\t\n\t\t\tMichałStartek\n\t\t\n\t\t\n\t\t\tMichałBajczyk\n\t\t\n\t\t\n\t\t\tBartoszAGrzybowski\n\t\t\n\t\t10.1002/anie.201506101\n\t\t27062365\n\t\n\t\n\t\tAngewandte Chemie International Edition\n\t\tAngew. Chem. Int. Ed.\n\t\t1433-7851\n\t\t\n\t\t\t55\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3a4867723bebd8665f9dd"},"refKey":7},
{"_key":"60c3a4867723bebd8665f9df","_id":"references/60c3a4867723bebd8665f9df","_rev":"_cfFlLzK---","tei":"\n\t\n\t\tEfficient Syntheses of Diverse, Medicinally Relevant Targets Planned by Computer and Executed in the Laboratory\n\t\t\n\t\t\tTomaszKlucznik\n\t\t\n\t\t\n\t\t\tBarbaraMikulak-Klucznik\n\t\t\n\t\t\n\t\t\tMichaelPMccormack\n\t\t\n\t\t\n\t\t\tHeatherLima\n\t\t\n\t\t\n\t\t\tSaraSzymkuć\n\t\t\n\t\t\n\t\t\tManishabrataBhowmick\n\t\t\n\t\t\n\t\t\tKarolMolga\n\t\t\n\t\t\n\t\t\tYubaiZhou\n\t\t\n\t\t\n\t\t\tLindseyRickershauser\n\t\t\n\t\t\n\t\t\tEwaPGajewska\n\t\t\n\t\t\n\t\t\tAlexeiToutchkine\n\t\t\n\t\t\n\t\t\tPiotrDittwald\n\t\t\n\t\t\n\t\t\tMichałPStartek\n\t\t\n\t\t\n\t\t\tGregoryJKirkovits\n\t\t\n\t\t\n\t\t\tRafałRoszak\n\t\t\n\t\t\n\t\t\tArielAdamski\n\t\t\n\t\t\n\t\t\tBiankaSieredzińska\n\t\t\n\t\t\n\t\t\tMilanMrksich\n\t\t\n\t\t\n\t\t\tSarahL JTrice\n\t\t\n\t\t\n\t\t\tBartoszAGrzybowski\n\t\t\n\t\t10.1016/j.chempr.2018.02.002\n\t\t\n\t\n\t\n\t\tChem\n\t\tChem\n\t\t2451-9294\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3a4867723bebd8665f9dd"},"refKey":8},
{"_key":"60c3a4867723bebd8665f9e0","_id":"references/60c3a4867723bebd8665f9e0","_rev":"_cfFlLzS---","tei":"\n\t\n\t\tParallel Optimization of Synthetic Pathways within the Network of Organic Chemistry\n\t\t\n\t\t\tMikołajKowalik\n\t\t\n\t\t\n\t\t\tChrisMGothard\n\t\t\n\t\t\n\t\t\tAaronMDrews\n\t\t\n\t\t\n\t\t\tNosheenAGothard\n\t\t\n\t\t\n\t\t\tAlexWeckiewicz\n\t\t\n\t\t\n\t\t\tPatrickEFuller\n\t\t\n\t\t\n\t\t\tBartoszAGrzybowski\n\t\t\n\t\t\n\t\t\tKyleJ MBishop\n\t\t\n\t\t10.1002/ange.201202209\n\t\tark:/67375/WNG-FRDRRZG6-D\n\t\t3370D84D4EB927EF1097B8B89E783EF5A2EE0199\n\t\n\t\n\t\tAngewandte Chemie\n\t\tAngew. Chem.\n\t\t0044-8249\n\t\t\n\t\t\t124\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3a4867723bebd8665f9dd"},"refKey":17},
{"_key":"60c3a4867723bebd8665f9e1","_id":"references/60c3a4867723bebd8665f9e1","_rev":"_cfFlLze---","tei":"\n\t\n\t\tReinforcing the supply chain of COVID-19 therapeutics with expert-coded retrosynthetic software\n\t\t\n\t\t\tYLin\n\t\t\n\t\t10.26434/chemrxiv.12765410.v1\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tPreprint at\n\n","document":{"$oid":"60c3a4867723bebd8665f9dd"},"refKey":18},
{"_key":"60c3a4867723bebd8665f9e2","_id":"references/60c3a4867723bebd8665f9e2","_rev":"_cfFlLzq---","tei":"\n\t\n\t\tPrediction of Major Regio-, Site-, and Diastereoisomers in Diels-Alder Reactions by Using Machine-Learning: The Importance of Physically Meaningful Descriptors\n\t\t\n\t\t\tWiktorBeker\n\t\t\n\t\t\n\t\t\tEwaPGajewska\n\t\t\n\t\t\n\t\t\tTomaszBadowski\n\t\t\n\t\t\n\t\t\tBartoszAGrzybowski\n\t\t\t0000-0001-6613-4261\n\t\t\n\t\t10.1002/anie.201806920\n\t\t30398688\n\t\n\t\n\t\tAngewandte Chemie International Edition\n\t\tAngew. Chem. Int. Ed.\n\t\t1433-7851\n\t\t\n\t\t\t58\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3a4867723bebd8665f9dd"},"refKey":19},
{"_key":"60c3a4867723bebd8665f9e3","_id":"references/60c3a4867723bebd8665f9e3","_rev":"_cfFlLz2---","tei":"\n\t\n\t\tSynergy between expert and machine-learning approaches allows for improved retrosynthetic planning\n\t\t\n\t\t\tTBadowski\n\t\t\n\t\t\n\t\t\tEPGajewska\n\t\t\n\t\t\n\t\t\tKMolga\n\t\t\n\t\t\n\t\t\tBAGrzybowski\n\t\t\n\t\n\t\n\t\tAngew. Chem. Int. Ed\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3a4867723bebd8665f9dd"},"refKey":20},
{"_key":"60c3a4867723bebd8665f9e4","_id":"references/60c3a4867723bebd8665f9e4","_rev":"_cfFlL0C---","tei":"\n\t\n\t\tSelection of cost-effective yet chemically diverse pathways from the networks of computer-generated retrosynthetic plans\n\t\t\n\t\t\tTomaszBadowski\n\t\t\n\t\t\n\t\t\tKarolMolga\n\t\t\t0000-0003-4808-7910\n\t\t\n\t\t\n\t\t\tBartoszAGrzybowski\n\t\t\t0000-0001-6613-4261\n\t\t\n\t\t10.1039/c8sc05611k\n\t\t\n\t\n\t\n\t\tChemical Science\n\t\tChem. Sci.\n\t\t2041-6520\n\t\t2041-6539\n\t\t\n\t\t\t10\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tRoyal Society of Chemistry (RSC)\n\t\t\n\t\n\n","document":{"$oid":"60c3a4867723bebd8665f9dd"},"refKey":21},
{"_key":"60c3a4867723bebd8665f9e5","_id":"references/60c3a4867723bebd8665f9e5","_rev":"_cfFlL0K---","tei":"\n\t\n\t\tComputational design of syntheses leading to compound libraries or isotopically labelled targets\n\t\t\n\t\t\tKarolMolga\n\t\t\t0000-0003-4808-7910\n\t\t\n\t\t\n\t\t\tPiotrDittwald\n\t\t\n\t\t\n\t\t\tBartoszAGrzybowski\n\t\t\t0000-0001-6613-4261\n\t\t\n\t\t10.1039/c9sc02678a\n\t\t\n\t\n\t\n\t\tChemical Science\n\t\tChem. Sci.\n\t\t2041-6520\n\t\t2041-6539\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tRoyal Society of Chemistry (RSC)\n\t\t\n\t\n\n","document":{"$oid":"60c3a4867723bebd8665f9dd"},"refKey":22},
{"_key":"60c3a4867723bebd8665f9e6","_id":"references/60c3a4867723bebd8665f9e6","_rev":"_cfFlL0W---","tei":"\n\t\n\t\tNavigating around Patented Routes by Preserving Specific Motifs along Computer-Planned Retrosynthetic Pathways\n\t\t\n\t\t\tKarolMolga\n\t\t\n\t\t\n\t\t\tPiotrDittwald\n\t\t\n\t\t\n\t\t\tBartoszAGrzybowski\n\t\t\t0000-0001-6613-4261\n\t\t\n\t\t10.1016/j.chempr.2018.12.004\n\t\t\n\t\n\t\n\t\tChem\n\t\tChem\n\t\t2451-9294\n\t\t\n\t\t\t5\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3a4867723bebd8665f9dd"},"refKey":23},
{"_key":"60c3a4867723bebd8665f9e7","_id":"references/60c3a4867723bebd8665f9e7","_rev":"_cfFlL0i---","tei":"\n\t\n\t\tAlgorithmic discovery of tactical combinations for advanced organic syntheses\n\t\t\n\t\t\tEPGajewska\n\t\t\n\t\t\n\t\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3a4867723bebd8665f9dd"},"refKey":24},
{"_key":"60c3a4977723bebd8665fa15","_id":"references/60c3a4977723bebd8665fa15","_rev":"_cfFlL0u---","tei":"\n\t\n\t\tSimultaneous activation of p38 and JNK by arachidonic acid stimulates the cytosolic phospholipase A2-dependent synthesis of lipid droplets in human monocytes\n\t\t\n\t\t\tCarlosGuijas\n\t\t\n\t\t\n\t\t\tGemaPérez-Chacón\n\t\t\n\t\t\n\t\t\tAlmaMAstudillo\n\t\t\n\t\t\n\t\t\tJulioMRubio\n\t\t\n\t\t\n\t\t\tLuisGil-De-Gómez\n\t\t\n\t\t\n\t\t\tMaríaABalboa\n\t\t\n\t\t\n\t\t\tJesúsBalsinde\n\t\t\n\t\t10.1194/jlr.m028423\n\t\t22949356\n\t\tPMC3466003\n\t\t\n\t\n\t\n\t\tJournal of Lipid Research\n\t\tJ. Lipid Res.\n\t\t0022-2275\n\t\t1539-7262\n\t\t\n\t\t\t53\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Biochemistry & Molecular Biology (ASBMB)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3a4977723bebd8665fa14"},"refKey":40},
{"_key":"60c3a4977723bebd8665fa16","_id":"references/60c3a4977723bebd8665fa16","_rev":"_cfFlL06---","tei":"\n\t\n\t\ta possible biomarker for early detection of cardiovascular disease\n\t\t\n\t\t\tCGuijas\n\t\t\n\t\t\n\t\t\tCMeana\n\t\t\n\t\t\n\t\t\tAMAstudillo\n\t\t\n\t\t\n\t\t\tMABalboa\n\t\t\n\t\t\n\t\t\tJBalsinde\n\t\t\n\t\t10.1016/j.chembiol.2016.04.012\n\t\n\t\n\t\tCell Chem. Biol\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tFoamy monocytes are enriched in cis-7-hexadecenoic fatty acid. PubMed\n\n","document":{"$oid":"60c3a4977723bebd8665fa14"},"refKey":41},
{"_key":"60c3a4977723bebd8665fa17","_id":"references/60c3a4977723bebd8665fa17","_rev":"_cfFlL1G---","tei":"\n\t\n\t\tSequestration of 9-Hydroxystearic Acid in FAHFA (Fatty Acid Esters of Hydroxy Fatty Acids) as a Protective Mechanism for Colon Carcinoma Cells to Avoid Apoptotic Cell Death\n\t\t\n\t\t\tJuanPRodríguez\n\t\t\n\t\t\n\t\t\tCarlosGuijas\n\t\t\n\t\t\n\t\t\tAlmaMAstudillo\n\t\t\n\t\t\n\t\t\tJulioMRubio\n\t\t\n\t\t\n\t\t\tMaríaABalboa\n\t\t\n\t\t\n\t\t\tJesúsBalsinde\n\t\t\t0000-0002-4157-6714\n\t\t\n\t\t10.3390/cancers11040524\n\t\t\n\t\n\t\n\t\tCancers\n\t\tCancers\n\t\t2072-6694\n\t\t\n\t\t\t11\n\t\t\t4\n\t\t\t524\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3a4977723bebd8665fa14"},"refKey":42},
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{"_key":"60c3a4ea7723bebd8665fab0","_id":"references/60c3a4ea7723bebd8665fab0","_rev":"_cfFlL3C---","tei":"\n\t\n\t\tX-Diff: an effective change detection algorithm for XML documents\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tDJDewitt\n\t\t\n\t\t\n\t\t\tJ-YCai\n\t\t\n\t\t10.1109/icde.2003.1260818\n\t\t\n\t\n\t\n\t\tProceedings 19th International Conference on Data Engineering (Cat. No.03CH37405)\n\t\t\t\t19th International Conference on Data Engineering (Cat. No.03CH37405)\n\t\t\n\t\t\tIEEE\n\t\t\t2003\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3a4ea7723bebd8665faaf"},"refKey":10},
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{"_key":"60c3a7807723bebd8665fd05","_id":"references/60c3a7807723bebd8665fd05","_rev":"_cfFlM_W---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3a7807723bebd8665fd04"},"refKey":32},
{"_key":"60c3a7907723bebd8665fd11","_id":"references/60c3a7907723bebd8665fd11","_rev":"_cfFlM_i---","tei":"\n\t\n\t\tTX: StataCorp\n\t\t\n\t\n\t\n\t\tStata Statistical Software: Version 15. Stata. College Station\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\taccessed 2020-11-30\n\n","document":{"$oid":"60c3a7907723bebd8665fd10"},"refKey":27},
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{"_key":"60c3a9707723bebd86660002","_id":"references/60c3a9707723bebd86660002","_rev":"_cfFlMBW---","tei":"\n\t\n\t\tNew Routes to Phylogeography: A Bayesian Structured Coalescent Approximation\n\t\t\n\t\t\tNicolaDe Maio\n\t\t\n\t\t\n\t\t\tChieh-HsiWu\n\t\t\n\t\t\n\t\t\tKathleenMO’reilly\n\t\t\n\t\t\n\t\t\tDanielWilson\n\t\t\n\t\t10.1371/journal.pgen.1005421\n\t\t26267488\n\t\tPMC4534465\n\t\t\n\t\t\n\t\n\t\n\t\tPLOS Genetics\n\t\tPLoS Genet\n\t\t1553-7404\n\t\t\n\t\t\t11\n\t\t\t8\n\t\t\te1005421\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c3a9707723bebd8665ffff"},"refKey":18},
{"_key":"60c3a9707723bebd86660003","_id":"references/60c3a9707723bebd86660003","_rev":"_cfFlMBi---","tei":"\n\t\n\t\tComplex Population Dynamics and the Coalescent Under Neutrality\n\t\t\n\t\t\tErikMVolz\n\t\t\n\t\t10.1534/genetics.111.134627\n\t\t22042576\n\t\tPMC3249372\n\t\t\n\t\t\n\t\n\t\n\t\tGenetics\n\t\tGenetics\n\t\t0016-6731\n\t\t1943-2631\n\t\t\n\t\t\t190\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tGenetics Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c3a9707723bebd8665ffff"},"refKey":67},
{"_key":"60c3a98c7723bebd86660024","_id":"references/60c3a98c7723bebd86660024","_rev":"_cfFlMBu---","tei":"\n\t\n\t\tInto the Eye of the Cytokine Storm\n\t\t\n\t\t\tJRTisoncik\n\t\t\n\t\t\n\t\t\tMJKorth\n\t\t\n\t\t\n\t\t\tCPSimmons\n\t\t\n\t\t\n\t\t\tJFarrar\n\t\t\n\t\t\n\t\t\tTRMartin\n\t\t\n\t\t\n\t\t\tMGKatze\n\t\t\n\t\t10.1128/mmbr.05015-11\n\t\t22390970\n\t\tPMC3294426\n\t\t\n\t\n\t\n\t\tMicrobiology and Molecular Biology Reviews\n\t\tMicrobiology and Molecular Biology Reviews\n\t\t1092-2172\n\t\t\n\t\t\t76\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c3a98c7723bebd86660023"},"refKey":12},
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{"_key":"60c3a9ee7723bebd86660068","_id":"references/60c3a9ee7723bebd86660068","_rev":"_cfFlMCe---","tei":"\n\t\n\t\tBlast2GO goes Grid: Developing a Grid-Enabled Prototype for Functional Genomics Analysis\n\t\t\n\t\t\tGAparicio\n\t\t\n\t\t\n\t\t\tSGotz\n\t\t\n\t\t\n\t\t\tAConesa\n\t\t\n\t\t\n\t\t\tDSegrelles\n\t\t\n\t\t\n\t\t\tIBlanquer\n\t\t\n\t\t\n\t\t\tJMGarcia\n\t\t\n\t\t\n\t\t\tVHernandez\n\t\t\n\t\t\n\t\t\tMRobles\n\t\t\n\t\t\n\t\t\tMTalon\n\t\t\n\t\n\t\n\t\tSt Heal T\n\t\t\n\t\t\t120\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3a9ee7723bebd86660064"},"refKey":24},
{"_key":"60c3a9ee7723bebd86660069","_id":"references/60c3a9ee7723bebd86660069","_rev":"_cfFlMCq---","tei":"\n\t\n\t\tImproved pairwise alignment of genomic DNA\n\t\t\n\t\t\tRSHarris\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tThe Pennsylvania State University\n\t\t\n\t\n\tPh. D. Thesis.\n\n","document":{"$oid":"60c3a9ee7723bebd86660064"},"refKey":28},
{"_key":"60c3a9ee7723bebd8666006a","_id":"references/60c3a9ee7723bebd8666006a","_rev":"_cfFlMC2---","tei":"\n\t\n\t\tBiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks\n\t\t\n\t\t\tSMaere\n\t\t\n\t\t\n\t\t\tKHeymans\n\t\t\n\t\t\n\t\t\tMKuiper\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3a9ee7723bebd86660064"},"refKey":25},
{"_key":"60c3aa077723bebd8666008c","_id":"references/60c3aa077723bebd8666008c","_rev":"_cfFlMDC---","tei":"\n\t\n\t\tLow-cost, high-throughput, automated counting of bacterial colonies\n\t\t\n\t\t\tMLClarke\n\t\t\n\t\t\n\t\t\tRLBurton\n\t\t\n\t\t\n\t\t\tANHill\n\t\t\n\t\t\n\t\t\tMLitorja\n\t\t\n\t\t\n\t\t\tMHNahm\n\t\t\n\t\t\n\t\t\tJHwang\n\t\t\n\t\n\t\n\t\tCytometry A\n\t\t\n\t\t\t77\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3aa077723bebd8666008b"},"refKey":73},
{"_key":"60c3aa2a7723bebd8666009f","_id":"references/60c3aa2a7723bebd8666009f","_rev":"_cfFlMDO---","tei":"\n\t\n\t\tMethodological challenges when performing a systematic review\n\t\t\n\t\t\tNKAnderson\n\t\t\n\t\t\n\t\t\tYS NJayaratne\n\t\t\n\t\t10.1093/ejo/cjv022\n\t\t25846029\n\t\t\n\t\n\t\n\t\tThe European Journal of Orthodontics\n\t\tThe European Journal of Orthodontics\n\t\t0141-5387\n\t\t1460-2210\n\t\t\n\t\t\t37\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed: 25846029\n\n","document":{"$oid":"60c3aa2a7723bebd8666009e"},"refKey":6},
{"_key":"60c3aa2a7723bebd866600a0","_id":"references/60c3aa2a7723bebd866600a0","_rev":"_cfFlMDa---","tei":"\n\t\n\t\tHow to perform a systematic search\n\t\t\n\t\t\tElseMBartels\n\t\t\n\t\t10.1016/j.berh.2013.02.001\n\t\t23731937\n\t\n\t\n\t\tBest Practice & Research Clinical Rheumatology\n\t\tBest Practice & Research Clinical Rheumatology\n\t\t1521-6942\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed: 23731937\n\n","document":{"$oid":"60c3aa2a7723bebd8666009e"},"refKey":8},
{"_key":"60c3aa2a7723bebd866600a1","_id":"references/60c3aa2a7723bebd866600a1","_rev":"_cfFlMDm---","tei":"\n\t\n\t\tHuman and machine effort in Project Transform: How intersecting technologies will help us to identify studies reliably, efficiently and at scale\n\t\t\n\t\t\tJThomas\n\t\t\n\t\t\n\t\t\tANoel-Storr\n\t\t\n\t\t\n\t\t\tJElliott\n\t\t\n\t\n\t\n\t\tCochrane Methods Supplement\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3aa2a7723bebd8666009e"},"refKey":4},
{"_key":"60c3aa2a7723bebd866600a2","_id":"references/60c3aa2a7723bebd866600a2","_rev":"_cfFlMDy---","tei":"\n\t\n\t\tProducing Cochrane systematic reviews—a qualitative study of current approaches and opportunities for innovation and improvement\n\t\t\n\t\t\tTariTurner\n\t\t\t0000-0002-7990-1623\n\t\t\n\t\t\n\t\t\tSallyGreen\n\t\t\n\t\t\n\t\t\tDavidTovey\n\t\t\n\t\t\n\t\t\tSteveMcdonald\n\t\t\n\t\t\n\t\t\tKarlaSoares-Weiser\n\t\t\n\t\t\n\t\t\tCharlottePestridge\n\t\t\n\t\t\n\t\t\tJulianElliott\n\t\t\n\t\t10.1186/s13643-017-0542-3\n\t\t28760162\n\t\tPMC5537977\n\t\n\t\n\t\tSystematic Reviews\n\t\tSyst Rev\n\t\t2046-4053\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed: 28760162\n\n","document":{"$oid":"60c3aa2a7723bebd8666009e"},"refKey":3},
{"_key":"60c3aa2a7723bebd866600a3","_id":"references/60c3aa2a7723bebd866600a3","_rev":"_cfFlME----","tei":"\n\t\n\t\tIs there an optimum number needed to retrieve to justify inclusion of a database in a systematic review search?\n\t\t\n\t\t\tAmandaRoss-White\n\t\t\n\t\t\n\t\t\tChristinaGodfrey\n\t\t\n\t\t10.1111/hir.12185\n\t\t28656714\n\t\n\t\n\t\tHealth Information & Libraries Journal\n\t\tHealth Info Libr J\n\t\t1471-1834\n\t\t\n\t\t\t34\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3aa2a7723bebd8666009e"},"refKey":9},
{"_key":"60c3aa997723bebd866600eb","_id":"references/60c3aa997723bebd866600eb","_rev":"_cfFlMEK---","tei":"\n\t\n\t\tGAMESS As a Free Quantum-Mechanical Platform for Drug Research\n\t\t\n\t\t\tYuriAlexeev\n\t\t\n\t\t\n\t\t\tMichaelP. Mazanetz\n\t\t\n\t\t\n\t\t\tOsamuIchihara\n\t\t\n\t\t\n\t\t\tDmitriG. Fedorov\n\t\t\n\t\t10.2174/156802612804910269\n\t\t23110536\n\t\n\t\n\t\tCurrent Topics in Medicinal Chemistry\n\t\tCurrent Topics in Medicinal Chemistry\n\t\t1568-0266\n\t\t\n\t\t\t12\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tBentham Science Publishers Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c3aa997723bebd866600ea"},"refKey":14},
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{"_key":"60c3ab027723bebd8666012c","_id":"references/60c3ab027723bebd8666012c","_rev":"_cfFlMFO---","tei":"\n\t\n\t\tA Linear-Time Algorithm for Gaussian and Non-Gaussian Trait Evolution Models\n\t\t\n\t\t\tTungHo L Si\n\t\t\n\t\t\n\t\t\t´cAne\n\t\t\n\t\t10.1093/sysbio/syu005\n\t\t24500037\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t63\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ab027723bebd8666012a"},"refKey":56},
{"_key":"60c3ab027723bebd8666012d","_id":"references/60c3ab027723bebd8666012d","_rev":"_cfFlMFa---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t10.1093/molbev/msm092\n\t\t17488738\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3ab027723bebd8666012a"},"refKey":45},
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{"_key":"60c3ab027723bebd8666012f","_id":"references/60c3ab027723bebd8666012f","_rev":"_cfFlMFy---","tei":"\n\t\n\t\tPartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses\n\t\t\n\t\t\tRLanfear\n\t\t\n\t\t\n\t\t\tBCalcott\n\t\t\n\t\t\n\t\t\tSywY WHo\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t10.1093/molbev/mss020\n\t\t22319168\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t29\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3ab027723bebd8666012a"},"refKey":46},
{"_key":"60c3ab027723bebd86660130","_id":"references/60c3ab027723bebd86660130","_rev":"_cfFlMG----","tei":"\n\t\n\t\tphytools: an R package for phylogenetic comparative biology (and other things)\n\t\t\n\t\t\tLJRevell\n\t\t\n\t\n\t\n\t\tMethods in Ecology and Evolution\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ab027723bebd8666012a"},"refKey":55},
{"_key":"60c3ab027723bebd86660131","_id":"references/60c3ab027723bebd86660131","_rev":"_cfFlMGK---","tei":"\n\t\n\t\t\n\t\t\tKBarton\n\t\t\n\t\t\n\t\t\tMumin\n\t\t\n\t\t\n\t\tmulti-model inference\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ab027723bebd8666012a"},"refKey":61},
{"_key":"60c3ab167723bebd86660142","_id":"references/60c3ab167723bebd86660142","_rev":"_cfFlMGW---","tei":"\n\t\n\t\tSprachverwendung, Sprachsystem\n\t\t\n\t\t\tORonneberger\n\t\t\n\t\t10.1515/9783111346076\n\t\t\n\t\t\t\n\t\t\tDE GRUYTER\n\t\t\n\t\n\n","document":{"$oid":"60c3ab167723bebd86660141"},"refKey":159},
{"_key":"60c3ab4f7723bebd86660165","_id":"references/60c3ab4f7723bebd86660165","_rev":"_cfFlMGi---","tei":"\n\t\n\t\tOpenFOAM: Open source CFD in research and industry\n\t\t\n\t\t\tHrvojeJasak\n\t\t\n\t\t10.2478/ijnaoe-2013-0011\n\t\tark:/67375/QT4-LTHD81MN-5\n\t\tE6F7ED22C61FB71703D4FFE5120B2C6F63A217DC\n\t\n\t\n\t\tInternational Journal of Naval Architecture and Ocean Engineering\n\t\tInternational Journal of Naval Architecture and Ocean Engineering\n\t\t2092-6782\n\t\t\n\t\t\t1\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3ab4f7723bebd86660164"},"refKey":31},
{"_key":"60c3ab6b7723bebd86660176","_id":"references/60c3ab6b7723bebd86660176","_rev":"_cfFlMGq---","tei":"\n\t\n\t\tInference of Macromolecular Assemblies from Crystalline State\n\t\t\n\t\t\tEvgenyKrissinel\n\t\t\n\t\t\n\t\t\tKimHenrick\n\t\t\n\t\t10.1016/j.jmb.2007.05.022\n\t\t17681537\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t372\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3ab6b7723bebd86660175"},"refKey":27},
{"_key":"60c3aba37723bebd86660199","_id":"references/60c3aba37723bebd86660199","_rev":"_cfFlMG2---","tei":"\n\t\n\t\tExploring network structure, dynamics, and function using NetworkX\n\t\t\n\t\t\tAAHagberg\n\t\t\n\t\t\n\t\t\tDASchult\n\t\t\n\t\t\n\t\t\tPJSwart\n\t\t\n\t\n\t\n\t\tProceedings of the 7th Python in Science Conference\n\t\t\t\t\n\t\t\tGVaroquaux\n\t\t\tTVaught\n\t\t\tJMillman\n\t\t\n\t\tthe 7th Python in Science ConferencePasadena\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3aba37723bebd86660198"},"refKey":7},
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{"_key":"60c3abd67723bebd866601c6","_id":"references/60c3abd67723bebd866601c6","_rev":"_cfFlMH2---","tei":"\n\t\n\t\tAn Unusual Binding Model of the Methyl 9-Anilinothiazolo[5,4-f] quinazoline-2-carbimidates (EHT 1610 and EHT 5372) Confers High Selectivity for Dual-Specificity Tyrosine Phosphorylation-Regulated Kinases\n\t\t\n\t\t\tApiratChaikuad\n\t\t\n\t\t\n\t\t\tJulienDiharce\n\t\t\n\t\t\n\t\t\tMartinSchröder\n\t\t\n\t\t\n\t\t\tAliciaFoucourt\n\t\t\n\t\t\n\t\t\tBertrandLeblond\n\t\t\n\t\t\n\t\t\tAnne-SophieCasagrande\n\t\t\n\t\t\n\t\t\tLaurentDésiré\n\t\t\n\t\t\n\t\t\tPascalBonnet\n\t\t\n\t\t\n\t\t\tStefanKnapp\n\t\t\n\t\t\n\t\t\tThierryBesson\n\t\t\n\t\t10.1021/acs.jmedchem.6b01083\n\t\t27766861\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t59\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3abd67723bebd866601c5"},"refKey":96},
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{"_key":"60c3abe87723bebd866601e0","_id":"references/60c3abe87723bebd866601e0","_rev":"_cfFlMIO---","tei":"\n\t\n\t\tAutomatic Parallelization in a Binary Rewriter\n\t\t\n\t\t\tAparnaKotha\n\t\t\n\t\t\n\t\t\tKapilAnand\n\t\t\n\t\t\n\t\t\tMatthewSmithson\n\t\t\n\t\t\n\t\t\tGreeshmaYellareddy\n\t\t\n\t\t\n\t\t\tRajeevBarua\n\t\t\n\t\t10.1109/micro.2010.27\n\t\n\t\n\t\t2010 43rd Annual IEEE/ACM International Symposium on Microarchitecture\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3abe87723bebd866601df"},"refKey":10},
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{"_key":"60c3ac647723bebd86660252","_id":"references/60c3ac647723bebd86660252","_rev":"_cfFlMJS---","tei":"\n\t\n\t\tThe Role of Local Backrub Motions in Evolved and Designed Mutations\n\t\t\n\t\t\tDanielAKeedy\n\t\t\n\t\t\n\t\t\tIvelinGeorgiev\n\t\t\n\t\t\n\t\t\tEdwardBTriplett\n\t\t\n\t\t\n\t\t\tBruceRDonald\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t10.1371/journal.pcbi.1002629\n\t\t22876172\n\t\tPMC3410847\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t8\n\t\t\t8\n\t\t\te1002629\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c3ac647723bebd86660251"},"refKey":27},
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{"_key":"60c3acf87723bebd866602cf","_id":"references/60c3acf87723bebd866602cf","_rev":"_cfFlMKu---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3acf87723bebd866602ce"},"refKey":23},
{"_key":"60c3acf87723bebd866602d0","_id":"references/60c3acf87723bebd866602d0","_rev":"_cfFlMK6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tBiovia Ds\n\t\t\n\t\t\n\t\t\tRDsme\n\t\t\n\t\t\n\t\t\t\n\t\t\tDassault Systèmes. Release\n\t\t\tSan Diego\n\t\t\n\t\n\n","document":{"$oid":"60c3acf87723bebd866602ce"},"refKey":27},
{"_key":"60c3acf87723bebd866602d1","_id":"references/60c3acf87723bebd866602d1","_rev":"_cfFlMLG---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3acf87723bebd866602ce"},"refKey":24},
{"_key":"60c3ad047723bebd866602e5","_id":"references/60c3ad047723bebd866602e5","_rev":"_cfFlMLS---","tei":"\n\t\n\t\tSTAR: Ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ad047723bebd866602e4"},"refKey":66},
{"_key":"60c3ad047723bebd866602e6","_id":"references/60c3ad047723bebd866602e6","_rev":"_cfFlMLe---","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBLi\n\t\t\n\t\t\n\t\t\tCNDewey\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t12\n\t\t\t323\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ad047723bebd866602e4"},"refKey":67},
{"_key":"60c3ad047723bebd866602e7","_id":"references/60c3ad047723bebd866602e7","_rev":"_cfFlMLq---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ad047723bebd866602e4"},"refKey":70},
{"_key":"60c3ad147723bebd866602fc","_id":"references/60c3ad147723bebd866602fc","_rev":"_cfFlML2---","tei":"\n\t\n\t\tProtein intrinsic disorder toolbox for comparative analysis of viral proteins\n\t\t\n\t\t\tGerardGoh\n\t\t\n\t\t\n\t\t\tAKeithDunker\n\t\t\n\t\t\n\t\t\tVladimirNUversky\n\t\t\n\t\t10.1186/1471-2164-9-s2-s4\n\t\t18831795\n\t\tPMC2559894\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t9\n\t\t\tSuppl 2\n\t\t\tS4\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSuppl. 2\n\n","document":{"$oid":"60c3ad147723bebd866602fb"},"refKey":28},
{"_key":"60c3ad4e7723bebd8666032d","_id":"references/60c3ad4e7723bebd8666032d","_rev":"_cfFlMM----","tei":"\n\t\n\t\tVisualizing density maps with UCSF Chimera\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2006.06.010\n\t\t16963278\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3ad4e7723bebd8666032c"},"refKey":71},
{"_key":"60c3ad4e7723bebd8666032e","_id":"references/60c3ad4e7723bebd8666032e","_rev":"_cfFlMMK---","tei":"\n\t\n\t\tMotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tKlimentAVerba\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1038/nmeth.4193\n\t\t28250466\n\t\tPMC5494038\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3ad4e7723bebd8666032c"},"refKey":62},
{"_key":"60c3ad4e7723bebd8666032f","_id":"references/60c3ad4e7723bebd8666032f","_rev":"_cfFlMMW---","tei":"\n\t\n\t\tDoG Picker and TiltPicker: Software tools to facilitate particle selection in single particle electron microscopy\n\t\t\n\t\t\tNRVoss\n\t\t\n\t\t\n\t\t\tCKYoshioka\n\t\t\n\t\t\n\t\t\tMRadermacher\n\t\t\n\t\t\n\t\t\tCSPotter\n\t\t\n\t\t\n\t\t\tBCarragher\n\t\t\n\t\t10.1016/j.jsb.2009.01.004\n\t\t19374019\n\t\tPMC2768396\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t166\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3ad4e7723bebd8666032c"},"refKey":65},
{"_key":"60c3ad4e7723bebd86660330","_id":"references/60c3ad4e7723bebd86660330","_rev":"_cfFlMMi---","tei":"\n\t\n\t\tAtomic-accuracy models from 4.5-Å cryo-electron microscopy data with density-guided iterative local refinement\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tYifanSong\n\t\t\n\t\t\n\t\t\tXuemingLi\n\t\t\n\t\t\n\t\t\tMatthiasJBrunner\n\t\t\n\t\t\n\t\t\tChunfuXu\n\t\t\n\t\t\n\t\t\tVincentConticello\n\t\t\n\t\t\n\t\t\tEdwardEgelman\n\t\t\n\t\t\n\t\t\tThomasCMarlovits\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t10.1038/nmeth.3286\n\t\t25707030\n\t\tPMC4382417\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3ad4e7723bebd8666032c"},"refKey":32},
{"_key":"60c3ad4e7723bebd86660331","_id":"references/60c3ad4e7723bebd86660331","_rev":"_cfFlMMu---","tei":"\n\t\n\t\tModeling Symmetric Macromolecular Structures in Rosetta3\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tAndrewLeaver-Fay\n\t\t\n\t\t\n\t\t\tPhilBradley\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t\n\t\t\tIngemarAndré\n\t\t\n\t\t10.1371/journal.pone.0020450\n\t\t21731614\n\t\tPMC3120754\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t6\n\t\t\te20450\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c3ad4e7723bebd8666032c"},"refKey":73},
{"_key":"60c3ad4e7723bebd86660332","_id":"references/60c3ad4e7723bebd86660332","_rev":"_cfFlMM6---","tei":"\n\t\n\t\tCTFFIND4: Fast and accurate defocus estimation from electron micrographs\n\t\t\n\t\t\tAlexisRohou\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\n\t\t10.1016/j.jsb.2015.08.008\n\t\t26278980\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t192\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3ad4e7723bebd8666032c"},"refKey":64},
{"_key":"60c3ada67723bebd86660374","_id":"references/60c3ada67723bebd86660374","_rev":"_cfFlMNG---","tei":"\n\t\n\t\tWebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tEJJaehnig\n\t\t\n\t\t\n\t\t\tZShi\n\t\t\n\t\t\n\t\t\tBZhang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ada67723bebd86660373"},"refKey":43},
{"_key":"60c3ada67723bebd86660375","_id":"references/60c3ada67723bebd86660375","_rev":"_cfFlMNO---","tei":"\n\t\n\t\tWebGestalt: an integrated system for exploring gene sets in various biological contexts\n\t\t\n\t\t\tBZhang\n\t\t\n\t\t\n\t\t\tSKirov\n\t\t\n\t\t\n\t\t\tJSnoddy\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ada67723bebd86660373"},"refKey":79},
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{"_key":"60c3add97723bebd866603a9","_id":"references/60c3add97723bebd866603a9","_rev":"_cfFlMNm---","tei":"\n\t\n\t\t\n\t\tStata/IC 16.1. Available online\n\t\t\t\t\n\t\t\t\n\t\t\t19\n\t\t\n\t\n\n","document":{"$oid":"60c3add97723bebd866603a8"},"refKey":64},
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{"_key":"60c3ae047723bebd866603d2","_id":"references/60c3ae047723bebd866603d2","_rev":"_cfFlMOK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ae047723bebd866603d1"},"refKey":7},
{"_key":"60c3ae427723bebd86660413","_id":"references/60c3ae427723bebd86660413","_rev":"_cfFlMOW---","tei":"\n\t\n\t\tHyPhy: hypothesis testing using phylogenies\n\t\t\n\t\t\tSL KPond\n\t\t\n\t\t\n\t\t\tSD WFrost\n\t\t\n\t\t\n\t\t\tSVMuse\n\t\t\n\t\t10.1093/bioinformatics/bti079\n\t\t15509596\n\t\tark:/67375/HXZ-C84RLBX0-3\n\t\tCAA507B78C3CFB05E18304A1D9A750A556A9966E\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3ae427723bebd86660412"},"refKey":36},
{"_key":"60c3ae427723bebd86660414","_id":"references/60c3ae427723bebd86660414","_rev":"_cfFlMOi---","tei":"\n\t\n\t\tUsing Time-Structured Data to Estimate Evolutionary Rates of Double-Stranded DNA Viruses\n\t\t\n\t\t\tCFirth\n\t\t\n\t\t\n\t\t\tAKitchen\n\t\t\n\t\t\n\t\t\tBShapiro\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tECHolmes\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t10.1093/molbev/msq088\n\t\t20363828\n\t\tPMC3107591\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t27\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3ae427723bebd86660412"},"refKey":38},
{"_key":"60c3ae547723bebd86660433","_id":"references/60c3ae547723bebd86660433","_rev":"_cfFlMOq---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tSPaul\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ae547723bebd86660432"},"refKey":12},
{"_key":"60c3ae547723bebd86660434","_id":"references/60c3ae547723bebd86660434","_rev":"_cfFlMO2---","tei":"\n\t\n\t\tMetascape provides a biologist-oriented resource for the analysis of systems-level datasets\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tLPache\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ae547723bebd86660432"},"refKey":18},
{"_key":"60c3ae6d7723bebd86660445","_id":"references/60c3ae6d7723bebd86660445","_rev":"_cfFlMPC---","tei":"\n\t\n\t\tSmartPLS 3. Boenningstedt: SmartPLS GmbH\n\t\t\n\t\t\tCMRingle\n\t\t\n\t\t\n\t\t\tSWende\n\t\t\n\t\t\n\t\t\tJ.-MBecker\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t25\n\t\t\n\t\n\n","document":{"$oid":"60c3ae6d7723bebd86660444"},"refKey":34},
{"_key":"60c3ae737723bebd8666044e","_id":"references/60c3ae737723bebd8666044e","_rev":"_cfFlMPO---","tei":"\n\t\n\t\tChoice of assembly software has a critical impact on virome characterisation\n\t\t\n\t\t\tThomasD SSutton\n\t\t\t0000-0002-0218-4275\n\t\t\n\t\t\n\t\t\tAdamGClooney\n\t\t\n\t\t\n\t\t\tFeargalJRyan\n\t\t\n\t\t\n\t\t\tRPaulRoss\n\t\t\n\t\t\n\t\t\tColinHill\n\t\t\n\t\t10.1186/s40168-019-0626-5\n\t\t30691529\n\t\tPMC6350398\n\t\t\n\t\t\n\t\n\t\n\t\tMicrobiome\n\t\tMicrobiome\n\t\t2049-2618\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t12\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3ae737723bebd8666044d"},"refKey":46},
{"_key":"60c3ae907723bebd8666047b","_id":"references/60c3ae907723bebd8666047b","_rev":"_cfFlMPa---","tei":"\n\t\n\t\tSecondgeneration PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tCCChang\n\t\t\n\t\t\n\t\t\tCCChow\n\t\t\n\t\t\n\t\t\tLCTellier\n\t\t\n\t\t\n\t\t\tSVattikuti\n\t\t\n\t\t\n\t\t\tPurcellSm\n\t\t\n\t\t\n\t\t\tJJLee\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\t\n\t\t\t4\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ae907723bebd8666047a"},"refKey":41},
{"_key":"60c3aed07723bebd8666049d","_id":"references/60c3aed07723bebd8666049d","_rev":"_cfFlMPm---","tei":"\n\t\n\t\tMLL 5 protein forms intranuclear foci, and overexpression inhibits cell cycle progression\n\t\t\n\t\t\tL-WDeng\n\t\t\n\t\t\n\t\t\tIChiu\n\t\t\n\t\t\n\t\t\tJLStrominger\n\t\t\n\t\t10.1073/pnas.2036345100\n\t\t14718661\n\t\tPMC321754\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t101\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c3aed07723bebd8666049c"},"refKey":4},
{"_key":"60c3af217723bebd8666051a","_id":"references/60c3af217723bebd8666051a","_rev":"_cfFlMPy---","tei":"\n\t\n\t\tAlgPred: prediction of allergenic proteins and mapping of IgE epitopes\n\t\t\n\t\t\tSSaha\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1093/nar/gkl343\n\t\t16844994\n\t\tPMC1538830\n\t\tark:/67375/HXZ-B09HSZDV-3\n\t\tA653EA294A76D3575EDF098C54E1E99E1D2D860C\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":93},
{"_key":"60c3af217723bebd8666051b","_id":"references/60c3af217723bebd8666051b","_rev":"_cfFlMQ----","tei":"\n\t\n\t\tThe role of the proteasome in generating cytotoxic T-cell epitopes: insights obtained from improved predictions of proteasomal cleavage\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tCanKeşmir\n\t\t\n\t\t10.1007/s00251-005-0781-7\n\t\t15744535\n\t\tark:/67375/VQC-MCD00XGQ-K\n\t\t39F7B3B6047B81325A8236A88C470A724E104264\n\t\t\n\t\n\t\n\t\tImmunogenetics\n\t\tImmunogenetics\n\t\t0093-7711\n\t\t1432-1211\n\t\t\n\t\t\t57\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":49},
{"_key":"60c3af217723bebd8666051c","_id":"references/60c3af217723bebd8666051c","_rev":"_cfFlMQK---","tei":"\n\t\n\t\tNetMHCpan, a method for MHC class I binding prediction beyond humans\n\t\t\n\t\t\tIlkaHoof\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tJohnSidney\n\t\t\n\t\t\n\t\t\tLasseEggersPedersen\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1007/s00251-008-0341-z\n\t\t19002680\n\t\tPMC3319061\n\t\tark:/67375/VQC-PVH2890M-2\n\t\t1B725168A99E54792EBEAE8A216CE26199C6E4A0\n\t\t\n\t\t\n\t\n\t\n\t\tImmunogenetics\n\t\tImmunogenetics\n\t\t0093-7711\n\t\t1432-1211\n\t\t\n\t\t\t61\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":38},
{"_key":"60c3af217723bebd8666051d","_id":"references/60c3af217723bebd8666051d","_rev":"_cfFlMQW---","tei":"\n\t\n\t\t\n\t\t\tYFeng\n\t\t\n\t\t\n\t\t\tMQiu\n\t\t\n\t\t\n\t\t\tSZou\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tKLuo\n\t\t\n\t\t\n\t\t\tRChen\n\t\t\n\t\t\n\t\t\tYSun\n\t\t\n\t\t\n\t\t\tKWang\n\t\t\n\t\t\n\t\t\tXZhuang\n\t\t\n\t\t\n\t\t\tSZhang\n\t\t\n\t\t\n\t\t\tSChen\n\t\t\n\t\t\n\t\t\tFMo\n\t\t\n\t\t10.1101/2020.03.03.962332\n\t\t\n\t\n\t\n\t\tMulti-epitope vaccine design using an immunoinformatics approach for 2019 novel coronavirus in China (SARS-CoV-2)\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":154},
{"_key":"60c3af217723bebd8666051e","_id":"references/60c3af217723bebd8666051e","_rev":"_cfFlMQi---","tei":"\n\t\n\t\tLarge-scale validation of methods for cytotoxic T-lymphocyte epitope prediction\n\t\t\n\t\t\tMetteVLarsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tSorenBuus\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1186/1471-2105-8-424\n\t\t17973982\n\t\tPMC2194739\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t424\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":50},
{"_key":"60c3af217723bebd8666051f","_id":"references/60c3af217723bebd8666051f","_rev":"_cfFlMQu---","tei":"\n\t\n\t\tMass Spectrometry Profiling of HLA-Associated Peptidomes in Mono-allelic Cells Enables More Accurate Epitope Prediction\n\t\t\n\t\t\tJenniferGAbelin\n\t\t\n\t\t\n\t\t\tDerinBKeskin\n\t\t\n\t\t\n\t\t\tSiranushSarkizova\n\t\t\n\t\t\n\t\t\tChristinaRHartigan\n\t\t\n\t\t\n\t\t\tWandiZhang\n\t\t\n\t\t\n\t\t\tJohnSidney\n\t\t\n\t\t\n\t\t\tJonathanStevens\n\t\t\n\t\t\n\t\t\tWilliamLane\n\t\t\n\t\t\n\t\t\tGuangLanZhang\n\t\t\n\t\t\n\t\t\tThomasMEisenhaure\n\t\t\n\t\t\n\t\t\tKarlRClauser\n\t\t\n\t\t\n\t\t\tNirHacohen\n\t\t\n\t\t\n\t\t\tMichaelSRooney\n\t\t\n\t\t\n\t\t\tStevenACarr\n\t\t\n\t\t\n\t\t\tCatherineJWu\n\t\t\n\t\t10.1016/j.immuni.2017.02.007\n\t\t28228285\n\t\tPMC5405381\n\t\t\n\t\n\t\n\t\tImmunity\n\t\tImmunity\n\t\t1074-7613\n\t\t\n\t\t\t46\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":15},
{"_key":"60c3af217723bebd86660520","_id":"references/60c3af217723bebd86660520","_rev":"_cfFlMQ2---","tei":"\n\t\n\t\tAllerCatPro—prediction of protein allergenicity potential from the protein sequence\n\t\t\n\t\t\tSebastianMaurer-Stroh\n\t\t\n\t\t\n\t\t\tNoraLKrutz\n\t\t\n\t\t\n\t\t\tPetraSKern\n\t\t\n\t\t\n\t\t\tVithiagaranGunalan\n\t\t\n\t\t\n\t\t\tMinhNNguyen\n\t\t\n\t\t\n\t\t\tVachiraneeLimviphuvadh\n\t\t\n\t\t\n\t\t\tFrankEisenhaber\n\t\t\n\t\t\n\t\t\tGFrankGerberick\n\t\t\n\t\t10.1093/bioinformatics/btz029\n\t\t30657872\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":97},
{"_key":"60c3af217723bebd86660521","_id":"references/60c3af217723bebd86660521","_rev":"_cfFlMRC---","tei":"\n\t\n\t\tAllerTOP v.2—a server for in silico prediction of allergens\n\t\t\n\t\t\tIvanDimitrov\n\t\t\n\t\t\n\t\t\tIvanBangov\n\t\t\n\t\t\n\t\t\tDarrenRFlower\n\t\t\n\t\t\n\t\t\tIriniDoytchinova\n\t\t\n\t\t10.1007/s00894-014-2278-5\n\t\t24878803\n\t\t\n\t\n\t\n\t\tJournal of Molecular Modeling\n\t\tJ Mol Model\n\t\t1610-2940\n\t\t0948-5023\n\t\t\n\t\t\t20\n\t\t\t6\n\t\t\t2278\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":95},
{"_key":"60c3af217723bebd86660522","_id":"references/60c3af217723bebd86660522","_rev":"_cfFlMRO---","tei":"\n\t\n\t\tReliable prediction of T-cell epitopes using neural networks with novel sequence representations\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tPederWorning\n\t\t\n\t\t\n\t\t\tSanneLiseLauemøller\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t10.1110/ps.0239403\n\t\t12717023\n\t\tPMC2323871\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":37},
{"_key":"60c3af217723bebd86660523","_id":"references/60c3af217723bebd86660523","_rev":"_cfFlMRa---","tei":"\n\t\n\t\tAllerTOP - a server for in silico prediction of allergens\n\t\t\n\t\t\tIvanDimitrov\n\t\t\n\t\t\n\t\t\tDarrenRFlower\n\t\t\n\t\t\n\t\t\tIriniDoytchinova\n\t\t\n\t\t10.1186/1471-2105-14-s6-s4\n\t\t23735058\n\t\tPMC3633022\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t14\n\t\t\tSuppl 6\n\t\t\tS4\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":94},
{"_key":"60c3af217723bebd86660524","_id":"references/60c3af217723bebd86660524","_rev":"_cfFlMRm---","tei":"\n\t\n\t\tIn Silico Approach for Predicting Toxicity of Peptides and Proteins\n\t\t\n\t\t\tSudheerGupta\n\t\t\n\t\t\n\t\t\tPallaviKapoor\n\t\t\n\t\t\n\t\t\tKumardeepChaudhary\n\t\t\n\t\t\n\t\t\tAnkurGautam\n\t\t\n\t\t\n\t\t\tRahulKumar\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1371/journal.pone.0073957\n\t\t24058508\n\t\tPMC3772798\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t9\n\t\t\te73957\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":100},
{"_key":"60c3af217723bebd86660525","_id":"references/60c3af217723bebd86660525","_rev":"_cfFlMRy---","tei":"\n\t\n\t\tGenerating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\t10.1186/1471-2105-6-132\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":59},
{"_key":"60c3af217723bebd86660526","_id":"references/60c3af217723bebd86660526","_rev":"_cfFlMS----","tei":"\n\t\n\t\tExamining the independent binding assumption for binding of peptide epitopes to MHC-I molecules\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tWTong\n\t\t\n\t\t\n\t\t\tJSidney\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\t\n\t\t\tZWeng\n\t\t\n\t\t10.1093/bioinformatics/btg247\n\t\t14512347\n\t\tark:/67375/HXZ-5PMTQ8HJ-R\n\t\tF7ED8B3B2904C2E2A9BCB7B46F45F8689C12B23D\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":60},
{"_key":"60c3af217723bebd86660527","_id":"references/60c3af217723bebd86660527","_rev":"_cfFlMSK---","tei":"\n\t\n\t\tAllergenFP: allergenicity prediction by descriptor fingerprints\n\t\t\n\t\t\tIDimitrov\n\t\t\n\t\t\n\t\t\tLNaneva\n\t\t\n\t\t\n\t\t\tIDoytchinova\n\t\t\n\t\t\n\t\t\tIBangov\n\t\t\n\t\t10.1093/bioinformatics/btt619\n\t\t24167156\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":96},
{"_key":"60c3af217723bebd86660528","_id":"references/60c3af217723bebd86660528","_rev":"_cfFlMSS---","tei":"\n\t\n\t\tpVACtools: a computational toolkit to identify and visualize cancer neoantigens\n\t\t\n\t\t\tJasreetHundal\n\t\t\t0000-0002-2584-5320\n\t\t\n\t\t\n\t\t\tSusannaKiwala\n\t\t\n\t\t\n\t\t\tJoshuaMcmichael\n\t\t\n\t\t\n\t\t\tChristopherAMiller\n\t\t\n\t\t\n\t\t\tAlexanderTWollam\n\t\t\n\t\t\n\t\t\tHuimingXia\n\t\t\n\t\t\n\t\t\tConnorJLiu\n\t\t\n\t\t\n\t\t\tSidiZhao\n\t\t\n\t\t\n\t\t\tYang-YangFeng\n\t\t\n\t\t\n\t\t\tAaronPGraubert\n\t\t\n\t\t\n\t\t\tAmberZWollam\n\t\t\n\t\t\n\t\t\tJonasNeichin\n\t\t\n\t\t\n\t\t\tMeganNeveau\n\t\t\n\t\t\n\t\t\tJasonWalker\n\t\t\n\t\t\n\t\t\tWilliamEGillanders\n\t\t\n\t\t\n\t\t\tElaineRMardis\n\t\t\n\t\t\n\t\t\tObiLGriffith\n\t\t\t0000-0002-0843-4271\n\t\t\n\t\t\n\t\t\tMalachiGriffith\n\t\t\t0000-0002-6388-446X\n\t\t\n\t\t10.1101/501817\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":66},
{"_key":"60c3af217723bebd86660529","_id":"references/60c3af217723bebd86660529","_rev":"_cfFlMSe---","tei":"\n\t\n\t\tPrediction of CTL epitopes using QM, SVM and ANN techniques\n\t\t\n\t\t\tManojBhasin\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1016/j.vaccine.2004.02.005\n\t\t15297074\n\t\t\n\t\n\t\n\t\tVaccine\n\t\tVaccine\n\t\t0264-410X\n\t\t\n\t\t\t22\n\t\t\t23-24\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":52},
{"_key":"60c3af217723bebd8666052a","_id":"references/60c3af217723bebd8666052a","_rev":"_cfFlMSq---","tei":"\n\t\n\t\tTepiTool: A Pipeline for Computational Prediction of T Cell Epitope Candidates\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tJohnSidney\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t10.1002/cpim.12\n\t\t27479659\n\t\tPMC4981331\n\t\t8.19.1-18.19.24\n\t\t\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Immunology\n\t\tCurrent Protocols in Immunology\n\t\t1934-3671\n\t\t\n\t\t\t114\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":68},
{"_key":"60c3af217723bebd8666052b","_id":"references/60c3af217723bebd8666052b","_rev":"_cfFlMS2---","tei":"\n\t\n\t\tT-Scan: A Genome-wide Method for the Systematic Discovery of T Cell Epitopes\n\t\t\n\t\t\tTomaszKula\n\t\t\n\t\t\n\t\t\tMohammadHDezfulian\n\t\t\n\t\t\n\t\t\tCharlotteIWang\n\t\t\n\t\t\n\t\t\tNouranSAbdelfattah\n\t\t\n\t\t\n\t\t\tZacharyCHartman\n\t\t\n\t\t\n\t\t\tKaiWWucherpfennig\n\t\t\n\t\t\n\t\t\tHerbertKimLyerly\n\t\t\n\t\t\n\t\t\tStephenJElledge\n\t\t\n\t\t10.1016/j.cell.2019.07.009\n\t\t\n\t\n\t\n\t\tCell\n\t\tCell\n\t\t0092-8674\n\t\t\n\t\t\t178\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":185},
{"_key":"60c3af217723bebd8666052c","_id":"references/60c3af217723bebd8666052c","_rev":"_cfFlMTC---","tei":"\n\t\n\t\tNetCTLpan: pan-specific MHC class I pathway epitope predictions\n\t\t\n\t\t\tThomasStranzl\n\t\t\n\t\t\n\t\t\tMetteVoldbyLarsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1007/s00251-010-0441-4\n\t\t20379710\n\t\tPMC2875469\n\t\tark:/67375/VQC-7S78BZJ0-Q\n\t\t25EF7438184A7ADC07C6AF32638183C9D828A78C\n\t\t\n\t\t\n\t\n\t\n\t\tImmunogenetics\n\t\tImmunogenetics\n\t\t0093-7711\n\t\t1432-1211\n\t\t\n\t\t\t62\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":40},
{"_key":"60c3af217723bebd8666052d","_id":"references/60c3af217723bebd8666052d","_rev":"_cfFlMTO---","tei":"\n\t\n\t\tApplication of Machine Learning Techniques in Predicting MHC Binders\n\t\t\n\t\t\tSnehLata\n\t\t\n\t\t\n\t\t\tManojBhasin\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1007/978-1-60327-118-9_14\n\t\t18450002\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tDRFlower\n\t\t\n\t\tTotowa, NJ\n\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":69},
{"_key":"60c3af217723bebd8666052e","_id":"references/60c3af217723bebd8666052e","_rev":"_cfFlMTa---","tei":"\n\t\n\t\tCOVIDep: a web-based platform for realtime reporting of vaccine target recommendations for SARS-CoV-2\n\t\t\n\t\t\tSFAhmed\n\t\t\n\t\t\n\t\t\tAAQuadeer\n\t\t\n\t\t\n\t\t\tMRMckay\n\t\t\n\t\t10.1038/s41596-020-0358-9\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":36},
{"_key":"60c3af217723bebd8666052f","_id":"references/60c3af217723bebd8666052f","_rev":"_cfFlMTm---","tei":"\n\t\n\t\tGapped sequence alignment using artificial neural networks: application to the MHC class I system\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1093/bioinformatics/btv639\n\t\t26515819\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":41},
{"_key":"60c3af217723bebd86660530","_id":"references/60c3af217723bebd86660530","_rev":"_cfFlMTy---","tei":"\n\t\n\t\tPrediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t10.1186/1471-2105-8-238\n\t\t17608956\n\t\tPMC1939856\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t238\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":61},
{"_key":"60c3af217723bebd86660531","_id":"references/60c3af217723bebd86660531","_rev":"_cfFlMT6---","tei":"\n\t\n\t\tPrediction of MHC class I binding peptides, using SVMHC\n\t\t\n\t\t\tPDönnes\n\t\t\n\t\t\n\t\t\tAElofsson\n\t\t\n\t\t10.1186/1471-2105-3-25\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3af217723bebd86660519"},"refKey":53},
{"_key":"60c3af317723bebd86660563","_id":"references/60c3af317723bebd86660563","_rev":"_cfFlMUG---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3af317723bebd86660562"},"refKey":20},
{"_key":"60c3af317723bebd86660564","_id":"references/60c3af317723bebd86660564","_rev":"_cfFlMUS---","tei":"\n\t\n\t\tMolProbity: More and better reference data for improved all-atom structure validation\n\t\t\n\t\t\tCJWilliams\n\t\t\n\t\n\t\n\t\tProtein Science : A Publication of the Protein Society\n\t\t\n\t\t\t27\n\t\t\t293\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3af317723bebd86660562"},"refKey":21},
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{"_key":"60c3af947723bebd866605a8","_id":"references/60c3af947723bebd866605a8","_rev":"_cfFlMU2---","tei":"\n\t\n\t\tThe Nucleome Data Bank: web-based resources to simulate and analyze the three-dimensional genome\n\t\t\n\t\t\tVGContessoto\n\t\t\n\t\t\n\t\t\tRRCheng\n\t\t\n\t\t\n\t\t\tAHajitaheri\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t48\n\t\t\t818\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3af947723bebd866605a7"},"refKey":53},
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{"_key":"60c3af947723bebd866605ac","_id":"references/60c3af947723bebd866605ac","_rev":"_cfFlMVi---","tei":"\n\t\n\t\tmCSM–NA: predicting the effects of mutations on protein–nucleic acids interactions\n\t\t\n\t\t\tDouglasE VPires\n\t\t\n\t\t\n\t\t\tDavidBAscher\n\t\t\t0000-0003-2948-2413\n\t\t\n\t\t10.1093/nar/gkx236\n\t\t28383703\n\t\tPMC5570212\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3af947723bebd866605a7"},"refKey":27},
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{"_key":"60c3af947723bebd866605af","_id":"references/60c3af947723bebd866605af","_rev":"_cfFlMWG---","tei":"\n\t\n\t\tA feature-based approach to predict hot spots in protein–DNA binding interfaces\n\t\t\n\t\t\tSijiaZhang\n\t\t\n\t\t\n\t\t\tLeZhao\n\t\t\n\t\t\n\t\t\tChun-HouZheng\n\t\t\n\t\t\n\t\t\tJunfengXia\n\t\t\n\t\t10.1093/bib/bbz037\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\t1477-4054\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3af947723bebd866605a7"},"refKey":30},
{"_key":"60c3af9e7723bebd866605c7","_id":"references/60c3af9e7723bebd866605c7","_rev":"_cfFlMWS---","tei":"\n\t\n\t\tJalview Version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3af9e7723bebd866605c6"},"refKey":55},
{"_key":"60c3afbf7723bebd866605da","_id":"references/60c3afbf7723bebd866605da","_rev":"_cfFlMWe---","tei":"\n\t\n\t\tMODELTEST: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3afbf7723bebd866605d9"},"refKey":47},
{"_key":"60c3afbf7723bebd866605db","_id":"references/60c3afbf7723bebd866605db","_rev":"_cfFlMWq---","tei":"\n\t\n\t\tModelTest Server: a web-based tool for the statistical selection of models of nucleotide substitution online\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/nar/gkl042\n\t\t16845102\n\t\tPMC1538795\n\t\tark:/67375/HXZ-RPNL9CRL-K\n\t\t9C85C9DD55F17733181E2AE13A542F50C57426DD\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3afbf7723bebd866605d9"},"refKey":46},
{"_key":"60c3afbf7723bebd866605dc","_id":"references/60c3afbf7723bebd866605dc","_rev":"_cfFlMW2---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3afbf7723bebd866605d9"},"refKey":58},
{"_key":"60c3afbf7723bebd866605dd","_id":"references/60c3afbf7723bebd866605dd","_rev":"_cfFlMXC---","tei":"\n\t\n\t\tProtTest: selection of best-fit models of protein evolution\n\t\t\n\t\t\tFAbascal\n\t\t\n\t\t\n\t\t\tRZardoya\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bti263\n\t\t15647292\n\t\tark:/67375/HXZ-D6WW2837-4\n\t\t14C86F5F104B729355097F145DAB071E95F816FF\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3afbf7723bebd866605d9"},"refKey":0},
{"_key":"60c3afca7723bebd866605f3","_id":"references/60c3afca7723bebd866605f3","_rev":"_cfFlMXK---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tWarrenLDelano\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tDeLano Scientific LLC\n\t\t\tPalo Alto, California, USA\n\t\t\n\t\n\n","document":{"$oid":"60c3afca7723bebd866605f2"},"refKey":56},
{"_key":"60c3afd67723bebd866605ff","_id":"references/60c3afd67723bebd866605ff","_rev":"_cfFlMXW---","tei":"\n\t\n\t\tThe 29-Nucleotide Deletion Present in Human but Not in Animal Severe Acute Respiratory Syndrome Coronaviruses Disrupts the Functional Expression of Open Reading Frame 8\n\t\t\n\t\t\tMOostra\n\t\t\n\t\t\n\t\t\tCA MDe Haan\n\t\t\n\t\t\n\t\t\tPJ MRottier\n\t\t\n\t\t10.1128/jvi.01631-07\n\t\t17928347\n\t\tPMC2168875\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJournal of Virology\n\t\t0022-538X\n\t\t\n\t\t\t81\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c3afd67723bebd866605fe"},"refKey":5},
{"_key":"60c3afd67723bebd86660600","_id":"references/60c3afd67723bebd86660600","_rev":"_cfFlMXi---","tei":"\n\t\n\t\tSARS-CoV-2 ORF8 and SARS-CoV ORF8ab: genomic divergence and functional convergence\n\t\t\n\t\t\tSMohammad\n\t\t\n\t\t\n\t\t\tABouchama\n\t\t\n\t\t\n\t\t\tBMAlharb\n\t\t\n\t\t\n\t\t\tMRashid\n\t\t\n\t\t\n\t\t\tTSKhatlani\n\t\t\n\t\t\n\t\t\tNSGaber\n\t\t\n\t\t\n\t\t\tSSMalik\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3afd67723bebd866605fe"},"refKey":7},
{"_key":"60c3afd67723bebd86660601","_id":"references/60c3afd67723bebd86660601","_rev":"_cfFlMXu---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3afd67723bebd866605fe"},"refKey":23},
{"_key":"60c3afe27723bebd86660616","_id":"references/60c3afe27723bebd86660616","_rev":"_cfFlMX6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tFChollet\n\t\t\n\t\t\n\t\t\t\n\t\t\tKeras. GitHub\n\t\t\n\t\n\n","document":{"$oid":"60c3afe27723bebd86660615"},"refKey":10},
{"_key":"60c3afe27723bebd86660617","_id":"references/60c3afe27723bebd86660617","_rev":"_cfFlMYG---","tei":"\n\t\n\t\t\n\t\t\tMAbadi\n\t\t\n\t\t\n\t\t\tAAgarwal\n\t\t\n\t\t\n\t\t\tPBarham\n\t\t\n\t\t\n\t\t\tEBrevdo\n\t\t\n\t\t\n\t\t\tZChen\n\t\t\n\t\tTensorFlow: large-scale machine arXiv preprint\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3afe27723bebd86660615"},"refKey":0},
{"_key":"60c3b0027723bebd8666062e","_id":"references/60c3b0027723bebd8666062e","_rev":"_cfFlMYS---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b0027723bebd8666062d"},"refKey":40},
{"_key":"60c3b02d7723bebd86660646","_id":"references/60c3b02d7723bebd86660646","_rev":"_cfFlMYe---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJamesCPhillips\n\t\t\n\t\t\n\t\t\tRosemaryBraun\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tJamesGumbart\n\t\t\n\t\t\n\t\t\tEmadTajkhorshid\n\t\t\n\t\t\n\t\t\tElizabethVilla\n\t\t\n\t\t\n\t\t\tChristopheChipot\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tLaxmikantKalé\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1002/jcc.20289\n\t\t16222654\n\t\tPMC2486339\n\t\tark:/67375/WNG-4VV0NHGH-L\n\t\t9CA05D9586DF2A6CDED3A7F227C6C9CF046796F7\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3b02d7723bebd86660645"},"refKey":57},
{"_key":"60c3b02d7723bebd86660647","_id":"references/60c3b02d7723bebd86660647","_rev":"_cfFlMYq---","tei":"\n\t\n\t\tCHARMM-GUI: A web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tTaehoonKim\n\t\t\n\t\t\n\t\t\tVidyashankaraGIyer\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.20945\n\t\t18351591\n\t\tark:/67375/WNG-B51MBQFN-X\n\t\t3C9C30FE6273AB7B8632EBBA4EF6F91FEFB8F531\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3b02d7723bebd86660645"},"refKey":36},
{"_key":"60c3b02d7723bebd86660648","_id":"references/60c3b02d7723bebd86660648","_rev":"_cfFlMY2---","tei":"\n\t\n\t\tCHARMM-GUI ligand reader and modeler for CHARMM force field generation of small molecules\n\t\t\n\t\t\tSeonghoonKim\n\t\t\n\t\t\n\t\t\tJuminLee\n\t\t\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tCharlesLBrooks\n\t\t\n\t\t\n\t\t\tHuiSunLee\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\t0000-0001-5642-6041\n\t\t\n\t\t10.1002/jcc.24829\n\t\t28497616\n\t\tPMC5488718\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t38\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3b02d7723bebd86660645"},"refKey":39},
{"_key":"60c3b02d7723bebd86660649","_id":"references/60c3b02d7723bebd86660649","_rev":"_cfFlMZ----","tei":"\n\t\n\t\tPyMOL molecular viewer: Updates and refinements\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\n\t\n\t\tAbstracts of papers of the\n\t\t\t\t\n\t\t\tAmerican Chemical Society\n\t\t\t\n\t\t\t238\n\t\t\n\t\n\n","document":{"$oid":"60c3b02d7723bebd86660645"},"refKey":15},
{"_key":"60c3b03e7723bebd8666065a","_id":"references/60c3b03e7723bebd8666065a","_rev":"_cfFlMZK---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b03e7723bebd86660659"},"refKey":14},
{"_key":"60c3b03e7723bebd8666065b","_id":"references/60c3b03e7723bebd8666065b","_rev":"_cfFlMZW---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b03e7723bebd86660659"},"refKey":15},
{"_key":"60c3b0517723bebd8666065f","_id":"references/60c3b0517723bebd8666065f","_rev":"_cfFlMZi---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b0517723bebd8666065e"},"refKey":21},
{"_key":"60c3b0517723bebd86660660","_id":"references/60c3b0517723bebd86660660","_rev":"_cfFlMZu---","tei":"\n\t\n\t\tFlexible parametric proportional-hazards and proportional-odds models for censored survival data, with application to prognostic modelling and estimation of treatment effects\n\t\t\n\t\t\tPatrickRoyston\n\t\t\n\t\t\n\t\t\tMaheshK BParmar\n\t\t\n\t\t10.1002/sim.1203\n\t\t12210632\n\t\tark:/67375/WNG-QPZ2VS10-J\n\t\t72CC6DE42D93E9C29B6726D65C61B322BC0CFEE3\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t1097-0258\n\t\t\n\t\t\t21\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3b0517723bebd8666065e"},"refKey":26},
{"_key":"60c3b0517723bebd86660661","_id":"references/60c3b0517723bebd86660661","_rev":"_cfFlMZ6---","tei":"\n\t\n\t\tFurther development of flexible parametric models for survival analysis\n\t\t\n\t\t\tPCLambert\n\t\t\n\t\t\n\t\t\tPRoyston\n\t\t\n\t\t10.1177/1536867X0900900206\n\t\n\t\n\t\tThe Stata Journal\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b0517723bebd8666065e"},"refKey":27},
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{"_key":"60c3b0687723bebd8666067e","_id":"references/60c3b0687723bebd8666067e","_rev":"_cfFlMaO---","tei":"\n\t\n\t\tMAST: A flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA-seq data.\n\t\t\n\t\t\tGregFinak\n\t\t\t0000-0003-4341-9090\n\t\t\n\t\t\n\t\t\tAndrewMcdavid\n\t\t\t0000-0002-6581-1213\n\t\t\n\t\t\n\t\t\tMasanaoYajima\n\t\t\t0000-0002-7583-3707\n\t\t\n\t\t\n\t\t\tJingyuanDeng\n\t\t\n\t\t\n\t\t\tVivianGersuk\n\t\t\n\t\t\n\t\t\tAlexKShalek\n\t\t\n\t\t\n\t\t\tChloeKSlichter\n\t\t\n\t\t\n\t\t\tHannahWMiller\n\t\t\n\t\t\n\t\t\tMJuliannaMcelrath\n\t\t\n\t\t\n\t\t\tMartinPrlic\n\t\t\n\t\t\n\t\t\tPeterLinsley\n\t\t\n\t\t\n\t\t\tRaphaelGottardo\n\t\t\t0000-0002-3867-0232\n\t\t\n\t\t10.1101/020842\n\t\t\n\t\n\t\n\t\tGenome biology\n\t\t\n\t\t\t16\n\t\t\t278\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3b0687723bebd8666067d"},"refKey":42},
{"_key":"60c3b0687723bebd8666067f","_id":"references/60c3b0687723bebd8666067f","_rev":"_cfFlMaa---","tei":"\n\t\n\t\tRSEM: accurate transcript quanti cation from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBLi\n\t\t\n\t\t\n\t\t\tCNDewey\n\t\t\n\t\n\t\n\t\tBMC bioinformatics\n\t\t\n\t\t\t12\n\t\t\t323\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b0687723bebd8666067d"},"refKey":36},
{"_key":"60c3b0687723bebd86660680","_id":"references/60c3b0687723bebd86660680","_rev":"_cfFlMam---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome biology\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b0687723bebd8666067d"},"refKey":37},
{"_key":"60c3b0687723bebd86660681","_id":"references/60c3b0687723bebd86660681","_rev":"_cfFlMay---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b0687723bebd8666067d"},"refKey":35},
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{"_key":"60c3b1c27723bebd866607e3","_id":"references/60c3b1c27723bebd866607e3","_rev":"_cfFlMdy---","tei":"\n\t\n\t\tThe Hartung-Knapp modification for random-effects meta-analysis: A useful refinement but are there any residual concerns?\n\t\t\n\t\t\tDanJackson\n\t\t\t0000-0002-4963-8123\n\t\t\n\t\t\n\t\t\tMartinLaw\n\t\t\n\t\t\n\t\t\tGertaRücker\n\t\t\t0000-0002-2192-2560\n\t\t\n\t\t\n\t\t\tGuidoSchwarzer\n\t\t\n\t\t10.1002/sim.7411\n\t\t28748567\n\t\tPMC5628734\n\t\t\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t\n\t\t\t36\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3b1c27723bebd866607e1"},"refKey":11},
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{"_key":"60c3b7907723bebd86660d12","_id":"references/60c3b7907723bebd86660d12","_rev":"_cfFlMw2---","tei":"\n\t\n\t\tLearning word vectors for 157 languages\n\t\t\n\t\t\tEGrave\n\t\t\n\t\t\n\t\t\tPBojanowski\n\t\t\n\t\t\n\t\t\tPGupta\n\t\t\n\t\t\n\t\t\tAJoulin\n\t\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\tabs/1802.06893\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b7907723bebd86660d10"},"refKey":16},
{"_key":"60c3b7a67723bebd86660d21","_id":"references/60c3b7a67723bebd86660d21","_rev":"_cfFlMxC---","tei":"\n\t\n\t\tThe skin you are in: design-of-experiments optimization of lipid nanoparticle self-amplifying RNA formulations in human skin explants\n\t\t\n\t\t\tAKBlakney\n\t\t\n\t\t\n\t\t\tPFMckay\n\t\t\n\t\t\n\t\t\tBIbarzo Yus\n\t\t\n\t\t\n\t\t\tJEHunter\n\t\t\n\t\t\n\t\t\tEADex\n\t\t\n\t\t\n\t\t\tRJShattock\n\t\t\n\t\n\t\n\t\tACS Nano\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b7a67723bebd86660d20"},"refKey":54},
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{"_key":"60c3b9027723bebd86660e86","_id":"references/60c3b9027723bebd86660e86","_rev":"_cfFlM0W---","tei":"\n\t\n\t\tEpiModel: An R Package for Mathematical Modeling of Infectious Disease over Networks\n\t\t\n\t\t\tSamuelMJenness\n\t\t\n\t\t\n\t\t\tStevenMGoodreau\n\t\t\n\t\t\n\t\t\tMartinaMorris\n\t\t\n\t\t10.18637/jss.v084.i08\n\t\t29731699\n\t\tPMC5931789\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t84\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c3b9027723bebd86660e85"},"refKey":8},
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{"_key":"60c3b9237723bebd86660e95","_id":"references/60c3b9237723bebd86660e95","_rev":"_cfFlM0u---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3b9237723bebd86660e93"},"refKey":77},
{"_key":"60c3b9237723bebd86660e96","_id":"references/60c3b9237723bebd86660e96","_rev":"_cfFlM02---","tei":"\n\t\n\t\tVarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing\n\t\t\n\t\t\tDCKoboldt\n\t\t\n\t\t\n\t\t\tQZhang\n\t\t\n\t\t\n\t\t\tDELarson\n\t\t\n\t\t\n\t\t\tDShen\n\t\t\n\t\t\n\t\t\tMDMclellan\n\t\t\n\t\t\n\t\t\tLLin\n\t\t\n\t\t\n\t\t\tCAMiller\n\t\t\n\t\t\n\t\t\tERMardis\n\t\t\n\t\t\n\t\t\tLDing\n\t\t\n\t\t\n\t\t\tRKWilson\n\t\t\n\t\t10.1101/gr.129684.111\n\t\t22300766\n\t\tPMC3290792\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t22\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3b9237723bebd86660e93"},"refKey":79},
{"_key":"60c3b94f7723bebd86660eb4","_id":"references/60c3b94f7723bebd86660eb4","_rev":"_cfFlM1C---","tei":"\n\t\n\t\tThe neighbor-joining method: a new method for reconstructing phylogenetic trees\n\t\t\n\t\t\tNSaitou\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b94f7723bebd86660eb3"},"refKey":25},
{"_key":"60c3b94f7723bebd86660eb5","_id":"references/60c3b94f7723bebd86660eb5","_rev":"_cfFlM1O---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3b94f7723bebd86660eb3"},"refKey":12},
{"_key":"60c3b94f7723bebd86660ec7","_id":"references/60c3b94f7723bebd86660ec7","_rev":"_cfFlM1a---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMJFrisch\n\t\t\n\t\t\n\t\t\tGWTrucks\n\t\t\n\t\t\n\t\t\tHBSchlegel\n\t\t\n\t\t\n\t\t\tGEScuseria\n\t\t\n\t\t\n\t\t\tMARobb\n\t\t\n\t\t\n\t\t\tJRCheeseman\n\t\t\n\t\t\n\t\t\tGScalmani\n\t\t\n\t\t\n\t\t\tVBarone\n\t\t\n\t\t\n\t\t\tBMennucci\n\t\t\n\t\t\n\t\t\tGAPetersson\n\t\t\n\t\t\n\t\t\tHNakatsuji\n\t\t\n\t\t\n\t\t\tMCaricato\n\t\t\n\t\t\n\t\t\tXLi\n\t\t\n\t\t\n\t\t\tHPHratchian\n\t\t\n\t\t\n\t\t\tAFIzmaylov\n\t\t\n\t\t\n\t\t\tJBloino\n\t\t\n\t\t\n\t\t\tGZheng\n\t\t\n\t\t\n\t\t\tJLSonnenberg\n\t\t\n\t\t\n\t\t\tMHada\n\t\t\n\t\t\n\t\t\t…D JFox\n\t\t\n\t\t\n\t\n\tGaussian09 Revision D.1 9.5 (n.d.\n\n","document":{"$oid":"60c3b94f7723bebd86660ec6"},"refKey":28},
{"_key":"60c3b9bd7723bebd86660f11","_id":"references/60c3b9bd7723bebd86660f11","_rev":"_cfFlM1i---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3b9bd7723bebd86660f10"},"refKey":37},
{"_key":"60c3b9e37723bebd86660f2b","_id":"references/60c3b9e37723bebd86660f2b","_rev":"_cfFlM1u---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAugment\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t23\n\t\t\n\t\n\n","document":{"$oid":"60c3b9e37723bebd86660f2a"},"refKey":55},
{"_key":"60c3ba1a7723bebd86660f54","_id":"references/60c3ba1a7723bebd86660f54","_rev":"_cfFlM16---","tei":"\n\t\n\t\tThe STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tHCook\n\t\t\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\t\n\t\t\tSWyder\n\t\t\n\t\t\n\t\t\tMSimonovic\n\t\t\n\t\t\n\t\t\tASantos\n\t\t\n\t\t\n\t\t\tNTDoncheva\n\t\t\n\t\t\n\t\t\tARoth\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ba1a7723bebd86660f53"},"refKey":81},
{"_key":"60c3ba317723bebd86660f61","_id":"references/60c3ba317723bebd86660f61","_rev":"_cfFlM2G---","tei":"\n\t\n\t\tKepler: an extensible system for design and execution of scientific workflows\n\t\t\n\t\t\tIAltintas\n\t\t\n\t\t\n\t\t\tCBerkley\n\t\t\n\t\t\n\t\t\tEJaeger\n\t\t\n\t\t\n\t\t\tMJones\n\t\t\n\t\t\n\t\t\tBLudascher\n\t\t\n\t\t\n\t\t\tSMock\n\t\t\n\t\t10.1109/ssdm.2004.1311241\n\t\t\n\t\n\t\n\t\tProceedings. 16th International Conference on Scientific and Statistical Database Management, 2004.\n\t\t\t\t16th International Conference on Scientific and Statistical Database Management, 2004\n\t\t\n\t\t\tIEEE\n\t\t\tJune 2004\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ba317723bebd86660f60"},"refKey":1},
{"_key":"60c3ba317723bebd86660f62","_id":"references/60c3ba317723bebd86660f62","_rev":"_cfFlM2O---","tei":"\n\t\n\t\tTaverna: a tool for the composition and enactment of bioinformatics workflows\n\t\t\n\t\t\tTOinn\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ba317723bebd86660f60"},"refKey":10},
{"_key":"60c3ba317723bebd86660f63","_id":"references/60c3ba317723bebd86660f63","_rev":"_cfFlM2a---","tei":"\n\t\n\t\tTriana: a graphical Web service composition and execution toolkit\n\t\t\n\t\t\tSMajithia\n\t\t\n\t\t\n\t\t\tMShields\n\t\t\n\t\t\n\t\t\tITaylor\n\t\t\n\t\t\n\t\t\tIWang\n\t\t\n\t\t10.1109/icws.2004.1314777\n\t\n\t\n\t\tProceedings. IEEE International Conference on Web Services, 2004.\n\t\t\t\tIEEE International Conference on Web Services, 2004\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ba317723bebd86660f60"},"refKey":9},
{"_key":"60c3ba437723bebd86660f7d","_id":"references/60c3ba437723bebd86660f7d","_rev":"_cfFlM2m---","tei":"\n\t\n\t\tGenomic variance of the 2019-nCoV coronavirus\n\t\t\n\t\t\tCCeraolo\n\t\t\n\t\t\n\t\t\tFMGiorgi\n\t\t\n\t\t10.1002/jmv.25700\n\t\t\n\t\n\t\n\t\tJ. Med. Virol\n\t\t\n\t\t\t92\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ba437723bebd86660f7c"},"refKey":15},
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{"_key":"60c3ba687723bebd86660f94","_id":"references/60c3ba687723bebd86660f94","_rev":"_cfFlM3G---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ba687723bebd86660f93"},"refKey":73},
{"_key":"60c3ba917723bebd86660fb7","_id":"references/60c3ba917723bebd86660fb7","_rev":"_cfFlM3S---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMächler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ba917723bebd86660fb6"},"refKey":12},
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{"_key":"60c3baef7723bebd8666101f","_id":"references/60c3baef7723bebd8666101f","_rev":"_cfFlM3y---","tei":"\n\t\n\t\tThe ade4 Package: Implementing the Duality Diagram for Ecologists\n\t\t\n\t\t\tSDray\n\t\t\n\t\t\n\t\t\tABDufour\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3baef7723bebd8666101e"},"refKey":5},
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{"_key":"60c3bafb7723bebd8666102d","_id":"references/60c3bafb7723bebd8666102d","_rev":"_cfFlM4K---","tei":"\n\t\n\t\tAllerTOP v.2—a server for in silico prediction of allergens\n\t\t\n\t\t\tIvanDimitrov\n\t\t\n\t\t\n\t\t\tIvanBangov\n\t\t\n\t\t\n\t\t\tDarrenRFlower\n\t\t\n\t\t\n\t\t\tIriniDoytchinova\n\t\t\n\t\t10.1007/s00894-014-2278-5\n\t\t24878803\n\t\n\t\n\t\tJournal of Molecular Modeling\n\t\tJ Mol Model\n\t\t1610-2940\n\t\t0948-5023\n\t\t\n\t\t\t20\n\t\t\t6\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c3bafb7723bebd8666102b"},"refKey":48},
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{"_key":"60c3bafb7723bebd86661031","_id":"references/60c3bafb7723bebd86661031","_rev":"_cfFlM42---","tei":"\n\t\n\t\tThe role of the proteasome in generating cytotoxic T-cell epitopes: insights obtained from improved predictions of proteasomal cleavage\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tCanKeşmir\n\t\t\n\t\t10.1007/s00251-005-0781-7\n\t\t15744535\n\t\tark:/67375/VQC-MCD00XGQ-K\n\t\t39F7B3B6047B81325A8236A88C470A724E104264\n\t\n\t\n\t\tImmunogenetics\n\t\tImmunogenetics\n\t\t0093-7711\n\t\t1432-1211\n\t\t\n\t\t\t57\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c3bafb7723bebd8666102b"},"refKey":35},
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{"_key":"60c3bb957723bebd86661130","_id":"references/60c3bb957723bebd86661130","_rev":"_cfFlM8a---","tei":"\n\t\n\t\tDevelopment and testing of a general amber force field\n\t\t\n\t\t\tJunmeiWang\n\t\t\n\t\t\n\t\t\tRomainMWolf\n\t\t\n\t\t\n\t\t\tJamesWCaldwell\n\t\t\n\t\t\n\t\t\tPeterAKollman\n\t\t\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t10.1002/jcc.20035\n\t\t15116359\n\t\tark:/67375/WNG-PHJ3VSN7-3\n\t\t1B326E483F93B0E60CB6D84B46C9CA645B870279\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3bb957723bebd8666112d"},"refKey":70},
{"_key":"60c3bb957723bebd86661131","_id":"references/60c3bb957723bebd86661131","_rev":"_cfFlM8m---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3bb957723bebd8666112d"},"refKey":54},
{"_key":"60c3bb957723bebd86661132","_id":"references/60c3bb957723bebd86661132","_rev":"_cfFlM8y---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJournal of Computaional Chemistry\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bb957723bebd8666112d"},"refKey":66},
{"_key":"60c3bba07723bebd86661149","_id":"references/60c3bba07723bebd86661149","_rev":"_cfFlM86---","tei":"\n\t\n\t\tDevelopment and validation of a genetic algorithm for flexible docking 1 1Edited by F. E. Cohen\n\t\t\n\t\t\tGarethJones\n\t\t\n\t\t\n\t\t\tPeterWillett\n\t\t\n\t\t\n\t\t\tRobertCGlen\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t\n\t\t\tRobinTaylor\n\t\t\n\t\t10.1006/jmbi.1996.0897\n\t\t9126849\n\t\tS0022-2836(96)90897-9\n\t\tark:/67375/6H6-GNV4R2V8-6\n\t\tEA7BD423E77C5C32200506C1F153E88DAD7A1E33\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t267\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3bba07723bebd86661148"},"refKey":23},
{"_key":"60c3bba07723bebd8666114a","_id":"references/60c3bba07723bebd8666114a","_rev":"_cfFlM9G---","tei":"\n\t\n\t\tXLSTAT-software, version 10\n\t\t\n\t\t\tSAdinsoft\n\t\t\n\t\t\n\t\t\t\n\t\t\tAddinsoft\n\t\t\n\t\n\n","document":{"$oid":"60c3bba07723bebd86661148"},"refKey":1},
{"_key":"60c3bba07723bebd8666114b","_id":"references/60c3bba07723bebd8666114b","_rev":"_cfFlM9S---","tei":"\n\t\n\t\tggplot2\n\t\t\n\t\t\tHadleyWickham\n\t\t\n\t\t10.1007/978-0-387-98141-3\n\t\t\n\t\n\t\n\t\tggplot2: Elegant graphics for data analysis\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\n\t\n\t1st ed.\n\n","document":{"$oid":"60c3bba07723bebd86661148"},"refKey":54},
{"_key":"60c3bba77723bebd86661163","_id":"references/60c3bba77723bebd86661163","_rev":"_cfFlM9e---","tei":"\n\t\n\t\tReviewMiner\n\t\t\n\t\t\tDerekWu\n\t\t\n\t\t\n\t\t\tHongningWang\n\t\t\n\t\t10.1145/3077136.3084148\n\t\t\n\t\n\t\n\t\tProceedings of the 40th International ACM SIGIR Conference on Research and Development in Information Retrieval - SIGIR '17\n\t\t\t\tthe 40th International ACM SIGIR Conference on Research and Development in Information Retrieval - SIGIR '17New York, NY, USA\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tReviewminer: An aspect-based review analytics system\n\n","document":{"$oid":"60c3bba77723bebd86661162"},"refKey":25},
{"_key":"60c3bba77723bebd86661164","_id":"references/60c3bba77723bebd86661164","_rev":"_cfFlM9q---","tei":"\n\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\t\n\t\t\tEGrave\n\t\t\n\t\t\n\t\t\tPBojanowski\n\t\t\n\t\t\n\t\t\tCPuhrsch\n\t\t\n\t\t\n\t\t\tAJoulin\n\t\t\n\t\tLREC 2018 -11th International Conference on Language Resources and Evaluation\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tAdvances in pre-training distributed word representations\n\n","document":{"$oid":"60c3bba77723bebd86661162"},"refKey":67},
{"_key":"60c3bba77723bebd86661165","_id":"references/60c3bba77723bebd86661165","_rev":"_cfFlM92---","tei":"\n\t\n\t\tTensorflow: Large-scale machine learning on heterogeneous systems\n\t\t\n\t\t\tMAbadi\n\t\t\n\t\t\n\t\t\tAAgarwal\n\t\t\n\t\t\n\t\t\tPBarham\n\t\t\n\t\t\n\t\t\tEBrevdo\n\t\t\n\t\t\n\t\t\tZChen\n\t\t\n\t\t\n\t\t\tCCitro\n\t\t\n\t\t\n\t\t\tGSCorrado\n\t\t\n\t\t\n\t\t\tADavis\n\t\t\n\t\t\n\t\t\tJDean\n\t\t\n\t\t\n\t\t\tMDevin\n\t\t\n\t\t\n\t\t\tSGhemawat\n\t\t\n\t\t\n\t\t\tIGoodfellow\n\t\t\n\t\t\n\t\t\tAHarp\n\t\t\n\t\t\n\t\t\tGIrving\n\t\t\n\t\t\n\t\t\tMIsard\n\t\t\n\t\t\n\t\t\tYJia\n\t\t\n\t\t\n\t\t\tRJozefowicz\n\t\t\n\t\t\n\t\t\tLKaiser\n\t\t\n\t\t\n\t\t\tMKudlur\n\t\t\n\t\t\n\t\t\tJLevenberg\n\t\t\n\t\t\n\t\t\tDMané\n\t\t\n\t\t\n\t\t\tRMonga\n\t\t\n\t\t\n\t\t\tSMoore\n\t\t\n\t\t\n\t\t\tDMurray\n\t\t\n\t\t\n\t\t\tCOlah\n\t\t\n\t\t\n\t\t\tMSchuster\n\t\t\n\t\t\n\t\t\tJShlens\n\t\t\n\t\t\n\t\t\tBSteiner\n\t\t\n\t\t\n\t\t\tISutskever\n\t\t\n\t\t\n\t\t\tKTalwar\n\t\t\n\t\t\n\t\t\tPTucker\n\t\t\n\t\t\n\t\t\tVVanhoucke\n\t\t\n\t\t\n\t\t\tVVasudevan\n\t\t\n\t\t\n\t\t\tFViégas\n\t\t\n\t\t\n\t\t\tOVinyals\n\t\t\n\t\t\n\t\t\tPWarden\n\t\t\n\t\t\n\t\t\tMWattenberg\n\t\t\n\t\t\n\t\t\tMWicke\n\t\t\n\t\t\n\t\t\tYYu\n\t\t\n\t\t\n\t\t\tXZheng\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bba77723bebd86661162"},"refKey":73},
{"_key":"60c3bba77723bebd86661166","_id":"references/60c3bba77723bebd86661166","_rev":"_cfFlN-----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tFChollet\n\t\t\n\t\t\n\t\n\t\n\t\tKeras\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bba77723bebd86661162"},"refKey":74},
{"_key":"60c3bba77723bebd86661167","_id":"references/60c3bba77723bebd86661167","_rev":"_cfFlN-K---","tei":"\n\t\n\t\tThe Stanford CoreNLP Natural Language Processing Toolkit\n\t\t\n\t\t\tChristopherManning\n\t\t\n\t\t\n\t\t\tMihaiSurdeanu\n\t\t\n\t\t\n\t\t\tJohnBauer\n\t\t\n\t\t\n\t\t\tJennyFinkel\n\t\t\n\t\t\n\t\t\tStevenBethard\n\t\t\n\t\t\n\t\t\tDavidMcclosky\n\t\t\n\t\t10.3115/v1/p14-5010\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of 52nd Annual Meeting of the Association for Computational Linguistics: System Demonstrations\n\t\t\t\t52nd Annual Meeting of the Association for Computational Linguistics: System DemonstrationsBaltimore, Maryland\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bba77723bebd86661162"},"refKey":71},
{"_key":"60c3bbf77723bebd8666119b","_id":"references/60c3bbf77723bebd8666119b","_rev":"_cfFlN-W---","tei":"\n\t\n\t\tBEAST: Bayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t10.1186/1471-2148-7-214\n\t\t\n\t\n\t\n\t\tBMC Evol Biol\n\t\t\n\t\t\t7\n\t\t\t214\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bbf77723bebd8666119a"},"refKey":137},
{"_key":"60c3bbf77723bebd8666119c","_id":"references/60c3bbf77723bebd8666119c","_rev":"_cfFlN-i---","tei":"\n\t\n\t\tRelaxed phylogenetics and dating with confidence\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tSYHo\n\t\t\n\t\t\n\t\t\tMJPhillips\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t10.1371/journal.pbio.0040088\n\t\t\n\t\n\t\n\t\tPLoS Biol\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bbf77723bebd8666119a"},"refKey":138},
{"_key":"60c3bbf77723bebd8666119d","_id":"references/60c3bbf77723bebd8666119d","_rev":"_cfFlN-y---","tei":"\n\t\n\t\tBayesian random local clocks, or one rate to rule them all\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tBMC Biol\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bbf77723bebd8666119a"},"refKey":139},
{"_key":"60c3bbf77723bebd8666119e","_id":"references/60c3bbf77723bebd8666119e","_rev":"_cfFlN_----","tei":"\n\t\n\t\tBayesian coalescent inference of past population dynamics from molecular sequences\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tBShapiro\n\t\t\n\t\t\n\t\t\tOGPybus\n\t\t\n\t\t10.1093/molbev/msi103\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bbf77723bebd8666119a"},"refKey":140},
{"_key":"60c3bbf77723bebd8666119f","_id":"references/60c3bbf77723bebd8666119f","_rev":"_cfFlN_K---","tei":"\n\t\n\t\tEstimating mutation parameters, population history and genealogy simultaneously from temporally spaced sequence data\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tGKNicholls\n\t\t\n\t\t\n\t\t\tAGRodrigo\n\t\t\n\t\t\n\t\t\tWSolomon\n\t\t\n\t\n\t\n\t\tGenetics\n\t\t\n\t\t\t161\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bbf77723bebd8666119a"},"refKey":141},
{"_key":"60c3bbf77723bebd866611a0","_id":"references/60c3bbf77723bebd866611a0","_rev":"_cfFlN_W---","tei":"\n\t\n\t\tBayesian phylogenetics with BEAUti and the BEAST 1.7\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t10.1093/molbev/mss075\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bbf77723bebd8666119a"},"refKey":142},
{"_key":"60c3bbf77723bebd866611a1","_id":"references/60c3bbf77723bebd866611a1","_rev":"_cfFlN_i---","tei":"\n\t\n\t\tSmooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics\n\t\t\n\t\t\tVNMinin\n\t\t\n\t\t\n\t\t\tEWBloomquist\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t10.1093/molbev/msn090\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bbf77723bebd8666119a"},"refKey":143},
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{"_key":"60c3bd0f7723bebd866612b8","_id":"references/60c3bd0f7723bebd866612b8","_rev":"_cfFlNGq---","tei":"\n\t\n\t\tIMGT((R)) tools for the nucleotide analysis of immunoglobulin (IG) and T cell receptor (TR) V-(D)-J repertoires, polymorphisms, and IG mutations: IMGT/V-QUEST and IMGT/HighV-QUEST for NGS\n\t\t\n\t\t\tEAlamyar\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t882\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bd0f7723bebd866612af"},"refKey":10},
{"_key":"60c3bd0f7723bebd866612b9","_id":"references/60c3bd0f7723bebd866612b9","_rev":"_cfFlNGy---","tei":"\n\t\n\t\tIMGT/HighV QUEST paradigm for T cell receptor IMGT clonotype diversity and next generation repertoire immunoprofiling\n\t\t\n\t\t\tSLi\n\t\t\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t4\n\t\t\t2333\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bd0f7723bebd866612af"},"refKey":11},
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{"_key":"60c3bd0f7723bebd866612c0","_id":"references/60c3bd0f7723bebd866612c0","_rev":"_cfFlNIC---","tei":"\n\t\n\t\tLightDock goes information-driven\n\t\t\n\t\t\tJorgeRoel-Touris\n\t\t\t0000-0002-6588-624X\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\t0000-0001-7369-1322\n\t\t\n\t\t\n\t\t\tBrianJiménez-García\n\t\t\n\t\t10.1093/bioinformatics/btz642\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t36\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3bd0f7723bebd866612af"},"refKey":103},
{"_key":"60c3bd0f7723bebd866612c1","_id":"references/60c3bd0f7723bebd866612c1","_rev":"_cfFlNIO---","tei":"\n\t\n\t\tZDOCK server: interactive docking prediction of proteinprotein complexes and symmetric multimers\n\t\t\n\t\t\tBGPierce\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bd0f7723bebd866612af"},"refKey":104},
{"_key":"60c3bd0f7723bebd866612c2","_id":"references/60c3bd0f7723bebd866612c2","_rev":"_cfFlNIW---","tei":"\n\t\n\t\tLinking the T cell receptor to the single cell transcriptome in antigen-specific human T cells\n\t\t\n\t\t\tAudaAEltahla\n\t\t\n\t\t\n\t\t\tSimoneRizzetto\n\t\t\n\t\t\n\t\t\tMehdiRPirozyan\n\t\t\n\t\t\n\t\t\tBrigidDBetz-Stablein\n\t\t\n\t\t\n\t\t\tVanessaVenturi\n\t\t\n\t\t\n\t\t\tKatherineKedzierska\n\t\t\n\t\t\n\t\t\tAndrewRLloyd\n\t\t\n\t\t\n\t\t\tRowenaABull\n\t\t\n\t\t\n\t\t\tFabioLuciani\n\t\t\n\t\t10.1038/icb.2016.16\n\t\t26860370\n\t\n\t\n\t\tImmunology and Cell Biology\n\t\tImmunol Cell Biol\n\t\t0818-9641\n\t\t\n\t\t\t94\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3bd0f7723bebd866612af"},"refKey":37},
{"_key":"60c3bd327723bebd8666130f","_id":"references/60c3bd327723bebd8666130f","_rev":"_cfFlNIi---","tei":"\n\t\n\t\tBayesian random-effects meta-analysis using the bayesmeta R package\n\t\t\n\t\t\tCRover\n\t\t\n\t\t10.18637/jss.v093.i06\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t93\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bd327723bebd8666130e"},"refKey":23},
{"_key":"60c3bd327723bebd86661310","_id":"references/60c3bd327723bebd86661310","_rev":"_cfFlNIu---","tei":"\n\t\n\t\tHow to perform a meta-analysis with R: a practical tutorial\n\t\t\n\t\t\tSaraBalduzzi\n\t\t\t0000-0003-1205-1895\n\t\t\n\t\t\n\t\t\tGertaRücker\n\t\t\n\t\t\n\t\t\tGuidoSchwarzer\n\t\t\t0000-0001-6214-9087\n\t\t\n\t\t10.1136/ebmental-2019-300117\n\t\t\n\t\n\t\n\t\tEvidence Based Mental Health\n\t\tEvid Based Mental Health\n\t\t1362-0347\n\t\t1468-960X\n\t\t\n\t\t\t22\n\t\t\t4\n\t\t\tebmental-2019-300117\n\t\t\t\n\t\t\tBMJ\n\t\t\n\t\n\n","document":{"$oid":"60c3bd327723bebd8666130e"},"refKey":19},
{"_key":"60c3bd5e7723bebd86661330","_id":"references/60c3bd5e7723bebd86661330","_rev":"_cfFlNI6---","tei":"\n\t\n\t\tPoliovirus RNA-dependent RNA polymerase (3D pol ): structural, biochemical, and biological analysis of conserved structural motifs A and B\n\t\t\n\t\t\tDWGohara\n\t\t\n\t\t\n\t\t\tSCrotty\n\t\t\n\t\t\n\t\t\tJJArnold\n\t\t\n\t\t\n\t\t\tJDYoder\n\t\t\n\t\t\n\t\t\tRAndino\n\t\t\n\t\t\n\t\t\tCECameron\n\t\t\n\t\n\t\n\t\tJ. Biol. Chem\n\t\t\n\t\t\t275\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bd5e7723bebd8666132f"},"refKey":22},
{"_key":"60c3bd7a7723bebd86661341","_id":"references/60c3bd7a7723bebd86661341","_rev":"_cfFlNJG---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3bd7a7723bebd86661340"},"refKey":60},
{"_key":"60c3bd7a7723bebd86661342","_id":"references/60c3bd7a7723bebd86661342","_rev":"_cfFlNJO---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3bd7a7723bebd86661340"},"refKey":49},
{"_key":"60c3bd7a7723bebd86661343","_id":"references/60c3bd7a7723bebd86661343","_rev":"_cfFlNJa---","tei":"\n\t\n\t\tLessons Learned in Empirical Scoring with smina from the CSAR 2011 Benchmarking Exercise\n\t\t\n\t\t\tDavidRyanKoes\n\t\t\n\t\t\n\t\t\tMatthewPBaumgartner\n\t\t\n\t\t\n\t\t\tCarlosJCamacho\n\t\t\n\t\t10.1021/ci300604z\n\t\t23379370\n\t\tPMC3726561\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t53\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c3bd7a7723bebd86661340"},"refKey":37},
{"_key":"60c3bd7a7723bebd86661344","_id":"references/60c3bd7a7723bebd86661344","_rev":"_cfFlNJm---","tei":"\n\t\n\t\tidock: A multithreaded virtual screening tool for flexible ligand docking\n\t\t\n\t\t\tHongjianLi\n\t\t\n\t\t\n\t\t\tKwong-SakLeung\n\t\t\n\t\t\n\t\t\tMan-HonWong\n\t\t\n\t\t10.1109/cibcb.2012.6217214\n\t\t\n\t\n\t\n\t\t2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)\n\t\t\t\tSan Diego, CA\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t2012\n\t\t\n\t\n\tPaper presentation\n\n","document":{"$oid":"60c3bd7a7723bebd86661340"},"refKey":40},
{"_key":"60c3bd7a7723bebd86661345","_id":"references/60c3bd7a7723bebd86661345","_rev":"_cfFlNJy---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tCSteffen\n\t\t\n\t\t\n\t\t\tKThomas\n\t\t\n\t\t\n\t\t\tUHuniar\n\t\t\n\t\t\n\t\t\tAHellweg\n\t\t\n\t\t\n\t\t\tORubner\n\t\t\n\t\t\n\t\t\tASchroer\n\t\t\n\t\t10.1002/jcc.21576\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bd7a7723bebd86661340"},"refKey":59},
{"_key":"60c3bd9c7723bebd8666135e","_id":"references/60c3bd9c7723bebd8666135e","_rev":"_cfFlNJ6---","tei":"\n\t\n\t\t\n\t\tGeneralMills/pytrends: Pseudo API for Google Trends. GitHub\n\t\t\t\t\n\t\n\taccessed 2020-09-12\n\n","document":{"$oid":"60c3bd9c7723bebd8666135d"},"refKey":23},
{"_key":"60c3bdc77723bebd8666137b","_id":"references/60c3bdc77723bebd8666137b","_rev":"_cfFlNKG---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bdc77723bebd8666137a"},"refKey":31},
{"_key":"60c3bdc77723bebd8666137c","_id":"references/60c3bdc77723bebd8666137c","_rev":"_cfFlNKS---","tei":"\n\t\n\t\tThe 'effective number of codons' used in a gene\n\t\t\n\t\t\tFWright\n\t\t\n\t\n\t\n\t\tGene\n\t\t\n\t\t\t87\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bdc77723bebd8666137a"},"refKey":32},
{"_key":"60c3bdcb7723bebd86661387","_id":"references/60c3bdcb7723bebd86661387","_rev":"_cfFlNKe---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3bdcb7723bebd86661386"},"refKey":109},
{"_key":"60c3bde87723bebd86661393","_id":"references/60c3bde87723bebd86661393","_rev":"_cfFlNKq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGalaxytrakr\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bde87723bebd86661392"},"refKey":26},
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{"_key":"60c3bde87723bebd86661395","_id":"references/60c3bde87723bebd86661395","_rev":"_cfFlNL----","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3bde87723bebd86661392"},"refKey":12},
{"_key":"60c3bde87723bebd86661396","_id":"references/60c3bde87723bebd86661396","_rev":"_cfFlNLK---","tei":"\n\t\n\t\tIDseq -An Open Source Cloud-based Pipeline and Analysis Service for Metagenomic Pathogen Detection and Monitoring\n\t\t\n\t\t\tKLKalantar\n\t\t\n\t\t\n\t\t\tTCarvalho\n\t\t\n\t\t\n\t\t\tCfaBourcy\n\t\t\n\t\t\n\t\t\tDe\n\t\t\n\t\t\n\t\t\tBDimitrov\n\t\t\n\t\t\n\t\t\tGDingle\n\t\t\n\t\t\n\t\t\tREgger\n\t\t\n\t\t10.1101/2020.04.07.030551\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bde87723bebd86661392"},"refKey":24},
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{"_key":"60c3bdef7723bebd866613ab","_id":"references/60c3bdef7723bebd866613ab","_rev":"_cfFlNLe---","tei":"\n\t\n\t\tThe AAA Algorithm for Rational Approximation\n\t\t\n\t\t\tYujiNakatsukasa\n\t\t\n\t\t\n\t\t\tOlivierSète\n\t\t\n\t\t\n\t\t\tLloydNTrefethen\n\t\t\n\t\t10.1137/16m1106122\n\t\t\n\t\n\t\n\t\tSIAM Journal on Scientific Computing\n\t\tSIAM J. Sci. Comput.\n\t\t1064-8275\n\t\t1095-7197\n\t\t\n\t\t\t40\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSociety for Industrial & Applied Mathematics (SIAM)\n\t\t\n\t\n\tto appear\n\n","document":{"$oid":"60c3bdef7723bebd866613a9"},"refKey":27},
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{"_key":"60c3be6c7723bebd866613f5","_id":"references/60c3be6c7723bebd866613f5","_rev":"_cfFlNMO---","tei":"\n\t\n\t\tA rapid bootstrap algorithm for the RAxML web-servers\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\t\n\t\t\tPHoover\n\t\t\n\t\t\n\t\t\tJRougemont\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3be6c7723bebd866613f4"},"refKey":36},
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{"_key":"60c3be7f7723bebd86661400","_id":"references/60c3be7f7723bebd86661400","_rev":"_cfFlNMi---","tei":"\n\t\n\t\tApplication of Phylogenetic Networks in Evolutionary Studies\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tDavidBryant\n\t\t\n\t\t10.1093/molbev/msj030\n\t\t16221896\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t23\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3be7f7723bebd866613ff"},"refKey":21},
{"_key":"60c3be7f7723bebd86661401","_id":"references/60c3be7f7723bebd86661401","_rev":"_cfFlNMu---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tDanielPeterson\n\t\t\n\t\t\n\t\t\tAlanFilipski\n\t\t\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t10.1093/molbev/mst197\n\t\t24132122\n\t\tPMC3840312\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3be7f7723bebd866613ff"},"refKey":20},
{"_key":"60c3be7f7723bebd86661402","_id":"references/60c3be7f7723bebd86661402","_rev":"_cfFlNM6---","tei":"\n\t\n\t\tMultiple Sequence Alignment Using ClustalW and ClustalX\n\t\t\n\t\t\tJulieDThompson\n\t\t\n\t\t\n\t\t\tToby.JGibson\n\t\t\n\t\t\n\t\t\tDesGHiggins\n\t\t\n\t\t10.1002/0471250953.bi0203s00\n\t\t18792934\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t\n\t\t\t00\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3be7f7723bebd866613ff"},"refKey":19},
{"_key":"60c3bea27723bebd8666140f","_id":"references/60c3bea27723bebd8666140f","_rev":"_cfFlNNC---","tei":"\n\t\n\t\tHiritsu no sa\n\t\t\n\t\t\tSAoki\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tno tajyu-hikaku (pairwise.prop.test no kakuchyou) (Multiple comparisons of proportions: An extension of the pairwise.prop.test. updated\n\n","document":{"$oid":"60c3bea27723bebd8666140e"},"refKey":0},
{"_key":"60c3beb07723bebd8666141d","_id":"references/60c3beb07723bebd8666141d","_rev":"_cfFlNNO---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c3beb07723bebd8666141c"},"refKey":10},
{"_key":"60c3beb07723bebd8666141e","_id":"references/60c3beb07723bebd8666141e","_rev":"_cfFlNNa---","tei":"\n\t\n\t\tEstimating incubation period distributions with coarse data\n\t\t\n\t\t\tNicholasGReich\n\t\t\n\t\t\n\t\t\tJustinLessler\n\t\t\n\t\t\n\t\t\tDerekA TCummings\n\t\t\n\t\t\n\t\t\tRonBrookmeyer\n\t\t\n\t\t10.1002/sim.3659\n\t\t19598148\n\t\tark:/67375/WNG-3RSWFJP7-1\n\t\t557992B82BB1D8A25D0D22201ABC7F4B3774CB54\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t1097-0258\n\t\t\n\t\t\t28\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3beb07723bebd8666141c"},"refKey":12},
{"_key":"60c3bec67723bebd8666142d","_id":"references/60c3bec67723bebd8666142d","_rev":"_cfFlNNm---","tei":"\n\t\n\t\tProject xCloud\n\t\t\n\t\t\n\t\t\t\n\t\t\t30\n\t\t\n\t\n\n","document":{"$oid":"60c3bec67723bebd8666142c"},"refKey":34},
{"_key":"60c3becc7723bebd86661435","_id":"references/60c3becc7723bebd86661435","_rev":"_cfFlNNy---","tei":"\n\t\n\t\tPraat: Doing Phonetics by Computer\n\t\t\n\t\t\tPaulBoersma\n\t\t\n\t\t\n\t\t\tDavidWeenink\n\t\t\n\t\t\n\t\t\n\t\n\tComputer program][DB/ CD]. Version 6.1.13, 2020\n\n","document":{"$oid":"60c3becc7723bebd86661434"},"refKey":5},
{"_key":"60c3bee17723bebd8666143d","_id":"references/60c3bee17723bebd8666143d","_rev":"_cfFlNN6---","tei":"\n\t\n\t\tMice: multivariate imputation by Chained equations in R\n\t\t\n\t\t\tVan Bs\n\t\t\n\t\t\n\t\t\tKGroothuis-Oudshoorn\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bee17723bebd8666143c"},"refKey":45},
{"_key":"60c3beed7723bebd86661449","_id":"references/60c3beed7723bebd86661449","_rev":"_cfFlNOG---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tK-IKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3beed7723bebd86661448"},"refKey":27},
{"_key":"60c3bf167723bebd86661471","_id":"references/60c3bf167723bebd86661471","_rev":"_cfFlNOS---","tei":"\n\t\n\t\tCovidence systematic review software, Veritas Health Innovation\n\t\t\n\t\t\n\t\t\tMelbourne, Australia\n\t\t\n\t\n\n","document":{"$oid":"60c3bf167723bebd86661470"},"refKey":6},
{"_key":"60c3bf2f7723bebd8666147d","_id":"references/60c3bf2f7723bebd8666147d","_rev":"_cfFlNOe---","tei":"\n\t\n\t\tPEAR: a fast and accurate Illumina paired-end reAd mergeR\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tKKobert\n\t\t\n\t\t\n\t\t\tTFlouri\n\t\t\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bf2f7723bebd8666147c"},"refKey":31},
{"_key":"60c3bf2f7723bebd8666147e","_id":"references/60c3bf2f7723bebd8666147e","_rev":"_cfFlNOm---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJOksanen\n\t\t\n\t\t\n\t\t\tFGBlanchet\n\t\t\n\t\t\n\t\t\tRKindt\n\t\t\n\t\t\n\t\t\tPLegendre\n\t\t\n\t\t\n\t\t\tPRMinchin\n\t\t\n\t\t\n\t\t\tRBO'hara\n\t\t\n\t\t\n\t\t\tGLSimpson\n\t\t\n\t\t\n\t\t\tPSolymos\n\t\t\n\t\t\n\t\t\tMhhStevens\n\t\t\n\t\t\n\t\t\tHWagner\n\t\t\n\t\t\n\t\t\t\n\t\t\tOulu, Finland\n\t\t\n\t\n\tvegan: community ecology package. R package version 2.3-1\n\n","document":{"$oid":"60c3bf2f7723bebd8666147c"},"refKey":38},
{"_key":"60c3bf2f7723bebd8666147f","_id":"references/60c3bf2f7723bebd8666147f","_rev":"_cfFlNOy---","tei":"\n\t\n\t\tfr: robust phylogenetic analysis for the non-specialist\n\t\t\n\t\t\tADereeper\n\t\t\n\t\t\n\t\t\tVGuignon\n\t\t\n\t\t\n\t\t\tGBlanc\n\t\t\n\t\t\n\t\t\tSAudic\n\t\t\n\t\t\n\t\t\tSBuffet\n\t\t\n\t\t\n\t\t\tFChevenet\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMLescot\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server\n\n","document":{"$oid":"60c3bf2f7723bebd8666147c"},"refKey":43},
{"_key":"60c3bf2f7723bebd86661480","_id":"references/60c3bf2f7723bebd86661480","_rev":"_cfFlNP----","tei":"\n\t\n\t\tBLAST-EXPLORER helps you building datasets for phylogenetic analysis\n\t\t\n\t\t\tAlexisDereeper\n\t\t\n\t\t\n\t\t\tStephaneAudic\n\t\t\n\t\t\n\t\t\tJean-MichelClaverie\n\t\t\n\t\t\n\t\t\tGuillaumeBlanc\n\t\t\n\t\t10.1186/1471-2148-10-8\n\t\t20067610\n\t\tPMC2821324\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t8\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3bf2f7723bebd8666147c"},"refKey":44},
{"_key":"60c3bf2f7723bebd86661481","_id":"references/60c3bf2f7723bebd86661481","_rev":"_cfFlNPK---","tei":"\n\t\n\t\tClassification and Regression by randomForest\n\t\t\n\t\t\tALiaw\n\t\t\n\t\t\n\t\t\tMWiener\n\t\t\n\t\n\t\n\t\tNews\n\t\t\n\t\t\t2\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bf2f7723bebd8666147c"},"refKey":49},
{"_key":"60c3bf2f7723bebd86661482","_id":"references/60c3bf2f7723bebd86661482","_rev":"_cfFlNPW---","tei":"\n\t\n\t\tpheatmap: Pretty heatmaps. R package version 1.0.8\n\t\t\n\t\t\tRKolde\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bf2f7723bebd8666147c"},"refKey":42},
{"_key":"60c3bf2f7723bebd86661483","_id":"references/60c3bf2f7723bebd86661483","_rev":"_cfFlNPe---","tei":"\n\t\n\t\ta multiple sequence alignment method with reduced time and space complexity\n\t\t\n\t\t\tRcmuscleEdgar\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t5\n\t\t\t113\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bf2f7723bebd8666147c"},"refKey":45},
{"_key":"60c3bf2f7723bebd86661484","_id":"references/60c3bf2f7723bebd86661484","_rev":"_cfFlNPq---","tei":"\n\t\n\t\tSelection of conserved blocks from multiple alignments for their use in phylogenetic analysis\n\t\t\n\t\t\tJCastresana\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t17\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bf2f7723bebd8666147c"},"refKey":46},
{"_key":"60c3bf407723bebd86661499","_id":"references/60c3bf407723bebd86661499","_rev":"_cfFlNP2---","tei":"\n\t\n\t\tG4Hunter web application: a web server for G-quadruplex prediction\n\t\t\n\t\t\tVáclavBrázda\n\t\t\n\t\t\n\t\t\tJanKolomazník\n\t\t\n\t\t\n\t\t\tJiříLýsek\n\t\t\n\t\t\n\t\t\tMartinBartas\n\t\t\n\t\t\n\t\t\tMiroslavFojta\n\t\t\n\t\t\n\t\t\tJiř튝astný\n\t\t\n\t\t\n\t\t\tJean-LouisMergny\n\t\t\n\t\t10.1093/bioinformatics/btz087\n\t\t30721922\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tHancock J\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3bf407723bebd86661498"},"refKey":21},
{"_key":"60c3bf407723bebd8666149a","_id":"references/60c3bf407723bebd8666149a","_rev":"_cfFlNQC---","tei":"\n\t\n\t\tThe sequence manipulation suite: JavaScript programs for Analyzing and formatting protein and DNA sequences\n\t\t\n\t\t\tPStothard\n\t\t\n\t\n\t\n\t\tBioTechniques\n\t\t\n\t\t\t28\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bf407723bebd86661498"},"refKey":49},
{"_key":"60c3bf407723bebd8666149b","_id":"references/60c3bf407723bebd8666149b","_rev":"_cfFlNQK---","tei":"\n\t\n\t\tQGRS Mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences\n\t\t\n\t\t\tOKikin\n\t\t\n\t\t\n\t\t\tLAntonio\n\t\t\n\t\t\n\t\t\tPSBagga\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bf407723bebd86661498"},"refKey":39},
{"_key":"60c3bf617723bebd866614b4","_id":"references/60c3bf617723bebd866614b4","_rev":"_cfFlNQW---","tei":"\n\t\n\t\tRQDA: R-based qualitative data analysis\n\t\t\n\t\t\tRongguiHuang\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 0.2-8\n\n","document":{"$oid":"60c3bf617723bebd866614b3"},"refKey":18},
{"_key":"60c3bf677723bebd866614ba","_id":"references/60c3bf677723bebd866614ba","_rev":"_cfFlNQi---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3bf677723bebd866614b9"},"refKey":51},
{"_key":"60c3bf677723bebd866614bb","_id":"references/60c3bf677723bebd866614bb","_rev":"_cfFlNQu---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3bf677723bebd866614b9"},"refKey":52},
{"_key":"60c3bf6c7723bebd866614d3","_id":"references/60c3bf6c7723bebd866614d3","_rev":"_cfFlNQ6---","tei":"\n\t\n\t\tCan Predicted Protein 3D Structures Provide Reliable Insights into whether Missense Variants Are Disease Associated?\n\t\t\n\t\t\tSIttisoponpisan\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t431\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bf6c7723bebd866614d2"},"refKey":25},
{"_key":"60c3bf7f7723bebd866614e2","_id":"references/60c3bf7f7723bebd866614e2","_rev":"_cfFlNRC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSMaestro\n\t\t\n\t\t\n\t\t\tLlc\n\t\t\n\t\t\n\t\t\t\n\t\t\tNew York, NY\n\t\t\n\t\n\n","document":{"$oid":"60c3bf7f7723bebd866614e1"},"refKey":58},
{"_key":"60c3bfa27723bebd86661500","_id":"references/60c3bfa27723bebd86661500","_rev":"_cfFlNRO---","tei":"\n\t\n\t\tUsing thematic analysis in psychology\n\t\t\n\t\t\tVBraun\n\t\t\n\t\t\n\t\t\tVClarke\n\t\t\n\t\n\t\n\t\tQualitative Research in Psychology\n\t\t\n\t\t\t3\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3bfa27723bebd866614ff"},"refKey":22},
{"_key":"60c3bfb27723bebd8666150b","_id":"references/60c3bfb27723bebd8666150b","_rev":"_cfFlNRa---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3bfb27723bebd8666150a"},"refKey":57},
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{"_key":"60c3bff17723bebd8666153a","_id":"references/60c3bff17723bebd8666153a","_rev":"_cfFlNRu---","tei":"\n\t\n\t\tMobiDB-lite: Fast and highly specific consensus prediction of intrinsic disorder in proteins\n\t\t\n\t\t\tMarcoNecci\n\t\t\n\t\t\n\t\t\tDamianoPiovesan\n\t\t\n\t\t\n\t\t\tZsuzsannaDosztányi\n\t\t\n\t\t\n\t\t\tSilvioC ETosatto\n\t\t\n\t\t10.1093/bioinformatics/btx015\n\t\t28453683\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\tbtx015\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3bff17723bebd86661539"},"refKey":27},
{"_key":"60c3c0047723bebd8666155d","_id":"references/60c3c0047723bebd8666155d","_rev":"_cfFlNR6---","tei":"\n\t\n\t\tPOPS: A fast algorithm for solvent accessible surface areas at atomic and residue level\n\t\t\n\t\t\tLCavallo\n\t\t\n\t\t\n\t\t\tJKleinjung\n\t\t\n\t\t\n\t\t\tFFraternali\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c0047723bebd8666155c"},"refKey":45},
{"_key":"60c3c0047723bebd8666155e","_id":"references/60c3c0047723bebd8666155e","_rev":"_cfFlNSG---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system, version 1.3 r1\n\t\t\n\t\t\tLSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\tOxford University Press\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c3c0047723bebd8666155c"},"refKey":81},
{"_key":"60c3c0047723bebd8666155f","_id":"references/60c3c0047723bebd8666155f","_rev":"_cfFlNSS---","tei":"\n\t\n\t\tProtein structure prediction on the Web: a case study using the Phyre server\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1038/nprot.2009.2\n\t\t19247286\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3c0047723bebd8666155c"},"refKey":80},
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{"_key":"60c3c04f7723bebd86661599","_id":"references/60c3c04f7723bebd86661599","_rev":"_cfFlNSm---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis\n\t\t\n\t\t\tAHayes\n\t\t\n\t\t10.1016/j.jpsychires.2018.10.004\n\t\t\n\t\t\t\n\t\t\tGuilford Press\n\t\t\tLondon\n\t\t\n\t\n\n","document":{"$oid":"60c3c04f7723bebd86661598"},"refKey":12},
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{"_key":"60c3c1037723bebd86661629","_id":"references/60c3c1037723bebd86661629","_rev":"_cfFlNTq---","tei":"\n\t\n\t\tA method and server for predicting damaging missense mutations\n\t\t\n\t\t\tIAAdzhubei\n\t\t\n\t\t\n\t\t\tSSchmidt\n\t\t\n\t\t\n\t\t\tLPeshkin\n\t\t\n\t\t\n\t\t\tVERamensky\n\t\t\n\t\t\n\t\t\tAGerasimova\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1037723bebd86661628"},"refKey":25},
{"_key":"60c3c1037723bebd8666162a","_id":"references/60c3c1037723bebd8666162a","_rev":"_cfFlNT2---","tei":"\n\t\n\t\tYASARA View -molecular graphics for all devices-from smartphones to workstations\n\t\t\n\t\t\tEKrieger\n\t\t\n\t\t\n\t\t\tGVriend\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1037723bebd86661628"},"refKey":24},
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{"_key":"60c3c1037723bebd8666162d","_id":"references/60c3c1037723bebd8666162d","_rev":"_cfFlNUW---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1037723bebd86661628"},"refKey":20},
{"_key":"60c3c1037723bebd8666162e","_id":"references/60c3c1037723bebd8666162e","_rev":"_cfFlNUi---","tei":"\n\t\n\t\tThe variant call format and VCF tools\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tAAuton\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tCAAlbers\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1037723bebd86661628"},"refKey":21},
{"_key":"60c3c1057723bebd86661645","_id":"references/60c3c1057723bebd86661645","_rev":"_cfFlNUu---","tei":"\n\t\n\t\tR. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1057723bebd86661644"},"refKey":3},
{"_key":"60c3c1057723bebd86661646","_id":"references/60c3c1057723bebd86661646","_rev":"_cfFlNU2---","tei":"\n\t\n\t\tElegant Graphics for Data Analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c3c1057723bebd86661644"},"refKey":4},
{"_key":"60c3c1167723bebd8666164e","_id":"references/60c3c1167723bebd8666164e","_rev":"_cfFlNVC---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1167723bebd8666164d"},"refKey":0},
{"_key":"60c3c1167723bebd8666164f","_id":"references/60c3c1167723bebd8666164f","_rev":"_cfFlNVO---","tei":"\n\t\n\t\tPROCHECK: validation of protein-structure coordinates\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/97809553602060000882\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1167723bebd8666164d"},"refKey":31},
{"_key":"60c3c11a7723bebd86661659","_id":"references/60c3c11a7723bebd86661659","_rev":"_cfFlNVa---","tei":"\n\t\n\t\tJulia: a fresh approach to numerical computing\n\t\t\n\t\t\tJBezanson\n\t\t\n\t\t\n\t\t\tAEdelman\n\t\t\n\t\t\n\t\t\tSKarpinski\n\t\t\n\t\n\t\n\t\tSIAM Rev\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c11a7723bebd86661658"},"refKey":25},
{"_key":"60c3c1477723bebd8666166b","_id":"references/60c3c1477723bebd8666166b","_rev":"_cfFlNVm---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1477723bebd8666166a"},"refKey":47},
{"_key":"60c3c1477723bebd8666166c","_id":"references/60c3c1477723bebd8666166c","_rev":"_cfFlNVu---","tei":"\n\t\n\t\tphyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data\n\t\t\n\t\t\tPaulJMcmurdie\n\t\t\n\t\t\n\t\t\tSusanHolmes\n\t\t\n\t\t10.1371/journal.pone.0061217\n\t\t23630581\n\t\tPMC3632530\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\te61217\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c3c1477723bebd8666166a"},"refKey":35},
{"_key":"60c3c1477723bebd8666166d","_id":"references/60c3c1477723bebd8666166d","_rev":"_cfFlNV6---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximumlikelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1477723bebd8666166a"},"refKey":31},
{"_key":"60c3c1517723bebd86661678","_id":"references/60c3c1517723bebd86661678","_rev":"_cfFlNWG---","tei":"\n\t\n\t\tGlobal COVID-19 Tracker & Interactive Charts\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tThe COVID Tracking Project\n\n","document":{"$oid":"60c3c1517723bebd86661677"},"refKey":40},
{"_key":"60c3c1517723bebd86661679","_id":"references/60c3c1517723bebd86661679","_rev":"_cfFlNWS---","tei":"\n\t\n\t\tA parallel global multiobjective framework for optimization: PAGMO\n\t\t\n\t\t\tFBiscani\n\t\t\n\t\t\n\t\t\tDIzzo\n\t\t\n\t\t10.21105/joss.02338\n\t\n\t\n\t\tJ. Open Source Softw\n\t\t\n\t\t\t5\n\t\t\t53\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c3c1517723bebd86661677"},"refKey":72},
{"_key":"60c3c1597723bebd86661681","_id":"references/60c3c1597723bebd86661681","_rev":"_cfFlNWe---","tei":"\n\t\n\t\tRDP3: a flexible and fast computer program for analyzing recombination\n\t\t\n\t\t\tDMartin\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tMLott\n\t\t\n\t\t\n\t\t\tVMoulton\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tPLefeuvre\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1597723bebd86661680"},"refKey":28},
{"_key":"60c3c1597723bebd86661682","_id":"references/60c3c1597723bebd86661682","_rev":"_cfFlNWm---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using Maximum Likelihood, Evolutionary distance, and Maximum Parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1597723bebd86661680"},"refKey":45},
{"_key":"60c3c1597723bebd86661683","_id":"references/60c3c1597723bebd86661683","_rev":"_cfFlNWy---","tei":"\n\t\n\t\tDnaSP v5: a software for comprehensive analysis of DNA polymorphism data\n\t\t\n\t\t\tPLibrado\n\t\t\n\t\t\n\t\t\tJRozas\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c1597723bebd86661680"},"refKey":25},
{"_key":"60c3c1597723bebd86661684","_id":"references/60c3c1597723bebd86661684","_rev":"_cfFlNX----","tei":"\n\t\n\t\tThe Vienna RNA Websuite\n\t\t\n\t\t\tARGruber\n\t\t\n\t\t\n\t\t\tRLorenz\n\t\t\n\t\t\n\t\t\tSHBernhart\n\t\t\n\t\t\n\t\t\tRNeub€ Ock\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\n\t\n\tWeb Server Issue\n\n","document":{"$oid":"60c3c1597723bebd86661680"},"refKey":16},
{"_key":"60c3c16b7723bebd86661699","_id":"references/60c3c16b7723bebd86661699","_rev":"_cfFlNXS---","tei":"\n\t\n\t\tProspects for observing and localizing gravitational-wave transients with Advanced LIGO, Advanced Virgo and KAGRA\n\t\t\n\t\t\tBPAbbott\n\t\t\n\t\t\n\t\t\tRAbbott\n\t\t\n\t\t\n\t\t\tTDAbbott\n\t\t\n\t\t\n\t\t\tMRAbernathy\n\t\t\n\t\t\n\t\t\tFAcernese\n\t\t\n\t\t\n\t\t\tKAckley\n\t\t\n\t\t\n\t\t\tCAdams\n\t\t\n\t\t\n\t\t\tTAdams\n\t\t\n\t\t\n\t\t\tPAddesso\n\t\t\n\t\t\n\t\t\tRXAdhikari\n\t\t\n\t\t\n\t\t\tVBAdya\n\t\t\n\t\t\n\t\t\tCAffeldt\n\t\t\n\t\t\n\t\t\tMAgathos\n\t\t\n\t\t\n\t\t\tKAgatsuma\n\t\t\n\t\t\n\t\t\tNAggarwal\n\t\t\n\t\t\n\t\t\tODAguiar\n\t\t\n\t\t\n\t\t\tLAiello\n\t\t\n\t\t\n\t\t\tAAin\n\t\t\n\t\t\n\t\t\tPAjith\n\t\t\n\t\t\n\t\t\tTAkutsu\n\t\t\n\t\t\n\t\t\tBAllen\n\t\t\n\t\t\n\t\t\tAAllocca\n\t\t\n\t\t\n\t\t\tPAAltin\n\t\t\n\t\t\n\t\t\tAAnanyeva\n\t\t\n\t\t\n\t\t\tSBAnderson\n\t\t\n\t\t\n\t\t\tWGAnderson\n\t\t\n\t\t\n\t\t\tMAndo\n\t\t\n\t\t\n\t\t\tSAppert\n\t\t\n\t\t\n\t\t\tKArai\n\t\t\n\t\t\n\t\t\tAAraya\n\t\t\n\t\t\n\t\t\tMCAraya\n\t\t\n\t\t\n\t\t\tJSAreeda\n\t\t\n\t\t\n\t\t\tNArnaud\n\t\t\n\t\t\n\t\t\tKGArun\n\t\t\n\t\t\n\t\t\tHAsada\n\t\t\n\t\t\n\t\t\tSAscenzi\n\t\t\n\t\t\n\t\t\tGAshton\n\t\t\n\t\t\n\t\t\tYAso\n\t\t\n\t\t\n\t\t\tMAst\n\t\t\n\t\t\n\t\t\tSMAston\n\t\t\n\t\t\n\t\t\tPAstone\n\t\t\n\t\t\n\t\t\tSAtsuta\n\t\t\n\t\t\n\t\t\tPAufmuth\n\t\t\n\t\t\n\t\t\tCAulbert\n\t\t\n\t\t\n\t\t\tAAvila-Alvarez\n\t\t\n\t\t\n\t\t\tKAwai\n\t\t\n\t\t\n\t\t\tSBabak\n\t\t\n\t\t\n\t\t\tPBacon\n\t\t\n\t\t\n\t\t\tMK MBader\n\t\t\n\t\t\n\t\t\tLBaiotti\n\t\t\n\t\t\n\t\t\tPTBaker\n\t\t\n\t\t\n\t\t\tFBaldaccini\n\t\t\n\t\t\n\t\t\tGBallardin\n\t\t\n\t\t\n\t\t\tSWBallmer\n\t\t\n\t\t\n\t\t\tJCBarayoga\n\t\t\n\t\t\n\t\t\tSEBarclay\n\t\t\n\t\t\n\t\t\tBCBarish\n\t\t\n\t\t\n\t\t\tDBarker\n\t\t\n\t\t\n\t\t\tFBarone\n\t\t\n\t\t\n\t\t\tBBarr\n\t\t\n\t\t\n\t\t\tLBarsotti\n\t\t\n\t\t\n\t\t\tMBarsuglia\n\t\t\n\t\t\n\t\t\tDBarta\n\t\t\n\t\t\n\t\t\tJBartlett\n\t\t\n\t\t\n\t\t\tMABarton\n\t\t\n\t\t\n\t\t\tIBartos\n\t\t\n\t\t\n\t\t\tRBassiri\n\t\t\n\t\t\n\t\t\tABasti\n\t\t\n\t\t\n\t\t\tJCBatch\n\t\t\n\t\t\n\t\t\tCBaune\n\t\t\n\t\t\n\t\t\tVBavigadda\n\t\t\n\t\t\n\t\t\tMBazzan\n\t\t\n\t\t\n\t\t\tBBécsy\n\t\t\n\t\t\n\t\t\tCBeer\n\t\t\n\t\t\n\t\t\tMBejger\n\t\t\n\t\t\n\t\t\tIBelahcene\n\t\t\n\t\t\n\t\t\tMBelgin\n\t\t\n\t\t\n\t\t\tASBell\n\t\t\n\t\t\n\t\t\tBKBerger\n\t\t\n\t\t\n\t\t\tGBergmann\n\t\t\n\t\t\n\t\t\tCP LBerry\n\t\t\n\t\t\n\t\t\tDBersanetti\n\t\t\n\t\t\n\t\t\tABertolini\n\t\t\n\t\t\n\t\t\tJBetzwieser\n\t\t\n\t\t\n\t\t\tSBhagwat\n\t\t\n\t\t\n\t\t\tRBhandare\n\t\t\n\t\t\n\t\t\tIABilenko\n\t\t\n\t\t\n\t\t\tGBillingsley\n\t\t\n\t\t\n\t\t\tCRBillman\n\t\t\n\t\t\n\t\t\tJBirch\n\t\t\n\t\t\n\t\t\tRBirney\n\t\t\n\t\t\n\t\t\tOBirnholtz\n\t\t\n\t\t\n\t\t\tSBiscans\n\t\t\n\t\t\n\t\t\tABisht\n\t\t\n\t\t\n\t\t\tMBitossi\n\t\t\n\t\t\n\t\t\tCBiwer\n\t\t\n\t\t\n\t\t\tMABizouard\n\t\t\n\t\t\n\t\t\tJKBlackburn\n\t\t\n\t\t\n\t\t\tJBlackman\n\t\t\n\t\t\n\t\t\tCDBlair\n\t\t\n\t\t\n\t\t\tDGBlair\n\t\t\n\t\t\n\t\t\tRMBlair\n\t\t\n\t\t\n\t\t\tSBloemen\n\t\t\n\t\t\n\t\t\tOBock\n\t\t\n\t\t\n\t\t\tMBoer\n\t\t\n\t\t\n\t\t\tGBogaert\n\t\t\n\t\t\n\t\t\tABohe\n\t\t\n\t\t\n\t\t\tFBondu\n\t\t\n\t\t\n\t\t\tRBonnand\n\t\t\n\t\t\n\t\t\tBABoom\n\t\t\n\t\t\n\t\t\tRBork\n\t\t\n\t\t\n\t\t\tVBoschi\n\t\t\n\t\t\n\t\t\tSBose\n\t\t\n\t\t\n\t\t\tYBouffanais\n\t\t\n\t\t\n\t\t\tABozzi\n\t\t\n\t\t\n\t\t\tCBradaschia\n\t\t\n\t\t\n\t\t\tPRBrady\n\t\t\n\t\t\n\t\t\tVBBraginsky\n\t\t\n\t\t\n\t\t\tMBranchesi\n\t\t\n\t\t\n\t\t\tJEBrau\n\t\t\n\t\t\n\t\t\tTBriant\n\t\t\n\t\t\n\t\t\tABrillet\n\t\t\n\t\t\n\t\t\tMBrinkmann\n\t\t\n\t\t\n\t\t\tVBrisson\n\t\t\n\t\t\n\t\t\tPBrockill\n\t\t\n\t\t\n\t\t\tJEBroida\n\t\t\n\t\t\n\t\t\tAFBrooks\n\t\t\n\t\t\n\t\t\tDABrown\n\t\t\n\t\t\n\t\t\tDDBrown\n\t\t\n\t\t\n\t\t\tNMBrown\n\t\t\n\t\t\n\t\t\tSBrunett\n\t\t\n\t\t\n\t\t\tCCBuchanan\n\t\t\n\t\t\n\t\t\tABuikema\n\t\t\n\t\t\n\t\t\tTBulik\n\t\t\n\t\t\n\t\t\tHJBulten\n\t\t\n\t\t\n\t\t\tABuonanno\n\t\t\n\t\t\n\t\t\tDBuskulic\n\t\t\n\t\t\n\t\t\tCBuy\n\t\t\n\t\t\n\t\t\tRLByer\n\t\t\n\t\t\n\t\t\tMCabero\n\t\t\n\t\t\n\t\t\tLCadonati\n\t\t\n\t\t\n\t\t\tGCagnoli\n\t\t\n\t\t\n\t\t\tCCahillane\n\t\t\n\t\t\n\t\t\tJCalderón bustillo\n\t\t\n\t\t\n\t\t\tTACallister\n\t\t\n\t\t\n\t\t\tECalloni\n\t\t\n\t\t\n\t\t\tJBCamp\n\t\t\n\t\t\n\t\t\tKCCannon\n\t\t\n\t\t\n\t\t\tHCao\n\t\t\n\t\t\n\t\t\tJCao\n\t\t\n\t\t\n\t\t\tCDCapano\n\t\t\n\t\t\n\t\t\tECapocasa\n\t\t\n\t\t\n\t\t\tFCarbognani\n\t\t\n\t\t\n\t\t\tSCaride\n\t\t\n\t\t\n\t\t\tJCasanueva diaz\n\t\t\n\t\t\n\t\t\tCCasentini\n\t\t\n\t\t\n\t\t\tSCaudill\n\t\t\n\t\t\n\t\t\tMCavaglià\n\t\t\n\t\t\n\t\t\tFCavalier\n\t\t\n\t\t\n\t\t\tRCavalieri\n\t\t\n\t\t\n\t\t\tGCella\n\t\t\n\t\t\n\t\t\tCBCepeda\n\t\t\n\t\t\n\t\t\tLCerboni baiardi\n\t\t\n\t\t\n\t\t\tGCerretani\n\t\t\n\t\t\n\t\t\tECesarini\n\t\t\n\t\t\n\t\t\tSJChamberlin\n\t\t\n\t\t\n\t\t\tMChan\n\t\t\n\t\t\n\t\t\tSChao\n\t\t\n\t\t\n\t\t\tPCharlton\n\t\t\n\t\t\n\t\t\tEChassande-Mottin\n\t\t\n\t\t\n\t\t\tBDCheeseboro\n\t\t\n\t\t\n\t\t\tHYChen\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tH-PCheng\n\t\t\n\t\t\n\t\t\tAChincarini\n\t\t\n\t\t\n\t\t\tAChiummo\n\t\t\n\t\t\n\t\t\tTChmiel\n\t\t\n\t\t\n\t\t\tHSCho\n\t\t\n\t\t\n\t\t\tMCho\n\t\t\n\t\t\n\t\t\tJHChow\n\t\t\n\t\t\n\t\t\tNChristensen\n\t\t\n\t\t\n\t\t\tQChu\n\t\t\n\t\t\n\t\t\tAJ KChua\n\t\t\n\t\t\n\t\t\tSChua\n\t\t\n\t\t\n\t\t\tSChung\n\t\t\n\t\t\n\t\t\tGCiani\n\t\t\n\t\t\n\t\t\tFClara\n\t\t\n\t\t\n\t\t\tJAClark\n\t\t\n\t\t\n\t\t\tFCleva\n\t\t\n\t\t\n\t\t\tCCocchieri\n\t\t\n\t\t\n\t\t\tECoccia\n\t\t\n\t\t\n\t\t\tP-FCohadon\n\t\t\n\t\t\n\t\t\tAColla\n\t\t\n\t\t\n\t\t\tCGCollette\n\t\t\n\t\t\n\t\t\tLCominsky\n\t\t\n\t\t\n\t\t\tMConstancio\n\t\t\n\t\t\n\t\t\tLConti\n\t\t\n\t\t\n\t\t\tSJCooper\n\t\t\n\t\t\n\t\t\tTRCorbitt\n\t\t\n\t\t\n\t\t\tNCornish\n\t\t\n\t\t\n\t\t\tACorsi\n\t\t\n\t\t\n\t\t\tSCortese\n\t\t\n\t\t\n\t\t\tCACosta\n\t\t\n\t\t\n\t\t\tMWCoughlin\n\t\t\n\t\t\n\t\t\tSBCoughlin\n\t\t\n\t\t\n\t\t\tJ-PCoulon\n\t\t\n\t\t\n\t\t\tSTCountryman\n\t\t\n\t\t\n\t\t\tPCouvares\n\t\t\n\t\t\n\t\t\tPBCovas\n\t\t\n\t\t\n\t\t\tEECowan\n\t\t\n\t\t\n\t\t\tDMCoward\n\t\t\n\t\t\n\t\t\tMJCowart\n\t\t\n\t\t\n\t\t\tDCCoyne\n\t\t\n\t\t\n\t\t\tRCoyne\n\t\t\n\t\t\n\t\t\tJD ECreighton\n\t\t\n\t\t\n\t\t\tTDCreighton\n\t\t\n\t\t\n\t\t\tJCripe\n\t\t\n\t\t\n\t\t\tSGCrowder\n\t\t\n\t\t\n\t\t\tTJCullen\n\t\t\n\t\t\n\t\t\tACumming\n\t\t\n\t\t\n\t\t\tLCunningham\n\t\t\n\t\t\n\t\t\tECuoco\n\t\t\n\t\t\n\t\t\tTDalCanton\n\t\t\n\t\t\n\t\t\tSLDanilishin\n\t\t\n\t\t\n\t\t\tSD’antonio\n\t\t\n\t\t\n\t\t\tKDanzmann\n\t\t\n\t\t\n\t\t\tADasgupta\n\t\t\n\t\t\n\t\t\tCFDa Silva costa\n\t\t\n\t\t\n\t\t\tVDattilo\n\t\t\n\t\t\n\t\t\tIDave\n\t\t\n\t\t\n\t\t\tMDavier\n\t\t\n\t\t\n\t\t\tGSDavies\n\t\t\n\t\t\n\t\t\tDDavis\n\t\t\n\t\t\n\t\t\tEJDaw\n\t\t\n\t\t\n\t\t\tBDay\n\t\t\n\t\t\n\t\t\tRDay\n\t\t\n\t\t\n\t\t\tSDe\n\t\t\n\t\t\n\t\t\tDDebra\n\t\t\n\t\t\n\t\t\tGDebreczeni\n\t\t\n\t\t\n\t\t\tJDegallaix\n\t\t\n\t\t\n\t\t\tMDe Laurentis\n\t\t\n\t\t\n\t\t\tSDeléglise\n\t\t\n\t\t\n\t\t\tWDel Pozzo\n\t\t\n\t\t\n\t\t\tTDenker\n\t\t\n\t\t\n\t\t\tTDent\n\t\t\n\t\t\n\t\t\tVDergachev\n\t\t\n\t\t\n\t\t\tRDe Rosa\n\t\t\n\t\t\n\t\t\tRTDerosa\n\t\t\n\t\t\n\t\t\tRDesalvo\n\t\t\n\t\t\n\t\t\tRCDevine\n\t\t\n\t\t\n\t\t\tSDhurandhar\n\t\t\n\t\t\n\t\t\tMCDíaz\n\t\t\n\t\t\n\t\t\tLDiFiore\n\t\t\n\t\t\n\t\t\tMDiGiovanni\n\t\t\n\t\t\n\t\t\tTDiGirolamo\n\t\t\n\t\t\n\t\t\tADiLieto\n\t\t\n\t\t\n\t\t\tSDiPace\n\t\t\n\t\t\n\t\t\tIDiPalma\n\t\t\n\t\t\n\t\t\tADiVirgilio\n\t\t\n\t\t\n\t\t\tZDoctor\n\t\t\n\t\t\n\t\t\tKDoi\n\t\t\n\t\t\n\t\t\tVDolique\n\t\t\n\t\t\n\t\t\tFDonovan\n\t\t\n\t\t\n\t\t\tKLDooley\n\t\t\n\t\t\n\t\t\tSDoravari\n\t\t\n\t\t\n\t\t\tIDorrington\n\t\t\n\t\t\n\t\t\tRDouglas\n\t\t\n\t\t\n\t\t\tMDovale álvarez\n\t\t\n\t\t\n\t\t\tTPDownes\n\t\t\n\t\t\n\t\t\tMDrago\n\t\t\n\t\t\n\t\t\tRW PDrever\n\t\t\n\t\t\n\t\t\tJCDriggers\n\t\t\n\t\t\n\t\t\tZDu\n\t\t\n\t\t\n\t\t\tMDucrot\n\t\t\n\t\t\n\t\t\tSEDwyer\n\t\t\n\t\t\n\t\t\tKEda\n\t\t\n\t\t\n\t\t\tTBEdo\n\t\t\n\t\t\n\t\t\tMCEdwards\n\t\t\n\t\t\n\t\t\tAEffler\n\t\t\n\t\t\n\t\t\tH-BEggenstein\n\t\t\n\t\t\n\t\t\tPEhrens\n\t\t\n\t\t\n\t\t\tJEichholz\n\t\t\n\t\t\n\t\t\tSSEikenberry\n\t\t\n\t\t\n\t\t\tRAEisenstein\n\t\t\n\t\t\n\t\t\tRCEssick\n\t\t\n\t\t\n\t\t\tZEtienne\n\t\t\n\t\t\n\t\t\tTEtzel\n\t\t\n\t\t\n\t\t\tMEvans\n\t\t\n\t\t\n\t\t\tTMEvans\n\t\t\n\t\t\n\t\t\tREverett\n\t\t\n\t\t\n\t\t\tMFactourovich\n\t\t\n\t\t\n\t\t\tVFafone\n\t\t\n\t\t\n\t\t\tHFair\n\t\t\n\t\t\n\t\t\tSFairhurst\n\t\t\n\t\t\n\t\t\tXFan\n\t\t\n\t\t\n\t\t\tSFarinon\n\t\t\n\t\t\n\t\t\tBFarr\n\t\t\n\t\t\n\t\t\tWMFarr\n\t\t\n\t\t\n\t\t\tEJFauchon-Jones\n\t\t\n\t\t\n\t\t\tMFavata\n\t\t\n\t\t\n\t\t\tMFays\n\t\t\n\t\t\n\t\t\tHFehrmann\n\t\t\n\t\t\n\t\t\tMMFejer\n\t\t\n\t\t\n\t\t\tAFernández galiana\n\t\t\n\t\t\n\t\t\tIFerrante\n\t\t\n\t\t\n\t\t\tECFerreira\n\t\t\n\t\t\n\t\t\tFFerrini\n\t\t\n\t\t\n\t\t\tFFidecaro\n\t\t\n\t\t\n\t\t\tIFiori\n\t\t\n\t\t\n\t\t\tDFiorucci\n\t\t\n\t\t\n\t\t\tRPFisher\n\t\t\n\t\t\n\t\t\tRFlaminio\n\t\t\n\t\t\n\t\t\tMFletcher\n\t\t\n\t\t\n\t\t\tHFong\n\t\t\n\t\t\n\t\t\tSSForsyth\n\t\t\n\t\t\n\t\t\tJ-DFournier\n\t\t\n\t\t\n\t\t\tSFrasca\n\t\t\n\t\t\n\t\t\tFFrasconi\n\t\t\n\t\t\n\t\t\tZFrei\n\t\t\n\t\t\n\t\t\tAFreise\n\t\t\n\t\t\n\t\t\tRFrey\n\t\t\n\t\t\n\t\t\tVFrey\n\t\t\n\t\t\n\t\t\tEMFries\n\t\t\n\t\t\n\t\t\tPFritschel\n\t\t\n\t\t\n\t\t\tVVFrolov\n\t\t\n\t\t\n\t\t\tYFujii\n\t\t\n\t\t\n\t\t\tM-KFujimoto\n\t\t\n\t\t\n\t\t\tPFulda\n\t\t\n\t\t\n\t\t\tMFyffe\n\t\t\n\t\t\n\t\t\tHGabbard\n\t\t\n\t\t\n\t\t\tBUGadre\n\t\t\n\t\t\n\t\t\tSMGaebel\n\t\t\n\t\t\n\t\t\tJRGair\n\t\t\n\t\t\n\t\t\tLGammaitoni\n\t\t\n\t\t\n\t\t\tSGGaonkar\n\t\t\n\t\t\n\t\t\tFGarufi\n\t\t\n\t\t\n\t\t\tGGaur\n\t\t\n\t\t\n\t\t\tVGayathri\n\t\t\n\t\t\n\t\t\tNGehrels\n\t\t\n\t\t\n\t\t\tGGemme\n\t\t\n\t\t\n\t\t\tEGenin\n\t\t\n\t\t\n\t\t\tAGennai\n\t\t\n\t\t\n\t\t\tJGeorge\n\t\t\n\t\t\n\t\t\tLGergely\n\t\t\n\t\t\n\t\t\tVGermain\n\t\t\n\t\t\n\t\t\tSGhonge\n\t\t\n\t\t\n\t\t\tAbhirupGhosh\n\t\t\n\t\t\n\t\t\tArchismanGhosh\n\t\t\n\t\t\n\t\t\tSGhosh\n\t\t\n\t\t\n\t\t\tJAGiaime\n\t\t\n\t\t\n\t\t\tKDGiardina\n\t\t\n\t\t\n\t\t\tAGiazotto\n\t\t\n\t\t\n\t\t\tKGill\n\t\t\n\t\t\n\t\t\tAGlaefke\n\t\t\n\t\t\n\t\t\tEGoetz\n\t\t\n\t\t\n\t\t\tRGoetz\n\t\t\n\t\t\n\t\t\tLGondan\n\t\t\n\t\t\n\t\t\tGGonzález\n\t\t\n\t\t\n\t\t\tJMGonzalez castro\n\t\t\n\t\t\n\t\t\tAGopakumar\n\t\t\n\t\t\n\t\t\tMLGorodetsky\n\t\t\n\t\t\n\t\t\tSEGossan\n\t\t\n\t\t\n\t\t\tMGosselin\n\t\t\n\t\t\n\t\t\tRGouaty\n\t\t\n\t\t\n\t\t\tAGrado\n\t\t\n\t\t\n\t\t\tCGraef\n\t\t\n\t\t\n\t\t\tMGranata\n\t\t\n\t\t\n\t\t\tAGrant\n\t\t\n\t\t\n\t\t\tSGras\n\t\t\n\t\t\n\t\t\tCGray\n\t\t\n\t\t\n\t\t\tGGreco\n\t\t\n\t\t\n\t\t\tACGreen\n\t\t\n\t\t\n\t\t\tPGroot\n\t\t\n\t\t\n\t\t\tHGrote\n\t\t\n\t\t\n\t\t\tSGrunewald\n\t\t\n\t\t\n\t\t\tGMGuidi\n\t\t\n\t\t\n\t\t\tXGuo\n\t\t\n\t\t\n\t\t\tAGupta\n\t\t\n\t\t\n\t\t\tMKGupta\n\t\t\n\t\t\n\t\t\tKEGushwa\n\t\t\n\t\t\n\t\t\tEKGustafson\n\t\t\n\t\t\n\t\t\tRGustafson\n\t\t\n\t\t\n\t\t\tJJHacker\n\t\t\n\t\t\n\t\t\tAHagiwara\n\t\t\n\t\t\n\t\t\tBRHall\n\t\t\n\t\t\n\t\t\tEDHall\n\t\t\n\t\t\n\t\t\tGHammond\n\t\t\n\t\t\n\t\t\tMHaney\n\t\t\n\t\t\n\t\t\tMMHanke\n\t\t\n\t\t\n\t\t\tJHanks\n\t\t\n\t\t\n\t\t\tCHanna\n\t\t\n\t\t\n\t\t\tMDHannam\n\t\t\n\t\t\n\t\t\tJHanson\n\t\t\n\t\t\n\t\t\tTHardwick\n\t\t\n\t\t\n\t\t\tJHarms\n\t\t\n\t\t\n\t\t\tGMHarry\n\t\t\n\t\t\n\t\t\tIWHarry\n\t\t\n\t\t\n\t\t\tMJHart\n\t\t\n\t\t\n\t\t\tMTHartman\n\t\t\n\t\t\n\t\t\tC-JHaster\n\t\t\n\t\t\n\t\t\tKHaughian\n\t\t\n\t\t\n\t\t\tKHayama\n\t\t\n\t\t\n\t\t\tJHealy\n\t\t\n\t\t\n\t\t\tAHeidmann\n\t\t\n\t\t\n\t\t\tMCHeintze\n\t\t\n\t\t\n\t\t\tHHeitmann\n\t\t\n\t\t\n\t\t\tPHello\n\t\t\n\t\t\n\t\t\tGHemming\n\t\t\n\t\t\n\t\t\tMHendry\n\t\t\n\t\t\n\t\t\tISHeng\n\t\t\n\t\t\n\t\t\tJHennig\n\t\t\n\t\t\n\t\t\tJHenry\n\t\t\n\t\t\n\t\t\tAWHeptonstall\n\t\t\n\t\t\n\t\t\tMHeurs\n\t\t\n\t\t\n\t\t\tSHild\n\t\t\n\t\t\n\t\t\tEHirose\n\t\t\n\t\t\n\t\t\tDHoak\n\t\t\n\t\t\n\t\t\tDHofman\n\t\t\n\t\t\n\t\t\tKHolt\n\t\t\n\t\t\n\t\t\tDEHolz\n\t\t\n\t\t\n\t\t\tPHopkins\n\t\t\n\t\t\n\t\t\tJHough\n\t\t\n\t\t\n\t\t\tEAHouston\n\t\t\n\t\t\n\t\t\tEJHowell\n\t\t\n\t\t\n\t\t\tYMHu\n\t\t\n\t\t\n\t\t\tEAHuerta\n\t\t\n\t\t\n\t\t\tDHuet\n\t\t\n\t\t\n\t\t\tBHughey\n\t\t\n\t\t\n\t\t\tSHusa\n\t\t\n\t\t\n\t\t\tSHHuttner\n\t\t\n\t\t\n\t\t\tTHuynh-Dinh\n\t\t\n\t\t\n\t\t\tNIndik\n\t\t\n\t\t\n\t\t\tDRIngram\n\t\t\n\t\t\n\t\t\tRInta\n\t\t\n\t\t\n\t\t\tKIoka\n\t\t\n\t\t\n\t\t\tHNIsa\n\t\t\n\t\t\n\t\t\tJ-MIsac\n\t\t\n\t\t\n\t\t\tMIsi\n\t\t\n\t\t\n\t\t\tTIsogai\n\t\t\n\t\t\n\t\t\tYItoh\n\t\t\n\t\t\n\t\t\tBRIyer\n\t\t\n\t\t\n\t\t\tKIzumi\n\t\t\n\t\t\n\t\t\tTJacqmin\n\t\t\n\t\t\n\t\t\tKJani\n\t\t\n\t\t\n\t\t\tPJaranowski\n\t\t\n\t\t\n\t\t\tSJawahar\n\t\t\n\t\t\n\t\t\tFJiménez-Forteza\n\t\t\n\t\t\n\t\t\tWWJohnson\n\t\t\n\t\t\n\t\t\tDIJones\n\t\t\n\t\t\n\t\t\tRJones\n\t\t\n\t\t\n\t\t\tRJ GJonker\n\t\t\n\t\t\n\t\t\tLJu\n\t\t\n\t\t\n\t\t\tJJunker\n\t\t\n\t\t\n\t\t\tTKagawa\n\t\t\n\t\t\n\t\t\tTKajita\n\t\t\n\t\t\n\t\t\tMKakizaki\n\t\t\n\t\t\n\t\t\tCVKalaghatgi\n\t\t\n\t\t\n\t\t\tVKalogera\n\t\t\n\t\t\n\t\t\tMKamiizumi\n\t\t\n\t\t\n\t\t\tNKanda\n\t\t\n\t\t\n\t\t\tSKandhasamy\n\t\t\n\t\t\n\t\t\tSKanemura\n\t\t\n\t\t\n\t\t\tMKaneyama\n\t\t\n\t\t\n\t\t\tGKang\n\t\t\n\t\t\n\t\t\tJBKanner\n\t\t\n\t\t\n\t\t\tSKarki\n\t\t\n\t\t\n\t\t\tKSKarvinen\n\t\t\n\t\t\n\t\t\tMKasprzack\n\t\t\n\t\t\n\t\t\tYKataoka\n\t\t\n\t\t\n\t\t\tEKatsavounidis\n\t\t\n\t\t\n\t\t\tWKatzman\n\t\t\n\t\t\n\t\t\tSKaufer\n\t\t\n\t\t\n\t\t\tTKaur\n\t\t\n\t\t\n\t\t\tKKawabe\n\t\t\n\t\t\n\t\t\tNKawai\n\t\t\n\t\t\n\t\t\tSKawamura\n\t\t\n\t\t\n\t\t\tFKéfélian\n\t\t\n\t\t\n\t\t\tDKeitel\n\t\t\n\t\t\n\t\t\tDBKelley\n\t\t\n\t\t\n\t\t\tRKennedy\n\t\t\n\t\t\n\t\t\tJSKey\n\t\t\n\t\t\n\t\t\tFYKhalili\n\t\t\n\t\t\n\t\t\tIKhan\n\t\t\n\t\t\n\t\t\tSKhan\n\t\t\n\t\t\n\t\t\tZKhan\n\t\t\n\t\t\n\t\t\tEAKhazanov\n\t\t\n\t\t\n\t\t\tNKijbunchoo\n\t\t\n\t\t\n\t\t\tCKim\n\t\t\n\t\t\n\t\t\tHKim\n\t\t\n\t\t\n\t\t\tJCKim\n\t\t\n\t\t\n\t\t\tJKim\n\t\t\n\t\t\n\t\t\tWKim\n\t\t\n\t\t\n\t\t\tY-MKim\n\t\t\n\t\t\n\t\t\tSJKimbrell\n\t\t\n\t\t\n\t\t\tNKimura\n\t\t\n\t\t\n\t\t\tEJKing\n\t\t\n\t\t\n\t\t\tPJKing\n\t\t\n\t\t\n\t\t\tRKirchhoff\n\t\t\n\t\t\n\t\t\tJSKissel\n\t\t\n\t\t\n\t\t\tBKlein\n\t\t\n\t\t\n\t\t\tLKleybolte\n\t\t\n\t\t\n\t\t\tSKlimenko\n\t\t\n\t\t\n\t\t\tPKoch\n\t\t\n\t\t\n\t\t\tSMKoehlenbeck\n\t\t\n\t\t\n\t\t\tYKojima\n\t\t\n\t\t\n\t\t\tKKokeyama\n\t\t\n\t\t\n\t\t\tSKoley\n\t\t\n\t\t\n\t\t\tKKomori\n\t\t\n\t\t\n\t\t\tVKondrashov\n\t\t\n\t\t\n\t\t\tAKontos\n\t\t\n\t\t\n\t\t\tMKorobko\n\t\t\n\t\t\n\t\t\tWZKorth\n\t\t\n\t\t\n\t\t\tKKotake\n\t\t\n\t\t\n\t\t\tIKowalska\n\t\t\n\t\t\n\t\t\tDBKozak\n\t\t\n\t\t\n\t\t\tCKrämer\n\t\t\n\t\t\n\t\t\tVKringel\n\t\t\n\t\t\n\t\t\tBKrishnan\n\t\t\n\t\t\n\t\t\tAKrólak\n\t\t\n\t\t\n\t\t\tGKuehn\n\t\t\n\t\t\n\t\t\tPKumar\n\t\t\n\t\t\n\t\t\tRahulKumar\n\t\t\n\t\t\n\t\t\tRakeshKumar\n\t\t\n\t\t\n\t\t\tLKuo\n\t\t\n\t\t\n\t\t\tKKuroda\n\t\t\n\t\t\n\t\t\tAKutynia\n\t\t\n\t\t\n\t\t\tYKuwahara\n\t\t\n\t\t\n\t\t\tBDLackey\n\t\t\n\t\t\n\t\t\tMLandry\n\t\t\n\t\t\n\t\t\tRNLang\n\t\t\n\t\t\n\t\t\tJLange\n\t\t\n\t\t\n\t\t\tBLantz\n\t\t\n\t\t\n\t\t\tRKLanza\n\t\t\n\t\t\n\t\t\tALartaux-Vollard\n\t\t\n\t\t\n\t\t\tPDLasky\n\t\t\n\t\t\n\t\t\tMLaxen\n\t\t\n\t\t\n\t\t\tALazzarini\n\t\t\n\t\t\n\t\t\tCLazzaro\n\t\t\n\t\t\n\t\t\tPLeaci\n\t\t\n\t\t\n\t\t\tSLeavey\n\t\t\n\t\t\n\t\t\tEOLebigot\n\t\t\n\t\t\n\t\t\tCHLee\n\t\t\n\t\t\n\t\t\tHKLee\n\t\t\n\t\t\n\t\t\tHMLee\n\t\t\n\t\t\n\t\t\tHWLee\n\t\t\n\t\t\n\t\t\tKLee\n\t\t\n\t\t\n\t\t\tJLehmann\n\t\t\n\t\t\n\t\t\tALenon\n\t\t\n\t\t\n\t\t\tMLeonardi\n\t\t\n\t\t\n\t\t\tJRLeong\n\t\t\n\t\t\n\t\t\tNLeroy\n\t\t\n\t\t\n\t\t\tNLetendre\n\t\t\n\t\t\n\t\t\tYLevin\n\t\t\n\t\t\n\t\t\tTG FLi\n\t\t\n\t\t\n\t\t\tALibson\n\t\t\n\t\t\n\t\t\tTBLittenberg\n\t\t\n\t\t\n\t\t\tJLiu\n\t\t\n\t\t\n\t\t\tNALockerbie\n\t\t\n\t\t\n\t\t\tALLombardi\n\t\t\n\t\t\n\t\t\tLTLondon\n\t\t\n\t\t\n\t\t\tJELord\n\t\t\n\t\t\n\t\t\tMLorenzini\n\t\t\n\t\t\n\t\t\tVLoriette\n\t\t\n\t\t\n\t\t\tMLormand\n\t\t\n\t\t\n\t\t\tGLosurdo\n\t\t\n\t\t\n\t\t\tJDLough\n\t\t\n\t\t\n\t\t\tCOLousto\n\t\t\n\t\t\n\t\t\tGLovelace\n\t\t\n\t\t\n\t\t\tHLück\n\t\t\n\t\t\n\t\t\tAPLundgren\n\t\t\n\t\t\n\t\t\tRLynch\n\t\t\n\t\t\n\t\t\tYMa\n\t\t\n\t\t\n\t\t\tSMacfoy\n\t\t\n\t\t\n\t\t\tBMachenschalk\n\t\t\n\t\t\n\t\t\tMMacinnis\n\t\t\n\t\t\n\t\t\tDMMacleod\n\t\t\n\t\t\n\t\t\tFMagaña-Sandoval\n\t\t\n\t\t\n\t\t\tEMajorana\n\t\t\n\t\t\n\t\t\tIMaksimovic\n\t\t\n\t\t\n\t\t\tVMalvezzi\n\t\t\n\t\t\n\t\t\tNMan\n\t\t\n\t\t\n\t\t\tVMandic\n\t\t\n\t\t\n\t\t\tVMangano\n\t\t\n\t\t\n\t\t\tSMano\n\t\t\n\t\t\n\t\t\tGLMansell\n\t\t\n\t\t\n\t\t\tMManske\n\t\t\n\t\t\n\t\t\tMMantovani\n\t\t\n\t\t\n\t\t\tFMarchesoni\n\t\t\n\t\t\n\t\t\tMMarchio\n\t\t\n\t\t\n\t\t\tFMarion\n\t\t\n\t\t\n\t\t\tSMárka\n\t\t\n\t\t\n\t\t\tZMárka\n\t\t\n\t\t\n\t\t\tASMarkosyan\n\t\t\n\t\t\n\t\t\tEMaros\n\t\t\n\t\t\n\t\t\tFMartelli\n\t\t\n\t\t\n\t\t\tLMartellini\n\t\t\n\t\t\n\t\t\tIWMartin\n\t\t\n\t\t\n\t\t\tDVMartynov\n\t\t\n\t\t\n\t\t\tKMason\n\t\t\n\t\t\n\t\t\tAMasserot\n\t\t\n\t\t\n\t\t\tTJMassinger\n\t\t\n\t\t\n\t\t\tMMasso-Reid\n\t\t\n\t\t\n\t\t\tSMastrogiovanni\n\t\t\n\t\t\n\t\t\tFMatichard\n\t\t\n\t\t\n\t\t\tLMatone\n\t\t\n\t\t\n\t\t\tNMatsumoto\n\t\t\n\t\t\n\t\t\tFMatsushima\n\t\t\n\t\t\n\t\t\tNMavalvala\n\t\t\n\t\t\n\t\t\tNMazumder\n\t\t\n\t\t\n\t\t\tRMccarthy\n\t\t\n\t\t\n\t\t\tDEMcclelland\n\t\t\n\t\t\n\t\t\tSMccormick\n\t\t\n\t\t\n\t\t\tCMcgrath\n\t\t\n\t\t\n\t\t\tSCMcguire\n\t\t\n\t\t\n\t\t\tGMcintyre\n\t\t\n\t\t\n\t\t\tJMciver\n\t\t\n\t\t\n\t\t\tDJMcmanus\n\t\t\n\t\t\n\t\t\tTMcrae\n\t\t\n\t\t\n\t\t\tSTMcwilliams\n\t\t\n\t\t\n\t\t\tDMeacher\n\t\t\n\t\t\n\t\t\tGDMeadors\n\t\t\n\t\t\n\t\t\tJMeidam\n\t\t\n\t\t\n\t\t\tAMelatos\n\t\t\n\t\t\n\t\t\tGMendell\n\t\t\n\t\t\n\t\t\tDMendoza-Gandara\n\t\t\n\t\t\n\t\t\tRAMercer\n\t\t\n\t\t\n\t\t\tELMerilh\n\t\t\n\t\t\n\t\t\tMMerzougui\n\t\t\n\t\t\n\t\t\tSMeshkov\n\t\t\n\t\t\n\t\t\tCMessenger\n\t\t\n\t\t\n\t\t\tCMessick\n\t\t\n\t\t\n\t\t\tRMetzdorff\n\t\t\n\t\t\n\t\t\tPMMeyers\n\t\t\n\t\t\n\t\t\tFMezzani\n\t\t\n\t\t\n\t\t\tHMiao\n\t\t\n\t\t\n\t\t\tCMichel\n\t\t\n\t\t\n\t\t\tYMichimura\n\t\t\n\t\t\n\t\t\tHMiddleton\n\t\t\n\t\t\n\t\t\tEEMikhailov\n\t\t\n\t\t\n\t\t\tLMilano\n\t\t\n\t\t\n\t\t\tALMiller\n\t\t\n\t\t\n\t\t\tAMiller\n\t\t\n\t\t\n\t\t\tBBMiller\n\t\t\n\t\t\n\t\t\tJMiller\n\t\t\n\t\t\n\t\t\tMMillhouse\n\t\t\n\t\t\n\t\t\tYMinenkov\n\t\t\n\t\t\n\t\t\tJMing\n\t\t\n\t\t\n\t\t\tSMirshekari\n\t\t\n\t\t\n\t\t\tCMishra\n\t\t\n\t\t\n\t\t\tVPMitrofanov\n\t\t\n\t\t\n\t\t\tGMitselmakher\n\t\t\n\t\t\n\t\t\tRMittleman\n\t\t\n\t\t\n\t\t\tOMiyakawa\n\t\t\n\t\t\n\t\t\tAMiyamoto\n\t\t\n\t\t\n\t\t\tTMiyamoto\n\t\t\n\t\t\n\t\t\tSMiyoki\n\t\t\n\t\t\n\t\t\tAMoggi\n\t\t\n\t\t\n\t\t\tMMohan\n\t\t\n\t\t\n\t\t\tSR PMohapatra\n\t\t\n\t\t\n\t\t\tMMontani\n\t\t\n\t\t\n\t\t\tBCMoore\n\t\t\n\t\t\n\t\t\tCJMoore\n\t\t\n\t\t\n\t\t\tDMoraru\n\t\t\n\t\t\n\t\t\tGMoreno\n\t\t\n\t\t\n\t\t\tWMorii\n\t\t\n\t\t\n\t\t\tSMorisaki\n\t\t\n\t\t\n\t\t\tYMoriwaki\n\t\t\n\t\t\n\t\t\tSRMorriss\n\t\t\n\t\t\n\t\t\tBMours\n\t\t\n\t\t\n\t\t\tCMMow-Lowry\n\t\t\n\t\t\n\t\t\tGMueller\n\t\t\n\t\t\n\t\t\tAWMuir\n\t\t\n\t\t\n\t\t\tArunavaMukherjee\n\t\t\n\t\t\n\t\t\tDMukherjee\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tNMukund\n\t\t\n\t\t\n\t\t\tAMullavey\n\t\t\n\t\t\n\t\t\tJMunch\n\t\t\n\t\t\n\t\t\tEA MMuniz\n\t\t\n\t\t\n\t\t\tPGMurray\n\t\t\n\t\t\n\t\t\tAMytidis\n\t\t\n\t\t\n\t\t\tSNagano\n\t\t\n\t\t\n\t\t\tKNakamura\n\t\t\n\t\t\n\t\t\tTNakamura\n\t\t\n\t\t\n\t\t\tHNakano\n\t\t\n\t\t\n\t\t\tMasayaNakano\n\t\t\n\t\t\n\t\t\tMasayukiNakano\n\t\t\n\t\t\n\t\t\tKNakao\n\t\t\n\t\t\n\t\t\tKNapier\n\t\t\n\t\t\n\t\t\tINardecchia\n\t\t\n\t\t\n\t\t\tTNarikawa\n\t\t\n\t\t\n\t\t\tLNaticchioni\n\t\t\n\t\t\n\t\t\tGNelemans\n\t\t\n\t\t\n\t\t\tTJ NNelson\n\t\t\n\t\t\n\t\t\tMNeri\n\t\t\n\t\t\n\t\t\tMNery\n\t\t\n\t\t\n\t\t\tANeunzert\n\t\t\n\t\t\n\t\t\tJMNewport\n\t\t\n\t\t\n\t\t\tGNewton\n\t\t\n\t\t\n\t\t\tTTNguyen\n\t\t\n\t\t\n\t\t\tW-TNi\n\t\t\n\t\t\n\t\t\tABNielsen\n\t\t\n\t\t\n\t\t\tSNissanke\n\t\t\n\t\t\n\t\t\tANitz\n\t\t\n\t\t\n\t\t\tANoack\n\t\t\n\t\t\n\t\t\tFNocera\n\t\t\n\t\t\n\t\t\tDNolting\n\t\t\n\t\t\n\t\t\tME NNormandin\n\t\t\n\t\t\n\t\t\tLKNuttall\n\t\t\n\t\t\n\t\t\tJOberling\n\t\t\n\t\t\n\t\t\tEOchsner\n\t\t\n\t\t\n\t\t\tEOelker\n\t\t\n\t\t\n\t\t\tGHOgin\n\t\t\n\t\t\n\t\t\tJJOh\n\t\t\n\t\t\n\t\t\tSHOh\n\t\t\n\t\t\n\t\t\tMOhashi\n\t\t\n\t\t\n\t\t\tNOhishi\n\t\t\n\t\t\n\t\t\tMOhkawa\n\t\t\n\t\t\n\t\t\tFOhme\n\t\t\n\t\t\n\t\t\tKOkutomi\n\t\t\n\t\t\n\t\t\tMOliver\n\t\t\n\t\t\n\t\t\tKOno\n\t\t\n\t\t\n\t\t\tYOno\n\t\t\n\t\t\n\t\t\tKOohara\n\t\t\n\t\t\n\t\t\tPOppermann\n\t\t\n\t\t\n\t\t\tRichardJOram\n\t\t\n\t\t\n\t\t\tBO’reilly\n\t\t\n\t\t\n\t\t\tRO’shaughnessy\n\t\t\n\t\t\n\t\t\tDJOttaway\n\t\t\n\t\t\n\t\t\tHOvermier\n\t\t\n\t\t\n\t\t\tBJOwen\n\t\t\n\t\t\n\t\t\tAEPace\n\t\t\n\t\t\n\t\t\tJPage\n\t\t\n\t\t\n\t\t\tAPai\n\t\t\n\t\t\n\t\t\tSAPai\n\t\t\n\t\t\n\t\t\tJRPalamos\n\t\t\n\t\t\n\t\t\tOPalashov\n\t\t\n\t\t\n\t\t\tCPalomba\n\t\t\n\t\t\n\t\t\tAPal-Singh\n\t\t\n\t\t\n\t\t\tHPan\n\t\t\n\t\t\n\t\t\tCPankow\n\t\t\n\t\t\n\t\t\tFPannarale\n\t\t\n\t\t\n\t\t\tBCPant\n\t\t\n\t\t\n\t\t\tFPaoletti\n\t\t\n\t\t\n\t\t\tAPaoli\n\t\t\n\t\t\n\t\t\tMAPapa\n\t\t\n\t\t\n\t\t\tHRParis\n\t\t\n\t\t\n\t\t\tWParker\n\t\t\n\t\t\n\t\t\tDPascucci\n\t\t\n\t\t\n\t\t\tAPasqualetti\n\t\t\n\t\t\n\t\t\tRPassaquieti\n\t\t\n\t\t\n\t\t\tDPassuello\n\t\t\n\t\t\n\t\t\tBPatricelli\n\t\t\n\t\t\n\t\t\tBLPearlstone\n\t\t\n\t\t\n\t\t\tMPedraza\n\t\t\n\t\t\n\t\t\tRPedurand\n\t\t\n\t\t\n\t\t\tLPekowsky\n\t\t\n\t\t\n\t\t\tAPele\n\t\t\n\t\t\n\t\t\tFEPeña arellano\n\t\t\n\t\t\n\t\t\tSPenn\n\t\t\n\t\t\n\t\t\tCJPerez\n\t\t\n\t\t\n\t\t\tAPerreca\n\t\t\n\t\t\n\t\t\tLMPerri\n\t\t\n\t\t\n\t\t\tHPPfeiffer\n\t\t\n\t\t\n\t\t\tMPhelps\n\t\t\n\t\t\n\t\t\tOJPiccinni\n\t\t\n\t\t\n\t\t\tMPichot\n\t\t\n\t\t\n\t\t\tFPiergiovanni\n\t\t\n\t\t\n\t\t\tVPierro\n\t\t\n\t\t\n\t\t\tGPillant\n\t\t\n\t\t\n\t\t\tLPinard\n\t\t\n\t\t\n\t\t\tIMPinto\n\t\t\n\t\t\n\t\t\tMPitkin\n\t\t\n\t\t\n\t\t\tMPoe\n\t\t\n\t\t\n\t\t\tRPoggiani\n\t\t\n\t\t\n\t\t\tPPopolizio\n\t\t\n\t\t\n\t\t\tAPost\n\t\t\n\t\t\n\t\t\tJPowell\n\t\t\n\t\t\n\t\t\tJPrasad\n\t\t\n\t\t\n\t\t\tJW WPratt\n\t\t\n\t\t\n\t\t\tVPredoi\n\t\t\n\t\t\n\t\t\tTPrestegard\n\t\t\n\t\t\n\t\t\tMPrijatelj\n\t\t\n\t\t\n\t\t\tMPrincipe\n\t\t\n\t\t\n\t\t\tSPrivitera\n\t\t\n\t\t\n\t\t\tGAProdi\n\t\t\n\t\t\n\t\t\tLGProkhorov\n\t\t\n\t\t\n\t\t\tOPuncken\n\t\t\n\t\t\n\t\t\tMPunturo\n\t\t\n\t\t\n\t\t\tPPuppo\n\t\t\n\t\t\n\t\t\tMPürrer\n\t\t\n\t\t\n\t\t\tHQi\n\t\t\n\t\t\n\t\t\tJQin\n\t\t\n\t\t\n\t\t\tSQiu\n\t\t\n\t\t\n\t\t\tVQuetschke\n\t\t\n\t\t\n\t\t\tEAQuintero\n\t\t\n\t\t\n\t\t\tRQuitzow-James\n\t\t\n\t\t\n\t\t\tFJRaab\n\t\t\n\t\t\n\t\t\tDSRabeling\n\t\t\n\t\t\n\t\t\tHRadkins\n\t\t\n\t\t\n\t\t\tPRaffai\n\t\t\n\t\t\n\t\t\tSRaja\n\t\t\n\t\t\n\t\t\tCRajan\n\t\t\n\t\t\n\t\t\tMRakhmanov\n\t\t\n\t\t\n\t\t\tPRapagnani\n\t\t\n\t\t\n\t\t\tVRaymond\n\t\t\n\t\t\n\t\t\tMRazzano\n\t\t\n\t\t\n\t\t\tVRe\n\t\t\n\t\t\n\t\t\tJRead\n\t\t\n\t\t\n\t\t\tTRegimbau\n\t\t\n\t\t\n\t\t\tLRei\n\t\t\n\t\t\n\t\t\tSReid\n\t\t\n\t\t\n\t\t\tDHReitze\n\t\t\n\t\t\n\t\t\tHRew\n\t\t\n\t\t\n\t\t\tSDReyes\n\t\t\n\t\t\n\t\t\tERhoades\n\t\t\n\t\t\n\t\t\tFRicci\n\t\t\n\t\t\n\t\t\tKRiles\n\t\t\n\t\t\n\t\t\tMRizzo\n\t\t\n\t\t\n\t\t\tNARobertson\n\t\t\n\t\t\n\t\t\tRRobie\n\t\t\n\t\t\n\t\t\tFRobinet\n\t\t\n\t\t\n\t\t\tARocchi\n\t\t\n\t\t\n\t\t\tLRolland\n\t\t\n\t\t\n\t\t\tJGRollins\n\t\t\n\t\t\n\t\t\tVJRoma\n\t\t\n\t\t\n\t\t\tRRomano\n\t\t\n\t\t\n\t\t\tJHRomie\n\t\t\n\t\t\n\t\t\tDRosińska\n\t\t\n\t\t\n\t\t\tSRowan\n\t\t\n\t\t\n\t\t\tARüdiger\n\t\t\n\t\t\n\t\t\tPRuggi\n\t\t\n\t\t\n\t\t\tKRyan\n\t\t\n\t\t\n\t\t\tSSachdev\n\t\t\n\t\t\n\t\t\tTSadecki\n\t\t\n\t\t\n\t\t\tLSadeghian\n\t\t\n\t\t\n\t\t\tNSago\n\t\t\n\t\t\n\t\t\tMSaijo\n\t\t\n\t\t\n\t\t\tYSaito\n\t\t\n\t\t\n\t\t\tKSakai\n\t\t\n\t\t\n\t\t\tMSakellariadou\n\t\t\n\t\t\n\t\t\tLSalconi\n\t\t\n\t\t\n\t\t\tMSaleem\n\t\t\n\t\t\n\t\t\tFSalemi\n\t\t\n\t\t\n\t\t\tASamajdar\n\t\t\n\t\t\n\t\t\tLSammut\n\t\t\n\t\t\n\t\t\tLMSampson\n\t\t\n\t\t\n\t\t\tEJSanchez\n\t\t\n\t\t\n\t\t\tVSandberg\n\t\t\n\t\t\n\t\t\tJRSanders\n\t\t\n\t\t\n\t\t\tYSasaki\n\t\t\n\t\t\n\t\t\tBSassolas\n\t\t\n\t\t\n\t\t\tBSSathyaprakash\n\t\t\n\t\t\n\t\t\tSSato\n\t\t\n\t\t\n\t\t\tTSato\n\t\t\n\t\t\n\t\t\tPRSaulson\n\t\t\n\t\t\n\t\t\tOSauter\n\t\t\n\t\t\n\t\t\tRLSavage\n\t\t\n\t\t\n\t\t\tASawadsky\n\t\t\n\t\t\n\t\t\tPSchale\n\t\t\n\t\t\n\t\t\tJScheuer\n\t\t\n\t\t\n\t\t\tESchmidt\n\t\t\n\t\t\n\t\t\tJSchmidt\n\t\t\n\t\t\n\t\t\tPSchmidt\n\t\t\n\t\t\n\t\t\tRSchnabel\n\t\t\n\t\t\n\t\t\tRM SSchofield\n\t\t\n\t\t\n\t\t\tASchönbeck\n\t\t\n\t\t\n\t\t\tESchreiber\n\t\t\n\t\t\n\t\t\tDSchuette\n\t\t\n\t\t\n\t\t\tBFSchutz\n\t\t\n\t\t\n\t\t\tSGSchwalbe\n\t\t\n\t\t\n\t\t\tJScott\n\t\t\n\t\t\n\t\t\tSMScott\n\t\t\n\t\t\n\t\t\tTSekiguchi\n\t\t\n\t\t\n\t\t\tYSekiguchi\n\t\t\n\t\t\n\t\t\tDSellers\n\t\t\n\t\t\n\t\t\tASSengupta\n\t\t\n\t\t\n\t\t\tDSentenac\n\t\t\n\t\t\n\t\t\tVSequino\n\t\t\n\t\t\n\t\t\tASergeev\n\t\t\n\t\t\n\t\t\tYSetyawati\n\t\t\n\t\t\n\t\t\tDAShaddock\n\t\t\n\t\t\n\t\t\tTJShaffer\n\t\t\n\t\t\n\t\t\tMSShahriar\n\t\t\n\t\t\n\t\t\tBShapiro\n\t\t\n\t\t\n\t\t\tPShawhan\n\t\t\n\t\t\n\t\t\tASheperd\n\t\t\n\t\t\n\t\t\tMShibata\n\t\t\n\t\t\n\t\t\tYShikano\n\t\t\n\t\t\n\t\t\tTShimoda\n\t\t\n\t\t\n\t\t\tAShoda\n\t\t\n\t\t\n\t\t\tDHShoemaker\n\t\t\n\t\t\n\t\t\tDMShoemaker\n\t\t\n\t\t\n\t\t\tKSiellez\n\t\t\n\t\t\n\t\t\tXSiemens\n\t\t\n\t\t\n\t\t\tMSieniawska\n\t\t\n\t\t\n\t\t\tDSigg\n\t\t\n\t\t\n\t\t\tADSilva\n\t\t\n\t\t\n\t\t\tASinger\n\t\t\n\t\t\n\t\t\tLPSinger\n\t\t\n\t\t\n\t\t\tASingh\n\t\t\n\t\t\n\t\t\tRSingh\n\t\t\n\t\t\n\t\t\tASinghal\n\t\t\n\t\t\n\t\t\tAMSintes\n\t\t\n\t\t\n\t\t\tBJ JSlagmolen\n\t\t\n\t\t\n\t\t\tBSmith\n\t\t\n\t\t\n\t\t\tJRSmith\n\t\t\n\t\t\n\t\t\tRJ ESmith\n\t\t\n\t\t\n\t\t\tKSomiya\n\t\t\n\t\t\n\t\t\tEJSon\n\t\t\n\t\t\n\t\t\tBSorazu\n\t\t\n\t\t\n\t\t\tFSorrentino\n\t\t\n\t\t\n\t\t\tTSouradeep\n\t\t\n\t\t\n\t\t\tAPSpencer\n\t\t\n\t\t\n\t\t\tAKSrivastava\n\t\t\n\t\t\n\t\t\tAStaley\n\t\t\n\t\t\n\t\t\tMSteinke\n\t\t\n\t\t\n\t\t\tJSteinlechner\n\t\t\n\t\t\n\t\t\tSSteinlechner\n\t\t\n\t\t\n\t\t\tDSteinmeyer\n\t\t\n\t\t\n\t\t\tBCStephens\n\t\t\n\t\t\n\t\t\tSPStevenson\n\t\t\n\t\t\n\t\t\tRStone\n\t\t\n\t\t\n\t\t\tKAStrain\n\t\t\n\t\t\n\t\t\tNStraniero\n\t\t\n\t\t\n\t\t\tGStratta\n\t\t\n\t\t\n\t\t\tSEStrigin\n\t\t\n\t\t\n\t\t\tRSturani\n\t\t\n\t\t\n\t\t\tALStuver\n\t\t\n\t\t\n\t\t\tYSugimoto\n\t\t\n\t\t\n\t\t\tTZSummerscales\n\t\t\n\t\t\n\t\t\tLSun\n\t\t\n\t\t\n\t\t\tSSunil\n\t\t\n\t\t\n\t\t\tPJSutton\n\t\t\n\t\t\n\t\t\tTSuzuki\n\t\t\n\t\t\n\t\t\tBLSwinkels\n\t\t\n\t\t\n\t\t\tMJSzczepańczyk\n\t\t\n\t\t\n\t\t\tMTacca\n\t\t\n\t\t\n\t\t\tHTagoshi\n\t\t\n\t\t\n\t\t\tSTakada\n\t\t\n\t\t\n\t\t\tHTakahashi\n\t\t\n\t\t\n\t\t\tRTakahashi\n\t\t\n\t\t\n\t\t\tATakamori\n\t\t\n\t\t\n\t\t\tDTalukder\n\t\t\n\t\t\n\t\t\tHTanaka\n\t\t\n\t\t\n\t\t\tKTanaka\n\t\t\n\t\t\n\t\t\tTTanaka\n\t\t\n\t\t\n\t\t\tDBTanner\n\t\t\n\t\t\n\t\t\tMTápai\n\t\t\n\t\t\n\t\t\tATaracchini\n\t\t\n\t\t\n\t\t\tDTatsumi\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tSTelada\n\t\t\n\t\t\n\t\t\tTTheeg\n\t\t\n\t\t\n\t\t\tEGThomas\n\t\t\n\t\t\n\t\t\tMThomas\n\t\t\n\t\t\n\t\t\tPThomas\n\t\t\n\t\t\n\t\t\tKAThorne\n\t\t\n\t\t\n\t\t\tEThrane\n\t\t\n\t\t\n\t\t\tTTippens\n\t\t\n\t\t\n\t\t\tSTiwari\n\t\t\n\t\t\n\t\t\tVTiwari\n\t\t\n\t\t\n\t\t\tKVTokmakov\n\t\t\n\t\t\n\t\t\tKToland\n\t\t\n\t\t\n\t\t\tTTomaru\n\t\t\n\t\t\n\t\t\tCTomlinson\n\t\t\n\t\t\n\t\t\tMTonelli\n\t\t\n\t\t\n\t\t\tZTornasi\n\t\t\n\t\t\n\t\t\tCITorrie\n\t\t\n\t\t\n\t\t\tDTöyrä\n\t\t\n\t\t\n\t\t\tFTravasso\n\t\t\n\t\t\n\t\t\tGTraylor\n\t\t\n\t\t\n\t\t\tDTrifirò\n\t\t\n\t\t\n\t\t\tJTrinastic\n\t\t\n\t\t\n\t\t\tMCTringali\n\t\t\n\t\t\n\t\t\tLTrozzo\n\t\t\n\t\t\n\t\t\tMTse\n\t\t\n\t\t\n\t\t\tRTso\n\t\t\n\t\t\n\t\t\tKTsubono\n\t\t\n\t\t\n\t\t\tTTsuzuki\n\t\t\n\t\t\n\t\t\tMTurconi\n\t\t\n\t\t\n\t\t\tDTuyenbayev\n\t\t\n\t\t\n\t\t\tTUchiyama\n\t\t\n\t\t\n\t\t\tTUehara\n\t\t\n\t\t\n\t\t\tSUeki\n\t\t\n\t\t\n\t\t\tKUeno\n\t\t\n\t\t\n\t\t\tDUgolini\n\t\t\n\t\t\n\t\t\tCSUnnikrishnan\n\t\t\n\t\t\n\t\t\tALUrban\n\t\t\n\t\t\n\t\t\tTUshiba\n\t\t\n\t\t\n\t\t\tSAUsman\n\t\t\n\t\t\n\t\t\tHVahlbruch\n\t\t\n\t\t\n\t\t\tGVajente\n\t\t\n\t\t\n\t\t\tGValdes\n\t\t\n\t\t\n\t\t\tNVan Bakel\n\t\t\n\t\t\n\t\t\tMVan Beuzekom\n\t\t\n\t\t\n\t\t\tJF JVan Den Brand\n\t\t\n\t\t\n\t\t\tCVan Den Broeck\n\t\t\n\t\t\n\t\t\tDCVander-Hyde\n\t\t\n\t\t\n\t\t\tLVan Der Schaaf\n\t\t\n\t\t\n\t\t\tJVVan Heijningen\n\t\t\n\t\t\n\t\t\tMH P MVan Putten\n\t\t\n\t\t\n\t\t\tAAVan 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{"_key":"60c3c1dc7723bebd866619eb","_id":"references/60c3c1dc7723bebd866619eb","_rev":"_cfFlNZC---","tei":"\n\t\n\t\tThe multiMiR R package and database: integration of microRNA–target interactions along with their disease and drug associations\n\t\t\n\t\t\tYuanbinRu\n\t\t\n\t\t\n\t\t\tKaterinaJKechris\n\t\t\n\t\t\n\t\t\tBorisTabakoff\n\t\t\n\t\t\n\t\t\tPaulaHoffman\n\t\t\n\t\t\n\t\t\tRichardARadcliffe\n\t\t\n\t\t\n\t\t\tRussellBowler\n\t\t\n\t\t\n\t\t\tSpencerMahaffey\n\t\t\n\t\t\n\t\t\tSimonaRossi\n\t\t\n\t\t\n\t\t\tGeorgeACalin\n\t\t\n\t\t\n\t\t\tLynneBemis\n\t\t\n\t\t\n\t\t\tDanTheodorescu\n\t\t\n\t\t10.1093/nar/gku631\n\t\t25063298\n\t\tPMC4176155\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3c1dc7723bebd866619e7"},"refKey":23},
{"_key":"60c3c2357723bebd86661a27","_id":"references/60c3c2357723bebd86661a27","_rev":"_cfFlNZO---","tei":"\n\t\n\t\tExploring spatial data with GeoDa\n\t\t\n\t\t\tLAnselin\n\t\t\n\t\n\t\n\t\tCenter for Spatially Integrated Social Science, University of Illinois\n\t\t\t\tUrbana-Champaign\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c2357723bebd86661a26"},"refKey":9},
{"_key":"60c3c2407723bebd86661a32","_id":"references/60c3c2407723bebd86661a32","_rev":"_cfFlNZa---","tei":"\n\t\n\t\tEZ-Viz, a tool for simplifying molecular viewing in PyMOL\n\t\t\n\t\t\tLauraGrell\n\t\t\n\t\t\n\t\t\tChristopherParkin\n\t\t\n\t\t\n\t\t\tLenSlatest\n\t\t\n\t\t\n\t\t\tPaulACraig\n\t\t\n\t\t10.1002/bmb.2006.494034062672\n\t\t21638731\n\t\n\t\n\t\tBiochemistry and Molecular Biology Education\n\t\tBiochem. Mol. Biol. Educ.\n\t\t1470-8175\n\t\t1539-3429\n\t\t\n\t\t\t34\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3c2407723bebd86661a31"},"refKey":32},
{"_key":"60c3c25b7723bebd86661a47","_id":"references/60c3c25b7723bebd86661a47","_rev":"_cfFlNZm---","tei":"\n\t\n\t\tFastTree 2--approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c25b7723bebd86661a46"},"refKey":59},
{"_key":"60c3c25b7723bebd86661a48","_id":"references/60c3c25b7723bebd86661a48","_rev":"_cfFlNZy---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tCKnyaz\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMega X\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c25b7723bebd86661a46"},"refKey":56},
{"_key":"60c3c25b7723bebd86661a49","_id":"references/60c3c25b7723bebd86661a49","_rev":"_cfFlNa----","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c25b7723bebd86661a46"},"refKey":60},
{"_key":"60c3c25b7723bebd86661a4a","_id":"references/60c3c25b7723bebd86661a4a","_rev":"_cfFlNaK---","tei":"\n\t\n\t\tThe Ensembl Variant Effect Predictor\n\t\t\n\t\t\tWilliamMclaren\n\t\t\n\t\t\n\t\t\tLaurentGil\n\t\t\n\t\t\n\t\t\tSarahEHunt\n\t\t\n\t\t\n\t\t\tHarpreetSinghRiat\n\t\t\n\t\t\n\t\t\tGrahamR SRitchie\n\t\t\n\t\t\n\t\t\tAnjaThormann\n\t\t\n\t\t\n\t\t\tPaulFlicek\n\t\t\n\t\t\n\t\t\tFionaCunningham\n\t\t\n\t\t10.1101/042374\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t17\n\t\t\t122\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3c25b7723bebd86661a46"},"refKey":58},
{"_key":"60c3c25b7723bebd86661a4b","_id":"references/60c3c25b7723bebd86661a4b","_rev":"_cfFlNaW---","tei":"\n\t\n\t\tphangorn: phylogenetic analysis in R\n\t\t\n\t\t\tKPSchliep\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c25b7723bebd86661a46"},"refKey":61},
{"_key":"60c3c25b7723bebd86661a4c","_id":"references/60c3c25b7723bebd86661a4c","_rev":"_cfFlNai---","tei":"\n\t\n\t\tUsing ggtree to Visualize Data on Tree-Like Structures\n\t\t\n\t\t\tGYu\n\t\t\n\t\n\t\n\t\tCurr Protoc Bioinformatics\n\t\t\n\t\t\t69\n\t\t\te96\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c25b7723bebd86661a46"},"refKey":62},
{"_key":"60c3c2807723bebd86661a66","_id":"references/60c3c2807723bebd86661a66","_rev":"_cfFlNau---","tei":"\n\t\n\t\tSearch-Based Model Transformations with MOMoT\n\t\t\n\t\t\tMartinFleck\n\t\t\n\t\t\n\t\t\tJavierTroya\n\t\t\n\t\t\n\t\t\tManuelWimmer\n\t\t\n\t\t10.1007/978-3-319-42064-6_6\n\t\t\n\t\n\t\n\t\tTheory and Practice of Model Transformations\n\t\t\t\t\n\t\t\tPVan Gorp\n\t\t\tGEngels\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c2807723bebd86661a65"},"refKey":11},
{"_key":"60c3c2937723bebd86661a90","_id":"references/60c3c2937723bebd86661a90","_rev":"_cfFlNb----","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c2937723bebd86661a8f"},"refKey":31},
{"_key":"60c3c29b7723bebd86661a96","_id":"references/60c3c29b7723bebd86661a96","_rev":"_cfFlNbK---","tei":"\n\t\n\t\tDAMMIF, a program for rapidab-initioshape determination in small-angle scattering\n\t\t\n\t\t\tDanielFranke\n\t\t\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t10.1107/s0021889809000338\n\t\t27630371\n\t\tPMC5023043\n\t\tark:/67375/WNG-HDXBN064-3\n\t\t36DF2917AD5689805EB713ACC9AFA2C079D090E0\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3c29b7723bebd86661a95"},"refKey":14},
{"_key":"60c3c29b7723bebd86661a97","_id":"references/60c3c29b7723bebd86661a97","_rev":"_cfFlNba---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPVKonarev\n\t\t\n\t\t\n\t\t\tVVVolkov\n\t\t\n\t\t\n\t\t\tAVSokolova\n\t\t\n\t\t\n\t\t\tMH JKoch\n\t\t\n\t\t\n\t\t\tDISvergun\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c29b7723bebd86661a95"},"refKey":23},
{"_key":"60c3c29b7723bebd86661a98","_id":"references/60c3c29b7723bebd86661a98","_rev":"_cfFlNbm---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c29b7723bebd86661a95"},"refKey":35},
{"_key":"60c3c29b7723bebd86661a99","_id":"references/60c3c29b7723bebd86661a99","_rev":"_cfFlNb2---","tei":"\n\t\n\t\tOpportunities and challenges with the growth of neutron crystallography\n\t\t\n\t\t\tPaulAdams\n\t\t\n\t\t\n\t\t\tPaulLangan\n\t\t\n\t\t10.1107/s0907444910039387\n\t\t21041924\n\t\tark:/67375/WNG-GL03RSV9-W\n\t\t8CC26148834273C303398119EBDA5FA2369D243A\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3c29b7723bebd86661a95"},"refKey":0},
{"_key":"60c3c2b47723bebd86661ab4","_id":"references/60c3c2b47723bebd86661ab4","_rev":"_cfFlNcC---","tei":"\n\t\n\t\tSciPy 1.0: Fundamental Algorithms for Scientific Computing in Python\n\t\t\n\t\t\tPVirtanen\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c2b47723bebd86661ab3"},"refKey":29},
{"_key":"60c3c2d37723bebd86661aca","_id":"references/60c3c2d37723bebd86661aca","_rev":"_cfFlNcO---","tei":"\n\t\n\t\tTackling Exascale software challenges in molecular dynamics simulations with GROMACS\n\t\t\n\t\t\tSPall\n\t\t\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tCKutzner\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\n\t\t\t8759\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c2d37723bebd86661ac9"},"refKey":38},
{"_key":"60c3c2d37723bebd86661acb","_id":"references/60c3c2d37723bebd86661acb","_rev":"_cfFlNce---","tei":"\n\t\n\t\tGROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit\n\t\t\n\t\t\tSanderPronk\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tPerLarsson\n\t\t\n\t\t\n\t\t\tPärBjelkmar\n\t\t\n\t\t\n\t\t\tRossenApostolov\n\t\t\n\t\t\n\t\t\tMichaelRShirts\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tPeterMKasson\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1093/bioinformatics/btt055\n\t\t23407358\n\t\tPMC3605599\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3c2d37723bebd86661ac9"},"refKey":42},
{"_key":"60c3c2d37723bebd86661acc","_id":"references/60c3c2d37723bebd86661acc","_rev":"_cfFlNcq---","tei":"\n\t\n\t\tGROMACS: Fast, flexible, and free\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tGerritGroenhof\n\t\t\n\t\t\n\t\t\tAlanEMark\n\t\t\n\t\t\n\t\t\tHermanJ CBerendsen\n\t\t\n\t\t10.1002/jcc.20291\n\t\t16211538\n\t\tark:/67375/WNG-FZWKDCST-G\n\t\t1B9A91E56BE3B9919FC3D0665CD10F2EB65C307A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3c2d37723bebd86661ac9"},"refKey":53},
{"_key":"60c3c2d37723bebd86661acd","_id":"references/60c3c2d37723bebd86661acd","_rev":"_cfFlNc2---","tei":"\n\t\n\t\tDevelopment and testing of a general amber force field\n\t\t\n\t\t\tJunmeiWang\n\t\t\n\t\t\n\t\t\tRomainMWolf\n\t\t\n\t\t\n\t\t\tJamesWCaldwell\n\t\t\n\t\t\n\t\t\tPeterAKollman\n\t\t\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t10.1002/jcc.20035\n\t\t15116359\n\t\tark:/67375/WNG-PHJ3VSN7-3\n\t\t1B326E483F93B0E60CB6D84B46C9CA645B870279\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3c2d37723bebd86661ac9"},"refKey":58},
{"_key":"60c3c3187723bebd86661b12","_id":"references/60c3c3187723bebd86661b12","_rev":"_cfFlNdC---","tei":"\n\t\n\t\tRecent developments in theCCP-EMsoftware suite\n\t\t\n\t\t\tTomBurnley\n\t\t\n\t\t\n\t\t\tColinMPalmer\n\t\t\t0000-0002-4883-1546\n\t\t\n\t\t\n\t\t\tMartynWinn\n\t\t\t0000-0003-0496-6796\n\t\t\n\t\t10.1107/s2059798317007859\n\t\t28580908\n\t\tPMC5458488\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Structural Biology\n\t\tActa Cryst Sect D Struct Biol\n\t\t2059-7983\n\t\t\n\t\t\t73\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3c3187723bebd86661b11"},"refKey":43},
{"_key":"60c3c3187723bebd86661b13","_id":"references/60c3c3187723bebd86661b13","_rev":"_cfFlNdO---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c3187723bebd86661b11"},"refKey":51},
{"_key":"60c3c3187723bebd86661b14","_id":"references/60c3c3187723bebd86661b14","_rev":"_cfFlNda---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c3187723bebd86661b11"},"refKey":49},
{"_key":"60c3c3187723bebd86661b15","_id":"references/60c3c3187723bebd86661b15","_rev":"_cfFlNdi---","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c3187723bebd86661b11"},"refKey":56},
{"_key":"60c3c3187723bebd86661b16","_id":"references/60c3c3187723bebd86661b16","_rev":"_cfFlNdu---","tei":"\n\t\n\t\tNew tools in MolProbity validation: CaBLAM for CryoEM backbone, UnDowser to rethink 'waters,' and NGL Viewer to recapture online 3D graphics\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tCJWilliams\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c3187723bebd86661b11"},"refKey":10},
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{"_key":"60c3c3187723bebd86661b18","_id":"references/60c3c3187723bebd86661b18","_rev":"_cfFlNeG---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c3187723bebd86661b11"},"refKey":52},
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{"_key":"60c3c5007723bebd86661c17","_id":"references/60c3c5007723bebd86661c17","_rev":"_cfFlNfy---","tei":"\n\t\n\t\tThe Language of Technical Computing\n\t\t\n\t\t\tMatlab ®\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe MathWorks, Inc\n\t\t\n\t\n\n","document":{"$oid":"60c3c5007723bebd86661c16"},"refKey":26},
{"_key":"60c3c5007723bebd86661c18","_id":"references/60c3c5007723bebd86661c18","_rev":"_cfFlNg----","tei":"\n\t\n\t\tStatistical Software: Release 16.1. College Station, TX: Stata Corporation\n\t\t\n\t\t\tStatacorp\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c5007723bebd86661c16"},"refKey":27},
{"_key":"60c3c5157723bebd86661c25","_id":"references/60c3c5157723bebd86661c25","_rev":"_cfFlNgK---","tei":"\n\t\n\t\tMeeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c5157723bebd86661c24"},"refKey":20},
{"_key":"60c3c5157723bebd86661c26","_id":"references/60c3c5157723bebd86661c26","_rev":"_cfFlNgW---","tei":"\n\t\n\t\tA series of PDB-related databanks for everyday needs\n\t\t\n\t\t\tWouterGTouw\n\t\t\n\t\t\n\t\t\tCoosBaakman\n\t\t\n\t\t\n\t\t\tJonBlack\n\t\t\n\t\t\n\t\t\tTimA HTe beek\n\t\t\n\t\t\n\t\t\tEKrieger\n\t\t\n\t\t\n\t\t\tRobbiePJoosten\n\t\t\n\t\t\n\t\t\tGertVriend\n\t\t\n\t\t10.1093/nar/gku1028\n\t\t25352545\n\t\tPMC4383885\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3c5157723bebd86661c24"},"refKey":59},
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{"_key":"60c3c59a7723bebd86661c95","_id":"references/60c3c59a7723bebd86661c95","_rev":"_cfFlNiq---","tei":"\n\t\n\t\tFrom local explanations to global understanding with explainable ai for trees\n\t\t\n\t\t\tSMLundberg\n\t\t\n\t\n\t\n\t\tNature Machine Intelligence\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c59a7723bebd86661c94"},"refKey":24},
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{"_key":"60c3c5a07723bebd86661ca8","_id":"references/60c3c5a07723bebd86661ca8","_rev":"_cfFlNj----","tei":"\n\t\n\t\tSeqinR 1.0-2: A Contributed Package to the R Project for Statistical Computing Devoted to Biological Sequences Retrieval and Analysis\n\t\t\n\t\t\tDelphineCharif\n\t\t\n\t\t\n\t\t\tJeanRLobry\n\t\t\n\t\t10.1007/978-3-540-35306-5_10\n\t\tark:/67375/HCB-L69H3WCB-D\n\t\t614751033F60262E6F2C28C51797816F3DF07C6B\n\t\t\n\t\n\t\n\t\tStructural Approaches to Sequence Evolution\n\t\t\t\tBerlin, Heidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c5a07723bebd86661ca6"},"refKey":75},
{"_key":"60c3c5a07723bebd86661ca9","_id":"references/60c3c5a07723bebd86661ca9","_rev":"_cfFlNjK---","tei":"\n\t\n\t\tInference of Adaptive Shifts for Multivariate Correlated Traits\n\t\t\n\t\t\tPaulBastide\n\t\t\n\t\t\n\t\t\tCécileAné\n\t\t\n\t\t\n\t\t\tStéphaneRobin\n\t\t\n\t\t\n\t\t\tMahendraMariadassou\n\t\t\n\t\t10.1093/sysbio/syy005\n\t\t29385556\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3c5a07723bebd86661ca6"},"refKey":56},
{"_key":"60c3c5a07723bebd86661caa","_id":"references/60c3c5a07723bebd86661caa","_rev":"_cfFlNjW---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDmmafftMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3c5a07723bebd86661ca6"},"refKey":71},
{"_key":"60c3c5c17723bebd86661ccf","_id":"references/60c3c5c17723bebd86661ccf","_rev":"_cfFlNje---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c5c17723bebd86661cce"},"refKey":82},
{"_key":"60c3c5c17723bebd86661cd0","_id":"references/60c3c5c17723bebd86661cd0","_rev":"_cfFlNjq---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c5c17723bebd86661cce"},"refKey":83},
{"_key":"60c3c5d47723bebd86661cd8","_id":"references/60c3c5d47723bebd86661cd8","_rev":"_cfFlNj2---","tei":"\n\t\n\t\tGenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t10.1006/jmbi.1999.2583\n\t\t10191147\n\t\tS0022-2836(99)92583-4\n\t\tark:/67375/6H6-CR6RP73D-N\n\t\t6E53BA1E161754F0CC67AF6D5B68EB7BA3E136AC\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t287\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3c5d47723bebd86661cd7"},"refKey":21},
{"_key":"60c3c5db7723bebd86661cde","_id":"references/60c3c5db7723bebd86661cde","_rev":"_cfFlNk----","tei":"\n\t\n\t\tThe finer things in X-ray diffraction data collection\n\t\t\n\t\t\tJWPflugrath\n\t\t\n\t\t10.1107/s090744499900935x\n\t\t10531521\n\t\tark:/67375/WNG-91NM8VHQ-B\n\t\t7DC875C333AB8DD3EA035DD4FC97FE1E2F731705\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t55\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3c5db7723bebd86661cdd"},"refKey":44},
{"_key":"60c3c5dc7723bebd86661ce5","_id":"references/60c3c5dc7723bebd86661ce5","_rev":"_cfFlNkK---","tei":"\n\t\n\t\tReal-space refinement in Phenix for cryo-EM and crystallography\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tBillyKPoon\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tOlegVSobolev\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1101/249607\n\t\t\n\t\n\t\n\t\tActa Crystallogr. Sect. D Struct. Biol\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3c5dc7723bebd86661ce4"},"refKey":0},
{"_key":"60c3c5de7723bebd86661ce9","_id":"references/60c3c5de7723bebd86661ce9","_rev":"_cfFlNkW---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c5de7723bebd86661ce8"},"refKey":31},
{"_key":"60c3c5e47723bebd86661ced","_id":"references/60c3c5e47723bebd86661ced","_rev":"_cfFlNki---","tei":"\n\t\n\t\tThe NONMEM System\n\t\t\n\t\t\tStuartBeal\n\t\t\n\t\t\n\t\t\tLewisSheiner\n\t\t\n\t\t10.2307/2684123\n\t\n\t\n\t\tThe American Statistician\n\t\tThe American Statistician\n\t\t0003-1305\n\t\t\n\t\t\t34\n\t\t\t2\n\t\t\t118\n\t\t\t\n\t\t\tJSTOR\n\t\t\n\t\n\n","document":{"$oid":"60c3c5e47723bebd86661cec"},"refKey":33},
{"_key":"60c3c6227723bebd86661d17","_id":"references/60c3c6227723bebd86661d17","_rev":"_cfFlNkq---","tei":"\n\t\n\t\tComprehensive Meta-Analysis Version 3\n\t\t\n\t\t\tMBorenstein\n\t\t\n\t\t\n\t\t\tLHedges\n\t\t\n\t\t\n\t\t\tJHiggins\n\t\t\n\t\t\n\t\t\tHRothstein\n\t\t\n\t\t\n\t\t\t\n\t\t\tBiostat Inc\n\t\t\tEnglewood, NJ\n\t\t\n\t\n\n","document":{"$oid":"60c3c6227723bebd86661d16"},"refKey":29},
{"_key":"60c3c6347723bebd86661d20","_id":"references/60c3c6347723bebd86661d20","_rev":"_cfFlNk2---","tei":"\n\t\n\t\tSeMiTri: a framework for semantic annotation of heterogeneous trajectories\n\t\t\n\t\t\tZYan\n\t\t\n\t\t\n\t\t\tDChakraborty\n\t\t\n\t\t\n\t\t\tCParent\n\t\t\n\t\t\n\t\t\tSSpaccapietra\n\t\t\n\t\t\n\t\t\tKAberer\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the 14th international conference on extending database technology\n\t\t\t\tthe 14th international conference on extending database technologyNew York\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c6347723bebd86661d1f"},"refKey":62},
{"_key":"60c3c6347723bebd86661d21","_id":"references/60c3c6347723bebd86661d21","_rev":"_cfFlNlC---","tei":"\n\t\n\t\tMASTER: A multiple aspect view on trajectories\n\t\t\n\t\t\tRonaldoDos SantosMello\n\t\t\t0000-0003-4262-5474\n\t\t\n\t\t\n\t\t\tVaniaBogorny\n\t\t\n\t\t\n\t\t\tLuisOtavioAlvares\n\t\t\n\t\t\n\t\t\tLuizHenrique ZambomSantana\n\t\t\n\t\t\n\t\t\tCarlosAndresFerrero\n\t\t\n\t\t\n\t\t\tAngeloAugustoFrozza\n\t\t\n\t\t\n\t\t\tGeomarAndreSchreiner\n\t\t\n\t\t\n\t\t\tChiaraRenso\n\t\t\n\t\t10.1111/tgis.12526\n\t\t\n\t\n\t\n\t\tTransactions in GIS\n\t\tTransactions in GIS\n\t\t1361-1682\n\t\t1467-9671\n\t\t\n\t\t\t23\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3c6347723bebd86661d1f"},"refKey":42},
{"_key":"60c3c6437723bebd86661d3b","_id":"references/60c3c6437723bebd86661d3b","_rev":"_cfFlNlK---","tei":"\n\t\n\t\tPreferred reporting items for systematic reviews and meta-analyses: the PRISMA statement (Chinese edition)\n\t\t\n\t\t\tDMoher\n\t\t\n\t\t\n\t\t\tALiberati\n\t\t\n\t\t\n\t\t\tJTetzlaff\n\t\t\n\t\t\n\t\t\tDGAltman\n\t\t\n\t\t\n\t\t\tPGroup\n\t\t\n\t\t10.3736/jcim20090918\n\t\n\t\n\t\tJournal of Chinese Integrative Medicine\n\t\tJ Chin Integr Med\n\t\t1672-1977\n\t\t\n\t\t\t7\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tJournal of Chinese Integrative Medicine Press\n\t\t\n\t\n\n","document":{"$oid":"60c3c6437723bebd86661d3a"},"refKey":39},
{"_key":"60c3c6717723bebd86661d58","_id":"references/60c3c6717723bebd86661d58","_rev":"_cfFlNlW---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3c6717723bebd86661d57"},"refKey":26},
{"_key":"60c3c6717723bebd86661d59","_id":"references/60c3c6717723bebd86661d59","_rev":"_cfFlNli---","tei":"\n\t\n\t\tfr: New generation phylogenetic services for non-specialists\n\t\t\n\t\t\tFLemoine\n\t\t\n\t\t\n\t\t\tDCorreia\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tODoppelt-Azeroual\n\t\t\n\t\t\n\t\t\tFMareuil\n\t\t\n\t\t\n\t\t\tSCohen-Boulakia\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\t\n\t\t\tNgphylogeny\n\t\t\n\t\t10.1093/nar/gkz303\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3c6717723bebd86661d57"},"refKey":25},
{"_key":"60c3c6717723bebd86661d5a","_id":"references/60c3c6717723bebd86661d5a","_rev":"_cfFlNlu---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3c6717723bebd86661d57"},"refKey":27},
{"_key":"60c3c6717723bebd86661d5b","_id":"references/60c3c6717723bebd86661d5b","_rev":"_cfFlNl2---","tei":"\n\t\n\t\tInteractive Tree of Life (iTOL) v4: Recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/nar/gkz239\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3c6717723bebd86661d57"},"refKey":37},
{"_key":"60c3c6717723bebd86661d5c","_id":"references/60c3c6717723bebd86661d5c","_rev":"_cfFlNmC---","tei":"\n\t\n\t\tFrom IMGT-ONTOLOGY to IMGT/LIGMotif: the IMGT® standardized approach for immunoglobulin and T cell receptor gene identification and description in large genomic sequences\n\t\t\n\t\t\tJérômeLane\n\t\t\n\t\t\n\t\t\tPatriceDuroux\n\t\t\n\t\t\n\t\t\tMarie-PauleLefranc\n\t\t\n\t\t10.1186/1471-2105-11-223\n\t\t20433708\n\t\tPMC2880031\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t223\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3c6717723bebd86661d57"},"refKey":20},
{"_key":"60c3c6717723bebd86661d5d","_id":"references/60c3c6717723bebd86661d5d","_rev":"_cfFlNmO---","tei":"\n\t\n\t\tImmunogenetics Sequence Annotation: The Strategy of IMGT based on\n\t\t\n\t\t\tVGiudicelli\n\t\t\n\t\t\n\t\t\tDChaume\n\t\t\n\t\t\n\t\t\tJJabado-Michaloud\n\t\t\n\t\t\n\t\t\tMPLefranc\n\t\t\n\t\n\t\n\t\tIMGT-ONTOLOGY. Stud. Health Technol. Inform\n\t\t\n\t\t\t116\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c6717723bebd86661d57"},"refKey":21},
{"_key":"60c3c6857723bebd86661d79","_id":"references/60c3c6857723bebd86661d79","_rev":"_cfFlNma---","tei":"\n\t\n\t\tSPINGO: a rapid speciesclassifier for microbial amplicon sequences\n\t\t\n\t\t\tGAllard\n\t\t\n\t\t\n\t\t\tFJRyan\n\t\t\n\t\t\n\t\t\tIBJeffery\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t16\n\t\t\t324\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c6857723bebd86661d78"},"refKey":18},
{"_key":"60c3c6857723bebd86661d7a","_id":"references/60c3c6857723bebd86661d7a","_rev":"_cfFlNmi---","tei":"\n\t\n\t\tFast and accurate short read alignment with burrows-wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c6857723bebd86661d78"},"refKey":11},
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{"_key":"60c3c7b57723bebd86661ed1","_id":"references/60c3c7b57723bebd86661ed1","_rev":"_cfFlNrS---","tei":"\n\t\n\t\tFitting linear mixed-effects models using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMächler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c7b57723bebd86661ecf"},"refKey":3},
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{"_key":"60c3c7e57723bebd86661efa","_id":"references/60c3c7e57723bebd86661efa","_rev":"_cfFlNr2---","tei":"\n\t\n\t\tProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMWiederstein\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3c7e57723bebd86661ef9"},"refKey":73},
{"_key":"60c3c7e57723bebd86661efb","_id":"references/60c3c7e57723bebd86661efb","_rev":"_cfFlNsC---","tei":"\n\t\n\t\tMain-chain Bond Lengths and Bond Angles in Protein Structures\n\t\t\n\t\t\tRomanALaskowski\n\t\t\n\t\t\n\t\t\tDavidSMoss\n\t\t\n\t\t\n\t\t\tJanetMThornton\n\t\t\n\t\t10.1006/jmbi.1993.1351\n\t\t8515464\n\t\tS0022-2836(83)71351-3\n\t\tark:/67375/6H6-MCM6F17Q-3\n\t\tCF98A7A685311C43127F8CA8F4C75F2726DFA64F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t231\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3c7e57723bebd86661ef9"},"refKey":74},
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{"_key":"60c3d2197723bebd86662852","_id":"references/60c3d2197723bebd86662852","_rev":"_cfFlODa---","tei":"\n\t\n\t\tAutomated molecular microscopy: the new Leginon system\n\t\t\n\t\t\tCSuloway\n\t\t\n\t\t\n\t\t\tJPulokas\n\t\t\n\t\t\n\t\t\tDFellmann\n\t\t\n\t\t\n\t\t\tACheng\n\t\t\n\t\t\n\t\t\tFGuerra\n\t\t\n\t\t\n\t\t\tJQuispe\n\t\t\n\t\t\n\t\t\tSStagg\n\t\t\n\t\t\n\t\t\tCSPotter\n\t\t\n\t\t\n\t\t\tBCarragher\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t151\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d2197723bebd86662851"},"refKey":52},
{"_key":"60c3d2197723bebd86662853","_id":"references/60c3d2197723bebd86662853","_rev":"_cfFlODm---","tei":"\n\t\n\t\tPROPKA3: Consistent Treatment of Internal and Surface Residues in Empirical pKa Predictions\n\t\t\n\t\t\tMHOlsson\n\t\t\n\t\t\n\t\t\tCRSondergaard\n\t\t\n\t\t\n\t\t\tMRostkowski\n\t\t\n\t\t\n\t\t\tJHJensen\n\t\t\n\t\n\t\n\t\tJ Chem Theory Comput\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d2197723bebd86662851"},"refKey":34},
{"_key":"60c3d2197723bebd86662854","_id":"references/60c3d2197723bebd86662854","_rev":"_cfFlODu---","tei":"\n\t\n\t\tImproved Treatment of Ligands and Coupling Effects in Empirical Calculation and Rationalization of pKa Values\n\t\t\n\t\t\tCRSondergaard\n\t\t\n\t\t\n\t\t\tMHOlsson\n\t\t\n\t\t\n\t\t\tMRostkowski\n\t\t\n\t\t\n\t\t\tJHJensen\n\t\t\n\t\n\t\n\t\tJ Chem Theory Comput\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d2197723bebd86662851"},"refKey":50},
{"_key":"60c3d2277723bebd86662878","_id":"references/60c3d2277723bebd86662878","_rev":"_cfFlOD6---","tei":"\n\t\n\t\tThe map equation\n\t\t\n\t\t\tMRosvall\n\t\t\n\t\t\n\t\t\tDAxelsson\n\t\t\n\t\t\n\t\t\tCTBergstrom\n\t\t\n\t\t10.1140/epjst/e2010-01179-1\n\t\t\n\t\t\n\t\n\t\n\t\tThe European Physical Journal Special Topics\n\t\tEur. Phys. J. Spec. Top.\n\t\t1951-6355\n\t\t1951-6401\n\t\t\n\t\t\t178\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3d2277723bebd86662877"},"refKey":18},
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{"_key":"60c3d2277723bebd8666287a","_id":"references/60c3d2277723bebd8666287a","_rev":"_cfFlOES---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\t\n\t\n\t\n\t\tInterJournal, Complex Syst\n\t\t\n\t\t\t1695\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d2277723bebd86662877"},"refKey":6},
{"_key":"60c3d2297723bebd8666287e","_id":"references/60c3d2297723bebd8666287e","_rev":"_cfFlOEe---","tei":"\n\t\n\t\tVisualizing Data using t-SNE\n\t\t\n\t\t\tLVan Der Maaten\n\t\t\n\t\t\n\t\t\tGHinton\n\t\t\n\t\n\t\n\t\tJournal of Machine Learning Research\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d2297723bebd8666287d"},"refKey":15},
{"_key":"60c3d22e7723bebd86662886","_id":"references/60c3d22e7723bebd86662886","_rev":"_cfFlOEm---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\n\t\n\t\tInt J Complex Syst\n\t\t\n\t\t\t1695\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d22e7723bebd86662885"},"refKey":3},
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{"_key":"60c3d22e7723bebd86662889","_id":"references/60c3d22e7723bebd86662889","_rev":"_cfFlOFK---","tei":"\n\t\n\t\tUsing random forest to learn imbalanced data\n\t\t\n\t\t\tCChen\n\t\t\n\t\t\n\t\t\tALiaw\n\t\t\n\t\t\n\t\t\tLBreiman\n\t\t\n\t\t\n\t\t\t\n\t\t\t110\n\t\t\t24\n\t\t\n\t\t\n\t\t\tUniversity of California, Berkeley\n\t\t\n\t\n\n","document":{"$oid":"60c3d22e7723bebd86662885"},"refKey":2},
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{"_key":"60c3d3637723bebd86662967","_id":"references/60c3d3637723bebd86662967","_rev":"_cfFlOI----","tei":"\n\t\n\t\tIntroducing Stream Processing in F#\n\t\t\n\t\t\tMShilkov\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d3637723bebd86662961"},"refKey":44},
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{"_key":"60c3d3867723bebd8666299f","_id":"references/60c3d3867723bebd8666299f","_rev":"_cfFlOJ6---","tei":"\n\t\n\t\tEfficient Architecture-Aware Acceleration of BWA-MEM for Multicore Systems\n\t\t\n\t\t\tMdVasimuddin\n\t\t\n\t\t\n\t\t\tSanchitMisra\n\t\t\n\t\t\n\t\t\tHengLi\n\t\t\n\t\t\n\t\t\tSrinivasAluru\n\t\t\n\t\n\t\n\t\tIPDPS\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d3867723bebd86662999"},"refKey":36},
{"_key":"60c3d3867723bebd866629a0","_id":"references/60c3d3867723bebd866629a0","_rev":"_cfFlOKG---","tei":"\n\t\n\t\tA Greedy Algorithm for Aligning DNA Sequences\n\t\t\n\t\t\tZhengZhang\n\t\t\n\t\t\n\t\t\tScottSchwartz\n\t\t\n\t\t\n\t\t\tLukasWagner\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d3867723bebd86662999"},"refKey":63},
{"_key":"60c3d3867723bebd866629a1","_id":"references/60c3d3867723bebd866629a1","_rev":"_cfFlOKS---","tei":"\n\t\n\t\tmrsFAST-Ultra: a compact, SNP-aware mapper for high performance sequencing applications\n\t\t\n\t\t\tFarazHach\n\t\t\n\t\t\n\t\t\tImanSarrafi\n\t\t\n\t\t\n\t\t\tFarhadHormozdiari\n\t\t\n\t\t\n\t\t\tCanAlkan\n\t\t\n\t\t\n\t\t\tEvanEEichler\n\t\t\n\t\t\n\t\t\tS CenkCenkSahinalp\n\t\t\n\t\t10.1093/nar/gku370\n\t\t24810850\n\t\tPMC4086126\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3d3867723bebd86662999"},"refKey":40},
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{"_key":"60c3d3987723bebd866629e9","_id":"references/60c3d3987723bebd866629e9","_rev":"_cfFlOLe---","tei":"\n\t\n\t\tggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tDavidKSmith\n\t\t\n\t\t\n\t\t\tHuachenZhu\n\t\t\n\t\t\n\t\t\tYiGuan\n\t\t\n\t\t\n\t\t\tTommy Tsan-YukLam\n\t\t\n\t\t10.1111/2041-210x.12628\n\t\t\n\t\n\t\n\t\tMethods in Ecology and Evolution\n\t\tMethods Ecol Evol\n\t\t2041-210X\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3d3987723bebd866629e7"},"refKey":26},
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{"_key":"60c3d3b87723bebd86662a09","_id":"references/60c3d3b87723bebd86662a09","_rev":"_cfFlOM6---","tei":"\n\t\n\t\tRDP4: Detection and analysis of recombination patterns in virus genomes\n\t\t\n\t\t\tDarrenPMartin\n\t\t\n\t\t\n\t\t\tBenMurrell\n\t\t\n\t\t\n\t\t\tMichaelGolden\n\t\t\n\t\t\n\t\t\tArjunKhoosal\n\t\t\n\t\t\n\t\t\tBrejnevMuhire\n\t\t\n\t\t10.1093/ve/vev003\n\t\t27774277\n\t\tPMC5014473\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3d3b87723bebd86662a08"},"refKey":18},
{"_key":"60c3d3b87723bebd86662a0a","_id":"references/60c3d3b87723bebd86662a0a","_rev":"_cfFlONC---","tei":"\n\t\n\t\tEvolution by selection, recombination, and gene duplication in MHC class I genes of two Rhacophoridae species\n\t\t\n\t\t\tMianZhao\n\t\t\n\t\t\n\t\t\tYongzhenWang\n\t\t\n\t\t\n\t\t\tHangShen\n\t\t\n\t\t\n\t\t\tChenliangLi\n\t\t\n\t\t\n\t\t\tChengChen\n\t\t\n\t\t\n\t\t\tZhenhuaLuo\n\t\t\n\t\t\n\t\t\tHuaWu\n\t\t\n\t\t10.1186/1471-2148-13-113\n\t\t23734729\n\t\tPMC3684511\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t13\n\t\t\t1\n\t\t\t113\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3d3b87723bebd86662a08"},"refKey":43},
{"_key":"60c3d3be7723bebd86662a14","_id":"references/60c3d3be7723bebd86662a14","_rev":"_cfFlONO---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t6\n\t\t\n\t\n\n","document":{"$oid":"60c3d3be7723bebd86662a13"},"refKey":5},
{"_key":"60c3d3be7723bebd86662a15","_id":"references/60c3d3be7723bebd86662a15","_rev":"_cfFlONa---","tei":"\n\t\n\t\tDesign, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics\n\t\t\n\t\t\tJReeder\n\t\t\n\t\t\n\t\t\tRGiegerich\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t5\n\t\t\t104\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d3be7723bebd86662a13"},"refKey":20},
{"_key":"60c3d3be7723bebd86662a16","_id":"references/60c3d3be7723bebd86662a16","_rev":"_cfFlONm---","tei":"\n\t\n\t\tJalview version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDmaMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d3be7723bebd86662a13"},"refKey":25},
{"_key":"60c3d3be7723bebd86662a17","_id":"references/60c3d3be7723bebd86662a17","_rev":"_cfFlONy---","tei":"\n\t\n\t\tHMMER web server: interactive sequence similarity searching\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tJClements\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d3be7723bebd86662a13"},"refKey":7},
{"_key":"60c3d3be7723bebd86662a18","_id":"references/60c3d3be7723bebd86662a18","_rev":"_cfFlON6---","tei":"\n\t\n\t\tThe MPI Bioinformatics Toolkit for protein sequence analysis\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tCMayer\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\t10.1093/nar/gkl217\n\t\t16845021\n\t\tPMC1538786\n\t\tark:/67375/HXZ-XKP4041M-V\n\t\tC17EFF5A4FCC8E30CAEB73CA14BEC6E2E754548C\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3d3be7723bebd86662a13"},"refKey":2},
{"_key":"60c3d3be7723bebd86662a19","_id":"references/60c3d3be7723bebd86662a19","_rev":"_cfFlOOG---","tei":"\n\t\n\t\tFast and accurate automatic structure prediction with HHpred\n\t\t\n\t\t\tAHildebrand\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tSo\n\t\t\n\t\n\t\n\t\tProteins: Struct Funct Bioinform\n\t\t\n\t\t\t77\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d3be7723bebd86662a13"},"refKey":9},
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{"_key":"60c3d5727723bebd86662b7a","_id":"references/60c3d5727723bebd86662b7a","_rev":"_cfFlOTK---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tKGopal\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tTRIoerger\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRKPai\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tTDRomo\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5727723bebd86662b77"},"refKey":0},
{"_key":"60c3d5727723bebd86662b7b","_id":"references/60c3d5727723bebd86662b7b","_rev":"_cfFlOTW---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5727723bebd86662b77"},"refKey":25},
{"_key":"60c3d5727723bebd86662b7c","_id":"references/60c3d5727723bebd86662b7c","_rev":"_cfFlOTi---","tei":"\n\t\n\t\tSide-chain-directed model and map validation for 3D Electron Cryomicroscopy\n\t\t\n\t\t\tBenjaminABarad\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\n\t\t10.1101/014738\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3d5727723bebd86662b77"},"refKey":2},
{"_key":"60c3d5727723bebd86662b7d","_id":"references/60c3d5727723bebd86662b7d","_rev":"_cfFlOTu---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5727723bebd86662b77"},"refKey":52},
{"_key":"60c3d5727723bebd86662b7e","_id":"references/60c3d5727723bebd86662b7e","_rev":"_cfFlOT2---","tei":"\n\t\n\t\tInference of macromolecular assemblies from crystalline state\n\t\t\n\t\t\tEKrissinel\n\t\t\n\t\t\n\t\t\tKHenrick\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t372\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5727723bebd86662b77"},"refKey":38},
{"_key":"60c3d5727723bebd86662b7f","_id":"references/60c3d5727723bebd86662b7f","_rev":"_cfFlOUC---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5727723bebd86662b77"},"refKey":1},
{"_key":"60c3d5727723bebd86662b80","_id":"references/60c3d5727723bebd86662b80","_rev":"_cfFlOUO---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5727723bebd86662b77"},"refKey":23},
{"_key":"60c3d5727723bebd86662b81","_id":"references/60c3d5727723bebd86662b81","_rev":"_cfFlOUa---","tei":"\n\t\n\t\tThePDB_REDOserver for macromolecular structure model optimization\n\t\t\n\t\t\tRobbiePJoosten\n\t\t\n\t\t\n\t\t\tFeiLong\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tAnastassisPerrakis\n\t\t\n\t\t10.1107/s2052252514009324\n\t\t25075342\n\t\tPMC4107921\n\t\t\n\t\n\t\n\t\tIUCrJ\n\t\tInt Union Crystallogr J\n\t\t2052-2525\n\t\t\n\t\t\t1\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3d5727723bebd86662b77"},"refKey":31},
{"_key":"60c3d5727723bebd86662b82","_id":"references/60c3d5727723bebd86662b82","_rev":"_cfFlOUm---","tei":"\n\t\n\t\tUCSF ChimeraX: Structure visualization for researchers, educators, and developers\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5727723bebd86662b77"},"refKey":53},
{"_key":"60c3d58b7723bebd86662bbb","_id":"references/60c3d58b7723bebd86662bbb","_rev":"_cfFlOUy---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR Foundation for Statistical Computing; 2015. R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\tR: A Language and Environment for Statistical Computing\n\n","document":{"$oid":"60c3d58b7723bebd86662bba"},"refKey":21},
{"_key":"60c3d5937723bebd86662bbe","_id":"references/60c3d5937723bebd86662bbe","_rev":"_cfFlOV----","tei":"\n\t\n\t\tAutomatic Time Series Forecasting: TheforecastPackage forR\n\t\t\n\t\t\tRobJHyndman\n\t\t\n\t\t\n\t\t\tYeasminKhandakar\n\t\t\n\t\t10.18637/jss.v027.i03\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t27\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c3d5937723bebd86662bbd"},"refKey":34},
{"_key":"60c3d5997723bebd86662bc0","_id":"references/60c3d5997723bebd86662bc0","_rev":"_cfFlOVK---","tei":"\n\t\n\t\tPrimer3 on the WWW for general users and for biologist programmers\n\t\t\n\t\t\tSRozen\n\t\t\n\t\t\n\t\t\tHSkaletsky\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t132\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5997723bebd86662bbf"},"refKey":57},
{"_key":"60c3d5997723bebd86662bc1","_id":"references/60c3d5997723bebd86662bc1","_rev":"_cfFlOVW---","tei":"\n\t\n\t\tCellProfiler: image analysis software for identifying and quantifying cell phenotypes\n\t\t\n\t\t\tAECarpenter\n\t\t\n\t\t\n\t\t\tTRJones\n\t\t\n\t\t\n\t\t\tMRLamprecht\n\t\t\n\t\t\n\t\t\tCClarke\n\t\t\n\t\t\n\t\t\tIHKang\n\t\t\n\t\t\n\t\t\tOFriman\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t7\n\t\t\tR100\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5997723bebd86662bbf"},"refKey":7},
{"_key":"60c3d5af7723bebd86662bd1","_id":"references/60c3d5af7723bebd86662bd1","_rev":"_cfFlOVe---","tei":"\n\t\n\t\tScikit-learn: machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tE´Michel\n\t\t\n\t\t\n\t\t\tDuchesnay\n\t\t\n\t\n\t\n\t\tJ. Mach. Learn. Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5af7723bebd86662bd0"},"refKey":65},
{"_key":"60c3d5af7723bebd86662bd2","_id":"references/60c3d5af7723bebd86662bd2","_rev":"_cfFlOVq---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5af7723bebd86662bd0"},"refKey":64},
{"_key":"60c3d5af7723bebd86662bd3","_id":"references/60c3d5af7723bebd86662bd3","_rev":"_cfFlOV2---","tei":"\n\t\n\t\tPTRAJ and CPPTRAJ: software for processing and analysis of molecular dynamics trajectory data\n\t\t\n\t\t\tDRRoe\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tIii\n\t\t\n\t\n\t\n\t\tJ. Chem. Theory Comput\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5af7723bebd86662bd0"},"refKey":66},
{"_key":"60c3d5af7723bebd86662bd4","_id":"references/60c3d5af7723bebd86662bd4","_rev":"_cfFlOWC---","tei":"\n\t\n\t\tCHARMM-GUI: a web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSJo\n\t\t\n\t\t\n\t\t\tWKim\n\t\t\n\t\t\n\t\t\tIm\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5af7723bebd86662bd0"},"refKey":55},
{"_key":"60c3d5af7723bebd86662bd5","_id":"references/60c3d5af7723bebd86662bd5","_rev":"_cfFlOWO---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tKBraun\n\t\t\n\t\t\n\t\t\tSchulten\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d5af7723bebd86662bd0"},"refKey":60},
{"_key":"60c3d5af7723bebd86662bd6","_id":"references/60c3d5af7723bebd86662bd6","_rev":"_cfFlOWa---","tei":"\n\t\n\t\tUniversity of California\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tPABelfon\n\t\t\n\t\t\n\t\t\tKollman\n\t\t\n\t\t\n\t\t\t2020\n\t\t\tSan Francisco, San Francisco, CA\n\t\t\n\t\n\n","document":{"$oid":"60c3d5af7723bebd86662bd0"},"refKey":74},
{"_key":"60c3d5b77723bebd86662bed","_id":"references/60c3d5b77723bebd86662bed","_rev":"_cfFlOWi---","tei":"\n\t\n\t\tRegularization Paths for Generalized Linear Models via Coordinate Descent\n\t\t\n\t\t\tJFriedman\n\t\t\n\t\t\n\t\t\tTHastie\n\t\t\n\t\t\n\t\t\tRTibshirani\n\t\t\n\t\tInternet]. 2010\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t33\n\t\t\t1\n\t\t\n\t\n\tcited 2020 May 26\n\n","document":{"$oid":"60c3d5b77723bebd86662bec"},"refKey":13},
{"_key":"60c3d6137723bebd86662c07","_id":"references/60c3d6137723bebd86662c07","_rev":"_cfFlOWu---","tei":"\n\t\n\t\tByonic: Advanced Peptide and Protein Identification Software\n\t\t\n\t\t\tMarshallBern\n\t\t\n\t\t\n\t\t\tYongJKil\n\t\t\n\t\t\n\t\t\tChristopherBecker\n\t\t\n\t\t10.1002/0471250953.bi1320s40\n\t\t23255153\n\t\tPMC3545648\n\t\t\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Bioinformatics\n\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c3d6137723bebd86662c06"},"refKey":69},
{"_key":"60c3d6137723bebd86662c08","_id":"references/60c3d6137723bebd86662c08","_rev":"_cfFlOW6---","tei":"\n\t\n\t\tPeak filtering, peak annotation, and wildcard search for glycoproteomics\n\t\t\n\t\t\tARoushan\n\t\t\n\t\t\n\t\t\tGMWilson\n\t\t\n\t\t\n\t\t\tDKletter\n\t\t\n\t\t\n\t\t\tKISen\n\t\t\n\t\t\n\t\t\tWHTang\n\t\t\n\t\t\n\t\t\tYJKil\n\t\t\n\t\t10.1074/mcp.RA120.002260\n\t\t\n\t\n\t\n\t\tMol. Cell. Proteomics\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d6137723bebd86662c06"},"refKey":70},
{"_key":"60c3d6137723bebd86662c09","_id":"references/60c3d6137723bebd86662c09","_rev":"_cfFlOXG---","tei":"\n\t\n\t\tGPQuest: A Spectral Library Matching Algorithm for Site-Specific Assignment of Tandem Mass Spectra to Intact N-glycopeptides\n\t\t\n\t\t\tShadiToghi Eshghi\n\t\t\n\t\t\n\t\t\tPunitShah\n\t\t\n\t\t\n\t\t\tWeimingYang\n\t\t\n\t\t\n\t\t\tXingdeLi\n\t\t\n\t\t\n\t\t\tHuiZhang\n\t\t\n\t\t10.1021/acs.analchem.5b00024\n\t\t25945896\n\t\tPMC4721644\n\t\t\n\t\t\n\t\n\t\n\t\tAnalytical Chemistry\n\t\tAnal. Chem.\n\t\t0003-2700\n\t\t1520-6882\n\t\t\n\t\t\t87\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c3d6137723bebd86662c06"},"refKey":71},
{"_key":"60c3d6137723bebd86662c0a","_id":"references/60c3d6137723bebd86662c0a","_rev":"_cfFlOXS---","tei":"\n\t\n\t\tGPSeeker enables quantitative structural N-glycoproteomics for site-and structure-specific characterization of differentially expressed N-glycosylation in hepatocellular carcinoma\n\t\t\n\t\t\tKJXiao\n\t\t\n\t\t\n\t\t\tZXTian\n\t\t\n\t\t10.1021/acs.jproteome.9b00191\n\t\t\n\t\n\t\n\t\tJ. Proteome Res\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d6137723bebd86662c06"},"refKey":48},
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{"_key":"60c3d65d7723bebd86662c39","_id":"references/60c3d65d7723bebd86662c39","_rev":"_cfFlOXm---","tei":"\n\t\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing; 2020. Accessed\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d65d7723bebd86662c38"},"refKey":43},
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{"_key":"60c3d67d7723bebd86662c58","_id":"references/60c3d67d7723bebd86662c58","_rev":"_cfFlOY----","tei":"\n\t\n\t\tROSETTA3: an object-oriented software suite for the simulation and design of macromolecules\n\t\t\n\t\t\tALeaver-Fay\n\t\t\n\t\t10.1016/B978-0-12-381270-4.00019-6\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t487\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d67d7723bebd86662c57"},"refKey":10},
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{"_key":"60c3d6d77723bebd86662ca1","_id":"references/60c3d6d77723bebd86662ca1","_rev":"_cfFlOYS---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c3d6d77723bebd86662ca0"},"refKey":59},
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{"_key":"60c3d6fd7723bebd86662cdc","_id":"references/60c3d6fd7723bebd86662cdc","_rev":"_cfFlOZu---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSöding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tMol. Syst. Biol\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d6fd7723bebd86662cdb"},"refKey":3},
{"_key":"60c3d7177723bebd86662cfa","_id":"references/60c3d7177723bebd86662cfa","_rev":"_cfFlOZ6---","tei":"\n\t\n\t\tDevelopment and validation of a genetic algorithm for flexible docking 1 1Edited by F. E. Cohen\n\t\t\n\t\t\tGarethJones\n\t\t\n\t\t\n\t\t\tPeterWillett\n\t\t\n\t\t\n\t\t\tRobertCGlen\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t\n\t\t\tRobinTaylor\n\t\t\n\t\t10.1006/jmbi.1996.0897\n\t\t9126849\n\t\tS0022-2836(96)90897-9\n\t\tark:/67375/6H6-GNV4R2V8-6\n\t\tEA7BD423E77C5C32200506C1F153E88DAD7A1E33\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t267\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3d7177723bebd86662cf9"},"refKey":23},
{"_key":"60c3d7287723bebd86662d13","_id":"references/60c3d7287723bebd86662d13","_rev":"_cfFlOaG---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d7287723bebd86662d12"},"refKey":57},
{"_key":"60c3d7287723bebd86662d14","_id":"references/60c3d7287723bebd86662d14","_rev":"_cfFlOaS---","tei":"\n\t\n\t\tSeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d7287723bebd86662d12"},"refKey":58},
{"_key":"60c3d7307723bebd86662d20","_id":"references/60c3d7307723bebd86662d20","_rev":"_cfFlOae---","tei":"\n\t\n\t\tbbmle: Tools for General Maximum Likelihood Estimation\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tRdcTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 1.0.18. Available from\n\n","document":{"$oid":"60c3d7307723bebd86662d1f"},"refKey":53},
{"_key":"60c3d76b7723bebd86662d48","_id":"references/60c3d76b7723bebd86662d48","_rev":"_cfFlOaq---","tei":"\n\t\n\t\tProposed terms and concepts for describing and evaluating animal-health surveillance systems Preventive Veterinary Medicine\n\t\t\n\t\t\tFEHarrellJr\n\t\t\n\t\t\n\t\t\t; LAlban\n\t\t\n\t\t\n\t\t\tLDrewe\n\t\t\n\t\t\n\t\t\tJAGibbens\n\t\t\n\t\t\n\t\t\tJCGustafson\n\t\t\n\t\t\n\t\t\tLHäsler\n\t\t\n\t\t\n\t\t\tBSaegerman\n\t\t\n\t\t\n\t\t\tCSalman\n\t\t\n\t\t\n\t\t\tM\n\t\t\n\t\t\n\t\t\tKDStärk\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\twith contributions from Charles Dupont and many others\n\n","document":{"$oid":"60c3d76b7723bebd86662d47"},"refKey":14},
{"_key":"60c3d76b7723bebd86662d49","_id":"references/60c3d76b7723bebd86662d49","_rev":"_cfFlOa2---","tei":"\n\t\n\t\tA review of quantitative tools used to assess the epidemiology of porcine reproductive and respiratory syndrome in U.S. swine farms using Dr. Morrison's Swine Health Monitoring Program Data Frontiers in Veterinary Science\n\t\t\n\t\t\tJ; CVerzani\n\t\t\n\t\t\n\t\t\tAGArruda\n\t\t\n\t\t\n\t\t\tTousignant\n\t\t\n\t\t\n\t\t\tJPSteven\n\t\t\n\t\t\n\t\t\tPValdes-Donoso\n\t\t\n\t\t\n\t\t\tPMuellner\n\t\t\n\t\t\n\t\t\tUMuellner\n\t\t\n\t\t\n\t\t\tMAAlkhamis\n\t\t\n\t\t\n\t\t\tRBMorrison\n\t\t\n\t\t\n\t\t\tAMPerez\n\t\t\n\t\n\t\n\t\tEtc. for the Text "Using R for Introductory Statistics\n\t\t\t\t\n\t\t\t\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\tUsingR: Data Sets\n\n","document":{"$oid":"60c3d76b7723bebd86662d47"},"refKey":34},
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{"_key":"60c3d77e7723bebd86662d67","_id":"references/60c3d77e7723bebd86662d67","_rev":"_cfFlObW---","tei":"\n\t\n\t\tThe WEKA data mining software: an update\n\t\t\n\t\t\tMHall\n\t\t\n\t\t\n\t\t\tEFrank\n\t\t\n\t\t\n\t\t\tGHolmes\n\t\t\n\t\t\n\t\t\tBPfahringer\n\t\t\n\t\t\n\t\t\tPReutemann\n\t\t\n\t\t\n\t\t\tIHWitten\n\t\t\n\t\n\t\n\t\tSIGKDD Explor\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d77e7723bebd86662d65"},"refKey":50},
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{"_key":"60c3d7d57723bebd86662dd9","_id":"references/60c3d7d57723bebd86662dd9","_rev":"_cfFlOca---","tei":"\n\t\n\t\tRStudio: integrated development environment for R\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d7d57723bebd86662dd7"},"refKey":30},
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{"_key":"60c3d83d7723bebd86662e28","_id":"references/60c3d83d7723bebd86662e28","_rev":"_cfFlOc6---","tei":"\n\t\n\t\tDifferential analysis of gene regulation at transcript resolution with RNA-seq\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tDavidGHendrickson\n\t\t\n\t\t\n\t\t\tMartinSauvageau\n\t\t\n\t\t\n\t\t\tLoyalGoff\n\t\t\n\t\t\n\t\t\tJohnLRinn\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nbt.2450\n\t\t23222703\n\t\tPMC3869392\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t31\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3d83d7723bebd86662e26"},"refKey":37},
{"_key":"60c3d83d7723bebd86662e29","_id":"references/60c3d83d7723bebd86662e29","_rev":"_cfFlOdG---","tei":"\n\t\n\t\tTopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tGeoPertea\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tRyanKelley\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2013-14-4-r36\n\t\t23618408\n\t\tPMC4053844\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\tR36\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tR36. [CrossRef\n\n","document":{"$oid":"60c3d83d7723bebd86662e26"},"refKey":35},
{"_key":"60c3d83d7723bebd86662e2a","_id":"references/60c3d83d7723bebd86662e2a","_rev":"_cfFlOdS---","tei":"\n\t\n\t\tStringTie enables improved reconstruction of a transcriptome from RNA-seq reads\n\t\t\n\t\t\tMihaelaPertea\n\t\t\n\t\t\n\t\t\tGeoMPertea\n\t\t\n\t\t\n\t\t\tCorinaMAntonescu\n\t\t\n\t\t\n\t\t\tTsung-ChengChang\n\t\t\n\t\t\n\t\t\tJoshuaTMendell\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nbt.3122\n\t\t25690850\n\t\tPMC4643835\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t33\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3d83d7723bebd86662e26"},"refKey":36},
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{"_key":"60c3d8867723bebd86662e76","_id":"references/60c3d8867723bebd86662e76","_rev":"_cfFlOeS---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3d8867723bebd86662e72"},"refKey":6},
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{"_key":"60c3d8cd7723bebd86662ea0","_id":"references/60c3d8cd7723bebd86662ea0","_rev":"_cfFlOfO---","tei":"\n\t\n\t\tEnrichment map: a network-based method for gene-set enrichment visualization and interpretation\n\t\t\n\t\t\tDMerico\n\t\t\n\t\t\n\t\t\tRIsserlin\n\t\t\n\t\t\n\t\t\tOStueker\n\t\t\n\t\t\n\t\t\tAEmili\n\t\t\n\t\t\n\t\t\tGDBader\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d8cd7723bebd86662e9d"},"refKey":53},
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{"_key":"60c3d8f87723bebd86662ee0","_id":"references/60c3d8f87723bebd86662ee0","_rev":"_cfFlOgW---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c3d8f87723bebd86662edf"},"refKey":46},
{"_key":"60c3d8f87723bebd86662ee1","_id":"references/60c3d8f87723bebd86662ee1","_rev":"_cfFlOgi---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t10.1093/bioinformatics/btp616\n\t\t19910308\n\t\tPMC2796818\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3d8f87723bebd86662edf"},"refKey":49},
{"_key":"60c3d8f87723bebd86662ee2","_id":"references/60c3d8f87723bebd86662ee2","_rev":"_cfFlOgu---","tei":"\n\t\n\t\tDifferential expression analysis of multifactor RNA-Seq experiments with respect to biological variation\n\t\t\n\t\t\tDavisJMccarthy\n\t\t\n\t\t\n\t\t\tYunshunChen\n\t\t\n\t\t\n\t\t\tGordonKSmyth\n\t\t\n\t\t10.1093/nar/gks042\n\t\t22287627\n\t\tPMC3378882\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3d8f87723bebd86662edf"},"refKey":50},
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{"_key":"60c3d8f87723bebd86662ee4","_id":"references/60c3d8f87723bebd86662ee4","_rev":"_cfFlOhG---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tAlexanderDobin\n\t\t\n\t\t\n\t\t\tCarrieADavis\n\t\t\n\t\t\n\t\t\tFelixSchlesinger\n\t\t\n\t\t\n\t\t\tJorgDrenkow\n\t\t\n\t\t\n\t\t\tChrisZaleski\n\t\t\n\t\t\n\t\t\tSonaliJha\n\t\t\n\t\t\n\t\t\tPhilippeBatut\n\t\t\n\t\t\n\t\t\tMarkChaisson\n\t\t\n\t\t\n\t\t\tThomasRGingeras\n\t\t\n\t\t10.1093/bioinformatics/bts635\n\t\t23104886\n\t\tPMC3530905\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3d8f87723bebd86662edf"},"refKey":47},
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{"_key":"60c3d9057723bebd86662ef8","_id":"references/60c3d9057723bebd86662ef8","_rev":"_cfFlOha---","tei":"\n\t\n\t\tSPIDER and WEB: Processing and Visualization of Images in 3D Electron Microscopy and Related Fields\n\t\t\n\t\t\tJoachimFrank\n\t\t\n\t\t\n\t\t\tMichaelRadermacher\n\t\t\n\t\t\n\t\t\tPawelPenczek\n\t\t\n\t\t\n\t\t\tJunZhu\n\t\t\n\t\t\n\t\t\tYanhongLi\n\t\t\n\t\t\n\t\t\tMahieddineLadjadj\n\t\t\n\t\t\n\t\t\tArdeanLeith\n\t\t\n\t\t10.1006/jsbi.1996.0030\n\t\t8742743\n\t\tS1047-8477(96)90030-1\n\t\tark:/67375/6H6-M7B8DD02-S\n\t\tF95347F53B5F856D3CF3C5072FC333E11783B137\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t116\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3d9057723bebd86662ef6"},"refKey":49},
{"_key":"60c3d9087723bebd86662f08","_id":"references/60c3d9087723bebd86662f08","_rev":"_cfFlOhm---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\t: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c3d9087723bebd86662f07"},"refKey":24},
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{"_key":"60c3d98a7723bebd86662f57","_id":"references/60c3d98a7723bebd86662f57","_rev":"_cfFlOiW---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3d98a7723bebd86662f56"},"refKey":0},
{"_key":"60c3d9987723bebd86662f62","_id":"references/60c3d9987723bebd86662f62","_rev":"_cfFlOii---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3d9987723bebd86662f61"},"refKey":31},
{"_key":"60c3d9987723bebd86662f63","_id":"references/60c3d9987723bebd86662f63","_rev":"_cfFlOiu---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMarcelMartin\n\t\t\n\t\t10.14806/ej.17.1.200\n\t\n\t\n\t\tEMBnet.journal\n\t\tEMBnet j.\n\t\t2226-6089\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t10\n\t\t\t\n\t\t\tEMBnet Stichting\n\t\t\n\t\n\n","document":{"$oid":"60c3d9987723bebd86662f61"},"refKey":33},
{"_key":"60c3d9987723bebd86662f64","_id":"references/60c3d9987723bebd86662f64","_rev":"_cfFlOi6---","tei":"\n\t\n\t\tGenome Project Data Processing Subgroup. The Sequence alignment/map (SAM) format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d9987723bebd86662f61"},"refKey":32},
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{"_key":"60c3d9987723bebd86662f66","_id":"references/60c3d9987723bebd86662f66","_rev":"_cfFlOjS---","tei":"\n\t\n\t\tSPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing\n\t\t\n\t\t\tAntonBankevich\n\t\t\n\t\t\n\t\t\tSergeyNurk\n\t\t\n\t\t\n\t\t\tDmitryAntipov\n\t\t\n\t\t\n\t\t\tAlexeyAGurevich\n\t\t\n\t\t\n\t\t\tMikhailDvorkin\n\t\t\n\t\t\n\t\t\tAlexanderSKulikov\n\t\t\n\t\t\n\t\t\tValeryMLesin\n\t\t\n\t\t\n\t\t\tSergeyINikolenko\n\t\t\n\t\t\n\t\t\tSonPham\n\t\t\n\t\t\n\t\t\tAndreyDPrjibelski\n\t\t\n\t\t\n\t\t\tAlexeyVPyshkin\n\t\t\n\t\t\n\t\t\tAlexanderVSirotkin\n\t\t\n\t\t\n\t\t\tNikolayVyahhi\n\t\t\n\t\t\n\t\t\tGlennTesler\n\t\t\n\t\t\n\t\t\tMaxAAlekseyev\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1089/cmb.2012.0021\n\t\t22506599\n\t\tPMC3342519\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c3d9987723bebd86662f61"},"refKey":34},
{"_key":"60c3d9997723bebd86662f67","_id":"references/60c3d9997723bebd86662f67","_rev":"_cfFlOja---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1093/bioinformatics/bty407\n\t\t29790939\n\t\tPMC6247931\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3d9987723bebd86662f61"},"refKey":38},
{"_key":"60c3d9997723bebd86662f68","_id":"references/60c3d9997723bebd86662f68","_rev":"_cfFlOjm---","tei":"\n\t\n\t\tComplete Genome Sequence of the Sesbania Symbiont and Rice\n\t\t\n\t\t\tGERhizobium\n\t\t\n\t\t10.1093/nar\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3d9987723bebd86662f61"},"refKey":39},
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{"_key":"60c3de4f7723bebd8666332f","_id":"references/60c3de4f7723bebd8666332f","_rev":"_cfFlOtq---","tei":"\n\t\n\t\tBayesian phylogenetic and phylodynamic data integration using BEAST 1.10\n\t\t\n\t\t\tMarcASuchard\n\t\t\t0000-0001-9818-479X\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\t0000-0003-2826-5353\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tDanielLAyres\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\t0000-0003-4337-3707\n\t\t\n\t\t10.1093/ve/vey016\n\t\t29942656\n\t\tPMC6007674\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3de4f7723bebd8666332e"},"refKey":16},
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{"_key":"60c3de537723bebd866633a4","_id":"references/60c3de537723bebd866633a4","_rev":"_cfFlOu----","tei":"\n\t\n\t\tMatrix eQTL: ultra fast eQTL analysis via large matrix operations\n\t\t\n\t\t\tAAShabalin\n\t\t\n\t\t10.1093/bioinformatics/bts163\n\t\t22492648\n\t\tPMC3348564\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3de537723bebd866633a3"},"refKey":57},
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{"_key":"60c3de5d7723bebd866633b1","_id":"references/60c3de5d7723bebd866633b1","_rev":"_cfFlOuW---","tei":"\n\t\n\t\tFastTree 2--approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3de5d7723bebd866633af"},"refKey":5},
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{"_key":"60c3de7c7723bebd866633c9","_id":"references/60c3de7c7723bebd866633c9","_rev":"_cfFlOuu---","tei":"\n\t\n\t\tHabitat: A Platform for Embodied AI Research\n\t\t\n\t\t\tMSavva\n\t\t\n\t\t\n\t\t\tAKadian\n\t\t\n\t\t\n\t\t\tOMaksymets\n\t\t\n\t\t\n\t\t\tYZhao\n\t\t\n\t\t\n\t\t\tEWijmans\n\t\t\n\t\n\t\n\t\tICCV\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3de7c7723bebd866633c7"},"refKey":14},
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{"_key":"60c3de967723bebd866633e9","_id":"references/60c3de967723bebd866633e9","_rev":"_cfFlOvO---","tei":"\n\t\n\t\tDatabase resources of the National Center for Biotechnology Information\n\t\t\n\t\t\tDLWheeler\n\t\t\n\t\t\n\t\t\tTBarrett\n\t\t\n\t\t\n\t\t\tDABenson\n\t\t\n\t\t\n\t\t\tSHBryant\n\t\t\n\t\t\n\t\t\tKCanese\n\t\t\n\t\t10.1093/nar/28.1.10\n\t\t10592169\n\t\tPMC102437\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t28\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3de967723bebd866633e6"},"refKey":17},
{"_key":"60c3deaf7723bebd8666340d","_id":"references/60c3deaf7723bebd8666340d","_rev":"_cfFlOva---","tei":"\n\t\n\t\tEvolving neural networks\n\t\t\n\t\t\tRistoMiikkulainen\n\t\t\n\t\t\n\t\t\tKennethOStanley\n\t\t\n\t\t10.1145/1570256.1570410\n\t\n\t\n\t\tProceedings of the 11th annual conference companion on Genetic and evolutionary computation conference - GECCO '09\n\t\t\t\tthe 11th annual conference companion on Genetic and evolutionary computation conference - GECCO '09\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3deaf7723bebd8666340c"},"refKey":13},
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{"_key":"60c3def37723bebd8666344b","_id":"references/60c3def37723bebd8666344b","_rev":"_cfFlOwG---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c3def37723bebd86663449"},"refKey":8},
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{"_key":"60c3df2b7723bebd8666346a","_id":"references/60c3df2b7723bebd8666346a","_rev":"_cfFlOwa---","tei":"\n\t\n\t\tLocARNA-P: Accurate boundary prediction and improved detection of structural RNAs\n\t\t\n\t\t\tSWill\n\t\t\n\t\t\n\t\t\tTJoshi\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t\n\t\t\tRBackofen\n\t\t\n\t\t10.1261/rna.029041.111\n\t\t22450757\n\t\tPMC3334699\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t18\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3df2b7723bebd86663468"},"refKey":39},
{"_key":"60c3df2c7723bebd86663473","_id":"references/60c3df2c7723bebd86663473","_rev":"_cfFlOwm---","tei":"\n\t\n\t\tOpen Source Drug Discovery, C. & Lynn, A. g_mmpbsa--a GROMACS tool for high-throughput MM-PBSA calculations\n\t\t\n\t\t\tRKumari\n\t\t\n\t\n\t\n\t\tJ Chem Inf Model\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3df2c7723bebd86663472"},"refKey":14},
{"_key":"60c3df367723bebd8666348a","_id":"references/60c3df367723bebd8666348a","_rev":"_cfFlOwy---","tei":"\n\t\n\t\tTreeDyn: towards dynamic graphics and annotations for analyses of trees\n\t\t\n\t\t\tFChevenet\n\t\t\n\t\t\n\t\t\tCBrun\n\t\t\n\t\t\n\t\t\tALBanuls\n\t\t\n\t\t\n\t\t\tBJacq\n\t\t\n\t\t\n\t\t\tRChristen\n\t\t\n\t\t17032440\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t7\n\t\t\t439\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3df367723bebd86663489"},"refKey":34},
{"_key":"60c3df807723bebd866634ba","_id":"references/60c3df807723bebd866634ba","_rev":"_cfFlOx----","tei":"\n\t\n\t\t\n\t\t\tZYang\n\t\t\n\t\t\n\t\t\tZDai\n\t\t\n\t\t\n\t\t\tYYang\n\t\t\n\t\t\n\t\t\tJCarbonell\n\t\t\n\t\t\n\t\t\tRSalakhutdinov\n\t\t\n\t\t\n\t\t\tQVLe\n\t\t\n\t\tarXiv:1906.08237\n\t\tXLNet: generalized autoregressive pretraining for language understanding\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c3df807723bebd866634b9"},"refKey":55},
{"_key":"60c3df807723bebd866634bb","_id":"references/60c3df807723bebd866634bb","_rev":"_cfFlOxK---","tei":"\n\t\n\t\t\n\t\t\tYLiu\n\t\t\n\t\tarXiv:1907.11692\n\t\tRoBERTa: a robustly optimized BERT pretraining approach\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c3df807723bebd866634b9"},"refKey":24},
{"_key":"60c3df807723bebd866634bc","_id":"references/60c3df807723bebd866634bc","_rev":"_cfFlOxS---","tei":"\n\t\n\t\tBERT: pre-training of deep bidirectional transformers for language understanding\n\t\t\n\t\t\tJDevlin\n\t\t\n\t\t\n\t\t\tMWChang\n\t\t\n\t\t\n\t\t\tKLee\n\t\t\n\t\t\n\t\t\tKToutanova\n\t\t\n\t\n\t\n\t\tNAACL\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3df807723bebd866634b9"},"refKey":6},
{"_key":"60c3df8e7723bebd866634c8","_id":"references/60c3df8e7723bebd866634c8","_rev":"_cfFlOxe---","tei":"\n\t\n\t\tWhat is Q-Extension?\n\t\t\n\t\t\tIBouyukliev\n\t\t\n\t\n\t\n\t\tSerdica J. Comput\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3df8e7723bebd866634c7"},"refKey":4},
{"_key":"60c3df8e7723bebd866634c9","_id":"references/60c3df8e7723bebd866634c9","_rev":"_cfFlOxq---","tei":"\n\t\n\t\tThe Magma algebra system I: The user language\n\t\t\n\t\t\tWBosma\n\t\t\n\t\t\n\t\t\tJCannon\n\t\t\n\t\t\n\t\t\tCPlayoust\n\t\t\n\t\n\t\n\t\tJ. Symbolic Comput\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3df8e7723bebd866634c7"},"refKey":3},
{"_key":"60c3df8e7723bebd866634ca","_id":"references/60c3df8e7723bebd866634ca","_rev":"_cfFlOx2---","tei":"\n\t\n\t\tClassifying discrete objects with orbiter\n\t\t\n\t\t\tAntonBetten\n\t\t\n\t\t10.1145/2576802.2576832\n\t\n\t\n\t\tACM Communications in Computer Algebra\n\t\tACM Commun. Comput. Algebra\n\t\t1932-2240\n\t\t\n\t\t\t47\n\t\t\t3/4\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c3df8e7723bebd866634c7"},"refKey":1},
{"_key":"60c3df927723bebd866634df","_id":"references/60c3df927723bebd866634df","_rev":"_cfFlOy----","tei":"\n\t\n\t\tFlexible Sequence Similarity Searching with the FASTA3 Program Package\n\t\t\n\t\t\tWilliamRPearson\n\t\t\n\t\t10.1385/1-59259-192-2:185\n\t\t\n\t\n\t\n\t\tBioinformatics Methods and Protocols\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t2000\n\t\t\t132\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3df927723bebd866634de"},"refKey":39},
{"_key":"60c3df927723bebd866634e0","_id":"references/60c3df927723bebd866634e0","_rev":"_cfFlOyK---","tei":"\n\t\n\t\tA dynamic programming algorithm for RNA structure prediction including pseudoknots 1 1Edited by I. Tinoco\n\t\t\n\t\t\tElenaRivas\n\t\t\n\t\t\n\t\t\tSeanREddy\n\t\t\n\t\t10.1006/jmbi.1998.2436\n\t\t9925784\n\t\tS0022-2836(98)92436-6\n\t\tark:/67375/6H6-8BBVHDVB-8\n\t\t32753390B27921164FBA3E4055A8A72B3524A63F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t285\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3df927723bebd866634de"},"refKey":12},
{"_key":"60c3df927723bebd866634e1","_id":"references/60c3df927723bebd866634e1","_rev":"_cfFlOyW---","tei":"\n\t\n\t\tNMRPipe: A multidimensional spectral processing system based on UNIX pipes\n\t\t\n\t\t\tFDelaglio\n\t\t\n\t\t\n\t\t\tSGrzesiek\n\t\t\n\t\t\n\t\t\tGWVuister\n\t\t\n\t\t\n\t\t\tGZhu\n\t\t\n\t\t\n\t\t\tJPfeifer\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3df927723bebd866634de"},"refKey":49},
{"_key":"60c3df927723bebd866634e2","_id":"references/60c3df927723bebd866634e2","_rev":"_cfFlOyi---","tei":"\n\t\n\t\tNMRView: A computer program for the visualization and analysis of NMR data\n\t\t\n\t\t\tBAJohnson\n\t\t\n\t\t\n\t\t\tRABlevins\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3df927723bebd866634de"},"refKey":50},
{"_key":"60c3df927723bebd866634e3","_id":"references/60c3df927723bebd866634e3","_rev":"_cfFlOyu---","tei":"\n\t\n\t\tRNAMotif, an RNA secondary structure definition and search algorithm\n\t\t\n\t\t\tTJMacke\n\t\t\n\t\t\n\t\t\tDJEcker\n\t\t\n\t\t\n\t\t\tRRGutell\n\t\t\n\t\t\n\t\t\tDGautheret\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t10.1093/nar/29.22.4724\n\t\t11713323\n\t\tPMC92549\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3df927723bebd866634de"},"refKey":11},
{"_key":"60c3df927723bebd866634e4","_id":"references/60c3df927723bebd866634e4","_rev":"_cfFlOy2---","tei":"\n\t\n\t\tCLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3df927723bebd866634de"},"refKey":41},
{"_key":"60c3dfc57723bebd86663501","_id":"references/60c3dfc57723bebd86663501","_rev":"_cfFlOzC---","tei":"\n\t\n\t\tNew software for searching the Cambridge Structural Database and visualizing crystal structures\n\t\t\n\t\t\tIanJBruno\n\t\t\n\t\t\n\t\t\tJasonCCole\n\t\t\n\t\t\n\t\t\tPaulREdgington\n\t\t\n\t\t\n\t\t\tMagnusKessler\n\t\t\n\t\t\n\t\t\tClareFMacrae\n\t\t\n\t\t\n\t\t\tPatrickMccabe\n\t\t\n\t\t\n\t\t\tJonathanPearson\n\t\t\n\t\t\n\t\t\tRobinTaylor\n\t\t\n\t\t10.1107/s0108768102003324\n\t\t12037360\n\t\tark:/67375/WNG-RPX4C7L1-V\n\t\tB79AA789ED40843C8AB645245A118CF613FFCFFD\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section B Structural Science\n\t\tActa Cryst Sect A Found Cryst\n\t\t0108-7681\n\t\t\n\t\t\t58\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3dfc57723bebd86663500"},"refKey":65},
{"_key":"60c3dfe37723bebd86663518","_id":"references/60c3dfe37723bebd86663518","_rev":"_cfFlOzO---","tei":"\n\t\n\t\tThe DIANA-mirExTra Web Server: From Gene Expression Data to MicroRNA Function\n\t\t\n\t\t\tPanagiotisAlexiou\n\t\t\n\t\t\n\t\t\tManolisMaragkakis\n\t\t\n\t\t\n\t\t\tGiorgioLPapadopoulos\n\t\t\n\t\t\n\t\t\tVictorASimmosis\n\t\t\n\t\t\n\t\t\tLinZhang\n\t\t\n\t\t\n\t\t\tArtemisGHatzigeorgiou\n\t\t\n\t\t10.1371/journal.pone.0009171\n\t\t20161787\n\t\tPMC2820085\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t5\n\t\t\t2\n\t\t\te9171\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c3dfe37723bebd86663517"},"refKey":3},
{"_key":"60c3dfe37723bebd86663519","_id":"references/60c3dfe37723bebd86663519","_rev":"_cfFlOza---","tei":"\n\t\n\t\tThe microRNA.org resource: targets and expression\n\t\t\n\t\t\tDBetel\n\t\t\n\t\t\n\t\t\tMWilson\n\t\t\n\t\t\n\t\t\tAGabow\n\t\t\n\t\t\n\t\t\tDSMarks\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\t10.1093/nar/gkm995\n\t\t18158296\n\t\tPMC2238905\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tDatabase issue\n\n","document":{"$oid":"60c3dfe37723bebd86663517"},"refKey":6},
{"_key":"60c3dfe37723bebd8666351a","_id":"references/60c3dfe37723bebd8666351a","_rev":"_cfFlOzm---","tei":"\n\t\n\t\tConserved Seed Pairing, Often Flanked by Adenosines, Indicates that Thousands of Human Genes are MicroRNA Targets\n\t\t\n\t\t\tBenjaminPLewis\n\t\t\n\t\t\n\t\t\tChristopherBBurge\n\t\t\n\t\t\n\t\t\tDavidPBartel\n\t\t\n\t\t10.1016/j.cell.2004.12.035\n\t\t15652477\n\t\t\n\t\n\t\n\t\tCell\n\t\tCell\n\t\t0092-8674\n\t\t\n\t\t\t120\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3dfe37723bebd86663517"},"refKey":21},
{"_key":"60c3dfe37723bebd8666351b","_id":"references/60c3dfe37723bebd8666351b","_rev":"_cfFlOzy---","tei":"\n\t\n\t\tmiRDB: an online resource for microRNA target prediction and functional annotations\n\t\t\n\t\t\tNathanWong\n\t\t\n\t\t\n\t\t\tXiaoweiWang\n\t\t\n\t\t10.1093/nar/gku1104\n\t\t25378301\n\t\tPMC4383922\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tDatabase issue\n\n","document":{"$oid":"60c3dfe37723bebd86663517"},"refKey":43},
{"_key":"60c3dfe47723bebd86663524","_id":"references/60c3dfe47723bebd86663524","_rev":"_cfFlO0C---","tei":"\n\t\n\t\tQuickGO: a web-based tool for Gene Ontology searching\n\t\t\n\t\t\tDBinns\n\t\t\n\t\t\n\t\t\tECDimmer\n\t\t\n\t\t\n\t\t\tRPHuntley\n\t\t\n\t\t\n\t\t\tDGBarrell\n\t\t\n\t\t\n\t\t\tCO'donovan\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\t10.1002/pmic.200800002\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3dfe47723bebd86663523"},"refKey":48},
{"_key":"60c3dfe47723bebd86663525","_id":"references/60c3dfe47723bebd86663525","_rev":"_cfFlO0S---","tei":"\n\t\n\t\tPANTHER: Protein families and subfamilies modeled on the divergence of function\n\t\t\n\t\t\tPaulDThomas\n\t\t\n\t\t\n\t\t\tMJCampbell\n\t\t\n\t\t\n\t\t\tAKejariwal\n\t\t\n\t\t\n\t\t\tHMi\n\t\t\n\t\t\n\t\t\tBKarlak\n\t\t\n\t\t\n\t\t\tRDaverman\n\t\t\n\t\t10.1002/047001153x.g306319\n\t\n\t\n\t\tEncyclopedia of Genetics, Genomics, Proteomics and Bioinformatics\n\t\t\t\t\n\t\t\tJohn Wiley & Sons, Ltd\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3dfe47723bebd86663523"},"refKey":40},
{"_key":"60c3e00b7723bebd86663544","_id":"references/60c3e00b7723bebd86663544","_rev":"_cfFlO0m---","tei":"\n\t\n\t\t\n\t\tStataCorp. Stata Statistical Software: Release 14. College Station, TX: StataCorp LP\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e00b7723bebd86663543"},"refKey":22},
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{"_key":"60c3e0177723bebd8666354e","_id":"references/60c3e0177723bebd8666354e","_rev":"_cfFlO1m---","tei":"\n\t\n\t\tDevelopment and Validation of Molecular Overlays Derived from Three-Dimensional Hydrophobic Similarity with PharmScreen\n\t\t\n\t\t\tJavierVázquez\n\t\t\n\t\t\n\t\t\tAlessandroDeplano\n\t\t\n\t\t\n\t\t\tAlbertHerrero\n\t\t\n\t\t\n\t\t\tTizianaGinex\n\t\t\n\t\t\n\t\t\tEnricGibert\n\t\t\n\t\t\n\t\t\tObduliaRabal\n\t\t\t0000-0002-3224-0987\n\t\t\n\t\t\n\t\t\tJulenOyarzabal\n\t\t\t0000-0003-1941-7255\n\t\t\n\t\t\n\t\t\tEnricHerrero\n\t\t\n\t\t\n\t\t\tFJavierLuque\n\t\t\t0000-0002-8049-3567\n\t\t\n\t\t10.1021/acs.jcim.8b00216\n\t\t30010337\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t58\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c3e0177723bebd8666354a"},"refKey":31},
{"_key":"60c3e0177723bebd8666354f","_id":"references/60c3e0177723bebd8666354f","_rev":"_cfFlO12---","tei":"\n\t\n\t\tAvailable online: www.pharmacelera.com (accessed on\n\t\t\n\t\t\tPharmscreen\n\t\t\n\t\t\n\t\t\tPharmacelera\n\t\t\n\t\t\n\t\t\t\n\t\t\t15\n\t\t\tBarcelona\n\t\t\n\t\n\n","document":{"$oid":"60c3e0177723bebd8666354a"},"refKey":168},
{"_key":"60c3e0177723bebd86663550","_id":"references/60c3e0177723bebd86663550","_rev":"_cfFlO2C---","tei":"\n\t\n\t\trDock: A Fast, Versatile and Open Source Program for Docking Ligands to Proteins and Nucleic Acids\n\t\t\n\t\t\tSergioRuiz-Carmona\n\t\t\n\t\t\n\t\t\tDanielAlvarez-Garcia\n\t\t\n\t\t\n\t\t\tNicolasFoloppe\n\t\t\n\t\t\n\t\t\tABeatrizGarmendia-Doval\n\t\t\n\t\t\n\t\t\tSzilveszterJuhos\n\t\t\n\t\t\n\t\t\tPeterSchmidtke\n\t\t\n\t\t\n\t\t\tXavierBarril\n\t\t\n\t\t\n\t\t\tRoderickEHubbard\n\t\t\n\t\t\n\t\t\tSDavidMorley\n\t\t\n\t\t10.1371/journal.pcbi.1003571\n\t\t24722481\n\t\tPMC3983074\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\te1003571\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3e0177723bebd8666354a"},"refKey":169},
{"_key":"60c3e0177723bebd86663551","_id":"references/60c3e0177723bebd86663551","_rev":"_cfFlO2S---","tei":"\n\t\n\t\tDevelopment and validation of a genetic algorithm for flexible docking 1 1Edited by F. E. Cohen\n\t\t\n\t\t\tGarethJones\n\t\t\n\t\t\n\t\t\tPeterWillett\n\t\t\n\t\t\n\t\t\tRobertCGlen\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t\n\t\t\tRobinTaylor\n\t\t\n\t\t10.1006/jmbi.1996.0897\n\t\t9126849\n\t\tS0022-2836(96)90897-9\n\t\tark:/67375/6H6-GNV4R2V8-6\n\t\tEA7BD423E77C5C32200506C1F153E88DAD7A1E33\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t267\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3e0177723bebd8666354a"},"refKey":170},
{"_key":"60c3e0177723bebd86663552","_id":"references/60c3e0177723bebd86663552","_rev":"_cfFlO2e---","tei":"\n\t\n\t\tThe ChEMBL database in 2017\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tAnneHersey\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tAPatríciaBento\n\t\t\n\t\t\n\t\t\tJonChambers\n\t\t\n\t\t\n\t\t\tDavidMendez\n\t\t\n\t\t\n\t\t\tPrudenceMutowo\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tLouisaJBellis\n\t\t\n\t\t\n\t\t\tElenaCibrián-Uhalte\n\t\t\n\t\t\n\t\t\tMarkDavies\n\t\t\n\t\t\n\t\t\tNathanDedman\n\t\t\n\t\t\n\t\t\tAnneliKarlsson\n\t\t\n\t\t\n\t\t\tMaríaPaulaMagariños\n\t\t\n\t\t\n\t\t\tJohnPOverington\n\t\t\n\t\t\n\t\t\tGeorgePapadatos\n\t\t\t0000-0002-8314-7061\n\t\t\n\t\t\n\t\t\tInesSmit\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t10.1093/nar/gkw1074\n\t\t27899562\n\t\tPMC5210557\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e0177723bebd8666354a"},"refKey":172},
{"_key":"60c3e0177723bebd86663553","_id":"references/60c3e0177723bebd86663553","_rev":"_cfFlO2u---","tei":"\n\t\n\t\tPubChem: a public information system for analyzing bioactivities of small molecules\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tJXiao\n\t\t\n\t\t\n\t\t\tTOSuzek\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tSHBryant\n\t\t\n\t\t10.1093/nar/gkp456\n\t\t19498078\n\t\tPMC2703903\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e0177723bebd8666354a"},"refKey":173},
{"_key":"60c3e03b7723bebd86663577","_id":"references/60c3e03b7723bebd86663577","_rev":"_cfFlO26---","tei":"\n\t\n\t\tWhat are the risks of COVID-19 infection in pregnant women?\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\n\t\n\t\tLancet\n\t\t\n\t\t\t395\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tMplus User's Guide: Eighth Edition\n\n","document":{"$oid":"60c3e03b7723bebd86663576"},"refKey":18},
{"_key":"60c3e0547723bebd86663585","_id":"references/60c3e0547723bebd86663585","_rev":"_cfFlO3G---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e0547723bebd86663584"},"refKey":39},
{"_key":"60c3e0557723bebd86663588","_id":"references/60c3e0557723bebd86663588","_rev":"_cfFlO3S---","tei":"\n\t\n\t\tLead-and drug-like compounds: the rule-offive revolution\n\t\t\n\t\t\tCALipinski\n\t\t\n\t\n\t\n\t\tDrug Discovery Today: Technologies\n\t\t\t\t\n\t\t\t\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e0557723bebd86663587"},"refKey":44},
{"_key":"60c3e0947723bebd866635ac","_id":"references/60c3e0947723bebd866635ac","_rev":"_cfFlO3e---","tei":"\n\t\n\t\tObserver variability of absolute and relative thrombus density measurements in patients with acute ischemic stroke\n\t\t\n\t\t\tEmilieM MSantos\n\t\t\n\t\t\n\t\t\tAlbertJYoo\n\t\t\n\t\t\n\t\t\tLudoFBeenen\n\t\t\n\t\t\n\t\t\tOlvertABerkhemer\n\t\t\n\t\t\n\t\t\tMarkDDen Blanken\n\t\t\n\t\t\n\t\t\tCarrieWismans\n\t\t\n\t\t\n\t\t\tWiroJNiessen\n\t\t\n\t\t\n\t\t\tCharlesBMajoie\n\t\t\n\t\t\n\t\t\tHenkAMarquering\n\t\t\n\t\t10.1007/s00234-015-1607-4\n\t\t26494462\n\t\tPMC4773501\n\t\t\n\t\n\t\n\t\tNeuroradiology\n\t\tNeuroradiology\n\t\t0028-3940\n\t\t1432-1920\n\t\t\n\t\t\t58\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3e0947723bebd866635ab"},"refKey":18},
{"_key":"60c3e0ce7723bebd866635cb","_id":"references/60c3e0ce7723bebd866635cb","_rev":"_cfFlO3q---","tei":"\n\t\n\t\tDesign and validation of a tool for neurite tracing and analysis in fluorescence microscopy images\n\t\t\n\t\t\tEMeijering\n\t\t\n\t\t\n\t\t\tMJacob\n\t\t\n\t\t\n\t\t\tJCSarria\n\t\t\n\t\t\n\t\t\tPSteiner\n\t\t\n\t\t\n\t\t\tHHirling\n\t\t\n\t\t\n\t\t\tMUnser\n\t\t\n\t\n\t\n\t\tCytom A\n\t\t\n\t\t\t58\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e0ce7723bebd866635ca"},"refKey":44},
{"_key":"60c3e0d07723bebd866635d3","_id":"references/60c3e0d07723bebd866635d3","_rev":"_cfFlO3y---","tei":"\n\t\n\t\t\n\t\t\tRCore\n\t\t\n\t\tTeam, R: A language and environment for statistical computing. R Foundation for Statistical Computing. R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e0d07723bebd866635d2"},"refKey":13},
{"_key":"60c3e1787723bebd86663619","_id":"references/60c3e1787723bebd86663619","_rev":"_cfFlO4----","tei":"\n\t\n\t\tDigital Investigation of Cybercrimes Based on Big Data Analytics Using Deep Learning\n\t\t\n\t\t\tEzz El-DinHemdan\n\t\t\n\t\t\n\t\t\tManjaiahDH.\n\t\t\n\t\t10.4018/978-1-7998-0414-7.ch034\n\t\n\t\n\t\tDeep Learning and Neural Networks\n\t\t\t\t\n\t\t\tIGI Global\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e1787723bebd86663618"},"refKey":26},
{"_key":"60c3e1967723bebd86663632","_id":"references/60c3e1967723bebd86663632","_rev":"_cfFlO4K---","tei":"\n\t\n\t\tThe janusgraph project web page\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e1967723bebd86663631"},"refKey":7},
{"_key":"60c3e19f7723bebd86663638","_id":"references/60c3e19f7723bebd86663638","_rev":"_cfFlO4W---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3e19f7723bebd86663637"},"refKey":6},
{"_key":"60c3e1b27723bebd86663640","_id":"references/60c3e1b27723bebd86663640","_rev":"_cfFlO4i---","tei":"\n\t\n\t\tPredicting linear B‐cell epitopes using string kernels\n\t\t\n\t\t\tYasserEl‐manzalawy\n\t\t\n\t\t\n\t\t\tDrenaDobbs\n\t\t\n\t\t\n\t\t\tVasantHonavar\n\t\t\n\t\t10.1002/jmr.893\n\t\t18496882\n\t\tPMC2683948\n\t\tark:/67375/WNG-WGM67G2V-3\n\t\t6483283356B180D4365629B79073ABBEDE5C41A3\n\t\t\n\t\n\t\n\t\tJournal of Molecular Recognition\n\t\tJ. Mol. Recognit.\n\t\t0952-3499\n\t\t1099-1352\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3e1b27723bebd8666363f"},"refKey":10},
{"_key":"60c3e1b27723bebd86663641","_id":"references/60c3e1b27723bebd86663641","_rev":"_cfFlO4u---","tei":"\n\t\n\t\tBcePred:Prediction of continuous B-cell epitopes in antigenic sequences using physico-chemical properties\n\t\t\n\t\t\tSSaha\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t\n\t\t\tGNicosia\n\t\t\n\t\t\n\t\t\tVCutello\n\t\t\n\t\t\n\t\t\tPJBentley\n\t\t\n\t\n\t\n\t\tICARIS LNCS\n\t\tTimis, J.\n\t\t\n\t\t\t3239\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e1b27723bebd8666363f"},"refKey":35},
{"_key":"60c3e1b27723bebd86663642","_id":"references/60c3e1b27723bebd86663642","_rev":"_cfFlO46---","tei":"\n\t\n\t\tStructure validation by Cα geometry: φ, ψ and Cβ deviation\n\t\t\n\t\t\tSCLovell\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tIiiArendall\n\t\t\n\t\t\n\t\t\tWBDe Bakker\n\t\t\n\t\t\n\t\t\tPIWord\n\t\t\n\t\t\n\t\t\tJMPrisant\n\t\t\n\t\t\n\t\t\tMGRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDC\n\t\t\n\t\n\t\n\t\tProteins: Structure Funct. Bioinformat\n\t\t\n\t\t\t50\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e1b27723bebd8666363f"},"refKey":26},
{"_key":"60c3e1b27723bebd86663643","_id":"references/60c3e1b27723bebd86663643","_rev":"_cfFlO5G---","tei":"\n\t\n\t\tLarge-scale validation of methods for cytotoxic T-lymphocyte epitope prediction\n\t\t\n\t\t\tMetteVLarsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tSorenBuus\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1186/1471-2105-8-424\n\t\t17973982\n\t\tPMC2194739\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t424\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3e1b27723bebd8666363f"},"refKey":24},
{"_key":"60c3e1b27723bebd86663644","_id":"references/60c3e1b27723bebd86663644","_rev":"_cfFlO5S---","tei":"\n\t\n\t\tSOPMA: significant improvements in protein secondary structure prediction by consensus prediction from multiple alignments\n\t\t\n\t\t\tCGeourjon\n\t\t\n\t\t\n\t\t\tGDeléage\n\t\t\n\t\t10.1093/bioinformatics/11.6.681\n\t\tark:/67375/HXZ-3NCG9X08-F\n\t\tF28C01AB29C5F411E08EAED1E7B846C54236DDE3\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t11\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e1b27723bebd8666363f"},"refKey":14},
{"_key":"60c3e1b27723bebd86663645","_id":"references/60c3e1b27723bebd86663645","_rev":"_cfFlO5e---","tei":"\n\t\n\t\tProtein identification and analysis tools on the ExPASy server\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\t\n\t\t\tMRWilkins\n\t\t\n\t\t\n\t\t\tRDAppel\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\n\t\n\t\tThe Proteomics Protocols Handbook\n\t\t\t\t\n\t\t\tHumana press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e1b27723bebd8666363f"},"refKey":13},
{"_key":"60c3e1b57723bebd86663671","_id":"references/60c3e1b57723bebd86663671","_rev":"_cfFlO5q---","tei":"\n\t\n\t\tAutodock4 and AutoDockTools4: Automated docking with selective receptor flexiblity\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e1b57723bebd86663670"},"refKey":58},
{"_key":"60c3e2157723bebd866636ba","_id":"references/60c3e2157723bebd866636ba","_rev":"_cfFlO5y---","tei":"\n\t\n\t\tThe Vienna RNA websuite\n\t\t\n\t\t\tARGruber\n\t\t\n\t\t\n\t\t\tRLorenz\n\t\t\n\t\t\n\t\t\tSHBernhart\n\t\t\n\t\t\n\t\t\tRNeub Öck\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c3e2157723bebd866636b9"},"refKey":46},
{"_key":"60c3e23f7723bebd866636e2","_id":"references/60c3e23f7723bebd866636e2","_rev":"_cfFlO6----","tei":"\n\t\n\t\tFastQC: a quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e23f7723bebd866636e1"},"refKey":23},
{"_key":"60c3e2457723bebd866636ef","_id":"references/60c3e2457723bebd866636ef","_rev":"_cfFlO6K---","tei":"\n\t\n\t\tAutomated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\t0000-0001-5025-9596\n\t\t\n\t\t\n\t\t\tYifanSong\n\t\t\n\t\t\n\t\t\tBenjaminABarad\n\t\t\t0000-0002-1016-862X\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\t0000-0002-5080-2859\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\t0000-0002-7524-8938\n\t\t\n\t\t10.7554/elife.17219\n\t\t27669148\n\t\tPMC5115868\n\t\t\n\t\n\t\n\t\teLife\n\t\t2050-084X\n\t\t\n\t\t\t5\n\t\t\te17219\n\t\t\t\n\t\t\teLife Sciences Publications, Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":58},
{"_key":"60c3e2457723bebd866636f0","_id":"references/60c3e2457723bebd866636f0","_rev":"_cfFlO6W---","tei":"\n\t\n\t\tCTFFIND4: Fast and accurate defocus estimation from electron micrographs\n\t\t\n\t\t\tAlexisRohou\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\n\t\t10.1016/j.jsb.2015.08.008\n\t\t26278980\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t192\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":41},
{"_key":"60c3e2457723bebd866636f1","_id":"references/60c3e2457723bebd866636f1","_rev":"_cfFlO6i---","tei":"\n\t\n\t\tMolProbity: More and better reference data for improved all-atom structure validation\n\t\t\n\t\t\tChristopherJWilliams\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\t0000-0001-8857-9464\n\t\t\n\t\t\n\t\t\tMichaelGPrisant\n\t\t\n\t\t\n\t\t\tLizbethLVideau\n\t\t\n\t\t\n\t\t\tLindsayNDeis\n\t\t\n\t\t\n\t\t\tVishalVerma\n\t\t\n\t\t\n\t\t\tDanielAKeedy\n\t\t\n\t\t\n\t\t\tBradleyJHintze\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tSwatiJain\n\t\t\n\t\t\n\t\t\tStevenMLewis\n\t\t\n\t\t\n\t\t\tWBryanArendall\n\t\t\n\t\t\n\t\t\tJackSnoeyink\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tSimonCLovell\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t10.1002/pro.3330\n\t\t29067766\n\t\tPMC5734394\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":59},
{"_key":"60c3e2457723bebd866636f2","_id":"references/60c3e2457723bebd866636f2","_rev":"_cfFlO6u---","tei":"\n\t\n\t\tReal-space refinement in PHENIX for cryo-EM and crystallography\n\t\t\n\t\t\tPavelVAfonine\n\t\t\t0000-0002-5052-991X\n\t\t\n\t\t\n\t\t\tBillyKPoon\n\t\t\t0000-0001-9633-6067\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\t0000-0001-8273-0047\n\t\t\n\t\t\n\t\t\tOlegVSobolev\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1107/s2059798318006551\n\t\t29872004\n\t\tPMC6096492\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Structural Biology\n\t\tActa Cryst Sect D Struct Biol\n\t\t2059-7983\n\t\t\n\t\t\t74\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tPt 6\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":1},
{"_key":"60c3e2457723bebd866636f3","_id":"references/60c3e2457723bebd866636f3","_rev":"_cfFlO66---","tei":"\n\t\n\t\tProcessing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\t27754618\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":31},
{"_key":"60c3e2457723bebd866636f4","_id":"references/60c3e2457723bebd866636f4","_rev":"_cfFlO7G---","tei":"\n\t\n\t\tGctf: Real-time CTF determination and correction\n\t\t\n\t\t\tKaiZhang\n\t\t\t0000-0001-8617-2855\n\t\t\n\t\t10.1016/j.jsb.2015.11.003\n\t\t26592709\n\t\tPMC4711343\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t193\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":67},
{"_key":"60c3e2457723bebd866636f5","_id":"references/60c3e2457723bebd866636f5","_rev":"_cfFlO7S---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":35},
{"_key":"60c3e2457723bebd866636f6","_id":"references/60c3e2457723bebd866636f6","_rev":"_cfFlO7e---","tei":"\n\t\n\t\tEMRinger: side chain–directed model and map validation for 3D cryo-electron microscopy\n\t\t\n\t\t\tBenjaminABarad\n\t\t\t0000-0002-1016-862X\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\t0000-0002-5080-2859\n\t\t\n\t\t10.1038/nmeth.3541\n\t\t26280328\n\t\tPMC4589481\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":3},
{"_key":"60c3e2457723bebd866636f7","_id":"references/60c3e2457723bebd866636f7","_rev":"_cfFlO7q---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tPavolSkubák\n\t\t\n\t\t\n\t\t\tAndreyALebedev\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tRobertoASteiner\n\t\t\n\t\t\n\t\t\tRobertANicholls\n\t\t\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tFeiLong\n\t\t\n\t\t\n\t\t\tAlexeiAVagin\n\t\t\n\t\t10.1107/s0907444911001314\n\t\t21460454\n\t\tPMC3069751\n\t\tark:/67375/WNG-803CZV1W-1\n\t\tA0888E7BC1F9B7777B324A0979A74D1B188F073A\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":30},
{"_key":"60c3e2457723bebd866636f8","_id":"references/60c3e2457723bebd866636f8","_rev":"_cfFlO72---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tJohnHMorris\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\t0000-0001-6227-0637\n\t\t\n\t\t10.1002/pro.3235\n\t\t28710774\n\t\tPMC5734306\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":13},
{"_key":"60c3e2457723bebd866636f9","_id":"references/60c3e2457723bebd866636f9","_rev":"_cfFlO8----","tei":"\n\t\n\t\tcryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tJohnLRubinstein\n\t\t\t0000-0003-0566-2209\n\t\t\n\t\t\n\t\t\tDavidJFleet\n\t\t\n\t\t\n\t\t\tMarcusABrubaker\n\t\t\t0000-0002-7892-9026\n\t\t\n\t\t10.1038/nmeth.4169\n\t\t28165473\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":36},
{"_key":"60c3e2457723bebd866636fa","_id":"references/60c3e2457723bebd866636fa","_rev":"_cfFlO8K---","tei":"\n\t\n\t\tTowards automated crystallographic structure refinement withphenix.refine\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tMaratMustyakimov\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1107/s0907444912001308\n\t\t22505256\n\t\tPMC3322595\n\t\tark:/67375/WNG-MXJ2DPRR-0\n\t\tBD670148C9B6E82421013A29392A96BB55B63272\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t68\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":0},
{"_key":"60c3e2457723bebd866636fb","_id":"references/60c3e2457723bebd866636fb","_rev":"_cfFlO8W---","tei":"\n\t\n\t\tNew tools for the analysis and validation of cryo-EM maps and atomic models\n\t\t\n\t\t\tPavelVAfonine\n\t\t\t0000-0002-5052-991X\n\t\t\n\t\t\n\t\t\tBrunoPKlaholz\n\t\t\t0000-0001-8674-8674\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\t0000-0001-8857-9464\n\t\t\n\t\t\n\t\t\tBillyKPoon\n\t\t\t0000-0001-9633-6067\n\t\t\n\t\t\n\t\t\tOlegVSobolev\n\t\t\t0000-0002-0623-3214\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\t0000-0001-6384-0320\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\t0000-0001-9333-8219\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t10.1107/s2059798318009324\n\t\t30198894\n\t\tPMC6130467\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Structural Biology\n\t\tActa Cryst Sect D Struct Biol\n\t\t2059-7983\n\t\t\n\t\t\t74\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3e2457723bebd866636ee"},"refKey":2},
{"_key":"60c3e2677723bebd8666371a","_id":"references/60c3e2677723bebd8666371a","_rev":"_cfFlO8i---","tei":"\n\t\n\t\tRStan: the R interface to Stan\n\t\t\n\t\t\tStanDevelopment Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2.19.1\n\n","document":{"$oid":"60c3e2677723bebd86663719"},"refKey":19},
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{"_key":"60c3e2d87723bebd86663743","_id":"references/60c3e2d87723bebd86663743","_rev":"_cfFlO86---","tei":"\n\t\n\t\tIntroduction to Mediation, Moderation, and Conditional Process Analysis: A Regression-Based Approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e2d87723bebd86663742"},"refKey":41},
{"_key":"60c3e2df7723bebd86663749","_id":"references/60c3e2df7723bebd86663749","_rev":"_cfFlO9G---","tei":"\n\t\n\t\tSnippy: rapid haploid variant calling and core SNP phylogeny\n\t\t\n\t\t\tTSeeman\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e2df7723bebd86663748"},"refKey":4},
{"_key":"60c3e2f97723bebd86663758","_id":"references/60c3e2f97723bebd86663758","_rev":"_cfFlO9S---","tei":"\n\t\n\t\tSciMAT: A new science mapping analysis software tool\n\t\t\n\t\t\tMJCobo\n\t\t\n\t\t\n\t\t\tAGLópez-Herrera\n\t\t\n\t\t\n\t\t\tEHerrera-Viedma\n\t\t\n\t\t\n\t\t\tFHerrera\n\t\t\n\t\t10.1002/asi.22688\n\t\tark:/67375/WNG-5XT4HB1T-4\n\t\tBB60872F5A8A6888338D214FE49785C3BEBD0A62\n\t\n\t\n\t\tJournal of the American Society for Information Science and Technology\n\t\tJ Am Soc Inf Sci Tec\n\t\t1532-2882\n\t\t\n\t\t\t63\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3e2f97723bebd86663757"},"refKey":18},
{"_key":"60c3e3027723bebd86663762","_id":"references/60c3e3027723bebd86663762","_rev":"_cfFlO9e---","tei":"\n\t\n\t\tProtocols for Molecular Modeling with Rosetta3 and RosettaScripts\n\t\t\n\t\t\tBrianJBender\n\t\t\n\t\t\n\t\t\tAlbertoCisneros\n\t\t\n\t\t\n\t\t\tAmandaMDuran\n\t\t\n\t\t\n\t\t\tJessicaAFinn\n\t\t\n\t\t\n\t\t\tDarwinFu\n\t\t\n\t\t\n\t\t\tAlyssaDLokits\n\t\t\n\t\t\n\t\t\tBenjaminKMueller\n\t\t\n\t\t\n\t\t\tAmandeepKSangha\n\t\t\n\t\t\n\t\t\tMarionFSauer\n\t\t\n\t\t\n\t\t\tAlexanderMSevy\n\t\t\n\t\t\n\t\t\tGregorySliwoski\n\t\t\n\t\t\n\t\t\tJonathanHSheehan\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tJensMeiler\n\t\t\n\t\t\n\t\t\tRoccoMoretti\n\t\t\n\t\t10.1021/acs.biochem.6b00444\n\t\t27490953\n\t\tPMC5007558\n\t\n\t\n\t\tBiochemistry\n\t\tBiochemistry\n\t\t0006-2960\n\t\t1520-4995\n\t\t\n\t\t\t55\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c3e3027723bebd86663761"},"refKey":78},
{"_key":"60c3e3027723bebd86663763","_id":"references/60c3e3027723bebd86663763","_rev":"_cfFlO9q---","tei":"\n\t\n\t\tThe Rosetta All-Atom Energy Function for Macromolecular Modeling and Design\n\t\t\n\t\t\tRebeccaFAlford\n\t\t\t0000-0003-0306-8476\n\t\t\n\t\t\n\t\t\tAndrewLeaver-Fay\n\t\t\n\t\t\n\t\t\tJeliazkoRJeliazkov\n\t\t\n\t\t\n\t\t\tMatthewJO’meara\n\t\t\n\t\t\n\t\t\tFrankPDimaio\n\t\t\n\t\t\n\t\t\tHahnbeomPark\n\t\t\t0000-0002-7129-1912\n\t\t\n\t\t\n\t\t\tMaximVShapovalov\n\t\t\n\t\t\n\t\t\tPDouglasRenfrew\n\t\t\n\t\t\n\t\t\tVikramKMulligan\n\t\t\n\t\t\n\t\t\tKalliKappel\n\t\t\n\t\t\n\t\t\tJasonWLabonte\n\t\t\n\t\t\n\t\t\tMichaelSPacella\n\t\t\t0000-0001-8919-147X\n\t\t\n\t\t\n\t\t\tRichardBonneau\n\t\t\n\t\t\n\t\t\tPhilipBradley\n\t\t\n\t\t\n\t\t\tRolandLDunbrack\n\t\t\n\t\t\n\t\t\tRhijuDas\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t\n\t\t\tBrianKuhlman\n\t\t\n\t\t\n\t\t\tTanjaKortemme\n\t\t\n\t\t\n\t\t\tJeffreyJGray\n\t\t\t0000-0001-6380-2324\n\t\t\n\t\t10.1021/acs.jctc.7b00125\n\t\t28430426\n\t\tPMC5717763\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t13\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c3e3027723bebd86663761"},"refKey":79},
{"_key":"60c3e3027723bebd86663764","_id":"references/60c3e3027723bebd86663764","_rev":"_cfFlO92---","tei":"\n\t\n\t\tOverview of theCCP4 suite and current developments\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tCharlesCBallard\n\t\t\n\t\t\n\t\t\tKevinDCowtan\n\t\t\n\t\t\n\t\t\tEleanorJDodson\n\t\t\n\t\t\n\t\t\tPaulEmsley\n\t\t\n\t\t\n\t\t\tPhilREvans\n\t\t\n\t\t\n\t\t\tRonanMKeegan\n\t\t\n\t\t\n\t\t\tEugeneBKrissinel\n\t\t\n\t\t\n\t\t\tAndrewG WLeslie\n\t\t\n\t\t\n\t\t\tAirlieMccoy\n\t\t\n\t\t\n\t\t\tStuartJMcnicholas\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tElizabethAPotterton\n\t\t\n\t\t\n\t\t\tHaroldRPowell\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tAlexeiVagin\n\t\t\n\t\t\n\t\t\tKeithSWilson\n\t\t\n\t\t10.1107/s0907444910045749\n\t\t21460441\n\t\tPMC3069738\n\t\tark:/67375/WNG-2WD8BNN1-X\n\t\tEA86D1B0B076B7089F0E9BB8FED9AAE79E2C4083\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3e3027723bebd86663761"},"refKey":72},
{"_key":"60c3e3027723bebd86663765","_id":"references/60c3e3027723bebd86663765","_rev":"_cfFlP-C---","tei":"\n\t\n\t\tInference of high resolution HLA types using genome-wide RNA or DNA sequencing reads\n\t\t\n\t\t\tYuBai\n\t\t\n\t\t\n\t\t\tMinNi\n\t\t\n\t\t\n\t\t\tBlertaCooper\n\t\t\n\t\t\n\t\t\tYiWei\n\t\t\n\t\t\n\t\t\tWenFury\n\t\t\n\t\t10.1186/1471-2164-15-325\n\t\t24884790\n\t\tPMC4035057\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t325\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3e3027723bebd86663761"},"refKey":61},
{"_key":"60c3e3027723bebd86663766","_id":"references/60c3e3027723bebd86663766","_rev":"_cfFlP-O---","tei":"\n\t\n\t\tStrelka: accurate somatic small-variant calling from sequenced tumor–normal sample pairs\n\t\t\n\t\t\tChristopherTSaunders\n\t\t\n\t\t\n\t\t\tWendyS WWong\n\t\t\n\t\t\n\t\t\tSajaniSwamy\n\t\t\n\t\t\n\t\t\tJenniferBecq\n\t\t\n\t\t\n\t\t\tLisaJMurray\n\t\t\n\t\t\n\t\t\tRKeiraCheetham\n\t\t\n\t\t10.1093/bioinformatics/bts271\n\t\t22581179\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e3027723bebd86663761"},"refKey":66},
{"_key":"60c3e3227723bebd866637a4","_id":"references/60c3e3227723bebd866637a4","_rev":"_cfFlP-a---","tei":"\n\t\n\t\tCOVID-19 in children with cancer in New York City\n\t\t\n\t\t\tFBoulad\n\t\t\n\t\t\n\t\t\tMKamboj\n\t\t\n\t\t\n\t\t\tNBouvier\n\t\t\n\t\t\n\t\t\tAMauguen\n\t\t\n\t\t\n\t\t\tALKung\n\t\t\n\t\n\t\n\t\tJAMA Oncol\n\t\t\n\t\t\t6\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e3227723bebd866637a3"},"refKey":7},
{"_key":"60c3e3227723bebd866637a5","_id":"references/60c3e3227723bebd866637a5","_rev":"_cfFlP-m---","tei":"\n\t\n\t\tIncidence of COVID-19 in pediatric surgical patients among 3 US children's hospitals\n\t\t\n\t\t\tEELin\n\t\t\n\t\t\n\t\t\tTJBlumberg\n\t\t\n\t\t\n\t\t\tACAdler\n\t\t\n\t\n\t\n\t\tJAMA Surg\n\t\t\n\t\t\t155\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e3227723bebd866637a3"},"refKey":8},
{"_key":"60c3e34d7723bebd866637c4","_id":"references/60c3e34d7723bebd866637c4","_rev":"_cfFlP-y---","tei":"\n\t\n\t\tBepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes\n\t\t\n\t\t\tMartinClosterJespersen\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t10.1093/nar/gkx346\n\t\t28472356\n\t\tPMC5570230\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e34d7723bebd866637c3"},"refKey":38},
{"_key":"60c3e34d7723bebd866637c5","_id":"references/60c3e34d7723bebd866637c5","_rev":"_cfFlP_----","tei":"\n\t\n\t\tCoexistence of potent HIV-1 broadly neutralizing antibodies and antibody-sensitive viruses in a viremic controller\n\t\t\n\t\t\tNataliaTFreund\n\t\t\n\t\t\n\t\t\tHaoqingWang\n\t\t\n\t\t\n\t\t\tLouiseScharf\n\t\t\n\t\t\n\t\t\tLilianNogueira\n\t\t\n\t\t\n\t\t\tJoshuaAHorwitz\n\t\t\n\t\t\n\t\t\tYotamBar-On\n\t\t\n\t\t\n\t\t\tJovanaGolijanin\n\t\t\n\t\t\n\t\t\tStuartASievers\n\t\t\n\t\t\n\t\t\tDevinSok\n\t\t\n\t\t\n\t\t\tHuiCai\n\t\t\n\t\t\n\t\t\tJulioCCesar Lorenzi\n\t\t\n\t\t\n\t\t\tArielHalper-Stromberg\n\t\t\n\t\t\n\t\t\tIldikoToth\n\t\t\n\t\t\n\t\t\tAlicjaPiechocka-Trocha\n\t\t\n\t\t\n\t\t\tHarryBGristick\n\t\t\n\t\t\n\t\t\tMaritJVan Gils\n\t\t\n\t\t\n\t\t\tRogierWSanders\n\t\t\n\t\t\n\t\t\tLai-XiWang\n\t\t\n\t\t\n\t\t\tMichaelSSeaman\n\t\t\n\t\t\n\t\t\tDennisRBurton\n\t\t\n\t\t\n\t\t\tAnnaGazumyan\n\t\t\n\t\t\n\t\t\tBruceDWalker\n\t\t\n\t\t\n\t\t\tAnthonyPWest\n\t\t\n\t\t\n\t\t\tPamelaJBjorkman\n\t\t\n\t\t\n\t\t\tMichelCNussenzweig\n\t\t\n\t\t10.1126/scitranslmed.aal2144\n\t\t28100831\n\t\tPMC5467220\n\t\t\n\t\n\t\n\t\tScience Translational Medicine\n\t\tSci. Transl. Med.\n\t\t1946-6234\n\t\t1946-6242\n\t\t\n\t\t\t9\n\t\t\t373\n\t\t\teaal2144\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c3e34d7723bebd866637c3"},"refKey":5},
{"_key":"60c3e34d7723bebd866637c6","_id":"references/60c3e34d7723bebd866637c6","_rev":"_cfFlP_K---","tei":"\n\t\n\t\tLightDock: a new multi-scale approach to protein-protein docking\n\t\t\n\t\t\tBJiménez-García\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e34d7723bebd866637c3"},"refKey":78},
{"_key":"60c3e34d7723bebd866637c7","_id":"references/60c3e34d7723bebd866637c7","_rev":"_cfFlP_W---","tei":"\n\t\n\t\tLightDock goes information-driven\n\t\t\n\t\t\tJorgeRoel-Touris\n\t\t\t0000-0002-6588-624X\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\t0000-0001-7369-1322\n\t\t\n\t\t\n\t\t\tBrianJiménez-García\n\t\t\n\t\t10.1093/bioinformatics/btz642\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e34d7723bebd866637c3"},"refKey":79},
{"_key":"60c3e34d7723bebd866637c8","_id":"references/60c3e34d7723bebd866637c8","_rev":"_cfFlP_i---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e34d7723bebd866637c3"},"refKey":83},
{"_key":"60c3e34d7723bebd866637c9","_id":"references/60c3e34d7723bebd866637c9","_rev":"_cfFlP_u---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDM AMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e34d7723bebd866637c3"},"refKey":86},
{"_key":"60c3e34d7723bebd866637ca","_id":"references/60c3e34d7723bebd866637ca","_rev":"_cfFlP_6---","tei":"\n\t\n\t\tNetMHCpan 4.0: Improved peptide-MHC class I interaction predictions integrating eluted ligand and peptide binding affinity data\n\t\t\n\t\t\tVanessaJurtz\n\t\t\t0000-0003-4452-6605\n\t\t\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1101/149518\n\t\t\n\t\n\t\n\t\tThe Journal of Immunology\n\t\t\n\t\t\t199\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3e34d7723bebd866637c3"},"refKey":34},
{"_key":"60c3e34d7723bebd866637cb","_id":"references/60c3e34d7723bebd866637cb","_rev":"_cfFlPAC---","tei":"\n\t\n\t\tData, disease and diplomacy: GISAID's innovative contribution to global health\n\t\t\n\t\t\tStefanElbe\n\t\t\n\t\t\n\t\t\tGemmaBuckland-Merrett\n\t\t\n\t\t10.1002/gch2.1018\n\t\t\n\t\n\t\n\t\tGlobal Challenges\n\t\tGlobal Challenges\n\t\t2056-6646\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3e34d7723bebd866637c3"},"refKey":85},
{"_key":"60c3e3637723bebd86663813","_id":"references/60c3e3637723bebd86663813","_rev":"_cfFlPAO---","tei":"\n\t\n\t\tGaussian 09, Revision A.02\n\t\t\n\t\t\tMJFrisch\n\t\t\n\t\t\n\t\t\t\n\t\t\tGaussian, Inc\n\t\t\tWallingford CT\n\t\t\n\t\n\n","document":{"$oid":"60c3e3637723bebd86663812"},"refKey":46},
{"_key":"60c3e3637723bebd86663814","_id":"references/60c3e3637723bebd86663814","_rev":"_cfFlPAa---","tei":"\n\t\n\t\tMolden: a pre-and post-processing program for molecular and electronic structures\n\t\t\n\t\t\tGSchaftenaar\n\t\t\n\t\t\n\t\t\tJHNoordik\n\t\t\n\t\n\t\n\t\tJ. Comput. Aided Mol. Des\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e3637723bebd86663812"},"refKey":47},
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{"_key":"60c3e38b7723bebd86663828","_id":"references/60c3e38b7723bebd86663828","_rev":"_cfFlPAy---","tei":"\n\t\n\t\tTraining in Uniportal Video-Assisted Thoracic Surgery\n\t\t\n\t\t\tAlbertoSandri\n\t\t\n\t\t\n\t\t\tAlanD LSihoe\n\t\t\n\t\t\n\t\t\tMicheleSalati\n\t\t\n\t\t\n\t\t\tDiegoGonzalez-Rivas\n\t\t\n\t\t\n\t\t\tAlessandroBrunelli\n\t\t\n\t\t10.1016/j.thorsurg.2017.06.010\n\t\t28962714\n\t\n\t\n\t\tThoracic Surgery Clinics\n\t\tThoracic Surgery Clinics\n\t\t1547-4127\n\t\t\n\t\t\t27\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3e38b7723bebd86663827"},"refKey":7},
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{"_key":"60c3e3ea7723bebd86663858","_id":"references/60c3e3ea7723bebd86663858","_rev":"_cfFlPBS---","tei":"\n\t\n\t\tImproved multi-type birth-death phylodynamic inference in BEAST 2\n\t\t\n\t\t\tJScire\n\t\t\n\t\t\n\t\t\tJBarido-Sottani\n\t\t\n\t\t\n\t\t\tDKühnert\n\t\t\n\t\t\n\t\t\tTGVaughan\n\t\t\n\t\t\n\t\t\tTStadler\n\t\t\n\t\t10.1101/2020.01.06.895532\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e3ea7723bebd86663857"},"refKey":37},
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{"_key":"60c3e3f27723bebd86663862","_id":"references/60c3e3f27723bebd86663862","_rev":"_cfFlPBq---","tei":"\n\t\n\t\tPfam: clans, web tools and services\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tJMistry\n\t\t\n\t\t\n\t\t\tBSchuster-Bockler\n\t\t\n\t\t\n\t\t\tSGriffiths-Jones\n\t\t\n\t\t\n\t\t\tVHollich\n\t\t\n\t\t\n\t\t\tTLassmann\n\t\t\n\t\t\n\t\t\tSMoxon\n\t\t\n\t\t\n\t\t\tMMarshall\n\t\t\n\t\t\n\t\t\tAKhanna\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/nar/gkj149\n\t\t16381856\n\t\tPMC1347511\n\t\tark:/67375/HXZ-W52FJ8FB-6\n\t\tE996C8B1ED68686FE5612156ADB76694BE36B0D9\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\t90001\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e3f27723bebd86663861"},"refKey":48},
{"_key":"60c3e3f27723bebd86663863","_id":"references/60c3e3f27723bebd86663863","_rev":"_cfFlPB2---","tei":"\n\t\n\t\tThe TIGRFAMs database of protein families\n\t\t\n\t\t\tDHHaft\n\t\t\n\t\t\n\t\t\tJDSelengut\n\t\t\n\t\t\n\t\t\tOWhite\n\t\t\n\t\t10.1093/nar/gkg128\n\t\t12520025\n\t\tPMC165575\n\t\tark:/67375/HXZ-CX7HLT75-T\n\t\t9FFB94ABC76CB9A4B1F4803C269996B7551D2B0D\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e3f27723bebd86663861"},"refKey":49},
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{"_key":"60c3e43f7723bebd86663918","_id":"references/60c3e43f7723bebd86663918","_rev":"_cfFlPCi---","tei":"\n\t\n\t\tExploring network structure, dynamics, and function using NetworkX. Los Alamos National Lab\n\t\t\n\t\t\tAHagberg\n\t\t\n\t\t\n\t\t\tPSwart\n\t\t\n\t\t\n\t\t\tDChult\n\t\t\n\t\t\n\t\t\t\n\t\t\tLos Alamos, NM (United States\n\t\t\n\t\n\tReport No\n\n","document":{"$oid":"60c3e43f7723bebd86663915"},"refKey":95},
{"_key":"60c3e43f7723bebd86663919","_id":"references/60c3e43f7723bebd86663919","_rev":"_cfFlPCu---","tei":"\n\t\n\t\tFUN-LDA: A Latent Dirichlet Allocation Model for Predicting Tissue-Specific Functional Effects of Noncoding Variation: Methods and Applications\n\t\t\n\t\t\tDanielBackenroth\n\t\t\n\t\t\n\t\t\tZihuaiHe\n\t\t\n\t\t\n\t\t\tKrzysztofKiryluk\n\t\t\n\t\t\n\t\t\tValentinaBoeva\n\t\t\n\t\t\n\t\t\tLynnPethukova\n\t\t\n\t\t\n\t\t\tEktaKhurana\n\t\t\n\t\t\n\t\t\tAngelaChristiano\n\t\t\n\t\t\n\t\t\tJosephDBuxbaum\n\t\t\n\t\t\n\t\t\tIulianaIonita-Laza\n\t\t\n\t\t10.1016/j.ajhg.2018.03.026\n\t\t29727691\n\t\tPMC5986983\n\t\t\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t102\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3e43f7723bebd86663915"},"refKey":89},
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{"_key":"60c3e4567723bebd86663940","_id":"references/60c3e4567723bebd86663940","_rev":"_cfFlPDa---","tei":"\n\t\n\t\tSearching genomes for non-coding rna using fastr\n\t\t\n\t\t\tSZhang\n\t\t\n\t\t\n\t\t\tBHass\n\t\t\n\t\t\n\t\t\tEEskin\n\t\t\n\t\t\n\t\t\tVBafna\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Computational Biology and Bioinformatics\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e4567723bebd8666393f"},"refKey":25},
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{"_key":"60c3e4857723bebd8666396e","_id":"references/60c3e4857723bebd8666396e","_rev":"_cfFlPES---","tei":"\n\t\n\t\tBiopharmaceutical Process Optimization with Simulation and Scheduling Tools\n\t\t\n\t\t\tDemetriPetrides\n\t\t\n\t\t\n\t\t\tDougCarmichael\n\t\t\n\t\t\n\t\t\tCharlesSiletti\n\t\t\n\t\t\n\t\t\tAlexandrosKoulouris\n\t\t\n\t\t10.3390/bioengineering1040154\n\t\t28955023\n\t\t\n\t\n\t\n\t\tBioengineering\n\t\tBioengineering\n\t\t2306-5354\n\t\t\n\t\t\t1\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c3e4857723bebd8666396a"},"refKey":38},
{"_key":"60c3e4aa7723bebd86663987","_id":"references/60c3e4aa7723bebd86663987","_rev":"_cfFlPEa---","tei":"\n\t\n\t\tClosing the Gap between Methodologists and End-Users:Ras a Computational Back-End\n\t\t\n\t\t\tByronCWallace\n\t\t\n\t\t\n\t\t\tIssaJDahabreh\n\t\t\n\t\t\n\t\t\tThomasATrikalinos\n\t\t\n\t\t\n\t\t\tJosephLau\n\t\t\n\t\t\n\t\t\tPaulTrow\n\t\t\n\t\t\n\t\t\tChristopherHSchmid\n\t\t\n\t\t10.18637/jss.v049.i05\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t49\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c3e4aa7723bebd86663986"},"refKey":30},
{"_key":"60c3e5087723bebd866639c1","_id":"references/60c3e5087723bebd866639c1","_rev":"_cfFlPEm---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 13. College Station, TX: StataCorp LP\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5087723bebd866639c0"},"refKey":11},
{"_key":"60c3e5167723bebd866639c6","_id":"references/60c3e5167723bebd866639c6","_rev":"_cfFlPEy---","tei":"\n\t\n\t\tFast Parallel Algorithms for Short-Range Molecular Dynamics\n\t\t\n\t\t\tStevePlimpton\n\t\t\n\t\t10.1006/jcph.1995.1039\n\t\tS0021-9991(85)71039-X\n\t\tark:/67375/6H6-G8548NP8-W\n\t\tCAEEC2B6A2AB8B8C1BBF5E958E746D3DB12E9172\n\t\t\n\t\n\t\n\t\tJournal of Computational Physics\n\t\tJournal of Computational Physics\n\t\t0021-9991\n\t\t\n\t\t\t117\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3e5167723bebd866639c5"},"refKey":52},
{"_key":"60c3e5167723bebd866639c7","_id":"references/60c3e5167723bebd866639c7","_rev":"_cfFlPE6---","tei":"\n\t\n\t\tDL_POLY: Application to molecular simulation\n\t\t\n\t\t\tWSmith\n\t\t\n\t\t\n\t\t\tCWYong\n\t\t\n\t\t\n\t\t\tPMRodger\n\t\t\n\t\t10.1080/08927020290018769\n\t\n\t\n\t\tMolecular Simulation\n\t\tMolecular Simulation\n\t\t0892-7022\n\t\t1029-0435\n\t\t\n\t\t\t28\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c3e5167723bebd866639c5"},"refKey":53},
{"_key":"60c3e5167723bebd866639c8","_id":"references/60c3e5167723bebd866639c8","_rev":"_cfFlPFG---","tei":"\n\t\n\t\tThe Amber biomolecular simulation programs\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tThomasECheatham\n\t\t\n\t\t\n\t\t\tTomDarden\n\t\t\n\t\t\n\t\t\tHolgerGohlke\n\t\t\n\t\t\n\t\t\tRayLuo\n\t\t\n\t\t\n\t\t\tKennethMMerz\n\t\t\n\t\t\n\t\t\tAlexeyOnufriev\n\t\t\n\t\t\n\t\t\tCarlosSimmerling\n\t\t\n\t\t\n\t\t\tBingWang\n\t\t\n\t\t\n\t\t\tRobertJWoods\n\t\t\n\t\t10.1002/jcc.20290\n\t\t16200636\n\t\tPMC1989667\n\t\tark:/67375/WNG-SM7M10M5-T\n\t\t96193A43CE477101A1574AF2E58893F449F4F999\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3e5167723bebd866639c5"},"refKey":48},
{"_key":"60c3e5167723bebd866639c9","_id":"references/60c3e5167723bebd866639c9","_rev":"_cfFlPFS---","tei":"\n\t\n\t\tGROMACS: Fast flexible, and free\n\t\t\n\t\t\tDV DSpoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tGGroenhof\n\t\t\n\t\t\n\t\t\tAEMark\n\t\t\n\t\t\n\t\t\tHJBerendsen\n\t\t\n\t\t10.1002/jcc.20291\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5167723bebd866639c5"},"refKey":49},
{"_key":"60c3e5167723bebd866639ca","_id":"references/60c3e5167723bebd866639ca","_rev":"_cfFlPFe---","tei":"\n\t\n\t\tCHARMM: The biomolecular simulation program\n\t\t\n\t\t\tBRBrooks\n\t\t\n\t\t\n\t\t\tCLBrooks\n\t\t\n\t\t\n\t\t\tADMackerell\n\t\t\n\t\t\n\t\t\tLNilsson\n\t\t\n\t\t\n\t\t\tRJPetrella\n\t\t\n\t\t\n\t\t\tBRoux\n\t\t\n\t\t\n\t\t\tYWon\n\t\t\n\t\t\n\t\t\tGArchontis\n\t\t\n\t\t\n\t\t\tCBartels\n\t\t\n\t\t\n\t\t\tSBoresch\n\t\t\n\t\t\n\t\t\tACaflisch\n\t\t\n\t\t\n\t\t\tLCaves\n\t\t\n\t\t\n\t\t\tQCui\n\t\t\n\t\t\n\t\t\tARDinner\n\t\t\n\t\t\n\t\t\tMFeig\n\t\t\n\t\t\n\t\t\tSFischer\n\t\t\n\t\t\n\t\t\tJGao\n\t\t\n\t\t\n\t\t\tMHodoscek\n\t\t\n\t\t\n\t\t\tWIm\n\t\t\n\t\t\n\t\t\tKKuczera\n\t\t\n\t\t\n\t\t\tTLazaridis\n\t\t\n\t\t\n\t\t\tJMa\n\t\t\n\t\t\n\t\t\tVOvchinnikov\n\t\t\n\t\t\n\t\t\tEPaci\n\t\t\n\t\t\n\t\t\tRWPastor\n\t\t\n\t\t\n\t\t\tCBPost\n\t\t\n\t\t\n\t\t\tJZPu\n\t\t\n\t\t\n\t\t\tMSchaefer\n\t\t\n\t\t\n\t\t\tBTidor\n\t\t\n\t\t\n\t\t\tRMVenable\n\t\t\n\t\t\n\t\t\tHLWoodcock\n\t\t\n\t\t\n\t\t\tXWu\n\t\t\n\t\t\n\t\t\tWYang\n\t\t\n\t\t\n\t\t\tDMYork\n\t\t\n\t\t\n\t\t\tMKarplus\n\t\t\n\t\t10.1002/jcc.21287\n\t\t19444816\n\t\tPMC2810661\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3e5167723bebd866639c5"},"refKey":50},
{"_key":"60c3e5167723bebd866639cb","_id":"references/60c3e5167723bebd866639cb","_rev":"_cfFlPFm---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJamesCPhillips\n\t\t\n\t\t\n\t\t\tRosemaryBraun\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tJamesGumbart\n\t\t\n\t\t\n\t\t\tEmadTajkhorshid\n\t\t\n\t\t\n\t\t\tElizabethVilla\n\t\t\n\t\t\n\t\t\tChristopheChipot\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tLaxmikantKalé\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1002/jcc.20289\n\t\t16222654\n\t\tPMC2486339\n\t\tark:/67375/WNG-4VV0NHGH-L\n\t\t9CA05D9586DF2A6CDED3A7F227C6C9CF046796F7\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3e5167723bebd866639c5"},"refKey":51},
{"_key":"60c3e5337723bebd866639e3","_id":"references/60c3e5337723bebd866639e3","_rev":"_cfFlPFy---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5337723bebd866639e2"},"refKey":8},
{"_key":"60c3e5337723bebd866639e4","_id":"references/60c3e5337723bebd866639e4","_rev":"_cfFlPG----","tei":"\n\t\n\t\t\n\t\t\tMWaskom\n\t\t\n\t\t\n\t\t\tOBotvinnik\n\t\t\n\t\t\n\t\t\tJOstblom\n\t\t\n\t\tCOVID-19 [Internet]. 2020\n\t\t\n\t\n\t\n\t\tmwaskom/seaborn: v0.10.0. Available from\n\t\t\t\t\n\t\n\tcited 2020 Feb 24\n\n","document":{"$oid":"60c3e5337723bebd866639e2"},"refKey":9},
{"_key":"60c3e5607723bebd86663a06","_id":"references/60c3e5607723bebd86663a06","_rev":"_cfFlPGG---","tei":"\n\t\n\t\tHeartPy: A novel heart rate algorithm for the analysis of noisy signals\n\t\t\n\t\t\tPVan Gent\n\t\t\n\t\t\n\t\t\tHFarah\n\t\t\n\t\t\n\t\t\tNVan Nes\n\t\t\n\t\t\n\t\t\tBVan Arem\n\t\t\n\t\n\t\n\t\tTransportation Research Part F: Traffic Psychology and Behaviour\n\t\t\n\t\t\t66\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5607723bebd86663a05"},"refKey":23},
{"_key":"60c3e56a7723bebd86663a11","_id":"references/60c3e56a7723bebd86663a11","_rev":"_cfFlPGS---","tei":"\n\t\n\t\tJalview Version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e56a7723bebd86663a10"},"refKey":54},
{"_key":"60c3e5767723bebd86663a2f","_id":"references/60c3e5767723bebd86663a2f","_rev":"_cfFlPGe---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAAScha ¨ffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5767723bebd86663a2e"},"refKey":1},
{"_key":"60c3e5767723bebd86663a30","_id":"references/60c3e5767723bebd86663a30","_rev":"_cfFlPGq---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5767723bebd86663a2e"},"refKey":7},
{"_key":"60c3e5767723bebd86663a31","_id":"references/60c3e5767723bebd86663a31","_rev":"_cfFlPGy---","tei":"\n\t\n\t\tPHYLIP-phylogeny inference package\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\n\t\n\t\tCladistics\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5767723bebd86663a2e"},"refKey":9},
{"_key":"60c3e5767723bebd86663a32","_id":"references/60c3e5767723bebd86663a32","_rev":"_cfFlPH----","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignments through sequence weighting, position specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5767723bebd86663a2e"},"refKey":29},
{"_key":"60c3e5767723bebd86663a33","_id":"references/60c3e5767723bebd86663a33","_rev":"_cfFlPHK---","tei":"\n\t\n\t\tT-Coffee: a novel method for fast and accurate multiple sequence alignment\n\t\t\n\t\t\tCNotredame\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJHeringa\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t302\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5767723bebd86663a2e"},"refKey":27},
{"_key":"60c3e5767723bebd86663a34","_id":"references/60c3e5767723bebd86663a34","_rev":"_cfFlPHW---","tei":"\n\t\n\t\tThe rapid generation of mutation data matrices from protein sequences\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t\n\t\t\tWRTaylor\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tComput. Appl. Biosci\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5767723bebd86663a2e"},"refKey":17},
{"_key":"60c3e5767723bebd86663a35","_id":"references/60c3e5767723bebd86663a35","_rev":"_cfFlPHi---","tei":"\n\t\n\t\tA Transition Probability Model for Amino Acid Substitutions from Blocks\n\t\t\n\t\t\tShaliniVeerassamy\n\t\t\n\t\t\n\t\t\tAndrewSmith\n\t\t\n\t\t\n\t\t\tElisabethR MTillier\n\t\t\n\t\t10.1089/106652703322756195\n\t\t14980022\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c3e5767723bebd86663a2e"},"refKey":32},
{"_key":"60c3e5767723bebd86663a36","_id":"references/60c3e5767723bebd86663a36","_rev":"_cfFlPHq---","tei":"\n\t\n\t\tDifferent Versions of the Dayhoff Rate Matrix\n\t\t\n\t\t\tCarolinKosiol\n\t\t\n\t\t\n\t\t\tNickGoldman\n\t\t\n\t\t10.1093/molbev/msi005\n\t\t15483331\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t22\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e5767723bebd86663a2e"},"refKey":19},
{"_key":"60c3e5e77723bebd86663a6e","_id":"references/60c3e5e77723bebd86663a6e","_rev":"_cfFlPH2---","tei":"\n\t\n\t\traxmlGUI 2.0 beta: a graphical interface and toolkit for phylogenetic analyses using RAxML\n\t\t\n\t\t\tDEdler\n\t\t\n\t\t\n\t\t\tJKlein\n\t\t\n\t\t\n\t\t\tAAntonelli\n\t\t\n\t\t\n\t\t\tDSilvestro\n\t\t\n\t\t10.1101/800912\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5e77723bebd86663a6d"},"refKey":10},
{"_key":"60c3e5e77723bebd86663a6f","_id":"references/60c3e5e77723bebd86663a6f","_rev":"_cfFlPIC---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSo ¨ding\n\t\t\n\t\n\t\n\t\tMol. Syst. Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e5e77723bebd86663a6d"},"refKey":50},
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{"_key":"60c3e62b7723bebd86663ab0","_id":"references/60c3e62b7723bebd86663ab0","_rev":"_cfFlPIu---","tei":"\n\t\n\t\tBiostrings: Efficient manipulation of biological strings\n\t\t\n\t\t\tAboyounPagès\n\t\t\n\t\t\n\t\t\tGentleman\n\t\t\n\t\t\n\t\t\tDebroy\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2.56.0\n\n","document":{"$oid":"60c3e62b7723bebd86663aae"},"refKey":42},
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{"_key":"60c3e6357723bebd86663ab8","_id":"references/60c3e6357723bebd86663ab8","_rev":"_cfFlPJC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e6357723bebd86663ab6"},"refKey":34},
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{"_key":"60c3e6557723bebd86663ad9","_id":"references/60c3e6557723bebd86663ad9","_rev":"_cfFlPJm---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e6557723bebd86663ad6"},"refKey":46},
{"_key":"60c3e6557723bebd86663ada","_id":"references/60c3e6557723bebd86663ada","_rev":"_cfFlPJy---","tei":"\n\t\n\t\tpROC: an open-source package for R and S+ to analyze and compare ROC curves\n\t\t\n\t\t\tXRobin\n\t\t\n\t\t\n\t\t\tNTurck\n\t\t\n\t\t\n\t\t\tAHainard\n\t\t\n\t\t\n\t\t\tNTiberti\n\t\t\n\t\t\n\t\t\tFLisacek\n\t\t\n\t\t\n\t\t\tJCSanchez\n\t\t\n\t\t\n\t\t\tMMuller\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t12\n\t\t\t77\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e6557723bebd86663ad6"},"refKey":51},
{"_key":"60c3e6557723bebd86663adb","_id":"references/60c3e6557723bebd86663adb","_rev":"_cfFlPJ6---","tei":"\n\t\n\t\t\n\t\t\tMStevenson\n\t\t\n\t\t\n\t\t\tENunes\n\t\t\n\t\t\n\t\t\tCHeuer\n\t\t\n\t\t\n\t\t\tJMarshall\n\t\t\n\t\t\n\t\t\tJSanchez\n\t\t\n\t\t\n\t\t\tRThornton\n\t\t\n\t\t\n\t\t\tJReiczigel\n\t\t\n\t\t\n\t\t\tJRobison-Cox\n\t\t\n\t\t\n\t\t\tPSebastiani\n\t\t\n\t\t\n\t\t\tPSolymos\n\t\t\n\t\t\n\t\tepiR: Tools for the Analysis of Epidemiological Data\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e6557723bebd86663ad6"},"refKey":53},
{"_key":"60c3e6727723bebd86663b03","_id":"references/60c3e6727723bebd86663b03","_rev":"_cfFlPKG---","tei":"\n\t\n\t\tMAFFT online service: multiple sequence alignment, interactive sequence choice and visualization\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\t0000-0003-4133-8393\n\t\t\n\t\t\n\t\t\tJohnRozewicki\n\t\t\n\t\t\n\t\t\tKazunoriDYamada\n\t\t\n\t\t10.1093/bib/bbx108\n\t\t28968734\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tBrief Bioinform\n\tE-pub ahead of print\n\n","document":{"$oid":"60c3e6727723bebd86663b02"},"refKey":101},
{"_key":"60c3e6b17723bebd86663b08","_id":"references/60c3e6b17723bebd86663b08","_rev":"_cfFlPKS---","tei":"\n\t\n\t\tGraphical tools for network meta-analysis in STATA\n\t\t\n\t\t\tAChaimani\n\t\t\n\t\t\n\t\t\tJptHiggins\n\t\t\n\t\t\n\t\t\tDMavridis\n\t\t\n\t\t\n\t\t\tPSpyridonos\n\t\t\n\t\t\n\t\t\tGSalanti\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t8\n\t\t\t10\n\t\t\te76654\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e6b17723bebd86663b07"},"refKey":3},
{"_key":"60c3e6bf7723bebd86663b12","_id":"references/60c3e6bf7723bebd86663b12","_rev":"_cfFlPKe---","tei":"\n\t\n\t\tApplied spatial data analysis with R\n\t\t\n\t\t\tRSBivand\n\t\t\n\t\t\n\t\t\tEJPebesma\n\t\t\n\t\t\n\t\t\tVGómez-Rubio\n\t\t\n\t\t\n\t\t\tEJPebesma\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\t747248717\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c3e6bf7723bebd86663b11"},"refKey":89},
{"_key":"60c3e6c17723bebd86663b16","_id":"references/60c3e6c17723bebd86663b16","_rev":"_cfFlPKq---","tei":"\n\t\n\t\tMixing patterns between age groups in social networks\n\t\t\n\t\t\tSYDel Valle\n\t\t\n\t\t\n\t\t\tJMHyman\n\t\t\n\t\t\n\t\t\tHWHethcote\n\t\t\n\t\t\n\t\t\tSGEubank\n\t\t\n\t\t10.1016/j.socnet.2007.04.005\n\t\n\t\n\t\tSocial Networks\n\t\tSocial Networks\n\t\t0378-8733\n\t\t\n\t\t\t29\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3e6c17723bebd86663b15"},"refKey":15},
{"_key":"60c3e6c17723bebd86663b17","_id":"references/60c3e6c17723bebd86663b17","_rev":"_cfFlPKy---","tei":"\n\t\n\t\tModelling disease outbreaks in realistic urban social networks\n\t\t\n\t\t\tStephenEubank\n\t\t\n\t\t\n\t\t\tHasanGuclu\n\t\t\n\t\t\n\t\t\tVSAnil Kumar\n\t\t\n\t\t\n\t\t\tMadhavVMarathe\n\t\t\n\t\t\n\t\t\tAravindSrinivasan\n\t\t\n\t\t\n\t\t\tZoltánToroczkai\n\t\t\n\t\t\n\t\t\tNanWang\n\t\t\n\t\t10.1038/nature02541\n\t\t15141212\n\t\tark:/67375/GT4-GVHB85V5-8\n\t\t46CAC951E44B050C8C116EE86F059E52CA0A8F4D\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4679\n\t\t\n\t\t\t429\n\t\t\t6988\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3e6c17723bebd86663b15"},"refKey":17},
{"_key":"60c3e6c17723bebd86663b18","_id":"references/60c3e6c17723bebd86663b18","_rev":"_cfFlPL----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPDStroud\n\t\t\n\t\t\n\t\t\tSYValle\n\t\t\n\t\t\n\t\t\tSJSydoriak\n\t\t\n\t\t\n\t\t\tJRiese\n\t\t\n\t\t\n\t\t\tSMniszewski\n\t\t\n\t\n\t\n\t\tJ. Artif. Soc. Soc. Simulat\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e6c17723bebd86663b15"},"refKey":44},
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{"_key":"60c3e7657723bebd86663b87","_id":"references/60c3e7657723bebd86663b87","_rev":"_cfFlPLi---","tei":"\n\t\n\t\tThe HADDOCK2.2 Web Server: User-Friendly Integrative Modeling of Biomolecular Complexes\n\t\t\n\t\t\tGC PVan Zundert\n\t\t\n\t\t\n\t\t\tJP G L MRodrigues\n\t\t\n\t\t\n\t\t\tMTrellet\n\t\t\n\t\t\n\t\t\tCSchmitz\n\t\t\n\t\t\n\t\t\tPLKastritis\n\t\t\n\t\t\n\t\t\tEKaraca\n\t\t\n\t\t\n\t\t\tAS JMelquiond\n\t\t\n\t\t\n\t\t\tMVan Dijk\n\t\t\n\t\t\n\t\t\tSJDe Vries\n\t\t\n\t\t\n\t\t\tAM J JBonvin\n\t\t\n\t\t10.1016/j.jmb.2015.09.014\n\t\t26410586\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t428\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3e7657723bebd86663b86"},"refKey":22},
{"_key":"60c3e7657723bebd86663b88","_id":"references/60c3e7657723bebd86663b88","_rev":"_cfFlPLq---","tei":"\n\t\n\t\tThe ClusPro web server for protein–protein docking\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tKathrynAPorter\n\t\t\n\t\t\n\t\t\tDzmitryPadhorny\n\t\t\n\t\t\n\t\t\tChristineYueh\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t10.1038/nprot.2016.169\n\t\t28079879\n\t\tPMC5540229\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3e7657723bebd86663b86"},"refKey":21},
{"_key":"60c3e7657723bebd86663b89","_id":"references/60c3e7657723bebd86663b89","_rev":"_cfFlPL2---","tei":"\n\t\n\t\tPatchDock and SymmDock: servers for rigid and symmetric docking\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tYInbar\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tHJWolfson\n\t\t\n\t\t10.1093/nar/gki481\n\t\t15980490\n\t\tPMC1160241\n\t\tark:/67375/HXZ-5SHH9NN3-T\n\t\t69025555577394917D43758F4E26C6EAF09BA9A4\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e7657723bebd86663b86"},"refKey":19},
{"_key":"60c3e7657723bebd86663b8a","_id":"references/60c3e7657723bebd86663b8a","_rev":"_cfFlPMC---","tei":"\n\t\n\t\tFireDock: Fast interaction refinement in molecular docking\n\t\t\n\t\t\tNellyAndrusier\n\t\t\n\t\t\n\t\t\tRuthNussinov\n\t\t\n\t\t\n\t\t\tHaimJWolfson\n\t\t\n\t\t10.1002/prot.21495\n\t\t17598144\n\t\tark:/67375/WNG-7DZTM4QJ-W\n\t\t1292F6CFB843022D8262EE758ED92B5BAA8A92C2\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t69\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3e7657723bebd86663b86"},"refKey":20},
{"_key":"60c3e78d7723bebd86663ba7","_id":"references/60c3e78d7723bebd86663ba7","_rev":"_cfFlPMO---","tei":"\n\t\n\t\tStatins and sepsis in patients with cardiovascular disease: a population-based cohort analysis\n\t\t\n\t\t\tDanielGHackam\n\t\t\n\t\t\n\t\t\tMuhammadMamdani\n\t\t\n\t\t\n\t\t\tPingLi\n\t\t\n\t\t\n\t\t\tDonaldARedelmeier\n\t\t\n\t\t10.1016/s0140-6736(06)68041-0\n\t\t16458766\n\t\n\t\n\t\tThe Lancet\n\t\tThe Lancet\n\t\t0140-6736\n\t\t\n\t\t\t367\n\t\t\t9508\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3e78d7723bebd86663ba6"},"refKey":20},
{"_key":"60c3e7ec7723bebd86663bde","_id":"references/60c3e7ec7723bebd86663bde","_rev":"_cfFlPMa---","tei":"\n\t\n\t\tGROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit\n\t\t\n\t\t\tSanderPronk\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tPerLarsson\n\t\t\n\t\t\n\t\t\tPärBjelkmar\n\t\t\n\t\t\n\t\t\tRossenApostolov\n\t\t\n\t\t\n\t\t\tMichaelRShirts\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tPeterMKasson\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1093/bioinformatics/btt055\n\t\t23407358\n\t\tPMC3605599\n\t\tGROMACS 4.5\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3e7ec7723bebd86663bdd"},"refKey":25},
{"_key":"60c3e7ec7723bebd86663bdf","_id":"references/60c3e7ec7723bebd86663bdf","_rev":"_cfFlPMi---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNoelMO'boyle\n\t\t\n\t\t\n\t\t\tMichaelBanck\n\t\t\n\t\t\n\t\t\tCraigAJames\n\t\t\n\t\t\n\t\t\tChrisMorley\n\t\t\n\t\t\n\t\t\tTimVandermeersch\n\t\t\n\t\t\n\t\t\tGeoffreyRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t21982300\n\t\tPMC3198950\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3e7ec7723bebd86663bdd"},"refKey":20},
{"_key":"60c3e7ec7723bebd86663be0","_id":"references/60c3e7ec7723bebd86663be0","_rev":"_cfFlPMu---","tei":"\n\t\n\t\tAutomated docking of flexible ligands: applications of AutoDock\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t10.1002/(sici)1099-1352(199601)9:1%3c1:aid-jmr241%3e3.0.co;2-6\n\t\n\t\n\t\tJ Mol Recognit\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\t1%3c1:aid-jmr24 1%3e3.0.co;2-6\n\n","document":{"$oid":"60c3e7ec7723bebd86663bdd"},"refKey":21},
{"_key":"60c3e7ec7723bebd86663be1","_id":"references/60c3e7ec7723bebd86663be1","_rev":"_cfFlPM6---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3e7ec7723bebd86663bdd"},"refKey":22},
{"_key":"60c3e80b7723bebd86663c50","_id":"references/60c3e80b7723bebd86663c50","_rev":"_cfFlPNG---","tei":"\n\t\n\t\tFunnel plots in meta-analysis\n\t\t\n\t\t\tJacSterne\n\t\t\n\t\t\n\t\t\tRMHarbord\n\t\t\n\t\n\t\n\t\tStata J Promot Commun Stat Stata\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e80b7723bebd86663c4f"},"refKey":21},
{"_key":"60c3e8497723bebd86663c78","_id":"references/60c3e8497723bebd86663c78","_rev":"_cfFlPNS---","tei":"\n\t\n\t\tWikiqa: A challenge dataset for open-domain question answering\n\t\t\n\t\t\tYYang\n\t\t\n\t\t\n\t\t\tW.-TYih\n\t\t\n\t\t\n\t\t\tCMeek\n\t\t\n\t\n\t\n\t\tProceedings of the EMNLP\n\t\t\t\tthe EMNLPLisbon, Portugal\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e8497723bebd86663c77"},"refKey":29},
{"_key":"60c3e8497723bebd86663c79","_id":"references/60c3e8497723bebd86663c79","_rev":"_cfFlPNa---","tei":"\n\t\n\t\tEnd-to-end quantum-like language models with application to question answering\n\t\t\n\t\t\tPZhang\n\t\t\n\t\t\n\t\t\tJNiu\n\t\t\n\t\t\n\t\t\tZSu\n\t\t\n\t\t\n\t\t\tBWang\n\t\t\n\t\t\n\t\t\tLMa\n\t\t\n\t\t\n\t\t\tDSong\n\t\t\n\t\n\t\n\t\tProceedings of the AAAI\n\t\t\t\tthe AAAINew Orleans, LA, USA, 2-7\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e8497723bebd86663c77"},"refKey":4},
{"_key":"60c3e8497723bebd86663c7a","_id":"references/60c3e8497723bebd86663c7a","_rev":"_cfFlPNm---","tei":"\n\t\n\t\tPytorch: An imperative style, highperformancedeep learning librar\n\t\t\n\t\t\tBSteiner\n\t\t\n\t\t\n\t\t\tZDevito\n\t\t\n\t\t\n\t\t\tSChintala\n\t\t\n\t\t\n\t\t\tSGross\n\t\t\n\t\t\n\t\t\tAPaszke\n\t\t\n\t\t\n\t\t\tFMassa\n\t\t\n\t\t\n\t\t\tALerer\n\t\t\n\t\t\n\t\t\tGChanan\n\t\t\n\t\t\n\t\t\tZLin\n\t\t\n\t\t\n\t\t\tZYang\n\t\t\n\t\n\t\n\t\tProceedings of the NIPS\n\t\t\t\tthe NIPSVancouver, BC, Canada\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e8497723bebd86663c77"},"refKey":35},
{"_key":"60c3e85d7723bebd86663c8b","_id":"references/60c3e85d7723bebd86663c8b","_rev":"_cfFlPNy---","tei":"\n\t\n\t\tExploring network structure, dynamics, and function using networkx\n\t\t\n\t\t\tAHagberg\n\t\t\n\t\t\n\t\t\tPSwart\n\t\t\n\t\t\n\t\t\tDSChult\n\t\t\n\t\t\n\t\t\t\n\t\t\tLos Alamos, NM, United States\n\t\t\n\t\t\n\t\t\tLos Alamos National Lab. (LANL)\n\t\t\n\t\n\tTechnical report\n\n","document":{"$oid":"60c3e85d7723bebd86663c8a"},"refKey":22},
{"_key":"60c3e8657723bebd86663c90","_id":"references/60c3e8657723bebd86663c90","_rev":"_cfFlPOC---","tei":"\n\t\n\t\t\n\t\t\tStata\n\t\t\n\t\tData Analysis and Statistical Software. StataCorp LP\n\t\t\t\tCollege Station, TX, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e8657723bebd86663c8f"},"refKey":25},
{"_key":"60c3e8657723bebd86663c91","_id":"references/60c3e8657723bebd86663c91","_rev":"_cfFlPOO---","tei":"\n\t\n\t\tMonitoring of antimicrobial susceptibility of Streptococcus suis in the Netherlands\n\t\t\n\t\t\tVSStel\n\t\t\n\t\t\n\t\t\tFWDekker\n\t\t\n\t\t\n\t\t\tGTripepi\n\t\t\n\t\t\n\t\t\tCZoccali\n\t\t\n\t\t\n\t\t\tKJJager\n\t\t\n\t\t\n\t\t\tJVan Hout\n\t\t\n\t\t\n\t\t\tAHeuvelink\n\t\t\n\t\t\n\t\t\tMGonggrijp\n\t\t\n\t\t10.1016/j.vetmic.2016.03.014\n\t\t\n\t\n\t\n\t\tNephron Clin. Pract\n\t\t\n\t\t\t\n\t\t\n\t\n\tVet. Microbiol\n\n","document":{"$oid":"60c3e8657723bebd86663c8f"},"refKey":26},
{"_key":"60c3e8657723bebd86663c92","_id":"references/60c3e8657723bebd86663c92","_rev":"_cfFlPOa---","tei":"\n\t\n\t\tNonparametric Estimation from Incomplete Observations\n\t\t\n\t\t\tELKaplan\n\t\t\n\t\t\n\t\t\tPaulMeier\n\t\t\n\t\t10.1007/978-1-4612-4380-9_25\n\t\tark:/67375/HCB-JRMMD9LZ-V\n\t\t358BFF4CD5DC420914B7AD9E79C51FA27C0B8FEF\n\t\n\t\n\t\tSpringer Series in Statistics\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t53\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e8657723bebd86663c8f"},"refKey":15},
{"_key":"60c3e8937723bebd86663ca6","_id":"references/60c3e8937723bebd86663ca6","_rev":"_cfFlPOq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t\n\t\t\tCFBeckmann\n\t\t\n\t\t\n\t\t\tTejBehrens\n\t\t\n\t\t\n\t\t\tMWWoolrich\n\t\t\n\t\t\n\t\t\tSMSmith\n\t\t\n\t\t\n\t\t\tFsl\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t62\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e8937723bebd86663ca5"},"refKey":21},
{"_key":"60c3e8937723bebd86663ca7","_id":"references/60c3e8937723bebd86663ca7","_rev":"_cfFlPO2---","tei":"\n\t\n\t\tHigh-resolution inter-subject averaging and a surface-based coordinate system\n\t\t\n\t\t\tBFischl\n\t\t\n\t\t\n\t\t\tMISereno\n\t\t\n\t\t\n\t\t\tRbhTootell\n\t\t\n\t\t\n\t\t\tAMDale\n\t\t\n\t\n\t\n\t\tHum Brain Mapp\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e8937723bebd86663ca5"},"refKey":32},
{"_key":"60c3e8957723bebd86663cb2","_id":"references/60c3e8957723bebd86663cb2","_rev":"_cfFlPPC---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e8957723bebd86663cb1"},"refKey":24},
{"_key":"60c3e9037723bebd86663cec","_id":"references/60c3e9037723bebd86663cec","_rev":"_cfFlPPS---","tei":"\n\t\n\t\tSwissparam: a fast force field generation tool for small organic molecules\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tMACuendet\n\t\t\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e9037723bebd86663ceb"},"refKey":37},
{"_key":"60c3e9037723bebd86663ced","_id":"references/60c3e9037723bebd86663ced","_rev":"_cfFlPPe---","tei":"\n\t\n\t\tUCSF chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e9037723bebd86663ceb"},"refKey":34},
{"_key":"60c3e9067723bebd86663cfa","_id":"references/60c3e9067723bebd86663cfa","_rev":"_cfFlPPu---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCarolineASchneider\n\t\t\n\t\t\n\t\t\tWayneSRasband\n\t\t\n\t\t\n\t\t\tKevinWEliceiri\n\t\t\n\t\t10.1038/nmeth.2089\n\t\t22930834\n\t\tPMC5554542\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3e9067723bebd86663cf9"},"refKey":61},
{"_key":"60c3e90f7723bebd86663d00","_id":"references/60c3e90f7723bebd86663d00","_rev":"_cfFlPQ----","tei":"\n\t\n\t\tThe 2005 PASCAL Visual Object Classes Challenge\n\t\t\n\t\t\tMarkEveringham\n\t\t\n\t\t\n\t\t\tAndrewZisserman\n\t\t\n\t\t\n\t\t\tChristopherK IWilliams\n\t\t\n\t\t\n\t\t\tLucVan Gool\n\t\t\n\t\t\n\t\t\tMorayAllan\n\t\t\n\t\t\n\t\t\tChristopherMBishop\n\t\t\n\t\t\n\t\t\tOlivierChapelle\n\t\t\n\t\t\n\t\t\tNavneetDalal\n\t\t\n\t\t\n\t\t\tThomasDeselaers\n\t\t\n\t\t\n\t\t\tGyuriDorkó\n\t\t\n\t\t\n\t\t\tStefanDuffner\n\t\t\n\t\t\n\t\t\tJanEichhorn\n\t\t\n\t\t\n\t\t\tJasonD RFarquhar\n\t\t\n\t\t\n\t\t\tMarioFritz\n\t\t\n\t\t\n\t\t\tChristopheGarcia\n\t\t\n\t\t\n\t\t\tTomGriffiths\n\t\t\n\t\t\n\t\t\tFredericJurie\n\t\t\n\t\t\n\t\t\tDanielKeysers\n\t\t\n\t\t\n\t\t\tMarkusKoskela\n\t\t\n\t\t\n\t\t\tJormaLaaksonen\n\t\t\n\t\t\n\t\t\tDianeLarlus\n\t\t\n\t\t\n\t\t\tBastianLeibe\n\t\t\n\t\t\n\t\t\tHongyingMeng\n\t\t\n\t\t\n\t\t\tHermannNey\n\t\t\n\t\t\n\t\t\tBerntSchiele\n\t\t\n\t\t\n\t\t\tCordeliaSchmid\n\t\t\n\t\t\n\t\t\tEdgarSeemann\n\t\t\n\t\t\n\t\t\tJohnShawe-Taylor\n\t\t\n\t\t\n\t\t\tAmosStorkey\n\t\t\n\t\t\n\t\t\tSandorSzedmak\n\t\t\n\t\t\n\t\t\tBillTriggs\n\t\t\n\t\t\n\t\t\tIlkayUlusoy\n\t\t\n\t\t\n\t\t\tVilleViitaniemi\n\t\t\n\t\t\n\t\t\tJianguoZhang\n\t\t\n\t\t10.1007/11736790_8\n\t\tark:/67375/HCB-S1G6XK4T-F\n\t\tD650DEB952204208AAEDCA6084E07B35FD0F3332\n\t\t\n\t\n\t\n\t\tMachine Learning Challenges. Evaluating Predictive Uncertainty, Visual Object Classification, and Recognising Tectual Entailment\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t111\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e90f7723bebd86663cff"},"refKey":7},
{"_key":"60c3e9277723bebd86663d14","_id":"references/60c3e9277723bebd86663d14","_rev":"_cfFlPQK---","tei":"\n\t\n\t\tRnaSeqSampleSize: real data based sample size estimation for RNA sequencing\n\t\t\n\t\t\tShilinZhao\n\t\t\t0000-0002-3921-3965\n\t\t\n\t\t\n\t\t\tNull-ILi\n\t\t\n\t\t\n\t\t\tYanGuo\n\t\t\n\t\t\n\t\t\tQuanhuSheng\n\t\t\n\t\t\n\t\t\tYuShyr\n\t\t\n\t\t10.1186/s12859-018-2191-5\n\t\t29843589\n\t\tPMC5975570\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t191\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c3e9277723bebd86663d13"},"refKey":13},
{"_key":"60c3e92a7723bebd86663d26","_id":"references/60c3e92a7723bebd86663d26","_rev":"_cfFlPQW---","tei":"\n\t\n\t\tTaking up Africa's cancer challenge\n\t\t\n\t\t\tTAnderson\n\t\t\n\t\t10.2471/BLT.18.020418\n\t\n\t\n\t\tBull World Health Organ\n\t\t\n\t\t\t96\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3e92a7723bebd86663d25"},"refKey":29},
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{"_key":"60c3eac47723bebd86663ea6","_id":"references/60c3eac47723bebd86663ea6","_rev":"_cfFlPVy---","tei":"\n\t\n\t\tDevelopment and validation of a broad scheme for prediction of HLA class II restricted T cell epitopes\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tCeciliaSLindestam Arlehamn\n\t\t\n\t\t\n\t\t\tThomasJScriba\n\t\t\n\t\t\n\t\t\tMylesB CDillon\n\t\t\n\t\t\n\t\t\tCarlaOseroff\n\t\t\n\t\t\n\t\t\tDeniseHinz\n\t\t\n\t\t\n\t\t\tDeniseMMckinney\n\t\t\n\t\t\n\t\t\tSebastianCarrasco Pro\n\t\t\n\t\t\n\t\t\tJohnSidney\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t10.1016/j.jim.2015.03.022\n\t\t25862607\n\t\tPMC4458426\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Immunological Methods\n\t\tJournal of Immunological Methods\n\t\t0022-1759\n\t\t\n\t\t\t422\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3eac47723bebd86663ea5"},"refKey":34},
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{"_key":"60c3ebdf7723bebd86663fd2","_id":"references/60c3ebdf7723bebd86663fd2","_rev":"_cfFlPaW---","tei":"\n\t\n\t\ton behalf of the International Nucleotide Sequence Database Collaboration\n\t\t\n\t\t\tYKodama\n\t\t\n\t\t\n\t\t\tMShumway\n\t\t\n\t\t\n\t\t\tRLeinonen\n\t\t\n\t\t10.1093/nar/gkr854\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tThe sequence read archive: Explosive growth of sequencing data\n\n","document":{"$oid":"60c3ebdf7723bebd86663fca"},"refKey":39},
{"_key":"60c3ebdf7723bebd86663fd3","_id":"references/60c3ebdf7723bebd86663fd3","_rev":"_cfFlPai---","tei":"\n\t\n\t\tEvolving gene/transcript definitions significantly alter the interpretation of GeneChip data\n\t\t\n\t\t\tMDai\n\t\t\n\t\t10.1093/nar/gni179\n\t\t16284200\n\t\tPMC1283542\n\t\tark:/67375/HXZ-MP2ZS8J7-W\n\t\t3088295429DE9CEED1005C3FCA3343767E377F19\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3ebdf7723bebd86663fca"},"refKey":36},
{"_key":"60c3ebe17723bebd86663fe6","_id":"references/60c3ebe17723bebd86663fe6","_rev":"_cfFlPau---","tei":"\n\t\n\t\tG*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t10.3758/bf03193146\n\t\t17695343\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c3ebe17723bebd86663fe5"},"refKey":34},
{"_key":"60c3ec067723bebd86664007","_id":"references/60c3ec067723bebd86664007","_rev":"_cfFlPa6---","tei":"\n\t\n\t\tStatistical power analyses using G* Power 3.1: Tests for correlation and regression analyses\n\t\t\n\t\t\tFFaul\n\t\t\n\t\t\n\t\t\tEErdfelder\n\t\t\n\t\t\n\t\t\tABuchner\n\t\t\n\t\t\n\t\t\tAGLang\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ec067723bebd86664006"},"refKey":28},
{"_key":"60c3ec067723bebd86664008","_id":"references/60c3ec067723bebd86664008","_rev":"_cfFlPbC---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis: A regression-based approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford Publications\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c3ec067723bebd86664006"},"refKey":32},
{"_key":"60c3ec067723bebd86664009","_id":"references/60c3ec067723bebd86664009","_rev":"_cfFlPbO---","tei":"\n\t\n\t\tComprehensive meta-analysis, version 3\n\t\t\n\t\t\tMBorenstein\n\t\t\n\t\t\n\t\t\tLHedges\n\t\t\n\t\t\n\t\t\tJHiggins\n\t\t\n\t\t\n\t\t\tHRothstein\n\t\t\n\t\t\n\t\t\t\n\t\t\tBiostat\n\t\t\tEnglewood, NJ\n\t\t\n\t\n\n","document":{"$oid":"60c3ec067723bebd86664006"},"refKey":11},
{"_key":"60c3ec597723bebd8666402e","_id":"references/60c3ec597723bebd8666402e","_rev":"_cfFlPba---","tei":"\n\t\n\t\tAnalytical equations for overlapping spheres and implications for the hydrophobic effect\n\t\t\n\t\t\tTJRichmond\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t178\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tSolvent accessible surface area and excluded volume in proteins\n\n","document":{"$oid":"60c3ec597723bebd8666402d"},"refKey":25},
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{"_key":"60c3ecbd7723bebd866640a7","_id":"references/60c3ecbd7723bebd866640a7","_rev":"_cfFlPdm---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\n\t\n\t\tBioinforma Oxf Engl\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ecbd7723bebd866640a5"},"refKey":18},
{"_key":"60c3ecef7723bebd866640db","_id":"references/60c3ecef7723bebd866640db","_rev":"_cfFlPdy---","tei":"\n\t\n\t\tKnowledgebased Surveillance for Preventing Postoperative Surgical Site Infection\n\t\t\n\t\t\tAShaban-Nejad\n\t\t\n\t\t\n\t\t\tGRose\n\t\t\n\t\t\n\t\t\tAOkhmatovskaia\n\t\t\n\t\t\n\t\t\tARiazanov\n\t\t\n\t\t\n\t\t\tCBaker\n\t\t\n\t\t\n\t\t\tRTamblyn\n\t\t\n\t\t\n\t\t\tAForster\n\t\t\n\t\t\n\t\t\tDBuckeridge\n\t\t\n\t\n\t\n\t\tProc. of XXIII International Conference of the European Federation for Medical Informatics\n\t\t\t\tof XXIII International Conference of the European Federation for Medical Informatics\n\t\t\n\t\t\t\n\t\t\t169\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ecef7723bebd866640da"},"refKey":6},
{"_key":"60c3ed057723bebd866640e0","_id":"references/60c3ed057723bebd866640e0","_rev":"_cfFlPe----","tei":"\n\t\n\t\tRNA velocity of single cells\n\t\t\n\t\t\tGioeleLa Manno\n\t\t\n\t\t\n\t\t\tRuslanSoldatov\n\t\t\n\t\t\n\t\t\tAmitZeisel\n\t\t\n\t\t\n\t\t\tEmelieBraun\n\t\t\n\t\t\n\t\t\tHannahHochgerner\n\t\t\n\t\t\n\t\t\tViktorPetukhov\n\t\t\n\t\t\n\t\t\tKatjaLidschreiber\n\t\t\n\t\t\n\t\t\tMariaEKastriti\n\t\t\n\t\t\n\t\t\tPeterLönnerberg\n\t\t\n\t\t\n\t\t\tAlessandroFurlan\n\t\t\n\t\t\n\t\t\tJeanFan\n\t\t\n\t\t\n\t\t\tLarsEBorm\n\t\t\n\t\t\n\t\t\tZehuaLiu\n\t\t\n\t\t\n\t\t\tDavidVan Bruggen\n\t\t\n\t\t\n\t\t\tJiminGuo\n\t\t\n\t\t\n\t\t\tXiaolingHe\n\t\t\n\t\t\n\t\t\tRogerBarker\n\t\t\n\t\t\n\t\t\tErikSundström\n\t\t\n\t\t\n\t\t\tGonçaloCastelo-Branco\n\t\t\n\t\t\n\t\t\tPatrickCramer\n\t\t\n\t\t\n\t\t\tIgorAdameyko\n\t\t\n\t\t\n\t\t\tStenLinnarsson\n\t\t\n\t\t\n\t\t\tPeterVKharchenko\n\t\t\n\t\t10.1038/s41586-018-0414-6\n\t\t30089906\n\t\tPMC6130801\n\t\t\n\t\t\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t560\n\t\t\t7719\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature America, Inc\n\t\t\n\t\n\n","document":{"$oid":"60c3ed057723bebd866640df"},"refKey":68},
{"_key":"60c3ed057723bebd866640e1","_id":"references/60c3ed057723bebd866640e1","_rev":"_cfFlPeK---","tei":"\n\t\n\t\tReversed graph embedding resolves complex single-cell trajectories\n\t\t\n\t\t\tXiaojieQiu\n\t\t\t0000-0002-7881-5395\n\t\t\n\t\t\n\t\t\tQiMao\n\t\t\n\t\t\n\t\t\tYingTang\n\t\t\n\t\t\n\t\t\tLiWang\n\t\t\n\t\t\n\t\t\tRaghavChawla\n\t\t\n\t\t\n\t\t\tHannahAPliner\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\t0000-0002-8105-4347\n\t\t\n\t\t10.1038/nmeth.4402\n\t\t28825705\n\t\tPMC5764547\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Meth\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3ed057723bebd866640df"},"refKey":124},
{"_key":"60c3ed057723bebd866640e2","_id":"references/60c3ed057723bebd866640e2","_rev":"_cfFlPeW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tTLiu\n\t\t\n\t\t\n\t\t\tCAMeyer\n\t\t\n\t\t\n\t\t\tJEeckhoute\n\t\t\n\t\t\n\t\t\tDSJohnson\n\t\t\n\t\t\n\t\t\tBEBernstein\n\t\t\n\t\t\n\t\t\tXSLiu\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ed057723bebd866640df"},"refKey":164},
{"_key":"60c3ed057723bebd866640e3","_id":"references/60c3ed057723bebd866640e3","_rev":"_cfFlPei---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3ed057723bebd866640df"},"refKey":72},
{"_key":"60c3ed057723bebd866640e4","_id":"references/60c3ed057723bebd866640e4","_rev":"_cfFlPeu---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ed057723bebd866640df"},"refKey":34},
{"_key":"60c3ed057723bebd866640e5","_id":"references/60c3ed057723bebd866640e5","_rev":"_cfFlPe6---","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBoLi\n\t\t\n\t\t\n\t\t\tColinNDewey\n\t\t\n\t\t10.1186/1471-2105-12-323\n\t\t21816040\n\t\tPMC3163565\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t323\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3ed057723bebd866640df"},"refKey":82},
{"_key":"60c3ed057723bebd866640e6","_id":"references/60c3ed057723bebd866640e6","_rev":"_cfFlPfG---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3ed057723bebd866640df"},"refKey":83},
{"_key":"60c3ed387723bebd8666412d","_id":"references/60c3ed387723bebd8666412d","_rev":"_cfFlPfS---","tei":"\n\t\n\t\tLearning Important Features Through Propagating Activation Differences\n\t\t\n\t\t\tAShrikumar\n\t\t\n\t\t\n\t\t\tPGreenside\n\t\t\n\t\t\n\t\t\tAKundaje\n\t\t\n\t\n\t\n\t\tProceedings of the 34th International Conference on Machine Learning, International Convention Centre\n\t\t\t\t\n\t\t\tDPrecup\n\t\t\tYWTeh\n\t\t\n\t\tthe 34th International Conference on Machine Learning, International Convention CentreSydney, Australia\n\t\t\n\t\t\tPMLR\n\t\t\t\n\t\t\t70\n\t\t\t\n\t\t\n\t\n\tof Proceedings of Machine Learning Research\n\n","document":{"$oid":"60c3ed387723bebd8666412c"},"refKey":44},
{"_key":"60c3ed387723bebd8666412e","_id":"references/60c3ed387723bebd8666412e","_rev":"_cfFlPfe---","tei":"\n\t\n\t\t\n\t\t\tJRen\n\t\t\n\t\t\n\t\t\tKSong\n\t\t\n\t\t\n\t\t\tCDeng\n\t\t\n\t\t\n\t\t\tNAAhlgren\n\t\t\n\t\t\n\t\t\tJAFuhrman\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tXXie\n\t\t\n\t\t\n\t\t\tFSun\n\t\t\n\t\tarXiv:1806.07810\n\t\tarXiv: 1806.07810\n\t\t) Identifying viruses from metagenomic data by deep learning\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tq-bio\n\n","document":{"$oid":"60c3ed387723bebd8666412c"},"refKey":35},
{"_key":"60c3ed387723bebd8666412f","_id":"references/60c3ed387723bebd8666412f","_rev":"_cfFlPfm---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ed387723bebd8666412c"},"refKey":48},
{"_key":"60c3ed387723bebd86664130","_id":"references/60c3ed387723bebd86664130","_rev":"_cfFlPfy---","tei":"\n\t\n\t\t) BLAST+: architecture and applications\n\t\t\n\t\t\tCCamacho\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tVAvagyan\n\t\t\n\t\t\n\t\t\tNMa\n\t\t\n\t\t\n\t\t\tJPapadopoulos\n\t\t\n\t\t\n\t\t\tKBealer\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ed387723bebd8666412c"},"refKey":49},
{"_key":"60c3ed387723bebd86664131","_id":"references/60c3ed387723bebd86664131","_rev":"_cfFlPg----","tei":"\n\t\n\t\tViraMiner: Deep Learning on Raw DNA Sequences for Identifying Viral Genomes in Human Samples\n\t\t\n\t\t\tArdiTampuu\n\t\t\t0000-0002-2120-1712\n\t\t\n\t\t\n\t\t\tZurabBzhalava\n\t\t\n\t\t\n\t\t\tJoakimDillner\n\t\t\n\t\t\n\t\t\tRaulVicente\n\t\t\n\t\t10.1101/602656\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\t\n\t\t\t14\n\t\t\t9\n\t\t\te0222271\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3ed387723bebd8666412c"},"refKey":36},
{"_key":"60c3ed387723bebd86664132","_id":"references/60c3ed387723bebd86664132","_rev":"_cfFlPgK---","tei":"\n\t\n\t\tPymol: An open-source molecular graphics tool\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tOthers\n\t\t\n\t\n\t\n\t\tCCP4 Newsletter on protein crystallography\n\t\t\n\t\t\t40\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3ed387723bebd8666412c"},"refKey":66},
{"_key":"60c3ed387723bebd86664133","_id":"references/60c3ed387723bebd86664133","_rev":"_cfFlPgW---","tei":"\n\t\n\t\tBioconda: A sustainable and comprehensive software distribution for the life sciences\n\t\t\n\t\t\tBjörnGrüning\n\t\t\n\t\t\n\t\t\tRyanDale\n\t\t\n\t\t\n\t\t\tAndreasSjödin\n\t\t\n\t\t\n\t\t\tBradAChapman\n\t\t\n\t\t\n\t\t\tJillianRowe\n\t\t\n\t\t\n\t\t\tChristopherHTomkins-Tinch\n\t\t\n\t\t\n\t\t\tRenanValieris\n\t\t\n\t\t\n\t\t\tAdamCaprez\n\t\t\n\t\t\n\t\t\tBéréniceBatut\n\t\t\n\t\t\n\t\t\tMathiasHaudgaard\n\t\t\n\t\t\n\t\t\tThomasCokelaer\n\t\t\n\t\t\n\t\t\tKyleABeauchamp\n\t\t\n\t\t\n\t\t\tBrentSPedersen\n\t\t\n\t\t\n\t\t\tYouriHoogstrate\n\t\t\n\t\t\n\t\t\tAnthonyBretaudeau\n\t\t\n\t\t\n\t\t\tDevonRyan\n\t\t\n\t\t\n\t\t\tGildasLeCorguillé\n\t\t\n\t\t\n\t\t\tDilmuratYusuf\n\t\t\n\t\t\n\t\t\tSebastianLuna-Valero\n\t\t\n\t\t\n\t\t\tRoryKirchner\n\t\t\n\t\t\n\t\t\tKarelBrinda\n\t\t\n\t\t\n\t\t\tThomasWollmann\n\t\t\n\t\t\n\t\t\tMartinRaden\n\t\t\n\t\t\n\t\t\tSimonJ VanHeeringen\n\t\t\n\t\t\n\t\t\tNicolaSoranzo\n\t\t\n\t\t\n\t\t\tLorenaPantano\n\t\t\n\t\t\n\t\t\tZacharyCharlop-Powers\n\t\t\n\t\t\n\t\t\tPerUnneberg\n\t\t\n\t\t\n\t\t\tMatthiasDeSmet\n\t\t\n\t\t\n\t\t\tMarcelMartin\n\t\t\n\t\t\n\t\t\tGregVonKuster\n\t\t\n\t\t\n\t\t\tTiagoAntao\n\t\t\n\t\t\n\t\t\tMiladMiladi\n\t\t\n\t\t\n\t\t\tKevinThornton\n\t\t\n\t\t\n\t\t\tChristianBrueffer\n\t\t\n\t\t\n\t\t\tMariusVan DenBeek\n\t\t\n\t\t\n\t\t\tDanielMaticzka\n\t\t\n\t\t\n\t\t\tClemensBlank\n\t\t\n\t\t\n\t\t\tSebastianWill\n\t\t\n\t\t\n\t\t\tK´evinGravouil\n\t\t\n\t\t\n\t\t\tJoachimWolff\n\t\t\n\t\t\n\t\t\tManuelHoltgrewe\n\t\t\n\t\t\n\t\t\tJörgFallmann\n\t\t\n\t\t\n\t\t\tVitorCPiro\n\t\t\n\t\t\n\t\t\tIlyaShlyakhter\n\t\t\n\t\t\n\t\t\tAymanYousif\n\t\t\n\t\t\n\t\t\tPhilipMabon\n\t\t\n\t\t\n\t\t\tXiao-OuZhang\n\t\t\n\t\t\n\t\t\tWeiShen\n\t\t\n\t\t\n\t\t\tJenniferCabral\n\t\t\n\t\t\n\t\t\tCristelThomas\n\t\t\n\t\t\n\t\t\tEricEnns\n\t\t\n\t\t\n\t\t\tJosephBrown\n\t\t\n\t\t\n\t\t\tJorritBoekel\n\t\t\n\t\t\n\t\t\tMattiasDeHollander\n\t\t\n\t\t\n\t\t\tJeromeKelleher\n\t\t\n\t\t\n\t\t\tNiteshTuraga\n\t\t\n\t\t\n\t\t\tJulianR DeRuiter\n\t\t\n\t\t\n\t\t\tDaveBouvier\n\t\t\n\t\t\n\t\t\tSimonGladman\n\t\t\n\t\t\n\t\t\tSaketChoudhary\n\t\t\n\t\t\n\t\t\tNicholasHarding\n\t\t\n\t\t\n\t\t\tFlorianEggenhofer\n\t\t\n\t\t\n\t\t\tArneKratz\n\t\t\n\t\t\n\t\t\tZhuoqingFang\n\t\t\n\t\t\n\t\t\tRobertKleinkauf\n\t\t\n\t\t\n\t\t\tHenningTimm\n\t\t\n\t\t\n\t\t\tPeterJ 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{"_key":"60c3f1d37723bebd866645b8","_id":"references/60c3f1d37723bebd866645b8","_rev":"_cfFlPr----","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3f1d37723bebd866645b3"},"refKey":33},
{"_key":"60c3f1d37723bebd866645b9","_id":"references/60c3f1d37723bebd866645b9","_rev":"_cfFlPrK---","tei":"\n\t\n\t\tApplication of Phylogenetic Networks in Evolutionary Studies\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tDavidBryant\n\t\t\n\t\t10.1093/molbev/msj030\n\t\t16221896\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t23\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3f1d37723bebd866645b3"},"refKey":29},
{"_key":"60c3f1d37723bebd866645ba","_id":"references/60c3f1d37723bebd866645ba","_rev":"_cfFlPrW---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDiegoDarriba\n\t\t\n\t\t\n\t\t\tGuillermoLTaboada\n\t\t\n\t\t\n\t\t\tRamónDoallo\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t10.1038/nmeth.2109\n\t\t22847109\n\t\tPMC4594756\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3f1d37723bebd866645b3"},"refKey":30},
{"_key":"60c3f1eb7723bebd866645cb","_id":"references/60c3f1eb7723bebd866645cb","_rev":"_cfFlPri---","tei":"\n\t\n\t\tPrediction of complete gene structures in human genomic DNA\n\t\t\n\t\t\tCBurge\n\t\t\n\t\t\n\t\t\tSKarlin\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t268\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":12},
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{"_key":"60c3f1eb7723bebd866645cd","_id":"references/60c3f1eb7723bebd866645cd","_rev":"_cfFlPr2---","tei":"\n\t\n\t\tAVID: A Global Alignment Program\n\t\t\n\t\t\tNBray\n\t\t\n\t\t\n\t\t\tIDubchak\n\t\t\n\t\t\n\t\t\tLPachter\n\t\t\n\t\t10.1101/gr.789803\n\t\t12529311\n\t\tPMC430967\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t13\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":11},
{"_key":"60c3f1eb7723bebd866645ce","_id":"references/60c3f1eb7723bebd866645ce","_rev":"_cfFlPsC---","tei":"\n\t\n\t\tVISTA: computational tools for comparative genomics\n\t\t\n\t\t\tKAFrazer\n\t\t\n\t\t\n\t\t\tLPachter\n\t\t\n\t\t\n\t\t\tAPoliakov\n\t\t\n\t\t\n\t\t\tEMRubin\n\t\t\n\t\t\n\t\t\tIDubchak\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":23},
{"_key":"60c3f1eb7723bebd866645cf","_id":"references/60c3f1eb7723bebd866645cf","_rev":"_cfFlPsO---","tei":"\n\t\n\t\tzPicture: Dynamic Alignment and Visualization Tool for Analyzing Conservation Profiles\n\t\t\n\t\t\tIOvcharenko\n\t\t\n\t\t\n\t\t\tGGLoots\n\t\t\n\t\t\n\t\t\tRCHardison\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tLStubbs\n\t\t\n\t\t10.1101/gr.2129504\n\t\t14993211\n\t\tPMC353235\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t14\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":48},
{"_key":"60c3f1eb7723bebd866645d0","_id":"references/60c3f1eb7723bebd866645d0","_rev":"_cfFlPsa---","tei":"\n\t\n\t\tIntegrating genomic homology into gene structure prediction\n\t\t\n\t\t\tIKorf\n\t\t\n\t\t\n\t\t\tPFlicek\n\t\t\n\t\t\n\t\t\tDDuan\n\t\t\n\t\t\n\t\t\tMRBrent\n\t\t\n\t\t10.1093/bioinformatics/17.suppl_1.s140\n\t\t11473003\n\t\t1460-2059\n\t\tark:/67375/HXZ-KP7B4F4S-8\n\t\t5F2EB2BF98AE3DD7A821FF48A76912EB09FDBA6C\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t17\n\t\t\tSuppl 1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":35},
{"_key":"60c3f1eb7723bebd866645d1","_id":"references/60c3f1eb7723bebd866645d1","_rev":"_cfFlPsi---","tei":"\n\t\n\t\tThe UCSC Genome Browser Database\n\t\t\n\t\t\tDKarolchik\n\t\t\n\t\t\n\t\t\tRBaertsch\n\t\t\n\t\t\n\t\t\tMDiekhans\n\t\t\n\t\t\n\t\t\tTSFurey\n\t\t\n\t\t\n\t\t\tAHinrichs\n\t\t\n\t\t\n\t\t\tYTLu\n\t\t\n\t\t\n\t\t\tKMRoskin\n\t\t\n\t\t\n\t\t\tMSchwartz\n\t\t\n\t\t\n\t\t\tCWSugnet\n\t\t\n\t\t\n\t\t\tDJThomas\n\t\t\n\t\t\n\t\t\tRJWeber\n\t\t\n\t\t\n\t\t\tDHaussler\n\t\t\n\t\t\n\t\t\tWJKent\n\t\t\n\t\t10.1093/nar/gkg129\n\t\t12519945\n\t\tPMC165576\n\t\tark:/67375/HXZ-R9X7DN35-N\n\t\t6A898D2DA38A1AB394ADFA733164033868C87469\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":32},
{"_key":"60c3f1eb7723bebd866645d2","_id":"references/60c3f1eb7723bebd866645d2","_rev":"_cfFlPsu---","tei":"\n\t\n\t\trVista for Comparative Sequence-Based Discovery of Functional Transcription Factor Binding Sites\n\t\t\n\t\t\tGGLoots\n\t\t\n\t\t\n\t\t\tIOvcharenko\n\t\t\n\t\t\n\t\t\tLPachter\n\t\t\n\t\t\n\t\t\tIDubchak\n\t\t\n\t\t\n\t\t\tEMRubin\n\t\t\n\t\t10.1101/gr.225502.\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":39},
{"_key":"60c3f1eb7723bebd866645d3","_id":"references/60c3f1eb7723bebd866645d3","_rev":"_cfFlPs6---","tei":"\n\t\n\t\trVISTA 2.0: evolutionary analysis of transcription factor binding sites\n\t\t\n\t\t\tGGLoots\n\t\t\n\t\t\n\t\t\tIOvcharenko\n\t\t\n\t\t10.1093/nar/gkh383\n\t\t15215384\n\t\tPMC441521\n\t\tark:/67375/HXZ-W4H0VBHJ-W\n\t\t8ECF6A6B11F9CA24923528D091B5D559054DDA89\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":38},
{"_key":"60c3f1eb7723bebd866645d4","_id":"references/60c3f1eb7723bebd866645d4","_rev":"_cfFlPtG---","tei":"\n\t\n\t\tIdentification of protein coding regions in the human genome by quadratic discriminant analysis\n\t\t\n\t\t\tMQZhang\n\t\t\n\t\t10.1073/pnas.94.2.565\n\t\t9012824\n\t\tPMC19553\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t94\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":74},
{"_key":"60c3f1eb7723bebd866645d5","_id":"references/60c3f1eb7723bebd866645d5","_rev":"_cfFlPtS---","tei":"\n\t\n\t\tSpidey: A Tool for mRNA-to-Genomic Alignments\n\t\t\n\t\t\tSarahJWheelan\n\t\t\n\t\t\n\t\t\tDeannaMChurch\n\t\t\n\t\t\n\t\t\tJamesMOstell\n\t\t\n\t\t10.1101/gr.195301\n\t\t11691860\n\t\tPMC311166\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t11\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":71},
{"_key":"60c3f1eb7723bebd866645d6","_id":"references/60c3f1eb7723bebd866645d6","_rev":"_cfFlPta---","tei":"\n\t\n\t\tLocating protein-coding regions in human DNA sequences by a multiple sensor-neural network approach.\n\t\t\n\t\t\tECUberbacher\n\t\t\n\t\t\n\t\t\tRJMural\n\t\t\n\t\t10.1073/pnas.88.24.11261\n\t\t1763041\n\t\tPMC53114\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t88\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c3f1eb7723bebd866645ca"},"refKey":64},
{"_key":"60c3f1f97723bebd866645f4","_id":"references/60c3f1f97723bebd866645f4","_rev":"_cfFlPtm---","tei":"\n\t\n\t\tCASTp 3.0: Computed Atlas of Surface Topography of Proteins and Beyond\n\t\t\n\t\t\tWeiTian\n\t\t\n\t\t\n\t\t\tChangChen\n\t\t\n\t\t\n\t\t\tJieLiang\n\t\t\n\t\t10.1016/j.bpj.2017.11.325\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t114\n\t\t\t3\n\t\t\t50a\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3f1f97723bebd866645f3"},"refKey":38},
{"_key":"60c3f1f97723bebd866645f5","_id":"references/60c3f1f97723bebd866645f5","_rev":"_cfFlPty---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f1f97723bebd866645f3"},"refKey":31},
{"_key":"60c3f22b7723bebd8666460d","_id":"references/60c3f22b7723bebd8666460d","_rev":"_cfFlPu----","tei":"\n\t\n\t\tBLAST: a more efficient report with usability improvements\n\t\t\n\t\t\tGMBoratyn\n\t\t\n\t\t\n\t\t\tCCamacho\n\t\t\n\t\t\n\t\t\tPSCooper\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tAFong\n\t\t\n\t\t\n\t\t\tNMa\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tWTMatten\n\t\t\n\t\t\n\t\t\tSDMcginnis\n\t\t\n\t\t\n\t\t\tYMerezhuk\n\t\t\n\t\t\n\t\t\tYRaytselis\n\t\t\n\t\t\n\t\t\tEWSayers\n\t\t\n\t\t\n\t\t\tTTao\n\t\t\n\t\t\n\t\t\tJYe\n\t\t\n\t\t\n\t\t\tIZaretskaya\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c3f22b7723bebd8666460c"},"refKey":11},
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{"_key":"60c3f2337723bebd8666461a","_id":"references/60c3f2337723bebd8666461a","_rev":"_cfFlPuW---","tei":"\n\t\n\t\tOpenMM 7: Rapid development of high performance algorithms for molecular dynamics\n\t\t\n\t\t\tPeterEastman\n\t\t\t0000-0002-9566-9684\n\t\t\n\t\t\n\t\t\tJasonSwails\n\t\t\n\t\t\n\t\t\tJohnDChodera\n\t\t\t0000-0003-0542-119X\n\t\t\n\t\t\n\t\t\tRobertTMcgibbon\n\t\t\t0000-0003-3337-954X\n\t\t\n\t\t\n\t\t\tYutongZhao\n\t\t\n\t\t\n\t\t\tKyleABeauchamp\n\t\t\n\t\t\n\t\t\tLee-PingWang\n\t\t\n\t\t\n\t\t\tAndrewCSimmonett\n\t\t\t0000-0002-5921-9272\n\t\t\n\t\t\n\t\t\tMatthewPHarrigan\n\t\t\t0000-0001-9412-0553\n\t\t\n\t\t\n\t\t\tChayaDStern\n\t\t\n\t\t\n\t\t\tRafalPWiewiora\n\t\t\t0000-0002-8961-7183\n\t\t\n\t\t\n\t\t\tBernardRBrooks\n\t\t\n\t\t\n\t\t\tVijaySPande\n\t\t\n\t\t10.1371/journal.pcbi.1005659\n\t\t28746339\n\t\tPMC5549999\n\t\t\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t13\n\t\t\t7\n\t\t\te1005659\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c3f2337723bebd86664619"},"refKey":15},
{"_key":"60c3f2567723bebd86664624","_id":"references/60c3f2567723bebd86664624","_rev":"_cfFlPue---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3f2567723bebd86664623"},"refKey":28},
{"_key":"60c3f2567723bebd86664625","_id":"references/60c3f2567723bebd86664625","_rev":"_cfFlPuq---","tei":"\n\t\n\t\tTreeTime: Maximum-likelihood phylodynamic analysis\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tVadimPuller\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\t0000-0003-2525-1407\n\t\t\n\t\t10.1093/ve/vex042\n\t\t29340210\n\t\tPMC5758920\n\t\t\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t42\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3f2567723bebd86664623"},"refKey":31},
{"_key":"60c3f26a7723bebd8666463c","_id":"references/60c3f26a7723bebd8666463c","_rev":"_cfFlPu2---","tei":"\n\t\n\t\tclusterProfiler: an R package for comparing biological themes among gene clusters\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tL.-GWang\n\t\t\n\t\t\n\t\t\tYHan\n\t\t\n\t\t\n\t\t\tQ.-YHe\n\t\t\n\t\n\t\n\t\tOMICS\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f26a7723bebd8666463b"},"refKey":58},
{"_key":"60c3f27e7723bebd86664653","_id":"references/60c3f27e7723bebd86664653","_rev":"_cfFlPvC---","tei":"\n\t\n\t\tA representation of a compressed de Bruijn graph for pan-genome analysis that enables search\n\t\t\n\t\t\tTimoBeller\n\t\t\n\t\t\n\t\t\tEnnoOhlebusch\n\t\t\n\t\t10.1186/s13015-016-0083-7\n\t\t27437028\n\t\tPMC4950428\n\t\t\n\t\n\t\n\t\tAlgorithms for Molecular Biology\n\t\tAlgorithms Mol Biol\n\t\t1748-7188\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t20\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3f27e7723bebd86664652"},"refKey":1},
{"_key":"60c3f28c7723bebd86664661","_id":"references/60c3f28c7723bebd86664661","_rev":"_cfFlPvO---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallogr. Sect. D, Biol. Crystallogr. [Internet]\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f28c7723bebd86664660"},"refKey":54},
{"_key":"60c3f2f57723bebd866646a8","_id":"references/60c3f2f57723bebd866646a8","_rev":"_cfFlPvW---","tei":"\n\t\n\t\tRDP3: a flexible and fast computer program for analyzing recombination\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tMLott\n\t\t\n\t\t\n\t\t\tVMoulton\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tPLefeuvre\n\t\t\n\t\t10.1093/bioinformatics/btq467\n\t\t20798170\n\t\tPMC2944210\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3f2f57723bebd866646a7"},"refKey":32},
{"_key":"60c3f2fd7723bebd866646ac","_id":"references/60c3f2fd7723bebd866646ac","_rev":"_cfFlPvi---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f2fd7723bebd866646ab"},"refKey":32},
{"_key":"60c3f2fd7723bebd866646ad","_id":"references/60c3f2fd7723bebd866646ad","_rev":"_cfFlPvu---","tei":"\n\t\n\t\tAssessment of methods of amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified\n\t\t\n\t\t\tTMKeane\n\t\t\n\t\t\n\t\t\tCJCreevey\n\t\t\n\t\t\n\t\t\tMMPentony\n\t\t\n\t\t\n\t\t\tTJNaughton\n\t\t\n\t\t\n\t\t\tJOMclnerney\n\t\t\n\t\n\t\n\t\tBMC Evol Biol\n\t\t\n\t\t\t6\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f2fd7723bebd866646ab"},"refKey":15},
{"_key":"60c3f3497723bebd86664704","_id":"references/60c3f3497723bebd86664704","_rev":"_cfFlPv6---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3497723bebd86664703"},"refKey":28},
{"_key":"60c3f3497723bebd86664705","_id":"references/60c3f3497723bebd86664705","_rev":"_cfFlPwG---","tei":"\n\t\n\t\tSignalP 5.0 improves signal peptide predictions using deep neural networks\n\t\t\n\t\t\tAlmagroArmenteros\n\t\t\n\t\t\n\t\t\tJJTsirigos\n\t\t\n\t\t\n\t\t\tKDSonderby\n\t\t\n\t\t\n\t\t\tCK\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3497723bebd86664703"},"refKey":29},
{"_key":"60c3f3497723bebd86664706","_id":"references/60c3f3497723bebd86664706","_rev":"_cfFlPwO---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3497723bebd86664703"},"refKey":24},
{"_key":"60c3f3527723bebd86664741","_id":"references/60c3f3527723bebd86664741","_rev":"_cfFlPwa---","tei":"\n\t\n\t\tIntroduction to propensity scores: A case study on the comparative effectiveness of laparoscopic vs open appendectomy\n\t\t\n\t\t\tHemmilaMark\n\t\t\n\t\t\n\t\t\tR1\n\t\t\n\t\t\n\t\t\tBirkmeyerNancy\n\t\t\n\t\t\n\t\t\tJ\n\t\t\n\t\t\n\t\t\tArbabiSaman\n\t\t\n\t\t\n\t\t\tOsborneNicholas\n\t\t\n\t\t\n\t\t\tH\n\t\t\n\t\t\n\t\t\tWahlWendy\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\t\n\t\t\tDimickJustin\n\t\t\n\t\t\n\t\t\tB\n\t\t\n\t\t10.1001/archsurg.2010.193\n\t\t20956761\n\t\t\n\t\n\t\n\t\tArch Surg\n\t\t\n\t\t\t145\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3527723bebd86664740"},"refKey":9},
{"_key":"60c3f3747723bebd86664756","_id":"references/60c3f3747723bebd86664756","_rev":"_cfFlPwm---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t28\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3747723bebd86664755"},"refKey":48},
{"_key":"60c3f39f7723bebd86664775","_id":"references/60c3f39f7723bebd86664775","_rev":"_cfFlPwy---","tei":"\n\t\n\t\tCHOPCHOPv2: a web tool for the next generation of CRISPR genome engineering\n\t\t\n\t\t\tKLabun\n\t\t\n\t\t\n\t\t\tTGMontague\n\t\t\n\t\t\n\t\t\tJAGagnon\n\t\t\n\t\t\n\t\t\tSBThyme\n\t\t\n\t\t\n\t\t\tEValen\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f39f7723bebd86664774"},"refKey":51},
{"_key":"60c3f3a67723bebd86664780","_id":"references/60c3f3a67723bebd86664780","_rev":"_cfFlPx----","tei":"\n\t\n\t\tIdentifying significance of discrepancies in radiology reports\n\t\t\n\t\t\tACohan\n\t\t\n\t\t\n\t\t\tLSoldaini\n\t\t\n\t\t\n\t\t\tNGoharian\n\t\t\n\t\t\n\t\t\tAFong\n\t\t\n\t\t\n\t\t\tFRoss\n\t\t\n\t\t\n\t\t\tRRaj\n\t\t\n\t\n\t\n\t\tSIAM International Conference on Data Mining (SDM) -Workshop on Data Mining for Medicine and Healthcare (DMMH)\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3a67723bebd8666477f"},"refKey":1},
{"_key":"60c3f3aa7723bebd86664789","_id":"references/60c3f3aa7723bebd86664789","_rev":"_cfFlPxG---","tei":"\n\t\n\t\tClassification and regression trees\n\t\t\n\t\t\tLBreiman\n\t\t\n\t\t\n\t\t\tJFriedman\n\t\t\n\t\t\n\t\t\tCJStone\n\t\t\n\t\t\n\t\t\tRAOlshen\n\t\t\n\t\t\n\t\t\t\n\t\t\tCRC press\n\t\t\n\t\n\n","document":{"$oid":"60c3f3aa7723bebd86664788"},"refKey":43},
{"_key":"60c3f3aa7723bebd8666478a","_id":"references/60c3f3aa7723bebd8666478a","_rev":"_cfFlPxS---","tei":"\n\t\n\t\tAn introduction to recursive partitioning using the RPART routines\n\t\t\n\t\t\tTMTherneau\n\t\t\n\t\t\n\t\t\tEJAtkinson\n\t\t\n\t\n\t\n\t\tTechnical report Mayo Foundation\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3aa7723bebd86664788"},"refKey":44},
{"_key":"60c3f3aa7723bebd8666478b","_id":"references/60c3f3aa7723bebd8666478b","_rev":"_cfFlPxe---","tei":"\n\t\n\t\tRandom forests\n\t\t\n\t\t\tLBreiman\n\t\t\n\t\n\t\n\t\tMach Learn\n\t\t\n\t\t\t45\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3aa7723bebd86664788"},"refKey":45},
{"_key":"60c3f3aa7723bebd8666478c","_id":"references/60c3f3aa7723bebd8666478c","_rev":"_cfFlPxq---","tei":"\n\t\n\t\tClassification and regression by randomForest. R news\n\t\t\n\t\t\tALiaw\n\t\t\n\t\t\n\t\t\tMWiener\n\t\t\n\t\t\n\t\t\t\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3aa7723bebd86664788"},"refKey":46},
{"_key":"60c3f3aa7723bebd8666478d","_id":"references/60c3f3aa7723bebd8666478d","_rev":"_cfFlPx2---","tei":"\n\t\n\t\tThe cutpointr package: Improved and tidy estimation of optimal cutpoints\n\t\t\n\t\t\tCThiele\n\t\t\n\t\t\n\t\t\tGHirschfeld\n\t\t\n\t\t\n\t\t\t\n\t\t\t14\n\t\t\n\t\n\n","document":{"$oid":"60c3f3aa7723bebd86664788"},"refKey":57},
{"_key":"60c3f3c67723bebd866647a0","_id":"references/60c3f3c67723bebd866647a0","_rev":"_cfFlPyC---","tei":"\n\t\n\t\t\n\t\t\tMClarke\n\t\t\n\t\t\n\t\t\tWDVacca\n\t\t\n\t\t\n\t\t\tRYShuping\n\t\t\n\t\tAstronomical Data Analysis Software an Systems XXIV (ADASS XXIV)\n\t\t\t\t\n\t\t\tARTaylor\n\t\t\t&ERosolowsky\n\t\t\n\t\t\n\t\t\t\n\t\t\t495\n\t\t\t5\n\t\t\n\t\n\tAstronomical Society of the Pacific Conference Series\n\n","document":{"$oid":"60c3f3c67723bebd8666479f"},"refKey":10},
{"_key":"60c3f3c67723bebd866647a1","_id":"references/60c3f3c67723bebd866647a1","_rev":"_cfFlPyK---","tei":"\n\t\n\t\t\n\t\t\tEDiolaiti\n\t\t\n\t\t\n\t\t\tOBendinelli\n\t\t\n\t\t\n\t\t\tDBonaccini\n\t\t\n\t\tSociety of Photo-Optical Instrumentation Engineers (SPIE) Conference Series\n\t\t\t\t\n\t\t\tPLWizinowich\n\t\t\n\t\t\n\t\t\t\n\t\t\t4007\n\t\t\t\n\t\t\n\t\n\tAdaptive Optical Systems Technology\n\n","document":{"$oid":"60c3f3c67723bebd8666479f"},"refKey":21},
{"_key":"60c3f3eb7723bebd866647b8","_id":"references/60c3f3eb7723bebd866647b8","_rev":"_cfFlPyW---","tei":"\n\t\n\t\tNormalization of Real-Time Quantitative Reverse Transcription-PCR Data: A Model-Based Variance Estimation Approach to Identify Genes Suited for Normalization, Applied to Bladder and Colon Cancer Data Sets\n\t\t\n\t\t\tClausLindbjergAndersen\n\t\t\n\t\t\n\t\t\tJensLedetJensen\n\t\t\n\t\t\n\t\t\tTorbenFalckØrntoft\n\t\t\n\t\t10.1158/0008-5472.can-04-0496\n\t\t15289330\n\t\t\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t64\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c3f3eb7723bebd866647b7"},"refKey":21},
{"_key":"60c3f3eb7723bebd866647b9","_id":"references/60c3f3eb7723bebd866647b9","_rev":"_cfFlPyi---","tei":"\n\t\n\t\tAnalysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2−ΔΔCT Method\n\t\t\n\t\t\tKennethJLivak\n\t\t\n\t\t\n\t\t\tThomasDSchmittgen\n\t\t\n\t\t10.1006/meth.2001.1262\n\t\t11846609\n\t\tS1046-2023(01)91262-9\n\t\tark:/67375/6H6-6G5V63DV-L\n\t\tD8FB2212DA32A37C6753CD23E9FA3FC725023F31\n\t\t\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t25\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3f3eb7723bebd866647b7"},"refKey":1},
{"_key":"60c3f3eb7723bebd866647ba","_id":"references/60c3f3eb7723bebd866647ba","_rev":"_cfFlPyu---","tei":"\n\t\n\t\tAccurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tKPreter\n\t\t\n\t\t\n\t\t\tDe\n\t\t\n\t\t\n\t\t\tFPattyn\n\t\t\n\t\t\n\t\t\tBPoppe\n\t\t\n\t\t\n\t\t\tNVan Roy\n\t\t\n\t\t\n\t\t\tAPaepe\n\t\t\n\t\t\n\t\t\tDe\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t3\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3eb7723bebd866647b7"},"refKey":23},
{"_key":"60c3f3eb7723bebd866647bb","_id":"references/60c3f3eb7723bebd866647bb","_rev":"_cfFlPy6---","tei":"\n\t\n\t\tDetermination of stable housekeeping genes, differentially regulated target genes and sample integrity: BestKeeper-Excel-based tool using pair-wise correlations\n\t\t\n\t\t\tMWPfaffl\n\t\t\n\t\t\n\t\t\tATichopad\n\t\t\n\t\t\n\t\t\tCPrgomet\n\t\t\n\t\t\n\t\t\tTPNeuvians\n\t\t\n\t\t15127793\n\t\n\t\n\t\tBiotechnology letters\n\t\t\n\t\t\t26\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f3eb7723bebd866647b7"},"refKey":22},
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{"_key":"60c3f43e7723bebd86664812","_id":"references/60c3f43e7723bebd86664812","_rev":"_cfFlPzu---","tei":"\n\t\n\t\tProvean web server: a tool to predict the functional effect of amino acid substitutions and indels\n\t\t\n\t\t\tYChoi\n\t\t\n\t\t\n\t\t\tAPChan\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f43e7723bebd86664811"},"refKey":37},
{"_key":"60c3f43e7723bebd86664813","_id":"references/60c3f43e7723bebd86664813","_rev":"_cfFlPz6---","tei":"\n\t\n\t\tCasadio, I-mutant2. 0: predicting stability changes upon mutation from the protein sequence or structure\n\t\t\n\t\t\tECapriotti\n\t\t\n\t\t\n\t\t\tPFariselli\n\t\t\n\t\t\n\t\t\tR\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f43e7723bebd86664811"},"refKey":38},
{"_key":"60c3f45d7723bebd86664818","_id":"references/60c3f45d7723bebd86664818","_rev":"_cfFlP0G---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis across computing platforms\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tCKnyaz\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMega X\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f45d7723bebd86664817"},"refKey":11},
{"_key":"60c3f45d7723bebd86664819","_id":"references/60c3f45d7723bebd86664819","_rev":"_cfFlP0S---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f45d7723bebd86664817"},"refKey":13},
{"_key":"60c3f4717723bebd86664823","_id":"references/60c3f4717723bebd86664823","_rev":"_cfFlP0e---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t5\n\t\t\t113\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":89},
{"_key":"60c3f4717723bebd86664824","_id":"references/60c3f4717723bebd86664824","_rev":"_cfFlP0m---","tei":"\n\t\n\t\tJalview Version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDmaMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":92},
{"_key":"60c3f4717723bebd86664825","_id":"references/60c3f4717723bebd86664825","_rev":"_cfFlP0y---","tei":"\n\t\n\t\tTMbase -A database of membrane spanning proteins segments\n\t\t\n\t\t\tKHofmann\n\t\t\n\t\t\n\t\t\tWStoffel\n\t\t\n\t\n\t\n\t\tBiol Chem Hoppe-Seyler\n\t\t\n\t\t\t373\n\t\t\t166\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":86},
{"_key":"60c3f4717723bebd86664826","_id":"references/60c3f4717723bebd86664826","_rev":"_cfFlP1----","tei":"\n\t\n\t\tProtein secondary structure prediction based on positionspecific scoring matrices\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t292\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":88},
{"_key":"60c3f4717723bebd86664827","_id":"references/60c3f4717723bebd86664827","_rev":"_cfFlP1K---","tei":"\n\t\n\t\tDe novo identification of repeat families in large genomes\n\t\t\n\t\t\tALPrice\n\t\t\n\t\t\n\t\t\tNCJones\n\t\t\n\t\t\n\t\t\tPAPevzner\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":94},
{"_key":"60c3f4717723bebd86664828","_id":"references/60c3f4717723bebd86664828","_rev":"_cfFlP1W---","tei":"\n\t\n\t\tProfile hidden Markov models\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":85},
{"_key":"60c3f4717723bebd86664829","_id":"references/60c3f4717723bebd86664829","_rev":"_cfFlP1i---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":29},
{"_key":"60c3f4717723bebd8666482a","_id":"references/60c3f4717723bebd8666482a","_rev":"_cfFlP1u---","tei":"\n\t\n\t\tProtein homology detection by HMM-HMM comparison\n\t\t\n\t\t\tJSoding\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":87},
{"_key":"60c3f4717723bebd8666482b","_id":"references/60c3f4717723bebd8666482b","_rev":"_cfFlP12---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":27},
{"_key":"60c3f4717723bebd8666482c","_id":"references/60c3f4717723bebd8666482c","_rev":"_cfFlP2C---","tei":"\n\t\n\t\tSCOP: a structural classification of proteins database for the investigation of sequences and structures\n\t\t\n\t\t\tAGMurzin\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\t\n\t\t\tTHubbard\n\t\t\n\t\t\n\t\t\tCChothia\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t247\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":84},
{"_key":"60c3f4717723bebd8666482d","_id":"references/60c3f4717723bebd8666482d","_rev":"_cfFlP2O---","tei":"\n\t\n\t\tpknotsRG: RNA pseudoknot folding including near-optimal structures and sliding windows\n\t\t\n\t\t\tJReeder\n\t\t\n\t\t\n\t\t\tPSteffen\n\t\t\n\t\t\n\t\t\tRGiegerich\n\t\t\n\t\t10.1093/nar/gkm258\n\t\t17478505\n\t\tPMC1933184\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":30},
{"_key":"60c3f4717723bebd8666482e","_id":"references/60c3f4717723bebd8666482e","_rev":"_cfFlP2a---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":93},
{"_key":"60c3f4717723bebd8666482f","_id":"references/60c3f4717723bebd8666482f","_rev":"_cfFlP2m---","tei":"\n\t\n\t\tBAGG -Blocks Accepting Gaps Generator, version\n\t\t\n\t\t\tIVAntonov\n\t\t\n\t\t\n\t\t\tAMLeontovich\n\t\t\n\t\t\n\t\t\tAEGorbalenya\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4717723bebd86664822"},"refKey":91},
{"_key":"60c3f49d7723bebd86664863","_id":"references/60c3f49d7723bebd86664863","_rev":"_cfFlP2u---","tei":"\n\t\n\t\tAlgorithms for de novo short read assembly using de Bruijn graphs\n\t\t\n\t\t\tDRZerbino\n\t\t\n\t\t\n\t\t\tBirneyEVelvet\n\t\t\n\t\n\t\n\t\tGenome research\n\t\t\n\t\t\t18\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f49d7723bebd86664862"},"refKey":23},
{"_key":"60c3f4af7723bebd86664870","_id":"references/60c3f4af7723bebd86664870","_rev":"_cfFlP26---","tei":"\n\t\n\t\tSDM-NET: Deep generative network for structured deformable mesh\n\t\t\n\t\t\tLinGao\n\t\t\n\t\t\n\t\t\tJieYang\n\t\t\n\t\t\n\t\t\tTongWu\n\t\t\n\t\t\n\t\t\tYu-JieYuan\n\t\t\n\t\t\n\t\t\tHongboFu\n\t\t\n\t\t\n\t\t\tYu-KunLai\n\t\t\n\t\t\n\t\t\tHaoZhang\n\t\t\n\t\n\t\n\t\tACM Transactions on Graphics (TOG)\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4af7723bebd8666486f"},"refKey":11},
{"_key":"60c3f4af7723bebd86664871","_id":"references/60c3f4af7723bebd86664871","_rev":"_cfFlP3G---","tei":"\n\t\n\t\tAutomatic differentiation in PyTorch\n\t\t\n\t\t\tAdamPaszke\n\t\t\n\t\t\n\t\t\tSamGross\n\t\t\n\t\t\n\t\t\tSoumithChintala\n\t\t\n\t\t\n\t\t\tGregoryChanan\n\t\t\n\t\t\n\t\t\tEdwardYang\n\t\t\n\t\t\n\t\t\tZacharyDevito\n\t\t\n\t\t\n\t\t\tZemingLin\n\t\t\n\t\t\n\t\t\tAlbanDesmaison\n\t\t\n\t\t\n\t\t\tLucaAntiga\n\t\t\n\t\t\n\t\t\tAdamLerer\n\t\t\n\t\n\t\n\t\tNIPS-W\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4af7723bebd8666486f"},"refKey":27},
{"_key":"60c3f4af7723bebd86664872","_id":"references/60c3f4af7723bebd86664872","_rev":"_cfFlP3S---","tei":"\n\t\n\t\tMeshCNN: A Network with an Edge\n\t\t\n\t\t\tRanaHanocka\n\t\t\n\t\t\n\t\t\tAmirHertz\n\t\t\n\t\t\n\t\t\tNoaFish\n\t\t\n\t\t\n\t\t\tRajaGiryes\n\t\t\n\t\t\n\t\t\tShacharFleishman\n\t\t\n\t\t\n\t\t\tDanielCohen-Or\n\t\t\n\t\t10.1145/3306346.3322959\n\t\t\n\t\n\t\n\t\tACM Trans. Graph\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\t38, 4, Article 90\n\n","document":{"$oid":"60c3f4af7723bebd8666486f"},"refKey":15},
{"_key":"60c3f4f67723bebd86664893","_id":"references/60c3f4f67723bebd86664893","_rev":"_cfFlP3e---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4f67723bebd86664892"},"refKey":25},
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{"_key":"60c3f4f67723bebd86664895","_id":"references/60c3f4f67723bebd86664895","_rev":"_cfFlP32---","tei":"\n\t\n\t\tA penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis\n\t\t\n\t\t\tDMWitten\n\t\t\n\t\t\n\t\t\tRTibshirani\n\t\t\n\t\t\n\t\t\tTHastie\n\t\t\n\t\t10.1093/biostatistics/kxp008\n\t\t19377034\n\t\tPMC2697346\n\t\t\n\t\n\t\n\t\tBiostatistics\n\t\tBiostatistics\n\t\t1465-4644\n\t\t1468-4357\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3f4f67723bebd86664892"},"refKey":50},
{"_key":"60c3f4f67723bebd86664896","_id":"references/60c3f4f67723bebd86664896","_rev":"_cfFlP4C---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f4f67723bebd86664892"},"refKey":33},
{"_key":"60c3f5077723bebd866648c4","_id":"references/60c3f5077723bebd866648c4","_rev":"_cfFlP4O---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f5077723bebd866648c3"},"refKey":37},
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{"_key":"60c3f94c7723bebd86664bd1","_id":"references/60c3f94c7723bebd86664bd1","_rev":"_cfFlQAu---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f94c7723bebd86664bcf"},"refKey":8},
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{"_key":"60c3f9507723bebd86664bd6","_id":"references/60c3f9507723bebd86664bd6","_rev":"_cfFlQBG---","tei":"\n\t\n\t\tDetecting influenza epidemics using search engine query data\n\t\t\n\t\t\tJGinsberg\n\t\t\n\t\t\n\t\t\tMHMohebbi\n\t\t\n\t\t\n\t\t\tRSPatel\n\t\t\n\t\t\n\t\t\tLBrammer\n\t\t\n\t\t\n\t\t\tMSSmolinski\n\t\t\n\t\t\n\t\t\tLBrilliant\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t457\n\t\t\t7232\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3f9507723bebd86664bd4"},"refKey":14},
{"_key":"60c3f9507723bebd86664bd7","_id":"references/60c3f9507723bebd86664bd7","_rev":"_cfFlQBO---","tei":"\n\t\n\t\tUsing Internet Searches for Influenza Surveillance\n\t\t\n\t\t\tPhilipMPolgreen\n\t\t\n\t\t\n\t\t\tYilingChen\n\t\t\n\t\t\n\t\t\tDavidMPennock\n\t\t\n\t\t\n\t\t\tForrestDNelson\n\t\t\n\t\t10.1086/593098\n\t\t18954267\n\t\tark:/67375/HXZ-R3NLCV3F-R\n\t\t04AFAD13D635AC62DF1A977C2273D83330267FAF\n\t\t\n\t\n\t\n\t\tClinical Infectious Diseases\n\t\tCLIN INFECT DIS\n\t\t1058-4838\n\t\t1537-6591\n\t\t\n\t\t\t47\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3f9507723bebd86664bd4"},"refKey":25},
{"_key":"60c3f9507723bebd86664bd8","_id":"references/60c3f9507723bebd86664bd8","_rev":"_cfFlQBa---","tei":"\n\t\n\t\tUse of Unstructured Event-Based Reports for Global Infectious Disease Surveillance\n\t\t\n\t\t\tMikaelaKeller\n\t\t\n\t\t\n\t\t\tMichaelBlench\n\t\t\n\t\t\n\t\t\tHermanTolentino\n\t\t\n\t\t\n\t\t\tClarkCFreifeld\n\t\t\n\t\t\n\t\t\tKennethDMandl\n\t\t\n\t\t\n\t\t\tAblaMawudeku\n\t\t\n\t\t\n\t\t\tGuntherEysenbach\n\t\t\n\t\t\n\t\t\tJohnSBrownstein\n\t\t\n\t\t10.3201/eid1505.081114\n\t\t19402953\n\t\tPMC2687026\n\t\t\n\t\n\t\n\t\tEmerging Infectious Diseases\n\t\tEmerg. Infect. Dis.\n\t\t1080-6040\n\t\t1080-6059\n\t\t\n\t\t\t15\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCenters for Disease Control and Prevention (CDC)\n\t\t\n\t\n\n","document":{"$oid":"60c3f9507723bebd86664bd4"},"refKey":17},
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{"_key":"60c3f95c7723bebd86664be5","_id":"references/60c3f95c7723bebd86664be5","_rev":"_cfFlQBy---","tei":"\n\t\n\t\tComputational prediction of associations between long non-coding RNAs and proteins\n\t\t\n\t\t\tQiongshiLu\n\t\t\n\t\t\n\t\t\tSijinRen\n\t\t\n\t\t\n\t\t\tMingLu\n\t\t\n\t\t\n\t\t\tYongZhang\n\t\t\n\t\t\n\t\t\tDahaiZhu\n\t\t\n\t\t\n\t\t\tXuegongZhang\n\t\t\n\t\t\n\t\t\tTingtingLi\n\t\t\n\t\t10.1186/1471-2164-14-651\n\t\t24063787\n\t\tPMC3827931\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t651\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3f95c7723bebd86664be3"},"refKey":70},
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{"_key":"60c3fa137723bebd86664c89","_id":"references/60c3fa137723bebd86664c89","_rev":"_cfFlQFy---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2009-10-3-r25\n\t\t19261174\n\t\tPMC2690996\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\tR25\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3fa137723bebd86664c87"},"refKey":76},
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{"_key":"60c3fd4f7723bebd86664fca","_id":"references/60c3fd4f7723bebd86664fca","_rev":"_cfFlQRe---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tWDelano\n\t\t\n\t\n\t\n\t\tPyMOL, Molecular Graphics System\n\t\t\n\t\t\t\n\t\t\tSchroedinger, Inc\n\t\t\n\t\n\n","document":{"$oid":"60c3fd4f7723bebd86664fc5"},"refKey":3},
{"_key":"60c3fd4f7723bebd86664fcb","_id":"references/60c3fd4f7723bebd86664fcb","_rev":"_cfFlQRq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tPSkubák\n\t\t\n\t\t\n\t\t\tAALebedev\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tRASteiner\n\t\t\n\t\t\n\t\t\tRANicholls\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tFLong\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D. Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3fd4f7723bebd86664fc5"},"refKey":11},
{"_key":"60c3fd4f7723bebd86664fcc","_id":"references/60c3fd4f7723bebd86664fcc","_rev":"_cfFlQR2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tCCBallard\n\t\t\n\t\t\n\t\t\tKDCowtan\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tRMKeegan\n\t\t\n\t\t\n\t\t\tEBKrissinel\n\t\t\n\t\t\n\t\t\tAG WLeslie\n\t\t\n\t\t\n\t\t\tAMccoy\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D. Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3fd4f7723bebd86664fc5"},"refKey":9},
{"_key":"60c3fe197723bebd86664fed","_id":"references/60c3fe197723bebd86664fed","_rev":"_cfFlQSC---","tei":"\n\t\n\t\tRELION: Implementation of a Bayesian approach to cryo-EM structure determination\n\t\t\n\t\t\tShwScheres\n\t\t\n\t\t10.1016/j.jsb.2012.09.006\n\t\t23000701\n\t\tPMC3690530\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t180\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3fe197723bebd86664fec"},"refKey":70},
{"_key":"60c3fe197723bebd86664fee","_id":"references/60c3fe197723bebd86664fee","_rev":"_cfFlQSK---","tei":"\n\t\n\t\tGeneSilico protein structure prediction meta-server\n\t\t\n\t\t\tMAKurowski\n\t\t\n\t\t\n\t\t\tJMBujnicki\n\t\t\n\t\t10.1093/nar/gkg557\n\t\t12824313\n\t\tPMC168964\n\t\tark:/67375/HXZ-91VKRG8L-G\n\t\t218B658EBC71323802CFA5B4E534690C5E599310\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3fe197723bebd86664fec"},"refKey":73},
{"_key":"60c3fe197723bebd86664fef","_id":"references/60c3fe197723bebd86664fef","_rev":"_cfFlQSW---","tei":"\n\t\n\t\tThe molecular architecture of axonemes revealed by cryoelectron tomography\n\t\t\n\t\t\tDNicastro\n\t\t\n\t\t\n\t\t\tCSchwartz\n\t\t\n\t\t\n\t\t\tJPierson\n\t\t\n\t\t\n\t\t\tRGaudette\n\t\t\n\t\t\n\t\t\tMEPorter\n\t\t\n\t\t\n\t\t\tJRMcintosh\n\t\t\n\t\t16917055\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t313\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3fe197723bebd86664fec"},"refKey":65},
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{"_key":"60c3fe197723bebd86664ff1","_id":"references/60c3fe197723bebd86664ff1","_rev":"_cfFlQSu---","tei":"\n\t\n\t\tMultiCoil: A program for predicting two-and three-stranded coiled coils\n\t\t\n\t\t\tEthanWolf\n\t\t\n\t\t\n\t\t\tPeterSKim\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t10.1002/pro.5560060606\n\t\t9194178\n\t\tPMC2143730\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t6\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c3fe197723bebd86664fec"},"refKey":24},
{"_key":"60c3fe197723bebd86664ff2","_id":"references/60c3fe197723bebd86664ff2","_rev":"_cfFlQS6---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t15264254\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3fe197723bebd86664fec"},"refKey":72},
{"_key":"60c3fe857723bebd8666502d","_id":"references/60c3fe857723bebd8666502d","_rev":"_cfFlQTC---","tei":"\n\t\n\t\tRefinement of Macromolecular Structures by the Maximum-Likelihood Method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\t10.1107/s0907444996012255\n\t\t15299926\n\t\tark:/67375/WNG-SC19VWN7-Z\n\t\t20772399813DCC1B6E0C34477BD31DA08119EDED\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Cryst D\n\t\t0907-4449\n\t\t\n\t\t\t53\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c3fe857723bebd8666502c"},"refKey":119},
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{"_key":"60c3fe857723bebd86665030","_id":"references/60c3fe857723bebd86665030","_rev":"_cfFlQTm---","tei":"\n\t\n\t\tChange-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data: Table 1.\n\t\t\n\t\t\tNamitaTGupta\n\t\t\n\t\t\n\t\t\tJasonAVander Heiden\n\t\t\n\t\t\n\t\t\tMohamedUduman\n\t\t\n\t\t\n\t\t\tDanielGadala-Maria\n\t\t\n\t\t\n\t\t\tGurYaari\n\t\t\n\t\t\n\t\t\tStevenHKleinstein\n\t\t\n\t\t10.1093/bioinformatics/btv359\n\t\t26069265\n\t\tPMC4793929\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c3fe857723bebd8666502c"},"refKey":110},
{"_key":"60c3fe857723bebd86665031","_id":"references/60c3fe857723bebd86665031","_rev":"_cfFlQTy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\t\n\t\t\tFTHeer\n\t\t\n\t\t\n\t\t\tT\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c3fe857723bebd8666502c"},"refKey":116},
{"_key":"60c3feba7723bebd86665062","_id":"references/60c3feba7723bebd86665062","_rev":"_cfFlQT6---","tei":"\n\t\n\t\tVisually specifying compliance rules and explaining their violations for business processes\n\t\t\n\t\t\tAhmedAwad\n\t\t\n\t\t\n\t\t\tMatthiasWeidlich\n\t\t\n\t\t\n\t\t\tMathiasWeske\n\t\t\n\t\t10.1016/j.jvlc.2010.11.002\n\t\n\t\n\t\tJournal of Visual Languages & Computing\n\t\tJournal of Visual Languages & Computing\n\t\t1045-926X\n\t\t\n\t\t\t22\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c3feba7723bebd86665061"},"refKey":3},
{"_key":"60c3fee17723bebd86665072","_id":"references/60c3fee17723bebd86665072","_rev":"_cfFlQUG---","tei":"\n\t\n\t\tInterpretable dimensionality reduction of single cell transcriptome data with deep generative models\n\t\t\n\t\t\tJiaruiDing\n\t\t\t0000-0003-3670-7764\n\t\t\n\t\t\n\t\t\tAnneCondon\n\t\t\t0000-0003-1458-1259\n\t\t\n\t\t\n\t\t\tSohrabPShah\n\t\t\t0000-0001-6402-523X\n\t\t\n\t\t10.1038/s41467-018-04368-5\n\t\t29784946\n\t\tPMC5962608\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c3fee17723bebd86665071"},"refKey":29},
{"_key":"60c3fee17723bebd86665073","_id":"references/60c3fee17723bebd86665073","_rev":"_cfFlQUS---","tei":"\n\t\n\t\tMRCNN: a deep learning model for regression of genome-wide DNA methylation\n\t\t\n\t\t\tQiTian\n\t\t\n\t\t\n\t\t\tJianxiaoZou\n\t\t\n\t\t\n\t\t\tJianxiongTang\n\t\t\n\t\t\n\t\t\tYuanFang\n\t\t\n\t\t\n\t\t\tZhongliYu\n\t\t\n\t\t\n\t\t\tShicaiFan\n\t\t\n\t\t10.1186/s12864-019-5488-5\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t20\n\t\t\tS2\n\t\t\t192\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3fee17723bebd86665071"},"refKey":34},
{"_key":"60c3fee17723bebd86665074","_id":"references/60c3fee17723bebd86665074","_rev":"_cfFlQUe---","tei":"\n\t\n\t\tDeepCpG: accurate prediction of single-cell DNA methylation states using deep learning\n\t\t\n\t\t\tChristofAngermueller\n\t\t\n\t\t\n\t\t\tHeatherJLee\n\t\t\n\t\t\n\t\t\tWolfReik\n\t\t\n\t\t\n\t\t\tOliverStegle\n\t\t\t0000-0003-0507-1839\n\t\t\n\t\t10.1186/s13059-017-1189-z\n\t\t28395661\n\t\tPMC5387360\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t18\n\t\t\t1\n\t\t\t67\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c3fee17723bebd86665071"},"refKey":33},
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{"_key":"60c3fee17723bebd86665076","_id":"references/60c3fee17723bebd86665076","_rev":"_cfFlQUy---","tei":"\n\t\n\t\tDeepImpute: an accurate, fast and scalable deep neural network method to impute single-cell RNA-Seq data\n\t\t\n\t\t\tCedricArisdakessian\n\t\t\n\t\t\n\t\t\tOlivierPoirion\n\t\t\n\t\t\n\t\t\tBreckYunits\n\t\t\n\t\t\n\t\t\tXunZhu\n\t\t\n\t\t\n\t\t\tLanaXGarmire\n\t\t\n\t\t10.1101/353607\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t211\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c3fee17723bebd86665071"},"refKey":31},
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{"_key":"60c3fee17723bebd86665078","_id":"references/60c3fee17723bebd86665078","_rev":"_cfFlQVK---","tei":"\n\t\n\t\tClustering single-cell RNA-seq data with a model-based deep learning approach\n\t\t\n\t\t\tTianTian\n\t\t\t0000-0001-6147-1082\n\t\t\n\t\t\n\t\t\tJiWan\n\t\t\n\t\t\n\t\t\tQiSong\n\t\t\n\t\t\n\t\t\tZhiWei\n\t\t\t0000-0001-6059-4267\n\t\t\n\t\t10.1038/s42256-019-0037-0\n\t\n\t\n\t\tNature Machine Intelligence\n\t\tNat Mach Intell\n\t\t2522-5839\n\t\t\n\t\t\t1\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c3fee17723bebd86665071"},"refKey":30},
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{"_key":"60c400117723bebd866651c5","_id":"references/60c400117723bebd866651c5","_rev":"_cfFlQa6---","tei":"\n\t\n\t\tBibliometrix: An R-tool for comprehensive science mapping analysis\n\t\t\n\t\t\tMAria\n\t\t\n\t\t\n\t\t\tCCuccurullo\n\t\t\n\t\n\t\n\t\tJournal of Informetrics\n\t\t\n\t\t\t11\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400117723bebd866651c4"},"refKey":1},
{"_key":"60c400217723bebd866651d7","_id":"references/60c400217723bebd866651d7","_rev":"_cfFlQbG---","tei":"\n\t\n\t\tImproved methods for predicting peptide binding affinity to MHC class II molecules\n\t\t\n\t\t\tKamillaKjaergaardJensen\n\t\t\t0000-0001-9217-7142\n\t\t\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\t0000-0002-8036-2647\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t\n\t\t\tJasonAGreenbaum\n\t\t\n\t\t\n\t\t\tZhenYan\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\t0000-0001-7885-4311\n\t\t\n\t\t10.1111/imm.12889\n\t\t29315598\n\t\t\n\t\n\t\n\t\tImmunology\n\t\tImmunology\n\t\t0019-2805\n\t\t\n\t\t\t154\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c400217723bebd866651d6"},"refKey":35},
{"_key":"60c400277723bebd866651df","_id":"references/60c400277723bebd866651df","_rev":"_cfFlQbO---","tei":"\n\t\n\t\tElectron Tomography of Large, Multicomponent Biological Structures\n\t\t\n\t\t\tGAPerkins\n\t\t\n\t\t\n\t\t\tCWRenken\n\t\t\n\t\t\n\t\t\tJYSong\n\t\t\n\t\t\n\t\t\tTGFrey\n\t\t\n\t\t\n\t\t\tSJYoung\n\t\t\n\t\t\n\t\t\tSLamont\n\t\t\n\t\t\n\t\t\tMEMartone\n\t\t\n\t\t\n\t\t\tSLindsey\n\t\t\n\t\t\n\t\t\tMHEllisman\n\t\t\n\t\t10.1006/jsbi.1997.3920\n\t\t9441927\n\t\tS1047-8477(97)93920-4\n\t\tark:/67375/6H6-JC12FGM3-X\n\t\t692EFB21CA42D2FB933032A5B03CCB78B9AFCFE1\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t120\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c400277723bebd866651de"},"refKey":83},
{"_key":"60c4002b7723bebd866651f1","_id":"references/60c4002b7723bebd866651f1","_rev":"_cfFlQba---","tei":"\n\t\n\t\tImproving model predictions for RNA interference activities that use support vector machine regression by combining and filtering features\n\t\t\n\t\t\tAndrewSPeek\n\t\t\n\t\t10.1186/1471-2105-8-182\n\t\t17553157\n\t\tPMC1906837\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t182\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4002b7723bebd866651f0"},"refKey":31},
{"_key":"60c400467723bebd8666520a","_id":"references/60c400467723bebd8666520a","_rev":"_cfFlQbm---","tei":"\n\t\n\t\tEarly Life Exposure to Lipopolysaccharide Suppresses Experimental Autoimmune Encephalomyelitis by Promoting Tolerogenic Dendritic Cells and Regulatory T Cells\n\t\t\n\t\t\tKristoforKEllestad\n\t\t\n\t\t\n\t\t\tShigekiTsutsui\n\t\t\n\t\t\n\t\t\tFarshidNoorbakhsh\n\t\t\n\t\t\n\t\t\tKennethGWarren\n\t\t\n\t\t\n\t\t\tVWeeYong\n\t\t\n\t\t\n\t\t\tQuentinJPittman\n\t\t\n\t\t\n\t\t\tChristopherPower\n\t\t\n\t\t10.4049/jimmunol.0803576\n\t\t19542441\n\t\t\n\t\n\t\n\t\tThe Journal of Immunology\n\t\tJ Immunol\n\t\t0022-1767\n\t\t1550-6606\n\t\t\n\t\t\t183\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tThe American Association of Immunologists\n\t\t\n\t\n\n","document":{"$oid":"60c400467723bebd86665209"},"refKey":33},
{"_key":"60c400687723bebd8666522f","_id":"references/60c400687723bebd8666522f","_rev":"_cfFlQby---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400687723bebd8666522e"},"refKey":26},
{"_key":"60c400687723bebd86665230","_id":"references/60c400687723bebd86665230","_rev":"_cfFlQc----","tei":"\n\t\n\t\tESEfinder: a web resource to identify exonic splicing enhancers\n\t\t\n\t\t\tLCartegni\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tZZhu\n\t\t\n\t\t\n\t\t\tMQZhang\n\t\t\n\t\t\n\t\t\tARKrainer\n\t\t\n\t\t10.1093/nar/gkg616\n\t\t12824367\n\t\tPMC169022\n\t\tark:/67375/HXZ-L6Z9KM2L-G\n\t\t2E5754B881EBD6C50CAF852BF3AE3C2FC8288AD8\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c400687723bebd8666522e"},"refKey":27},
{"_key":"60c400687723bebd86665231","_id":"references/60c400687723bebd86665231","_rev":"_cfFlQcK---","tei":"\n\t\n\t\tAn increased specificity score matrix for the prediction of SF2/ASF-specific exonic splicing enhancers\n\t\t\n\t\t\tPJSmith\n\t\t\n\t\t\n\t\t\tCZhang\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tSLChew\n\t\t\n\t\t\n\t\t\tMQZhang\n\t\t\n\t\n\t\n\t\tHum Mol Genet\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400687723bebd8666522e"},"refKey":28},
{"_key":"60c400687723bebd86665232","_id":"references/60c400687723bebd86665232","_rev":"_cfFlQcW---","tei":"\n\t\n\t\tPredictive identification of exonic splicing enhancers in human genes\n\t\t\n\t\t\tWGFairbrother\n\t\t\n\t\t\n\t\t\tRFYeh\n\t\t\n\t\t\n\t\t\tPASharp\n\t\t\n\t\t\n\t\t\tCBBurge\n\t\t\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t297\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400687723bebd8666522e"},"refKey":29},
{"_key":"60c400687723bebd86665233","_id":"references/60c400687723bebd86665233","_rev":"_cfFlQci---","tei":"\n\t\n\t\tComparative Analysis Identifies Exonic Splicing Regulatory Sequences—The Complex Definition of Enhancers and Silencers\n\t\t\n\t\t\tAmirGoren\n\t\t\n\t\t\n\t\t\tOrenRam\n\t\t\n\t\t\n\t\t\tMaayanAmit\n\t\t\n\t\t\n\t\t\tHadasKeren\n\t\t\n\t\t\n\t\t\tGalitLev-Maor\n\t\t\n\t\t\n\t\t\tIdaVig\n\t\t\n\t\t\n\t\t\tTalPupko\n\t\t\n\t\t\n\t\t\tGilAst\n\t\t\n\t\t10.1016/j.molcel.2006.05.008\n\t\t16793546\n\t\n\t\n\t\tMolecular Cell\n\t\tMolecular Cell\n\t\t1097-2765\n\t\t\n\t\t\t22\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c400687723bebd8666522e"},"refKey":30},
{"_key":"60c4008a7723bebd86665252","_id":"references/60c4008a7723bebd86665252","_rev":"_cfFlQcu---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4008a7723bebd86665251"},"refKey":7},
{"_key":"60c400ab7723bebd86665262","_id":"references/60c400ab7723bebd86665262","_rev":"_cfFlQc6---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400ab7723bebd86665261"},"refKey":40},
{"_key":"60c400ab7723bebd86665263","_id":"references/60c400ab7723bebd86665263","_rev":"_cfFlQdC---","tei":"\n\t\n\t\tPHYML Online--a web server for fast maximum likelihood-based phylogenetic inference\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tFLethiec\n\t\t\n\t\t\n\t\t\tPDuroux\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400ab7723bebd86665261"},"refKey":41},
{"_key":"60c400ae7723bebd86665273","_id":"references/60c400ae7723bebd86665273","_rev":"_cfFlQdO---","tei":"\n\t\n\t\tPackage 'pairwiseCI'\n\t\t\n\t\t\tFSchaarschmidt\n\t\t\n\t\t\n\t\t\tDGerhard\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400ae7723bebd86665272"},"refKey":19},
{"_key":"60c400b87723bebd86665277","_id":"references/60c400b87723bebd86665277","_rev":"_cfFlQda---","tei":"\n\t\n\t\tMakerDAO GraphQL API\n\t\t\n\t\t\tMakerdao\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400b87723bebd86665276"},"refKey":56},
{"_key":"60c400d27723bebd8666527e","_id":"references/60c400d27723bebd8666527e","_rev":"_cfFlQdm---","tei":"\n\t\n\t\tPrediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence\n\t\t\n\t\t\tNikolajBlom\n\t\t\n\t\t\n\t\t\tThomasSicheritz-Pontén\n\t\t\n\t\t\n\t\t\tRamneekGupta\n\t\t\n\t\t\n\t\t\tSteenGammeltoft\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t10.1002/pmic.200300771\n\t\t15174133\n\t\tark:/67375/WNG-HD5ZNZ2S-G\n\t\t2FC5878BEFE279DA3613D377D3C9BC82A545F1BB\n\t\tdoi: 10.1002/ pmic.200300771\n\t\n\t\n\t\tPROTEOMICS\n\t\tPROTEOMICS\n\t\t1615-9853\n\t\t1615-9861\n\t\t\n\t\t\t4\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c400d27723bebd8666527d"},"refKey":0},
{"_key":"60c400d27723bebd8666527f","_id":"references/60c400d27723bebd8666527f","_rev":"_cfFlQdy---","tei":"\n\t\n\t\tggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tDavidKSmith\n\t\t\n\t\t\n\t\t\tHuachenZhu\n\t\t\n\t\t\n\t\t\tYiGuan\n\t\t\n\t\t\n\t\t\tTommy Tsan-YukLam\n\t\t\n\t\t10.1111/2041-210x.12628\n\t\n\t\n\t\tMethods in Ecology and Evolution\n\t\tMethods Ecol Evol\n\t\t2041-210X\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c400d27723bebd8666527d"},"refKey":50},
{"_key":"60c400d27723bebd86665280","_id":"references/60c400d27723bebd86665280","_rev":"_cfFlQe----","tei":"\n\t\n\t\tUsing ggtree to visualize data on tree-like structures\n\t\t\n\t\t\tGYu\n\t\t\n\t\t10.1002/cpbi.96\n\t\n\t\n\t\tCurr. Protoc. Bioinformatics\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400d27723bebd8666527d"},"refKey":49},
{"_key":"60c400f17723bebd8666528e","_id":"references/60c400f17723bebd8666528e","_rev":"_cfFlQeK---","tei":"\n\t\n\t\tFluidic kernels: cooperative execution of OpenCL programs on multiple heterogeneous devices\n\t\t\n\t\t\tPPandit\n\t\t\n\t\t\n\t\t\tRGovindarajan\n\t\t\n\t\n\t\n\t\t12th International Symposium on Code Generation and Optimization\n\t\t\t\tNew York, NY, USA\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t273\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400f17723bebd8666528d"},"refKey":12},
{"_key":"60c400f17723bebd8666528f","_id":"references/60c400f17723bebd8666528f","_rev":"_cfFlQeW---","tei":"\n\t\n\t\tStarPU: A Unified Platform for Task Scheduling on Heterogeneous Multicore Architectures\n\t\t\n\t\t\tCédricAugonnet\n\t\t\n\t\t\n\t\t\tSamuelThibault\n\t\t\n\t\t\n\t\t\tRaymondNamyst\n\t\t\n\t\t\n\t\t\tPierre-AndréWacrenier\n\t\t\n\t\t10.1007/978-3-642-03869-3_80\n\t\tark:/67375/HCB-XQ2MQ3JP-5\n\t\t2AE04F1D7A29220063646C510C4F087D764C173E\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t23\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400f17723bebd8666528d"},"refKey":0},
{"_key":"60c400f17723bebd86665290","_id":"references/60c400f17723bebd86665290","_rev":"_cfFlQee---","tei":"\n\t\n\t\tHarmony: an execution model and runtime for heterogeneous many core systems\n\t\t\n\t\t\tGFDiamos\n\t\t\n\t\t\n\t\t\tSYalamanchili\n\t\t\n\t\n\t\n\t\tProceedings of HPDC 2008\n\t\t\t\tHPDC 2008\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c400f17723bebd8666528d"},"refKey":5},
{"_key":"60c401007723bebd8666529c","_id":"references/60c401007723bebd8666529c","_rev":"_cfFlQeq---","tei":"\n\t\n\t\tleanTAP: Lean tableau-based deduction\n\t\t\n\t\t\tBernhardBeckert\n\t\t\n\t\t\n\t\t\tJoachimPosegga\n\t\t\n\t\t10.1007/bf00881804\n\t\tark:/67375/1BB-6CM236FS-K\n\t\t97348A7EA64D7663C1E22B6F4CBB281A9E006377\n\t\t\n\t\n\t\n\t\tJournal of Automated Reasoning\n\t\tJ Autom Reasoning\n\t\t0168-7433\n\t\t1573-0670\n\t\t\n\t\t\t15\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c401007723bebd8666529b"},"refKey":2},
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{"_key":"60c401507723bebd866652e4","_id":"references/60c401507723bebd866652e4","_rev":"_cfFlQfC---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tGpdProc\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c401507723bebd866652e2"},"refKey":49},
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{"_key":"60c401577723bebd866652f7","_id":"references/60c401577723bebd866652f7","_rev":"_cfFlQgG---","tei":"\n\t\n\t\tAdjusting batch effects in microarray expression data using empirical Bayes methods\n\t\t\n\t\t\tWEvanJohnson\n\t\t\n\t\t\n\t\t\tChengLi\n\t\t\n\t\t\n\t\t\tArielRabinovic\n\t\t\n\t\t10.1093/biostatistics/kxj037\n\t\t16632515\n\t\t\n\t\n\t\n\t\tBiostatistics\n\t\t1465-4644\n\t\t1468-4357\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c401577723bebd866652f3"},"refKey":15},
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{"_key":"60c401577723bebd866652fb","_id":"references/60c401577723bebd866652fb","_rev":"_cfFlQgy---","tei":"\n\t\n\t\tThe Perl programming language\n\t\t\n\t\t\tLWall\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tPrentice Hall Software Series\n\t\t\n\t\n\n","document":{"$oid":"60c401577723bebd866652f3"},"refKey":52},
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{"_key":"60c401647723bebd86665313","_id":"references/60c401647723bebd86665313","_rev":"_cfFlQhK---","tei":"\n\t\n\t\tRecent developments in the MAFFT multiple sequence alignment program\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tHToh\n\t\t\n\t\t10.1093/bib/bbn013\n\t\t18372315\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c401647723bebd86665312"},"refKey":11},
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{"_key":"60c401817723bebd86665340","_id":"references/60c401817723bebd86665340","_rev":"_cfFlQhe---","tei":"\n\t\n\t\tMetascape provides a biologist-oriented resource for the analysis of systemslevel datasets\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tLPache\n\t\t\n\t\t\n\t\t\tMChang\n\t\t\n\t\t\n\t\t\tAHKhodabakhshi\n\t\t\n\t\t10.1038/s41467-019-09234-6\n\t\n\t\n\t\tNat. Commun\n\t\t\n\t\t\t10\n\t\t\t1523\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c401817723bebd8666533e"},"refKey":40},
{"_key":"60c401817723bebd86665341","_id":"references/60c401817723bebd86665341","_rev":"_cfFlQhq---","tei":"\n\t\n\t\tFunRich: An open access standalone functional enrichment and interaction network analysis tool\n\t\t\n\t\t\tMohashinPathan\n\t\t\n\t\t\n\t\t\tShivakumarKeerthikumar\n\t\t\n\t\t\n\t\t\tChing-SengAng\n\t\t\n\t\t\n\t\t\tLahiruGangoda\n\t\t\n\t\t\n\t\t\tCameliaY JQuek\n\t\t\n\t\t\n\t\t\tNicholasAWilliamson\n\t\t\n\t\t\n\t\t\tDmitriMouradov\n\t\t\n\t\t\n\t\t\tOliverMSieber\n\t\t\n\t\t\n\t\t\tRichardJSimpson\n\t\t\n\t\t\n\t\t\tAgusSalim\n\t\t\n\t\t\n\t\t\tAntonyBacic\n\t\t\n\t\t\n\t\t\tAndrewFHill\n\t\t\n\t\t\n\t\t\tDavidAStroud\n\t\t\n\t\t\n\t\t\tMichaelTRyan\n\t\t\n\t\t\n\t\t\tJohnsonIAgbinya\n\t\t\n\t\t\n\t\t\tJohnMMariadason\n\t\t\n\t\t\n\t\t\tAntonyWBurgess\n\t\t\n\t\t\n\t\t\tSureshMathivanan\n\t\t\n\t\t10.1002/pmic.201400515\n\t\t25921073\n\t\tark:/67375/WNG-V60PXZQX-B\n\t\t8BFAB2965334D8440B4C43980BF8CCAC682D78E3\n\t\n\t\n\t\tPROTEOMICS\n\t\tProteomics\n\t\t1615-9853\n\t\t\n\t\t\t15\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c401817723bebd8666533e"},"refKey":23},
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{"_key":"60c401b47723bebd86665377","_id":"references/60c401b47723bebd86665377","_rev":"_cfFlQiK---","tei":"\n\t\n\t\tCytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t10.1101/gr.1239303\n\t\t14597658\n\t\tPMC403769\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c401b47723bebd86665375"},"refKey":47},
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{"_key":"60c401b47723bebd86665379","_id":"references/60c401b47723bebd86665379","_rev":"_cfFlQii---","tei":"\n\t\n\t\tdbCAN: a web resource for automated carbohydrateactive enzyme annotation\n\t\t\n\t\t\tYYin\n\t\t\n\t\t\n\t\t\tXMao\n\t\t\n\t\t\n\t\t\tJYang\n\t\t\n\t\t\n\t\t\tXChen\n\t\t\n\t\t\n\t\t\tFMao\n\t\t\n\t\t\n\t\t\tYXu\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c401b47723bebd86665375"},"refKey":43},
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{"_key":"60c401b47723bebd8666537c","_id":"references/60c401b47723bebd8666537c","_rev":"_cfFlQjG---","tei":"\n\t\n\t\tStringTie enables improved reconstruction of a transcriptome from RNA-seq reads\n\t\t\n\t\t\tMihaelaPertea\n\t\t\n\t\t\n\t\t\tGeoMPertea\n\t\t\n\t\t\n\t\t\tCorinaMAntonescu\n\t\t\n\t\t\n\t\t\tTsung-ChengChang\n\t\t\n\t\t\n\t\t\tJoshuaTMendell\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nbt.3122\n\t\t25690850\n\t\tPMC4643835\n\t\t\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t33\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c401b47723bebd86665375"},"refKey":42},
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{"_key":"60c4020c7723bebd866653c9","_id":"references/60c4020c7723bebd866653c9","_rev":"_cfFlQjm---","tei":"\n\t\n\t\tIQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tOChernomor\n\t\t\n\t\t\n\t\t\tDSchrempf\n\t\t\n\t\t\n\t\t\tMDWoodhams\n\t\t\n\t\t\n\t\t\tVonHaeseler\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\t10.1093/molbev/msaa015\n\t\t32011700\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4020c7723bebd866653c8"},"refKey":57},
{"_key":"60c4020c7723bebd866653ca","_id":"references/60c4020c7723bebd866653ca","_rev":"_cfFlQjy---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4020c7723bebd866653c8"},"refKey":77},
{"_key":"60c4020c7723bebd866653cb","_id":"references/60c4020c7723bebd866653cb","_rev":"_cfFlQk----","tei":"\n\t\n\t\tThe UCSC SARS-CoV-2 Genome Browser\n\t\t\n\t\t\tJDFernandes\n\t\t\n\t\t\n\t\t\tASHinrichs\n\t\t\n\t\t\n\t\t\tHClawson\n\t\t\n\t\t\n\t\t\tJNGonzalez\n\t\t\n\t\t\n\t\t\tBTLee\n\t\t\n\t\t\n\t\t\tLRNassar\n\t\t\n\t\t10.1038/s41588-020-0700-8\n\t\t32908258\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4020c7723bebd866653c8"},"refKey":60},
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{"_key":"60c4024e7723bebd86665408","_id":"references/60c4024e7723bebd86665408","_rev":"_cfFlQki---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4024e7723bebd86665407"},"refKey":25},
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{"_key":"60c402b77723bebd86665477","_id":"references/60c402b77723bebd86665477","_rev":"_cfFlQmK---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c402b77723bebd86665476"},"refKey":44},
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{"_key":"60c403267723bebd86665508","_id":"references/60c403267723bebd86665508","_rev":"_cfFlQmu---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNoelMO'boyle\n\t\t\n\t\t\n\t\t\tMichaelBanck\n\t\t\n\t\t\n\t\t\tCraigAJames\n\t\t\n\t\t\n\t\t\tChrisMorley\n\t\t\n\t\t\n\t\t\tTimVandermeersch\n\t\t\n\t\t\n\t\t\tGeoffreyRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t21982300\n\t\tPMC3198950\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c403267723bebd86665505"},"refKey":37},
{"_key":"60c403267723bebd86665509","_id":"references/60c403267723bebd86665509","_rev":"_cfFlQm6---","tei":"\n\t\n\t\tSwissParam: A fast force field generation tool for small organic molecules\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t\n\t\t\tMichelACuendet\n\t\t\n\t\t\n\t\t\tAurélienGrosdidier\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t10.1002/jcc.21816\n\t\t21541964\n\t\tark:/67375/WNG-JXRH4SZ3-4\n\t\tE1E8474DD5A97FF89630C525576EEF2F52348B29\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c403267723bebd86665505"},"refKey":43},
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{"_key":"60c403557723bebd86665561","_id":"references/60c403557723bebd86665561","_rev":"_cfFlQn2---","tei":"\n\t\n\t\tMolecular code for transmembrane-helix recognition by the Sec61 translocon\n\t\t\n\t\t\tTHessa\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t450\n\t\t\t7172\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c403557723bebd8666555e"},"refKey":17},
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{"_key":"60c404137723bebd866655aa","_id":"references/60c404137723bebd866655aa","_rev":"_cfFlQou---","tei":"\n\t\n\t\tProtein Identification and Analysis Tools in the ExPASy Server\n\t\t\n\t\t\tMarcRWilkins\n\t\t\n\t\t\n\t\t\tElisabethGasteiger\n\t\t\n\t\t\n\t\t\tAmosBairoch\n\t\t\n\t\t\n\t\t\tJean-CharlesSanchez\n\t\t\n\t\t\n\t\t\tKeithLWilliams\n\t\t\n\t\t\n\t\t\tRonDAppel\n\t\t\n\t\t\n\t\t\tDenisFHochstrasser\n\t\t\n\t\t10.1385/1-59259-584-7:531\n\t\n\t\n\t\t2-D Proteome Analysis Protocols\n\t\t\t\t\n\t\t\tAJLink\n\t\t\n\t\tTotowa, NJ\n\t\t\n\t\t\tHumana Press\n\t\t\t1999\n\t\t\t112\n\t\t\t\n\t\t\n\t\n\t2-D Proteome Analysis Protocols\n\n","document":{"$oid":"60c404137723bebd866655a8"},"refKey":18},
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{"_key":"60c404827723bebd866655bc","_id":"references/60c404827723bebd866655bc","_rev":"_cfFlQpG---","tei":"\n\t\n\t\tThe Rossmann Fourier autoindexing algorithm inMOSFLM\n\t\t\n\t\t\tHaroldRPowell\n\t\t\n\t\t10.1107/s0907444999009506\n\t\t10531518\n\t\tark:/67375/WNG-4KMJCG7L-5\n\t\t05466A60D255742AB8F8AB26BFB1168F3C9191BD\n\t\t1690-1695. 37.\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t55\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tActa Crystallogr D Biol Crystallogr\n\n","document":{"$oid":"60c404827723bebd866655bb"},"refKey":35},
{"_key":"60c404887723bebd866655c7","_id":"references/60c404887723bebd866655c7","_rev":"_cfFlQpS---","tei":"\n\t\n\t\tGgplot2 : elegant graphics for data analysis, viii\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\t212\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c404887723bebd866655c6"},"refKey":28},
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{"_key":"60c404887723bebd866655ca","_id":"references/60c404887723bebd866655ca","_rev":"_cfFlQp2---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c404887723bebd866655c6"},"refKey":23},
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{"_key":"60c404c47723bebd866655f6","_id":"references/60c404c47723bebd866655f6","_rev":"_cfFlQqu---","tei":"\n\t\n\t\tImproved methods for fitting sedimentation coefficient distributions derived by time-derivative techniques\n\t\t\n\t\t\tJohnSPhilo\n\t\t\n\t\t10.1016/j.ab.2006.04.053\n\t\t16730633\n\t\n\t\n\t\tAnalytical Biochemistry\n\t\tAnalytical Biochemistry\n\t\t0003-2697\n\t\t\n\t\t\t354\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c404c47723bebd866655f5"},"refKey":23},
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{"_key":"60c405497723bebd86665640","_id":"references/60c405497723bebd86665640","_rev":"_cfFlQrG---","tei":"\n\t\n\t\tWater quality assessment and source identification of Daliao river basin using multivariate statistical methods\n\t\t\n\t\n\n","document":{"$oid":"60c405497723bebd8666563e"},"refKey":35},
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{"_key":"60c4064e7723bebd866656d5","_id":"references/60c4064e7723bebd866656d5","_rev":"_cfFlQsu--_","tei":"\n\t\n\t\tTransformer-XL: Attentive Language Models beyond a Fixed-Length Context\n\t\t\n\t\t\tZihangDai\n\t\t\n\t\t\n\t\t\tZhilinYang\n\t\t\n\t\t\n\t\t\tYimingYang\n\t\t\n\t\t\n\t\t\tJaimeCarbonell\n\t\t\n\t\t\n\t\t\tQuocLe\n\t\t\n\t\t\n\t\t\tRuslanSalakhutdinov\n\t\t\n\t\t10.18653/v1/p19-1285\n\t\tarXiv:1901.02860\n\t\t\n\t\n\t\n\t\tProceedings of the 57th Annual Meeting of the Association for Computational Linguistics\n\t\t\t\tthe 57th Annual Meeting of the Association for Computational Linguistics\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c4064e7723bebd866656ce"},"refKey":5},
{"_key":"60c4064e7723bebd866656d6","_id":"references/60c4064e7723bebd866656d6","_rev":"_cfFlQs6---","tei":"\n\t\n\t\tLanguage models are unsupervised multitask learners\n\t\t\n\t\t\tARadford\n\t\t\n\t\t\n\t\t\tJWu\n\t\t\n\t\t\n\t\t\tRChild\n\t\t\n\t\t\n\t\t\tDLuan\n\t\t\n\t\t\n\t\t\tDAmodei\n\t\t\n\t\t\n\t\t\tISutskever\n\t\t\n\t\n\t\n\t\tOpenAI Blog\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4064e7723bebd866656ce"},"refKey":23},
{"_key":"60c406557723bebd866656ee","_id":"references/60c406557723bebd866656ee","_rev":"_cfFlQtG---","tei":"\n\t\n\t\tVienna RNA secondary structure server\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t10.1093/nar/gkg599\n\t\t12824340\n\t\tPMC169005\n\t\tark:/67375/HXZ-HNC9HZWP-J\n\t\t8DDA80BB66A3C49E8D06B97FD478DF6F1B338419\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c406557723bebd866656ed"},"refKey":32},
{"_key":"60c406557723bebd866656ef","_id":"references/60c406557723bebd866656ef","_rev":"_cfFlQtS---","tei":"\n\t\n\t\tMEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t10.1093/bib/bbn017\n\t\t18417537\n\t\tPMC2562624\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c406557723bebd866656ed"},"refKey":29},
{"_key":"60c4065c7723bebd866656f5","_id":"references/60c4065c7723bebd866656f5","_rev":"_cfFlQte---","tei":"\n\t\n\t\tMulticollinearity and misleading statistical results\n\t\t\n\t\t\tJongHKim\n\t\t\t0000-0003-1222-0054\n\t\t\n\t\t10.4097/kja.19087\n\t\t\n\t\n\t\n\t\tKorean Journal of Anesthesiology\n\t\tKorean J Anesthesiol\n\t\t2005-6419\n\t\t2005-7563\n\t\t\n\t\t\t72\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tThe Korean Society of Anesthesiologists\n\t\t\n\t\n\n","document":{"$oid":"60c4065c7723bebd866656f4"},"refKey":15},
{"_key":"60c407d97723bebd86665747","_id":"references/60c407d97723bebd86665747","_rev":"_cfFlQtq---","tei":"\n\t\n\t\tggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tDavidKSmith\n\t\t\n\t\t\n\t\t\tHuachenZhu\n\t\t\n\t\t\n\t\t\tYiGuan\n\t\t\n\t\t\n\t\t\tTommy Tsan-YukLam\n\t\t\n\t\t10.1111/2041-210x.12628\n\t\t\n\t\n\t\n\t\tMethods in Ecology and Evolution\n\t\tMethods Ecol Evol\n\t\t2041-210X\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c407d97723bebd86665746"},"refKey":44},
{"_key":"60c407d97723bebd86665748","_id":"references/60c407d97723bebd86665748","_rev":"_cfFlQt2---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c407d97723bebd86665746"},"refKey":24},
{"_key":"60c407d97723bebd86665749","_id":"references/60c407d97723bebd86665749","_rev":"_cfFlQuC---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\t1000 Genome Project Data Processing Subgroup\n\n","document":{"$oid":"60c407d97723bebd86665746"},"refKey":25},
{"_key":"60c407d97723bebd8666574a","_id":"references/60c407d97723bebd8666574a","_rev":"_cfFlQuO---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBenjaminBuchfink\n\t\t\n\t\t\n\t\t\tChaoXie\n\t\t\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t10.1038/nmeth.3176\n\t\t25402007\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c407d97723bebd86665746"},"refKey":23},
{"_key":"60c407d97723bebd8666574b","_id":"references/60c407d97723bebd8666574b","_rev":"_cfFlQua---","tei":"\n\t\n\t\tcompositions: compositional data analysis\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tAFAuch\n\t\t\n\t\t\n\t\t\tJQi\n\t\t\n\t\t\n\t\t\tSCSchuster\n\t\t\n\t\t\n\t\t\tRTolosana-Delgado\n\t\t\n\t\t\n\t\t\tMBren\n\t\t\n\t\t10.1101/gr.5969107\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tMEGAN analysis of metagenomic data. R package version 1.40 -2\n\n","document":{"$oid":"60c407d97723bebd86665746"},"refKey":26},
{"_key":"60c407d97723bebd8666574c","_id":"references/60c407d97723bebd8666574c","_rev":"_cfFlQum---","tei":"\n\t\n\t\tRDP4: Detection and analysis of recombination patterns in virus genomes\n\t\t\n\t\t\tDarrenPMartin\n\t\t\n\t\t\n\t\t\tBenMurrell\n\t\t\n\t\t\n\t\t\tMichaelGolden\n\t\t\n\t\t\n\t\t\tArjunKhoosal\n\t\t\n\t\t\n\t\t\tBrejnevMuhire\n\t\t\n\t\t10.1093/ve/vev003\n\t\t27774277\n\t\tPMC5014473\n\t\t\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t3\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c407d97723bebd86665746"},"refKey":37},
{"_key":"60c407e47723bebd86665770","_id":"references/60c407e47723bebd86665770","_rev":"_cfFlQuu---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c407e47723bebd8666576f"},"refKey":10},
{"_key":"60c407fb7723bebd8666578a","_id":"references/60c407fb7723bebd8666578a","_rev":"_cfFlQu6---","tei":"\n\t\n\t\tBioEdit a user friendly biological sequence alignment editor and analysys program for Windows\n\t\t\n\t\t\tTAHall\n\t\t\n\t\t95/98/NT\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c407fb7723bebd86665789"},"refKey":17},
{"_key":"60c407fb7723bebd8666578b","_id":"references/60c407fb7723bebd8666578b","_rev":"_cfFlQvG---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMolecular biology and evolution\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c407fb7723bebd86665789"},"refKey":20},
{"_key":"60c4081a7723bebd8666579e","_id":"references/60c4081a7723bebd8666579e","_rev":"_cfFlQvS---","tei":"\n\t\n\t\t\n\t\tThe R Project for Statistical Computing\n\t\t\t\t\n\t\n\tInternet. cited 2020 Aug 9\n\n","document":{"$oid":"60c4081a7723bebd8666579d"},"refKey":9},
{"_key":"60c408267723bebd866657a5","_id":"references/60c408267723bebd866657a5","_rev":"_cfFlQve---","tei":"\n\t\n\t\tMetavir 2: new tools for viral metagenome comparison and assembled virome analysis\n\t\t\n\t\t\tSimonRoux\n\t\t\n\t\t\n\t\t\tJeremyTournayre\n\t\t\n\t\t\n\t\t\tAntoineMahul\n\t\t\n\t\t\n\t\t\tDidierDebroas\n\t\t\n\t\t\n\t\t\tFrançoisEnault\n\t\t\n\t\t10.1186/1471-2105-15-76\n\t\t24646187\n\t\tPMC4002922\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t76\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c408267723bebd866657a4"},"refKey":34},
{"_key":"60c408267723bebd866657a6","_id":"references/60c408267723bebd866657a6","_rev":"_cfFlQvq---","tei":"\n\t\n\t\tIntroducing mothur: open-source, platform-independent, communitysupported software for describing and comparing microbial communities\n\t\t\n\t\t\tPDSchloss\n\t\t\n\t\t\n\t\t\tSLWestcott\n\t\t\n\t\t\n\t\t\tTRyabin\n\t\t\n\t\t\n\t\t\tJRHall\n\t\t\n\t\t\n\t\t\tMHartmann\n\t\t\n\t\t\n\t\t\tEBHollister\n\t\t\n\t\n\t\n\t\tAppl Environ Microbiol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c408267723bebd866657a4"},"refKey":35},
{"_key":"60c408267723bebd866657a7","_id":"references/60c408267723bebd866657a7","_rev":"_cfFlQv2---","tei":"\n\t\n\t\tPHACCS, an online tool for estimating the structure and diversity of uncultured viral communities using metagenomic information\n\t\t\n\t\t\tFAngly\n\t\t\n\t\t\n\t\t\tBRodriguez-Brito\n\t\t\n\t\t\n\t\t\tDBangor\n\t\t\n\t\t\n\t\t\tPMcnairnie\n\t\t\n\t\t\n\t\t\tMBreitbart\n\t\t\n\t\t\n\t\t\tPSalamon\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c408267723bebd866657a4"},"refKey":3},
{"_key":"60c4082b7723bebd866657b2","_id":"references/60c4082b7723bebd866657b2","_rev":"_cfFlQwC---","tei":"\n\t\n\t\t\n\t\t\tLimesurveygmbh\n\t\t\n\t\t\n\t\t\tLimesurvey\n\t\t\n\t\tAn Open Source Survey Tool; LimeSurvey GmbH\n\t\t\t\tHamburg, Germany\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4082b7723bebd866657b1"},"refKey":60},
{"_key":"60c4082b7723bebd866657b3","_id":"references/60c4082b7723bebd866657b3","_rev":"_cfFlQwO---","tei":"\n\t\n\t\t\n\t\n\t\n\t\tIBMCorp. IBM SPSS Statistics for Windows\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4082b7723bebd866657b1"},"refKey":61},
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{"_key":"60c408587723bebd866657e7","_id":"references/60c408587723bebd866657e7","_rev":"_cfFlQwm---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t10.1093/bioinformatics/btp616\n\t\t19910308\n\t\tPMC2796818\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c408587723bebd866657e6"},"refKey":35},
{"_key":"60c408897723bebd866657fd","_id":"references/60c408897723bebd866657fd","_rev":"_cfFlQwy---","tei":"\n\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\t\n\t\t\tKChen\n\t\t\n\t\t\n\t\t\tGCorrado\n\t\t\n\t\t\n\t\t\tJDean\n\t\t\n\t\tDistributed representations of words and phrases and their compositionality\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c408897723bebd866657fc"},"refKey":9},
{"_key":"60c408897723bebd866657fe","_id":"references/60c408897723bebd866657fe","_rev":"_cfFlQx----","tei":"\n\t\n\t\tGlove: global vectors for word representation\n\t\t\n\t\t\tJPennington\n\t\t\n\t\t\n\t\t\tRSocher\n\t\t\n\t\t\n\t\t\tCDManning\n\t\t\n\t\n\t\n\t\tProceedings of the 2014 Conference on Empirical Methods in Natural Language Processing (EMNLP)\n\t\t\t\tthe 2014 Conference on Empirical Methods in Natural Language Processing (EMNLP)\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c408897723bebd866657fc"},"refKey":10},
{"_key":"60c4089b7723bebd8666580c","_id":"references/60c4089b7723bebd8666580c","_rev":"_cfFlQxG---","tei":"\n\t\n\t\tIntroduction to Mediation, Moderation and Conditional Process Analysis: A Regression-Based Approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe Guilford Press\n\t\t\tNew York, NY, USA\n\t\t\n\t\n\n","document":{"$oid":"60c4089b7723bebd8666580b"},"refKey":65},
{"_key":"60c408aa7723bebd86665818","_id":"references/60c408aa7723bebd86665818","_rev":"_cfFlQxS---","tei":"\n\t\n\t\tcocor: A Comprehensive Solution for the Statistical Comparison of Correlations\n\t\t\n\t\t\tBirkDiedenhofen\n\t\t\n\t\t\n\t\t\tJochenMusch\n\t\t\n\t\t10.1371/journal.pone.0121945\n\t\t25835001\n\t\tPMC4383486\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\te0121945\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c408aa7723bebd86665817"},"refKey":55},
{"_key":"60c408d77723bebd86665830","_id":"references/60c408d77723bebd86665830","_rev":"_cfFlQxe---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c408d77723bebd8666582f"},"refKey":27},
{"_key":"60c408d77723bebd86665831","_id":"references/60c408d77723bebd86665831","_rev":"_cfFlQxq---","tei":"\n\t\n\t\tGeneralized Additive Models: an introduction with R\n\t\t\n\t\t\tSNWood\n\t\t\n\t\t\n\t\t\t\n\t\t\tChapman and Hall/CRC\n\t\t\tBoca Raton\n\t\t\n\t\n\n","document":{"$oid":"60c408d77723bebd8666582f"},"refKey":28},
{"_key":"60c408d77723bebd86665832","_id":"references/60c408d77723bebd86665832","_rev":"_cfFlQx2---","tei":"\n\t\n\t\tFast stable restricted maximum likelihood and marginal likelihood estimation of semiparametric generalized linear models\n\t\t\n\t\t\tSNWood\n\t\t\n\t\n\t\n\t\tJ Roy Statist Soc Ser B\n\t\t\n\t\t\t73\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c408d77723bebd8666582f"},"refKey":29},
{"_key":"60c408da7723bebd86665838","_id":"references/60c408da7723bebd86665838","_rev":"_cfFlQyC---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c408da7723bebd86665837"},"refKey":55},
{"_key":"60c408e77723bebd8666584c","_id":"references/60c408e77723bebd8666584c","_rev":"_cfFlQyO---","tei":"\n\t\n\t\tGalaxyWEB server for protein structure prediction and refinement\n\t\t\n\t\t\tJKo\n\t\t\n\t\t\n\t\t\tHPark\n\t\t\n\t\t\n\t\t\tLHeo\n\t\t\n\t\t\n\t\t\tCSeok\n\t\t\n\t\t10.1093/nar/gks493\n\t\t22649060\n\t\tPMC3394311\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c408e77723bebd8666584b"},"refKey":16},
{"_key":"60c408e77723bebd8666584d","_id":"references/60c408e77723bebd8666584d","_rev":"_cfFlQya---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c408e77723bebd8666584b"},"refKey":13},
{"_key":"60c408fe7723bebd86665865","_id":"references/60c408fe7723bebd86665865","_rev":"_cfFlQym---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 15; StataCorp LLC: College Station\n\t\t\t\tTX, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c408fe7723bebd86665864"},"refKey":13},
{"_key":"60c408ff7723bebd86665869","_id":"references/60c408ff7723bebd86665869","_rev":"_cfFlQyy---","tei":"\n\t\n\t\tA statistical model for HIV-1 sequence classification using the subtype analyser (STAR)\n\t\t\n\t\t\tREMyers\n\t\t\n\t\t\n\t\t\tCVGale\n\t\t\n\t\t\n\t\t\tAHarrison\n\t\t\n\t\t\n\t\t\tYTakeuchi\n\t\t\n\t\t\n\t\t\tPKellam\n\t\t\n\t\t10.1093/bioinformatics/bti569\n\t\t16046498\n\t\tark:/67375/HXZ-CCCZ54J3-7\n\t\t22A3F30648C9ECED3696A65810BE064A73FD57D0\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c408ff7723bebd86665868"},"refKey":100},
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{"_key":"60c409157723bebd866658c8","_id":"references/60c409157723bebd866658c8","_rev":"_cfFlQzG---","tei":"\n\t\n\t\tOutbreak Response Management and Analysis System\n\t\t\n\t\t\tSormas The Surveillance\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t28\n\t\t\n\t\n\tPublished 2020. Available online\n\n","document":{"$oid":"60c409157723bebd866658c7"},"refKey":8},
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{"_key":"60c40a367723bebd8666592c","_id":"references/60c40a367723bebd8666592c","_rev":"_cfFlQz2---","tei":"\n\t\n\t\tAnalysis and abstraction of graph transformation systems via type graphs\n\t\t\n\t\t\tDNolte\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversität Duisburg-Essen\n\t\t\n\t\n\tPh.D. thesis\n\n","document":{"$oid":"60c40a367723bebd8666592b"},"refKey":14},
{"_key":"60c40a367723bebd8666592d","_id":"references/60c40a367723bebd8666592d","_rev":"_cfFlQ0C---","tei":"\n\t\n\t\tEin didaktisches Tool zur Anwendung von Graphtransformation. Bachelor's thesis\n\t\t\n\t\t\tMMatjeka\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversität Duisburg-Essen\n\t\t\n\t\n\n","document":{"$oid":"60c40a367723bebd8666592b"},"refKey":12},
{"_key":"60c40a427723bebd86665958","_id":"references/60c40a427723bebd86665958","_rev":"_cfFlQ0O---","tei":"\n\t\n\t\tDifferential gene expression in pulmonary artery endothelial cells exposed to sickle cell plasma\n\t\t\n\t\t\tElizabethSKlings\n\t\t\n\t\t\n\t\t\tSurinderSafaya\n\t\t\n\t\t\n\t\t\tAdeboyeHAdewoye\n\t\t\n\t\t\n\t\t\tAdamOdhiambo\n\t\t\n\t\t\n\t\t\tGarrettFrampton\n\t\t\n\t\t\n\t\t\tMarcLenburg\n\t\t\n\t\t\n\t\t\tNormanGerry\n\t\t\n\t\t\n\t\t\tPaolaSebastiani\n\t\t\n\t\t\n\t\t\tMartinHSteinberg\n\t\t\n\t\t\n\t\t\tHarrisonWFarber\n\t\t\n\t\t10.1152/physiolgenomics.00246.2004\n\t\t15741505\n\t\t\n\t\n\t\n\t\tPhysiological Genomics\n\t\tPhysiological Genomics\n\t\t1094-8341\n\t\t1531-2267\n\t\t\n\t\t\t21\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Physiological Society\n\t\t\n\t\n\n","document":{"$oid":"60c40a427723bebd86665957"},"refKey":65},
{"_key":"60c40a427723bebd86665959","_id":"references/60c40a427723bebd86665959","_rev":"_cfFlQ0a---","tei":"\n\t\n\t\tDesign and Analysis of Screening Experiments with Microarrays\n\t\t\n\t\t\tPaolaSebastiani\n\t\t\n\t\t\n\t\t\tJoannaJeneralczuk\n\t\t\n\t\t\n\t\t\tMarcoFRamoni\n\t\t\n\t\t10.1007/0-387-28014-6_5\n\t\tark:/67375/HCB-373GRL0F-6\n\t\tC59B5EFE87C28CC4236C6CCEB50EFA01DD2BB98A\n\t\n\t\n\t\tScreening\n\t\t\t\tNew York\n\t\t\n\t\t\tSpringer-Verlag\n\t\t\t2005\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40a427723bebd86665957"},"refKey":66},
{"_key":"60c40a427723bebd8666595a","_id":"references/60c40a427723bebd8666595a","_rev":"_cfFlQ0m---","tei":"\n\t\n\t\tBayesian Clustering of Gene Expression Dynamics\n\t\t\n\t\t\tPaolaSebastiani\n\t\t\n\t\t\n\t\t\tMarcoRamoni\n\t\t\n\t\t\n\t\t\tIsaacSKohane\n\t\t\n\t\t10.1007/0-387-21679-0_18\n\t\tark:/67375/HCB-5TST9CD4-R\n\t\t66C6231D61A75CE1DA61A8136788C5864AAE3E60\n\t\n\t\n\t\tStatistics for Biology and Health\n\t\t\t\t\n\t\t\tGParmigiani\n\t\t\tESGarrett\n\t\t\tRIrizarry\n\t\t\tSZeger\n\t\t\n\t\tNew York\n\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40a427723bebd86665957"},"refKey":67},
{"_key":"60c40a767723bebd86665971","_id":"references/60c40a767723bebd86665971","_rev":"_cfFlQ0y---","tei":"\n\t\n\t\tNMRPipe: A multidimensional spectral processing system based on UNIX pipes\n\t\t\n\t\t\tFrankDelaglio\n\t\t\n\t\t\n\t\t\tStephanGrzesiek\n\t\t\n\t\t\n\t\t\tGeertenw.Vuister\n\t\t\n\t\t\n\t\t\tGuangZhu\n\t\t\n\t\t\n\t\t\tJohnPfeifer\n\t\t\n\t\t\n\t\t\tAdBax\n\t\t\n\t\t10.1007/bf00197809\n\t\t8520220\n\t\tark:/67375/1BB-36CZJL8Z-8\n\t\tD8D0A1E06728B97FBC49BA8B022BC7FD0992B5A1\n\t\t\n\t\n\t\n\t\tJournal of Biomolecular NMR\n\t\tJ Biomol NMR\n\t\t0925-2738\n\t\t1573-5001\n\t\t\n\t\t\t6\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c40a767723bebd86665970"},"refKey":7},
{"_key":"60c40a767723bebd86665972","_id":"references/60c40a767723bebd86665972","_rev":"_cfFlQ1----","tei":"\n\t\n\t\tNMR View: A computer program for the visualization and analysis of NMR data\n\t\t\n\t\t\tBruceAJohnson\n\t\t\n\t\t\n\t\t\tRichardABlevins\n\t\t\n\t\t10.1007/bf00404272\n\t\t22911360\n\t\tark:/67375/1BB-N5BW7B5Q-0\n\t\t4B8B10D76CFDAFC20EF2CFF3113A34D8CBBBB0F3\n\t\t\n\t\n\t\n\t\tJournal of Biomolecular NMR\n\t\tJ Biomol NMR\n\t\t0925-2738\n\t\t1573-5001\n\t\t\n\t\t\t4\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature America, Inc\n\t\t\n\t\n\n","document":{"$oid":"60c40a767723bebd86665970"},"refKey":10},
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{"_key":"60c40a787723bebd86665978","_id":"references/60c40a787723bebd86665978","_rev":"_cfFlQ1W---","tei":"\n\t\n\t\tMapping overlapping functional elements embedded within the protein-coding regions of RNA viruses\n\t\t\n\t\t\tAndrewEFirth\n\t\t\n\t\t10.1093/nar/gku981\n\t\t25326325\n\t\tPMC4227794\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40a787723bebd86665977"},"refKey":8},
{"_key":"60c40a787723bebd86665979","_id":"references/60c40a787723bebd86665979","_rev":"_cfFlQ1e---","tei":"\n\t\n\t\tRobust hepatitis C virus infection in vitro\n\t\t\n\t\t\tJZhong\n\t\t\n\t\t\n\t\t\tPGastaminza\n\t\t\n\t\t\n\t\t\tGCheng\n\t\t\n\t\t\n\t\t\tSKapadia\n\t\t\n\t\t\n\t\t\tTKato\n\t\t\n\t\t\n\t\t\tDRBurton\n\t\t\n\t\t\n\t\t\tSFWieland\n\t\t\n\t\t\n\t\t\tSLUprichard\n\t\t\n\t\t\n\t\t\tTWakita\n\t\t\n\t\t\n\t\t\tFVChisari\n\t\t\n\t\t10.1073/pnas.0503596102\n\t\t15939869\n\t\tPMC1166622\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t102\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c40a787723bebd86665977"},"refKey":33},
{"_key":"60c40a787723bebd8666597a","_id":"references/60c40a787723bebd8666597a","_rev":"_cfFlQ1q---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t10\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40a787723bebd86665977"},"refKey":38},
{"_key":"60c40a787723bebd8666597b","_id":"references/60c40a787723bebd8666597b","_rev":"_cfFlQ12---","tei":"\n\t\n\t\tMultiple sequence alignments of partially coding nucleic acid sequences\n\t\t\n\t\t\tRRStocsits\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tCFried\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t6\n\t\t\t160\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40a787723bebd86665977"},"refKey":31},
{"_key":"60c40a787723bebd8666597c","_id":"references/60c40a787723bebd8666597c","_rev":"_cfFlQ2C---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t5\n\t\t\t113\n\t\t\n\t\n\n","document":{"$oid":"60c40a787723bebd86665977"},"refKey":29},
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{"_key":"60c40b057723bebd866659fe","_id":"references/60c40b057723bebd866659fe","_rev":"_cfFlQ2y---","tei":"\n\t\n\t\tDeepwalk: online learning of social representations\n\t\t\n\t\t\tBPerozzi\n\t\t\n\t\t\n\t\t\tRAl-Rfou\n\t\t\n\t\t\n\t\t\tSSkiena\n\t\t\n\t\n\t\n\t\tProceedings of the 20th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\t\tthe 20th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40b057723bebd866659fd"},"refKey":21},
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{"_key":"60c40b467723bebd86665a4f","_id":"references/60c40b467723bebd86665a4f","_rev":"_cfFlQ36---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40b467723bebd86665a4d"},"refKey":36},
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{"_key":"60c40b867723bebd86665ab1","_id":"references/60c40b867723bebd86665ab1","_rev":"_cfFlQ5u---","tei":"\n\t\n\t\tRAPSearch2: A fast and memoryefficient protein similarity search tool for next-generation sequencing data\n\t\t\n\t\t\tCCamacho\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tVAvagyan\n\t\t\n\t\t15:421. 31\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBMC Bioinform\n\n","document":{"$oid":"60c40b867723bebd86665aaf"},"refKey":19},
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{"_key":"60c40bf47723bebd86665b01","_id":"references/60c40bf47723bebd86665b01","_rev":"_cfFlQ6e---","tei":"\n\t\n\t\tAgent-Based Modeling and Geographical Information Systems\n\t\t\n\t\t\tAndrewTCrooks\n\t\t\n\t\t\n\t\t\tAJHeppenstall\n\t\t\n\t\t10.4135/9781473916432.n4\n\t\t\n\t\n\t\n\t\tGeocomputation: A Practical Primer\n\t\t\t\t\n\t\t\tAHeppenstall\n\t\t\tACrooks\n\t\t\tLSee\n\t\t\tMBatty\n\t\t\n\t\tDordrecht\n\t\t\n\t\t\tSAGE Publications, Inc.\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tIntroduction to agent-based modelling\n\n","document":{"$oid":"60c40bf47723bebd86665afe"},"refKey":24},
{"_key":"60c40c3d7723bebd86665b35","_id":"references/60c40c3d7723bebd86665b35","_rev":"_cfFlQ6m---","tei":"\n\t\n\t\tWebPlotDigitizer: HTML5 based online tool to extract numerical data from plot images\n\t\t\n\t\t\tARohatgi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40c3d7723bebd86665b34"},"refKey":27},
{"_key":"60c40c5b7723bebd86665b50","_id":"references/60c40c5b7723bebd86665b50","_rev":"_cfFlQ6y---","tei":"\n\t\n\t\tTissue-based map of the human proteome\n\t\t\n\t\t\tMUhlen\n\t\t\n\t\t\n\t\t\tLFagerberg\n\t\t\n\t\t\n\t\t\tBMHallstrom\n\t\t\n\t\t\n\t\t\tCLindskog\n\t\t\n\t\t\n\t\t\tPOksvold\n\t\t\n\t\t\n\t\t\tAMardinoglu\n\t\t\n\t\t\n\t\t\tASivertsson\n\t\t\n\t\t\n\t\t\tCKampf\n\t\t\n\t\t\n\t\t\tESjostedt\n\t\t\n\t\t\n\t\t\tAAsplund\n\t\t\n\t\t\n\t\t\tIOlsson\n\t\t\n\t\t\n\t\t\tKEdlund\n\t\t\n\t\t\n\t\t\tELundberg\n\t\t\n\t\t\n\t\t\tSNavani\n\t\t\n\t\t\n\t\t\tNull-KSzigyarto\n\t\t\n\t\t\n\t\t\tJOdeberg\n\t\t\n\t\t\n\t\t\tDDjureinovic\n\t\t\n\t\t\n\t\t\tJOTakanen\n\t\t\n\t\t\n\t\t\tSHober\n\t\t\n\t\t\n\t\t\tTAlm\n\t\t\n\t\t\n\t\t\tP-HEdqvist\n\t\t\n\t\t\n\t\t\tHBerling\n\t\t\n\t\t\n\t\t\tHTegel\n\t\t\n\t\t\n\t\t\tJMulder\n\t\t\n\t\t\n\t\t\tJRockberg\n\t\t\n\t\t\n\t\t\tPNilsson\n\t\t\n\t\t\n\t\t\tJMSchwenk\n\t\t\n\t\t\n\t\t\tMHamsten\n\t\t\n\t\t\n\t\t\tKVon Feilitzen\n\t\t\n\t\t\n\t\t\tMForsberg\n\t\t\n\t\t\n\t\t\tLPersson\n\t\t\n\t\t\n\t\t\tFJohansson\n\t\t\n\t\t\n\t\t\tMZwahlen\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tJNielsen\n\t\t\n\t\t\n\t\t\tFPonten\n\t\t\n\t\t10.1126/science.1260419\n\t\t25613900\n\t\n\t\n\t\tScience\n\t\tScience\n\t\t0036-8075\n\t\t1095-9203\n\t\t\n\t\t\t347\n\t\t\t6220\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c40c5b7723bebd86665b4f"},"refKey":47},
{"_key":"60c40c5b7723bebd86665b51","_id":"references/60c40c5b7723bebd86665b51","_rev":"_cfFlQ7----","tei":"\n\t\n\t\tSTRING v11: Protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\t10.1093/nar/gky1131\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40c5b7723bebd86665b4f"},"refKey":48},
{"_key":"60c40c5b7723bebd86665b52","_id":"references/60c40c5b7723bebd86665b52","_rev":"_cfFlQ7K---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c40c5b7723bebd86665b4f"},"refKey":51},
{"_key":"60c40c7c7723bebd86665b6c","_id":"references/60c40c7c7723bebd86665b6c","_rev":"_cfFlQ7W---","tei":"\n\t\n\t\tGlycoWorkbench: A Tool for the Computer-Assisted Annotation of Mass Spectra of Glycans†\n\t\t\n\t\t\tAlessioCeroni\n\t\t\n\t\t\n\t\t\tKaiMaass\n\t\t\n\t\t\n\t\t\tHildegardGeyer\n\t\t\n\t\t\n\t\t\tRudolfGeyer\n\t\t\n\t\t\n\t\t\tAnneDell\n\t\t\n\t\t\n\t\t\tStuartMHaslam\n\t\t\n\t\t10.1021/pr7008252\n\t\t18311910\n\t\n\t\n\t\tJournal of Proteome Research\n\t\tJ. Proteome Res.\n\t\t1535-3893\n\t\t1535-3907\n\t\t\n\t\t\t7\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c40c7c7723bebd86665b6b"},"refKey":27},
{"_key":"60c40c807723bebd86665b7a","_id":"references/60c40c807723bebd86665b7a","_rev":"_cfFlQ7i---","tei":"\n\t\n\t\tThe R0 package: a toolbox to estimate reproduction numbers for epidemic outbreaks\n\t\t\n\t\t\tTObadia\n\t\t\n\t\t\n\t\t\tRHaneef\n\t\t\n\t\t\n\t\t\tPYBoëlle\n\t\t\n\t\n\t\n\t\tBMC Med Inform Decis Mak\n\t\t\n\t\t\t12\n\t\t\t147\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40c807723bebd86665b79"},"refKey":11},
{"_key":"60c40ce67723bebd86665baf","_id":"references/60c40ce67723bebd86665baf","_rev":"_cfFlQ7u---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40ce67723bebd86665bae"},"refKey":35},
{"_key":"60c40ce67723bebd86665bb0","_id":"references/60c40ce67723bebd86665bb0","_rev":"_cfFlQ76---","tei":"\n\t\n\t\tRosettaDesign server for protein design\n\t\t\n\t\t\tYLiu\n\t\t\n\t\t\n\t\t\tBKuhlman\n\t\t\n\t\t10.1093/nar/gkl163\n\t\t16845000\n\t\tPMC1538902\n\t\tark:/67375/HXZ-D1MGHLBS-6\n\t\t9D14DEEC6EA36491D121F472E5D6C8DF708B55BE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40ce67723bebd86665bae"},"refKey":30},
{"_key":"60c40cf77723bebd86665bc3","_id":"references/60c40cf77723bebd86665bc3","_rev":"_cfFlQ8G---","tei":"\n\t\n\t\tROBOKOP: an abstraction layer and user interface for knowledge graphs to support question answering\n\t\t\n\t\t\tKennethMorton\n\t\t\t0000-0002-9352-8669\n\t\t\n\t\t\n\t\t\tPatrickWang\n\t\t\t0000-0002-6693-6106\n\t\t\n\t\t\n\t\t\tChrisBizon\n\t\t\t0000-0002-9491-7674\n\t\t\n\t\t\n\t\t\tStevenCox\n\t\t\t0000-0002-8561-4508\n\t\t\n\t\t\n\t\t\tJamesBalhoff\n\t\t\n\t\t\n\t\t\tYaphetKebede\n\t\t\t0000-0002-5046-0246\n\t\t\n\t\t\n\t\t\tKaramarieFecho\n\t\t\t0000-0002-6704-9306\n\t\t\n\t\t\n\t\t\tAlexanderTropsha\n\t\t\n\t\t10.1093/bioinformatics/btz604\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40cf77723bebd86665bc2"},"refKey":4},
{"_key":"60c40d257723bebd86665be4","_id":"references/60c40d257723bebd86665be4","_rev":"_cfFlQ8S---","tei":"\n\t\n\t\tScanpy for analysis of large-scale single-cell gene expression data\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tPhilippAngerer\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/174029\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t19\n\t\t\t15\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c40d257723bebd86665be3"},"refKey":38},
{"_key":"60c40d4f7723bebd86665c02","_id":"references/60c40d4f7723bebd86665c02","_rev":"_cfFlQ8e---","tei":"\n\t\n\t\tEEGLAB: an open source toolbox for analysis of single-trial EEG dynamics including independent component analysis\n\t\t\n\t\t\tArnaudDelorme\n\t\t\n\t\t\n\t\t\tScottMakeig\n\t\t\n\t\t10.1016/j.jneumeth.2003.10.009\n\t\t15102499\n\t\t\n\t\n\t\n\t\tJournal of Neuroscience Methods\n\t\tJournal of Neuroscience Methods\n\t\t0165-0270\n\t\t\n\t\t\t134\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed: 15102499\n\n","document":{"$oid":"60c40d4f7723bebd86665c01"},"refKey":35},
{"_key":"60c40d4f7723bebd86665c03","_id":"references/60c40d4f7723bebd86665c03","_rev":"_cfFlQ8q---","tei":"\n\t\n\t\tERPLAB: An open-source toolbox for the analysis of eventrelated potentials\n\t\t\n\t\t\tJLopez-Calderon\n\t\t\n\t\t\n\t\t\tSJLuck\n\t\t\n\t\t213.10.3389/fnhum.2014.00213\n\t\n\t\n\t\tFrontiers in Human Neuroscience\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\n\t\n\tPubMed: 24782741\n\n","document":{"$oid":"60c40d4f7723bebd86665c01"},"refKey":76},
{"_key":"60c40d4f7723bebd86665c04","_id":"references/60c40d4f7723bebd86665c04","_rev":"_cfFlQ82---","tei":"\n\t\n\t\tThe ROC Toolbox: A toolbox for analyzing receiver-operating characteristics derived from confidence ratings\n\t\t\n\t\t\tJoshuaDKoen\n\t\t\n\t\t\n\t\t\tFrederickSBarrett\n\t\t\n\t\t\n\t\t\tIainMHarlow\n\t\t\n\t\t\n\t\t\tAndrewPYonelinas\n\t\t\n\t\t10.3758/s13428-016-0796-z\n\t\t27573007\n\t\tPMC5332475\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehav Res\n\t\t1554-3528\n\t\t\n\t\t\t49\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed: 27573007\n\n","document":{"$oid":"60c40d4f7723bebd86665c01"},"refKey":62},
{"_key":"60c40d687723bebd86665c10","_id":"references/60c40d687723bebd86665c10","_rev":"_cfFlQ9G---","tei":"\n\t\n\t\tPsychometric Developments Related to Tests and Selection\n\t\t\n\t\t\tLMuthén\n\t\t\n\t\t\n\t\t\tBMuthén\n\t\t\n\t\t10.21236/ada280416\n\t\t\n\t\n\t\n\t\tMplus User's Guide\n\t\t\t\t\n\t\t\tDefense Technical Information Center\n\t\t\t\n\t\t\n\t\n\t7th ed. Muthén & Muthén\n\n","document":{"$oid":"60c40d687723bebd86665c0f"},"refKey":35},
{"_key":"60c40d697723bebd86665c19","_id":"references/60c40d697723bebd86665c19","_rev":"_cfFlQ9S---","tei":"\n\t\n\t\tclusterProfiler: an R package for comparing biological themes among gene clusters\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tLGWang\n\t\t\n\t\t\n\t\t\tYHan\n\t\t\n\t\t\n\t\n\t\n\t\tOMICS\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d697723bebd86665c18"},"refKey":11},
{"_key":"60c40d7d7723bebd86665c29","_id":"references/60c40d7d7723bebd86665c29","_rev":"_cfFlQ9e---","tei":"\n\t\n\t\tBiopython: freely available Python tools for computational molecular biology and bioinformatics\n\t\t\n\t\t\tPJCock\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":79},
{"_key":"60c40d7d7723bebd86665c2a","_id":"references/60c40d7d7723bebd86665c2a","_rev":"_cfFlQ9q---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":62},
{"_key":"60c40d7d7723bebd86665c2b","_id":"references/60c40d7d7723bebd86665c2b","_rev":"_cfFlQ9y---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with BWA-MEM\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tPreprint at\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":63},
{"_key":"60c40d7d7723bebd86665c2c","_id":"references/60c40d7d7723bebd86665c2c","_rev":"_cfFlR-----","tei":"\n\t\n\t\tPilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement\n\t\t\n\t\t\tBJWalker\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\t\n\t\t\t9\n\t\t\te112963\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":65},
{"_key":"60c40d7d7723bebd86665c2d","_id":"references/60c40d7d7723bebd86665c2d","_rev":"_cfFlR-K---","tei":"\n\t\n\t\tQualimap: evaluating next-generation sequencing alignment data\n\t\t\n\t\t\tFGarcia-Alcalde\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":64},
{"_key":"60c40d7d7723bebd86665c2e","_id":"references/60c40d7d7723bebd86665c2e","_rev":"_cfFlR-W---","tei":"\n\t\n\t\tProkka: rapid prokaryotic genome annotation\n\t\t\n\t\t\tTSeemann\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":67},
{"_key":"60c40d7d7723bebd86665c2f","_id":"references/60c40d7d7723bebd86665c2f","_rev":"_cfFlR-i---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":74},
{"_key":"60c40d7d7723bebd86665c30","_id":"references/60c40d7d7723bebd86665c30","_rev":"_cfFlR-u---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":73},
{"_key":"60c40d7d7723bebd86665c31","_id":"references/60c40d7d7723bebd86665c31","_rev":"_cfFlR-6---","tei":"\n\t\n\t\tRoary: Rapid large-scale prokaryote pan genome analysis\n\t\t\n\t\t\tAndrewJPage\n\t\t\n\t\t\n\t\t\tCarlaACummins\n\t\t\n\t\t\n\t\t\tMartinHunt\n\t\t\n\t\t\n\t\t\tVanessaKWong\n\t\t\n\t\t\n\t\t\tSandraReuter\n\t\t\n\t\t\n\t\t\tMatthewT GHolden\n\t\t\n\t\t\n\t\t\tMariaFookes\n\t\t\n\t\t\n\t\t\tJacquelineAKeane\n\t\t\n\t\t\n\t\t\tJulianParkhill\n\t\t\n\t\t10.1101/019315\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":68},
{"_key":"60c40d7d7723bebd86665c32","_id":"references/60c40d7d7723bebd86665c32","_rev":"_cfFlR_G---","tei":"\n\t\n\t\tFast Hierarchical Bayesian Analysis of Population Structure\n\t\t\n\t\t\tGerryTonkin-Hill\n\t\t\t0000-0003-4397-2224\n\t\t\n\t\t\n\t\t\tJohnALees\n\t\t\t0000-0001-5360-1254\n\t\t\n\t\t\n\t\t\tStephenDBentley\n\t\t\n\t\t\n\t\t\tSimonD WFrost\n\t\t\n\t\t\n\t\t\tJukkaCorander\n\t\t\t0000-0002-7752-1942\n\t\t\n\t\t10.1101/454355\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":75},
{"_key":"60c40d7d7723bebd86665c33","_id":"references/60c40d7d7723bebd86665c33","_rev":"_cfFlR_S---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":70},
{"_key":"60c40d7d7723bebd86665c34","_id":"references/60c40d7d7723bebd86665c34","_rev":"_cfFlR_e---","tei":"\n\t\n\t\tRapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins\n\t\t\n\t\t\tNJCroucher\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\te15\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":71},
{"_key":"60c40d7d7723bebd86665c35","_id":"references/60c40d7d7723bebd86665c35","_rev":"_cfFlR_q---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and postanalysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":72},
{"_key":"60c40d7d7723bebd86665c36","_id":"references/60c40d7d7723bebd86665c36","_rev":"_cfFlR_2---","tei":"\n\t\n\t\tPiggy: a rapid, large-scale pan-genome analysis tool for intergenic regions in bacteria\n\t\t\n\t\t\tHarryAThorpe\n\t\t\n\t\t\n\t\t\tSionCBayliss\n\t\t\n\t\t\n\t\t\tSamuelKSheppard\n\t\t\n\t\t\n\t\t\tEdwardJFeil\n\t\t\n\t\t10.1093/gigascience/giy015\n\t\t29635296\n\t\tPMC5890482\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\t2047-217X\n\t\t\n\t\t\t7\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40d7d7723bebd86665c28"},"refKey":69},
{"_key":"60c40d827723bebd86665c57","_id":"references/60c40d827723bebd86665c57","_rev":"_cfFlRAC---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40d827723bebd86665c56"},"refKey":93},
{"_key":"60c40d827723bebd86665c58","_id":"references/60c40d827723bebd86665c58","_rev":"_cfFlRAO---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40d827723bebd86665c56"},"refKey":94},
{"_key":"60c40d827723bebd86665c59","_id":"references/60c40d827723bebd86665c59","_rev":"_cfFlRAW---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tASivachenko\n\t\t\n\t\t\n\t\t\tKCibulskis\n\t\t\n\t\t\n\t\t\tAKernytsky\n\t\t\n\t\t\n\t\t\tKGarimella\n\t\t\n\t\t\n\t\t\tDAltshuler\n\t\t\n\t\t\n\t\t\tSGabriel\n\t\t\n\t\t\n\t\t\tMDaly\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t10.1101/gr.107524.110\n\t\t20644199\n\t\tPMC2928508\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t20\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c40d827723bebd86665c56"},"refKey":95},
{"_key":"60c40d827723bebd86665c5a","_id":"references/60c40d827723bebd86665c5a","_rev":"_cfFlRAi---","tei":"\n\t\n\t\tdeepTools2: a next generation web server for deep-sequencing data analysis\n\t\t\n\t\t\tFidelRamírez\n\t\t\n\t\t\n\t\t\tDevonPRyan\n\t\t\n\t\t\n\t\t\tBjörnGrüning\n\t\t\t0000-0002-3079-6586\n\t\t\n\t\t\n\t\t\tVivekBhardwaj\n\t\t\n\t\t\n\t\t\tFabianKilpert\n\t\t\n\t\t\n\t\t\tAndreasSRichter\n\t\t\t0000-0002-4166-0991\n\t\t\n\t\t\n\t\t\tSteffenHeyne\n\t\t\n\t\t\n\t\t\tFriederikeDündar\n\t\t\n\t\t\n\t\t\tThomasManke\n\t\t\n\t\t10.1093/nar/gkw257\n\t\t27079975\n\t\tPMC4987876\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40d827723bebd86665c56"},"refKey":99},
{"_key":"60c40d827723bebd86665c5b","_id":"references/60c40d827723bebd86665c5b","_rev":"_cfFlRAu---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tBioinformatics\n\n","document":{"$oid":"60c40d827723bebd86665c56"},"refKey":92},
{"_key":"60c40d827723bebd86665c5c","_id":"references/60c40d827723bebd86665c5c","_rev":"_cfFlRA6---","tei":"\n\t\n\t\tVisualizing Genomic Data Using Gviz and Bioconductor\n\t\t\n\t\t\tFlorianHahne\n\t\t\n\t\t\n\t\t\tRobertIvanek\n\t\t\n\t\t10.1007/978-1-4939-3578-9_16\n\t\t27008022\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1418\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d827723bebd86665c56"},"refKey":101},
{"_key":"60c40d847723bebd86665c6c","_id":"references/60c40d847723bebd86665c6c","_rev":"_cfFlRBG---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d847723bebd86665c6b"},"refKey":39},
{"_key":"60c40d847723bebd86665c6d","_id":"references/60c40d847723bebd86665c6d","_rev":"_cfFlRBS---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d847723bebd86665c6b"},"refKey":45},
{"_key":"60c40d847723bebd86665c6e","_id":"references/60c40d847723bebd86665c6e","_rev":"_cfFlRBe---","tei":"\n\t\n\t\tThe Phenix software for automated determination of macromolecular structures\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tMethods\n\t\t\n\t\t\t55\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d847723bebd86665c6b"},"refKey":37},
{"_key":"60c40d847723bebd86665c6f","_id":"references/60c40d847723bebd86665c6f","_rev":"_cfFlRBq---","tei":"\n\t\n\t\tPROMALS3D: Multiple Protein Sequence Alignment Enhanced with Evolutionary and Three-Dimensional Structural Information\n\t\t\n\t\t\tJiminPei\n\t\t\n\t\t\n\t\t\tNickVGrishin\n\t\t\n\t\t10.1007/978-1-62703-646-7_17\n\t\t24170408\n\t\tPMC4506754\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t1079\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d847723bebd86665c6b"},"refKey":44},
{"_key":"60c40d847723bebd86665c70","_id":"references/60c40d847723bebd86665c70","_rev":"_cfFlRB2---","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\t\n\t\n\t\n\t\tNew development for protein structure and function predictions\n\t\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\t\n\t\t\t43\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40d847723bebd86665c6b"},"refKey":41},
{"_key":"60c40d9d7723bebd86665c91","_id":"references/60c40d9d7723bebd86665c91","_rev":"_cfFlRCC---","tei":"\n\t\n\t\tThe investor sentiment mined from WeChat text and stock market performance\n\t\t\n\t\t\tSShi\n\t\t\n\t\t\n\t\t\tYZhu\n\t\t\n\t\t\n\t\t\tZZhao\n\t\t\n\t\t\n\t\t\tKKang\n\t\t\n\t\t\n\t\t\tXXiong\n\t\t\n\t\t\n\t\t\t\n\t\t\t38\n\t\t\t\n\t\t\n\t\t\n\t\t\tSystems Engineering -Theory & Practice\n\t\t\n\t\n\n","document":{"$oid":"60c40d9d7723bebd86665c90"},"refKey":52},
{"_key":"60c40dab7723bebd86665c9c","_id":"references/60c40dab7723bebd86665c9c","_rev":"_cfFlRCK---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: Recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/nar/gkz239\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40dab7723bebd86665c9b"},"refKey":30},
{"_key":"60c40dab7723bebd86665c9d","_id":"references/60c40dab7723bebd86665c9d","_rev":"_cfFlRCW---","tei":"\n\t\n\t\tBEDTools: The Swiss-Army Tool for Genome Feature Analysis\n\t\t\n\t\t\tAaronRQuinlan\n\t\t\n\t\t10.1002/0471250953.bi1112s47\n\t\t25199790\n\t\tPMC4213956\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t\n\t\t\t47\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c40dab7723bebd86665c9b"},"refKey":17},
{"_key":"60c40dab7723bebd86665c9e","_id":"references/60c40dab7723bebd86665c9e","_rev":"_cfFlRCi---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40dab7723bebd86665c9b"},"refKey":18},
{"_key":"60c40dab7723bebd86665c9f","_id":"references/60c40dab7723bebd86665c9f","_rev":"_cfFlRCu---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40dab7723bebd86665c9b"},"refKey":26},
{"_key":"60c40dab7723bebd86665ca0","_id":"references/60c40dab7723bebd86665ca0","_rev":"_cfFlRC6---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\t10.1093/bioinformatics/btr509\n\t\t21903627\n\t\tPMC3198575\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c40dab7723bebd86665c9b"},"refKey":35},
{"_key":"60c40dab7723bebd86665ca1","_id":"references/60c40dab7723bebd86665ca1","_rev":"_cfFlRDG---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tTommyTLam\n\t\t\n\t\t\n\t\t\tLuizMax Carvalho\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t10.1093/ve/vew007\n\t\t27774300\n\t\tPMC4989882\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\tVirus Evol\n\t\t2057-1577\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\tvew007\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40dab7723bebd86665c9b"},"refKey":31},
{"_key":"60c40dab7723bebd86665ca2","_id":"references/60c40dab7723bebd86665ca2","_rev":"_cfFlRDS---","tei":"\n\t\n\t\tkaryoploteR: an R/Bioconductor package to plot customizable genomes displaying arbitrary data\n\t\t\n\t\t\tBernatGel\n\t\t\n\t\t\n\t\t\tEduardSerra\n\t\t\n\t\t10.1093/bioinformatics/btx346\n\t\t28575171\n\t\tPMC5870550\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40dab7723bebd86665c9b"},"refKey":20},
{"_key":"60c40dab7723bebd86665ca3","_id":"references/60c40dab7723bebd86665ca3","_rev":"_cfFlRDe---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tBam-Readcount\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40dab7723bebd86665c9b"},"refKey":36},
{"_key":"60c40dab7723bebd86665ca4","_id":"references/60c40dab7723bebd86665ca4","_rev":"_cfFlRDq---","tei":"\n\t\n\t\t1000 Genomes Project Analysis Group The variant call format and VCFtools\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tAAuton\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tCAAlbers\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t\n\t\t\tREHandsaker\n\t\t\n\t\t\n\t\t\tGLunter\n\t\t\n\t\t\n\t\t\tGTMarth\n\t\t\n\t\t\n\t\t\tSTSherry\n\t\t\n\t\t10.1093/bioinformatics/btr330\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40dab7723bebd86665c9b"},"refKey":19},
{"_key":"60c40dab7723bebd86665ca5","_id":"references/60c40dab7723bebd86665ca5","_rev":"_cfFlRD2---","tei":"\n\t\n\t\tModelFinder: fast model selection for accurate phylogenetic estimates\n\t\t\n\t\t\tSubhaKalyaanamoorthy\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t\n\t\t\tThomasK FWong\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tLarsSJermiin\n\t\t\n\t\t10.1038/nmeth.4285\n\t\t28481363\n\t\tPMC5453245\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Meth\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c40dab7723bebd86665c9b"},"refKey":28},
{"_key":"60c40db97723bebd86665ccd","_id":"references/60c40db97723bebd86665ccd","_rev":"_cfFlREC---","tei":"\n\t\n\t\tThe Psychophysics Toolbox\n\t\t\n\t\t\tDHBrainard\n\t\t\n\t\n\t\n\t\tSpatial Vision\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40db97723bebd86665ccc"},"refKey":3},
{"_key":"60c40db97723bebd86665cce","_id":"references/60c40db97723bebd86665cce","_rev":"_cfFlREO---","tei":"\n\t\n\t\tThe Eyelink Toolbox: Eye tracking with MATLAB and the Psychophysics Toolbox\n\t\t\n\t\t\tFWCornelissen\n\t\t\n\t\t\n\t\t\tEMPeters\n\t\t\n\t\t\n\t\t\tJPalmer\n\t\t\n\t\n\t\n\t\tBehavior Research Methods, Instruments, & Computers\n\t\t\n\t\t\t34\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40db97723bebd86665ccc"},"refKey":11},
{"_key":"60c40dd87723bebd86665cde","_id":"references/60c40dd87723bebd86665cde","_rev":"_cfFlREW---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\tPubMed: 20124702\n\n","document":{"$oid":"60c40dd87723bebd86665cdd"},"refKey":47},
{"_key":"60c40de27723bebd86665ce9","_id":"references/60c40de27723bebd86665ce9","_rev":"_cfFlREi---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\t\n\t\t\t\tR Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\n\t\t\t2020\n\t\t\tVienna\n\t\t\n\t\n\n","document":{"$oid":"60c40de27723bebd86665ce8"},"refKey":1},
{"_key":"60c40e327723bebd86665d12","_id":"references/60c40e327723bebd86665d12","_rev":"_cfFlREu---","tei":"\n\t\n\t\tTepiTool: A Pipeline for Computational Prediction of T Cell Epitope Candidates\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tJohnSidney\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t10.1002/cpim.12\n\t\t27479659\n\t\tPMC4981331\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Immunology\n\t\tCurrent Protocols in Immunology\n\t\t1934-3671\n\t\t\n\t\t\t114\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c40e327723bebd86665d11"},"refKey":19},
{"_key":"60c40e477723bebd86665d23","_id":"references/60c40e477723bebd86665d23","_rev":"_cfFlRE6---","tei":"\n\t\n\t\tStata Statistical Software: Release 14. College Station, TX: Stata-Corp LP\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c40e477723bebd86665d22"},"refKey":18},
{"_key":"60c40e497723bebd86665d26","_id":"references/60c40e497723bebd86665d26","_rev":"_cfFlRFG---","tei":"\n\t\n\t\tInteractive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40e497723bebd86665d25"},"refKey":42},
{"_key":"60c40e497723bebd86665d27","_id":"references/60c40e497723bebd86665d27","_rev":"_cfFlRFS---","tei":"\n\t\n\t\tSEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny\n\t\t\n\t\t\tNGaltier\n\t\t\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tCGautier\n\t\t\n\t\t10.1093/bioinformatics/12.6.543\n\t\tark:/67375/HXZ-CWBL5GQ5-J\n\t\tBED95A643F015F6DBF98AB062A83569C336EB7DF\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40e497723bebd86665d25"},"refKey":29},
{"_key":"60c40e497723bebd86665d28","_id":"references/60c40e497723bebd86665d28","_rev":"_cfFlRFe---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40e497723bebd86665d25"},"refKey":39},
{"_key":"60c40e497723bebd86665d29","_id":"references/60c40e497723bebd86665d29","_rev":"_cfFlRFu---","tei":"\n\t\n\t\tJalview Version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40e497723bebd86665d25"},"refKey":30},
{"_key":"60c40e497723bebd86665d2a","_id":"references/60c40e497723bebd86665d2a","_rev":"_cfFlRGC---","tei":"\n\t\n\t\tSearching the Sequence Read Archive using Jetstream and Wrangler\n\t\t\n\t\t\tKyleLevi\n\t\t\n\t\t\n\t\t\tMatsRynge\n\t\t\n\t\t\n\t\t\tEromaAbeysinghe\n\t\t\n\t\t\n\t\t\tRobertAEdwards\n\t\t\n\t\t10.1145/3219104.3229278\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the Practice and Experience on Advanced Research Computing - PEARC '18\n\t\t\t\tthe Practice and Experience on Advanced Research Computing - PEARC '18Pittsburgh, PA, USA, ACM\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40e497723bebd86665d25"},"refKey":37},
{"_key":"60c40ee67723bebd86665d63","_id":"references/60c40ee67723bebd86665d63","_rev":"_cfFlRGO---","tei":"\n\t\n\t\tImprovements to the APBS biomolecular solvation software suite\n\t\t\n\t\t\tElizabethJurrus\n\t\t\n\t\t\n\t\t\tDaveEngel\n\t\t\n\t\t\n\t\t\tKeithStar\n\t\t\n\t\t\n\t\t\tKyleMonson\n\t\t\n\t\t\n\t\t\tJuanBrandi\n\t\t\n\t\t\n\t\t\tLisaEFelberg\n\t\t\n\t\t\n\t\t\tDavidHBrookes\n\t\t\n\t\t\n\t\t\tLeightonWilson\n\t\t\n\t\t\n\t\t\tJiahuiChen\n\t\t\n\t\t\n\t\t\tKarinaLiles\n\t\t\n\t\t\n\t\t\tMinjuChun\n\t\t\n\t\t\n\t\t\tPeterLi\n\t\t\n\t\t\n\t\t\tDavidWGohara\n\t\t\n\t\t\n\t\t\tToddDolinsky\n\t\t\n\t\t\n\t\t\tRobertKonecny\n\t\t\n\t\t\n\t\t\tDavidRKoes\n\t\t\t0000-0002-6892-6614\n\t\t\n\t\t\n\t\t\tJensErikNielsen\n\t\t\n\t\t\n\t\t\tTeresaHead-Gordon\n\t\t\n\t\t\n\t\t\tWeihuaGeng\n\t\t\n\t\t\n\t\t\tRobertKrasny\n\t\t\n\t\t\n\t\t\tGuo-WeiWei\n\t\t\n\t\t\n\t\t\tMichaelJHolst\n\t\t\n\t\t\n\t\t\tJAndrewMccammon\n\t\t\n\t\t\n\t\t\tNathanABaker\n\t\t\t0000-0002-5892-6506\n\t\t\n\t\t10.1002/pro.3280\n\t\t28836357\n\t\tPMC5734301\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c40ee67723bebd86665d62"},"refKey":13},
{"_key":"60c40f037723bebd86665d79","_id":"references/60c40f037723bebd86665d79","_rev":"_cfFlRGe---","tei":"\n\t\n\t\tBAlaS: fast, interactive and accessible computational alaninescanning using BudeAlaScan\n\t\t\n\t\t\tCWWood\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40f037723bebd86665d78"},"refKey":13},
{"_key":"60c40f037723bebd86665d7a","_id":"references/60c40f037723bebd86665d7a","_rev":"_cfFlRGq---","tei":"\n\t\n\t\tPredicting and Experimentally Validating Hot-Spot Residues at Protein-Protein Interfaces\n\t\t\n\t\t\tAmaurysIbarra\n\t\t\n\t\t\n\t\t\tGailJBartlett\n\t\t\n\t\t\n\t\t\tZsofiaHegedus\n\t\t\n\t\t\n\t\t\tSomDutt\n\t\t\n\t\t\n\t\t\tFruzsinaHobor\n\t\t\n\t\t\n\t\t\tKatherineHorner\n\t\t\n\t\t\n\t\t\tKristinaHetherington\n\t\t\n\t\t\n\t\t\tKirstinSpence\n\t\t\n\t\t\n\t\t\tAdamNelson\n\t\t\n\t\t\n\t\t\tThomasEdwards\n\t\t\n\t\t\n\t\t\tDerekNWoolfson\n\t\t\n\t\t\n\t\t\tRichardSessions\n\t\t\n\t\t\n\t\t\tAndrewWilson\n\t\t\t0000-0001-9852-6366\n\t\t\n\t\t10.26434/chemrxiv.8479076.v1\n\t\t\n\t\n\t\n\t\tACS Chem Biol\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c40f037723bebd86665d78"},"refKey":14},
{"_key":"60c40f037723bebd86665d7b","_id":"references/60c40f037723bebd86665d7b","_rev":"_cfFlRG2---","tei":"\n\t\n\t\tElectrostatics of nanosystems: application to microtubules and the ribosome\n\t\t\n\t\t\tNABaker\n\t\t\n\t\t\n\t\t\tDSept\n\t\t\n\t\t\n\t\t\tSJoseph\n\t\t\n\t\t\n\t\t\tMJHolst\n\t\t\n\t\t\n\t\t\tJAMccammon\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t98\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40f037723bebd86665d78"},"refKey":15},
{"_key":"60c40f097723bebd86665d81","_id":"references/60c40f097723bebd86665d81","_rev":"_cfFlRHC---","tei":"\n\t\n\t\tThe Subread aligner: fast, accurate and scalable read mapping by seed-and-vote\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t10\n\t\t\te108\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40f097723bebd86665d80"},"refKey":31},
{"_key":"60c40f097723bebd86665d82","_id":"references/60c40f097723bebd86665d82","_rev":"_cfFlRHO---","tei":"\n\t\n\t\tTopHat: discovering splice junctions with RNA-Seq\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tLPachter\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40f097723bebd86665d80"},"refKey":27},
{"_key":"60c40f097723bebd86665d83","_id":"references/60c40f097723bebd86665d83","_rev":"_cfFlRHa---","tei":"\n\t\n\t\tNetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis\n\t\t\n\t\t\tGuangyanZhou\n\t\t\n\t\t\n\t\t\tOthmanSoufan\n\t\t\n\t\t\n\t\t\tJessicaEwald\n\t\t\n\t\t\n\t\t\tRobertE WHancock\n\t\t\n\t\t\n\t\t\tNiladriBasu\n\t\t\n\t\t\n\t\t\tJianguoXia\n\t\t\t0000-0003-2040-2624\n\t\t\n\t\t10.1093/nar/gkz240\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c40f097723bebd86665d80"},"refKey":44},
{"_key":"60c40f097723bebd86665d84","_id":"references/60c40f097723bebd86665d84","_rev":"_cfFlRHm---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40f097723bebd86665d80"},"refKey":36},
{"_key":"60c40f1f7723bebd86665d96","_id":"references/60c40f1f7723bebd86665d96","_rev":"_cfFlRHy---","tei":"\n\t\n\t\tCombination of α-glucosidase inhibitor and ribavirin for the treatment of dengue virus infection in vitro and in vivo\n\t\t\n\t\t\tDs ;Biovia\n\t\t\n\t\t\n\t\t\tJChang\n\t\t\n\t\t\n\t\t\tWSchul\n\t\t\n\t\t\n\t\t\tTDButters\n\t\t\n\t\t10.1016/j.antiviral.2010.11.002\n\t\t\n\t\n\t\n\t\tDassault Systèmes\n\t\t\t\tSan Diego\n\t\t\n\t\t\t\n\t\t\t89\n\t\t\t\n\t\t\n\t\n\tDiscovery studio modeling environment\n\n","document":{"$oid":"60c40f1f7723bebd86665d95"},"refKey":3},
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{"_key":"60c40f9f7723bebd86665e4a","_id":"references/60c40f9f7723bebd86665e4a","_rev":"_cfFlRIK---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40f9f7723bebd86665e49"},"refKey":38},
{"_key":"60c40fad7723bebd86665e59","_id":"references/60c40fad7723bebd86665e59","_rev":"_cfFlRIW---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tOpen Source Computer Vision (OpenCV) Library. Available\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40fad7723bebd86665e58"},"refKey":31},
{"_key":"60c40fb57723bebd86665e71","_id":"references/60c40fb57723bebd86665e71","_rev":"_cfFlRIi---","tei":"\n\t\n\t\t\n\t\t\tEmilijaPerković\n\t\t\n\t\t\n\t\t\tJohannesTextor\n\t\t\n\t\t\n\t\t\tMarkusKalisch\n\t\t\n\t\t\n\t\t\tMarloesHMaathuis\n\t\t\n\t\tarXiv:1507.01524\n\t\tA Complete Generalized Adjustment Criterion. arXiv e-prints, art\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40fb57723bebd86665e70"},"refKey":47},
{"_key":"60c40fc37723bebd86665e80","_id":"references/60c40fc37723bebd86665e80","_rev":"_cfFlRIu---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40fc37723bebd86665e7f"},"refKey":11},
{"_key":"60c40fc37723bebd86665e81","_id":"references/60c40fc37723bebd86665e81","_rev":"_cfFlRI6---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40fc37723bebd86665e7f"},"refKey":12},
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{"_key":"60c40fc37723bebd86665e83","_id":"references/60c40fc37723bebd86665e83","_rev":"_cfFlRJS---","tei":"\n\t\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMAFFT: iterative refinement and additional methods\n\t\t\t\t\n\t\t\t\n\t\t\t1079\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40fc37723bebd86665e7f"},"refKey":10},
{"_key":"60c40fc37723bebd86665e84","_id":"references/60c40fc37723bebd86665e84","_rev":"_cfFlRJe---","tei":"\n\t\n\t\tSWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling\n\t\t\n\t\t\tNGuex\n\t\t\n\t\t\n\t\t\tMCPeitsch\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40fc37723bebd86665e7f"},"refKey":30},
{"_key":"60c40fc37723bebd86665e85","_id":"references/60c40fc37723bebd86665e85","_rev":"_cfFlRJq---","tei":"\n\t\n\t\tModeller: generation and refinement of homology-based protein structure models\n\t\t\n\t\t\tAFiser\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t374\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c40fc37723bebd86665e7f"},"refKey":31},
{"_key":"60c40fed7723bebd86665ebb","_id":"references/60c40fed7723bebd86665ebb","_rev":"_cfFlRJ2---","tei":"\n\t\n\t\tApplication of the PM6 semi-empirical method to modeling proteins enhances docking accuracy of AutoDock\n\t\t\n\t\t\tZsoltBikadi\n\t\t\n\t\t\n\t\t\tEszterHazai\n\t\t\n\t\t10.1186/1758-2946-1-15\n\t\t20150996\n\t\tPMC2820493\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJ Cheminform\n\t\t1758-2946\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t15\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c40fed7723bebd86665eba"},"refKey":0},
{"_key":"60c4100b7723bebd86665ed1","_id":"references/60c4100b7723bebd86665ed1","_rev":"_cfFlRKC---","tei":"\n\t\n\t\tFast and accurate short read alignment with burrows-wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4100b7723bebd86665ed0"},"refKey":26},
{"_key":"60c4100b7723bebd86665ed2","_id":"references/60c4100b7723bebd86665ed2","_rev":"_cfFlRKO---","tei":"\n\t\n\t\tEXPLOITING NEXT GENERATION SEQUENCING TO SOLVE THE HAPLOTYPING PUZZLE IN POLYPLOIDS: A SIMULATION STUDY\n\t\t\n\t\t\tEhsanMotazedi\n\t\t\t0000-0003-1195-6393\n\t\t\n\t\t\n\t\t\tRichardFinkers\n\t\t\n\t\t\n\t\t\tChrisMaliepaard\n\t\t\n\t\t\n\t\t\tDickDe Ridder\n\t\t\t0000-0002-4944-4310\n\t\t\n\t\t10.1101/088112\n\t\t\n\t\n\t\n\t\tBriefings in bioinformatics\n\t\t\n\t\t\t19\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4100b7723bebd86665ed0"},"refKey":27},
{"_key":"60c4100b7723bebd86665ed3","_id":"references/60c4100b7723bebd86665ed3","_rev":"_cfFlRKa---","tei":"\n\t\n\t\tA Graph Auto-Encoder for Haplotype Assembly and Viral Quasispecies Reconstruction\n\t\t\n\t\t\tZKe\n\t\t\n\t\t\n\t\t\tHVikalo\n\t\t\n\t\n\t\n\t\tProceedings of The Thirty-Fourth AAAI Conference on Artificial Intelligence\n\t\t\t\tThe Thirty-Fourth AAAI Conference on Artificial Intelligence\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4100b7723bebd86665ed0"},"refKey":19},
{"_key":"60c4100b7723bebd86665ed4","_id":"references/60c4100b7723bebd86665ed4","_rev":"_cfFlRKm---","tei":"\n\t\n\t\tHapCompass: A Fast Cycle Basis Algorithm for Accurate Haplotype Assembly of Sequence Data\n\t\t\n\t\t\tDerekAguiar\n\t\t\n\t\t\n\t\t\tSorinIstrail\n\t\t\n\t\t10.1089/cmb.2012.0084\n\t\t22697235\n\t\tPMC3375639\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t19\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c4100b7723bebd86665ed0"},"refKey":0},
{"_key":"60c4100b7723bebd86665ed5","_id":"references/60c4100b7723bebd86665ed5","_rev":"_cfFlRKy---","tei":"\n\t\n\t\tViral quasispecies reconstruction via tensor factorization with successive read removal\n\t\t\n\t\t\tSoyeonAhn\n\t\t\n\t\t\n\t\t\tZiqiKe\n\t\t\n\t\t\n\t\t\tHarisVikalo\n\t\t\n\t\t10.1093/bioinformatics/bty291\n\t\t29949976\n\t\tPMC6022648\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4100b7723bebd86665ed0"},"refKey":2},
{"_key":"60c4100b7723bebd86665ed6","_id":"references/60c4100b7723bebd86665ed6","_rev":"_cfFlRL----","tei":"\n\t\n\t\tART: a next-generation sequencing read simulator\n\t\t\n\t\t\tWeichunHuang\n\t\t\n\t\t\n\t\t\tLepingLi\n\t\t\n\t\t\n\t\t\tJasonRMyers\n\t\t\n\t\t\n\t\t\tGaborTMarth\n\t\t\n\t\t10.1093/bioinformatics/btr708\n\t\t22199392\n\t\tPMC3278762\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4100b7723bebd86665ed0"},"refKey":18},
{"_key":"60c4100b7723bebd86665ed7","_id":"references/60c4100b7723bebd86665ed7","_rev":"_cfFlRLK---","tei":"\n\t\n\t\tHapTree: A Novel Bayesian Framework for Single Individual Polyplotyping Using NGS Data\n\t\t\n\t\t\tEmilyBerger\n\t\t\n\t\t\n\t\t\tDenizYorukoglu\n\t\t\n\t\t\n\t\t\tJianPeng\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t10.1007/978-3-319-05269-4_2\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4100b7723bebd86665ed0"},"refKey":5},
{"_key":"60c4100b7723bebd86665ed8","_id":"references/60c4100b7723bebd86665ed8","_rev":"_cfFlRLW---","tei":"\n\t\n\t\tH-PoP and H-PoPG: heuristic partitioning algorithms for single individual haplotyping of polyploids\n\t\t\n\t\t\tMinzhuXie\n\t\t\n\t\t\n\t\t\tQiongWu\n\t\t\n\t\t\n\t\t\tJianxinWang\n\t\t\n\t\t\n\t\t\tTaoJiang\n\t\t\n\t\t10.1093/bioinformatics/btw537\n\t\t27531103\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4100b7723bebd86665ed0"},"refKey":39},
{"_key":"60c4100b7723bebd86665ed9","_id":"references/60c4100b7723bebd86665ed9","_rev":"_cfFlRLi---","tei":"\n\t\n\t\tSDhaP: haplotype assembly for diploids and polyploids via semi-definite programming\n\t\t\n\t\t\tShreepriyaDas\n\t\t\n\t\t\n\t\t\tHarisVikalo\n\t\t\n\t\t10.1186/s12864-015-1408-5\n\t\t25885901\n\t\tPMC4422552\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4100b7723bebd86665ed0"},"refKey":10},
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{"_key":"60c4100b7723bebd86665edc","_id":"references/60c4100b7723bebd86665edc","_rev":"_cfFlRMC---","tei":"\n\t\n\t\tHIV Haplotype Inference Using a Propagating Dirichlet Process Mixture Model\n\t\t\n\t\t\tSandhyaPrabhakaran\n\t\t\n\t\t\n\t\t\tMelanieRey\n\t\t\n\t\t\n\t\t\tOsvaldoZagordi\n\t\t\n\t\t\n\t\t\tNikoBeerenwinkel\n\t\t\n\t\t\n\t\t\tVolkerRoth\n\t\t\n\t\t10.1109/tcbb.2013.145\n\t\t26355517\n\t\n\t\n\t\tIEEE/ACM Transactions on Computational Biology and Bioinformatics\n\t\tIEEE/ACM Trans. Comput. Biol. and Bioinf.\n\t\t1545-5963\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c4100b7723bebd86665ed0"},"refKey":30},
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{"_key":"60c410137723bebd86665f11","_id":"references/60c410137723bebd86665f11","_rev":"_cfFlRMm---","tei":"\n\t\n\t\tIntroduction to Mediation, Moderation, and Conditional Process Analysis: A Regression-Based Approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford Press\n\t\t\tNew York, NY, US\n\t\t\n\t\n\n","document":{"$oid":"60c410137723bebd86665f10"},"refKey":46},
{"_key":"60c410377723bebd86665f26","_id":"references/60c410377723bebd86665f26","_rev":"_cfFlRMy---","tei":"\n\t\n\t\tEpi Info Version 6: a word processing, database and statistics program for epidemiology on microcomputers\n\t\t\n\t\t\tAGDean\n\t\t\n\t\t\n\t\t\tJADean\n\t\t\n\t\t\n\t\t\tDCoulombier\n\t\t\n\t\t\n\t\t\tKABrendel\n\t\t\n\t\t\n\t\t\tDCSmith\n\t\t\n\t\t\n\t\t\tAHBurton\n\t\t\n\t\t\n\t\t\tRCDicker\n\t\t\n\t\t\n\t\t\tKSullivan\n\t\t\n\t\t\n\t\t\tRFFagan\n\t\t\n\t\t\n\t\t\tTGArner\n\t\t\n\t\n\t\n\t\tCenters for Disease Control and Prevention\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c410377723bebd86665f25"},"refKey":28},
{"_key":"60c410407723bebd86665f29","_id":"references/60c410407723bebd86665f29","_rev":"_cfFlRN----","tei":"\n\t\n\t\tCAIcal: A combined set of tools to assess codon usage adaptation\n\t\t\n\t\t\tPerePuigbò\n\t\t\n\t\t\n\t\t\tIgnacioGBravo\n\t\t\n\t\t\n\t\t\tSantiagoGarcia-Vallve\n\t\t\n\t\t10.1186/1745-6150-3-38\n\t\t18796141\n\t\tPMC2553769\n\t\t\n\t\n\t\n\t\tBiology Direct\n\t\tBiology Direct\n\t\t1745-6150\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t38\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c410407723bebd86665f28"},"refKey":61},
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{"_key":"60c410407723bebd86665f2c","_id":"references/60c410407723bebd86665f2c","_rev":"_cfFlRNi---","tei":"\n\t\n\t\tAssessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified\n\t\t\n\t\t\tTMKeane\n\t\t\n\t\t\n\t\t\tCJCreevey\n\t\t\n\t\t\n\t\t\tMMPentony\n\t\t\n\t\t\n\t\t\tTJNaughton\n\t\t\n\t\t\n\t\t\tJOMclnerney\n\t\t\n\t\t10.1186/1471-2148-6-29\n\t\n\t\n\t\tBMC Evol. Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c410407723bebd86665f28"},"refKey":47},
{"_key":"60c4106f7723bebd86665f41","_id":"references/60c4106f7723bebd86665f41","_rev":"_cfFlRNq---","tei":"\n\t\n\t\tGephi: an open source software for exploring and manipulating networks\n\t\t\n\t\t\tMBastian\n\t\t\n\t\t\n\t\t\tSHeymann\n\t\t\n\t\t\n\t\t\tMJacomy\n\t\t\n\t\n\t\n\t\tInternational AAAI Conference on Weblogs and Social Media\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4106f7723bebd86665f40"},"refKey":10},
{"_key":"60c4106f7723bebd86665f42","_id":"references/60c4106f7723bebd86665f42","_rev":"_cfFlRN2---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4106f7723bebd86665f40"},"refKey":87},
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{"_key":"60c410917723bebd86665f8f","_id":"references/60c410917723bebd86665f8f","_rev":"_cfFlROm---","tei":"\n\t\n\t\tComprehensive integration of single cell data\n\t\t\n\t\t\tTimStuart\n\t\t\t0000-0002-3044-0897\n\t\t\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\t0000-0002-7693-8957\n\t\t\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\t0000-0001-5898-694X\n\t\t\n\t\t\n\t\t\tWilliamMMauck\n\t\t\n\t\t\n\t\t\tMarlonStoeckius\n\t\t\t0000-0002-5658-029X\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\t0000-0003-0772-1647\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/460147\n\t\tdoi: 10.1016/j. cell.2019.05.031\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t177\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c410917723bebd86665f8d"},"refKey":71},
{"_key":"60c410917723bebd86665f90","_id":"references/60c410917723bebd86665f90","_rev":"_cfFlROy---","tei":"\n\t\n\t\tScanpy for analysis of large-scale single-cell gene expression data\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tPhilippAngerer\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/174029\n\t\tdoi: 10.1186/ s13059-017-1382-0\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t19\n\t\t\t15\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c410917723bebd86665f8d"},"refKey":76},
{"_key":"60c410917723bebd86665f91","_id":"references/60c410917723bebd86665f91","_rev":"_cfFlRP----","tei":"\n\t\n\t\tcellHarmony: cell-level matching and holistic comparison of single-cell transcriptomes\n\t\t\n\t\t\tEricaA KDepasquale\n\t\t\n\t\t\n\t\t\tDanielSchnell\n\t\t\n\t\t\n\t\t\tPhillipDexheimer\n\t\t\n\t\t\n\t\t\tKyleFerchen\n\t\t\n\t\t\n\t\t\tStuartHay\n\t\t\n\t\t\n\t\t\tKashishChetal\n\t\t\n\t\t\n\t\t\tÍñigoValiente-Alandí\n\t\t\n\t\t\n\t\t\tBurnsCBlaxall\n\t\t\n\t\t\n\t\t\tHLeightonGrimes\n\t\t\n\t\t\n\t\t\tNathanSalomonis\n\t\t\n\t\t10.1093/nar/gkz789\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\te138\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c410917723bebd86665f8d"},"refKey":77},
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{"_key":"60c410997723bebd86665fa5","_id":"references/60c410997723bebd86665fa5","_rev":"_cfFlRPW---","tei":"\n\t\n\t\tMplus. The comprehensive modelling program for applied researchers: User's guide\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t\n\t\t\t\n\t\t\t5\n\t\t\n\t\n\n","document":{"$oid":"60c410997723bebd86665fa4"},"refKey":17},
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{"_key":"60c410b27723bebd86665fc3","_id":"references/60c410b27723bebd86665fc3","_rev":"_cfFlRPq---","tei":"\n\t\n\t\tViennaRNA Package 2.0\n\t\t\n\t\t\tRonnyLorenz\n\t\t\n\t\t\n\t\t\tStephanHBernhart\n\t\t\n\t\t\n\t\t\tChristianHöner Zu Siederdissen\n\t\t\n\t\t\n\t\t\tHakimTafer\n\t\t\n\t\t\n\t\t\tChristophFlamm\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t10.1186/1748-7188-6-26\n\t\t22115189\n\t\tPMC3319429\n\t\t\n\t\n\t\n\t\tAlgorithms for Molecular Biology\n\t\tAlgorithms Mol Biol\n\t\t1748-7188\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t26\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c410b27723bebd86665fc2"},"refKey":33},
{"_key":"60c410b27723bebd86665fc4","_id":"references/60c410b27723bebd86665fc4","_rev":"_cfFlRP2---","tei":"\n\t\n\t\tRNA FRABASE version 1.0: an engine with a database to search for the three-dimensional fragments within RNA structures\n\t\t\n\t\t\tMariuszPopenda\n\t\t\n\t\t\n\t\t\tMarekBłażewicz\n\t\t\n\t\t\n\t\t\tMartaSzachniuk\n\t\t\n\t\t\n\t\t\tRyszardWAdamiak\n\t\t\n\t\t10.1093/nar/gkm786\n\t\t17921499\n\t\tPMC2238875\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tsuppl_1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c410b27723bebd86665fc2"},"refKey":49},
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{"_key":"60c410b27723bebd86665fc6","_id":"references/60c410b27723bebd86665fc6","_rev":"_cfFlRQO---","tei":"\n\t\n\t\tStructRNAfinder: an automated pipeline and web server for RNA families prediction\n\t\t\n\t\t\tRaúlArias-Carrasco\n\t\t\n\t\t\n\t\t\tYesseniaVásquez-Morán\n\t\t\n\t\t\n\t\t\tHelderINakaya\n\t\t\n\t\t\n\t\t\tViniciusMaracaja-Coutinho\n\t\t\t0000-0002-8873-9381\n\t\t\n\t\t10.1186/s12859-018-2052-2\n\t\t29454313\n\t\tPMC5816368\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t55\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c410b27723bebd86665fc2"},"refKey":12},
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{"_key":"60c410b27723bebd86665fc8","_id":"references/60c410b27723bebd86665fc8","_rev":"_cfFlRQm---","tei":"\n\t\n\t\ttRNAscan-SE On-line: integrating search and context for analysis of transfer RNA genes\n\t\t\n\t\t\tToddMLowe\n\t\t\n\t\t\n\t\t\tPatriciaPChan\n\t\t\n\t\t10.1093/nar/gkw413\n\t\t27174935\n\t\tPMC4987944\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c410b27723bebd86665fc2"},"refKey":34},
{"_key":"60c410b27723bebd86665fc9","_id":"references/60c410b27723bebd86665fc9","_rev":"_cfFlRQy---","tei":"\n\t\n\t\tInfernal 1.1: 100-fold faster RNA homology searches\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t10.1093/bioinformatics/btt509\n\t\t24008419\n\t\tPMC3810854\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c410b27723bebd86665fc2"},"refKey":43},
{"_key":"60c410c07723bebd86665fe5","_id":"references/60c410c07723bebd86665fe5","_rev":"_cfFlRR----","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSPáll\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\n\t\n\t\tSoftwareX\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c410c07723bebd86665fe4"},"refKey":0},
{"_key":"60c410c67723bebd86665ff5","_id":"references/60c410c67723bebd86665ff5","_rev":"_cfFlRRK---","tei":"\n\t\n\t\tKVM: the Linux virtual machine monitor\n\t\t\n\t\t\tAKivity\n\t\t\n\t\t\n\t\t\tYKamay\n\t\t\n\t\t\n\t\t\tDLaor\n\t\t\n\t\t\n\t\t\tULublin\n\t\t\n\t\t\n\t\t\tALiguori\n\t\t\n\t\n\t\n\t\tOttawa Linux Symposium\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c410c67723bebd86665ff4"},"refKey":12},
{"_key":"60c410d37723bebd86666013","_id":"references/60c410d37723bebd86666013","_rev":"_cfFlRRW---","tei":"\n\t\n\t\tDynamic network embedding by modeling triadic closure process\n\t\t\n\t\t\tLZhou\n\t\t\n\t\t\n\t\t\tYYang\n\t\t\n\t\t\n\t\t\tXRen\n\t\t\n\t\t\n\t\t\tFWu\n\t\t\n\t\t\n\t\t\tYZhuang\n\t\t\n\t\n\t\n\t\tThirty-Second AAAI Conference on Artificial Intelligence\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c410d37723bebd86666012"},"refKey":35},
{"_key":"60c410d37723bebd86666014","_id":"references/60c410d37723bebd86666014","_rev":"_cfFlRRi---","tei":"\n\t\n\t\tDynGEM: deep embedding method for dynamic graphs\n\t\t\n\t\t\tNKamra\n\t\t\n\t\t\n\t\t\tPGoyal\n\t\t\n\t\t\n\t\t\tXHe\n\t\t\n\t\t\n\t\t\tYLiu\n\t\t\n\t\n\t\n\t\tIJCAI International Workshop on Representation Learning for Graphs\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c410d37723bebd86666012"},"refKey":9},
{"_key":"60c410d37723bebd86666015","_id":"references/60c410d37723bebd86666015","_rev":"_cfFlRRu---","tei":"\n\t\n\t\tDynamic graph representation learning via self-attention networks\n\t\t\n\t\t\tASankar\n\t\t\n\t\t\n\t\t\tYWu\n\t\t\n\t\t\n\t\t\tLGou\n\t\t\n\t\t\n\t\t\tWZhang\n\t\t\n\t\t\n\t\t\tHYang\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c410d37723bebd86666012"},"refKey":23},
{"_key":"60c4110b7723bebd8666602c","_id":"references/60c4110b7723bebd8666602c","_rev":"_cfFlRR2---","tei":"\n\t\n\t\tUniversity of California\n\t\t\n\t\t\tTGoddard\n\t\t\n\t\t\n\t\t\tDKneller\n\t\t\n\t\t\n\t\t\t\n\t\t\t14\n\t\t\t15\n\t\t\tSan Francisco\n\t\t\n\t\n\n","document":{"$oid":"60c4110b7723bebd8666602b"},"refKey":19},
{"_key":"60c411247723bebd86666043","_id":"references/60c411247723bebd86666043","_rev":"_cfFlRSC---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c411247723bebd86666042"},"refKey":11},
{"_key":"60c411247723bebd86666044","_id":"references/60c411247723bebd86666044","_rev":"_cfFlRSO---","tei":"\n\t\n\t\tJalview version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c411247723bebd86666042"},"refKey":17},
{"_key":"60c411507723bebd86666060","_id":"references/60c411507723bebd86666060","_rev":"_cfFlRSa---","tei":"\n\t\n\t\tMinimum Information About a Microarray Experiment (MIAME) – Successes, Failures, Challenges\n\t\t\n\t\t\tAlvisBrazma\n\t\t\n\t\t\n\t\t\tPHingamp\n\t\t\n\t\t\n\t\t\tJQuackenbush\n\t\t\n\t\t\n\t\t\tGSherlock\n\t\t\n\t\t\n\t\t\tPSpellman\n\t\t\n\t\t10.1100/tsw.2009.57\n\t\t19484163\n\t\tPMC5823224\n\t\t\n\t\n\t\n\t\tThe Scientific World JOURNAL\n\t\tThe Scientific World JOURNAL\n\t\t1537-744X\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c411507723bebd8666605f"},"refKey":56},
{"_key":"60c411787723bebd86666070","_id":"references/60c411787723bebd86666070","_rev":"_cfFlRSm---","tei":"\n\t\n\t\tDeveloping and Validating a Short Version of Wolff and Moser’s Networking Scale: Three Studies\n\t\t\n\t\t\tTDe Wolff\n\t\t\n\t\t\n\t\t\tEOKwaakwah\n\t\t\n\t\t\n\t\t\tCO'neill\n\t\t\n\t\t10.5465/ambpp.2018.15875abstract\n\t\t\n\t\n\t\n\t\tAcademy of Management Proceedings\n\t\tProceedings\n\t\tViro.sage\n\t\t0065-0668\n\t\t2151-6561\n\t\t\n\t\t\t2018\n\t\t\t1\n\t\t\t15875\n\t\t\t\n\t\t\tAcademy of Management\n\t\t\n\t\n\n","document":{"$oid":"60c411787723bebd8666606f"},"refKey":17},
{"_key":"60c411787723bebd86666071","_id":"references/60c411787723bebd86666071","_rev":"_cfFlRSy---","tei":"\n\t\n\t\tParallel enumeration of triangulations. Electron\n\t\t\n\t\t\tCJordan\n\t\t\n\t\t\n\t\t\tMJoswig\n\t\t\n\t\t\n\t\t\tLKastner\n\t\t\n\t\n\t\n\t\tJ. Combin\n\t\t\n\t\t\t25\n\t\t\t3\n\t\t\t27\n\t\t\t\n\t\t\n\t\n\tPaper 3.6\n\n","document":{"$oid":"60c411787723bebd8666606f"},"refKey":9},
{"_key":"60c411787723bebd86666072","_id":"references/60c411787723bebd86666072","_rev":"_cfFlRT----","tei":"\n\t\n\t\tCombinatorial patchworking tool\n\t\t\n\t\t\tBEl-Hilany\n\t\t\n\t\t\n\t\t\tJRau\n\t\t\n\t\t\n\t\t\tAReneaudineau\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c411787723bebd8666606f"},"refKey":3},
{"_key":"60c411a77723bebd86666098","_id":"references/60c411a77723bebd86666098","_rev":"_cfFlRTK---","tei":"\n\t\n\t\tAQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJARullmannn\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tRKaptein\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c411a77723bebd86666097"},"refKey":64},
{"_key":"60c411a77723bebd86666099","_id":"references/60c411a77723bebd86666099","_rev":"_cfFlRTW---","tei":"\n\t\n\t\tMOLPROB-ITY: structure validation and all-atom contact analysis for nucleic acids and their complexes\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c411a77723bebd86666097"},"refKey":65},
{"_key":"60c411a77723bebd8666609a","_id":"references/60c411a77723bebd8666609a","_rev":"_cfFlRTi---","tei":"\n\t\n\t\tLIGPLOT: a program to generate schematic diagrams of protein-ligand interactions\n\t\t\n\t\t\tACWallace\n\t\t\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tProtein Eng\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c411a77723bebd86666097"},"refKey":68},
{"_key":"60c411a77723bebd8666609b","_id":"references/60c411a77723bebd8666609b","_rev":"_cfFlRTu---","tei":"\n\t\n\t\tHigh b-value diffusion imaging\n\t\t\n\t\t\tMarkCDelano\n\t\t\n\t\t\n\t\t\tYueCao\n\t\t\n\t\t10.1016/s1052-5149(03)00068-6\n\t\t11998251\n\t\n\t\n\t\tNeuroimaging Clinics of North America\n\t\tNeuroimaging Clinics of North America\n\t\t1052-5149\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c411a77723bebd86666097"},"refKey":66},
{"_key":"60c411a77723bebd8666609c","_id":"references/60c411a77723bebd8666609c","_rev":"_cfFlRT6---","tei":"\n\t\n\t\tSEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny\n\t\t\n\t\t\tNGaltier\n\t\t\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tCGautier\n\t\t\n\t\t10.1093/bioinformatics/12.6.543\n\t\tark:/67375/HXZ-CWBL5GQ5-J\n\t\tBED95A643F015F6DBF98AB062A83569C336EB7DF\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c411a77723bebd86666097"},"refKey":69},
{"_key":"60c411a77723bebd8666609d","_id":"references/60c411a77723bebd8666609d","_rev":"_cfFlRUG---","tei":"\n\t\n\t\tEfficient anisotropic refinement of macromolecular structures using FFT\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tALebedev\n\t\t\n\t\t\n\t\t\tKSWilson\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t55\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c411a77723bebd86666097"},"refKey":62},
{"_key":"60c411a77723bebd8666609e","_id":"references/60c411a77723bebd8666609e","_rev":"_cfFlRUS---","tei":"\n\t\n\t\tProtein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons\n\t\t\n\t\t\tANicholls\n\t\t\n\t\t\n\t\t\tKASharp\n\t\t\n\t\t\n\t\t\tBHonig\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c411a77723bebd86666097"},"refKey":67},
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{"_key":"60c411ad7723bebd866660ad","_id":"references/60c411ad7723bebd866660ad","_rev":"_cfFlRUm---","tei":"\n\t\n\t\tProcedures for Personality and Psychological Research\n\t\t\n\t\t\tWRRevelle\n\t\t\n\t\t\n\t\t\tPsych\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c411ad7723bebd866660ac"},"refKey":38},
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{"_key":"60c411f17723bebd866660f7","_id":"references/60c411f17723bebd866660f7","_rev":"_cfFlRXu---","tei":"\n\t\n\t\tBoosting compound-protein interaction prediction by deep learning\n\t\t\n\t\t\tKaiTian\n\t\t\n\t\t\n\t\t\tMingyuShao\n\t\t\n\t\t\n\t\t\tYangWang\n\t\t\n\t\t\n\t\t\tJihongGuan\n\t\t\n\t\t\n\t\t\tShuigengZhou\n\t\t\n\t\t10.1016/j.ymeth.2016.06.024\n\t\t27378654\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t110\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c411f17723bebd866660f4"},"refKey":54},
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{"_key":"60c4132c7723bebd86666258","_id":"references/60c4132c7723bebd86666258","_rev":"_cfFlRem---","tei":"\n\t\n\t\tMODELLER, and IMP: an integrated modeling system\n\t\t\n\t\t\tZYang\n\t\t\n\t\t\n\t\t\tKLasker\n\t\t\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t179\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4132c7723bebd86666254"},"refKey":41},
{"_key":"60c4132c7723bebd86666259","_id":"references/60c4132c7723bebd86666259","_rev":"_cfFlReu---","tei":"\n\t\n\t\tiTALK: an R Package to Characterize and Illustrate Intercellular Communication\n\t\t\n\t\t\tYuanxinWang\n\t\t\n\t\t\n\t\t\tRuipingWang\n\t\t\n\t\t\n\t\t\tShaojunZhang\n\t\t\n\t\t\n\t\t\tShumeiSong\n\t\t\n\t\t\n\t\t\tChangyingJiang\n\t\t\n\t\t\n\t\t\tGuangchunHan\n\t\t\n\t\t\n\t\t\tMichaelWang\n\t\t\n\t\t\n\t\t\tJafferAjani\n\t\t\n\t\t\n\t\t\tAndyFutreal\n\t\t\n\t\t\n\t\t\tLinghuaWang\n\t\t\n\t\t10.1101/507871\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4132c7723bebd86666253"},"refKey":32},
{"_key":"60c4132c7723bebd8666625a","_id":"references/60c4132c7723bebd8666625a","_rev":"_cfFlRe6---","tei":"\n\t\n\t\tAQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJARullmannn\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tRKaptein\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4132c7723bebd86666254"},"refKey":40},
{"_key":"60c4132c7723bebd8666625b","_id":"references/60c4132c7723bebd8666625b","_rev":"_cfFlRfG---","tei":"\n\t\n\t\tGene ontology analysis for RNA-seq: accounting for selection bias\n\t\t\n\t\t\tMatthewDYoung\n\t\t\n\t\t\n\t\t\tMatthewJWakefield\n\t\t\n\t\t\n\t\t\tGordonKSmyth\n\t\t\n\t\t\n\t\t\tAliciaOshlack\n\t\t\n\t\t10.1186/gb-2010-11-2-r14\n\t\t20132535\n\t\tPMC2872874\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t11\n\t\t\t2\n\t\t\tR14\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4132c7723bebd86666253"},"refKey":33},
{"_key":"60c4132c7723bebd8666625c","_id":"references/60c4132c7723bebd8666625c","_rev":"_cfFlRfS---","tei":"\n\t\n\t\tRDP: detection of recombination amongst aligned sequences\n\t\t\n\t\t\tDMartin\n\t\t\n\t\t\n\t\t\tERybicki\n\t\t\n\t\t10.1093/bioinformatics/16.6.562\n\t\t10980155\n\t\t1460-2059\n\t\tark:/67375/HXZ-HFGKCW1P-T\n\t\t23BD6F406EB9238187A4D94959477721DBE8EFE2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4132c7723bebd86666254"},"refKey":22},
{"_key":"60c4132c7723bebd8666625e","_id":"references/60c4132c7723bebd8666625e","_rev":"_cfFlRfe---","tei":"\n\t\n\t\tRDP3: a flexible and fast computer program for analyzing recombination\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tMLott\n\t\t\n\t\t\n\t\t\tVMoulton\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tPLefeuvre\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4132c7723bebd86666254"},"refKey":23},
{"_key":"60c4132c7723bebd86666260","_id":"references/60c4132c7723bebd86666260","_rev":"_cfFlRfq---","tei":"\n\t\n\t\tRDP2: recombination detection and analysis from sequence alignments\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tCWilliamson\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bth490\n\t\t15377507\n\t\tark:/67375/HXZ-1CJ571R5-H\n\t\tFBF994AF07DCF440DBE2361DA623551B56A99871\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4132c7723bebd86666254"},"refKey":24},
{"_key":"60c4132c7723bebd86666262","_id":"references/60c4132c7723bebd86666262","_rev":"_cfFlRf2---","tei":"\n\t\n\t\tTOPALi v2: a rich graphical interface for evolutionary analyses of multiple alignments on HPC clusters and multi-core desktops\n\t\t\n\t\t\tIMilne\n\t\t\n\t\t\n\t\t\tDLindner\n\t\t\n\t\t\n\t\t\tMBayer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4132c7723bebd86666254"},"refKey":25},
{"_key":"60c4132c7723bebd86666264","_id":"references/60c4132c7723bebd86666264","_rev":"_cfFlRgC---","tei":"\n\t\n\t\tTOPALi: software for automatic identification of recombinant sequences within DNA multiple alignments\n\t\t\n\t\t\tIMilne\n\t\t\n\t\t\n\t\t\tFWright\n\t\t\n\t\t\n\t\t\tGRowe\n\t\t\n\t\t\n\t\t\tDFMarshall\n\t\t\n\t\t\n\t\t\tDHusmeier\n\t\t\n\t\t\n\t\t\tGMcguire\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4132c7723bebd86666254"},"refKey":26},
{"_key":"60c4132c7723bebd86666266","_id":"references/60c4132c7723bebd86666266","_rev":"_cfFlRgO---","tei":"\n\t\n\t\tDatamonkey 2010: a suite of phylogenetic analysis tools for evolutionary biology\n\t\t\n\t\t\tWDelport\n\t\t\n\t\t\n\t\t\tAFPoon\n\t\t\n\t\t\n\t\t\tSDFrost\n\t\t\n\t\t\n\t\t\tKosakovskyPond\n\t\t\n\t\t\n\t\t\tSL\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4132c7723bebd86666254"},"refKey":30},
{"_key":"60c4133e7723bebd8666628a","_id":"references/60c4133e7723bebd8666628a","_rev":"_cfFlRga---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c4133e7723bebd86666289"},"refKey":1},
{"_key":"60c413537723bebd8666628d","_id":"references/60c413537723bebd8666628d","_rev":"_cfFlRgi---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413537723bebd8666628c"},"refKey":28},
{"_key":"60c413537723bebd8666628e","_id":"references/60c413537723bebd8666628e","_rev":"_cfFlRgu---","tei":"\n\t\n\t\tFastTree 2--approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413537723bebd8666628c"},"refKey":29},
{"_key":"60c413537723bebd8666628f","_id":"references/60c413537723bebd8666628f","_rev":"_cfFlRg6---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413537723bebd8666628c"},"refKey":25},
{"_key":"60c4139b7723bebd866662b8","_id":"references/60c4139b7723bebd866662b8","_rev":"_cfFlRhG---","tei":"\n\t\n\t\tFast numerical computations with cython\n\t\t\n\t\t\tDag Sverre Seljebotn\n\t\t\n\t\n\t\n\t\tProceedings of the 8th Python in Science Conference\n\t\t\t\tthe 8th Python in Science Conference\n\t\t\n\t\t\t\n\t\t\t37\n\t\t\n\t\n\n","document":{"$oid":"60c4139b7723bebd866662b7"},"refKey":101},
{"_key":"60c4139b7723bebd866662b9","_id":"references/60c4139b7723bebd866662b9","_rev":"_cfFlRhS---","tei":"\n\t\n\t\tNumba: A llvm-based python jit compiler\n\t\t\n\t\t\tAntoineSiu Kwan Lam\n\t\t\n\t\t\n\t\t\tStanleyPitrou\n\t\t\n\t\t\n\t\t\tSeibert\n\t\t\n\t\n\t\n\t\tProceedings of the Second Workshop on the LLVM Compiler Infrastructure in HPC\n\t\t\t\tthe Second Workshop on the LLVM Compiler Infrastructure in HPC\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4139b7723bebd866662b7"},"refKey":67},
{"_key":"60c413b47723bebd866662cb","_id":"references/60c413b47723bebd866662cb","_rev":"_cfFlRhe---","tei":"\n\t\n\t\tScanpy for analysis of large-scale single-cell gene expression data\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tPhilippAngerer\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/174029\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t19\n\t\t\t15\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c413b47723bebd866662ca"},"refKey":59},
{"_key":"60c413c27723bebd866662db","_id":"references/60c413c27723bebd866662db","_rev":"_cfFlRhq---","tei":"\n\t\n\t\tGctf: Real-time CTF determination and correction\n\t\t\n\t\t\tKaiZhang\n\t\t\t0000-0001-8617-2855\n\t\t\n\t\t\n\t\t\tGctf\n\t\t\n\t\t10.1016/j.jsb.2015.11.003\n\t\t26592709\n\t\tPMC4711343\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t193\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c413c27723bebd866662da"},"refKey":39},
{"_key":"60c413c27723bebd866662dc","_id":"references/60c413c27723bebd866662dc","_rev":"_cfFlRh2---","tei":"\n\t\n\t\tRELION: Implementation of a Bayesian approach to cryo-EM structure determination\n\t\t\n\t\t\tShwScheres\n\t\t\n\t\t10.1016/j.jsb.2012.09.006\n\t\t23000701\n\t\tPMC3690530\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t180\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c413c27723bebd866662da"},"refKey":40},
{"_key":"60c413c27723bebd866662dd","_id":"references/60c413c27723bebd866662dd","_rev":"_cfFlRiC---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c413c27723bebd866662da"},"refKey":44},
{"_key":"60c413d57723bebd866662fd","_id":"references/60c413d57723bebd866662fd","_rev":"_cfFlRiO---","tei":"\n\t\n\t\tPsychoPy2: experiments in behavior made easy\n\t\t\n\t\t\tJPeirce\n\t\t\n\t\n\t\n\t\tBehav Res Met\n\t\t\n\t\t\t51\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413d57723bebd866662fc"},"refKey":44},
{"_key":"60c413d57723bebd866662fe","_id":"references/60c413d57723bebd866662fe","_rev":"_cfFlRia---","tei":"\n\t\n\t\tPsychoPy-Psychophysics software in python\n\t\t\n\t\t\tJWPeirce\n\t\t\n\t\n\t\n\t\tJ Neurosci Method\n\t\t\n\t\t\t162\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413d57723bebd866662fc"},"refKey":45},
{"_key":"60c413d57723bebd866662ff","_id":"references/60c413d57723bebd866662ff","_rev":"_cfFlRim---","tei":"\n\t\n\t\tGeneration stimuli for neuroscience using PsychoPy\n\t\t\n\t\t\tJWPeirce\n\t\t\n\t\n\t\n\t\tFrontiers Neuroinform\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413d57723bebd866662fc"},"refKey":46},
{"_key":"60c413d57723bebd86666300","_id":"references/60c413d57723bebd86666300","_rev":"_cfFlRiy---","tei":"\n\t\n\t\tThe psychophysics toolbox\n\t\t\n\t\t\tDHBrainard\n\t\t\n\t\n\t\n\t\tSpat Vis\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413d57723bebd866662fc"},"refKey":3},
{"_key":"60c413d57723bebd86666301","_id":"references/60c413d57723bebd86666301","_rev":"_cfFlRi6---","tei":"\n\t\n\t\tWhat's new in Psychtoolbox-3?\n\t\t\n\t\t\tMKleiner\n\t\t\n\t\t\n\t\t\tDBrainard\n\t\t\n\t\t\n\t\t\tDPelli\n\t\t\n\t\t\n\t\t\tAIngling\n\t\t\n\t\t\n\t\t\tRMurray\n\t\t\n\t\t\n\t\t\tCBroussard\n\t\t\n\t\n\t\n\t\tPerception\n\t\t\n\t\t\t36\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413d57723bebd866662fc"},"refKey":29},
{"_key":"60c413d57723bebd86666302","_id":"references/60c413d57723bebd86666302","_rev":"_cfFlRjG---","tei":"\n\t\n\t\tThe video toolbox software for visual psychophysics: transforming numbers into movies\n\t\t\n\t\t\tDGPelli\n\t\t\n\t\n\t\n\t\tSpat Vist\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413d57723bebd866662fc"},"refKey":47},
{"_key":"60c413f87723bebd8666631f","_id":"references/60c413f87723bebd8666631f","_rev":"_cfFlRjS---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413f87723bebd8666631e"},"refKey":43},
{"_key":"60c413f87723bebd86666320","_id":"references/60c413f87723bebd86666320","_rev":"_cfFlRje---","tei":"\n\t\n\t\tDynamo: A flexible, user-friendly development tool for subtomogram averaging of cryo-EM data in high-performance computing environments\n\t\t\n\t\t\tDanielCastaño-Díez\n\t\t\n\t\t\n\t\t\tMikhailKudryashev\n\t\t\n\t\t\n\t\t\tMarcelArheit\n\t\t\n\t\t\n\t\t\tHenningStahlberg\n\t\t\n\t\t10.1016/j.jsb.2011.12.017\n\t\t22245546\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t178\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c413f87723bebd8666631e"},"refKey":6},
{"_key":"60c413f87723bebd86666321","_id":"references/60c413f87723bebd86666321","_rev":"_cfFlRjq---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413f87723bebd8666631e"},"refKey":14},
{"_key":"60c413f87723bebd86666322","_id":"references/60c413f87723bebd86666322","_rev":"_cfFlRj2---","tei":"\n\t\n\t\tGctf: real-time CTF determination and correction\n\t\t\n\t\t\tKaiZhang\n\t\t\n\t\t10.1101/022376\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t193\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c413f87723bebd8666631e"},"refKey":72},
{"_key":"60c413f87723bebd86666323","_id":"references/60c413f87723bebd86666323","_rev":"_cfFlRkC---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tRBraun\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tJGumbart\n\t\t\n\t\t\n\t\t\tETajkhorshid\n\t\t\n\t\t\n\t\t\tEVilla\n\t\t\n\t\t\n\t\t\tCChipot\n\t\t\n\t\t\n\t\t\tRDSkeel\n\t\t\n\t\t\n\t\t\t´Kale\n\t\t\n\t\t\n\t\t\tLSchulten\n\t\t\n\t\t\n\t\t\tK\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413f87723bebd8666631e"},"refKey":44},
{"_key":"60c413f87723bebd86666324","_id":"references/60c413f87723bebd86666324","_rev":"_cfFlRkO---","tei":"\n\t\n\t\tElectron counting and beam-induced motion correction enable near-atomic-resolution single-particle cryo-EM\n\t\t\n\t\t\tXLi\n\t\t\n\t\t\n\t\t\tPMooney\n\t\t\n\t\t\n\t\t\tSZheng\n\t\t\n\t\t\n\t\t\tCRBooth\n\t\t\n\t\t\n\t\t\tMBBraunfeld\n\t\t\n\t\t\n\t\t\tSGubbens\n\t\t\n\t\t\n\t\t\tDAAgard\n\t\t\n\t\t\n\t\t\tYCheng\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c413f87723bebd8666631e"},"refKey":31},
{"_key":"60c413f87723bebd86666325","_id":"references/60c413f87723bebd86666325","_rev":"_cfFlRka---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c413f87723bebd8666631e"},"refKey":73},
{"_key":"60c413f87723bebd86666326","_id":"references/60c413f87723bebd86666326","_rev":"_cfFlRkm---","tei":"\n\t\n\t\tAveraging of Viral Envelope Glycoprotein Spikes from Electron Cryotomography Reconstructions using Jsubtomo\n\t\t\n\t\t\tJuhaTHuiskonen\n\t\t\n\t\t\n\t\t\tMarie-LaureParsy\n\t\t\n\t\t\n\t\t\tSaiLi\n\t\t\n\t\t\n\t\t\tDavidBitto\n\t\t\n\t\t\n\t\t\tMaxRenner\n\t\t\n\t\t\n\t\t\tThomasABowden\n\t\t\n\t\t10.3791/51714\n\t\t25350719\n\t\tPMC4353292\n\t\t\n\t\n\t\n\t\tJournal of Visualized Experiments\n\t\tJoVE\n\t\t1940-087X\n\t\t\n\t\t\t92\n\t\t\te51714\n\t\t\t\n\t\t\tMyJove Corporation\n\t\t\n\t\n\n","document":{"$oid":"60c413f87723bebd8666631e"},"refKey":21},
{"_key":"60c414197723bebd8666634a","_id":"references/60c414197723bebd8666634a","_rev":"_cfFlRky---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tCMcquin\n\t\t\n\t\t\n\t\t\tAGoodman\n\t\t\n\t\t\n\t\t\tVChernyshev\n\t\t\n\t\t\n\t\t\tLKamentsky\n\t\t\n\t\t\n\t\t\tBACimini\n\t\t\n\t\t\n\t\t\tKWKarhohs\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c414197723bebd86666349"},"refKey":38},
{"_key":"60c4142c7723bebd8666635b","_id":"references/60c4142c7723bebd8666635b","_rev":"_cfFlRl----","tei":"\n\t\n\t\tFFAS03: a server for profileeprofile sequence alignments\n\t\t\n\t\t\tLJaroszewski\n\t\t\n\t\t\n\t\t\tLRychlewski\n\t\t\n\t\t\n\t\t\tZLi\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4142c7723bebd8666635a"},"refKey":20},
{"_key":"60c414987723bebd8666637d","_id":"references/60c414987723bebd8666637d","_rev":"_cfFlRlG---","tei":"\n\t\n\t\tCurio SmartChat : A system for Natural Language Question Answering for Self-Paced K-12 Learning\n\t\t\n\t\t\tSrikrishnaRaamadhurai\n\t\t\n\t\t\n\t\t\tRyanBaker\n\t\t\n\t\t\n\t\t\tVikramanPoduval\n\t\t\n\t\t10.18653/v1/w19-4435\n\t\t\n\t\n\t\n\t\tProceedings of the Fourteenth Workshop on Innovative Use of NLP for Building Educational Applications\n\t\t\t\tthe Fourteenth Workshop on Innovative Use of NLP for Building Educational Applications\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c414987723bebd8666637c"},"refKey":20},
{"_key":"60c414987723bebd8666637e","_id":"references/60c414987723bebd8666637e","_rev":"_cfFlRlS---","tei":"\n\t\n\t\tReading Wikipedia to answer opendomain questions\n\t\t\n\t\t\tDChen\n\t\t\n\t\t\n\t\t\tAFisch\n\t\t\n\t\t\n\t\t\tJWeston\n\t\t\n\t\t\n\t\t\tABordes\n\t\t\n\t\n\t\n\t\tACL 2017 55th Annual Meeting of the Association for Computational Linguistics, Proceedings of the Conference (Long Papers)\n\t\t\t\t\n\t\t\tACL\n\t\t\t\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c414987723bebd8666637c"},"refKey":18},
{"_key":"60c4149c7723bebd86666383","_id":"references/60c4149c7723bebd86666383","_rev":"_cfFlRle---","tei":"\n\t\n\t\tCLUSTAL V: improved software for multiple sequence alignment\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t\n\t\t\tAlanJBleasby\n\t\t\n\t\t\n\t\t\tRainerFuchs\n\t\t\n\t\t10.1093/bioinformatics/8.2.189\n\t\tark:/67375/HXZ-BJBN86RR-1\n\t\t40D63784F619953CF4AA124B3B1D5C5670F1C946\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t8\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4149c7723bebd86666382"},"refKey":25},
{"_key":"60c414a77723bebd8666638a","_id":"references/60c414a77723bebd8666638a","_rev":"_cfFlRlq---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c414a77723bebd86666389"},"refKey":1},
{"_key":"60c414a77723bebd8666638b","_id":"references/60c414a77723bebd8666638b","_rev":"_cfFlRl2---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c414a77723bebd86666389"},"refKey":14},
{"_key":"60c414cb7723bebd866663a8","_id":"references/60c414cb7723bebd866663a8","_rev":"_cfFlRmC---","tei":"\n\t\n\t\tWinBUGS-a Bayesian modelling framework: concepts, structure, and extensibility\n\t\t\n\t\t\tDJLunn\n\t\t\n\t\t\n\t\t\tAThomas\n\t\t\n\t\t\n\t\t\tNBest\n\t\t\n\t\t\n\t\t\tDSpiegelhalter\n\t\t\n\t\n\t\n\t\tStatist. Comput\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c414cb7723bebd866663a7"},"refKey":22},
{"_key":"60c414f17723bebd866663c8","_id":"references/60c414f17723bebd866663c8","_rev":"_cfFlRmO---","tei":"\n\t\n\t\tProdigal: prokaryotic gene recognition and translation initiation site identification\n\t\t\n\t\t\tDHyatt\n\t\t\n\t\t\n\t\t\tG-LChen\n\t\t\n\t\t\n\t\t\tPFLocascio\n\t\t\n\t\t\n\t\t\tMLLand\n\t\t\n\t\t\n\t\t\tFWLarimer\n\t\t\n\t\t\n\t\t\tLJHauser\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t119\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c414f17723bebd866663c7"},"refKey":22},
{"_key":"60c414f17723bebd866663c9","_id":"references/60c414f17723bebd866663c9","_rev":"_cfFlRma---","tei":"\n\t\n\t\tgggenes: draw gene arrow maps in 'ggplot2\n\t\t\n\t\t\tDWilkins\n\t\t\n\t\t\n\t\n\tR package version 0.4. 0. 2019\n\n","document":{"$oid":"60c414f17723bebd866663c7"},"refKey":19},
{"_key":"60c414f17723bebd866663ca","_id":"references/60c414f17723bebd866663ca","_rev":"_cfFlRmm---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c414f17723bebd866663c7"},"refKey":17},
{"_key":"60c414f17723bebd866663cb","_id":"references/60c414f17723bebd866663cb","_rev":"_cfFlRmy---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBBuchfink\n\t\t\n\t\t\n\t\t\tCXie\n\t\t\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t59\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c414f17723bebd866663c7"},"refKey":23},
{"_key":"60c414f17723bebd866663cc","_id":"references/60c414f17723bebd866663cc","_rev":"_cfFlRm6---","tei":"\n\t\n\t\tggplot2\n\t\t\n\t\t\tHadleyWickham\n\t\t\n\t\t10.1002/wics.147\n\t\tark:/67375/WNG-D88W04X1-X\n\t\t13A0FE1CD154EA974D410598275284EF095E4859\n\t\n\t\n\t\tWiley Interdisciplinary Reviews: Computational Statistics\n\t\tWIREs Comp Stat\n\t\t1939-5108\n\t\t\n\t\t\t3\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c414f17723bebd866663c7"},"refKey":18},
{"_key":"60c414f17723bebd866663cd","_id":"references/60c414f17723bebd866663cd","_rev":"_cfFlRnG---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c414f17723bebd866663c7"},"refKey":20},
{"_key":"60c415027723bebd866663df","_id":"references/60c415027723bebd866663df","_rev":"_cfFlRnS---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap) -a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c415027723bebd866663de"},"refKey":4},
{"_key":"60c415057723bebd866663e2","_id":"references/60c415057723bebd866663e2","_rev":"_cfFlRne---","tei":"\n\t\n\t\tScalable molecular dynamics on CPU and GPU architectures with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tDJHardy\n\t\t\n\t\t\n\t\t\tJD CMaia\n\t\t\n\t\t\n\t\t\tJEStone\n\t\t\n\t\t\n\t\t\tJVRibeiro\n\t\t\n\t\t\n\t\t\tRCBernardi\n\t\t\n\t\t\n\t\t\tRBuch\n\t\t\n\t\t\n\t\t\tGFiorin\n\t\t\n\t\t\n\t\t\tJHenin\n\t\t\n\t\t\n\t\t\tWJiang\n\t\t\n\t\t10.1063/5.0014475\n\t\n\t\n\t\tJ. Chem. Phys\n\t\t\n\t\t\t2020\n\t\t\t44130\n\t\t\n\t\n\n","document":{"$oid":"60c415057723bebd866663e1"},"refKey":39},
{"_key":"60c415057723bebd866663e3","_id":"references/60c415057723bebd866663e3","_rev":"_cfFlRnq---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c415057723bebd866663e1"},"refKey":37},
{"_key":"60c415057723bebd866663e4","_id":"references/60c415057723bebd866663e4","_rev":"_cfFlRn2---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c415057723bebd866663e1"},"refKey":41},
{"_key":"60c415057723bebd866663e5","_id":"references/60c415057723bebd866663e5","_rev":"_cfFlRoC---","tei":"\n\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\t\n\t\t\tChimerax\n\t\t\n\t\t10.1002/pro.3943\n\t\n\t\n\t\tStructure visualization for researchers\n\t\t\t\t\n\t\t\t\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c415057723bebd866663e1"},"refKey":36},
{"_key":"60c415167723bebd86666406","_id":"references/60c415167723bebd86666406","_rev":"_cfFlRoO---","tei":"\n\t\n\t\tForecasting at Scale\n\t\t\n\t\t\tSeanJTaylor\n\t\t\n\t\t\n\t\t\tBenjaminLetham\n\t\t\n\t\t10.1080/00031305.2017.1380080\n\t\tdoi: 10. 1080/0 0 031305.2017.1380080\n\t\n\t\n\t\tThe American Statistician\n\t\tThe American Statistician\n\t\t0003-1305\n\t\t1537-2731\n\t\t\n\t\t\t72\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c415167723bebd86666405"},"refKey":13},
{"_key":"60c4151e7723bebd86666411","_id":"references/60c4151e7723bebd86666411","_rev":"_cfFlRoa---","tei":"\n\t\n\t\tChange-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data: Table 1.\n\t\t\n\t\t\tNamitaTGupta\n\t\t\n\t\t\n\t\t\tJasonAVander Heiden\n\t\t\n\t\t\n\t\t\tMohamedUduman\n\t\t\n\t\t\n\t\t\tDanielGadala-Maria\n\t\t\n\t\t\n\t\t\tGurYaari\n\t\t\n\t\t\n\t\t\tStevenHKleinstein\n\t\t\n\t\t10.1093/bioinformatics/btv359\n\t\t26069265\n\t\tPMC4793929\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4151e7723bebd86666410"},"refKey":44},
{"_key":"60c4151e7723bebd86666412","_id":"references/60c4151e7723bebd86666412","_rev":"_cfFlRom---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tTGur\n\t\t\n\t\t\n\t\t\tNMadhusoodanan\n\t\t\n\t\t\n\t\t\tPBasutkar\n\t\t\n\t\t\n\t\t\tAR NTivey\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4151e7723bebd86666410"},"refKey":51},
{"_key":"60c4151f7723bebd86666425","_id":"references/60c4151f7723bebd86666425","_rev":"_cfFlRoy---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4151f7723bebd86666424"},"refKey":64},
{"_key":"60c415217723bebd86666428","_id":"references/60c415217723bebd86666428","_rev":"_cfFlRp----","tei":"\n\t\n\t\tExplore DTI: a graphical toolbox for processing, analyzing and visualizing diffusion data\n\t\t\n\t\t\tALeemans\n\t\t\n\t\t\n\t\t\tBJeurissen\n\t\t\n\t\t\n\t\t\tJSijbers\n\t\t\n\t\t\n\t\t\tDKJones\n\t\t\n\t\n\t\n\t\tProc Int Soc Magn Reson Med\n\t\t\n\t\t\t17\n\t\t\t3537\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c415217723bebd86666427"},"refKey":24},
{"_key":"60c4156a7723bebd86666461","_id":"references/60c4156a7723bebd86666461","_rev":"_cfFlRpK---","tei":"\n\t\n\t\tRecent changes to the MOSFLM package for processing ®lm and image plate data\n\t\t\n\t\t\tAG WLeslie\n\t\t\n\t\n\t\n\t\tCCP4 & ESF-EACMB Newsletters on Protein Crystallography, SERC Laboratory, Daresbury, Warrington WA4 4AD, UK. Liljas, L\n\t\t\t\t\n\t\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4156a7723bebd86666460"},"refKey":36},
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{"_key":"60c4157a7723bebd8666647a","_id":"references/60c4157a7723bebd8666647a","_rev":"_cfFlRpe---","tei":"\n\t\n\t\tGlobal Mammal Parasite Database version 2.0\n\t\t\n\t\t\tPatrickRStephens\n\t\t\n\t\t\n\t\t\tPaulaPappalardo\n\t\t\n\t\t\n\t\t\tShanHuang\n\t\t\n\t\t\n\t\t\tJamesEByers\n\t\t\n\t\t\n\t\t\tMaxwellJFarrell\n\t\t\n\t\t\n\t\t\tAlyssaGehman\n\t\t\n\t\t\n\t\t\tRiaRGhai\n\t\t\n\t\t\n\t\t\tSarahEHaas\n\t\t\n\t\t\n\t\t\tBarbaraHan\n\t\t\n\t\t\n\t\t\tAndrewWPark\n\t\t\t0000-0003-4080-7274\n\t\t\n\t\t\n\t\t\tJohnPSchmidt\n\t\t\n\t\t\n\t\t\tSoniaAltizer\n\t\t\n\t\t\n\t\t\tVanessaOEzenwa\n\t\t\n\t\t\n\t\t\tCharlesLNunn\n\t\t\n\t\t10.1002/ecy.1799\n\t\t28273333\n\t\tdoi:10. 1002/ecy.1799\n\t\t\n\t\n\t\n\t\tEcology\n\t\tEcology\n\t\t0012-9658\n\t\t\n\t\t\t98\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4157a7723bebd86666479"},"refKey":26},
{"_key":"60c4159f7723bebd8666648c","_id":"references/60c4159f7723bebd8666648c","_rev":"_cfFlRpq---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c4159f7723bebd8666648b"},"refKey":23},
{"_key":"60c415a17723bebd86666490","_id":"references/60c415a17723bebd86666490","_rev":"_cfFlRp2---","tei":"\n\t\n\t\tMICE: multivariate imputation by chained equations in R\n\t\t\n\t\t\tSVan Buuren\n\t\t\n\t\t\n\t\t\tKOudshoorn\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t45\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c415a17723bebd8666648f"},"refKey":38},
{"_key":"60c415b07723bebd8666649b","_id":"references/60c415b07723bebd8666649b","_rev":"_cfFlRqC---","tei":"\n\t\n\t\tProspect and application of Internet of Things technology for prevention of SARIs\n\t\t\n\t\t\tYSong\n\t\t\n\t\t\n\t\t\tJJiang\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\t\n\t\t\tDYang\n\t\t\n\t\t\n\t\t\tCBai\n\t\t\n\t\n\t\n\t\tClinical\n\t\t\n\t\t\t2020\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c415b07723bebd8666649a"},"refKey":8},
{"_key":"60c415bb7723bebd866664d1","_id":"references/60c415bb7723bebd866664d1","_rev":"_cfFlRqO---","tei":"\n\t\n\t\tWelcome to the tidyverse\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tMAverick\n\t\t\n\t\t\n\t\t\tJBryan\n\t\t\n\t\t\n\t\t\tWChang\n\t\t\n\t\t\n\t\t\tD'agostinoMcgowan\n\t\t\n\t\t\n\t\t\tLFrançois\n\t\t\n\t\t\n\t\t\tR\n\t\t\n\t\n\t\n\t\tJ Open Source Softw\n\t\t\n\t\t\t4\n\t\t\t1686\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c415bb7723bebd866664d0"},"refKey":23},
{"_key":"60c415bb7723bebd866664d2","_id":"references/60c415bb7723bebd866664d2","_rev":"_cfFlRqa---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tEMiller\n\t\t\n\t\t\n\t\t\t:: Haven\n\t\t\n\t\t\n\t\t\tImport\n\t\t\n\t\t\n\t\t\t'spss'Export\n\t\t\n\t\t\n\t\t\t'Stata\n\t\t\n\t\t\n\t\t\t'\n\t\t\n\t\t\n\t\t\t'Sas' Files\n\t\t\n\t\t\n\t\t\n\t\t\t2020\n\t\t\n\t\n\tR package version 2.3.1, 2020. Available at\n\n","document":{"$oid":"60c415bb7723bebd866664d0"},"refKey":24},
{"_key":"60c415bb7723bebd866664d3","_id":"references/60c415bb7723bebd866664d3","_rev":"_cfFlRqm---","tei":"\n\t\n\t\tGtsummary: Presentation-ready data summary and analytic result tables\n\t\t\n\t\t\tDDSjoberg\n\t\t\n\t\t\n\t\t\tMCurry\n\t\t\n\t\t\n\t\t\tMHannum\n\t\t\n\t\t\n\t\t\tKWhiting\n\t\t\n\t\t\n\t\t\tECZabor\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 1.3.5. Available at\n\n","document":{"$oid":"60c415bb7723bebd866664d0"},"refKey":25},
{"_key":"60c415d07723bebd866664d5","_id":"references/60c415d07723bebd866664d5","_rev":"_cfFlRqy---","tei":"\n\t\n\t\tClinical Event Monitoring at the University of Pittsburgh\n\t\t\n\t\t\tMMWagner\n\t\t\n\t\t\n\t\t\tMPankaskie\n\t\t\n\t\t\n\t\t\tWHogan\n\t\t\n\t\n\t\n\t\tProceedings of American Medical Informatics Association Annual Fall Symposium\n\t\t\t\tAmerican Medical Informatics Association Annual Fall Symposium\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c415d07723bebd866664d4"},"refKey":73},
{"_key":"60c416107723bebd86666500","_id":"references/60c416107723bebd86666500","_rev":"_cfFlRr----","tei":"\n\t\n\t\tMOLView: A program for analyzing and displaying atomic structures on the Macintosh personal computer\n\t\t\n\t\t\tThomasJSmith\n\t\t\n\t\t\n\t\t\tMolview\n\t\t\n\t\t10.1016/0263-7855(94)00019-o\n\t\t7619787\n\t\t0263-7855(94)00019-O\n\t\tark:/67375/6H6-MDNNT98D-H\n\t\tD0B707F4B0824032FA5DB61D85AFCE0F05F137B7\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t13\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c416107723bebd866664ff"},"refKey":19},
{"_key":"60c416177723bebd86666584","_id":"references/60c416177723bebd86666584","_rev":"_cfFlRrK---","tei":"\n\t\n\t\tDrishti: a volume exploration and presentation tool\n\t\t\n\t\t\tAjayLimaye\n\t\t\n\t\t10.1117/12.935640\n\t\t\n\t\n\t\n\t\tDevelopments in X-Ray Tomography VIII\n\t\t\t\t\n\t\t\tSPIE\n\t\t\t\n\t\t\t85060X\n\t\t\n\t\n\n","document":{"$oid":"60c416177723bebd86666583"},"refKey":25},
{"_key":"60c416437723bebd866665af","_id":"references/60c416437723bebd866665af","_rev":"_cfFlRrS---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\tSect. D\n\n","document":{"$oid":"60c416437723bebd866665ae"},"refKey":0},
{"_key":"60c416437723bebd866665b0","_id":"references/60c416437723bebd866665b0","_rev":"_cfFlRre---","tei":"\n\t\n\t\tPhaser crystallographic software\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c416437723bebd866665ae"},"refKey":26},
{"_key":"60c416437723bebd866665b1","_id":"references/60c416437723bebd866665b1","_rev":"_cfFlRrq---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tPSkubak\n\t\t\n\t\t\n\t\t\tAALebedev\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tRASteiner\n\t\t\n\t\t\n\t\t\tRANicholls\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tFLong\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\n\t\n\t\tActa Crystallogr. Sect. D\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBiol. Crystallogr.\n\n","document":{"$oid":"60c416437723bebd866665ae"},"refKey":30},
{"_key":"60c4165c7723bebd866665d0","_id":"references/60c4165c7723bebd866665d0","_rev":"_cfFlRr2---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system, version 1.8\n\t\t\n\t\t\tLlcSchrödinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4165c7723bebd866665cf"},"refKey":37},
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{"_key":"60c416627723bebd866665dc","_id":"references/60c416627723bebd866665dc","_rev":"_cfFlRsO---","tei":"\n\t\n\t\tConcrete Semantics with Isabelle/HOL\n\t\t\n\t\t\tTNipkow\n\t\t\n\t\t\n\t\t\tGKlein\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\tHeidelberg\n\t\t\n\t\n\n","document":{"$oid":"60c416627723bebd866665db"},"refKey":18},
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{"_key":"60c4169e7723bebd86666630","_id":"references/60c4169e7723bebd86666630","_rev":"_cfFlRtK---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1093/bioinformatics/btu033\n\t\t24451623\n\t\tPMC3998144\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4169e7723bebd8666662e"},"refKey":57},
{"_key":"60c4169e7723bebd86666631","_id":"references/60c4169e7723bebd86666631","_rev":"_cfFlRtS---","tei":"\n\t\n\t\tUsing amino acids to facilitate the multiple alignment of protein-coding DNA sequences\n\t\t\n\t\t\tORBininda-Emonds\n\t\t\n\t\t\n\t\t\tTransalign\n\t\t\n\t\t10.1186/1471-2105-6-156\n\t\n\t\n\t\tBMC Bioinformat\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4169e7723bebd8666662e"},"refKey":54},
{"_key":"60c4169e7723bebd86666632","_id":"references/60c4169e7723bebd86666632","_rev":"_cfFlRti---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4169e7723bebd8666662e"},"refKey":55},
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{"_key":"60c417f27723bebd86666741","_id":"references/60c417f27723bebd86666741","_rev":"_cfFlRxu---","tei":"\n\t\n\t\tRetooling Molecular Epidemiology for Rapid Public Health Response\n\t\t\n\t\t\tECampbell\n\t\t\n\t\t\n\t\t\tABoylesm\n\t\t\n\t\t\n\t\t\tAShankar\n\t\t\n\t\t\n\t\t\tJKim\n\t\t\n\t\t\n\t\t\tSKnyazev\n\t\t\n\t\t\n\t\t\tWMSwitzer\n\t\t\n\t\t\n\t\t\tMicrobetrace\n\t\t\n\t\t10.1101/2020.07.22.216275\n\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c417f27723bebd86666740"},"refKey":24},
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{"_key":"60c417f27723bebd86666745","_id":"references/60c417f27723bebd86666745","_rev":"_cfFlRya---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c417f27723bebd86666740"},"refKey":18},
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{"_key":"60c417f27723bebd86666747","_id":"references/60c417f27723bebd86666747","_rev":"_cfFlRyy---","tei":"\n\t\n\t\taLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity\n\t\t\n\t\t\tShigehiroKuraku\n\t\t\n\t\t\n\t\t\tChristianMZmasek\n\t\t\n\t\t\n\t\t\tOsamuNishimura\n\t\t\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\n\t\t10.1093/nar/gkt389\n\t\t23677614\n\t\tPMC3692103\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c417f27723bebd86666740"},"refKey":20},
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{"_key":"60c418da7723bebd866667e2","_id":"references/60c418da7723bebd866667e2","_rev":"_cfFlR0y---","tei":"\n\t\n\t\tThe Igraph Core Team. Igraph R Package\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c418da7723bebd866667e0"},"refKey":26},
{"_key":"60c418ec7723bebd866667f7","_id":"references/60c418ec7723bebd866667f7","_rev":"_cfFlR1C---","tei":"\n\t\n\t\tPhysics demonstrations with the Arduino board\n\t\t\n\t\t\tŠtěpánkaKubínová\n\t\t\n\t\t\n\t\t\tJanŠlégr\n\t\t\n\t\t10.1088/0031-9120/50/4/472\n\t\n\t\n\t\tPhysics Education\n\t\tPhys. Educ.\n\t\t0031-9120\n\t\t1361-6552\n\t\t\n\t\t\t50\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tIOP Publishing\n\t\t\n\t\n\n","document":{"$oid":"60c418ec7723bebd866667f6"},"refKey":7},
{"_key":"60c418ec7723bebd866667f8","_id":"references/60c418ec7723bebd866667f8","_rev":"_cfFlR1O---","tei":"\n\t\n\t\tDevelopment of a Computer-Assisted Instrumentation Curriculum for Physics Students: Using LabVIEW and Arduino Platform\n\t\t\n\t\t\tWen-HsuanKuan\n\t\t\n\t\t\n\t\t\tChi-HungTseng\n\t\t\n\t\t\n\t\t\tSufenChen\n\t\t\n\t\t\n\t\t\tChing-ChangWong\n\t\t\n\t\t10.1007/s10956-016-9603-y\n\t\n\t\n\t\tJournal of Science Education and Technology\n\t\tJ Sci Educ Technol\n\t\t1059-0145\n\t\t1573-1839\n\t\t\n\t\t\t25\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c418ec7723bebd866667f6"},"refKey":8},
{"_key":"60c418ec7723bebd866667f9","_id":"references/60c418ec7723bebd866667f9","_rev":"_cfFlR1a---","tei":"\n\t\n\t\tRemotely teaching Arduino by means of an online simulator\n\t\t\n\t\t\tPLaRocca\n\t\t\n\t\t\n\t\t\tFRiggi\n\t\t\n\t\t\n\t\t\tCPinto\n\t\t\n\t\t10.1088/1361-6552/abaa21\n\t\n\t\n\t\tPhys. Edu\n\t\t\n\t\t\t55\n\t\t\t63003\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c418ec7723bebd866667f6"},"refKey":9},
{"_key":"60c418ec7723bebd866667fa","_id":"references/60c418ec7723bebd866667fa","_rev":"_cfFlR1m---","tei":"\n\t\n\t\tExperiments and data analysis on one-dimensional motion with Raspberry Pi and Python\n\t\t\n\t\t\tAMandanici\n\t\t\n\t\t\n\t\t\tGMandaglio\n\t\t\n\t\t10.1088/1361-6552/ab73d2\n\t\n\t\n\t\tPhys. Educ\n\t\t\n\t\t\t55\n\t\t\t33006\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c418ec7723bebd866667f6"},"refKey":10},
{"_key":"60c418ff7723bebd86666803","_id":"references/60c418ff7723bebd86666803","_rev":"_cfFlR1y---","tei":"\n\t\n\t\tRDP: detection of recombination amongst aligned sequences\n\t\t\n\t\t\tDMartin\n\t\t\n\t\t\n\t\t\tEPRybicki\n\t\t\n\t\t10.1093/bioinformatics/16.6.562\n\t\t10980155\n\t\t1460-2059\n\t\tark:/67375/HXZ-HFGKCW1P-T\n\t\t23BD6F406EB9238187A4D94959477721DBE8EFE2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":20},
{"_key":"60c418ff7723bebd86666804","_id":"references/60c418ff7723bebd86666804","_rev":"_cfFlR2----","tei":"\n\t\n\t\tPossible emergence of new geminiviruses by frequent recombination\n\t\t\n\t\t\tMPadidam\n\t\t\n\t\t\n\t\t\tSSawyer\n\t\t\n\t\t\n\t\t\tCMFauquet\n\t\t\n\t\n\t\n\t\tVirology\n\t\t\n\t\t\t265\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":21},
{"_key":"60c418ff7723bebd86666805","_id":"references/60c418ff7723bebd86666805","_rev":"_cfFlR2K---","tei":"\n\t\n\t\tThe evolutionary value of recombination is constrained by genome modularity\n\t\t\n\t\t\tDarrenPatrickMartin\n\t\t\n\t\t\n\t\t\tEricVan Der Walt\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t\n\t\t\tEdwardPRybicki\n\t\t\n\t\t10.1371/journal.pgen.0010051.eor\n\t\t\n\t\n\t\n\t\tPLoS Genetics\n\t\tPLoS Genet\n\t\t1553-7390\n\t\t1553-7404\n\t\t\n\t\t\tpreprint\n\t\t\t2005\n\t\t\te51\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":27},
{"_key":"60c418ff7723bebd86666806","_id":"references/60c418ff7723bebd86666806","_rev":"_cfFlR2S---","tei":"\n\t\n\t\tAnalyzing the mosaic structure of genes\n\t\t\n\t\t\tMaynardSmith\n\t\t\n\t\t\n\t\t\tJ\n\t\t\n\t\t10.1007/bf00182389\n\t\tark:/67375/1BB-PF2DNF4W-7\n\t\t50F7696424BCDB18C0ED882500777A849443F2AC\n\t\n\t\n\t\tJournal of Molecular Evolution\n\t\tJ Mol Evol\n\t\t0022-2844\n\t\t1432-1432\n\t\t\n\t\t\t34\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":28},
{"_key":"60c418ff7723bebd86666807","_id":"references/60c418ff7723bebd86666807","_rev":"_cfFlR2e---","tei":"\n\t\n\t\tPhylogeny inference based on parsimony and other methods using PAUP\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tJackSullivan\n\t\t\n\t\t10.1017/cbo9780511819049.010\n\t\n\t\n\t\tThe Phylogenetic Handbook\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2002\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":37},
{"_key":"60c418ff7723bebd86666808","_id":"references/60c418ff7723bebd86666808","_rev":"_cfFlR2q---","tei":"\n\t\n\t\tRAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":30},
{"_key":"60c418ff7723bebd86666809","_id":"references/60c418ff7723bebd86666809","_rev":"_cfFlR22---","tei":"\n\t\n\t\tRDP2: recombination detection and analysis from sequence alignments\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tCWilliamson\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bth490\n\t\t15377507\n\t\tark:/67375/HXZ-1CJ571R5-H\n\t\tFBF994AF07DCF440DBE2361DA623551B56A99871\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":19},
{"_key":"60c418ff7723bebd8666680a","_id":"references/60c418ff7723bebd8666680a","_rev":"_cfFlR3C---","tei":"\n\t\n\t\tSister-Scanning: a Monte Carlo procedure for assessing signals in recombinant sequences\n\t\t\n\t\t\tMJGibbs\n\t\t\n\t\t\n\t\t\tJSArmstrong\n\t\t\n\t\t\n\t\t\tAJGibbs\n\t\t\n\t\t10.1093/bioinformatics/16.7.573\n\t\t11038328\n\t\t1460-2059\n\t\tark:/67375/HXZ-X701PMR7-B\n\t\t5B7C3FBD54922AB388E298F8752F66174629CBB2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":29},
{"_key":"60c418ff7723bebd8666680b","_id":"references/60c418ff7723bebd8666680b","_rev":"_cfFlR3O---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":16},
{"_key":"60c418ff7723bebd8666680c","_id":"references/60c418ff7723bebd8666680c","_rev":"_cfFlR3a---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucl Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":44},
{"_key":"60c418ff7723bebd8666680d","_id":"references/60c418ff7723bebd8666680d","_rev":"_cfFlR3m---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":34},
{"_key":"60c418ff7723bebd8666680e","_id":"references/60c418ff7723bebd8666680e","_rev":"_cfFlR3y---","tei":"\n\t\n\t\tMODELTEST: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c418ff7723bebd86666802"},"refKey":18},
{"_key":"60c419267723bebd8666682e","_id":"references/60c419267723bebd8666682e","_rev":"_cfFlR4----","tei":"\n\t\n\t\tQuantitative trait locus mapping methods for diversity outbred mice\n\t\t\n\t\t\tDMGatti\n\t\t\n\t\t\n\t\t\tKLSvenson\n\t\t\n\t\t\n\t\t\tAShabalin\n\t\t\n\t\t\n\t\t\tLYWu\n\t\t\n\t\t\n\t\t\tWValdar\n\t\t\n\t\n\t\n\t\tBethesda)\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c419267723bebd8666682d"},"refKey":16},
{"_key":"60c419267723bebd8666682f","_id":"references/60c419267723bebd8666682f","_rev":"_cfFlR4K---","tei":"\n\t\n\t\tComparative analysis and visualization of multiple collinear genomes\n\t\t\n\t\t\tJRWang\n\t\t\n\t\t\n\t\t\tFP MDe Villena\n\t\t\n\t\t\n\t\t\tLMcmillan\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t13\n\t\t\tS13\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c419267723bebd8666682d"},"refKey":77},
{"_key":"60c419da7723bebd866668a1","_id":"references/60c419da7723bebd866668a1","_rev":"_cfFlR4W---","tei":"\n\t\n\t\tAQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJacRullmann\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tRKaptein\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c419da7723bebd866668a0"},"refKey":41},
{"_key":"60c419da7723bebd866668a2","_id":"references/60c419da7723bebd866668a2","_rev":"_cfFlR4i---","tei":"\n\t\n\t\tEvaluation of comparative protein modeling by MODELLER\n\t\t\n\t\t\tAŠali\n\t\t\n\t\t\n\t\t\tLPotterton\n\t\t\n\t\t\n\t\t\tFYuan\n\t\t\n\t\t\n\t\t\tHVan Vlijmen\n\t\t\n\t\t\n\t\t\tMKarplus\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t23\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c419da7723bebd866668a0"},"refKey":40},
{"_key":"60c419da7723bebd866668a3","_id":"references/60c419da7723bebd866668a3","_rev":"_cfFlR4u---","tei":"\n\t\n\t\tThe DISOPRED server for the prediction of protein disorder\n\t\t\n\t\t\tJJWard\n\t\t\n\t\t\n\t\t\tLJMcguffin\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tBFBuxton\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t10.1093/bioinformatics/bth195\n\t\t15044227\n\t\tark:/67375/HXZ-GVWBHFNL-X\n\t\t32E9ED8D648683DCAF4E3A63F0568DC1696D8FBF\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c419da7723bebd866668a0"},"refKey":44},
{"_key":"60c419da7723bebd866668a4","_id":"references/60c419da7723bebd866668a4","_rev":"_cfFlR46---","tei":"\n\t\n\t\tToward the estimation of the absolute quality of individual protein structure models\n\t\t\n\t\t\tPBenkert\n\t\t\n\t\t\n\t\t\tMBiasini\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c419da7723bebd866668a0"},"refKey":42},
{"_key":"60c419da7723bebd866668a5","_id":"references/60c419da7723bebd866668a5","_rev":"_cfFlR5G---","tei":"\n\t\n\t\tThe SWISS-MODEL workspace: a web-based environment for protein structure homology modelling\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c419da7723bebd866668a0"},"refKey":43},
{"_key":"60c419e87723bebd866668c8","_id":"references/60c419e87723bebd866668c8","_rev":"_cfFlR5S---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c419e87723bebd866668c7"},"refKey":44},
{"_key":"60c419f77723bebd866668d1","_id":"references/60c419f77723bebd866668d1","_rev":"_cfFlR5a---","tei":"\n\t\n\t\tStructural Methods to Improve the Symbolic Analysis of Petri Nets\n\t\t\n\t\t\tEnricPastor\n\t\t\n\t\t\n\t\t\tJordiCortadella\n\t\t\n\t\t\n\t\t\tMarcoAPeña\n\t\t\n\t\t10.1007/3-540-48745-x_3\n\t\tark:/67375/HCB-CQ6JPCRM-2\n\t\t265F1ACDA76BF8EF63FED0F5783E068ED8311E91\n\t\t\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSDonatelli\n\t\t\tJKleijn\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t1639\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c419f77723bebd866668d0"},"refKey":21},
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{"_key":"60c41a167723bebd866668ed","_id":"references/60c41a167723bebd866668ed","_rev":"_cfFlR5y---","tei":"\n\t\n\t\tGenetic variability of human angiotensin-converting enzyme 2 (hACE2) among various ethnic populations\n\t\t\n\t\t\tQLi\n\t\t\n\t\t\n\t\t\tZCao\n\t\t\n\t\t\n\t\t\tPRahman\n\t\t\n\t\t10.1002/mgg3.1344\n\t\n\t\n\t\tMol. Genet. Genom. Med\n\t\t\n\t\n\t2020, 8, e1344. [CrossRef\n\n","document":{"$oid":"60c41a167723bebd866668ec"},"refKey":9},
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{"_key":"60c41a427723bebd86666914","_id":"references/60c41a427723bebd86666914","_rev":"_cfFlR6O---","tei":"\n\t\n\t\tA hierarchical approach to all-atom protein loop prediction\n\t\t\n\t\t\tMatthewPJacobson\n\t\t\n\t\t\n\t\t\tDavidLPincus\n\t\t\n\t\t\n\t\t\tChayaSRapp\n\t\t\n\t\t\n\t\t\tTylerJ FDay\n\t\t\n\t\t\n\t\t\tBarryHonig\n\t\t\n\t\t\n\t\t\tDavidEShaw\n\t\t\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t10.1002/prot.10613\n\t\t15048827\n\t\tark:/67375/WNG-JFGMBQSS-S\n\t\tB2D66039DD31AC4DBC9CDBC782CF42D0F2EDBADB\n\t\t\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t55\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c41a427723bebd86666913"},"refKey":205},
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{"_key":"60c41a427723bebd86666916","_id":"references/60c41a427723bebd86666916","_rev":"_cfFlR6m---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c41a427723bebd86666913"},"refKey":54},
{"_key":"60c41a427723bebd86666917","_id":"references/60c41a427723bebd86666917","_rev":"_cfFlR6y---","tei":"\n\t\n\t\tBIOVIA Discovery Studio, Dassault Syst mes BIOVIA, Discovery Studio Modeling Environment\n\t\t\n\t\t\tDSystèmes\n\t\t\n\t\n\t\n\t\tDassault Syst mes\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41a427723bebd86666913"},"refKey":208},
{"_key":"60c41a427723bebd86666918","_id":"references/60c41a427723bebd86666918","_rev":"_cfFlR7----","tei":"\n\t\n\t\tComparative Protein Modelling by Satisfaction of Spatial Restraints\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t10.1006/jmbi.1993.1626\n\t\t8254673\n\t\tS0022-2836(83)71626-8\n\t\tark:/67375/6H6-V8LLTQS6-L\n\t\t2C8C000B43453FC88FD8A84DE0D8EF341E168A46\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t234\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c41a427723bebd86666913"},"refKey":201},
{"_key":"60c41a427723bebd86666919","_id":"references/60c41a427723bebd86666919","_rev":"_cfFlR7K---","tei":"\n\t\n\t\tCHARMM-GUI: A web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tTaehoonKim\n\t\t\n\t\t\n\t\t\tVidyashankaraGIyer\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.20945\n\t\t18351591\n\t\tark:/67375/WNG-B51MBQFN-X\n\t\t3C9C30FE6273AB7B8632EBBA4EF6F91FEFB8F531\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c41a427723bebd86666913"},"refKey":209},
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{"_key":"60c41b7b7723bebd86666a80","_id":"references/60c41b7b7723bebd86666a80","_rev":"_cfFlSDm---","tei":"\n\t\n\t\tA biomolecular force field based on the free enthalpy of hydration and solvation: The GROMOS force-field parameter sets 53A5 and 53A6\n\t\t\n\t\t\tChrisOostenbrink\n\t\t\n\t\t\n\t\t\tAlessandraVilla\n\t\t\n\t\t\n\t\t\tAlanEMark\n\t\t\n\t\t\n\t\t\tWilfredFVan Gunsteren\n\t\t\n\t\t10.1002/jcc.20090\n\t\t15264259\n\t\tark:/67375/WNG-D2DK05QN-0\n\t\t59B1A6CF2FE36720533E379D1405E0563CDD669A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c41b7b7723bebd86666a7d"},"refKey":30},
{"_key":"60c41ba17723bebd86666aa3","_id":"references/60c41ba17723bebd86666aa3","_rev":"_cfFlSDy---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. U.S.A\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41ba17723bebd86666aa2"},"refKey":27},
{"_key":"60c41bc77723bebd86666ab6","_id":"references/60c41bc77723bebd86666ab6","_rev":"_cfFlSE----","tei":"\n\t\n\t\tIntegration of biological networks and gene expression data using Cytoscape\n\t\t\n\t\t\tMSCline\n\t\t\n\t\t\n\t\t\tMSmoot\n\t\t\n\t\t\n\t\t\tECerami\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41bc77723bebd86666ab5"},"refKey":5},
{"_key":"60c41bc77723bebd86666ab7","_id":"references/60c41bc77723bebd86666ab7","_rev":"_cfFlSEK---","tei":"\n\t\n\t\tTM4: a free, open-source system for microarray data management and analysis\n\t\t\n\t\t\tASaeed\n\t\t\n\t\t\n\t\t\tVSharov\n\t\t\n\t\t\n\t\t\tJWhite\n\t\t\n\t\t\n\t\t\tJLi\n\t\t\n\t\t\n\t\t\tWLiang\n\t\t\n\t\t\n\t\t\tNBhagabati\n\t\t\n\t\t\n\t\t\tJBraisted\n\t\t\n\t\t\n\t\t\tMKlapa\n\t\t\n\t\t\n\t\t\tTCurrier\n\t\t\n\t\t\n\t\t\tMThiagarajan\n\t\t\n\t\n\t\n\t\tBiotechniques\n\t\t\n\t\t\t34\n\t\t\t374\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41bc77723bebd86666ab5"},"refKey":37},
{"_key":"60c41bc77723bebd86666ab8","_id":"references/60c41bc77723bebd86666ab8","_rev":"_cfFlSEW---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41bc77723bebd86666ab5"},"refKey":24},
{"_key":"60c41bc77723bebd86666ab9","_id":"references/60c41bc77723bebd86666ab9","_rev":"_cfFlSEi---","tei":"\n\t\n\t\tChemical phenotypes of the hmg1 and hmg2 mutants of Arabidopsis demonstrate the in-planta role of HMG-CoA reductase in triterpene biosynthesis\n\t\t\n\t\t\tKBNicholas\n\t\t\n\t\t\n\t\t\tHBNicholasJr\n\t\t\n\t\t\n\t\t\tKOhyama\n\t\t\n\t\t\n\t\t\tMSuzuki\n\t\t\n\t\t\n\t\t\tKMasuda\n\t\t\n\t\t\n\t\t\tSYoshida\n\t\t\n\t\t\n\t\t\tTMuranaka\n\t\t\n\t\n\t\n\t\tChemical and Pharmaceutical Bulletin\n\t\t\n\t\t\t55\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tGeneDoc: a tool for editing and annotating multiple sequence alignments. Distributed by the authors\n\n","document":{"$oid":"60c41bc77723bebd86666ab5"},"refKey":30},
{"_key":"60c41bcf7723bebd86666aca","_id":"references/60c41bcf7723bebd86666aca","_rev":"_cfFlSEu---","tei":"\n\t\n\t\tFast gene set enrichment analysis\n\t\t\n\t\t\tGKorotkevich\n\t\t\n\t\t\n\t\t\tVSukhov\n\t\t\n\t\t\n\t\t\tNBudin\n\t\t\n\t\t\n\t\t\tBShpak\n\t\t\n\t\t\n\t\t\tMNArtyomov\n\t\t\n\t\t\n\t\t\tASergushichev\n\t\t\n\t\n\t\n\t\tBioRxiv\n\t\t\n\t\t\t060012\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41bcf7723bebd86666ac9"},"refKey":19},
{"_key":"60c41bdd7723bebd86666add","_id":"references/60c41bdd7723bebd86666add","_rev":"_cfFlSE6---","tei":"\n\t\n\t\tClustal W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41bdd7723bebd86666adc"},"refKey":22},
{"_key":"60c41bdd7723bebd86666ade","_id":"references/60c41bdd7723bebd86666ade","_rev":"_cfFlSFC---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41bdd7723bebd86666adc"},"refKey":10},
{"_key":"60c41be97723bebd86666af1","_id":"references/60c41be97723bebd86666af1","_rev":"_cfFlSFO---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c41be97723bebd86666af0"},"refKey":18},
{"_key":"60c41be97723bebd86666af2","_id":"references/60c41be97723bebd86666af2","_rev":"_cfFlSFa---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c41be97723bebd86666af0"},"refKey":19},
{"_key":"60c41c077723bebd86666b3f","_id":"references/60c41c077723bebd86666b3f","_rev":"_cfFlSFm---","tei":"\n\t\n\t\tJunction tree variational autoencoder for molecular graph generation\n\t\t\n\t\t\tWJin\n\t\t\n\t\t\n\t\t\tBarzilay\n\t\t\n\t\t\n\t\t\tJaakkola\n\t\t\n\t\tarXiv:1802.04364\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c41c077723bebd86666b3e"},"refKey":25},
{"_key":"60c41c077723bebd86666b40","_id":"references/60c41c077723bebd86666b40","_rev":"_cfFlSFy---","tei":"\n\t\n\t\trdock: a fast, versatile and open source program for docking ligands to proteins and nucleic acids\n\t\t\n\t\t\tSRuiz-Carmona\n\t\t\n\t\n\t\n\t\tPLoS computational biology\n\t\t\n\t\t\t10\n\t\t\te1003571\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41c077723bebd86666b3e"},"refKey":26},
{"_key":"60c41ca67723bebd86666b96","_id":"references/60c41ca67723bebd86666b96","_rev":"_cfFlSG----","tei":"\n\t\n\t\tXgboost: A scalable tree boosting system\n\t\t\n\t\t\tTChen\n\t\t\n\t\t\n\t\t\tCGuestrin\n\t\t\n\t\n\t\n\t\tProceedings of the 22nd ACM SIGKDD international conference on knowledge discovery and data mining\n\t\t\t\tthe 22nd ACM SIGKDD international conference on knowledge discovery and data mining\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41ca67723bebd86666b95"},"refKey":33},
{"_key":"60c41cc47723bebd86666bb7","_id":"references/60c41cc47723bebd86666bb7","_rev":"_cfFlSGK---","tei":"\n\t\n\t\tMEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41cc47723bebd86666bb6"},"refKey":44},
{"_key":"60c41cfe7723bebd86666bd8","_id":"references/60c41cfe7723bebd86666bd8","_rev":"_cfFlSGW---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tKBraun\n\t\t\n\t\t\n\t\t\tSchulten\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41cfe7723bebd86666bd7"},"refKey":34},
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{"_key":"60c41cfe7723bebd86666bda","_id":"references/60c41cfe7723bebd86666bda","_rev":"_cfFlSGq---","tei":"\n\t\n\t\tCHARMM-GUI Input Generator for NAMD, Gromacs, Amber, Openmm, and CHARMM/OpenMM Simulations using the CHARMM36 Additive Force Field\n\t\t\n\t\t\tJuminLee\n\t\t\n\t\t\n\t\t\tXiCheng\n\t\t\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t\n\t\t\tJefferyBKlauda\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1016/j.bpj.2015.11.3431\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t110\n\t\t\t3\n\t\t\t641a\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c41cfe7723bebd86666bd7"},"refKey":39},
{"_key":"60c41cfe7723bebd86666bdb","_id":"references/60c41cfe7723bebd86666bdb","_rev":"_cfFlSG2---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41cfe7723bebd86666bd7"},"refKey":41},
{"_key":"60c41d1b7723bebd86666bf4","_id":"references/60c41d1b7723bebd86666bf4","_rev":"_cfFlSHC---","tei":"\n\t\n\t\tModeling and Optimizing the Public-Health Infrastructure for Emergency Response\n\t\t\n\t\t\tEvaKLee\n\t\t\n\t\t\n\t\t\tChien-HungChen\n\t\t\n\t\t\n\t\t\tFerdinandPietz\n\t\t\n\t\t\n\t\t\tBernardBenecke\n\t\t\n\t\t10.1287/inte.1090.0463\n\t\n\t\n\t\tInterfaces\n\t\tInterfaces\n\t\t0092-2102\n\t\t1526-551X\n\t\t\n\t\t\t39\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInstitute for Operations Research and the Management Sciences (INFORMS)\n\t\t\n\t\n\n","document":{"$oid":"60c41d1b7723bebd86666bf3"},"refKey":16},
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{"_key":"60c41f287723bebd86666e41","_id":"references/60c41f287723bebd86666e41","_rev":"_cfFlSV----","tei":"\n\t\n\t\tThermoRawFileParser: modular, scalable and cross-platform RAW file conversion\n\t\t\n\t\t\tNielsHulstaert\n\t\t\n\t\t\n\t\t\tTimoSachsenberg\n\t\t\t0000-0002-2833-6070\n\t\t\n\t\t\n\t\t\tMathiasWalzer\n\t\t\t0000-0003-4538-2754\n\t\t\n\t\t\n\t\t\tHaraldBarsnes\n\t\t\t0000-0001-9696-2148\n\t\t\n\t\t\n\t\t\tLennartMartens\n\t\t\t0000-0003-4277-658X\n\t\t\n\t\t\n\t\t\tYassetPerez-Riverol\n\t\t\t0000-0001-6579-6941\n\t\t\n\t\t10.1101/622852\n\t\tDOI: 10. 1021/acs.jproteome.9b00328\n\t\t\n\t\n\t\n\t\tJournal of Proteome Research\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c41f287723bebd86666e38"},"refKey":51},
{"_key":"60c41f287723bebd86666e42","_id":"references/60c41f287723bebd86666e42","_rev":"_cfFlSVK---","tei":"\n\t\n\t\tChEMBL: towards direct deposition of bioassay data\n\t\t\n\t\t\tDavidMendez\n\t\t\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tAPatríciaBento\n\t\t\n\t\t\n\t\t\tJonChambers\n\t\t\n\t\t\n\t\t\tMarleenDe veij\n\t\t\n\t\t\n\t\t\tEloyFélix\n\t\t\n\t\t\n\t\t\tMaríaPaulaMagariños\n\t\t\n\t\t\n\t\t\tJuanFMosquera\n\t\t\n\t\t\n\t\t\tPrudenceMutowo\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tMaríaGordillo-Marañón\n\t\t\n\t\t\n\t\t\tFionaHunter\n\t\t\n\t\t\n\t\t\tLauraJunco\n\t\t\n\t\t\n\t\t\tGraceMugumbate\n\t\t\n\t\t\n\t\t\tMilagrosRodriguez-Lopez\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tNicolasBosc\n\t\t\n\t\t\n\t\t\tChrisJRadoux\n\t\t\n\t\t\n\t\t\tAldoSegura-Cabrera\n\t\t\n\t\t\n\t\t\tAnneHersey\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t10.1093/nar/gky1075\n\t\t30398643\n\t\tPMC6323927\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c41f287723bebd86666e38"},"refKey":75},
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{"_key":"60c41f287723bebd86666e44","_id":"references/60c41f287723bebd86666e44","_rev":"_cfFlSVq---","tei":"\n\t\n\t\tSFINX: Straightforward Filtering Index for Affinity Purification–Mass Spectrometry Data Analysis\n\t\t\n\t\t\tKevinTiteca\n\t\t\n\t\t\n\t\t\tPieterMeysman\n\t\t\n\t\t\n\t\t\tKrisGevaert\n\t\t\n\t\t\n\t\t\tJanTavernier\n\t\t\n\t\t\n\t\t\tKrisLaukens\n\t\t\n\t\t\n\t\t\tLennartMartens\n\t\t\n\t\t\n\t\t\tSvenEyckerman\n\t\t\n\t\t10.1021/acs.jproteome.5b00666\n\t\t26616242\n\t\n\t\n\t\tJournal of Proteome Research\n\t\tJ. Proteome Res.\n\t\t1535-3893\n\t\t1535-3907\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c41f287723bebd86666e38"},"refKey":127},
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{"_key":"60c41f887723bebd86666ec2","_id":"references/60c41f887723bebd86666ec2","_rev":"_cfFlSYC---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: Improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41f887723bebd86666ec0"},"refKey":64},
{"_key":"60c41f887723bebd86666ec3","_id":"references/60c41f887723bebd86666ec3","_rev":"_cfFlSYO---","tei":"\n\t\n\t\tPROSPERous: high-throughput prediction of substrate cleavage sites for 90 proteases with improved accuracy\n\t\t\n\t\t\tJiangningSong\n\t\t\n\t\t\n\t\t\tFuyiLi\n\t\t\n\t\t\n\t\t\tAndréLeier\n\t\t\n\t\t\n\t\t\tTatianaTMarquez-Lago\n\t\t\n\t\t\n\t\t\tTatsuyaAkutsu\n\t\t\n\t\t\n\t\t\tGholamrezaHaffari\n\t\t\n\t\t\n\t\t\tKuo-ChenChou\n\t\t\n\t\t\n\t\t\tGeoffreyIWebb\n\t\t\n\t\t\n\t\t\tRobertNPike\n\t\t\n\t\t10.1093/bioinformatics/btx670\n\t\t29069280\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c41f887723bebd86666ec0"},"refKey":72},
{"_key":"60c41f907723bebd86666ed3","_id":"references/60c41f907723bebd86666ed3","_rev":"_cfFlSYe---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJPinheiro\n\t\t\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tSDebroy\n\t\t\n\t\t\n\t\t\tDSarkar\n\t\t\n\t\t\n\t\t\tSHeisterkamp\n\t\t\n\t\t\n\t\t\tBVan Willigen\n\t\t\n\t\t\n\t\t\t& R-Core\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tnlme: Linear and nonlinear mixed effects models (3.1-148) [Computer software\n\n","document":{"$oid":"60c41f907723bebd86666ed2"},"refKey":30},
{"_key":"60c41f927723bebd86666ed6","_id":"references/60c41f927723bebd86666ed6","_rev":"_cfFlSYq---","tei":"\n\t\n\t\tAngioSuite: an accurate method to calculate aneurysm volumes and packing densities\n\t\t\n\t\t\tKeithWoodward\n\t\t\n\t\t\n\t\t\tDavidAForsberg\n\t\t\n\t\t10.1136/neurintsurg-2012-010317\n\t\t22791183\n\t\tark:/67375/NVC-8X5NBGG4-9\n\t\tDF54B8E3ED112DACDCBCEBAEE2FD1EA300EFCA58\n\t\n\t\n\t\tJournal of NeuroInterventional Surgery\n\t\tJ NeuroIntervent Surg\n\t\t1759-8478\n\t\t1759-8486\n\t\t\n\t\t\t5\n\t\t\tSuppl 3\n\t\t\t\n\t\t\t\n\t\t\tBMJ\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c41f927723bebd86666ed5"},"refKey":17},
{"_key":"60c41fb77723bebd86666ef1","_id":"references/60c41fb77723bebd86666ef1","_rev":"_cfFlSY2---","tei":"\n\t\n\t\tDurbin and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41fb77723bebd86666ef0"},"refKey":9},
{"_key":"60c41fbf7723bebd86666ef6","_id":"references/60c41fbf7723bebd86666ef6","_rev":"_cfFlSZC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tQtpi\n\t\t\n\t\t\n\t\t\tSimulator\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41fbf7723bebd86666ef5"},"refKey":12},
{"_key":"60c41fbf7723bebd86666ef7","_id":"references/60c41fbf7723bebd86666ef7","_rev":"_cfFlSZO---","tei":"\n\t\n\t\t\n\t\tThe Q# Programming Language\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c41fbf7723bebd86666ef5"},"refKey":13},
{"_key":"60c41fc47723bebd86666f00","_id":"references/60c41fc47723bebd86666f00","_rev":"_cfFlSZe---","tei":"\n\t\n\t\tBest bang for your buck: GPU nodes for GROMACS biomolecular simulations\n\t\t\n\t\t\tCarstenKutzner\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tMartinFechner\n\t\t\n\t\t\n\t\t\tAnsgarEsztermann\n\t\t\n\t\t\n\t\t\tBertLDe Groot\n\t\t\n\t\t\n\t\t\tHelmutGrubmüller\n\t\t\n\t\t10.1002/jcc.24030\n\t\t26238484\n\t\tPMC5042102\n\t\tark:/67375/WNG-KS3G5DW6-S\n\t\t78A0AAF823C22979C9FD50D60A1B920B33161192\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t36\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c41fc47723bebd86666eff"},"refKey":8},
{"_key":"60c41fc47723bebd86666f01","_id":"references/60c41fc47723bebd86666f01","_rev":"_cfFlSZq---","tei":"\n\t\n\t\tMore bang for your buck: Improved use of GPU nodes for GROMACS 2018\n\t\t\n\t\t\tCarstenKutzner\n\t\t\t0000-0002-8719-0307\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tMartinFechner\n\t\t\n\t\t\n\t\t\tAnsgarEsztermann\n\t\t\n\t\t\n\t\t\tBertLGroot\n\t\t\n\t\t\n\t\t\tHelmutGrubmüller\n\t\t\n\t\t10.1002/jcc.26011\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ Comput Chem\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t40\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c41fc47723bebd86666eff"},"refKey":9},
{"_key":"60c41fc47723bebd86666f02","_id":"references/60c41fc47723bebd86666f02","_rev":"_cfFlSZ2---","tei":"\n\t\n\t\tGROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit\n\t\t\n\t\t\tSanderPronk\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tPerLarsson\n\t\t\n\t\t\n\t\t\tPärBjelkmar\n\t\t\n\t\t\n\t\t\tRossenApostolov\n\t\t\n\t\t\n\t\t\tMichaelRShirts\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tPeterMKasson\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1093/bioinformatics/btt055\n\t\t23407358\n\t\tPMC3605599\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c41fc47723bebd86666eff"},"refKey":14},
{"_key":"60c41fc47723bebd86666f03","_id":"references/60c41fc47723bebd86666f03","_rev":"_cfFlSaC---","tei":"\n\t\n\t\tPrincipal components analysis corrects for stratification in genome-wide association studies\n\t\t\n\t\t\tAlkesLPrice\n\t\t\n\t\t\n\t\t\tNickJPatterson\n\t\t\n\t\t\n\t\t\tRobertMPlenge\n\t\t\n\t\t\n\t\t\tMichaelEWeinblatt\n\t\t\n\t\t\n\t\t\tNancyAShadick\n\t\t\n\t\t\n\t\t\tDavidReich\n\t\t\n\t\t10.1038/ng1847\n\t\t16862161\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t38\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c41fc47723bebd86666eff"},"refKey":13},
{"_key":"60c41fd07723bebd86666f17","_id":"references/60c41fd07723bebd86666f17","_rev":"_cfFlSaK---","tei":"\n\t\n\t\tThe Stanford CoreNLP Natural Language Processing Toolkit\n\t\t\n\t\t\tChristopherManning\n\t\t\n\t\t\n\t\t\tMihaiSurdeanu\n\t\t\n\t\t\n\t\t\tJohnBauer\n\t\t\n\t\t\n\t\t\tJennyFinkel\n\t\t\n\t\t\n\t\t\tStevenBethard\n\t\t\n\t\t\n\t\t\tDavidMcclosky\n\t\t\n\t\t10.3115/v1/p14-5010\n\t\t\n\t\n\t\n\t\tProceedings of 52nd Annual Meeting of the Association for Computational Linguistics: System Demonstrations\n\t\t\t\t52nd Annual Meeting of the Association for Computational Linguistics: System Demonstrations\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41fd07723bebd86666f16"},"refKey":9},
{"_key":"60c41fe27723bebd86666f2a","_id":"references/60c41fe27723bebd86666f2a","_rev":"_cfFlSaW---","tei":"\n\t\n\t\tImproved optimization for the robust and accurate linear registration and motion correction of brain images\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t\n\t\t\tPBannister\n\t\t\n\t\t\n\t\t\tMBrady\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t17\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41fe27723bebd86666f29"},"refKey":21},
{"_key":"60c41fe27723bebd86666f2b","_id":"references/60c41fe27723bebd86666f2b","_rev":"_cfFlSai---","tei":"\n\t\n\t\tRobust automated brain extraction\n\t\t\n\t\t\tStephenMSmith\n\t\t\n\t\t10.1016/s1053-8119(00)91555-6\n\t\tS1053-8119(00)91555-6\n\t\tark:/67375/6H6-CCDPWS0Q-F\n\t\t6EB2DEB85EFA4CE28F269F363DF58844C68D4B00\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t11\n\t\t\t5\n\t\t\tS625\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c41fe27723bebd86666f29"},"refKey":22},
{"_key":"60c41fe27723bebd86666f2c","_id":"references/60c41fe27723bebd86666f2c","_rev":"_cfFlSau---","tei":"\n\t\n\t\tSegmentation of brain MR images through a hidden Markov random field model and the expectation-maximization algorithm\n\t\t\n\t\t\tYYZhang\n\t\t\n\t\t\n\t\t\tMBrady\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\n\t\n\t\tIEEE Trans. Med. Imaging\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c41fe27723bebd86666f29"},"refKey":23},
{"_key":"60c4200f7723bebd86666f59","_id":"references/60c4200f7723bebd86666f59","_rev":"_cfFlSa6---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4200f7723bebd86666f58"},"refKey":37},
{"_key":"60c420537723bebd86666fba","_id":"references/60c420537723bebd86666fba","_rev":"_cfFlSbG---","tei":"\n\t\n\t\tBepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes\n\t\t\n\t\t\tMartinClosterJespersen\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t10.1093/nar/gkx346\n\t\t28472356\n\t\tPMC5570230\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c420537723bebd86666fb9"},"refKey":12},
{"_key":"60c420537723bebd86666fbb","_id":"references/60c420537723bebd86666fbb","_rev":"_cfFlSbO---","tei":"\n\t\n\t\tReliable B Cell Epitope Predictions: Impacts of Method Development and Improved Benchmarking\n\t\t\n\t\t\tJensVindahlKringelum\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1371/journal.pcbi.1002829\n\t\t23300419\n\t\tPMC3531324\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t8\n\t\t\t12\n\t\t\te1002829\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c420537723bebd86666fb9"},"refKey":16},
{"_key":"60c420827723bebd86666fd2","_id":"references/60c420827723bebd86666fd2","_rev":"_cfFlSba---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c420827723bebd86666fd1"},"refKey":12},
{"_key":"60c420827723bebd86666fd3","_id":"references/60c420827723bebd86666fd3","_rev":"_cfFlSbm---","tei":"\n\t\n\t\tQGB: Combined Use of Sequence Similarity and Codon Bias for Coding Region Identification\n\t\t\n\t\t\tDavidJStates\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t10.1089/cmb.1994.1.39\n\t\t8790452\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c420827723bebd86666fd1"},"refKey":13},
{"_key":"60c420af7723bebd86666fe6","_id":"references/60c420af7723bebd86666fe6","_rev":"_cfFlSby---","tei":"\n\t\n\t\tTest of Self-Conscious Affect–3\n\t\t\n\t\t\tJunePriceTangney\n\t\t\n\t\t\n\t\t\tRhondaLDearing\n\t\t\n\t\t\n\t\t\tPEWagner\n\t\t\n\t\t\n\t\t\tRGramzow\n\t\t\n\t\t10.1037/t06464-000\n\t\t\n\t\t\t\n\t\t\tAmerican Psychological Association (APA)\n\t\t\tFairfax\n\t\t\n\t\t\n\t\t\tGeorge Mason University\n\t\t\n\t\n\n","document":{"$oid":"60c420af7723bebd86666fe5"},"refKey":44},
{"_key":"60c420af7723bebd86666fe7","_id":"references/60c420af7723bebd86666fe7","_rev":"_cfFlSc----","tei":"\n\t\n\t\toTree - An Open-Source Platform for Laboratory, Online, and Field Experiments\n\t\t\n\t\t\tDanielLChen\n\t\t\n\t\t\n\t\t\tMartinSchonger\n\t\t\n\t\t\n\t\t\tChrisWickens\n\t\t\n\t\t10.2139/ssrn.2806713\n\t\t\n\t\n\t\n\t\tSSRN Electronic Journal\n\t\tSSRN Journal\n\t\t1556-5068\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c420af7723bebd86666fe5"},"refKey":20},
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{"_key":"60c420c27723bebd86666ff7","_id":"references/60c420c27723bebd86666ff7","_rev":"_cfFlScW---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t5\n\t\t\t113\n\t\t\n\t\n\n","document":{"$oid":"60c420c27723bebd86666ff6"},"refKey":5},
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{"_key":"60c420d57723bebd86667008","_id":"references/60c420d57723bebd86667008","_rev":"_cfFlScu---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVienna: R Core Team\n\n","document":{"$oid":"60c420d57723bebd86667006"},"refKey":31},
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{"_key":"60c421af7723bebd86667039","_id":"references/60c421af7723bebd86667039","_rev":"_cfFlSdm---","tei":"\n\t\n\t\tEntrepreneurial entry by people with disabilities\n\t\t\n\t\t\tJr ;Quinlan\n\t\t\n\t\t\n\t\t\tLearning\n\t\t\n\t\t\n\t\t\tMorganCalifornia\n\t\t\n\t\t\n\t\t\tMKaufmann Renko\n\t\t\n\t\t\n\t\t\tParkerHarris\n\t\t\n\t\t\n\t\t\tSCaldwell\n\t\t\n\t\t\n\t\t\tK\n\t\t\n\t\tC4.5\n\t\n\t\n\t\tInt Small Bus J\n\t\t\n\t\t\t34\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPrograms for machine\n\n","document":{"$oid":"60c421af7723bebd86667038"},"refKey":92},
{"_key":"60c421bf7723bebd86667040","_id":"references/60c421bf7723bebd86667040","_rev":"_cfFlSdy---","tei":"\n\t\n\t\tXtalView/Xfit—A Versatile Program for Manipulating Atomic Coordinates and Electron Density\n\t\t\n\t\t\tDuncanEMcree\n\t\t\n\t\t10.1006/jsbi.1999.4094\n\t\t10222271\n\t\tS1047-8477(99)94094-7\n\t\tark:/67375/6H6-KWNLQ0D0-6\n\t\tF984D1F7FF1C928BEEF1E5866174F4E7075482A0\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t125\n\t\t\t2-3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c421bf7723bebd8666703f"},"refKey":52},
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{"_key":"60c421bf7723bebd86667042","_id":"references/60c421bf7723bebd86667042","_rev":"_cfFlSeK---","tei":"\n\t\n\t\tMain-chain Bond Lengths and Bond Angles in Protein Structures\n\t\t\n\t\t\tRomanALaskowski\n\t\t\n\t\t\n\t\t\tDavidSMoss\n\t\t\n\t\t\n\t\t\tJanetMThornton\n\t\t\n\t\t10.1006/jmbi.1993.1351\n\t\t8515464\n\t\tS0022-2836(83)71351-3\n\t\tark:/67375/6H6-MCM6F17Q-3\n\t\tCF98A7A685311C43127F8CA8F4C75F2726DFA64F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t231\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c421bf7723bebd8666703f"},"refKey":54},
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{"_key":"60c4222c7723bebd86667069","_id":"references/60c4222c7723bebd86667069","_rev":"_cfFlSeq---","tei":"\n\t\n\t\tModeltest: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4222c7723bebd86667068"},"refKey":26},
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{"_key":"60c422397723bebd86667079","_id":"references/60c422397723bebd86667079","_rev":"_cfFlSfC---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422397723bebd86667078"},"refKey":16},
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{"_key":"60c422527723bebd86667088","_id":"references/60c422527723bebd86667088","_rev":"_cfFlSfa---","tei":"\n\t\n\t\tPhylogenetic analysis of Heliothis armigera cytoplasmic polyhedrosis virus type 14 and a series of dwarf segments found in the genome\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tLTan\n\t\t\n\t\t\n\t\t\tWChen\n\t\t\n\t\t\n\t\t\tHLuo\n\t\t\n\t\t\n\t\t\tYHu\n\t\t\n\t\t10.1099/vir.0.82673-0\n\t\t17325373\n\t\n\t\n\t\tJournal of General Virology\n\t\tJournal of General Virology\n\t\t0022-1317\n\t\t1465-2099\n\t\t\n\t\t\t88\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tMicrobiology Society\n\t\t\n\t\n\n","document":{"$oid":"60c422527723bebd86667087"},"refKey":33},
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{"_key":"60c422677723bebd866670a7","_id":"references/60c422677723bebd866670a7","_rev":"_cfFlSgK---","tei":"\n\t\n\t\tAn integrated visualization system for surgical planning and guidance using image fusion and an open MR\n\t\t\n\t\t\tDavidTGering\n\t\t\n\t\t\n\t\t\tAryaNabavi\n\t\t\n\t\t\n\t\t\tRonKikinis\n\t\t\n\t\t\n\t\t\tNobyHata\n\t\t\n\t\t\n\t\t\tLaurenJO'donnell\n\t\t\n\t\t\n\t\t\tWEric LGrimson\n\t\t\n\t\t\n\t\t\tFerencAJolesz\n\t\t\n\t\t\n\t\t\tPeterMBlack\n\t\t\n\t\t\n\t\t\tWilliamMWells\n\t\t\n\t\t10.1002/jmri.1139\n\t\t11382961\n\t\tark:/67375/WNG-NSCGXDPG-V\n\t\t1E4CF98EE563CB52DD9C54F04C81848CBD94E32A\n\t\n\t\n\t\tJournal of Magnetic Resonance Imaging\n\t\tJ. Magn. Reson. Imaging\n\t\t1053-1807\n\t\t1522-2586\n\t\t\n\t\t\t13\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed: 11382961\n\n","document":{"$oid":"60c422677723bebd866670a6"},"refKey":27},
{"_key":"60c422677723bebd866670a8","_id":"references/60c422677723bebd866670a8","_rev":"_cfFlSgW---","tei":"\n\t\n\t\t3D Slicer as an image computing platform for the Quantitative Imaging Network\n\t\t\n\t\t\tAFedorov\n\t\t\n\t\t\n\t\t\tRBeichel\n\t\t\n\t\t\n\t\t\tJKalpathy-Cramer\n\t\t\n\t\t\n\t\t\tJFinet\n\t\t\n\t\t\n\t\t\tJ-CcFillion-Robin\n\t\t\n\t\t\n\t\t\tSPujol\n\t\t\n\t\n\t\n\t\tMagn. Reson. Imaging\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 22770690\n\n","document":{"$oid":"60c422677723bebd866670a6"},"refKey":28},
{"_key":"60c422867723bebd866670b4","_id":"references/60c422867723bebd866670b4","_rev":"_cfFlSge---","tei":"\n\t\n\t\tEMAN2: an extensible image processing suite for electron microscopy\n\t\t\n\t\t\tGTang\n\t\t\n\t\t\n\t\t\tLPeng\n\t\t\n\t\t\n\t\t\tPRBaldwin\n\t\t\n\t\t\n\t\t\tDSMann\n\t\t\n\t\t\n\t\t\tWJiang\n\t\t\n\t\t\n\t\t\tIRees\n\t\t\n\t\t\n\t\t\tSJLudtke\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t157\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422867723bebd866670b3"},"refKey":58},
{"_key":"60c422867723bebd866670b5","_id":"references/60c422867723bebd866670b5","_rev":"_cfFlSgq---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c422867723bebd866670b3"},"refKey":75},
{"_key":"60c422867723bebd866670b6","_id":"references/60c422867723bebd866670b6","_rev":"_cfFlSg2---","tei":"\n\t\n\t\tPHENIX: building new software for automated crystallographic structure determination\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tTRIoerger\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tJCSacchettini\n\t\t\n\t\t\n\t\t\tNKSauter\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\n\t\n\t\tActa. Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t58\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422867723bebd866670b3"},"refKey":0},
{"_key":"60c422867723bebd866670b7","_id":"references/60c422867723bebd866670b7","_rev":"_cfFlShC---","tei":"\n\t\n\t\tRelaxation of backbone bond geometry improves protein energy landscape modeling\n\t\t\n\t\t\tPConway\n\t\t\n\t\t\n\t\t\tMDTyka\n\t\t\n\t\t\n\t\t\tFDimaio\n\t\t\n\t\t\n\t\t\tDEKonerding\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422867723bebd866670b3"},"refKey":9},
{"_key":"60c422867723bebd866670b8","_id":"references/60c422867723bebd866670b8","_rev":"_cfFlShO---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422867723bebd866670b3"},"refKey":15},
{"_key":"60c422987723bebd866670c7","_id":"references/60c422987723bebd866670c7","_rev":"_cfFlSha---","tei":"\n\t\n\t\tldatuning: Tuning of the Latent Dirichlet Allocation Model Parameters: R package version 0.2.0 [Internet\n\t\t\n\t\t\tNMoor\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422987723bebd866670c6"},"refKey":19},
{"_key":"60c422987723bebd866670c8","_id":"references/60c422987723bebd866670c8","_rev":"_cfFlShm---","tei":"\n\t\n\t\tCitation-based clustering of publications using CitNetExplorer and VOSviewer\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\n\t\n\t\tScientometrics\n\t\t\n\t\t\t111\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWaltman L\n\t\t\n\t\n\tElegant Graphics for Data Analysis\n\n","document":{"$oid":"60c422987723bebd866670c6"},"refKey":26},
{"_key":"60c4229a7723bebd866670cc","_id":"references/60c4229a7723bebd866670cc","_rev":"_cfFlShy---","tei":"\n\t\n\t\tAMBIENCE: A Novel Approach and Efficient Algorithm for Identifying Informative Genetic and Environmental Associations With Complex Phenotypes\n\t\t\n\t\t\tPritamChanda\n\t\t\n\t\t\n\t\t\tLaraSucheston\n\t\t\n\t\t\n\t\t\tAidongZhang\n\t\t\n\t\t\n\t\t\tDanielBrazeau\n\t\t\n\t\t\n\t\t\tJoLFreudenheim\n\t\t\n\t\t\n\t\t\tChristineAmbrosone\n\t\t\n\t\t\n\t\t\tMuraliRamanathan\n\t\t\n\t\t10.1534/genetics.108.088542\n\t\t18780753\n\t\tPMC2567367\n\t\t\n\t\n\t\n\t\tGenetics\n\t\tGenetics\n\t\t0016-6731\n\t\t1943-2631\n\t\t\n\t\t\t180\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tGenetics Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c4229a7723bebd866670cb"},"refKey":11},
{"_key":"60c4229a7723bebd866670cd","_id":"references/60c4229a7723bebd866670cd","_rev":"_cfFlSi----","tei":"\n\t\n\t\tA fast approach to detecting gene-gene interactions in genome-wide case-control studies\n\t\t\n\t\t\tXWan\n\t\t\n\t\n\t\n\t\tAm. J. Hum. Genet\n\t\t\n\t\t\t87\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4229a7723bebd866670cb"},"refKey":12},
{"_key":"60c422a57723bebd866670d5","_id":"references/60c422a57723bebd866670d5","_rev":"_cfFlSiK---","tei":"\n\t\n\t\tSPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields\n\t\t\n\t\t\tJFrank\n\t\t\n\t\t\n\t\t\tMRadermacher\n\t\t\n\t\t\n\t\t\tPPenczek\n\t\t\n\t\t\n\t\t\tJZhu\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tMLadjadj\n\t\t\n\t\t\n\t\t\tALeith\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t116\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422a57723bebd866670d4"},"refKey":9},
{"_key":"60c422a57723bebd866670d6","_id":"references/60c422a57723bebd866670d6","_rev":"_cfFlSiW---","tei":"\n\t\n\t\tOn the fitting of model electron densities into EM reconstructions: a reciprocal-space formulation\n\t\t\n\t\t\tJNavaza\n\t\t\n\t\t\n\t\t\tJLepault\n\t\t\n\t\t\n\t\t\tFARey\n\t\t\n\t\t\n\t\t\tCÁlvarez-Rúa\n\t\t\n\t\t\n\t\t\tJBorge\n\t\t\n\t\t10.1107/s0907444902013707\n\t\t12351826\n\t\tark:/67375/WNG-QVG3JZWD-H\n\t\t75F99CCCE4B1DA02A8AC2C5ADD2D8EA954E28079\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t58\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c422a57723bebd866670d4"},"refKey":27},
{"_key":"60c422a57723bebd866670d7","_id":"references/60c422a57723bebd866670d7","_rev":"_cfFlSii---","tei":"\n\t\n\t\tDynamic reorganization of the functionally active ribosome explored by normal mode analysis and cryo-electron microscopy\n\t\t\n\t\t\tFTama\n\t\t\n\t\t\n\t\t\tMValle\n\t\t\n\t\t\n\t\t\tJFrank\n\t\t\n\t\t\n\t\t\tCLBrooks\n\t\t\n\t\t10.1073/pnas.1632476100\n\t\t12878726\n\t\tPMC170916\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t100\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c422a57723bebd866670d4"},"refKey":40},
{"_key":"60c422a57723bebd866670d8","_id":"references/60c422a57723bebd866670d8","_rev":"_cfFlSiu---","tei":"\n\t\n\t\tNormal mode based flexible fitting of high-resolution structure into low-resolution experimental data from cryo-EM\n\t\t\n\t\t\tFlorenceTama\n\t\t\n\t\t\n\t\t\tOsamuMiyashita\n\t\t\n\t\t\n\t\t\tCharlesLBrooks Iii\n\t\t\n\t\t10.1016/j.jsb.2004.03.002\n\t\t15450300\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t147\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c422a57723bebd866670d4"},"refKey":41},
{"_key":"60c422ca7723bebd866670ef","_id":"references/60c422ca7723bebd866670ef","_rev":"_cfFlSi2---","tei":"\n\t\n\t\t\n\t\t\tWRevelle\n\t\t\n\t\t\n\t\t\tPsych\n\t\t\n\t\t\n\t\tProcedures for Psychological, Psychometric, and Personality Research .; 2020. Accessed\n\t\t\t\tedures for Psychological, Psychometric, and Personality Research .; 2020. Accessed\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422ca7723bebd866670ee"},"refKey":8},
{"_key":"60c422d87723bebd866670f4","_id":"references/60c422d87723bebd866670f4","_rev":"_cfFlSjC---","tei":"\n\t\n\t\tPLINK: a tool set for wholegenome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\t\n\t\t\tNealeBTodd-Brown\n\t\t\n\t\t\n\t\t\tK\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422d87723bebd866670f3"},"refKey":39},
{"_key":"60c422d87723bebd866670f5","_id":"references/60c422d87723bebd866670f5","_rev":"_cfFlSjO---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422d87723bebd866670f3"},"refKey":25},
{"_key":"60c422d87723bebd866670f6","_id":"references/60c422d87723bebd866670f6","_rev":"_cfFlSja---","tei":"\n\t\n\t\tIntegrated analysis of single cell transcriptomic data across conditions, technologies, and species\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/164889\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c422d87723bebd866670f3"},"refKey":36},
{"_key":"60c422d87723bebd866670f7","_id":"references/60c422d87723bebd866670f7","_rev":"_cfFlSjm---","tei":"\n\t\n\t\tComprehensive integration of single cell data\n\t\t\n\t\t\tTimStuart\n\t\t\t0000-0002-3044-0897\n\t\t\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\t0000-0002-7693-8957\n\t\t\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\t0000-0001-5898-694X\n\t\t\n\t\t\n\t\t\tWilliamMMauck\n\t\t\n\t\t\n\t\t\tMarlonStoeckius\n\t\t\t0000-0002-5658-029X\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\t0000-0003-0772-1647\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/460147\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t177\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\te21\n\n","document":{"$oid":"60c422d87723bebd866670f3"},"refKey":37},
{"_key":"60c422d87723bebd866670f8","_id":"references/60c422d87723bebd866670f8","_rev":"_cfFlSjy---","tei":"\n\t\n\t\tSCENIC: Single-cell regulatory network inference and clustering\n\t\t\n\t\t\tSaraAibar\n\t\t\t0000-0001-6104-7134\n\t\t\n\t\t\n\t\t\tCarmenBravoGonzález-Blas\n\t\t\n\t\t\n\t\t\tThomasMoerman\n\t\t\n\t\t\n\t\t\tJasperWouters\n\t\t\n\t\t\n\t\t\tVânAnhHuynh-Thu\n\t\t\n\t\t\n\t\t\tHanaImrichova\n\t\t\n\t\t\n\t\t\tZeynepKalenderAtak\n\t\t\n\t\t\n\t\t\tGertHulselmans\n\t\t\n\t\t\n\t\t\tMichaelDewaele\n\t\t\n\t\t\n\t\t\tFlorianRambow\n\t\t\n\t\t\n\t\t\tPierreGeurts\n\t\t\n\t\t\n\t\t\tJanAerts\n\t\t\n\t\t\n\t\t\tJean-ChristopheMarine\n\t\t\n\t\t\n\t\t\tJoostVanDen Oord\n\t\t\n\t\t\n\t\t\tSteinAerts\n\t\t\n\t\t10.1101/144501\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c422d87723bebd866670f3"},"refKey":38},
{"_key":"60c422f37723bebd86667116","_id":"references/60c422f37723bebd86667116","_rev":"_cfFlSk----","tei":"\n\t\n\t\tAn Iterative Method for Improved Protein Structural Motif Recognition\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t\n\t\t\tMonaSingh\n\t\t\n\t\t10.1089/cmb.1997.4.261\n\t\t9278059\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c422f37723bebd86667115"},"refKey":4},
{"_key":"60c422f37723bebd86667117","_id":"references/60c422f37723bebd86667117","_rev":"_cfFlSkK---","tei":"\n\t\n\t\tComputational learning reveals coiled coil-like motifs in histidine kinase linker domains\n\t\t\n\t\t\tMSingh\n\t\t\n\t\t\n\t\t\tBBerger\n\t\t\n\t\t\n\t\t\tPSKim\n\t\t\n\t\t\n\t\t\tJMBerger\n\t\t\n\t\t\n\t\t\tAGCochran\n\t\t\n\t\t10.1073/pnas.95.6.2738\n\t\t9501159\n\t\tPMC19638\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t95\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c422f37723bebd86667115"},"refKey":50},
{"_key":"60c422f37723bebd86667118","_id":"references/60c422f37723bebd86667118","_rev":"_cfFlSkW---","tei":"\n\t\n\t\tPredicting coiled coils by use of pairwise residue correlations.\n\t\t\n\t\t\tBBerger\n\t\t\n\t\t\n\t\t\tDBWilson\n\t\t\n\t\t\n\t\t\tEWolf\n\t\t\n\t\t\n\t\t\tTTonchev\n\t\t\n\t\t\n\t\t\tMMilla\n\t\t\n\t\t\n\t\t\tPSKim\n\t\t\n\t\t10.1073/pnas.92.18.8259\n\t\t7667278\n\t\tPMC41136\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t92\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c422f37723bebd86667115"},"refKey":5},
{"_key":"60c422f37723bebd86667119","_id":"references/60c422f37723bebd86667119","_rev":"_cfFlSki---","tei":"\n\t\n\t\tMultiCoil: A program for predicting two-and three-stranded coiled coils\n\t\t\n\t\t\tEthanWolf\n\t\t\n\t\t\n\t\t\tPeterSKim\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t10.1002/pro.5560060606\n\t\t9194178\n\t\tPMC2143730\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t6\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c422f37723bebd86667115"},"refKey":60},
{"_key":"60c422f37723bebd8666711a","_id":"references/60c422f37723bebd8666711a","_rev":"_cfFlSku---","tei":"\n\t\n\t\tPredicting coiled coils from protein sequences\n\t\t\n\t\t\tALupas\n\t\t\n\t\t\n\t\t\tMVan Dyke\n\t\t\n\t\t\n\t\t\tJStock\n\t\t\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t252\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c422f37723bebd86667115"},"refKey":39},
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{"_key":"60c424b97723bebd866672f7","_id":"references/60c424b97723bebd866672f7","_rev":"_cfFlSq----","tei":"\n\t\n\t\tnhmmer: DNA Homology Search With Profile HMMs\n\t\t\n\t\t\tTJWheeler\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c424b97723bebd866672f2"},"refKey":17},
{"_key":"60c424b97723bebd866672f8","_id":"references/60c424b97723bebd866672f8","_rev":"_cfFlSqK---","tei":"\n\t\n\t\tInfernal 1.1: 100-fold Faster RNA Homology Searches\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c424b97723bebd866672f2"},"refKey":18},
{"_key":"60c424b97723bebd866672f9","_id":"references/60c424b97723bebd866672f9","_rev":"_cfFlSqW---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a New Generation of Protein Database Search Programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c424b97723bebd866672f2"},"refKey":14},
{"_key":"60c424b97723bebd866672fa","_id":"references/60c424b97723bebd866672fa","_rev":"_cfFlSqi---","tei":"\n\t\n\t\tVgas: A Viral Genome Annotation System\n\t\t\n\t\t\tKai-YueZhang\n\t\t\n\t\t\n\t\t\tYi-ZhouGao\n\t\t\n\t\t\n\t\t\tMeng-ZeDu\n\t\t\n\t\t\n\t\t\tShuoLiu\n\t\t\n\t\t\n\t\t\tChuanDong\n\t\t\n\t\t\n\t\t\tFeng-BiaoGuo\n\t\t\n\t\t10.3389/fmicb.2019.00184\n\t\t\n\t\n\t\n\t\tFrontiers in Microbiology\n\t\tFront. Microbiol.\n\t\t1664-302X\n\t\t\n\t\t\t10\n\t\t\t184\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c424b97723bebd866672f2"},"refKey":9},
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{"_key":"60c424fb7723bebd86667388","_id":"references/60c424fb7723bebd86667388","_rev":"_cfFlSq6---","tei":"\n\t\n\t\tMfuzz: a software package for soft clustering of microarray data\n\t\t\n\t\t\tLKumar\n\t\t\n\t\t\n\t\t\tMEFutschik\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c424fb7723bebd86667387"},"refKey":25},
{"_key":"60c4253b7723bebd866673a8","_id":"references/60c4253b7723bebd866673a8","_rev":"_cfFlSrG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tABDowney\n\t\t\n\t\n\t\n\t\tThink complexity. O'Reilly Media Inc\n\t\t\n\t\t\t\n\t\t\tSebastopol\n\t\t\n\t\n\n","document":{"$oid":"60c4253b7723bebd866673a7"},"refKey":35},
{"_key":"60c4253c7723bebd866673b6","_id":"references/60c4253c7723bebd866673b6","_rev":"_cfFlSrO---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1093/bioinformatics/bty560\n\t\t30423086\n\t\tPMC6129281\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4253c7723bebd866673b5"},"refKey":53},
{"_key":"60c425627723bebd866673f2","_id":"references/60c425627723bebd866673f2","_rev":"_cfFlSra---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tEBertin\n\t\t\n\t\t\n\t\t\tSArnouts\n\t\t\n\t\n\t\n\t\tA&AS\n\t\t\n\t\t\t117\n\t\t\t393\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c425627723bebd866673f1"},"refKey":7},
{"_key":"60c425627723bebd866673f3","_id":"references/60c425627723bebd866673f3","_rev":"_cfFlSrm---","tei":"\n\t\n\t\tAutomatic Astrometric and Photometric Calibration with SCAMP\n\t\t\n\t\t\tEBertin\n\t\t\n\t\n\t\n\t\tAstronomical Society of the Pacific Conference Series\n\t\t\t\t\n\t\t\tCGabriel\n\t\t\tCArviset\n\t\t\tDPonz\n\t\t\t&SEnrique\n\t\t\n\t\t\n\t\t\t\n\t\t\t351\n\t\t\t112\n\t\t\n\t\n\n","document":{"$oid":"60c425627723bebd866673f1"},"refKey":6},
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{"_key":"60c425627723bebd866673f6","_id":"references/60c425627723bebd866673f6","_rev":"_cfFlSsK---","tei":"\n\t\n\t\tGalaxies in the Hubble Ultra Deep Field. I. Detection, Multiband Photometry, Photometric Redshifts, and Morphology\n\t\t\n\t\t\tDanCoe\n\t\t\n\t\t\n\t\t\tNarcisoBenítez\n\t\t\n\t\t\n\t\t\tSebastiánFSánchez\n\t\t\n\t\t\n\t\t\tMyungkookJee\n\t\t\n\t\t\n\t\t\tRychardBouwens\n\t\t\n\t\t\n\t\t\tHollandFord\n\t\t\n\t\t10.1086/505530\n\t\t\n\t\n\t\n\t\tThe Astronomical Journal\n\t\tAstron J\n\t\t0004-6256\n\t\t1538-3881\n\t\t\n\t\t\t132\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tIOP Publishing\n\t\t\n\t\n\n","document":{"$oid":"60c425627723bebd866673f1"},"refKey":16},
{"_key":"60c4258d7723bebd8666743c","_id":"references/60c4258d7723bebd8666743c","_rev":"_cfFlSsW---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Computing Team\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4258d7723bebd8666743b"},"refKey":23},
{"_key":"60c425f47723bebd86667469","_id":"references/60c425f47723bebd86667469","_rev":"_cfFlSsi---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASch Äffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c425f47723bebd86667468"},"refKey":0},
{"_key":"60c425ff7723bebd86667476","_id":"references/60c425ff7723bebd86667476","_rev":"_cfFlSsu---","tei":"\n\t\n\t\tAutomated docking using a Lamarckian genetic algorithm and an empirical binding free energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tRSHalliday\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWEHart\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tAJOlsen\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c425ff7723bebd86667475"},"refKey":29},
{"_key":"60c426157723bebd86667486","_id":"references/60c426157723bebd86667486","_rev":"_cfFlSs6---","tei":"\n\t\n\t\tIntegrated monitoring and analysis for early warning of patient deterioration\n\t\t\n\t\t\tLTarassenko\n\t\t\n\t\t\n\t\t\tAHann\n\t\t\n\t\t\n\t\t\tDYoung\n\t\t\n\t\t10.1093/bja/ael113\n\t\t16707529\n\t\tark:/67375/HXZ-90PWV79F-5\n\t\tCAECFAC76B851E200A6C8A41A63707145EB37FA4\n\t\t\n\t\n\t\n\t\tBritish Journal of Anaesthesia\n\t\tBritish Journal of Anaesthesia\n\t\t0007-0912\n\t\t\n\t\t\t97\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c426157723bebd86667485"},"refKey":65},
{"_key":"60c4262f7723bebd866674a2","_id":"references/60c4262f7723bebd866674a2","_rev":"_cfFlStG---","tei":"\n\t\n\t\t\n\t\t\tRDevelopment Core\n\t\t\n\t\t\n\t\t\tTeam\n\t\t\n\t\tR: A Language and Environment for Statistical Computing. (The R Foundation for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4262f7723bebd866674a1"},"refKey":59},
{"_key":"60c426527723bebd866674be","_id":"references/60c426527723bebd866674be","_rev":"_cfFlStS---","tei":"\n\t\n\t\tEMAN2: An extensible image processing suite for electron microscopy\n\t\t\n\t\t\tGTang\n\t\t\n\t\t\n\t\t\tLPeng\n\t\t\n\t\t\n\t\t\tPRBaldwin\n\t\t\n\t\t\n\t\t\tDSMann\n\t\t\n\t\t\n\t\t\tWJiang\n\t\t\n\t\t\n\t\t\tIRees\n\t\t\n\t\t\n\t\t\tSJLudtke\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t157\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c426527723bebd866674bd"},"refKey":36},
{"_key":"60c426527723bebd866674bf","_id":"references/60c426527723bebd866674bf","_rev":"_cfFlSte---","tei":"\n\t\n\t\tVisualizing density maps with UCSF Chimera\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2006.06.010\n\t\t16963278\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c426527723bebd866674bd"},"refKey":42},
{"_key":"60c426527723bebd866674c0","_id":"references/60c426527723bebd866674c0","_rev":"_cfFlStm---","tei":"\n\t\n\t\tQuantifying the local resolution of cryo-EM density maps\n\t\t\n\t\t\tAKucukelbir\n\t\t\n\t\t\n\t\t\tFJSigworth\n\t\t\n\t\t\n\t\t\tHDTagare\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c426527723bebd866674bd"},"refKey":38},
{"_key":"60c426527723bebd866674c1","_id":"references/60c426527723bebd866674c1","_rev":"_cfFlSty---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tJSRichardson\n\t\t\tTCTerwilliger\n\t\t\tPHZwart\n\t\t\n\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c426527723bebd866674bd"},"refKey":40},
{"_key":"60c426527723bebd866674c2","_id":"references/60c426527723bebd866674c2","_rev":"_cfFlSu----","tei":"\n\t\n\t\tNew tool:phenix.real_space_ refine\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tComput. Crystallogr. Newslett\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c426527723bebd866674bd"},"refKey":41},
{"_key":"60c426527723bebd866674c3","_id":"references/60c426527723bebd866674c3","_rev":"_cfFlSuK---","tei":"\n\t\n\t\tRELION: Implementation of a Bayesian approach to cryo-EM structure determination\n\t\t\n\t\t\tSH WScheres\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t180\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c426527723bebd866674bd"},"refKey":37},
{"_key":"60c4266c7723bebd866674e0","_id":"references/60c4266c7723bebd866674e0","_rev":"_cfFlSuW---","tei":"\n\t\n\t\tAdam: a method for stochastic optimization\n\t\t\n\t\t\tDPKingma\n\t\t\n\t\t\n\t\t\tJBa\n\t\t\n\t\tDecem- ber 2014\n\t\n\t\n\t\tProceedings of the 3rd International Conference on Learning Representations (ICLR)\n\t\t\t\tthe 3rd International Conference on Learning Representations (ICLR)\n\t\t\n\t\n\n","document":{"$oid":"60c4266c7723bebd866674df"},"refKey":10},
{"_key":"60c426777723bebd866674ed","_id":"references/60c426777723bebd866674ed","_rev":"_cfFlSui---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c426777723bebd866674ec"},"refKey":20},
{"_key":"60c426bb7723bebd86667504","_id":"references/60c426bb7723bebd86667504","_rev":"_cfFlSuu---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c426bb7723bebd86667503"},"refKey":24},
{"_key":"60c426f87723bebd86667512","_id":"references/60c426f87723bebd86667512","_rev":"_cfFlSu6---","tei":"\n\t\n\t\tEfficient coalescent simulation and genealogical analysis for large sample sizes\n\t\t\n\t\t\tJeromeKelleher\n\t\t\t0000-0002-7894-5253\n\t\t\n\t\t\n\t\t\tAlisonMEtheridge\n\t\t\n\t\t\n\t\t\tGilMcvean\n\t\t\n\t\t10.1101/033118\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c426f87723bebd86667511"},"refKey":33},
{"_key":"60c426f87723bebd86667513","_id":"references/60c426f87723bebd86667513","_rev":"_cfFlSvG---","tei":"\n\t\n\t\tEfficient pedigree recording for fast population genetics simulation\n\t\t\n\t\t\tJeromeKelleher\n\t\t\t0000-0002-7894-5253\n\t\t\n\t\t\n\t\t\tKevinRThornton\n\t\t\t0000-0003-0743-4445\n\t\t\n\t\t\n\t\t\tJaimeAshanderf\n\t\t\t0000-0002-1841-4768\n\t\t\n\t\t\n\t\t\tPeterLRalph\n\t\t\t0000-0002-9459-6866\n\t\t\n\t\t10.1101/248500\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\t\n\t\t\t14\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c426f87723bebd86667511"},"refKey":34},
{"_key":"60c427027723bebd86667520","_id":"references/60c427027723bebd86667520","_rev":"_cfFlSvS---","tei":"\n\t\n\t\tA comprehensive tool for validated entry and documentation of data. Odense: EpiData Association\n\t\t\n\t\t\tJLauritsen\n\t\t\n\t\t\n\t\t\tMBruus\n\t\t\n\t\t\n\t\t\tEpidata\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c427027723bebd8666751f"},"refKey":15},
{"_key":"60c4270a7723bebd86667527","_id":"references/60c4270a7723bebd86667527","_rev":"_cfFlSve---","tei":"\n\t\n\t\tggplot2: elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4270a7723bebd86667526"},"refKey":59},
{"_key":"60c4270a7723bebd86667528","_id":"references/60c4270a7723bebd86667528","_rev":"_cfFlSvq---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c4270a7723bebd86667526"},"refKey":53},
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{"_key":"60c427337723bebd86667550","_id":"references/60c427337723bebd86667550","_rev":"_cfFlSwK---","tei":"\n\t\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\tIBM SPSS Statistics for Windows\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c427337723bebd8666754f"},"refKey":35},
{"_key":"60c427337723bebd86667551","_id":"references/60c427337723bebd86667551","_rev":"_cfFlSwW---","tei":"\n\t\n\t\tStatistical power analyses using G*Power 3.1: Tests for correlation and regression analyses\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t10.3758/brm.41.4.1149\n\t\t19897823\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c427337723bebd8666754f"},"refKey":36},
{"_key":"60c4274d7723bebd8666755f","_id":"references/60c4274d7723bebd8666755f","_rev":"_cfFlSwi---","tei":"\n\t\n\t\tmgm: Estimating time-varying mixed graphical models in highdimensional data\n\t\t\n\t\t\tJmbHaslbeck\n\t\t\n\t\t\n\t\t\tLJWaldorp\n\t\t\n\t\t10.18637/jss.v093.i08\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c4274d7723bebd8666755e"},"refKey":39},
{"_key":"60c427537723bebd86667568","_id":"references/60c427537723bebd86667568","_rev":"_cfFlSwu---","tei":"\n\t\n\t\tInference of Linear Mixed Models Through MM Algorithm\n\t\t\n\t\t\tFLaporte\n\t\t\n\t\t\n\t\t\tTMary-Huard\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2.0.2.\n\n","document":{"$oid":"60c427537723bebd86667567"},"refKey":10},
{"_key":"60c427537723bebd86667569","_id":"references/60c427537723bebd86667569","_rev":"_cfFlSw6---","tei":"\n\t\n\t\tEstimating Local Ancestry in Admixed Populations\n\t\t\n\t\t\tSriramSankararaman\n\t\t\n\t\t\n\t\t\tSrinathSridhar\n\t\t\n\t\t\n\t\t\tGadKimmel\n\t\t\n\t\t\n\t\t\tEranHalperin\n\t\t\n\t\t10.1016/j.ajhg.2007.09.022\n\t\t18252211\n\t\tPMC2664993\n\t\t\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t82\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c427537723bebd86667567"},"refKey":39},
{"_key":"60c4275f7723bebd8666757c","_id":"references/60c4275f7723bebd8666757c","_rev":"_cfFlSxG---","tei":"\n\t\n\t\tlme4: linear mixed-effects models using S4 classes. R Package version 0\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tDSarkar\n\t\t\n\t\t\n\t\t\tMDBates\n\t\t\n\t\t\n\t\t\tLTMatrix\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4275f7723bebd8666757b"},"refKey":5},
{"_key":"60c4275f7723bebd8666757d","_id":"references/60c4275f7723bebd8666757d","_rev":"_cfFlSxS---","tei":"\n\t\n\t\tCorrelating viral phenotypes with phylogeny: Accounting for phylogenetic uncertainty\n\t\t\n\t\t\tJoeParker\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t10.1016/j.meegid.2007.08.001\n\t\t17921073\n\t\n\t\n\t\tInfection, Genetics and Evolution\n\t\tInfection, Genetics and Evolution\n\t\t1567-1348\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4275f7723bebd8666757b"},"refKey":49},
{"_key":"60c4275f7723bebd8666757e","_id":"references/60c4275f7723bebd8666757e","_rev":"_cfFlSxe---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4275f7723bebd8666757b"},"refKey":33},
{"_key":"60c4275f7723bebd8666757f","_id":"references/60c4275f7723bebd8666757f","_rev":"_cfFlSxq---","tei":"\n\t\n\t\tvegan: Community ecology package. R package version 2.4-1\n\t\t\n\t\t\tJOksanen\n\t\t\n\t\t\n\t\t\tFBlanchet\n\t\t\n\t\t\n\t\t\tMFriendly\n\t\t\n\t\t\n\t\t\tRKindt\n\t\t\n\t\t\n\t\t\tPLegendre\n\t\t\n\t\t\n\t\t\tDMcglinn\n\t\t\n\t\t\n\t\t\tPRMinchin\n\t\t\n\t\t\n\t\t\tRO'hara\n\t\t\n\t\t\n\t\t\tGSimpson\n\t\t\n\t\t\n\t\t\tPSolymos\n\t\t\n\t\t\n\t\t\tMStevens\n\t\t\n\t\t\n\t\t\tESzoecs\n\t\t\n\t\t\n\t\t\tHWagner\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4275f7723bebd8666757b"},"refKey":47},
{"_key":"60c4275f7723bebd86667580","_id":"references/60c4275f7723bebd86667580","_rev":"_cfFlSx2---","tei":"\n\t\n\t\tAnalysis of Phylogenetics and Evolution with R\n\t\t\n\t\t\tEmmanuelParadis\n\t\t\n\t\t\n\t\t\tJClaude\n\t\t\n\t\t\n\t\t\tKStrimmer\n\t\t\n\t\t10.1007/978-1-4614-1743-9\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tSpringer New York\n\t\t\n\t\n\n","document":{"$oid":"60c4275f7723bebd8666757b"},"refKey":48},
{"_key":"60c4275f7723bebd86667581","_id":"references/60c4275f7723bebd86667581","_rev":"_cfFlSyC---","tei":"\n\t\n\t\tMuMIn: multi-model inference. R package version 1.15\n\t\t\n\t\t\tKBarton\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4275f7723bebd8666757b"},"refKey":4},
{"_key":"60c4277d7723bebd866675a9","_id":"references/60c4277d7723bebd866675a9","_rev":"_cfFlSyO---","tei":"\n\t\n\t\tCircos: an information aesthetic for comparative genomics\n\t\t\n\t\t\tMKrzywinski\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":84},
{"_key":"60c4277d7723bebd866675aa","_id":"references/60c4277d7723bebd866675aa","_rev":"_cfFlSya---","tei":"\n\t\n\t\tVariational Inference of Population Structure in Large SNP Datasets\n\t\t\n\t\t\tAnilRaj\n\t\t\n\t\t\n\t\t\tMatthewStephens\n\t\t\n\t\t\n\t\t\tJonathanKPritchard\n\t\t\n\t\t10.1101/001073\n\t\t\n\t\n\t\n\t\tGenetics\n\t\t\n\t\t\t197\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":74},
{"_key":"60c4277d7723bebd866675ab","_id":"references/60c4277d7723bebd866675ab","_rev":"_cfFlSym---","tei":"\n\t\n\t\tGenome-wide efficient mixed-model analysis for association studies\n\t\t\n\t\t\tXZhou\n\t\t\n\t\t\n\t\t\tMStephens\n\t\t\n\t\n\t\n\t\tNat. Genet\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":104},
{"_key":"60c4277d7723bebd866675ac","_id":"references/60c4277d7723bebd866675ac","_rev":"_cfFlSyy---","tei":"\n\t\n\t\tDISTRUCT: a program for the graphical display of population structure\n\t\t\n\t\t\tNARosenberg\n\t\t\n\t\n\t\n\t\tMol. Ecol. Notes\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":75},
{"_key":"60c4277d7723bebd866675ad","_id":"references/60c4277d7723bebd866675ad","_rev":"_cfFlSz----","tei":"\n\t\n\t\tThe variant call format and VCFtools\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":69},
{"_key":"60c4277d7723bebd866675ae","_id":"references/60c4277d7723bebd866675ae","_rev":"_cfFlSzO---","tei":"\n\t\n\t\tPopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format files\n\t\t\n\t\t\tChiZhang\n\t\t\n\t\t\n\t\t\tShan-ShanDong\n\t\t\n\t\t\n\t\t\tJun-YangXu\n\t\t\n\t\t\n\t\t\tWei-MingHe\n\t\t\n\t\t\n\t\t\tTie-LinYang\n\t\t\n\t\t10.1093/bioinformatics/bty875\n\t\t30321304\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":80},
{"_key":"60c4277d7723bebd866675af","_id":"references/60c4277d7723bebd866675af","_rev":"_cfFlSze---","tei":"\n\t\n\t\tqqman: an R package for visualizing GWAS results using Q-Q and manhattan plots\n\t\t\n\t\t\tSDTurner\n\t\t\n\t\t10.21105/joss.00731\n\t\t\n\t\n\t\n\t\tJournal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t3\n\t\t\t25\n\t\t\t731\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":86},
{"_key":"60c4277d7723bebd866675b0","_id":"references/60c4277d7723bebd866675b0","_rev":"_cfFlSzq---","tei":"\n\t\n\t\tPhylogenetic Estimation of Context-Dependent Substitution Rates by Maximum Likelihood\n\t\t\n\t\t\tASiepel\n\t\t\n\t\t\n\t\t\tDHaussler\n\t\t\n\t\t10.1093/molbev/msh039\n\t\t14660683\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t21\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":91},
{"_key":"60c4277d7723bebd866675b1","_id":"references/60c4277d7723bebd866675b1","_rev":"_cfFlSz2---","tei":"\n\t\n\t\tETE 3: Reconstruction, analysis, and visualization of phylogenomic data\n\t\t\n\t\t\tJHuerta-Cepas\n\t\t\n\t\t\n\t\t\tFSerra\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":89},
{"_key":"60c4277d7723bebd866675b2","_id":"references/60c4277d7723bebd866675b2","_rev":"_cfFlS0G---","tei":"\n\t\n\t\tNew Software for the Fast Estimation of Population Recombination Rates (FastEPRR) in the Genomic Era\n\t\t\n\t\t\tFengGao\n\t\t\n\t\t\n\t\t\tChenMing\n\t\t\n\t\t\n\t\t\tWangjieHu\n\t\t\n\t\t\n\t\t\tHaipengLi\n\t\t\n\t\t10.1534/g3.116.028233\n\t\t27172192\n\t\tPMC4889653\n\t\t\n\t\n\t\n\t\tG3: Genes|Genomes|Genetics\n\t\tG3\n\t\t2160-1836\n\t\t\n\t\t\t6\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tGenetics Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":79},
{"_key":"60c4277d7723bebd866675b3","_id":"references/60c4277d7723bebd866675b3","_rev":"_cfFlS0S---","tei":"\n\t\n\t\tPopulation structure and eigenanalysis\n\t\t\n\t\t\tNPatterson\n\t\t\n\t\t\n\t\t\tALPrice\n\t\t\n\t\t\n\t\t\tDReich\n\t\t\n\t\n\t\n\t\tPLoS Genet\n\t\t\n\t\t\t2\n\t\t\te190\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":72},
{"_key":"60c4277d7723bebd866675b4","_id":"references/60c4277d7723bebd866675b4","_rev":"_cfFlS0i---","tei":"\n\t\n\t\tPrincipal components analysis corrects for stratification in genome-wide association studies\n\t\t\n\t\t\tALPrice\n\t\t\n\t\n\t\n\t\tNat. Genet\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4277d7723bebd866675a8"},"refKey":73},
{"_key":"60c427d67723bebd866675f7","_id":"references/60c427d67723bebd866675f7","_rev":"_cfFlS0u---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tSMezulis\n\t\t\n\t\t\n\t\t\tCMYates\n\t\t\n\t\t\n\t\t\tMNWass\n\t\t\n\t\t\n\t\t\tMJSternberg\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c427d67723bebd866675f6"},"refKey":39},
{"_key":"60c427d67723bebd866675f8","_id":"references/60c427d67723bebd866675f8","_rev":"_cfFlS1----","tei":"\n\t\n\t\tThe HHpred interactive server for protein homology detection and structure prediction\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c427d67723bebd866675f6"},"refKey":40},
{"_key":"60c427d67723bebd866675f9","_id":"references/60c427d67723bebd866675f9","_rev":"_cfFlS1O---","tei":"\n\t\n\t\tUltrafast and memoryefficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t10\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c427d67723bebd866675f6"},"refKey":69},
{"_key":"60c427d87723bebd8666760d","_id":"references/60c427d87723bebd8666760d","_rev":"_cfFlS1e---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c427d87723bebd8666760c"},"refKey":89},
{"_key":"60c427e77723bebd86667619","_id":"references/60c427e77723bebd86667619","_rev":"_cfFlS1q---","tei":"\n\t\n\t\tR/qtl2: software for mapping quantitative trait loci with high-dimensional data and multi-parent populations\n\t\t\n\t\t\tKarlWBroman\n\t\t\t0000-0002-4914-6671\n\t\t\n\t\t\n\t\t\tDanielMGatti\n\t\t\t0000-0003-0667-9926\n\t\t\n\t\t\n\t\t\tPetrSimecek\n\t\t\t0000-0002-2922-7183\n\t\t\n\t\t\n\t\t\tNicholasAFurlotte\n\t\t\t0000-0002-9096-6276\n\t\t\n\t\t\n\t\t\tPjotrPrins\n\t\t\t0000-0002-8021-9162\n\t\t\n\t\t\n\t\t\tŚaunakSen\n\t\t\t0000-0003-4519-6361\n\t\t\n\t\t\n\t\t\tBrianSYandell\n\t\t\t0000-0002-8774-9377\n\t\t\n\t\t\n\t\t\tGaryAChurchill\n\t\t\t0000-0001-9190-9284\n\t\t\n\t\t10.1101/414748\n\t\t\n\t\t\n\t\n\t\n\t\tGenetics\n\t\t\n\t\t\t211\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c427e77723bebd86667618"},"refKey":8},
{"_key":"60c427e77723bebd8666761a","_id":"references/60c427e77723bebd8666761a","_rev":"_cfFlS2----","tei":"\n\t\n\t\t\n\t\t\tBPfaff\n\t\t\n\t\t\n\t\t\tAMcneil\n\t\t\n\t\tevir: Extreme Values in R. R package version\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c427e77723bebd86667618"},"refKey":62},
{"_key":"60c4282f7723bebd86667649","_id":"references/60c4282f7723bebd86667649","_rev":"_cfFlS2S---","tei":"\n\t\n\t\tMedian-joining networks for inferring intraspecific phylogenies\n\t\t\n\t\t\tHJBandelt\n\t\t\n\t\t\n\t\t\tPForster\n\t\t\n\t\t\n\t\t\tARöhl\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4282f7723bebd86667648"},"refKey":25},
{"_key":"60c4282f7723bebd8666764a","_id":"references/60c4282f7723bebd8666764a","_rev":"_cfFlS2m---","tei":"\n\t\n\t\tDnaSP v5: a software for comprehensive analysis of DNA polymorphism data\n\t\t\n\t\t\tPLibrado\n\t\t\n\t\t\n\t\t\tJRozas\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4282f7723bebd86667648"},"refKey":21},
{"_key":"60c4285b7723bebd8666765d","_id":"references/60c4285b7723bebd8666765d","_rev":"_cfFlS3----","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4285b7723bebd8666765c"},"refKey":36},
{"_key":"60c428777723bebd86667669","_id":"references/60c428777723bebd86667669","_rev":"_cfFlS3S---","tei":"\n\t\n\t\tAccurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tKDPreter\n\t\t\n\t\t\n\t\t\tFPattyn\n\t\t\n\t\t\n\t\t\tBPoppe\n\t\t\n\t\t\n\t\t\tNVRoy\n\t\t\n\t\t\n\t\t\tADPaepe\n\t\t\n\t\t\n\t\t\tFSpeleman\n\t\t\n\t\t10.1186/gb-2002-3-7-research0034\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t\n\t\t\n\t\n\t3, research0034.1. [CrossRef. PubMed\n\n","document":{"$oid":"60c428777723bebd86667668"},"refKey":23},
{"_key":"60c428777723bebd8666766a","_id":"references/60c428777723bebd8666766a","_rev":"_cfFlS3i---","tei":"\n\t\n\t\tmiRDeepFinder: a miRNA analysis tool for deep sequencing of plant small RNAs\n\t\t\n\t\t\tFuliangXie\n\t\t\n\t\t\n\t\t\tPengXiao\n\t\t\n\t\t\n\t\t\tDongliangChen\n\t\t\n\t\t\n\t\t\tLeiXu\n\t\t\n\t\t\n\t\t\tBaohongZhang\n\t\t\n\t\t10.1007/s11103-012-9885-2\n\t\t22290409\n\t\tark:/67375/VQC-936PPSNT-X\n\t\t36E6C99B59215FF002DA3EF6A6045D21F3068C51\n\t\n\t\n\t\tPlant Molecular Biology\n\t\tPlant Mol Biol\n\t\t0167-4412\n\t\t1573-5028\n\t\t\n\t\t\t80\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c428777723bebd86667668"},"refKey":26},
{"_key":"60c428777723bebd8666766b","_id":"references/60c428777723bebd8666766b","_rev":"_cfFlS3y---","tei":"\n\t\n\t\tDetermination of stable housekeeping genes, differentially regulated target genes and sample integrity: BestKeeper – Excel-based tool using pair-wise correlations\n\t\t\n\t\t\tMichaelWPfaffl\n\t\t\n\t\t\n\t\t\tAlesTichopad\n\t\t\n\t\t\n\t\t\tChristianPrgomet\n\t\t\n\t\t\n\t\t\tTanjaPNeuvians\n\t\t\n\t\t10.1023/b:bile.0000019559.84305.47\n\t\t15127793\n\t\tark:/67375/VQC-2X8RVVL3-2\n\t\t13298AE2E550747C6B0BF2337B8501FD07F242BF\n\t\n\t\n\t\tBiotechnology Letters\n\t\tBiotechnology Letters\n\t\t0141-5492\n\t\t\n\t\t\t26\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c428777723bebd86667668"},"refKey":25},
{"_key":"60c428777723bebd8666766c","_id":"references/60c428777723bebd8666766c","_rev":"_cfFlS4----","tei":"\n\t\n\t\tStability of endogenous reference genes in postmortem human brains for normalization of quantitative real-time PCR data: comprehensive evaluation using geNorm, NormFinder, and BestKeeper\n\t\t\n\t\t\tQiWang\n\t\t\n\t\t\n\t\t\tTakakiIshikawa\n\t\t\n\t\t\n\t\t\tTomomiMichiue\n\t\t\n\t\t\n\t\t\tBao-LiZhu\n\t\t\n\t\t\n\t\t\tDa-WeiGuan\n\t\t\n\t\t\n\t\t\tHitoshiMaeda\n\t\t\n\t\t10.1007/s00414-012-0774-7\n\t\t23010907\n\t\tark:/67375/VQC-RK47N066-P\n\t\t31F005A89724210E676CDA98D6DB890C0C6D75E7\n\t\n\t\n\t\tInternational Journal of Legal Medicine\n\t\tInt J Legal Med\n\t\t0937-9827\n\t\t1437-1596\n\t\t\n\t\t\t126\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c428777723bebd86667668"},"refKey":24},
{"_key":"60c428777723bebd8666766d","_id":"references/60c428777723bebd8666766d","_rev":"_cfFlS4O---","tei":"\n\t\n\t\tPrimer3-new capabilities and interfaces\n\t\t\n\t\t\tUAndreas\n\t\t\n\t\t\n\t\t\tCIoana\n\t\t\n\t\t\n\t\t\tKTriinu\n\t\t\n\t\t\n\t\t\tYJian\n\t\t\n\t\t\n\t\t\tBCFaircloth\n\t\t\n\t\t\n\t\t\tRMaido\n\t\t\n\t\t\n\t\t\tGRSteven\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\te115\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c428777723bebd86667668"},"refKey":27},
{"_key":"60c428777723bebd8666766e","_id":"references/60c428777723bebd8666766e","_rev":"_cfFlS4a---","tei":"\n\t\n\t\tNormalization of Real-Time Quantitative Reverse Transcription-PCR Data: A Model-Based Variance Estimation Approach to Identify Genes Suited for Normalization, Applied to Bladder and Colon Cancer Data Sets\n\t\t\n\t\t\tClausLindbjergAndersen\n\t\t\n\t\t\n\t\t\tJensLedetJensen\n\t\t\n\t\t\n\t\t\tTorbenFalckØrntoft\n\t\t\n\t\t10.1158/0008-5472.can-04-0496\n\t\t15289330\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t64\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c428777723bebd86667668"},"refKey":3},
{"_key":"60c428b77723bebd866676c2","_id":"references/60c428b77723bebd866676c2","_rev":"_cfFlS4q---","tei":"\n\t\n\t\tA greedy algorithm for aligning DNA sequences\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tSSchwartz\n\t\t\n\t\t\n\t\t\tLWagner\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\n\t\n\t\tJ. Comput. Biol\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c428b77723bebd866676c1"},"refKey":27},
{"_key":"60c428b77723bebd866676c3","_id":"references/60c428b77723bebd866676c3","_rev":"_cfFlS42---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c428b77723bebd866676c1"},"refKey":28},
{"_key":"60c428b77723bebd866676c4","_id":"references/60c428b77723bebd866676c4","_rev":"_cfFlS5G---","tei":"\n\t\n\t\tIdentification of protein coding regions by database similarity search\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tDJStates\n\t\t\n\t\n\t\n\t\tNat. Genet\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c428b77723bebd866676c1"},"refKey":29},
{"_key":"60c428b77723bebd866676c5","_id":"references/60c428b77723bebd866676c5","_rev":"_cfFlS5S---","tei":"\n\t\n\t\tThe Pfam protein families database\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tKLHowe\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c428b77723bebd866676c1"},"refKey":30},
{"_key":"60c428b77723bebd866676c6","_id":"references/60c428b77723bebd866676c6","_rev":"_cfFlS5e---","tei":"\n\t\n\t\tThe Pfam protein families database\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tLCerruti\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tLEtwiller\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tSGriffiths-Jones\n\t\t\n\t\t\n\t\t\tKLHowe\n\t\t\n\t\t\n\t\t\tMMarshall\n\t\t\n\t\t\n\t\t\tEL LSonnhammer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c428b77723bebd866676c1"},"refKey":31},
{"_key":"60c428b77723bebd866676c7","_id":"references/60c428b77723bebd866676c7","_rev":"_cfFlS5u---","tei":"\n\t\n\t\tPfam: the protein families database\n\t\t\n\t\t\tRobertDFinn\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tJClements\n\t\t\n\t\t\n\t\t\tPCoggill\n\t\t\n\t\t\n\t\t\tRYEberhardt\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tAHeger\n\t\t\n\t\t\n\t\t\tKHetherington\n\t\t\n\t\t\n\t\t\tLHolm\n\t\t\n\t\t\n\t\t\tJMistry\n\t\t\n\t\t10.1002/047001153x.g306303\n\t\t\n\t\n\t\n\t\tEncyclopedia of Genetics, Genomics, Proteomics and Bioinformatics\n\t\t\t\t\n\t\t\tJohn Wiley & Sons, Ltd\n\t\t\t\n\t\t\t42\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c428b77723bebd866676c1"},"refKey":32},
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{"_key":"60c4295c7723bebd8666771b","_id":"references/60c4295c7723bebd8666771b","_rev":"_cfFlS6S---","tei":"\n\t\n\t\tPackage "metagen\n\t\t\n\t\t\tTMobius\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tstatistical analysis package\n\n","document":{"$oid":"60c4295c7723bebd8666771a"},"refKey":57},
{"_key":"60c4295c7723bebd8666771c","_id":"references/60c4295c7723bebd8666771c","_rev":"_cfFlS6i---","tei":"\n\t\n\t\tProgramming language and free software environment for statistical computing and graphics (Statistical analysis)\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4295c7723bebd8666771a"},"refKey":56},
{"_key":"60c429637723bebd8666771f","_id":"references/60c429637723bebd8666771f","_rev":"_cfFlS6u---","tei":"\n\t\n\t\tCHARMM: the biomolecular simulation program\n\t\t\n\t\t\tBRBrooks\n\t\t\n\t\t\n\t\t\tCLBrooks\n\t\t\n\t\t\n\t\t\tADMackerell\n\t\t\n\t\t\n\t\t\tJr\n\t\t\n\t\t\n\t\t\tLNilsson\n\t\t\n\t\t\n\t\t\tRJPetrella\n\t\t\n\t\t\n\t\t\tBRoux\n\t\t\n\t\t\n\t\t\tYWon\n\t\t\n\t\t\n\t\t\tGArchontis\n\t\t\n\t\t\n\t\t\tCBartels\n\t\t\n\t\t\n\t\t\tSBoresch\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c429637723bebd8666771e"},"refKey":43},
{"_key":"60c429637723bebd86667720","_id":"references/60c429637723bebd86667720","_rev":"_cfFlS66---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c429637723bebd8666771e"},"refKey":37},
{"_key":"60c429637723bebd86667721","_id":"references/60c429637723bebd86667721","_rev":"_cfFlS7G---","tei":"\n\t\n\t\tTowards automated crystallographic structure refinement with phenix.refine\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tMMustyakimov\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tAUrzhumtsev\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c429637723bebd8666771e"},"refKey":38},
{"_key":"60c429637723bebd86667722","_id":"references/60c429637723bebd86667722","_rev":"_cfFlS7S---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c429637723bebd8666771e"},"refKey":39},
{"_key":"60c429637723bebd86667723","_id":"references/60c429637723bebd86667723","_rev":"_cfFlS7e---","tei":"\n\t\n\t\tOverview of the CCP4 suite and current developments\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tCCBallard\n\t\t\n\t\t\n\t\t\tKDCowtan\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tRMKeegan\n\t\t\n\t\t\n\t\t\tEBKrissinel\n\t\t\n\t\t\n\t\t\tAGLeslie\n\t\t\n\t\t\n\t\t\tAMccoy\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c429637723bebd8666771e"},"refKey":40},
{"_key":"60c429767723bebd86667737","_id":"references/60c429767723bebd86667737","_rev":"_cfFlS7q---","tei":"\n\t\n\t\tAn interactive spreadsheet model for visualizing dairy farm data\n\t\t\n\t\t\tShirleyGibbs\n\t\t\n\t\t\n\t\t\tKateCromie\n\t\t\n\t\t\n\t\t\tRonPellow\n\t\t\n\t\t10.1145/2808047.2808048\n\t\n\t\n\t\tProceedings of the 15th New Zealand Conference on Human-Computer Interaction - CHINZ 2015\n\t\t\t\tthe 15th New Zealand Conference on Human-Computer Interaction - CHINZ 2015Christchurch, New Zealand\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c429767723bebd86667736"},"refKey":55},
{"_key":"60c429767723bebd86667738","_id":"references/60c429767723bebd86667738","_rev":"_cfFlS72---","tei":"\n\t\n\t\tAssessing farm record keeping behaviour among small-scale poultry farmers in the Ga east municipality\n\t\t\n\t\t\tT.-AEKwame\n\t\t\n\t\t\n\t\t\tPAppiah\n\t\t\n\t\t\n\t\t\tFNimoh\n\t\t\n\t\n\t\n\t\tJournal of Agricultural Science\n\t\t\n\t\t\t2\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c429767723bebd86667736"},"refKey":52},
{"_key":"60c429767723bebd86667739","_id":"references/60c429767723bebd86667739","_rev":"_cfFlS8----","tei":"\n\t\n\t\tRecord-keeping technology adoption among dairy farmers\n\t\t\n\t\t\tEGrisham\n\t\t\n\t\t\n\t\t\tJGillespie\n\t\t\n\t\n\t\n\t\tJournal of ASFMRA\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c429767723bebd86667736"},"refKey":53},
{"_key":"60c4298b7723bebd86667745","_id":"references/60c4298b7723bebd86667745","_rev":"_cfFlS8K---","tei":"\n\t\n\t\tggplot2: elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c4298b7723bebd86667744"},"refKey":50},
{"_key":"60c4298b7723bebd86667746","_id":"references/60c4298b7723bebd86667746","_rev":"_cfFlS8W---","tei":"\n\t\n\t\tFitting linear mixed-effects models using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMaechler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4298b7723bebd86667744"},"refKey":2},
{"_key":"60c42a197723bebd8666778c","_id":"references/60c42a197723bebd8666778c","_rev":"_cfFlS8i---","tei":"\n\t\n\t\tAssembling Genomes and Mini-metagenomes from Highly Chimeric Reads\n\t\t\n\t\t\tSergeyNurk\n\t\t\n\t\t\n\t\t\tAntonBankevich\n\t\t\n\t\t\n\t\t\tDmitryAntipov\n\t\t\n\t\t\n\t\t\tAlexeyGurevich\n\t\t\n\t\t\n\t\t\tAntonKorobeynikov\n\t\t\n\t\t\n\t\t\tAllaLapidus\n\t\t\n\t\t\n\t\t\tAndreyPrjibelsky\n\t\t\n\t\t\n\t\t\tAlexeyPyshkin\n\t\t\n\t\t\n\t\t\tAlexanderSirotkin\n\t\t\n\t\t\n\t\t\tYakovSirotkin\n\t\t\n\t\t\n\t\t\tRamunasStepanauskas\n\t\t\n\t\t\n\t\t\tJeffreyMclean\n\t\t\n\t\t\n\t\t\tRogerLasken\n\t\t\n\t\t\n\t\t\tScottRClingenpeel\n\t\t\n\t\t\n\t\t\tTanjaWoyke\n\t\t\n\t\t\n\t\t\tGlennTesler\n\t\t\n\t\t\n\t\t\tMaxAAlekseyev\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1007/978-3-642-37195-0_13\n\t\tark:/67375/HCB-R3VQ3JXW-C\n\t\t77EC93BD59E2590F8D993D193A8E0C570C71841F\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t20\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42a197723bebd8666778b"},"refKey":10},
{"_key":"60c42a197723bebd8666778d","_id":"references/60c42a197723bebd8666778d","_rev":"_cfFlS8u---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42a197723bebd8666778b"},"refKey":9},
{"_key":"60c42a307723bebd8666779a","_id":"references/60c42a307723bebd8666779a","_rev":"_cfFlS86---","tei":"\n\t\n\t\tSmall-Molecule Drug Discovery Suite 2016-1: Schrödinger Suite 2016-1 Induced Fit Docking protocol; Glide version 7.0, Schrödinger, LLC\n\t\t\t\tNew York, NY; New York, NY\n\t\t\n\t\t\t\n\t\t\n\t\n\tPrime version 4.3, Schrödinger, LLC\n\n","document":{"$oid":"60c42a307723bebd86667799"},"refKey":31},
{"_key":"60c42a487723bebd866677ae","_id":"references/60c42a487723bebd866677ae","_rev":"_cfFlS9G---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42a487723bebd866677ad"},"refKey":39},
{"_key":"60c42a6c7723bebd866677bc","_id":"references/60c42a6c7723bebd866677bc","_rev":"_cfFlS9S---","tei":"\n\t\n\t\tROS: an open-source robot operating system\n\t\t\n\t\t\tMQuigley\n\t\t\n\t\t\n\t\t\tKConley\n\t\t\n\t\t\n\t\t\tBGerkey\n\t\t\n\t\t\n\t\t\tJFaust\n\t\t\n\t\t\n\t\t\tTFoote\n\t\t\n\t\t\n\t\t\tJLeibs\n\t\t\n\t\n\t\n\t\tIEEE international Conference on robotics and automation (ICRA) workshop on open source software\n\t\t\t\tKobe, Japan\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42a6c7723bebd866677bb"},"refKey":17},
{"_key":"60c42aa97723bebd866677e6","_id":"references/60c42aa97723bebd866677e6","_rev":"_cfFlS9a---","tei":"\n\t\n\t\tHybrid Approaches to Adjoint Code Generation with dco/C++. Dissertation\n\t\t\n\t\t\tJLotz\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tRWTH Aachen University\n\t\t\n\t\n\n","document":{"$oid":"60c42aa97723bebd866677e5"},"refKey":11},
{"_key":"60c42aae7723bebd866677ef","_id":"references/60c42aae7723bebd866677ef","_rev":"_cfFlS9m---","tei":"\n\t\n\t\tIdentifying bacterial genes and endosymbiont DNA with Glimmer\n\t\t\n\t\t\tArthurLDelcher\n\t\t\n\t\t\n\t\t\tKirstenABratke\n\t\t\n\t\t\n\t\t\tEdwinCPowers\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1093/bioinformatics/btm009\n\t\t17237039\n\t\tPMC2387122\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c42aae7723bebd866677ee"},"refKey":31},
{"_key":"60c42aae7723bebd866677f0","_id":"references/60c42aae7723bebd866677f0","_rev":"_cfFlS9y---","tei":"\n\t\n\t\tVersatile and open software for comparing large genomes\n\t\t\n\t\t\tSKurtz\n\t\t\n\t\t\n\t\t\tAPhillippy\n\t\t\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tMSmoot\n\t\t\n\t\t\n\t\t\tMShumway\n\t\t\n\t\t\n\t\t\tCAntonescu\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t10.1186/gb-2004-5-2-r12\n\t\n\t\n\t\tGenome Biolog\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\tR12. [CrossRef\n\n","document":{"$oid":"60c42aae7723bebd866677ee"},"refKey":30},
{"_key":"60c42ac07723bebd86667809","_id":"references/60c42ac07723bebd86667809","_rev":"_cfFlT-----","tei":"\n\t\n\t\tPsychometric Developments Related to Tests and Selection\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t10.21236/ada280416\n\t\t\n\t\n\t\n\t\tMplus User's Guide\n\t\t\t\tLos Angeles, CA\n\t\t\n\t\t\tDefense Technical Information Center\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42ac07723bebd86667808"},"refKey":40},
{"_key":"60c42ad87723bebd8666781d","_id":"references/60c42ad87723bebd8666781d","_rev":"_cfFlT-K---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 14. College Station: StataCorp\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42ad87723bebd8666781c"},"refKey":12},
{"_key":"60c42b407723bebd86667865","_id":"references/60c42b407723bebd86667865","_rev":"_cfFlT-W---","tei":"\n\t\n\t\tSPINGO: a rapid speciesclassifier for microbial amplicon sequences\n\t\t\n\t\t\tGAllard\n\t\t\n\t\t\n\t\t\tFJRyan\n\t\t\n\t\t\n\t\t\tIBJeffery\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t16\n\t\t\t324\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42b407723bebd86667864"},"refKey":18},
{"_key":"60c42b407723bebd86667866","_id":"references/60c42b407723bebd86667866","_rev":"_cfFlT-i---","tei":"\n\t\n\t\tFast and accurate short read alignment with burrows-wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42b407723bebd86667864"},"refKey":11},
{"_key":"60c42b407723bebd86667867","_id":"references/60c42b407723bebd86667867","_rev":"_cfFlT-q---","tei":"\n\t\n\t\tFast gapped-read alignment with bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42b407723bebd86667864"},"refKey":12},
{"_key":"60c42ba07723bebd866678d4","_id":"references/60c42ba07723bebd866678d4","_rev":"_cfFlT-2---","tei":"\n\t\n\t\tTalking TMAP: Automated generation of audio-tactile maps using Smith-Kettlewell's TMAP software\n\t\t\n\t\t\tJoshuaAMiele\n\t\t\n\t\t\n\t\t\tStevenLandau\n\t\t\n\t\t\n\t\t\tDeborahGilden\n\t\t\n\t\t10.1177/0264619606064436\n\t\t\n\t\n\t\n\t\tBritish Journal of Visual Impairment\n\t\tBritish Journal of Visual Impairment\n\t\t0264-6196\n\t\t1744-5809\n\t\t\n\t\t\t24\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c42ba07723bebd866678d3"},"refKey":16},
{"_key":"60c42ba07723bebd866678d5","_id":"references/60c42ba07723bebd866678d5","_rev":"_cfFlT_C---","tei":"\n\t\n\t\tTactile Map Automated Creation System Using OpenStreetMap\n\t\t\n\t\t\tTetsuyaWatanabe\n\t\t\n\t\t\n\t\t\tToshimitsuYamaguchi\n\t\t\n\t\t\n\t\t\tSatokoKoda\n\t\t\n\t\t\n\t\t\tKazunoriMinatani\n\t\t\n\t\t10.1007/978-3-319-08599-9_7\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tKMiesenberger\n\t\t\tDFels\n\t\t\tDArchambault\n\t\t\tPPeňáz\n\t\t\tWZagler\n\t\t\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t8548\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42ba07723bebd866678d3"},"refKey":28},
{"_key":"60c42ba07723bebd866678d6","_id":"references/60c42ba07723bebd866678d6","_rev":"_cfFlT_O---","tei":"\n\t\n\t\tBlind Friendly Maps\n\t\t\n\t\t\tPetrČervenka\n\t\t\n\t\t\n\t\t\tKarelBřinda\n\t\t\n\t\t\n\t\t\tMichaelaHanousková\n\t\t\n\t\t\n\t\t\tPetrHofman\n\t\t\n\t\t\n\t\t\tRadekSeifert\n\t\t\n\t\t10.1007/978-3-319-41267-2_18\n\t\tarXiv:1603.09520\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c42ba07723bebd866678d3"},"refKey":3},
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{"_key":"60c42ba67723bebd866678f2","_id":"references/60c42ba67723bebd866678f2","_rev":"_cfFlTAK---","tei":"\n\t\n\t\tThe NumPy Array: A Structure for Efficient Numerical Computation\n\t\t\n\t\t\tStéfanVan Der Walt\n\t\t\n\t\t\n\t\t\tSChrisColbert\n\t\t\n\t\t\n\t\t\tGaëlVaroquaux\n\t\t\n\t\t10.1109/mcse.2011.37\n\t\t\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\tComput. Sci. Eng.\n\t\t1521-9615\n\t\t\n\t\t\t13\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c42ba67723bebd866678ed"},"refKey":48},
{"_key":"60c42bbb7723bebd86667929","_id":"references/60c42bbb7723bebd86667929","_rev":"_cfFlTAW---","tei":"\n\t\n\t\tIdentifying bacterial genes and endosymbiont DNA with Glimmer\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tKABratke\n\t\t\n\t\t\n\t\t\tECPowers\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42bbb7723bebd86667928"},"refKey":70},
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{"_key":"60c42bd67723bebd8666793f","_id":"references/60c42bd67723bebd8666793f","_rev":"_cfFlTA2---","tei":"\n\t\n\t\tExtracting data from figures with software was faster, with higher interrater reliability than manual extraction\n\t\t\n\t\t\tJelicicKadic\n\t\t\n\t\t\n\t\t\tAVucic\n\t\t\n\t\t\n\t\t\tKDosenovic\n\t\t\n\t\t\n\t\t\tSSapunar\n\t\t\n\t\t\n\t\t\tDPuljak\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\t10.1016/j.jclinepi.2016.01.002\n\t\n\t\n\t\tJ Clin Epidemiol\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42bd67723bebd8666793d"},"refKey":21},
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{"_key":"60c42c9a7723bebd866679f0","_id":"references/60c42c9a7723bebd866679f0","_rev":"_cfFlTDO---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tMega5\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42c9a7723bebd866679ef"},"refKey":31},
{"_key":"60c42c9a7723bebd866679f1","_id":"references/60c42c9a7723bebd866679f1","_rev":"_cfFlTDa---","tei":"\n\t\n\t\tArlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows\n\t\t\n\t\t\tLExcoffier\n\t\t\n\t\t\n\t\t\tHelLischer\n\t\t\n\t\n\t\n\t\tMol Ecol Resour\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42c9a7723bebd866679ef"},"refKey":33},
{"_key":"60c42c9d7723bebd866679f7","_id":"references/60c42c9d7723bebd866679f7","_rev":"_cfFlTDi---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42c9d7723bebd866679f6"},"refKey":13},
{"_key":"60c42cad7723bebd86667a00","_id":"references/60c42cad7723bebd86667a00","_rev":"_cfFlTDu---","tei":"\n\t\n\t\tMEGA5: Molecular Evolutionary Genetics Analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t28\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42cad7723bebd866679ff"},"refKey":25},
{"_key":"60c42cad7723bebd86667a01","_id":"references/60c42cad7723bebd86667a01","_rev":"_cfFlTD6---","tei":"\n\t\n\t\tAnalyzing the mosaic structure of genes\n\t\t\n\t\t\tJohnmaynardMSmith\n\t\t\n\t\t10.1007/bf00182389\n\t\tark:/67375/1BB-PF2DNF4W-7\n\t\t50F7696424BCDB18C0ED882500777A849443F2AC\n\t\n\t\n\t\tJournal of Molecular Evolution\n\t\tJ Mol Evol\n\t\t0022-2844\n\t\t1432-1432\n\t\t\n\t\t\t34\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c42cad7723bebd866679ff"},"refKey":24},
{"_key":"60c42cad7723bebd86667a02","_id":"references/60c42cad7723bebd86667a02","_rev":"_cfFlTEG---","tei":"\n\t\n\t\tRDP2: recombination detection and analysis from sequence alignments\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tCWilliamson\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bth490\n\t\t15377507\n\t\tark:/67375/HXZ-1CJ571R5-H\n\t\tFBF994AF07DCF440DBE2361DA623551B56A99871\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c42cad7723bebd866679ff"},"refKey":18},
{"_key":"60c42cad7723bebd86667a03","_id":"references/60c42cad7723bebd86667a03","_rev":"_cfFlTES---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42cad7723bebd866679ff"},"refKey":7},
{"_key":"60c42cad7723bebd86667a04","_id":"references/60c42cad7723bebd86667a04","_rev":"_cfFlTEe---","tei":"\n\t\n\t\tRecombination in Evolutionary Genomics\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t\n\t\t\tKeithACrandall\n\t\t\n\t\t\n\t\t\tEdwardCHolmes\n\t\t\n\t\t10.1146/annurev.genet.36.040202.111115\n\t\t12429687\n\t\t\n\t\n\t\n\t\tAnnual Review of Genetics\n\t\tAnnu. Rev. Genet.\n\t\t0066-4197\n\t\t1545-2948\n\t\t\n\t\t\t36\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAnnual Reviews\n\t\t\n\t\n\n","document":{"$oid":"60c42cad7723bebd866679ff"},"refKey":21},
{"_key":"60c42cad7723bebd86667a05","_id":"references/60c42cad7723bebd86667a05","_rev":"_cfFlTEq---","tei":"\n\t\n\t\tPossible emergence of new geminiviruses by frequent recombination\n\t\t\n\t\t\tMPadidam\n\t\t\n\t\t\n\t\t\tSSawyer\n\t\t\n\t\t\n\t\t\tCMFauquet\n\t\t\n\t\n\t\n\t\tVirology\n\t\t\n\t\t\t265\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42cad7723bebd866679ff"},"refKey":19},
{"_key":"60c42cb47723bebd86667a14","_id":"references/60c42cb47723bebd86667a14","_rev":"_cfFlTE2---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJournal of molecular biology\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42cb47723bebd86667a13"},"refKey":45},
{"_key":"60c42ce47723bebd86667a3c","_id":"references/60c42ce47723bebd86667a3c","_rev":"_cfFlTF----","tei":"\n\t\n\t\tPredicting the Functional, Molecular, and Phenotypic Consequences of Amino Acid Substitutions using Hidden Markov Models\n\t\t\n\t\t\tHashemAShihab\n\t\t\n\t\t\n\t\t\tJulianGough\n\t\t\n\t\t\n\t\t\tDavidNCooper\n\t\t\n\t\t\n\t\t\tPeterDStenson\n\t\t\n\t\t\n\t\t\tGaryL ABarker\n\t\t\n\t\t\n\t\t\tKeithJEdwards\n\t\t\n\t\t\n\t\t\tIanN MDay\n\t\t\n\t\t\n\t\t\tTomRGaunt\n\t\t\n\t\t10.1002/humu.22225\n\t\t23033316\n\t\tPMC3558800\n\t\tark:/67375/WNG-6TDJL37K-7\n\t\t926F9D7D8720820F32952A8DE3BACD96716CDA30\n\t\t\n\t\t\n\t\n\t\n\t\tHuman Mutation\n\t\tHuman Mutation\n\t\t1059-7794\n\t\t\n\t\t\t34\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c42ce47723bebd86667a3b"},"refKey":55},
{"_key":"60c42ce47723bebd86667a3d","_id":"references/60c42ce47723bebd86667a3d","_rev":"_cfFlTFK---","tei":"\n\t\n\t\tAutomated inference of molecular mechanisms of disease from amino acid substitutions\n\t\t\n\t\t\tBLi\n\t\t\n\t\t\n\t\t\tVGKrishnan\n\t\t\n\t\t\n\t\t\tMEMort\n\t\t\n\t\t\n\t\t\tFXin\n\t\t\n\t\t\n\t\t\tKKKamati\n\t\t\n\t\t\n\t\t\tDNCooper\n\t\t\n\t\t\n\t\t\tSDMooney\n\t\t\n\t\t\n\t\t\tPRadivojac\n\t\t\n\t\t10.1093/bioinformatics/btp528\n\t\t19734154\n\t\tPMC3140805\n\t\tark:/67375/HXZ-LJ27PVHB-B\n\t\tC22423249A2D16E7A96E438D4F7BA16E58B5D151\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c42ce47723bebd86667a3b"},"refKey":51},
{"_key":"60c42ce47723bebd86667a3e","_id":"references/60c42ce47723bebd86667a3e","_rev":"_cfFlTFW---","tei":"\n\t\n\t\tHuman non-synonymous SNPs: server and survey\n\t\t\n\t\t\tVRamensky\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t\n\t\t\tSSunyaev\n\t\t\n\t\t12202775\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42ce47723bebd86667a3b"},"refKey":49},
{"_key":"60c42ce47723bebd86667a3f","_id":"references/60c42ce47723bebd86667a3f","_rev":"_cfFlTFi---","tei":"\n\t\n\t\tPANTHER-PSEP: predicting disease-causing genetic variants using position-specific evolutionary preservation\n\t\t\n\t\t\tHaimingTang\n\t\t\n\t\t\n\t\t\tPaulDThomas\n\t\t\n\t\t10.1093/bioinformatics/btw222\n\t\t27193693\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c42ce47723bebd86667a3b"},"refKey":50},
{"_key":"60c42ce47723bebd86667a40","_id":"references/60c42ce47723bebd86667a40","_rev":"_cfFlTFu---","tei":"\n\t\n\t\tREVEL: An Ensemble Method for Predicting the Pathogenicity of Rare Missense Variants\n\t\t\n\t\t\tNilahMIoannidis\n\t\t\n\t\t\n\t\t\tJosephHRothstein\n\t\t\n\t\t\n\t\t\tVikasPejaver\n\t\t\n\t\t\n\t\t\tSumitMiddha\n\t\t\n\t\t\n\t\t\tShannonKMcdonnell\n\t\t\n\t\t\n\t\t\tSaurabhBaheti\n\t\t\n\t\t\n\t\t\tAnthonyMusolf\n\t\t\n\t\t\n\t\t\tQingLi\n\t\t\n\t\t\n\t\t\tEmilyHolzinger\n\t\t\n\t\t\n\t\t\tDanielleKaryadi\n\t\t\n\t\t\n\t\t\tLisaACannon-Albright\n\t\t\n\t\t\n\t\t\tCraigCTeerlink\n\t\t\n\t\t\n\t\t\tJanetLStanford\n\t\t\n\t\t\n\t\t\tWilliamBIsaacs\n\t\t\n\t\t\n\t\t\tJianfengXu\n\t\t\n\t\t\n\t\t\tKathleenACooney\n\t\t\n\t\t\n\t\t\tEthanMLange\n\t\t\n\t\t\n\t\t\tJohannaSchleutker\n\t\t\n\t\t\n\t\t\tJohnDCarpten\n\t\t\n\t\t\n\t\t\tIsaacJPowell\n\t\t\n\t\t\n\t\t\tOlivierCussenot\n\t\t\n\t\t\n\t\t\tGeraldineCancel-Tassin\n\t\t\n\t\t\n\t\t\tGrahamGGiles\n\t\t\n\t\t\n\t\t\tRobertJMacinnis\n\t\t\n\t\t\n\t\t\tChristianeMaier\n\t\t\n\t\t\n\t\t\tChih-LinHsieh\n\t\t\n\t\t\n\t\t\tFredrikWiklund\n\t\t\n\t\t\n\t\t\tWilliamJCatalona\n\t\t\n\t\t\n\t\t\tWilliamDFoulkes\n\t\t\n\t\t\n\t\t\tDiptasriMandal\n\t\t\n\t\t\n\t\t\tRosalindAEeles\n\t\t\n\t\t\n\t\t\tZsofiaKote-Jarai\n\t\t\n\t\t\n\t\t\tCarlosDBustamante\n\t\t\n\t\t\n\t\t\tDanielJSchaid\n\t\t\n\t\t\n\t\t\tTrevorHastie\n\t\t\n\t\t\n\t\t\tElaineAOstrander\n\t\t\n\t\t\n\t\t\tJoanEBailey-Wilson\n\t\t\n\t\t\n\t\t\tPredragRadivojac\n\t\t\n\t\t\n\t\t\tStephenNThibodeau\n\t\t\n\t\t\n\t\t\tAliceSWhittemore\n\t\t\n\t\t\n\t\t\tWeivaSieh\n\t\t\n\t\t10.1016/j.ajhg.2016.08.016\n\t\t27666373\n\t\tPMC5065685\n\t\t\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t99\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c42ce47723bebd86667a3b"},"refKey":58},
{"_key":"60c42ce47723bebd86667a41","_id":"references/60c42ce47723bebd86667a41","_rev":"_cfFlTF6---","tei":"\n\t\n\t\tPROVEAN web server: a tool to predict the functional effect of amino acid substitutions and indels\n\t\t\n\t\t\tYongwookChoi\n\t\t\n\t\t\n\t\t\tAgnesPChan\n\t\t\n\t\t10.1093/bioinformatics/btv195\n\t\t25851949\n\t\tPMC4528627\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c42ce47723bebd86667a3b"},"refKey":53},
{"_key":"60c42ce47723bebd86667a42","_id":"references/60c42ce47723bebd86667a42","_rev":"_cfFlTGG---","tei":"\n\t\n\t\tComprehensive statistical study of 452 BRCA1 missense substitutions with classification of eight recurrent substitutions as neutral\n\t\t\n\t\t\tS VTavtigian\n\t\t\n\t\t\n\t\t\tAMDeffenbaugh\n\t\t\n\t\t\n\t\t\tLYin\n\t\t\n\t\t\n\t\t\tTJudkins\n\t\t\n\t\t\n\t\t\tTScholl\n\t\t\n\t\t\n\t\t\tPBSamollow\n\t\t\n\t\t10.1136/jmg.2005.033878\n\t\t16014699\n\t\tPMC2563222\n\t\tark:/67375/NVC-32V1K825-0\n\t\t575A516D79A83B594DD15FD0B0F76761511C1701\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Medical Genetics\n\t\tJournal of Medical Genetics\n\t\t1468-6244\n\t\t\n\t\t\t43\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tBMJ\n\t\t\n\t\n\n","document":{"$oid":"60c42ce47723bebd86667a3b"},"refKey":57},
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{"_key":"60c42da37723bebd86667b24","_id":"references/60c42da37723bebd86667b24","_rev":"_cfFlTHi---","tei":"\n\t\n\t\tNormalization of Real-Time Quantitative Reverse Transcription-PCR Data: A Model-Based Variance Estimation Approach to Identify Genes Suited for Normalization, Applied to Bladder and Colon Cancer Data Sets\n\t\t\n\t\t\tCLAndersen\n\t\t\n\t\t\n\t\t\tJLJensen\n\t\t\n\t\t\n\t\t\tTFOrntoft\n\t\t\n\t\n\t\n\t\tCancer Res\n\t\t\n\t\t\t64\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42da37723bebd86667b23"},"refKey":13},
{"_key":"60c42da37723bebd86667b25","_id":"references/60c42da37723bebd86667b25","_rev":"_cfFlTHu---","tei":"\n\t\n\t\tAccurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tDePreter\n\t\t\n\t\t\n\t\t\tKPattyn\n\t\t\n\t\t\n\t\t\tFPoppe\n\t\t\n\t\t\n\t\t\tBVan Roy\n\t\t\n\t\t\n\t\t\tN\n\t\t\n\t\t\n\t\t\tDePaepe\n\t\t\n\t\t\n\t\t\tASpeleman\n\t\t\n\t\t\n\t\t\tF\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t3\n\t\t\tH0034\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42da37723bebd86667b23"},"refKey":10},
{"_key":"60c42da37723bebd86667b26","_id":"references/60c42da37723bebd86667b26","_rev":"_cfFlTH6---","tei":"\n\t\n\t\tDetermination of stable housekeeping genes, differentially regulated target genes and sample integrity: BestKeeper-Excel-based tool using pair-wise correlations\n\t\t\n\t\t\tMWPfaffl\n\t\t\n\t\t\n\t\t\tATichopad\n\t\t\n\t\t\n\t\t\tCPrgomet\n\t\t\n\t\t\n\t\t\tTPNeuvians\n\t\t\n\t\n\t\n\t\tBiotechnology Letters\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42da37723bebd86667b23"},"refKey":12},
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{"_key":"60c42dd37723bebd86667b62","_id":"references/60c42dd37723bebd86667b62","_rev":"_cfFlTJm---","tei":"\n\t\n\t\tBuDDy: A Binary Decision Diagram library\n\t\t\n\t\t\tHCohen\n\t\t\n\t\t\n\t\t\tJWhaley\n\t\t\n\t\t\n\t\t\tJWildt\n\t\t\n\t\t\n\t\t\tNGorogiannis\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42dd37723bebd86667b5d"},"refKey":31},
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{"_key":"60c42dd37723bebd86667b64","_id":"references/60c42dd37723bebd86667b64","_rev":"_cfFlTJ6---","tei":"\n\t\n\t\tVMC: A Tool for Product Variability Analysis\n\t\t\n\t\t\tMHBeek\n\t\t\n\t\t\n\t\t\tFMazzanti\n\t\t\n\t\t\n\t\t\tASulova\n\t\t\n\t\n\t\n\t\tProc. FM'12\n\t\t\t\t\n\t\t\tDGiannakopoulou\n\t\t\tDMéry\n\t\t\n\t\tFM'12\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t7436\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42dd37723bebd86667b5d"},"refKey":8},
{"_key":"60c42dd37723bebd86667b65","_id":"references/60c42dd37723bebd86667b65","_rev":"_cfFlTKG---","tei":"\n\t\n\t\tFamily-Based Modeling and Analysis for Probabilistic Systems – Featuring ProFeat\n\t\t\n\t\t\tPhilippChrszon\n\t\t\n\t\t\n\t\t\tClemensDubslaff\n\t\t\n\t\t\n\t\t\tSaschaKlüppelholz\n\t\t\n\t\t\n\t\t\tChristelBaier\n\t\t\n\t\t10.1007/978-3-662-49665-7_17\n\t\n\t\n\t\tFundamental Approaches to Software Engineering\n\t\t\t\t\n\t\t\tPStevens\n\t\t\tAWąsowski\n\t\t\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t9633\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42dd37723bebd86667b5d"},"refKey":9},
{"_key":"60c42dd37723bebd86667b66","_id":"references/60c42dd37723bebd86667b66","_rev":"_cfFlTKS---","tei":"\n\t\n\t\tProFeat: feature-oriented engineering for family-based probabilistic model checking\n\t\t\n\t\t\tPChrszon\n\t\t\n\t\t\n\t\t\tCDubslaff\n\t\t\n\t\t\n\t\t\tSKlüppelholz\n\t\t\n\t\t\n\t\t\tCBaier\n\t\t\n\t\n\t\n\t\tForm. Asp. Comp\n\t\t\n\t\t\t30\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42dd37723bebd86667b5d"},"refKey":10},
{"_key":"60c42dd37723bebd86667b67","_id":"references/60c42dd37723bebd86667b67","_rev":"_cfFlTKe---","tei":"\n\t\n\t\tA framework for quantitative modeling and analysis of highly (re)configurable systems\n\t\t\n\t\t\tMHBeek\n\t\t\n\t\t\n\t\t\tALegay\n\t\t\n\t\t\n\t\t\tALluch Lafuente\n\t\t\n\t\t\n\t\t\tAVandin\n\t\t\n\t\n\t\n\t\tIEEE Trans. Softw. Eng\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42dd37723bebd86667b5d"},"refKey":11},
{"_key":"60c42dd37723bebd86667b68","_id":"references/60c42dd37723bebd86667b68","_rev":"_cfFlTKq---","tei":"\n\t\n\t\tQFLan: A Tool for the Quantitative Analysis of Highly Reconfigurable Systems\n\t\t\n\t\t\tAndreaVandin\n\t\t\n\t\t\n\t\t\tMauriceHTer Beek\n\t\t\n\t\t\n\t\t\tAxelLegay\n\t\t\n\t\t\n\t\t\tAlbertoLluch Lafuente\n\t\t\n\t\t10.1007/978-3-319-95582-7_19\n\t\t\n\t\n\t\n\t\tFormal Methods\n\t\t\t\t\n\t\t\tKHavelund\n\t\t\tJPeleska\n\t\t\tBRoscoe\n\t\t\tEDe Vink\n\t\t\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42dd37723bebd86667b5d"},"refKey":12},
{"_key":"60c42dd37723bebd86667b69","_id":"references/60c42dd37723bebd86667b69","_rev":"_cfFlTK2---","tei":"\n\t\n\t\tSymbolic model checking of software product lines\n\t\t\n\t\t\tAndreasClassen\n\t\t\n\t\t\n\t\t\tPatrickHeymans\n\t\t\n\t\t\n\t\t\tPierre-YvesSchobbens\n\t\t\n\t\t\n\t\t\tAxelLegay\n\t\t\n\t\t10.1145/1985793.1985838\n\t\t\n\t\n\t\n\t\tProceeding of the 33rd international conference on Software engineering - ICSE '11\n\t\t\t\teeding of the 33rd international conference on Software engineering - ICSE '11\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42dd37723bebd86667b5d"},"refKey":13},
{"_key":"60c42dd37723bebd86667b6a","_id":"references/60c42dd37723bebd86667b6a","_rev":"_cfFlTLC---","tei":"\n\t\n\t\tFormal semantics, modular specification, and symbolic verification of product-line behaviour\n\t\t\n\t\t\tAndreasClassen\n\t\t\n\t\t\n\t\t\tMaximeCordy\n\t\t\n\t\t\n\t\t\tPatrickHeymans\n\t\t\n\t\t\n\t\t\tAxelLegay\n\t\t\n\t\t\n\t\t\tPierre-YvesSchobbens\n\t\t\n\t\t10.1016/j.scico.2013.09.019\n\t\n\t\n\t\tScience of Computer Programming\n\t\tScience of Computer Programming\n\t\t0167-6423\n\t\t\n\t\t\t80\n\t\t\tB\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c42dd37723bebd86667b5d"},"refKey":14},
{"_key":"60c42dd37723bebd86667b6b","_id":"references/60c42dd37723bebd86667b6b","_rev":"_cfFlTLO---","tei":"\n\t\n\t\tIncremental model checking of delta-oriented software product lines\n\t\t\n\t\t\tMalteLochau\n\t\t\n\t\t\n\t\t\tStephanMennicke\n\t\t\n\t\t\n\t\t\tHaukeBaller\n\t\t\n\t\t\n\t\t\tLarsRibbeck\n\t\t\n\t\t10.1016/j.jlamp.2015.09.004\n\t\n\t\n\t\tJournal of Logical and Algebraic Methods in Programming\n\t\tJournal of Logical and Algebraic Methods in Programming\n\t\t2352-2208\n\t\t\n\t\t\t85\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c42dd37723bebd86667b5d"},"refKey":16},
{"_key":"60c42e1f7723bebd86667b9e","_id":"references/60c42e1f7723bebd86667b9e","_rev":"_cfFlTLa---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t10.1093/nar/gkg595\n\t\t12824337\n\t\tPMC169194\n\t\tark:/67375/HXZ-CTS3N10R-1\n\t\tF1A174A592D046D94F933F3C8A3EC56E88054798\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c42e1f7723bebd86667b9d"},"refKey":53},
{"_key":"60c42e1f7723bebd86667b9f","_id":"references/60c42e1f7723bebd86667b9f","_rev":"_cfFlTLi---","tei":"\n\t\n\t\tExpanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure\n\t\t\n\t\t\tDavidHMathews\n\t\t\n\t\t\n\t\t\tJeffreySabina\n\t\t\n\t\t\n\t\t\tMichaelZuker\n\t\t\n\t\t\n\t\t\tDouglasHTurner\n\t\t\n\t\t10.1006/jmbi.1999.2700\n\t\t10329189\n\t\tS0022-2836(99)92700-6\n\t\tark:/67375/6H6-HS4W1025-W\n\t\tEAFDC6BB85DBB51818701C39D8407FB2759E4476\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t288\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c42e1f7723bebd86667b9d"},"refKey":54},
{"_key":"60c42e2f7723bebd86667ba9","_id":"references/60c42e2f7723bebd86667ba9","_rev":"_cfFlTLu---","tei":"\n\t\n\t\tStatistical power analyses using G*Power 3.1: Tests for correlation and regression analyses\n\t\t\n\t\t\tFFaul\n\t\t\n\t\t\n\t\t\tEErdfelder\n\t\t\n\t\t\n\t\t\tABuchner\n\t\t\n\t\t\n\t\t\tA.-GLang\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42e2f7723bebd86667ba8"},"refKey":15},
{"_key":"60c42e4b7723bebd86667bb6","_id":"references/60c42e4b7723bebd86667bb6","_rev":"_cfFlTL6---","tei":"\n\t\n\t\tVeritas Health Innovation. Covidence systematic review software\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42e4b7723bebd86667bb5"},"refKey":15},
{"_key":"60c42e507723bebd86667bba","_id":"references/60c42e507723bebd86667bba","_rev":"_cfFlTMG---","tei":"\n\t\n\t\tKnowledge-guided analysis of ‘omics’ data using the KnowEnG cloud platform\n\t\t\n\t\t\tCharlesBlatti\n\t\t\n\t\t\n\t\t\tAminEmad\n\t\t\n\t\t\n\t\t\tMatthewJBerry\n\t\t\n\t\t\n\t\t\tLisaGatzke\n\t\t\n\t\t\n\t\t\tMiltEpstein\n\t\t\n\t\t\n\t\t\tDanielLanier\n\t\t\n\t\t\n\t\t\tPramodRizal\n\t\t\n\t\t\n\t\t\tJingGe\n\t\t\n\t\t\n\t\t\tXiaoxiaLiao\n\t\t\n\t\t\n\t\t\tOmarSobh\n\t\t\n\t\t\n\t\t\tMikeLambert\n\t\t\n\t\t\n\t\t\tCoreySPost\n\t\t\n\t\t\n\t\t\tJinfengXiao\n\t\t\n\t\t\n\t\t\tPeterGroves\n\t\t\n\t\t\n\t\t\tAidanTEpstein\n\t\t\n\t\t\n\t\t\tXiChen\n\t\t\n\t\t\n\t\t\tSubhashiniSrinivasan\n\t\t\n\t\t\n\t\t\tErikLehnert\n\t\t\n\t\t\n\t\t\tKrishnaRKalari\n\t\t\n\t\t\n\t\t\tLieweiWang\n\t\t\n\t\t\n\t\t\tRichardMWeinshilboum\n\t\t\n\t\t\n\t\t\tJunSSong\n\t\t\n\t\t\n\t\t\tCVictorJongeneel\n\t\t\n\t\t\n\t\t\tJiaweiHan\n\t\t\n\t\t\n\t\t\tUmbertoRavaioli\n\t\t\n\t\t\n\t\t\tNahilSobh\n\t\t\n\t\t\n\t\t\tColleenBBushell\n\t\t\n\t\t\n\t\t\tSaurabhSinha\n\t\t\n\t\t10.1101/642124\n\t\t31971940\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS Biol\n\t\t\n\t\t\t18\n\t\t\te3000583\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c42e507723bebd86667bb9"},"refKey":33},
{"_key":"60c42e8f7723bebd86667be1","_id":"references/60c42e8f7723bebd86667be1","_rev":"_cfFlTMS---","tei":"\n\t\n\t\tSARS-CoV-2 Infection in Children\n\t\t\n\t\t\tXLu\n\t\t\n\t\t\n\t\t\tLZhang\n\t\t\n\t\t\n\t\t\tHDu\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tYYLi\n\t\t\n\t\t\n\t\t\tJQu\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42e8f7723bebd86667be0"},"refKey":12},
{"_key":"60c42e9f7723bebd86667bed","_id":"references/60c42e9f7723bebd86667bed","_rev":"_cfFlTMe---","tei":"\n\t\n\t\tGenome Detective: an automated system for virus identification from high-throughput sequencing data\n\t\t\n\t\t\tMichaelVilsker\n\t\t\n\t\t\n\t\t\tYumnaMoosa\n\t\t\n\t\t\n\t\t\tSamNooij\n\t\t\n\t\t\n\t\t\tVagnerFonseca\n\t\t\n\t\t\n\t\t\tYoikaGhysens\n\t\t\n\t\t\n\t\t\tKorneelDumon\n\t\t\n\t\t\n\t\t\tRafPauwels\n\t\t\n\t\t\n\t\t\tLuizCarlosAlcantara\n\t\t\n\t\t\n\t\t\tEwoutVanden Eynden\n\t\t\n\t\t\n\t\t\tAnne-MiekeVandamme\n\t\t\n\t\t\n\t\t\tKoenDeforche\n\t\t\n\t\t\n\t\t\tTulioDe Oliveira\n\t\t\t0000-0002-3027-5254\n\t\t\n\t\t10.1093/bioinformatics/bty695\n\t\t30124794\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c42e9f7723bebd86667bec"},"refKey":12},
{"_key":"60c42e9f7723bebd86667bee","_id":"references/60c42e9f7723bebd86667bee","_rev":"_cfFlTMq---","tei":"\n\t\n\t\tGeneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMeintjes\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\t10.1093/bioinformatics/bts199\n\t\t22543367\n\t\tPMC3371832\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c42e9f7723bebd86667bec"},"refKey":14},
{"_key":"60c42e9f7723bebd86667bef","_id":"references/60c42e9f7723bebd86667bef","_rev":"_cfFlTM2---","tei":"\n\t\n\t\tAn automated genotyping tool for enteroviruses and noroviruses\n\t\t\n\t\t\tAKroneman\n\t\t\n\t\t\n\t\t\tHVennema\n\t\t\n\t\t\n\t\t\tKDeforche\n\t\t\n\t\t\n\t\t\tHV DAvoort\n\t\t\n\t\t\n\t\t\tSPeñaranda\n\t\t\n\t\t\n\t\t\tMSOberste\n\t\t\n\t\t\n\t\t\tJVinjé\n\t\t\n\t\t\n\t\t\tMKoopmans\n\t\t\n\t\t10.1016/j.jcv.2011.03.006\n\t\t21514213\n\t\n\t\n\t\tJournal of Clinical Virology\n\t\tJournal of Clinical Virology\n\t\t1386-6532\n\t\t\n\t\t\t51\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c42e9f7723bebd86667bec"},"refKey":16},
{"_key":"60c42e9f7723bebd86667bf0","_id":"references/60c42e9f7723bebd86667bf0","_rev":"_cfFlTNC---","tei":"\n\t\n\t\tRotaC: A web-based tool for the complete genome classification of group A rotaviruses\n\t\t\n\t\t\tPietMaes\n\t\t\n\t\t\n\t\t\tJelleMatthijnssens\n\t\t\n\t\t\n\t\t\tMustafizurRahman\n\t\t\n\t\t\n\t\t\tMarcVan Ranst\n\t\t\n\t\t10.1186/1471-2180-9-238\n\t\t19930627\n\t\tPMC2785824\n\t\t\n\t\n\t\n\t\tBMC Microbiology\n\t\tBMC Microbiology\n\t\t1471-2180\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t238\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c42e9f7723bebd86667bec"},"refKey":19},
{"_key":"60c42e9f7723bebd86667bf1","_id":"references/60c42e9f7723bebd86667bf1","_rev":"_cfFlTNO---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c42e9f7723bebd86667bec"},"refKey":17},
{"_key":"60c42eab7723bebd86667c09","_id":"references/60c42eab7723bebd86667c09","_rev":"_cfFlTNa---","tei":"\n\t\n\t\tGenome evolution and adaptation in a long-term experiment with Escherichia coli\n\t\t\n\t\t\tJEBarrick\n\t\t\n\t\t\n\t\t\tDSYu\n\t\t\n\t\t\n\t\t\tSHYoon\n\t\t\n\t\t\n\t\t\tHJeong\n\t\t\n\t\t\n\t\t\tTKOh\n\t\t\n\t\t\n\t\t\tDSchneider\n\t\t\n\t\t\n\t\t\tRELenski\n\t\t\n\t\t\n\t\t\tJFKim\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t461\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42eab7723bebd86667c08"},"refKey":27},
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{"_key":"60c42eab7723bebd86667c0b","_id":"references/60c42eab7723bebd86667c0b","_rev":"_cfFlTNy---","tei":"\n\t\n\t\tThe Sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42eab7723bebd86667c08"},"refKey":13},
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{"_key":"60c42f1e7723bebd86667cc0","_id":"references/60c42f1e7723bebd86667cc0","_rev":"_cfFlTOK---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tProc Int Conf Intell Syst Mol Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c42f1e7723bebd86667cbf"},"refKey":40},
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{"_key":"60c4305f7723bebd86667df2","_id":"references/60c4305f7723bebd86667df2","_rev":"_cfFlTSO---","tei":"\n\t\n\t\tA New R package for Mapping Global Data\n\t\t\n\t\t\tASouth\n\t\t\n\t\t\n\t\t\tRworldmap\n\t\t\n\t\n\t\n\t\tR J\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4305f7723bebd86667df0"},"refKey":16},
{"_key":"60c4305f7723bebd86667df3","_id":"references/60c4305f7723bebd86667df3","_rev":"_cfFlTSi---","tei":"\n\t\n\t\tTreeTime: Maximum-likelihood phylodynamic analysis\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tVadimPuller\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\t0000-0003-2525-1407\n\t\t\n\t\t10.1093/ve/vex042\n\t\t29340210\n\t\tPMC5758920\n\t\t\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tcited 2020 Jun 26\n\n","document":{"$oid":"60c4305f7723bebd86667df0"},"refKey":15},
{"_key":"60c430637723bebd86667e00","_id":"references/60c430637723bebd86667e00","_rev":"_cfFlTSu---","tei":"\n\t\n\t\tEvol and ProDy for bridging protein sequence evolution and structural dynamics\n\t\t\n\t\t\tABakan\n\t\t\n\t\t\n\t\t\tADutta\n\t\t\n\t\t\n\t\t\tWMao\n\t\t\n\t\t\n\t\t\tYLiu\n\t\t\n\t\t\n\t\t\tCChennubhotla\n\t\t\n\t\t\n\t\t\tTRLezon\n\t\t\n\t\t\n\t\t\tIBahar\n\t\t\n\t\t10.1093/bioinformatics/btu336\n\t\t24849577\n\t\tPMC4155247\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c430637723bebd86667dff"},"refKey":4},
{"_key":"60c430637723bebd86667e01","_id":"references/60c430637723bebd86667e01","_rev":"_cfFlTS6---","tei":"\n\t\n\t\tProDy: Protein Dynamics Inferred from Theory and Experiments\n\t\t\n\t\t\tABakan\n\t\t\n\t\t\n\t\t\tLMMeireles\n\t\t\n\t\t\n\t\t\tIBahar\n\t\t\n\t\t10.1093/bioinformatics/btr168\n\t\t21471012\n\t\tPMC3102222\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c430637723bebd86667dff"},"refKey":5},
{"_key":"60c430637723bebd86667e02","_id":"references/60c430637723bebd86667e02","_rev":"_cfFlTTG---","tei":"\n\t\n\t\tThe HADDOCK2. 2 web server: user-friendly integrative modeling of biomolecular complexes\n\t\t\n\t\t\tGVan Zundert\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t428\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c430637723bebd86667dff"},"refKey":43},
{"_key":"60c430687723bebd86667e08","_id":"references/60c430687723bebd86667e08","_rev":"_cfFlTTS---","tei":"\n\t\n\t\tGLIMMPSE: Online Power Computation for Linear Models with and without a Baseline Covariate\n\t\t\n\t\t\tSarahMKreidler\n\t\t\n\t\t\n\t\t\tKeithEMuller\n\t\t\n\t\t\n\t\t\tGaryKGrunwald\n\t\t\n\t\t\n\t\t\tBrandyMRingham\n\t\t\n\t\t\n\t\t\tZaccharyCoker-Dukowitz\n\t\t\n\t\t\n\t\t\tUttaraRSakhadeo\n\t\t\n\t\t\n\t\t\tAnnaEBaron\n\t\t\n\t\t\n\t\t\tDeborahHGlueck\n\t\t\n\t\t10.18637/jss.v054.i10\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t54\n\t\t\t10\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c430687723bebd86667e07"},"refKey":33},
{"_key":"60c430687723bebd86667e09","_id":"references/60c430687723bebd86667e09","_rev":"_cfFlTTe---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c430687723bebd86667e07"},"refKey":48},
{"_key":"60c430687723bebd86667e0a","_id":"references/60c430687723bebd86667e0a","_rev":"_cfFlTTq---","tei":"\n\t\n\t\tEstimated marginal means, aka least-squares means\n\t\t\n\t\t\tRLenth\n\t\t\n\t\t\n\t\t\tHSingmann\n\t\t\n\t\t\n\t\t\tJLove\n\t\t\n\t\t\n\t\t\tPBuerkner\n\t\t\n\t\t\n\t\t\tMHerve\n\t\t\n\t\t\n\t\n\tR package version 1.5.0 (2020\n\n","document":{"$oid":"60c430687723bebd86667e07"},"refKey":50},
{"_key":"60c4306d7723bebd86667e11","_id":"references/60c4306d7723bebd86667e11","_rev":"_cfFlTT2---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tEliceiriKw\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 22930834\n\n","document":{"$oid":"60c4306d7723bebd86667e10"},"refKey":29},
{"_key":"60c4306d7723bebd86667e12","_id":"references/60c4306d7723bebd86667e12","_rev":"_cfFlTUC---","tei":"\n\t\n\t\tAlternative Splicing in the Differentiation of Human Embryonic Stem Cells into Cardiac Precursors\n\t\t\n\t\t\tNathanSalomonis\n\t\t\n\t\t\n\t\t\tBrandonNelson\n\t\t\n\t\t\n\t\t\tKarenVranizan\n\t\t\n\t\t\n\t\t\tAlexanderRPico\n\t\t\n\t\t\n\t\t\tKristinaHanspers\n\t\t\n\t\t\n\t\t\tAllanKuchinsky\n\t\t\n\t\t\n\t\t\tLindaTa\n\t\t\n\t\t\n\t\t\tMarkMercola\n\t\t\n\t\t\n\t\t\tBruceRConklin\n\t\t\n\t\t10.1371/journal.pcbi.1000553\n\t\t19893621\n\t\tPMC2764345\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t5\n\t\t\t11\n\t\t\te1000553\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\tPubMed: 19893621\n\n","document":{"$oid":"60c4306d7723bebd86667e10"},"refKey":26},
{"_key":"60c4306d7723bebd86667e13","_id":"references/60c4306d7723bebd86667e13","_rev":"_cfFlTUO---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tHallIm\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 20110278\n\n","document":{"$oid":"60c4306d7723bebd86667e10"},"refKey":24},
{"_key":"60c4306f7723bebd86667e20","_id":"references/60c4306f7723bebd86667e20","_rev":"_cfFlTUa---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4306f7723bebd86667e1f"},"refKey":22},
{"_key":"60c4306f7723bebd86667e21","_id":"references/60c4306f7723bebd86667e21","_rev":"_cfFlTUm---","tei":"\n\t\n\t\tFFPred 3: feature-based function prediction for all Gene Ontology domains\n\t\t\n\t\t\tDomenicoCozzetto\n\t\t\n\t\t\n\t\t\tFedericoMinneci\n\t\t\n\t\t\n\t\t\tHannahCurrant\n\t\t\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t10.1038/srep31865\n\t\t27561554\n\t\tPMC4999993\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t31865\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4306f7723bebd86667e1f"},"refKey":10},
{"_key":"60c4306f7723bebd86667e22","_id":"references/60c4306f7723bebd86667e22","_rev":"_cfFlTUy---","tei":"\n\t\n\t\tTranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations\n\t\t\n\t\t\tFAbascal\n\t\t\n\t\t\n\t\t\tRZardoya\n\t\t\n\t\t\n\t\t\tMJTelford\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4306f7723bebd86667e1f"},"refKey":0},
{"_key":"60c4306f7723bebd86667e23","_id":"references/60c4306f7723bebd86667e23","_rev":"_cfFlTV----","tei":"\n\t\n\t\tMultiple sequence alignment with Clustal X\n\t\t\n\t\t\tFrançoisJeanmougin\n\t\t\n\t\t\n\t\t\tJulieDThompson\n\t\t\n\t\t\n\t\t\tManoloGouy\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t\n\t\t\tTobyJGibson\n\t\t\n\t\t10.1016/s0968-0004(98)01285-7\n\t\t9810230\n\t\tS0968-0004(98)01285-7\n\t\tark:/67375/6H6-HG74SWHB-6\n\t\t61D36A50AC2840AB97130FEF73907AC2003A934E\n\t\n\t\n\t\tTrends in Biochemical Sciences\n\t\tTrends in Biochemical Sciences\n\t\t0968-0004\n\t\t\n\t\t\t23\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4306f7723bebd86667e1f"},"refKey":26},
{"_key":"60c430817723bebd86667e38","_id":"references/60c430817723bebd86667e38","_rev":"_cfFlTVK---","tei":"\n\t\n\t\tDragon software: An easy approach to molecular descriptor calculations\n\t\t\n\t\t\tAMauri\n\t\t\n\t\t\n\t\t\tVConsonni\n\t\t\n\t\t\n\t\t\tMPavan\n\t\t\n\t\t\n\t\t\tRTodeschini\n\t\t\n\t\n\t\n\t\tMatch\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c430817723bebd86667e37"},"refKey":19},
{"_key":"60c430817723bebd86667e39","_id":"references/60c430817723bebd86667e39","_rev":"_cfFlTVW---","tei":"\n\t\n\t\t\n\t\t\tINMinitab\n\t\t\n\t\t\n\t\tMINITAB statistical software\n\t\t\t\t\n\t\t\t\n\t\t\t13\n\t\t\n\t\n\tMinitab Release\n\n","document":{"$oid":"60c430817723bebd86667e37"},"refKey":21},
{"_key":"60c430817723bebd86667e3a","_id":"references/60c430817723bebd86667e3a","_rev":"_cfFlTVi---","tei":"\n\t\n\t\tHow Precise Are Our Quantitative Structure–Activity Relationship Derived Predictions for New Query Chemicals?\n\t\t\n\t\t\tKunalRoy\n\t\t\t0000-0003-4486-8074\n\t\t\n\t\t\n\t\t\tPravinAmbure\n\t\t\n\t\t\n\t\t\tSupratikKar\n\t\t\t0000-0002-9411-2091\n\t\t\n\t\t10.1021/acsomega.8b01647\n\t\t\n\t\n\t\n\t\tACS Omega\n\t\tACS Omega\n\t\t2470-1343\n\t\t\n\t\t\t3\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c430817723bebd86667e37"},"refKey":24},
{"_key":"60c430817723bebd86667e3b","_id":"references/60c430817723bebd86667e3b","_rev":"_cfFlTVu---","tei":"\n\t\n\t\tPaDEL-descriptor: An open source software to calculate molecular descriptors and fingerprints\n\t\t\n\t\t\tChunWYap\n\t\t\n\t\t10.1002/jcc.21707\n\t\t21425294\n\t\tark:/67375/WNG-BRGZZL7Q-4\n\t\tC3DDD18ACE373278E4D2613CB8731717AB354D36\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t32\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c430817723bebd86667e37"},"refKey":20},
{"_key":"60c430b27723bebd86667e62","_id":"references/60c430b27723bebd86667e62","_rev":"_cfFlTV6---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c430b27723bebd86667e61"},"refKey":26},
{"_key":"60c430b27723bebd86667e63","_id":"references/60c430b27723bebd86667e63","_rev":"_cfFlTWG---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tJ. Comput\n\n","document":{"$oid":"60c430b27723bebd86667e61"},"refKey":33},
{"_key":"60c430b27723bebd86667e64","_id":"references/60c430b27723bebd86667e64","_rev":"_cfFlTWS---","tei":"\n\t\n\t\tLigBuilder 2: A Practical de Novo Drug Design Approach\n\t\t\n\t\t\tYaxiaYuan\n\t\t\n\t\t\n\t\t\tJianfengPei\n\t\t\n\t\t\n\t\t\tLuhuaLai\n\t\t\n\t\t10.1021/ci100350u\n\t\t21513346\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t51\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c430b27723bebd86667e61"},"refKey":37},
{"_key":"60c430b27723bebd86667e65","_id":"references/60c430b27723bebd86667e65","_rev":"_cfFlTWe---","tei":"\n\t\n\t\tFast, accurate, and reliable molecular docking with QuickVina 2\n\t\t\n\t\t\tAmrAlhossary\n\t\t\n\t\t\n\t\t\tStephanusDanielHandoko\n\t\t\n\t\t\n\t\t\tYuguangMu\n\t\t\n\t\t\n\t\t\tChee-KeongKwoh\n\t\t\n\t\t10.1093/bioinformatics/btv082\n\t\t25717194\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c430b27723bebd86667e61"},"refKey":0},
{"_key":"60c430b27723bebd86667e66","_id":"references/60c430b27723bebd86667e66","_rev":"_cfFlTWq---","tei":"\n\t\n\t\tThe Molecule Evoluator. An Interactive Evolutionary Algorithm for the Design of Drug-Like Molecules\n\t\t\n\t\t\tEric-WubboLameijer\n\t\t\n\t\t\n\t\t\tJoostNKok\n\t\t\n\t\t\n\t\t\tThomasBäck\n\t\t\n\t\t\n\t\t\tAdPIjzerman\n\t\t\n\t\t10.1021/ci050369d\n\t\t16562982\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t46\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c430b27723bebd86667e61"},"refKey":22},
{"_key":"60c430f07723bebd86667ea4","_id":"references/60c430f07723bebd86667ea4","_rev":"_cfFlTW2---","tei":"\n\t\n\t\tCrystallography & NMR system: a new software suite for macromolecular structure determination\n\t\t\n\t\t\tATBr€ Unger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tGMClore\n\t\t\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tPGros\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tJSJiang\n\t\t\n\t\t\n\t\t\tJKuszewski\n\t\t\n\t\t\n\t\t\tMNilges\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c430f07723bebd86667ea3"},"refKey":30},
{"_key":"60c430f07723bebd86667ea5","_id":"references/60c430f07723bebd86667ea5","_rev":"_cfFlTXC---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c430f07723bebd86667ea3"},"refKey":33},
{"_key":"60c430f07723bebd86667ea6","_id":"references/60c430f07723bebd86667ea6","_rev":"_cfFlTXO---","tei":"\n\t\n\t\tThe CCP4 suite: programs for protein crystallography\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t50\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tCollaborative Computational Project\n\t\t\n\t\n\n","document":{"$oid":"60c430f07723bebd86667ea3"},"refKey":32},
{"_key":"60c4311a7723bebd86667ec0","_id":"references/60c4311a7723bebd86667ec0","_rev":"_cfFlTXa---","tei":"\n\t\n\t\tStatistical Analysis and Data Display\n\t\t\n\t\t\tRichardMHeiberger\n\t\t\n\t\t\n\t\t\tBurtHolland\n\t\t\n\t\t10.1007/978-1-4757-4284-8\n\t\n\t\n\t\tHH: Statistical Analysis and Data Display\n\t\t\t\tNew York\n\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4311a7723bebd86667ebf"},"refKey":23},
{"_key":"60c431217723bebd86667ecd","_id":"references/60c431217723bebd86667ecd","_rev":"_cfFlTXm---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c431217723bebd86667ecc"},"refKey":29},
{"_key":"60c431467723bebd86667eeb","_id":"references/60c431467723bebd86667eeb","_rev":"_cfFlTXy---","tei":"\n\t\n\t\tTrackMate: An open and extensible platform for single-particle tracking\n\t\t\n\t\t\tJean-YvesTinevez\n\t\t\n\t\t\n\t\t\tNickPerry\n\t\t\n\t\t\n\t\t\tJohannesSchindelin\n\t\t\n\t\t\n\t\t\tGenevieveMHoopes\n\t\t\n\t\t\n\t\t\tGregoryDReynolds\n\t\t\n\t\t\n\t\t\tEmmanuelLaplantine\n\t\t\n\t\t\n\t\t\tSebastianYBednarek\n\t\t\n\t\t\n\t\t\tSpencerLShorte\n\t\t\n\t\t\n\t\t\tKevinWEliceiri\n\t\t\n\t\t10.1016/j.ymeth.2016.09.016\n\t\t27713081\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t115\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c431467723bebd86667eea"},"refKey":68},
{"_key":"60c4315c7723bebd86667efb","_id":"references/60c4315c7723bebd86667efb","_rev":"_cfFlTYC---","tei":"\n\t\n\t\tPHENIX: building new software for automated crystallographic structure determination\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tThomasRIoerger\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tJamesCSacchettini\n\t\t\n\t\t\n\t\t\tNicholasKSauter\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t10.1107/s0907444902016657\n\t\t12393927\n\t\tark:/67375/WNG-3W8K0539-S\n\t\t1BB2BD3D445677BF052D0C04730E4570A2FED3AE\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t58\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c4315c7723bebd86667efa"},"refKey":0},
{"_key":"60c4315c7723bebd86667efc","_id":"references/60c4315c7723bebd86667efc","_rev":"_cfFlTYO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGWinter\n\t\t\n\t\t\n\t\t\tDGWaterman\n\t\t\n\t\t\n\t\t\tJMParkhurst\n\t\t\n\t\t\n\t\t\tASBrewster\n\t\t\n\t\t\n\t\t\tRJGildea\n\t\t\n\t\t\n\t\t\tMGerstel\n\t\t\n\t\t\n\t\t\tLFuentes-Montero\n\t\t\n\t\t\n\t\t\tMVollmar\n\t\t\n\t\t\n\t\t\tTMichels-Clark\n\t\t\n\t\t\n\t\t\tYoungId\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4315c7723bebd86667efa"},"refKey":72},
{"_key":"60c4315c7723bebd86667efd","_id":"references/60c4315c7723bebd86667efd","_rev":"_cfFlTYa---","tei":"\n\t\n\t\tEMAN2: An extensible image processing suite for electron microscopy\n\t\t\n\t\t\tGuangTang\n\t\t\n\t\t\n\t\t\tLiweiPeng\n\t\t\n\t\t\n\t\t\tPhilipRBaldwin\n\t\t\n\t\t\n\t\t\tDeepinderSMann\n\t\t\n\t\t\n\t\t\tWenJiang\n\t\t\n\t\t\n\t\t\tIanRees\n\t\t\n\t\t\n\t\t\tStevenJLudtke\n\t\t\n\t\t10.1016/j.jsb.2006.05.009\n\t\t16859925\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4315c7723bebd86667efa"},"refKey":66},
{"_key":"60c4315c7723bebd86667efe","_id":"references/60c4315c7723bebd86667efe","_rev":"_cfFlTYm---","tei":"\n\t\n\t\tSemi-automated selection of cryo-EM particles in RELION-1.3\n\t\t\n\t\t\tShwScheres\n\t\t\n\t\t10.1016/j.jsb.2014.11.010\n\t\t25486611\n\t\tPMC4318617\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t189\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4315c7723bebd86667efa"},"refKey":56},
{"_key":"60c4315c7723bebd86667eff","_id":"references/60c4315c7723bebd86667eff","_rev":"_cfFlTYy---","tei":"\n\t\n\t\tMotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tKlimentAVerba\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1038/nmeth.4193\n\t\t28250466\n\t\tPMC5494038\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4315c7723bebd86667efa"},"refKey":78},
{"_key":"60c4315c7723bebd86667f00","_id":"references/60c4315c7723bebd86667f00","_rev":"_cfFlTZ----","tei":"\n\t\n\t\tXPREP: Data preparation and reciprocal space exploration\n\t\t\n\t\t\tBruker-Axs\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4315c7723bebd86667efa"},"refKey":9},
{"_key":"60c4315c7723bebd86667f01","_id":"references/60c4315c7723bebd86667f01","_rev":"_cfFlTZO---","tei":"\n\t\n\t\tVisualizing density maps with UCSF Chimera\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2006.06.010\n\t\t16963278\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4315c7723bebd86667efa"},"refKey":24},
{"_key":"60c4316e7723bebd86667f2b","_id":"references/60c4316e7723bebd86667f2b","_rev":"_cfFlTZa---","tei":"\n\t\n\t\tMicrosoft Kinect Sensor and Its Effect\n\t\t\n\t\t\tZhengyouZhang\n\t\t\n\t\t10.1109/mmul.2012.24\n\t\t\n\t\n\t\n\t\tIEEE Multimedia\n\t\tIEEE Multimedia\n\t\t1070-986X\n\t\t\n\t\t\t19\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c4316e7723bebd86667f2a"},"refKey":24},
{"_key":"60c431877723bebd86667f37","_id":"references/60c431877723bebd86667f37","_rev":"_cfFlTZm---","tei":"\n\t\n\t\tEstablishing microbial composition measurement standards with reference frames\n\t\t\n\t\t\tJTMorton\n\t\t\n\t\t\n\t\t\tCMarotz\n\t\t\n\t\t\n\t\t\tAWashburne\n\t\t\n\t\t\n\t\t\tJSilverman\n\t\t\n\t\t\n\t\t\tLSZaramela\n\t\t\n\t\t\n\t\t\tAEdlund\n\t\t\n\t\t\n\t\t\tKZengler\n\t\t\n\t\t\n\t\t\tRKnight\n\t\t\n\t\n\t\n\t\tNat. Commun\n\t\t\n\t\t\t10\n\t\t\t2719\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c431877723bebd86667f36"},"refKey":60},
{"_key":"60c431877723bebd86667f38","_id":"references/60c431877723bebd86667f38","_rev":"_cfFlTZy---","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tArticleLi\n\t\t\n\t\t\n\t\t\tBDewey\n\t\t\n\t\t\n\t\t\tCN\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t12\n\t\t\t323\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c431877723bebd86667f36"},"refKey":43},
{"_key":"60c431877723bebd86667f39","_id":"references/60c431877723bebd86667f39","_rev":"_cfFlTa----","tei":"\n\t\n\t\tSimple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data\n\t\t\n\t\t\tNicoleMDavis\n\t\t\n\t\t\n\t\t\tDianaMProctor\n\t\t\n\t\t\n\t\t\tSusanPHolmes\n\t\t\n\t\t\n\t\t\tDavidARelman\n\t\t\n\t\t\n\t\t\tBenjaminJCallahan\n\t\t\t0000-0002-8752-117X\n\t\t\n\t\t10.1186/s40168-018-0605-2\n\t\t30558668\n\t\tPMC6298009\n\t\t\n\t\n\t\n\t\tMicrobiome\n\t\tMicrobiome\n\t\t2049-2618\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t226\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c431877723bebd86667f36"},"refKey":23},
{"_key":"60c431877723bebd86667f3a","_id":"references/60c431877723bebd86667f3a","_rev":"_cfFlTaK---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c431877723bebd86667f36"},"refKey":25},
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{"_key":"60c431877723bebd86667f3e","_id":"references/60c431877723bebd86667f3e","_rev":"_cfFlTa6---","tei":"\n\t\n\t\tClustering of highly homologous sequences to reduce the size of large protein databases\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tLJaroszewski\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1093/bioinformatics/17.3.282\n\t\t11294794\n\t\t1460-2059\n\t\tark:/67375/HXZ-WFHFJK2R-8\n\t\t28D7767E0C8A7BA2511486D279E57C1814D3E3E7\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t17\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c431877723bebd86667f36"},"refKey":44},
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{"_key":"60c431877723bebd86667f40","_id":"references/60c431877723bebd86667f40","_rev":"_cfFlTbS---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\n\t\n\t\tJ. Comput. Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c431877723bebd86667f36"},"refKey":2},
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{"_key":"60c431af7723bebd86667f99","_id":"references/60c431af7723bebd86667f99","_rev":"_cfFlTdq---","tei":"\n\t\n\t\tQuantitative Predictions of Peptide Binding to Any HLA-DR Molecule of Known Sequence: NetMHCIIpan\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tThomasBlicher\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tSuneJustesen\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t10.1371/journal.pcbi.1000107\n\t\t18604266\n\t\tPMC2430535\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t4\n\t\t\t7\n\t\t\te1000107\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c431af7723bebd86667f97"},"refKey":17},
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{"_key":"60c432d77723bebd866680b5","_id":"references/60c432d77723bebd866680b5","_rev":"_cfFlTga---","tei":"\n\t\n\t\t\n\t\t\tStatacorp\n\t\t\n\t\tStata: Release 15. Statistical Software. College Station, TX: StataCorp LLC\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c432d77723bebd866680b4"},"refKey":8},
{"_key":"60c4331f7723bebd866680d8","_id":"references/60c4331f7723bebd866680d8","_rev":"_cfFlTgi---","tei":"\n\t\n\t\tForecasting Influenza Epidemics in Hong Kong\n\t\t\n\t\t\tWanYang\n\t\t\n\t\t\n\t\t\tBenjaminJCowling\n\t\t\n\t\t\n\t\t\tEricH YLau\n\t\t\n\t\t\n\t\t\tJeffreyShaman\n\t\t\n\t\t10.1371/journal.pcbi.1004383\n\t\t26226185\n\t\tPMC4520691\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t11\n\t\t\t7\n\t\t\te1004383\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c4331f7723bebd866680d7"},"refKey":8},
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{"_key":"60c433807723bebd86668131","_id":"references/60c433807723bebd86668131","_rev":"_cfFlThS---","tei":"\n\t\n\t\tKraken: ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDEWood\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\tR46\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c433807723bebd86668130"},"refKey":40},
{"_key":"60c433897723bebd86668141","_id":"references/60c433897723bebd86668141","_rev":"_cfFlThe---","tei":"\n\t\n\t\tMEGA3; integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c433897723bebd86668140"},"refKey":14},
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{"_key":"60c434287723bebd86668195","_id":"references/60c434287723bebd86668195","_rev":"_cfFlTh2---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c434287723bebd86668194"},"refKey":31},
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{"_key":"60c434427723bebd866681b0","_id":"references/60c434427723bebd866681b0","_rev":"_cfFlTiO---","tei":"\n\t\n\t\tChEMBL: towards direct deposition of bioassay data\n\t\t\n\t\t\tDavidMendez\n\t\t\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tAPatríciaBento\n\t\t\n\t\t\n\t\t\tJonChambers\n\t\t\n\t\t\n\t\t\tMarleenDe veij\n\t\t\n\t\t\n\t\t\tEloyFélix\n\t\t\n\t\t\n\t\t\tMaríaPaulaMagariños\n\t\t\n\t\t\n\t\t\tJuanFMosquera\n\t\t\n\t\t\n\t\t\tPrudenceMutowo\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tMaríaGordillo-Marañón\n\t\t\n\t\t\n\t\t\tFionaHunter\n\t\t\n\t\t\n\t\t\tLauraJunco\n\t\t\n\t\t\n\t\t\tGraceMugumbate\n\t\t\n\t\t\n\t\t\tMilagrosRodriguez-Lopez\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tNicolasBosc\n\t\t\n\t\t\n\t\t\tChrisJRadoux\n\t\t\n\t\t\n\t\t\tAldoSegura-Cabrera\n\t\t\n\t\t\n\t\t\tAnneHersey\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t10.1093/nar/gky1075\n\t\t30398643\n\t\tPMC6323927\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c434427723bebd866681ae"},"refKey":20},
{"_key":"60c434427723bebd866681b1","_id":"references/60c434427723bebd866681b1","_rev":"_cfFlTiW---","tei":"\n\t\n\t\tDrugBank: a comprehensive resource for in silico drug discovery and exploration\n\t\t\n\t\t\tDSWishart\n\t\t\n\t\t\n\t\t\tCKnox\n\t\t\n\t\t\n\t\t\tACGuo\n\t\t\n\t\t\n\t\t\tSShrivastava\n\t\t\n\t\t\n\t\t\tMHassanali\n\t\t\n\t\t\n\t\t\tPStothard\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c434427723bebd866681ae"},"refKey":21},
{"_key":"60c434547723bebd866681c6","_id":"references/60c434547723bebd866681c6","_rev":"_cfFlTii---","tei":"\n\t\n\t\tEntwicklung experimenteller digitaler Archive auf Basis von Linked Data-Standards\n\t\t\n\t\t\tBThull\n\t\t\n\t\n\t\n\t\tHildesheimer Universitätsschriften\n\t\tSchneider W, Fülle H, Henniger C\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPerforming the Archive. Theaterpolitik für ein Archiv des Freien Theaters. in German\n\n","document":{"$oid":"60c434547723bebd866681c5"},"refKey":10},
{"_key":"60c434547723bebd866681c7","_id":"references/60c434547723bebd866681c7","_rev":"_cfFlTiu---","tei":"\n\t\n\t\t\n\t\tStiftung zur Förderung der Hochschulrektorenkonferenz (2019) Studieren und promovieren in Deutschland. Informationen über deutsche Hochschulen\n\t\t\t\tStudiengänge, Promotionen\n\t\t\n\t\t\t\n\t\t\t30\n\t\t\n\t\n\n","document":{"$oid":"60c434547723bebd866681c5"},"refKey":11},
{"_key":"60c434547723bebd866681c8","_id":"references/60c434547723bebd866681c8","_rev":"_cfFlTi6---","tei":"\n\t\n\t\tA survey of visualization for smart manufacturing\n\t\t\n\t\t\tFangfangZhou\n\t\t\n\t\t\n\t\t\tXiaoruLin\n\t\t\n\t\t\n\t\t\tChangLiu\n\t\t\n\t\t\n\t\t\tYingZhao\n\t\t\n\t\t\n\t\t\tPanpanXu\n\t\t\n\t\t\n\t\t\tLiuRen\n\t\t\n\t\t\n\t\t\tTingminXue\n\t\t\n\t\t\n\t\t\tLeiRen\n\t\t\n\t\t10.1007/s12650-018-0530-2\n\t\t\n\t\n\t\n\t\tJournal of Visualization\n\t\tJ Vis\n\t\t1343-8875\n\t\t1875-8975\n\t\t\n\t\t\t22\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c434547723bebd866681c5"},"refKey":27},
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{"_key":"60c434547723bebd866681ca","_id":"references/60c434547723bebd866681ca","_rev":"_cfFlTjS---","tei":"\n\t\n\t\tUsing agents and ontologies for application development on the semantic web\n\t\t\n\t\t\tMarceloBlois\n\t\t\n\t\t\n\t\t\tMaurícioEscobar\n\t\t\n\t\t\n\t\t\tRicardoChoren\n\t\t\n\t\t10.1007/bf03192408\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of the Brazilian Computer Society\n\t\tJ Braz Comp Soc\n\t\t0104-6500\n\t\t1678-4804\n\t\t\n\t\t\t13\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c434547723bebd866681c5"},"refKey":13},
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{"_key":"60c434997723bebd866681f1","_id":"references/60c434997723bebd866681f1","_rev":"_cfFlTjq---","tei":"\n\t\n\t\t\n\t\t\tGCarpentier\n\t\t\n\t\t\n\t\t\tMMartinelli\n\t\t\n\t\t\n\t\t\tJ\n\t\t\n\t\tProceedings of the ImageJ User and Developer Conference\n\t\t\t\t\n\t\t\tICourty\n\t\t\tCascone\n\t\t\n\t\tthe ImageJ User and Developer ConferenceMondorf-Les-Bains, Luxembourg], CRP, Luxembourg\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c434997723bebd866681f0"},"refKey":2},
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{"_key":"60c434c57723bebd86668225","_id":"references/60c434c57723bebd86668225","_rev":"_cfFlTkW---","tei":"\n\t\n\t\tIBM SPSS Statistics for MacOS\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t\n\t\t\t\n\t\t\tArmonk, New York, United States of America\n\t\t\n\t\n\n","document":{"$oid":"60c434c57723bebd86668223"},"refKey":36},
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{"_key":"60c434f77723bebd86668248","_id":"references/60c434f77723bebd86668248","_rev":"_cfFlTlS---","tei":"\n\t\n\t\tIntegrating single-cell transcriptomic data across different conditions, technologies, and species\n\t\t\n\t\t\tAndrewButler\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1038/nbt.4096\n\t\t29608179\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t36\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c434f77723bebd86668247"},"refKey":19},
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{"_key":"60c4353b7723bebd86668291","_id":"references/60c4353b7723bebd86668291","_rev":"_cfFlTlq---","tei":"\n\t\n\t\tA user's guide to MLwiN, v2. 26. centre for multilevel modelling\n\t\t\n\t\t\tJRasbash\n\t\t\n\t\t\n\t\t\tFSteele\n\t\t\n\t\t\n\t\t\tWBrowne\n\t\t\n\t\t\n\t\t\tHGoldstein\n\t\t\n\t\t\n\t\t\tCCharlton\n\t\t\n\t\t\n\t\t\tWBrowne\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUK: University of Bristol\n\t\t\n\t\n\n","document":{"$oid":"60c4353b7723bebd86668290"},"refKey":40},
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{"_key":"60c435737723bebd866682e0","_id":"references/60c435737723bebd866682e0","_rev":"_cfFlTm----","tei":"\n\t\n\t\tBAGEL4: a user-friendly web server to thoroughly mine RiPPs and bacteriocins\n\t\t\n\t\t\tAukeJVan heel\n\t\t\n\t\t\n\t\t\tAnneDe jong\n\t\t\n\t\t\n\t\t\tChunxuSong\n\t\t\n\t\t\n\t\t\tJakobHViel\n\t\t\n\t\t\n\t\t\tJanKok\n\t\t\n\t\t\n\t\t\tOscarPKuipers\n\t\t\n\t\t10.1093/nar/gky383\n\t\t29788290\n\t\tPMC6030817\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c435737723bebd866682df"},"refKey":23},
{"_key":"60c435887723bebd866682ee","_id":"references/60c435887723bebd866682ee","_rev":"_cfFlTmK---","tei":"\n\t\n\t\tUsing NMRView to Visualize and Analyze the NMR Spectra of Macromolecules\n\t\t\n\t\t\tBruceAJohnson\n\t\t\n\t\t10.1385/1-59259-809-9:313\n\t\t15318002\n\t\n\t\n\t\tProtein NMR Techniques\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t2004\n\t\t\t278\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c435887723bebd866682ed"},"refKey":55},
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{"_key":"60c435b47723bebd86668315","_id":"references/60c435b47723bebd86668315","_rev":"_cfFlTmi---","tei":"\n\t\n\t\tSynergyFinder: a web application for analyzing drug combination dose–response matrix data\n\t\t\n\t\t\tAleksandrIanevski\n\t\t\n\t\t\n\t\t\tLiyeHe\n\t\t\n\t\t\n\t\t\tTeroAittokallio\n\t\t\n\t\t\n\t\t\tJingTang\n\t\t\n\t\t10.1093/bioinformatics/btx162\n\t\t28379339\n\t\tPMC5554616\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c435b47723bebd86668314"},"refKey":37},
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{"_key":"60c436647723bebd866683d0","_id":"references/60c436647723bebd866683d0","_rev":"_cfFlTo----","tei":"\n\t\n\t\tBINARY QSAR: A NEW METHOD FOR THE DETERMINATION OF QUANTITATIVE STRUCTURE ACTIVITY RELATIONSHIPS\n\t\t\n\t\t\tPLabute\n\t\t\n\t\t10.1142/9789814447300_0044\n\t\t\n\t\n\t\n\t\tBiocomputing '99\n\t\tPacific Symp. Biocomput.\n\t\t\n\t\t\tWORLD SCIENTIFIC\n\t\t\t\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c436647723bebd866683cf"},"refKey":41},
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{"_key":"60c436b27723bebd866683f1","_id":"references/60c436b27723bebd866683f1","_rev":"_cfFlToq---","tei":"\n\t\n\t\tThe C Programming Language\n\t\t\n\t\t\tBWKernighan\n\t\t\n\t\t\n\t\t\tDMRitchie\n\t\t\n\t\t\n\t\t\t\n\t\t\tPrentice Hall\n\t\t\tEnglewood Cliffs\n\t\t\n\t\n\t2nd edn\n\n","document":{"$oid":"60c436b27723bebd866683ee"},"refKey":14},
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{"_key":"60c436d47723bebd8666840c","_id":"references/60c436d47723bebd8666840c","_rev":"_cfFlTpW---","tei":"\n\t\n\t\tMicroGMT: a mutation tracker for SARS-CoV-2 and other microbial genome sequences\n\t\t\n\t\t\tYXing\n\t\t\n\t\t\n\t\t\tXLi\n\t\t\n\t\t\n\t\t\tXGao\n\t\t\n\t\t\n\t\t\tQDong\n\t\t\n\t\n\t\n\t\tFront. Microbiol\n\t\t\n\t\t\t11\n\t\t\t1502\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c436d47723bebd86668409"},"refKey":12},
{"_key":"60c436d47723bebd8666840d","_id":"references/60c436d47723bebd8666840d","_rev":"_cfFlTpi---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c436d47723bebd86668409"},"refKey":14},
{"_key":"60c436d47723bebd8666840e","_id":"references/60c436d47723bebd8666840e","_rev":"_cfFlTpu---","tei":"\n\t\n\t\tThe variant call format and VCFtools\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tAAuton\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c436d47723bebd86668409"},"refKey":18},
{"_key":"60c436d87723bebd8666841d","_id":"references/60c436d87723bebd8666841d","_rev":"_cfFlTp6---","tei":"\n\t\n\t\tDrug safety data mining with a tree-based scan statistic\n\t\t\n\t\t\tMartinKulldorff\n\t\t\n\t\t\n\t\t\tInnaDashevsky\n\t\t\n\t\t\n\t\t\tTaliserRAvery\n\t\t\n\t\t\n\t\t\tArnoldKChan\n\t\t\n\t\t\n\t\t\tRobertLDavis\n\t\t\n\t\t\n\t\t\tDavidGraham\n\t\t\n\t\t\n\t\t\tRichardPlatt\n\t\t\n\t\t\n\t\t\tSusanEAndrade\n\t\t\n\t\t\n\t\t\tDeniseBoudreau\n\t\t\n\t\t\n\t\t\tMargaretJGunter\n\t\t\n\t\t\n\t\t\tLisaJHerrinton\n\t\t\n\t\t\n\t\t\tPamalaAPawloski\n\t\t\n\t\t\n\t\t\tMarshaARaebel\n\t\t\n\t\t\n\t\t\tDouglasRoblin\n\t\t\n\t\t\n\t\t\tJeffreySBrown\n\t\t\n\t\t10.1002/pds.3423\n\t\t23512870\n\t\tark:/67375/WNG-F66BBL20-C\n\t\tA6F2BD26A7B286D05BCAAEE2620AF2EB912B2369\n\t\t\n\t\n\t\n\t\tPharmacoepidemiology and Drug Safety\n\t\tPharmacoepidemiol Drug Saf\n\t\t1053-8569\n\t\t\n\t\t\t22\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c436d87723bebd8666841c"},"refKey":58},
{"_key":"60c436ee7723bebd8666842e","_id":"references/60c436ee7723bebd8666842e","_rev":"_cfFlTqG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tTADarden\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tIii\n\t\t\n\t\t\n\t\t\tCLSimmerling\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tREDuke\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tRCWalker\n\t\t\n\t\t\n\t\t\tWZhang\n\t\t\n\t\t\n\t\t\tKMMerz\n\t\t\n\t\t\n\t\t\tBPRoberts\n\t\t\n\t\t\n\t\t\tBWang\n\t\t\n\t\t\n\t\t\tSHayik\n\t\t\n\t\t\n\t\t\tARoitberg\n\t\t\n\t\t\n\t\t\tGSeabra\n\t\t\n\t\t\n\t\t\tIKolossvary\n\t\t\n\t\t\n\t\t\tKFWong\n\t\t\n\t\t\n\t\t\tFPaesani\n\t\t\n\t\t\n\t\t\tJVanicek\n\t\t\n\t\t\n\t\t\tXWu\n\t\t\n\t\t\n\t\t\tSRBrozell\n\t\t\n\t\t\n\t\t\tTSteinbrecher\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tQCai\n\t\t\n\t\t\n\t\t\tXYe\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tM.-JHsieh\n\t\t\n\t\t\n\t\t\tGCui\n\t\t\n\t\t\n\t\t\tDRRoe\n\t\t\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t\n\t\t\tMGSeetin\n\t\t\n\t\t\n\t\t\tCSagui\n\t\t\n\t\t\n\t\t\tVBabin\n\t\t\n\t\t\n\t\t\tTLuchko\n\t\t\n\t\t\n\t\t\tSGusarov\n\t\t\n\t\t\n\t\t\tAKovalenko\n\t\t\n\t\t\n\t\t\tPAKollman\n\t\t\n\t\t\n\t\t\t\n\t\t\t11\n\t\t\tSan Francisco\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\n","document":{"$oid":"60c436ee7723bebd8666842d"},"refKey":28},
{"_key":"60c436ee7723bebd8666842f","_id":"references/60c436ee7723bebd8666842f","_rev":"_cfFlTqS---","tei":"\n\t\n\t\tLigPrep version 2.5, Schrçdinger LLC\n\t\t\n\t\t\t\n\t\t\tNew York, NY (USA)\n\t\t\n\t\n\n","document":{"$oid":"60c436ee7723bebd8666842d"},"refKey":32},
{"_key":"60c436fc7723bebd86668457","_id":"references/60c436fc7723bebd86668457","_rev":"_cfFlTqe---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c436fc7723bebd86668456"},"refKey":10},
{"_key":"60c437427723bebd86668484","_id":"references/60c437427723bebd86668484","_rev":"_cfFlTqq---","tei":"\n\t\n\t\tMultilocus sequence typing by blast from de novo assemblies against PubMLST\n\t\t\n\t\t\tAndrewJ. Page\n\t\t\t0000-0001-6919-6062\n\t\t\n\t\t\n\t\t\tBenTaylor\n\t\t\n\t\t\n\t\t\tJacquelineA. Keane\n\t\t\t0000-0002-2021-1863\n\t\t\n\t\t10.21105/joss.00118\n\t\t\n\t\n\t\n\t\tThe Journal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t1\n\t\t\t8\n\t\t\t118\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c437427723bebd86668483"},"refKey":47},
{"_key":"60c437427723bebd86668485","_id":"references/60c437427723bebd86668485","_rev":"_cfFlTqy---","tei":"\n\t\n\t\tPosterior summarization in Bayesian phylogenetics using Tracer 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437427723bebd86668483"},"refKey":55},
{"_key":"60c437427723bebd86668486","_id":"references/60c437427723bebd86668486","_rev":"_cfFlTr----","tei":"\n\t\n\t\tInteractive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437427723bebd86668483"},"refKey":45},
{"_key":"60c437427723bebd86668487","_id":"references/60c437427723bebd86668487","_rev":"_cfFlTrK---","tei":"\n\t\n\t\tTREEANNOTATOR: versatile visual annotation of hierarchical text relations\n\t\t\n\t\t\tPHelfrich\n\t\t\n\t\t\n\t\t\tERieb\n\t\t\n\t\t\n\t\t\tGAbrami\n\t\t\n\t\t\n\t\t\tALücking\n\t\t\n\t\t\n\t\t\tAMehler\n\t\t\n\t\n\t\n\t\tProceedings of the Eleventh International Conference on Language Resources and Evaluation\n\t\t\t\tthe Eleventh International Conference on Language Resources and Evaluation\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437427723bebd86668483"},"refKey":56},
{"_key":"60c437427723bebd86668488","_id":"references/60c437427723bebd86668488","_rev":"_cfFlTrW---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tL.-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437427723bebd86668483"},"refKey":43},
{"_key":"60c437427723bebd86668489","_id":"references/60c437427723bebd86668489","_rev":"_cfFlTri---","tei":"\n\t\n\t\tModelFinder: fast model selection for accurate phylogenetic estimates\n\t\t\n\t\t\tSKalyaanamoorthy\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tTK FWong\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tLSJermiin\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437427723bebd86668483"},"refKey":44},
{"_key":"60c437427723bebd8666848a","_id":"references/60c437427723bebd8666848a","_rev":"_cfFlTru---","tei":"\n\t\n\t\tRoary: Rapid large-scale prokaryote pan genome analysis\n\t\t\n\t\t\tAndrewJPage\n\t\t\n\t\t\n\t\t\tCarlaACummins\n\t\t\n\t\t\n\t\t\tMartinHunt\n\t\t\n\t\t\n\t\t\tVanessaKWong\n\t\t\n\t\t\n\t\t\tSandraReuter\n\t\t\n\t\t\n\t\t\tMatthewT GHolden\n\t\t\n\t\t\n\t\t\tMariaFookes\n\t\t\n\t\t\n\t\t\tJacquelineAKeane\n\t\t\n\t\t\n\t\t\tJulianParkhill\n\t\t\n\t\t10.1101/019315\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c437427723bebd86668483"},"refKey":41},
{"_key":"60c437427723bebd8666848b","_id":"references/60c437427723bebd8666848b","_rev":"_cfFlTr6---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\n\t\n\t\tJ. Comput. Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437427723bebd86668483"},"refKey":36},
{"_key":"60c437427723bebd8666848c","_id":"references/60c437427723bebd8666848c","_rev":"_cfFlTsG---","tei":"\n\t\n\t\tProkka: rapid prokaryotic genome annotation\n\t\t\n\t\t\tTSeemann\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437427723bebd86668483"},"refKey":37},
{"_key":"60c437437723bebd866684a2","_id":"references/60c437437723bebd866684a2","_rev":"_cfFlTsS---","tei":"\n\t\n\t\t\n\t\t\tSpssInc\n\t\t\n\t\t17.0\n\t\tSPSS Statistics for Windows\n\t\t\t\t\n\t\t\tSPSS Inc\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437437723bebd866684a1"},"refKey":16},
{"_key":"60c437f37723bebd866684f0","_id":"references/60c437f37723bebd866684f0","_rev":"_cfFlTse---","tei":"\n\t\n\t\tMPBoot: fast phylogenetic maximum parsimony tree inference and bootstrap approximation\n\t\t\n\t\t\tDiepThiHoang\n\t\t\n\t\t\n\t\t\tLeSyVinh\n\t\t\n\t\t\n\t\t\tTomášFlouri\n\t\t\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\t0000-0002-3366-4458\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1186/s12862-018-1131-3\n\t\t29390973\n\t\tPMC5796505\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t18\n\t\t\t1\n\t\t\t11\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c437f37723bebd866684ef"},"refKey":16},
{"_key":"60c437f37723bebd866684f1","_id":"references/60c437f37723bebd866684f1","_rev":"_cfFlTsm---","tei":"\n\t\n\t\tHomoplasyFinder: a simple tool to identify homoplasies on a phylogeny\n\t\t\n\t\t\tJosephCrispell\n\t\t\n\t\t\n\t\t\tDanielBalaz\n\t\t\n\t\t\n\t\t\tStephenVincentGordon\n\t\t\n\t\t10.1099/mgen.0.000245\n\t\t30663960\n\t\n\t\n\t\tMicrobial Genomics\n\t\t2057-5858\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t10\n\t\t\t\n\t\t\tMicrobiology Society\n\t\t\n\t\n\n","document":{"$oid":"60c437f37723bebd866684ef"},"refKey":3},
{"_key":"60c437f37723bebd866684f2","_id":"references/60c437f37723bebd866684f2","_rev":"_cfFlTsy---","tei":"\n\t\n\t\tScalable relaxed clock phylogenetic dating\n\t\t\n\t\t\tEMVolz\n\t\t\n\t\t\n\t\t\tSD WFrost\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t3\n\t\t\t2\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437f37723bebd866684ef"},"refKey":35},
{"_key":"60c437f37723bebd866684f3","_id":"references/60c437f37723bebd866684f3","_rev":"_cfFlTt----","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437f37723bebd866684ef"},"refKey":20},
{"_key":"60c437f37723bebd866684f4","_id":"references/60c437f37723bebd866684f4","_rev":"_cfFlTtK---","tei":"\n\t\n\t\tGGTREE: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data\n\t\t\n\t\t\tGCYu\n\t\t\n\t\t\n\t\t\tDKSmith\n\t\t\n\t\t\n\t\t\tHCZhu\n\t\t\n\t\t\n\t\t\tYGuan\n\t\t\n\t\t\n\t\t\tTT YLam\n\t\t\n\t\n\t\n\t\tMethods Ecol. Evol\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437f37723bebd866684ef"},"refKey":38},
{"_key":"60c437f37723bebd866684f5","_id":"references/60c437f37723bebd866684f5","_rev":"_cfFlTtW---","tei":"\n\t\n\t\tSeaView version 4: a multiplatform graphical user Interface for sequence alignment and phylogenetic tree building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437f37723bebd866684ef"},"refKey":13},
{"_key":"60c437f37723bebd866684f6","_id":"references/60c437f37723bebd866684f6","_rev":"_cfFlTti---","tei":"\n\t\n\t\tBayesian inference of ancestral dates on bacterial phylogenetic trees\n\t\t\n\t\t\tXavierDidelot\n\t\t\t0000-0003-1885-500X\n\t\t\n\t\t\n\t\t\tNicholasJCroucher\n\t\t\n\t\t\n\t\t\tStephenDBentley\n\t\t\n\t\t\n\t\t\tSimonRHarris\n\t\t\n\t\t\n\t\t\tDanielJWilson\n\t\t\n\t\t10.1101/347385\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t22\n\t\t\t11\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c437f37723bebd866684ef"},"refKey":5},
{"_key":"60c437f37723bebd866684f7","_id":"references/60c437f37723bebd866684f7","_rev":"_cfFlTtu---","tei":"\n\t\n\t\tPhytools: an R package for phylogenetic comparative biology (and other things)\n\t\t\n\t\t\tLJRevell\n\t\t\n\t\n\t\n\t\tMethods Ecol. Evol\n\t\t\n\t\t\t3\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437f37723bebd866684ef"},"refKey":30},
{"_key":"60c437f97723bebd86668510","_id":"references/60c437f97723bebd86668510","_rev":"_cfFlTt6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAnon\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tAmber14\n\n","document":{"$oid":"60c437f97723bebd8666850f"},"refKey":2},
{"_key":"60c437f97723bebd86668511","_id":"references/60c437f97723bebd86668511","_rev":"_cfFlTuC---","tei":"\n\t\n\t\t\n\t\t\tAnon\n\t\t\n\t\t\n\t\tLIGPLOT v.4.5.3-Operating manual\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437f97723bebd8666850f"},"refKey":5},
{"_key":"60c437f97723bebd86668512","_id":"references/60c437f97723bebd86668512","_rev":"_cfFlTuO---","tei":"\n\t\n\t\tThe Global HIV/AIDS epidemic The henry J. kaiser family foundation\n\t\t\n\t\t\tAnon\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c437f97723bebd8666850f"},"refKey":6},
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{"_key":"60c438937723bebd86668563","_id":"references/60c438937723bebd86668563","_rev":"_cfFlTwC---","tei":"\n\t\n\t\tBuilding predictive models in R Using the caret Package\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c438937723bebd86668561"},"refKey":51},
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{"_key":"60c438937723bebd86668565","_id":"references/60c438937723bebd86668565","_rev":"_cfFlTwa---","tei":"\n\t\n\t\tGgplot2: Elegant Graphics for Data Analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t10.1007/978-0-387-98141-3\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\n\t\n\n","document":{"$oid":"60c438937723bebd86668561"},"refKey":108},
{"_key":"60c438937723bebd86668566","_id":"references/60c438937723bebd86668566","_rev":"_cfFlTwm---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\t1000 Genome Project Data Processing Subgroup\n\n","document":{"$oid":"60c438937723bebd86668561"},"refKey":57},
{"_key":"60c438937723bebd86668567","_id":"references/60c438937723bebd86668567","_rev":"_cfFlTwy---","tei":"\n\t\n\t\tOufti: an integrated software package for high-accuracy, high-throughput quantitative microscopy analysis\n\t\t\n\t\t\tAhmadPaintdakhi\n\t\t\n\t\t\n\t\t\tBradleyParry\n\t\t\n\t\t\n\t\t\tManuelCampos\n\t\t\n\t\t\n\t\t\tIrnovIrnov\n\t\t\n\t\t\n\t\t\tJohanElf\n\t\t\n\t\t\n\t\t\tIvanSurovtsev\n\t\t\n\t\t\n\t\t\tChristineJacobs-Wagner\n\t\t\n\t\t10.1111/mmi.13264\n\t\t26538279\n\t\tPMC4752901\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Microbiology\n\t\tMolecular Microbiology\n\t\t0950-382X\n\t\t\n\t\t\t99\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c438937723bebd86668561"},"refKey":76},
{"_key":"60c438937723bebd86668568","_id":"references/60c438937723bebd86668568","_rev":"_cfFlTx----","tei":"\n\t\n\t\tdeepTools2: a next generation web server for deep-sequencing data analysis\n\t\t\n\t\t\tFidelRamírez\n\t\t\n\t\t\n\t\t\tDevonPRyan\n\t\t\n\t\t\n\t\t\tBjörnGrüning\n\t\t\t0000-0002-3079-6586\n\t\t\n\t\t\n\t\t\tVivekBhardwaj\n\t\t\n\t\t\n\t\t\tFabianKilpert\n\t\t\n\t\t\n\t\t\tAndreasSRichter\n\t\t\t0000-0002-4166-0991\n\t\t\n\t\t\n\t\t\tSteffenHeyne\n\t\t\n\t\t\n\t\t\tFriederikeDündar\n\t\t\n\t\t\n\t\t\tThomasManke\n\t\t\n\t\t10.1093/nar/gkw257\n\t\t27079975\n\t\tPMC4987876\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c438937723bebd86668561"},"refKey":81},
{"_key":"60c438937723bebd86668569","_id":"references/60c438937723bebd86668569","_rev":"_cfFlTxK---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c438937723bebd86668561"},"refKey":64},
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{"_key":"60c439e47723bebd86668605","_id":"references/60c439e47723bebd86668605","_rev":"_cfFlTyO---","tei":"\n\t\n\t\tDnaSP 6: DNA Sequence Polymorphism Analysis of Large Data Sets\n\t\t\n\t\t\tJulioRozas\n\t\t\n\t\t\n\t\t\tAlbertFerrer-Mata\n\t\t\n\t\t\n\t\t\tJuanCarlosSánchez-Delbarrio\n\t\t\n\t\t\n\t\t\tSaraGuirao-Rico\n\t\t\n\t\t\n\t\t\tPabloLibrado\n\t\t\n\t\t\n\t\t\tSebastiánERamos-Onsins\n\t\t\n\t\t\n\t\t\tAlejandroSánchez-Gracia\n\t\t\n\t\t10.1093/molbev/msx248\n\t\t29029172\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t34\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c439e47723bebd86668604"},"refKey":24},
{"_key":"60c439e47723bebd86668606","_id":"references/60c439e47723bebd86668606","_rev":"_cfFlTya---","tei":"\n\t\n\t\tPHYML Online--a web server for fast maximum likelihood-based phylogenetic inference\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tFLethiec\n\t\t\n\t\t\n\t\t\tPDuroux\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\t10.1093/nar/gki352\n\t\t15980534\n\t\tPMC1160113\n\t\tark:/67375/HXZ-ZTFZ0XD2-J\n\t\t6638706C6A488CCDE12431ECEB1A451AD39186E1\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c439e47723bebd86668604"},"refKey":11},
{"_key":"60c439e47723bebd86668607","_id":"references/60c439e47723bebd86668607","_rev":"_cfFlTym---","tei":"\n\t\n\t\tSeaView Version 4: A Multiplatform Graphical User Interface for Sequence Alignment and Phylogenetic Tree Building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\t10.1093/molbev/msp259\n\t\t19854763\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c439e47723bebd86668604"},"refKey":10},
{"_key":"60c439f27723bebd8666861b","_id":"references/60c439f27723bebd8666861b","_rev":"_cfFlTyy---","tei":"\n\t\n\t\tPackage 'rsm'\n\t\t\n\t\t\tRVLenth\n\t\t\n\t\t\n\t\t\tMrvLenth\n\t\t\n\t\t\n\t\t\tSVdgraph\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c439f27723bebd8666861a"},"refKey":48},
{"_key":"60c439f27723bebd8666861c","_id":"references/60c439f27723bebd8666861c","_rev":"_cfFlTz----","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tRDevelopment Core\n\t\t\n\t\t\n\t\t\tTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\t: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c439f27723bebd8666861a"},"refKey":49},
{"_key":"60c43a1e7723bebd8666862e","_id":"references/60c43a1e7723bebd8666862e","_rev":"_cfFlTzK---","tei":"\n\t\n\t\tPatchDock and SymmDock: servers for rigid and symmetric docking\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tYInbar\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tHJWolfson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43a1e7723bebd8666862d"},"refKey":25},
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{"_key":"60c43a407723bebd86668654","_id":"references/60c43a407723bebd86668654","_rev":"_cfFlTzi---","tei":"\n\t\n\t\tScikit-learn: machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tVMichel\n\t\t\n\t\t\n\t\t\tBThirion\n\t\t\n\t\t\n\t\t\tOGrisel\n\t\t\n\t\n\t\n\t\tJ Machine Learning Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43a407723bebd86668653"},"refKey":147},
{"_key":"60c43a407723bebd86668655","_id":"references/60c43a407723bebd86668655","_rev":"_cfFlTzu---","tei":"\n\t\n\t\tMetaQUAST: evaluation of metagenome assemblies\n\t\t\n\t\t\tAllaMikheenko\n\t\t\n\t\t\n\t\t\tVladislavSaveliev\n\t\t\n\t\t\n\t\t\tAlexeyGurevich\n\t\t\n\t\t10.1093/bioinformatics/btv697\n\t\t26614127\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c43a407723bebd86668653"},"refKey":115},
{"_key":"60c43a407723bebd86668656","_id":"references/60c43a407723bebd86668656","_rev":"_cfFlTz6---","tei":"\n\t\n\t\tLEMMI: a continuous benchmarking platform for metagenomics classifiers\n\t\t\n\t\t\tMSeppey\n\t\t\n\t\t\n\t\t\tMManni\n\t\t\n\t\t\n\t\t\tEMZdobnov\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43a407723bebd86668653"},"refKey":117},
{"_key":"60c43a497723bebd866687b2","_id":"references/60c43a497723bebd866687b2","_rev":"_cfFlT0G---","tei":"\n\t\n\t\tThe design of POSTGRES\n\t\t\n\t\t\tMichaelStonebraker\n\t\t\n\t\t\n\t\t\tLawrenceARowe\n\t\t\n\t\t10.1145/16856.16888\n\t\n\t\n\t\tACM SIGMOD Record\n\t\tSIGMOD Rec.\n\t\t0163-5808\n\t\t\n\t\t\t15\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c43a497723bebd866687b1"},"refKey":17},
{"_key":"60c43a937723bebd866687cc","_id":"references/60c43a937723bebd866687cc","_rev":"_cfFlT0S---","tei":"\n\t\n\t\tPsyToolkit: A software package for programming psychological experiments using Linux\n\t\t\n\t\t\tGStoet\n\t\t\n\t\n\t\n\t\tBehav. Res. Methods\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43a927723bebd866687cb"},"refKey":63},
{"_key":"60c43a937723bebd866687cd","_id":"references/60c43a937723bebd866687cd","_rev":"_cfFlT0e---","tei":"\n\t\n\t\tPsyToolkit: A novel web-based method for running online questionnaires and reaction-time experiments\n\t\t\n\t\t\tGStoet\n\t\t\n\t\n\t\n\t\tTeach. Psychol\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43a927723bebd866687cb"},"refKey":64},
{"_key":"60c43acd7723bebd866687fa","_id":"references/60c43acd7723bebd866687fa","_rev":"_cfFlT0q---","tei":"\n\t\n\t\tPrediction of aggregation rate and aggregation-prone segments in polypeptide sequences\n\t\t\n\t\t\tGianGaetanoTartaglia\n\t\t\n\t\t\n\t\t\tAndreaCavalli\n\t\t\n\t\t\n\t\t\tRiccardoPellarin\n\t\t\n\t\t\n\t\t\tAmedeoCaflisch\n\t\t\n\t\t10.1110/ps.051471205\n\t\t16195556\n\t\tPMC2253302\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t14\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c43acd7723bebd866687f9"},"refKey":28},
{"_key":"60c43acd7723bebd866687fb","_id":"references/60c43acd7723bebd866687fb","_rev":"_cfFlT02---","tei":"\n\t\n\t\tPrediction of sequence-dependent and mutational effects on the aggregation of peptides and proteins\n\t\t\n\t\t\tA-MFernandez-Escamilla\n\t\t\n\t\t\n\t\t\tFRousseau\n\t\t\n\t\t\n\t\t\tJSchymkowitz\n\t\t\n\t\t\n\t\t\tLSerrano\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43acd7723bebd866687f9"},"refKey":27},
{"_key":"60c43acd7723bebd866687fc","_id":"references/60c43acd7723bebd866687fc","_rev":"_cfFlT1C---","tei":"\n\t\n\t\tThe interpretation of protein structures: estimation of static accessibility\n\t\t\n\t\t\tBLee\n\t\t\n\t\t\n\t\t\tFMRichards\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t55\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43acd7723bebd866687f9"},"refKey":41},
{"_key":"60c43ad57723bebd8666880e","_id":"references/60c43ad57723bebd8666880e","_rev":"_cfFlT1O---","tei":"\n\t\n\t\tBLAST: a more efficient report with usability improvements\n\t\t\n\t\t\tGrzegorzMBoratyn\n\t\t\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tPeterSCooper\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tAmeliaFong\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t\n\t\t\tWayneTMatten\n\t\t\n\t\t\n\t\t\tScottDMcginnis\n\t\t\n\t\t\n\t\t\tYuriMerezhuk\n\t\t\n\t\t\n\t\t\tYanRaytselis\n\t\t\n\t\t\n\t\t\tEricWSayers\n\t\t\n\t\t\n\t\t\tTaoTao\n\t\t\n\t\t\n\t\t\tJianYe\n\t\t\n\t\t\n\t\t\tIrenaZaretskaya\n\t\t\n\t\t10.1093/nar/gkt282\n\t\t23609542\n\t\tPMC3692093\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c43ad57723bebd8666880d"},"refKey":5},
{"_key":"60c43aee7723bebd8666882c","_id":"references/60c43aee7723bebd8666882c","_rev":"_cfFlT1a---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c43aee7723bebd8666882b"},"refKey":49},
{"_key":"60c43aee7723bebd8666882d","_id":"references/60c43aee7723bebd8666882d","_rev":"_cfFlT1m---","tei":"\n\t\n\t\tSwissADME: a free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules\n\t\t\n\t\t\tAntoineDaina\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t10.1038/srep42717\n\t\t28256516\n\t\tPMC5335600\n\t\t\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c43aee7723bebd8666882b"},"refKey":13},
{"_key":"60c43aee7723bebd8666882e","_id":"references/60c43aee7723bebd8666882e","_rev":"_cfFlT1y---","tei":"\n\t\n\t\tidock: A multithreaded virtual screening tool for flexible ligand docking\n\t\t\n\t\t\tHongjianLi\n\t\t\n\t\t\n\t\t\tKwong-SakLeung\n\t\t\n\t\t\n\t\t\tMan-HonWong\n\t\t\n\t\t10.1109/cibcb.2012.6217214\n\t\t\n\t\n\t\n\t\t2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPaper presentation\n\n","document":{"$oid":"60c43aee7723bebd8666882b"},"refKey":32},
{"_key":"60c43b0e7723bebd86668864","_id":"references/60c43b0e7723bebd86668864","_rev":"_cfFlT2----","tei":"\n\t\n\t\tFast and Rigorous Computation of Gene and Pathway Scores from SNP-Based Summary Statistics\n\t\t\n\t\t\tDLamparter\n\t\t\n\t\t\n\t\t\tDMarbach\n\t\t\n\t\t\n\t\t\tRRueedi\n\t\t\n\t\t\n\t\t\tZKutalik\n\t\t\n\t\t\n\t\t\tSBergmann\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t12\n\t\t\te1004714\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43b0e7723bebd86668863"},"refKey":21},
{"_key":"60c43b187723bebd86668873","_id":"references/60c43b187723bebd86668873","_rev":"_cfFlT2K---","tei":"\n\t\n\t\tMaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification\n\t\t\n\t\t\tJürgenCox\n\t\t\n\t\t\n\t\t\tMatthiasMann\n\t\t\n\t\t10.1038/nbt.1511\n\t\t19029910\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t26\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c43b187723bebd86668872"},"refKey":23},
{"_key":"60c43b257723bebd8666887b","_id":"references/60c43b257723bebd8666887b","_rev":"_cfFlT2W---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Using lme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMaechler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43b257723bebd8666887a"},"refKey":17},
{"_key":"60c43b267723bebd8666887e","_id":"references/60c43b267723bebd8666887e","_rev":"_cfFlT2i---","tei":"\n\t\n\t\tRStudio: Integrated Development for\n\t\t\n\t\t\tR-StudioTeam\n\t\t\n\t\t\n\t\t\t;RRstudio\n\t\t\n\t\t\n\t\t\tPbc\n\t\t\n\t\t\n\t\t\tMABoston\n\t\t\n\t\t\n\t\t\tUrl\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43b267723bebd8666887d"},"refKey":4},
{"_key":"60c43b267723bebd8666887f","_id":"references/60c43b267723bebd8666887f","_rev":"_cfFlT2u---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c43b267723bebd8666887d"},"refKey":3},
{"_key":"60c43b2d7723bebd866688aa","_id":"references/60c43b2d7723bebd866688aa","_rev":"_cfFlT3----","tei":"\n\t\n\t\tBioEdit: a userfriendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucl. Acids. Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43b2d7723bebd866688a9"},"refKey":8},
{"_key":"60c43b597723bebd866688d0","_id":"references/60c43b597723bebd866688d0","_rev":"_cfFlT3S---","tei":"\n\t\n\t\tFLASH: fast length adjustment of short reads to improve genome assemblies\n\t\t\n\t\t\tTMagoc\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43b597723bebd866688cf"},"refKey":24},
{"_key":"60c43b5c7723bebd866688d6","_id":"references/60c43b5c7723bebd866688d6","_rev":"_cfFlT3e---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c43b5c7723bebd866688d5"},"refKey":23},
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{"_key":"60c43bc67723bebd86668907","_id":"references/60c43bc67723bebd86668907","_rev":"_cfFlT32---","tei":"\n\t\n\t\tPyTorch: an imperative style, high-performance deep learning library\n\t\t\n\t\t\tBSteiner\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43bc67723bebd86668906"},"refKey":23},
{"_key":"60c43bca7723bebd86668917","_id":"references/60c43bca7723bebd86668917","_rev":"_cfFlT4C---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c43bca7723bebd86668916"},"refKey":59},
{"_key":"60c43bca7723bebd86668918","_id":"references/60c43bca7723bebd86668918","_rev":"_cfFlT4S---","tei":"\n\t\n\t\tMAFFT version 5: improvement in accuracy of multiple sequence alignment\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\t10.1093/nar/gki198\n\t\t15661851\n\t\tPMC548345\n\t\tark:/67375/HXZ-5GKR6N1M-5\n\t\t88D98880597984321DF1C853C0EE04D93910D636\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c43bca7723bebd86668916"},"refKey":60},
{"_key":"60c43bca7723bebd86668919","_id":"references/60c43bca7723bebd86668919","_rev":"_cfFlT4i---","tei":"\n\t\n\t\tA Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1080/10635150390235520\n\t\t14530136\n\t\tark:/67375/HXZ-32P26Z5L-9\n\t\t10D069593FA116F90817B5F2773320087F8156B0\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t52\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c43bca7723bebd86668916"},"refKey":63},
{"_key":"60c43bca7723bebd8666891a","_id":"references/60c43bca7723bebd8666891a","_rev":"_cfFlT4u---","tei":"\n\t\n\t\tjModelTest: Phylogenetic Model Averaging\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/molbev/msn083\n\t\t18397919\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t25\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c43bca7723bebd86668916"},"refKey":62},
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{"_key":"60c43bd97723bebd8666892d","_id":"references/60c43bd97723bebd8666892d","_rev":"_cfFlT5G---","tei":"\n\t\n\t\tData processing and analysis with the autoPROC toolbox\n\t\t\n\t\t\tCVonrhein\n\t\t\n\t\t\n\t\t\tCFlensburg\n\t\t\n\t\t\n\t\t\tPKeller\n\t\t\n\t\t\n\t\t\tASharff\n\t\t\n\t\t\n\t\t\tOSmart\n\t\t\n\t\t\n\t\t\tWPaciorek\n\t\t\n\t\t\n\t\t\tTWomack\n\t\t\n\t\t\n\t\t\tGBricogne\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\tPt4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43bd97723bebd8666892c"},"refKey":32},
{"_key":"60c43bfa7723bebd86668945","_id":"references/60c43bfa7723bebd86668945","_rev":"_cfFlT5O---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\t\n\t\t\tNealeBTodd-Brown\n\t\t\n\t\t\n\t\t\tKThomas\n\t\t\n\t\t\n\t\t\tLFerreira\n\t\t\n\t\t\n\t\t\tMA\n\t\t\n\t\n\t\n\t\tAm. J. Hum. Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43bfa7723bebd86668944"},"refKey":65},
{"_key":"60c43bfa7723bebd86668946","_id":"references/60c43bfa7723bebd86668946","_rev":"_cfFlT5a---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43bfa7723bebd86668944"},"refKey":8},
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{"_key":"60c43bfa7723bebd86668949","_id":"references/60c43bfa7723bebd86668949","_rev":"_cfFlT6----","tei":"\n\t\n\t\tA high-performance computing toolset for relatedness and principal component analysis of SNP data\n\t\t\n\t\t\tXZheng\n\t\t\n\t\t\n\t\t\tDLevine\n\t\t\n\t\t\n\t\t\tJShen\n\t\t\n\t\t\n\t\t\tSMGogarten\n\t\t\n\t\t\n\t\t\tCLaurie\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43bfa7723bebd86668944"},"refKey":81},
{"_key":"60c43bfa7723bebd8666894a","_id":"references/60c43bfa7723bebd8666894a","_rev":"_cfFlT6K---","tei":"\n\t\n\t\tFast gapped-read alignment with bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43bfa7723bebd86668944"},"refKey":47},
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{"_key":"60c43bfa7723bebd8666894c","_id":"references/60c43bfa7723bebd8666894c","_rev":"_cfFlT6i---","tei":"\n\t\n\t\tInteractive tree of life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43bfa7723bebd86668944"},"refKey":50},
{"_key":"60c43bfa7723bebd8666894d","_id":"references/60c43bfa7723bebd8666894d","_rev":"_cfFlT6u---","tei":"\n\t\n\t\tA markov chain monte carlo approach for joint inference of population structure and inbreeding rates from multilocus genotype data\n\t\t\n\t\t\tHGao\n\t\t\n\t\t\n\t\t\tSWilliamson\n\t\t\n\t\t\n\t\t\tCDBustamante\n\t\t\n\t\n\t\n\t\tGenetics\n\t\t\n\t\t\t176\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43bfa7723bebd86668944"},"refKey":27},
{"_key":"60c43bfa7723bebd8666894e","_id":"references/60c43bfa7723bebd8666894e","_rev":"_cfFlT66---","tei":"\n\t\n\t\tCODA: Convergence diagnosis and output analysis for\n\t\t\n\t\t\tMPlummer\n\t\t\n\t\t\n\t\t\tNBest\n\t\t\n\t\t\n\t\t\tKCowles\n\t\t\n\t\t\n\t\t\tKVines\n\t\t\n\t\n\t\n\t\tMCMC. R News\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43bfa7723bebd86668944"},"refKey":62},
{"_key":"60c43c257723bebd8666897d","_id":"references/60c43c257723bebd8666897d","_rev":"_cfFlT7G---","tei":"\n\t\n\t\tInference of gene networks from temporal gene expression profiles\n\t\t\n\t\t\tMBansal\n\t\t\n\t\t\n\t\t\tDDi Bernardo\n\t\t\n\t\t10.1049/iet-syb:20060079\n\t\t17907680\n\t\n\t\n\t\tIET Systems Biology\n\t\t1751-8849\n\t\t1751-8857\n\t\t\n\t\t\t1\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInstitution of Engineering and Technology (IET)\n\t\t\n\t\n\n","document":{"$oid":"60c43c257723bebd8666897c"},"refKey":20},
{"_key":"60c43c257723bebd8666897e","_id":"references/60c43c257723bebd8666897e","_rev":"_cfFlT7O---","tei":"\n\t\n\t\tElucidating Compound Mechanism of Action by Network Perturbation Analysis\n\t\t\n\t\t\tJungHoonWoo\n\t\t\n\t\t\n\t\t\tYishaiShimoni\n\t\t\n\t\t\n\t\t\tWanSeokYang\n\t\t\n\t\t\n\t\t\tPremSubramaniam\n\t\t\n\t\t\n\t\t\tArchanaIyer\n\t\t\n\t\t\n\t\t\tPaolaNicoletti\n\t\t\n\t\t\n\t\t\tMaríaRodríguez Martínez\n\t\t\n\t\t\n\t\t\tGonzaloLópez\n\t\t\n\t\t\n\t\t\tMichelaMattioli\n\t\t\n\t\t\n\t\t\tRonaldRealubit\n\t\t\n\t\t\n\t\t\tCharlesKaran\n\t\t\n\t\t\n\t\t\tBrentRStockwell\n\t\t\n\t\t\n\t\t\tMukeshBansal\n\t\t\n\t\t\n\t\t\tAndreaCalifano\n\t\t\n\t\t10.1016/j.cell.2015.05.056\n\t\t26186195\n\t\tPMC4506491\n\t\t\n\t\n\t\n\t\tCell\n\t\tCell\n\t\t0092-8674\n\t\t\n\t\t\t162\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c43c257723bebd8666897c"},"refKey":8},
{"_key":"60c43c257723bebd8666897f","_id":"references/60c43c257723bebd8666897f","_rev":"_cfFlT7a---","tei":"\n\t\n\t\tInferring gene targets of drugs and chemical compounds from gene expression profiles\n\t\t\n\t\t\tHeejuNoh\n\t\t\n\t\t\n\t\t\tRudiyantoGunawan\n\t\t\n\t\t10.1093/bioinformatics/btw148\n\t\t27153589\n\t\tPMC4937192\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c43c257723bebd8666897c"},"refKey":12},
{"_key":"60c43c257723bebd86668980","_id":"references/60c43c257723bebd86668980","_rev":"_cfFlT7m---","tei":"\n\t\n\t\tSoftware for computing and annotating genomic ranges\n\t\t\n\t\t\tMLawrence\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tHPages\n\t\t\n\t\t\n\t\t\tPAboyoun\n\t\t\n\t\t\n\t\t\tMCarlson\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\t\n\t\t\tMTMorgan\n\t\t\n\t\t\n\t\t\tVJCarey\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\te1003118\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43c257723bebd8666897c"},"refKey":34},
{"_key":"60c43c257723bebd86668981","_id":"references/60c43c257723bebd86668981","_rev":"_cfFlT7y---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMVKuleshov\n\t\t\n\t\t\n\t\t\tMRJones\n\t\t\n\t\t\n\t\t\tADRouillard\n\t\t\n\t\t\n\t\t\tNFFernandez\n\t\t\n\t\t\n\t\t\tQNDuan\n\t\t\n\t\t\n\t\t\tZCWang\n\t\t\n\t\t\n\t\t\tSKoplev\n\t\t\n\t\t\n\t\t\tSLJenkins\n\t\t\n\t\t\n\t\t\tKMJagodnik\n\t\t\n\t\t\n\t\t\tALachmann\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43c257723bebd8666897c"},"refKey":35},
{"_key":"60c43c257723bebd86668982","_id":"references/60c43c257723bebd86668982","_rev":"_cfFlT8----","tei":"\n\t\n\t\tReactomePA: an R/Bioconductor package for reactome pathway analysis and visualization\n\t\t\n\t\t\tGCYu\n\t\t\n\t\t\n\t\t\tQYHe\n\t\t\n\t\n\t\n\t\tMol Biosyst\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43c257723bebd8666897c"},"refKey":37},
{"_key":"60c43c487723bebd866689a5","_id":"references/60c43c487723bebd866689a5","_rev":"_cfFlT8K---","tei":"\n\t\n\t\tThe CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43c487723bebd866689a4"},"refKey":52},
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{"_key":"60c43c487723bebd866689a7","_id":"references/60c43c487723bebd866689a7","_rev":"_cfFlT8m---","tei":"\n\t\n\t\tRecognition of remote protein homologies using three-dimensional information to generate a position specific scoring matrix in the program 3D-PSSM\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\n\t\t\n\t\t\tRobertMMaccallum\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1145/299432.299486\n\t\n\t\n\t\tProceedings of the third annual international conference on Computational molecular biology - RECOMB '99\n\t\t\t\t\n\t\t\tSIstrail\n\t\t\tPPevzner\n\t\t\tMWaterman\n\t\t\n\t\tthe third annual international conference on Computational molecular biology - RECOMB '99New York\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43c487723bebd866689a4"},"refKey":23},
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{"_key":"60c43c487723bebd866689a9","_id":"references/60c43c487723bebd866689a9","_rev":"_cfFlT9C---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43c487723bebd866689a4"},"refKey":59},
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{"_key":"60c43cc27723bebd86668a16","_id":"references/60c43cc27723bebd86668a16","_rev":"_cfFlT9e---","tei":"\n\t\n\t\tLambda interferons come to light: Dual function cytokines mediating antiviral immunity and damage control\n\t\t\n\t\t\tEAndreakos\n\t\t\n\t\t\n\t\t\tIZanoni\n\t\t\n\t\t\n\t\t\tIEGalani\n\t\t\n\t\t10.1016/j.coi.2018.10.007\n\t\n\t\n\t\tCurr. Opin. Immunol\n\t\t\n\t\t\t56\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c43cc27723bebd86668a15"},"refKey":26},
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{"_key":"60c43cc27723bebd86668a18","_id":"references/60c43cc27723bebd86668a18","_rev":"_cfFlU-----","tei":"\n\t\n\t\tHISAT: A fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t10.1038/nmeth.3317\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c43cc27723bebd86668a15"},"refKey":36},
{"_key":"60c43cdf7723bebd86668a32","_id":"references/60c43cdf7723bebd86668a32","_rev":"_cfFlU-O---","tei":"\n\t\n\t\tAmos users´guide version 6.0. Chicago, Ill Smallwaters Corporation\n\t\t\n\t\t\tJLArbuckle\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43cdf7723bebd86668a31"},"refKey":1},
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{"_key":"60c43d6d7723bebd86668a4c","_id":"references/60c43d6d7723bebd86668a4c","_rev":"_cfFlU-q---","tei":"\n\t\n\t\tScrublet: computational identification of cell doublets in single-cell transcriptomic data\n\t\t\n\t\t\tSamuelLWolock\n\t\t\n\t\t\n\t\t\tRomainLopez\n\t\t\n\t\t\n\t\t\tAllonMKlein\n\t\t\n\t\t10.1101/357368\n\t\t\n\t\n\t\n\t\tScrublet: Computational Identification of Cell Doublets in Single-Cell Transcriptomic Data. Cell Syst\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c43d6d7723bebd86668a4b"},"refKey":71},
{"_key":"60c43d837723bebd86668a5d","_id":"references/60c43d837723bebd86668a5d","_rev":"_cfFlU-2---","tei":"\n\t\n\t\t\n\t\tAD8232 Filter Design (Open Source). [Software\n\t\t\t\t\n\t\t\t\n\t\t\t24\n\t\t\n\t\n\n","document":{"$oid":"60c43d837723bebd86668a5c"},"refKey":24},
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{"_key":"60c43d8c7723bebd86668a9f","_id":"references/60c43d8c7723bebd86668a9f","_rev":"_cfFlU_O---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tCisco Webex\n\t\t\n\t\t\n\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c43d8c7723bebd86668a9e"},"refKey":6},
{"_key":"60c43dc47723bebd86668acf","_id":"references/60c43dc47723bebd86668acf","_rev":"_cfFlU_e---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t772\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43dc47723bebd86668ace"},"refKey":11},
{"_key":"60c43de87723bebd86668adf","_id":"references/60c43de87723bebd86668adf","_rev":"_cfFlU_q---","tei":"\n\t\n\t\tProgramming in Ada 2012\n\t\t\n\t\t\tJohnBarnes\n\t\t\n\t\t10.1017/cbo9781139696616\n\t\t\n\t\t\t\n\t\t\tCambridge University Press\n\t\t\tCambridge\n\t\t\n\t\n\n","document":{"$oid":"60c43de87723bebd86668ade"},"refKey":1},
{"_key":"60c43de87723bebd86668ae0","_id":"references/60c43de87723bebd86668ae0","_rev":"_cfFlU_2---","tei":"\n\t\n\t\tPreface\n\t\t\n\t\t\tJohnWMccormick\n\t\t\n\t\t\n\t\t\tPeterCChapin\n\t\t\n\t\t\n\t\t\tJohnWMccormick\n\t\t\n\t\t\n\t\t\tPeterCChapin\n\t\t\n\t\t10.1017/cbo9781139629294.001\n\t\n\t\n\t\tBuilding High Integrity Applications with SPARK\n\t\t\t\tCambridge\n\t\t\n\t\t\tCambridge University Press\n\t\t\t2015\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43de87723bebd86668ade"},"refKey":7},
{"_key":"60c43de87723bebd86668ae1","_id":"references/60c43de87723bebd86668ae1","_rev":"_cfFlUAC---","tei":"\n\t\n\t\tThe VerCors Tool Set: Verification of Parallel and Concurrent Software\n\t\t\n\t\t\tStefanBlom\n\t\t\n\t\t\n\t\t\tSaeedDarabi\n\t\t\n\t\t\n\t\t\tMariekeHuisman\n\t\t\n\t\t\n\t\t\tWytseOortwijn\n\t\t\n\t\t10.1007/978-3-319-66845-1_7\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tNPolikarpova\n\t\t\tSSchneider\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t10510\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43de87723bebd86668ade"},"refKey":2},
{"_key":"60c43de87723bebd86668ae2","_id":"references/60c43de87723bebd86668ae2","_rev":"_cfFlUAO---","tei":"\n\t\n\t\tLeveraging rust types for modular specification and verification\n\t\t\n\t\t\tVAstrauskas\n\t\t\n\t\t\n\t\t\tPMüller\n\t\t\n\t\t\n\t\t\tFPoli\n\t\t\n\t\t\n\t\t\tAJSummers\n\t\t\n\t\n\t\n\t\tProc. ACM Program. Lang\n\t\t\n\t\t\t3\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43de87723bebd86668ade"},"refKey":0},
{"_key":"60c43ded7723bebd86668b01","_id":"references/60c43ded7723bebd86668b01","_rev":"_cfFlUAa---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis: A regression-based approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford publications\n\t\t\tNew York\n\t\t\n\t\n\t2nd ed.\n\n","document":{"$oid":"60c43ded7723bebd86668b00"},"refKey":36},
{"_key":"60c43e147723bebd86668b08","_id":"references/60c43e147723bebd86668b08","_rev":"_cfFlUAm---","tei":"\n\t\n\t\tChange-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data: Table 1.\n\t\t\n\t\t\tNamitaTGupta\n\t\t\n\t\t\n\t\t\tJasonAVander Heiden\n\t\t\n\t\t\n\t\t\tMohamedUduman\n\t\t\n\t\t\n\t\t\tDanielGadala-Maria\n\t\t\n\t\t\n\t\t\tGurYaari\n\t\t\n\t\t\n\t\t\tStevenHKleinstein\n\t\t\n\t\t10.1093/bioinformatics/btv359\n\t\t26069265\n\t\tPMC4793929\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c43e147723bebd86668b07"},"refKey":41},
{"_key":"60c43e147723bebd86668b09","_id":"references/60c43e147723bebd86668b09","_rev":"_cfFlUAy---","tei":"\n\t\n\t\tThe Ensembl REST API: Ensembl Data for Any Language\n\t\t\n\t\t\tAndrewYates\n\t\t\n\t\t\n\t\t\tKathrynBeal\n\t\t\n\t\t\n\t\t\tStephenKeenan\n\t\t\n\t\t\n\t\t\tWilliamMclaren\n\t\t\n\t\t\n\t\t\tMiguelPignatelli\n\t\t\n\t\t\n\t\t\tGrahamR SRitchie\n\t\t\n\t\t\n\t\t\tMagaliRuffier\n\t\t\n\t\t\n\t\t\tKieronTaylor\n\t\t\n\t\t\n\t\t\tAlessandroVullo\n\t\t\n\t\t\n\t\t\tPaulFlicek\n\t\t\n\t\t10.1093/bioinformatics/btu613\n\t\t25236461\n\t\tPMC4271150\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c43e147723bebd86668b07"},"refKey":33},
{"_key":"60c43e147723bebd86668b0a","_id":"references/60c43e147723bebd86668b0a","_rev":"_cfFlUB----","tei":"\n\t\n\t\tpRESTO: a toolkit for processing high-throughput sequencing raw reads of lymphocyte receptor repertoires\n\t\t\n\t\t\tJAVander Heiden\n\t\t\n\t\t\n\t\t\tGYaari\n\t\t\n\t\t\n\t\t\tMUduman\n\t\t\n\t\t\n\t\t\tJN HStern\n\t\t\n\t\t\n\t\t\tKCO'connor\n\t\t\n\t\t\n\t\t\tDAHafler\n\t\t\n\t\t\n\t\t\tFVigneault\n\t\t\n\t\t\n\t\t\tSHKleinstein\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e147723bebd86668b07"},"refKey":39},
{"_key":"60c43e147723bebd86668b0b","_id":"references/60c43e147723bebd86668b0b","_rev":"_cfFlUBK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e147723bebd86668b07"},"refKey":35},
{"_key":"60c43e197723bebd86668b23","_id":"references/60c43e197723bebd86668b23","_rev":"_cfFlUBS---","tei":"\n\t\n\t\tA Scenario-Based Validation Language for ASMs\n\t\t\n\t\t\tAlessandroCarioni\n\t\t\n\t\t\n\t\t\tAngeloGargantini\n\t\t\n\t\t\n\t\t\tElviniaRiccobene\n\t\t\n\t\t\n\t\t\tPatriziaScandurra\n\t\t\n\t\t10.1007/978-3-540-87603-8_7\n\t\tark:/67375/HCB-QWDD0V8J-F\n\t\tA9BA4C7E45DB9A27B438B76FD9A744F6A1B2EBDF\n\t\t\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tEBörger\n\t\t\tMButler\n\t\t\tJPBowen\n\t\t\tPBoca\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t2008\n\t\t\t5238\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e197723bebd86668b22"},"refKey":11},
{"_key":"60c43e197723bebd86668b24","_id":"references/60c43e197723bebd86668b24","_rev":"_cfFlUBe---","tei":"\n\t\n\t\tAsmetaSMV: A Way to Link High-Level ASM Models to Low-Level NuSMV Specifications\n\t\t\n\t\t\tPaoloArcaini\n\t\t\n\t\t\n\t\t\tAngeloGargantini\n\t\t\n\t\t\n\t\t\tElviniaRiccobene\n\t\t\n\t\t10.1007/978-3-642-11811-1_6\n\t\tark:/67375/HCB-V548C4D3-B\n\t\t98D8922996131FF59ED24399F6AA05A85D943BB5\n\t\t\n\t\n\t\n\t\tAbstract State Machines, Alloy, B and Z\n\t\t\t\t\n\t\t\tSReeves\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t5977\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e197723bebd86668b22"},"refKey":0},
{"_key":"60c43e197723bebd86668b25","_id":"references/60c43e197723bebd86668b25","_rev":"_cfFlUBq---","tei":"\n\t\n\t\tUsing Spin to Generate Tests from ASM Specifications\n\t\t\n\t\t\tAngeloGargantini\n\t\t\n\t\t\n\t\t\tElviniaRiccobene\n\t\t\n\t\t\n\t\t\tSalvatoreRinzivillo\n\t\t\n\t\t10.1007/3-540-36498-6_15\n\t\tark:/67375/HCB-DZC3H3X5-1\n\t\t5E982A6FAD368DF2ABB51CDDCB4F90EB3BCB5339\n\t\t\n\t\n\t\n\t\tAbstract State Machines 2003\n\t\t\t\t\n\t\t\tEBörger\n\t\t\tAGargantini\n\t\t\tERiccobene\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t2589\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e197723bebd86668b22"},"refKey":12},
{"_key":"60c43e197723bebd86668b26","_id":"references/60c43e197723bebd86668b26","_rev":"_cfFlUB2---","tei":"\n\t\n\t\tA metamodel-based language and a simulation engine for abstract state machines\n\t\t\n\t\t\tAGargantini\n\t\t\n\t\t\n\t\t\tERiccobene\n\t\t\n\t\t\n\t\t\tPScandurra\n\t\t\n\t\n\t\n\t\tJ. UCS\n\t\t\n\t\t\t14\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e197723bebd86668b22"},"refKey":13},
{"_key":"60c43e197723bebd86668b27","_id":"references/60c43e197723bebd86668b27","_rev":"_cfFlUCC---","tei":"\n\t\n\t\tAsmetaA: Animator for Abstract State Machines\n\t\t\n\t\t\tSilviaBonfanti\n\t\t\n\t\t\n\t\t\tAngeloGargantini\n\t\t\n\t\t\n\t\t\tAtifMashkoor\n\t\t\n\t\t10.1007/978-3-319-91271-4_25\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tMButler\n\t\t\tARaschke\n\t\t\tTSHoang\n\t\t\tKReichl\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t10817\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e197723bebd86668b22"},"refKey":7},
{"_key":"60c43e327723bebd86668b48","_id":"references/60c43e327723bebd86668b48","_rev":"_cfFlUCO---","tei":"\n\t\n\t\tYASGUI: Not Just Another SPARQL Client\n\t\t\n\t\t\tLaurensRietveld\n\t\t\n\t\t\n\t\t\tRinkeHoekstra\n\t\t\n\t\t10.1007/978-3-642-41242-4_7\n\t\tark:/67375/HCB-4SBH75WC-K\n\t\t3B3534AF05115F47824E9820E04A34234EB5C630\n\t\t\n\t\t\n\t\n\t\n\t\tAdvanced Information Systems Engineering\n\t\t\t\t\n\t\t\tJVölker\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t7955\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e327723bebd86668b47"},"refKey":16},
{"_key":"60c43e327723bebd86668b49","_id":"references/60c43e327723bebd86668b49","_rev":"_cfFlUCa---","tei":"\n\t\n\t\tVisiNav: A system for visual search and navigation on web data\n\t\t\n\t\t\tAndreasHarth\n\t\t\n\t\t10.1016/j.websem.2010.08.001\n\t\n\t\n\t\tJournal of Web Semantics\n\t\tJournal of Web Semantics\n\t\t1570-8268\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c43e327723bebd86668b47"},"refKey":12},
{"_key":"60c43e327723bebd86668b4a","_id":"references/60c43e327723bebd86668b4a","_rev":"_cfFlUCm---","tei":"\n\t\n\t\tSparklis: An expressive query builder for SPARQL endpoints with guidance in natural language\n\t\t\n\t\t\tSébastienFerré\n\t\t\n\t\t10.3233/sw-150208\n\t\t\n\t\n\t\n\t\tSemantic Web\n\t\tSW\n\t\t1570-0844\n\t\t2210-4968\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tIOS Press\n\t\t\n\t\n\n","document":{"$oid":"60c43e327723bebd86668b47"},"refKey":10},
{"_key":"60c43e327723bebd86668b4b","_id":"references/60c43e327723bebd86668b4b","_rev":"_cfFlUCy---","tei":"\n\t\n\t\tCreation of visualizations based on linked data\n\t\t\n\t\t\tAlvaroGraves\n\t\t\n\t\t10.1145/2479787.2479828\n\t\n\t\n\t\tProceedings of the 3rd International Conference on Web Intelligence, Mining and Semantics - WIMS '13\n\t\t\t\tthe 3rd International Conference on Web Intelligence, Mining and Semantics - WIMS '13\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t41\n\t\t\t12\n\t\t\n\t\n\n","document":{"$oid":"60c43e327723bebd86668b47"},"refKey":11},
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{"_key":"60c43e327723bebd86668b50","_id":"references/60c43e327723bebd86668b50","_rev":"_cfFlUDq---","tei":"\n\t\n\t\tFed-Viz: a visual interface for SPARQL queries formulation and execution\n\t\t\n\t\t\tSSZainab\n\t\t\n\t\t\n\t\t\tMSaleem\n\t\t\n\t\t\n\t\t\tQMehmood\n\t\t\n\t\t\n\t\t\tDZehra\n\t\t\n\t\t\n\t\t\tSDecker\n\t\t\n\t\t\n\t\t\tAHasnain\n\t\t\n\t\n\t\n\t\tInternational WS on Visualizations and User Interfaces for Ontologies and Linked Data\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e327723bebd86668b47"},"refKey":24},
{"_key":"60c43e327723bebd86668b51","_id":"references/60c43e327723bebd86668b51","_rev":"_cfFlUD2---","tei":"\n\t\n\t\tRDF explorer: a visual query builder for semantic web knowledge graphs\n\t\t\n\t\t\tHVargas\n\t\t\n\t\t\n\t\t\tCBAranda\n\t\t\n\t\t\n\t\t\tAHogan\n\t\t\n\t\n\t\n\t\tProceedings of the ISWC\n\t\t\t\tthe ISWC\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e327723bebd86668b47"},"refKey":22},
{"_key":"60c43e327723bebd86668b52","_id":"references/60c43e327723bebd86668b52","_rev":"_cfFlUEC---","tei":"\n\t\n\t\tOptiqueVQS: A visual query system over ontologies for industry\n\t\t\n\t\t\tAhmetSoylu\n\t\t\n\t\t\n\t\t\tEvgenyKharlamov\n\t\t\n\t\t\n\t\t\tDmitriyZheleznyakov\n\t\t\n\t\t\n\t\t\tErnestoJimenez-Ruiz\n\t\t\n\t\t\n\t\t\tMartinGiese\n\t\t\n\t\t\n\t\t\tMartinGSkjæveland\n\t\t\n\t\t\n\t\t\tDagHovland\n\t\t\n\t\t\n\t\t\tRudolfSchlatte\n\t\t\n\t\t\n\t\t\tSebastianBrandt\n\t\t\n\t\t\n\t\t\tHallsteinLie\n\t\t\n\t\t\n\t\t\tIanHorrocks\n\t\t\n\t\t10.3233/sw-180293\n\t\t\n\t\n\t\n\t\tSemantic Web\n\t\tSW\n\t\t1570-0844\n\t\t2210-4968\n\t\t\n\t\t\t9\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tIOS Press\n\t\t\n\t\n\n","document":{"$oid":"60c43e327723bebd86668b47"},"refKey":20},
{"_key":"60c43e327723bebd86668b53","_id":"references/60c43e327723bebd86668b53","_rev":"_cfFlUEO---","tei":"\n\t\n\t\tSemFacet: semantic faceted search over yago\n\t\t\n\t\t\tMArenas\n\t\t\n\t\t\n\t\t\tBCuenca Grau\n\t\t\n\t\t\n\t\t\tEKharlamov\n\t\t\n\t\t\n\t\t\tSMarciuska\n\t\t\n\t\t\n\t\t\tDZheleznyakov\n\t\t\n\t\t\n\t\t\tEJimenez-Ruiz\n\t\t\n\t\n\t\n\t\tProceedings of the 23rd International Conference on World Wide Web\n\t\t\t\tthe 23rd International Conference on World Wide Web\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e327723bebd86668b47"},"refKey":2},
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{"_key":"60c43e3c7723bebd86668b87","_id":"references/60c43e3c7723bebd86668b87","_rev":"_cfFlUEu---","tei":"\n\t\n\t\tInsight into Ginkgo biloba L. extract on the improved spatial learning and memory by chemogenomics knowledgebase, molecular docking, molecular dynamics simulation, and bioassay validations\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tZFeng\n\t\t\n\t\t\n\t\t\tMShen\n\t\t\n\t\n\t\n\t\tACS omega\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e3c7723bebd86668b84"},"refKey":34},
{"_key":"60c43e3c7723bebd86668b89","_id":"references/60c43e3c7723bebd86668b89","_rev":"_cfFlUE6---","tei":"\n\t\n\t\tComputational systems pharmacology-target mapping for fentanyllaced cocaine overdose\n\t\t\n\t\t\tJCheng\n\t\t\n\t\t\n\t\t\tSWang\n\t\t\n\t\t\n\t\t\tWLin\n\t\t\n\t\n\t\n\t\tACS Chem Nerosci\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43e3c7723bebd86668b84"},"refKey":35},
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{"_key":"60c43f0e7723bebd86668c48","_id":"references/60c43f0e7723bebd86668c48","_rev":"_cfFlUH6---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAaronMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tASivachenko\n\t\t\n\t\t\n\t\t\tKCibulskis\n\t\t\n\t\t\n\t\t\tAKernytsky\n\t\t\n\t\t\n\t\t\tKGarimella\n\t\t\n\t\t\n\t\t\tDAltshuler\n\t\t\n\t\t\n\t\t\tSGabriel\n\t\t\n\t\t\n\t\t\tMDaly\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t10.1101/gr.107524.110\n\t\t20644199\n\t\tPMC2928508\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t20\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c43f0e7723bebd86668c47"},"refKey":9},
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{"_key":"60c43f267723bebd86668c6c","_id":"references/60c43f267723bebd86668c6c","_rev":"_cfFlUKC---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c43f267723bebd86668c68"},"refKey":55},
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{"_key":"60c43fde7723bebd86668d11","_id":"references/60c43fde7723bebd86668d11","_rev":"_cfFlUNe---","tei":"\n\t\n\t\tFastTree 2--approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43fde7723bebd86668d10"},"refKey":60},
{"_key":"60c43fde7723bebd86668d12","_id":"references/60c43fde7723bebd86668d12","_rev":"_cfFlUNq---","tei":"\n\t\n\t\tThe Ensembl Variant Effect Predictor\n\t\t\n\t\t\tWilliamMclaren\n\t\t\n\t\t\n\t\t\tLaurentGil\n\t\t\n\t\t\n\t\t\tSarahEHunt\n\t\t\n\t\t\n\t\t\tHarpreetSinghRiat\n\t\t\n\t\t\n\t\t\tGrahamR SRitchie\n\t\t\n\t\t\n\t\t\tAnjaThormann\n\t\t\n\t\t\n\t\t\tPaulFlicek\n\t\t\n\t\t\n\t\t\tFionaCunningham\n\t\t\n\t\t10.1101/042374\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t17\n\t\t\t122\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c43fde7723bebd86668d10"},"refKey":56},
{"_key":"60c43fde7723bebd86668d13","_id":"references/60c43fde7723bebd86668d13","_rev":"_cfFlUN2---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43fde7723bebd86668d10"},"refKey":61},
{"_key":"60c43fde7723bebd86668d14","_id":"references/60c43fde7723bebd86668d14","_rev":"_cfFlUOC---","tei":"\n\t\n\t\tphangorn: phylogenetic analysis in R\n\t\t\n\t\t\tKPSchliep\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43fde7723bebd86668d10"},"refKey":62},
{"_key":"60c43fde7723bebd86668d15","_id":"references/60c43fde7723bebd86668d15","_rev":"_cfFlUOO---","tei":"\n\t\n\t\tUsing ggtree to visualize data on tree-like structures\n\t\t\n\t\t\tGYu\n\t\t\n\t\n\t\n\t\tCurr Protoc Bioinformatics\n\t\t\n\t\t\t69\n\t\t\te96\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c43fde7723bebd86668d10"},"refKey":63},
{"_key":"60c440057723bebd86668d2f","_id":"references/60c440057723bebd86668d2f","_rev":"_cfFlUOa---","tei":"\n\t\n\t\tMetaCycle: an integrated R package to evaluate periodicity in large scale data\n\t\t\n\t\t\tGWu\n\t\t\n\t\t\n\t\t\tRCAna\n\t\t\n\t\t\n\t\t\tMEHughes\n\t\t\n\t\t\n\t\t\tKKornacker\n\t\t\n\t\t\n\t\t\tJBHogenesch\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t21\n\t\t\t33513353\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c440057723bebd86668d2e"},"refKey":61},
{"_key":"60c440057723bebd86668d30","_id":"references/60c440057723bebd86668d30","_rev":"_cfFlUOm---","tei":"\n\t\n\t\tQuantitative analysis of regulatory flexibility under changing environmental conditions\n\t\t\n\t\t\tKieronDEdwards\n\t\t\n\t\t\n\t\t\tOzgurEAkman\n\t\t\n\t\t\n\t\t\tKirstenKnox\n\t\t\n\t\t\n\t\t\tPeterJLumsden\n\t\t\n\t\t\n\t\t\tAdrianWThomson\n\t\t\n\t\t\n\t\t\tPaulEBrown\n\t\t\n\t\t\n\t\t\tAlexandraPokhilko\n\t\t\n\t\t\n\t\t\tLaszloKozma‐bognar\n\t\t\n\t\t\n\t\t\tFerencNagy\n\t\t\n\t\t\n\t\t\tDavidARand\n\t\t\n\t\t\n\t\t\tAndrewJMillar\n\t\t\n\t\t10.1038/msb.2010.81\n\t\t21045818\n\t\tPMC3010117\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMol Syst Biol\n\t\t1744-4292\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t424\n\t\t\t\n\t\t\tEMBO\n\t\t\n\t\n\n","document":{"$oid":"60c440057723bebd86668d2e"},"refKey":6},
{"_key":"60c440057723bebd86668d31","_id":"references/60c440057723bebd86668d31","_rev":"_cfFlUOy---","tei":"\n\t\n\t\tExtension of a genetic network model by iterative experimentation and mathematical analysis\n\t\t\n\t\t\tJC WLocke\n\t\t\n\t\t\n\t\t\tMMSouthern\n\t\t\n\t\t\n\t\t\tLKozma-Bognã½r\n\t\t\n\t\t\n\t\t\tVHibberd\n\t\t\n\t\t\n\t\t\tPEBrown\n\t\t\n\t\t\n\t\t\tMSTurner\n\t\t\n\t\t\n\t\t\tAJMillar\n\t\t\n\t\t2005.0013\n\t\n\t\n\t\tMolecular Systems Biology\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c440057723bebd86668d2e"},"refKey":23},
{"_key":"60c440057723bebd86668d32","_id":"references/60c440057723bebd86668d32","_rev":"_cfFlUP----","tei":"\n\t\n\t\tReciprocal regulation of carbon monoxide metabolism and the circadian clock\n\t\t\n\t\t\tRomanKlemz\n\t\t\n\t\t\n\t\t\tSilkeReischl\n\t\t\n\t\t\n\t\t\tThomasWallach\n\t\t\n\t\t\n\t\t\tNicoleWitte\n\t\t\n\t\t\n\t\t\tKarstenJürchott\n\t\t\n\t\t\n\t\t\tSabrinaKlemz\n\t\t\n\t\t\n\t\t\tVeronikaLang\n\t\t\n\t\t\n\t\t\tStephanLorenzen\n\t\t\n\t\t\n\t\t\tMiriamKnauer\n\t\t\n\t\t\n\t\t\tSteffiHeidenreich\n\t\t\n\t\t\n\t\t\tMinXu\n\t\t\n\t\t\n\t\t\tJürgenARipperger\n\t\t\n\t\t\n\t\t\tMichaelSchupp\n\t\t\n\t\t\n\t\t\tRalfStanewsky\n\t\t\n\t\t\n\t\t\tAchimKramer\n\t\t\n\t\t10.1038/nsmb.3331\n\t\t27892932\n\t\t\n\t\n\t\n\t\tNature Structural & Molecular Biology\n\t\tNat Struct Mol Biol\n\t\t1545-9993\n\t\t1545-9985\n\t\t\n\t\t\t24\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c440057723bebd86668d2e"},"refKey":18},
{"_key":"60c440057723bebd86668d33","_id":"references/60c440057723bebd86668d33","_rev":"_cfFlUPK---","tei":"\n\t\n\t\tCircada: Shiny apps for exploration of experimental and synthetic circadian time series with an educational emphasis\n\t\t\n\t\t\tLCenek\n\t\t\n\t\t\n\t\t\tLKlindziuk\n\t\t\n\t\t\n\t\t\tCLopez\n\t\t\n\t\t\n\t\t\tEMccartney\n\t\t\n\t\t\n\t\t\tBMBurgos\n\t\t\n\t\t\n\t\t\tSTir\n\t\t\n\t\t\n\t\t\tMEHarrington\n\t\t\n\t\t\n\t\t\tTLLeise\n\t\t\n\t\n\t\n\t\tJournal of Biological Rhythms\n\t\t\n\t\t\t35\n\t\t\t2\n\t\t\t214222\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c440057723bebd86668d2e"},"refKey":3},
{"_key":"60c440057723bebd86668d34","_id":"references/60c440057723bebd86668d34","_rev":"_cfFlUPW---","tei":"\n\t\n\t\tOnline Period Estimation and Determination of Rhythmicity in Circadian Data, Using the BioDare Data Infrastructure\n\t\t\n\t\t\tAnneMoore\n\t\t\n\t\t\n\t\t\tTomaszZielinski\n\t\t\n\t\t\n\t\t\tAndrewJMillar\n\t\t\n\t\t10.1007/978-1-4939-0700-7_2\n\t\t24792042\n\t\t1158:1344\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\tClifton, N.J.\n\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c440057723bebd86668d2e"},"refKey":27},
{"_key":"60c440057723bebd86668d35","_id":"references/60c440057723bebd86668d35","_rev":"_cfFlUPi---","tei":"\n\t\n\t\tStrengths and Limitations of Period Estimation Methods for Circadian Data\n\t\t\n\t\t\tTomaszZielinski\n\t\t\n\t\t\n\t\t\tAnneMMoore\n\t\t\n\t\t\n\t\t\tEilidhTroup\n\t\t\n\t\t\n\t\t\tKarenJHalliday\n\t\t\n\t\t\n\t\t\tAndrewJMillar\n\t\t\n\t\t10.1371/journal.pone.0096462\n\t\t24809473\n\t\tPMC4014635\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t9\n\t\t\t5\n\t\t\te96462\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c440057723bebd86668d2e"},"refKey":63},
{"_key":"60c440057723bebd86668d64","_id":"references/60c440057723bebd86668d64","_rev":"_cfFlUPq---","tei":"\n\t\n\t\tBuilding Better Open-Source Tools to Support Fairness in Automated Scoring\n\t\t\n\t\t\tNitinMadnani\n\t\t\n\t\t\n\t\t\tAnastassiaLoukina\n\t\t\n\t\t\n\t\t\tAlinaVon Davier\n\t\t\n\t\t\n\t\t\tJillBurstein\n\t\t\n\t\t\n\t\t\tAoifeCahill\n\t\t\n\t\t10.18653/v1/w17-1605\n\t\t\n\t\n\t\n\t\tProceedings of the First ACL Workshop on Ethics in Natural Language Processing\n\t\t\t\tthe First ACL Workshop on Ethics in Natural Language Processing\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c440057723bebd86668d63"},"refKey":20},
{"_key":"60c440547723bebd86668dd2","_id":"references/60c440547723bebd86668dd2","_rev":"_cfFlUP2---","tei":"\n\t\n\t\tVisualizing and interpreting cancer genomics data via the Xena platform\n\t\t\n\t\t\tMJGoldman\n\t\t\n\t\t\n\t\t\tBCraft\n\t\t\n\t\t\n\t\t\tMHastie\n\t\t\n\t\t\n\t\t\tKRepečka\n\t\t\n\t\t\n\t\t\tFMcdade\n\t\t\n\t\t\n\t\t\tAKamath\n\t\t\n\t\t\n\t\t\tABanerjee\n\t\t\n\t\t\n\t\t\tYLuo\n\t\t\n\t\t\n\t\t\tDRogers\n\t\t\n\t\t\n\t\t\tANBrooks\n\t\t\n\t\t\n\t\t\tJZhu\n\t\t\n\t\t\n\t\t\tDHaussler\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t38\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c440547723bebd86668dd1"},"refKey":34},
{"_key":"60c440607723bebd86668de2","_id":"references/60c440607723bebd86668de2","_rev":"_cfFlUQC---","tei":"\n\t\n\t\tMultiple sequence alignment with the Clustal series of programs\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tHSugawara\n\t\t\n\t\t\n\t\t\tTKoike\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c440607723bebd86668de1"},"refKey":16},
{"_key":"60c4406f7723bebd86668e05","_id":"references/60c4406f7723bebd86668e05","_rev":"_cfFlUQO---","tei":"\n\t\n\t\tdplyr: a grammar of data manipulation\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tRFrançois\n\t\t\n\t\t\n\t\t\tLHenry\n\t\t\n\t\t\n\t\t\tKMüller\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4406f7723bebd86668e04"},"refKey":21},
{"_key":"60c4406f7723bebd86668e06","_id":"references/60c4406f7723bebd86668e06","_rev":"_cfFlUQa---","tei":"\n\t\n\t\tA structured open dataset of government interventions in response to COVID-19-Codes for exploration and visualisation\n\t\t\n\t\t\tADesvars-Larrive\n\t\t\n\t\t\n\t\t\tEDervic\n\t\t\n\t\t\n\t\t\tNHaug\n\t\t\n\t\t\n\t\t\tDGarcia\n\t\t\n\t\t10.5281/zenodo.3949808\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4406f7723bebd86668e04"},"refKey":18},
{"_key":"60c4406f7723bebd86668e07","_id":"references/60c4406f7723bebd86668e07","_rev":"_cfFlUQm---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\t\n\t\t/ (R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4406f7723bebd86668e04"},"refKey":19},
{"_key":"60c4408f7723bebd86668e30","_id":"references/60c4408f7723bebd86668e30","_rev":"_cfFlUQy---","tei":"\n\t\n\t\tPredicting effective microRNA target sites in mammalian mRNAs\n\t\t\n\t\t\tVAgarwal\n\t\t\n\t\t\n\t\t\tGWBell\n\t\t\n\t\t\n\t\t\tJ-WNam\n\t\t\n\t\t\n\t\t\tDPBartel\n\t\t\n\t\n\t\n\t\teLife\n\t\t\n\t\t\t4\n\t\t\te05005\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4408f7723bebd86668e2f"},"refKey":5},
{"_key":"60c4408f7723bebd86668e31","_id":"references/60c4408f7723bebd86668e31","_rev":"_cfFlURG---","tei":"\n\t\n\t\tmiRDB: A microRNA target prediction and functional annotation database with a wiki interface\n\t\t\n\t\t\tNWong\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\t10.1261/rna.965408\n\t\t18426918\n\t\tPMC2390791\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4408f7723bebd86668e2f"},"refKey":6},
{"_key":"60c4408f7723bebd86668e32","_id":"references/60c4408f7723bebd86668e32","_rev":"_cfFlURS---","tei":"\n\t\n\t\tComprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites\n\t\t\n\t\t\tDoronBetel\n\t\t\n\t\t\n\t\t\tAnjaliKoppal\n\t\t\n\t\t\n\t\t\tPhaedraAgius\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t\n\t\t\tChristinaLeslie\n\t\t\n\t\t10.1186/gb-2010-11-8-r90\n\t\t20799968\n\t\tPMC2945792\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t11\n\t\t\t8\n\t\t\tR90\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4408f7723bebd86668e2f"},"refKey":7},
{"_key":"60c440e77723bebd86668e54","_id":"references/60c440e77723bebd86668e54","_rev":"_cfFlURe---","tei":"\n\t\n\t\tSaTScan: Software for the spatial, temporal, and space-time scan statistics\n\t\t\n\t\t\tSatscan\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c440e77723bebd86668e53"},"refKey":38},
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{"_key":"60c440eb7723bebd86668e5c","_id":"references/60c440eb7723bebd86668e5c","_rev":"_cfFlURy---","tei":"\n\t\n\t\tA comparison of Bayesian methods for haplotype reconstruction from population genotype data\n\t\t\n\t\t\tMStephens\n\t\t\n\t\t\n\t\t\tPDonnelly\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t73\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c440eb7723bebd86668e5a"},"refKey":22},
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{"_key":"60c4410f7723bebd86668e8f","_id":"references/60c4410f7723bebd86668e8f","_rev":"_cfFlUS6---","tei":"\n\t\n\t\tTeam: R: A language and environment for statistical computing. Vienna: R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core\n\t\t\n\t\t\n\t\t\tDevelopment\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4410f7723bebd86668e8c"},"refKey":42},
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{"_key":"60c4410f7723bebd86668e91","_id":"references/60c4410f7723bebd86668e91","_rev":"_cfFlUTS---","tei":"\n\t\n\t\t\n\t\t\tACBrowne\n\t\t\n\t\t\n\t\t\tGDivita\n\t\t\n\t\t\n\t\t\tCLu\n\t\t\n\t\t\n\t\t\tLMccreedy\n\t\t\n\t\t\n\t\t\tDNace\n\t\t\n\t\tLHNCBC-TR-2003-003\n\t\tLexical Systems: A report to the Board of Scientific Counselors\n\t\t\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tLister Hill National Center for Biomedical Communications, National Library of Medicine\n\t\t\n\t\n\tTECHNICAL REPORT\n\n","document":{"$oid":"60c4410f7723bebd86668e8c"},"refKey":36},
{"_key":"60c4410f7723bebd86668e92","_id":"references/60c4410f7723bebd86668e92","_rev":"_cfFlUTe---","tei":"\n\t\n\t\tUMLS language and vocabulary tools\n\t\t\n\t\t\tACBrowne\n\t\t\n\t\t\n\t\t\tGDivita\n\t\t\n\t\t\n\t\t\tARAronson\n\t\t\n\t\t\n\t\t\tATMccray\n\t\t\n\t\n\t\n\t\tProceedings of the AMIA Annual Symposium\n\t\t\t\tthe AMIA Annual SymposiumWashington DC, USA\n\t\t\n\t\t\t\n\t\t\t798\n\t\t\n\t\n\n","document":{"$oid":"60c4410f7723bebd86668e8c"},"refKey":37},
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{"_key":"60c441937723bebd86668f35","_id":"references/60c441937723bebd86668f35","_rev":"_cfFlUUm---","tei":"\n\t\n\t\tOn the analysis of protein self-association by sedimentation velocity analytical ultracentrifugation\n\t\t\n\t\t\tPSchuck\n\t\t\n\t\n\t\n\t\tAnal. Biochem\n\t\t\n\t\t\t320\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c441937723bebd86668f34"},"refKey":33},
{"_key":"60c441b57723bebd86668f44","_id":"references/60c441b57723bebd86668f44","_rev":"_cfFlUUu---","tei":"\n\t\n\t\tStringTie enables improved reconstruction of a transcriptome from RNA-seq reads\n\t\t\n\t\t\tMihaelaPertea\n\t\t\n\t\t\n\t\t\tGeoMPertea\n\t\t\n\t\t\n\t\t\tCorinaMAntonescu\n\t\t\n\t\t\n\t\t\tTsung-ChengChang\n\t\t\n\t\t\n\t\t\tJoshuaTMendell\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nbt.3122\n\t\t25690850\n\t\tPMC4643835\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t33\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c441b57723bebd86668f43"},"refKey":45},
{"_key":"60c441b57723bebd86668f45","_id":"references/60c441b57723bebd86668f45","_rev":"_cfFlUU6---","tei":"\n\t\n\t\tBallgown bridges the gap between transcriptome assembly and expression analysis\n\t\t\n\t\t\tAlyssaCFrazee\n\t\t\n\t\t\n\t\t\tGeoPertea\n\t\t\n\t\t\n\t\t\tAndrewEJaffe\n\t\t\t0000-0001-6886-1454\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t\n\t\t\tJeffreyTLeek\n\t\t\n\t\t10.1038/nbt.3172\n\t\t25748911\n\t\tPMC4792117\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t33\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c441b57723bebd86668f43"},"refKey":12},
{"_key":"60c441e67723bebd86668f70","_id":"references/60c441e67723bebd86668f70","_rev":"_cfFlUVG---","tei":"\n\t\n\t\tThe reproducibility crisis in science: A statistical counterattack\n\t\t\n\t\t\tRogerPeng\n\t\t\n\t\t10.1111/j.1740-9713.2015.00827.x\n\t\tark:/67375/WNG-CFDQRMPC-K\n\t\t43380A5DB596BF9113F39D31E4D8CCE541B42974\n\t\t\n\t\n\t\n\t\tSignificance\n\t\tSignificance\n\t\t1740-9705\n\t\t\n\t\t\t12\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c441e67723bebd86668f6f"},"refKey":14},
{"_key":"60c441fc7723bebd86668f78","_id":"references/60c441fc7723bebd86668f78","_rev":"_cfFlUVS---","tei":"\n\t\n\t\t\n\t\t\tMAbadi\n\t\t\n\t\t\n\t\t\tAAgarwal\n\t\t\n\t\t\n\t\t\tPBarham\n\t\t\n\t\t\n\t\t\tEBrevdo\n\t\t\n\t\t\n\t\t\tZChen\n\t\t\n\t\t\n\t\t\tCCitro\n\t\t\n\t\t\n\t\t\tGCorrado\n\t\t\n\t\t\n\t\t\tADavis\n\t\t\n\t\t\n\t\t\tJDean\n\t\t\n\t\t\n\t\t\tSGhemawat\n\t\t\n\t\tarXiv:1603.04467\n\t\tLarge-Scale Machine Learning on Heterogeneous Distributed Systems. arXiv 2016\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c441fc7723bebd86668f77"},"refKey":78},
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{"_key":"60c442827723bebd86669254","_id":"references/60c442827723bebd86669254","_rev":"_cfFlUWC---","tei":"\n\t\n\t\t\n\t\tProtParam Tool\n\t\t\t\t\n\t\t\n\t\t\tSwiss Institute of Bioinformatics. ExPASy (Bioinformatics Resource Tool\n\t\t\n\t\n\n","document":{"$oid":"60c442827723bebd86669253"},"refKey":53},
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{"_key":"60c4429c7723bebd86669261","_id":"references/60c4429c7723bebd86669261","_rev":"_cfFlUWi---","tei":"\n\t\n\t\tFastTree: computing large minimum evolution trees with profiles instead of a distance matrix\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t26\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4429c7723bebd86669260"},"refKey":22},
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{"_key":"60c4429c7723bebd86669263","_id":"references/60c4429c7723bebd86669263","_rev":"_cfFlUW6---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to singlecell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4429c7723bebd86669260"},"refKey":17},
{"_key":"60c4429c7723bebd86669264","_id":"references/60c4429c7723bebd86669264","_rev":"_cfFlUXG---","tei":"\n\t\n\t\tInteractive tree of life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4429c7723bebd86669260"},"refKey":23},
{"_key":"60c4429c7723bebd86669265","_id":"references/60c4429c7723bebd86669265","_rev":"_cfFlUXS---","tei":"\n\t\n\t\tIn silico detection and typing of plasmids using PlasmidFinder and plasmid multilocus sequence typing\n\t\t\n\t\t\tACarattoli\n\t\t\n\t\t\n\t\t\tEZankari\n\t\t\n\t\t\n\t\t\tAGarcia-Fernandez\n\t\t\n\t\t\n\t\t\tVoldbyLarsen\n\t\t\n\t\t\n\t\t\tMLund\n\t\t\n\t\t\n\t\t\tOVilla\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\n\t\n\t\tAntimicrob Agents Chemother\n\t\t\n\t\t\t58\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4429c7723bebd86669260"},"refKey":27},
{"_key":"60c4429e7723bebd8666926e","_id":"references/60c4429e7723bebd8666926e","_rev":"_cfFlUXe---","tei":"\n\t\n\t\tApache Flink: stream and batch processing in a single engine\n\t\t\n\t\t\tPCarbone\n\t\t\n\t\t\n\t\t\tSEwen\n\t\t\n\t\t\n\t\t\tSHaridi\n\t\t\n\t\t\n\t\t\tAKatsifodimos\n\t\t\n\t\t\n\t\t\tVMarkl\n\t\t\n\t\t\n\t\t\tKTzoumas\n\t\t\n\t\n\t\n\t\tIEEE Data Eng. Bull\n\t\t\n\t\t\t38\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4429e7723bebd8666926d"},"refKey":5},
{"_key":"60c442a27723bebd86669280","_id":"references/60c442a27723bebd86669280","_rev":"_cfFlUXq---","tei":"\n\t\n\t\tThe Theory Underlying Concept Maps and How to Construct Them\n\t\t\n\t\t\tJDNovaak\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c442a27723bebd8666927f"},"refKey":25},
{"_key":"60c442a27723bebd86669281","_id":"references/60c442a27723bebd86669281","_rev":"_cfFlUX2---","tei":"\n\t\n\t\tCmapTools: A Knowledge Modeling and Sharing Environment\n\t\t\n\t\t\tAJCañas\n\t\t\n\t\t\n\t\t\tGHill\n\t\t\n\t\t\n\t\t\tRCarff\n\t\t\n\t\t\n\t\t\tNSuri\n\t\t\n\t\t\n\t\t\tJLott\n\t\t\n\t\t\n\t\t\tGGómez\n\t\t\n\t\t\n\t\t\tTEskridge\n\t\t\n\t\t\n\t\t\tMArroyo\n\t\t\n\t\t\n\t\t\tRCarvajal\n\t\t\n\t\n\t\n\t\tProceedings of the First International Conference on Concept Mapping\n\t\t\t\tthe First International Conference on Concept Mapping\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c442a27723bebd8666927f"},"refKey":27},
{"_key":"60c442b77723bebd86669288","_id":"references/60c442b77723bebd86669288","_rev":"_cfFlUYC---","tei":"\n\t\n\t\tCRISPR-P 2.0: An Improved CRISPR-Cas9 Tool for Genome Editing in Plants\n\t\t\n\t\t\tHaoLiu\n\t\t\n\t\t\n\t\t\tYuduanDing\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tWenqiJin\n\t\t\n\t\t\n\t\t\tKabinXie\n\t\t\n\t\t\n\t\t\tLing-LingChen\n\t\t\n\t\t10.1016/j.molp.2017.01.003\n\t\t28089950\n\t\t\n\t\n\t\n\t\tMolecular Plant\n\t\tMolecular Plant\n\t\t1674-2052\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c442b77723bebd86669287"},"refKey":45},
{"_key":"60c442c07723bebd8666928e","_id":"references/60c442c07723bebd8666928e","_rev":"_cfFlUYO---","tei":"\n\t\n\t\tCD-HIT Suite: a web server for clustering and comparing biological sequences\n\t\t\n\t\t\tYingHuang\n\t\t\n\t\t\n\t\t\tBeifangNiu\n\t\t\n\t\t\n\t\t\tYingGao\n\t\t\n\t\t\n\t\t\tLiminFu\n\t\t\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t10.1093/bioinformatics/btq003\n\t\t20053844\n\t\tPMC2828112\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c442c07723bebd8666928d"},"refKey":25},
{"_key":"60c442c07723bebd8666928f","_id":"references/60c442c07723bebd8666928f","_rev":"_cfFlUYa---","tei":"\n\t\n\t\tCd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1093/bioinformatics/btl158\n\t\t16731699\n\t\tark:/67375/HXZ-PG1KG21Q-C\n\t\t56FF6C45E6D69E965E2CABA99308A8C60A33307A\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c442c07723bebd8666928d"},"refKey":26},
{"_key":"60c442c07723bebd86669290","_id":"references/60c442c07723bebd86669290","_rev":"_cfFlUYm---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c442c07723bebd8666928d"},"refKey":23},
{"_key":"60c442c07723bebd86669299","_id":"references/60c442c07723bebd86669299","_rev":"_cfFlUYy---","tei":"\n\t\n\t\tSCARNA: fast and accurate structural alignment of RNA sequences by matching fixed-length stem fragments\n\t\t\n\t\t\tYTabei\n\t\t\n\t\t\n\t\t\tKTsuda\n\t\t\n\t\t\n\t\t\tTKin\n\t\t\n\t\t\n\t\t\tKAsai\n\t\t\n\t\t10.1093/bioinformatics/btl177\n\t\t16690634\n\t\tark:/67375/HXZ-TT389J3F-X\n\t\tBF008CEA7C9825F41720284C0AA21322A6E7B2AD\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c442c07723bebd86669298"},"refKey":58},
{"_key":"60c442c07723bebd8666929a","_id":"references/60c442c07723bebd8666929a","_rev":"_cfFlUZ----","tei":"\n\t\n\t\tInferring Noncoding RNA Families and Classes by Means of Genome-Scale Structure-Based Clustering\n\t\t\n\t\t\tSebastianWill\n\t\t\n\t\t\n\t\t\tKristinReiche\n\t\t\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t\n\t\t\tRolfBackofen\n\t\t\n\t\t10.1371/journal.pcbi.0030065\n\t\t17432929\n\t\tPMC1851984\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-734X\n\t\t1553-7358\n\t\t\n\t\t\t3\n\t\t\t4\n\t\t\te65\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c442c07723bebd86669298"},"refKey":9},
{"_key":"60c442c07723bebd8666929b","_id":"references/60c442c07723bebd8666929b","_rev":"_cfFlUZK---","tei":"\n\t\n\t\tA fast structural multiple alignment method for long RNA sequences\n\t\t\n\t\t\tYasuoTabei\n\t\t\n\t\t\n\t\t\tHisanoriKiryu\n\t\t\n\t\t\n\t\t\tTaishinKin\n\t\t\n\t\t\n\t\t\tKiyoshiAsai\n\t\t\n\t\t10.1186/1471-2105-9-33\n\t\t18215258\n\t\tPMC2375124\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c442c07723bebd86669298"},"refKey":11},
{"_key":"60c442c07723bebd8666929c","_id":"references/60c442c07723bebd8666929c","_rev":"_cfFlUZW---","tei":"\n\t\n\t\tLocARNA-P: Accurate boundary prediction and improved detection of structural RNAs\n\t\t\n\t\t\tSWill\n\t\t\n\t\t\n\t\t\tTJoshi\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t\n\t\t\tRBackofen\n\t\t\n\t\t10.1261/rna.029041.111\n\t\t22450757\n\t\tPMC3334699\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t18\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c442c07723bebd86669298"},"refKey":28},
{"_key":"60c442c07723bebd8666929d","_id":"references/60c442c07723bebd8666929d","_rev":"_cfFlUZi---","tei":"\n\t\n\t\tThreshknot: Thresholded probknot for improved RNA secondary structure prediction\n\t\t\n\t\t\tLZhang\n\t\t\n\t\t\n\t\t\tHZhang\n\t\t\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t\n\t\t\tLHuang\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c442c07723bebd86669298"},"refKey":27},
{"_key":"60c442c07723bebd8666929e","_id":"references/60c442c07723bebd8666929e","_rev":"_cfFlUZu---","tei":"\n\t\n\t\tRNAz 2.0: improved noncoding RNA detection in Biocomputing\n\t\t\n\t\t\tARGruber\n\t\t\n\t\t\n\t\t\tSFindeiß\n\t\t\n\t\t\n\t\t\tSWashietl\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t\n\t\t\t\n\t\t\tWorld Scientific\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c442c07723bebd86669298"},"refKey":36},
{"_key":"60c442c07723bebd8666929f","_id":"references/60c442c07723bebd8666929f","_rev":"_cfFlUZ6---","tei":"\n\t\n\t\tProbKnot: Fast prediction of RNA secondary structure including pseudoknots\n\t\t\n\t\t\tSBellaousov\n\t\t\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t10.1261/rna.2125310\n\t\t20699301\n\t\tPMC2941096\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t16\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c442c07723bebd86669298"},"refKey":21},
{"_key":"60c442f37723bebd86669326","_id":"references/60c442f37723bebd86669326","_rev":"_cfFlUaC---","tei":"\n\t\n\t\tVcflib, a simple C++ library for parsing and manipulating VCF files\n\t\t\n\t\t\tEGarrison\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c442f37723bebd86669325"},"refKey":28},
{"_key":"60c442f37723bebd86669327","_id":"references/60c442f37723bebd86669327","_rev":"_cfFlUaO---","tei":"\n\t\n\t\tAn amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar\n\t\t\n\t\t\tNathanDGrubaugh\n\t\t\n\t\t\n\t\t\tKarthikGangavarapu\n\t\t\n\t\t\n\t\t\tJoshuaQuick\n\t\t\n\t\t\n\t\t\tNathanielLMatteson\n\t\t\n\t\t\n\t\t\tJaquelineGoesDe Jesus\n\t\t\n\t\t\n\t\t\tBradleyJMain\n\t\t\n\t\t\n\t\t\tAmandaLTan\n\t\t\n\t\t\n\t\t\tLaurenMPaul\n\t\t\n\t\t\n\t\t\tDougEBrackney\n\t\t\n\t\t\n\t\t\tSaranGrewal\n\t\t\n\t\t\n\t\t\tNikosGurfield\n\t\t\n\t\t\n\t\t\tKoenK AVan Rompay\n\t\t\n\t\t\n\t\t\tSharonIsern\n\t\t\n\t\t\n\t\t\tScottFMichael\n\t\t\n\t\t\n\t\t\tLarkLCoffey\n\t\t\n\t\t\n\t\t\tNicholasJLoman\n\t\t\n\t\t\n\t\t\tKristianGAndersen\n\t\t\t0000-0001-6431-5982\n\t\t\n\t\t10.1186/s13059-018-1618-7\n\t\t30621750\n\t\tPMC6325816\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c442f37723bebd86669325"},"refKey":24},
{"_key":"60c442f37723bebd86669328","_id":"references/60c442f37723bebd86669328","_rev":"_cfFlUaa---","tei":"\n\t\n\t\tBroad Institute\n\t\t\n\t\t\tPicardToolkit\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c442f37723bebd86669325"},"refKey":26},
{"_key":"60c442f37723bebd86669329","_id":"references/60c442f37723bebd86669329","_rev":"_cfFlUam---","tei":"\n\t\n\t\tPosterior Summarization in Bayesian phylogenetics using tracer 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c442f37723bebd86669325"},"refKey":41},
{"_key":"60c442f37723bebd8666932a","_id":"references/60c442f37723bebd8666932a","_rev":"_cfFlUay---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c442f37723bebd86669325"},"refKey":27},
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{"_key":"60c442f37723bebd8666932c","_id":"references/60c442f37723bebd8666932c","_rev":"_cfFlUbK---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c442f37723bebd86669325"},"refKey":22},
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{"_key":"60c442f37723bebd86669330","_id":"references/60c442f37723bebd86669330","_rev":"_cfFlUb2---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c442f37723bebd86669325"},"refKey":31},
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{"_key":"60c443297723bebd8666935f","_id":"references/60c443297723bebd8666935f","_rev":"_cfFlUcO---","tei":"\n\t\n\t\tTM Finder: A prediction program for transmembrane protein segments using a combination of hydrophobicity and nonpolar phase helicity scales\n\t\t\n\t\t\tCMDeber\n\t\t\n\t\t\n\t\t\tCWang\n\t\t\n\t\t\n\t\t\tLPLiu\n\t\t\n\t\t10.1110/ps.30301\n\t\t11266608\n\t\tPMC2249854\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c443297723bebd8666935e"},"refKey":41},
{"_key":"60c443297723bebd86669360","_id":"references/60c443297723bebd86669360","_rev":"_cfFlUca---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\n\t\n\t\tMol Syst Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c443297723bebd8666935e"},"refKey":40},
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{"_key":"60c443597723bebd8666937d","_id":"references/60c443597723bebd8666937d","_rev":"_cfFlUcy---","tei":"\n\t\n\t\tGeneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMeintjes\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c443597723bebd8666937c"},"refKey":14},
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{"_key":"60c443827723bebd866693d3","_id":"references/60c443827723bebd866693d3","_rev":"_cfFlUdG---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. U. S. A\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c443827723bebd866693d2"},"refKey":16},
{"_key":"60c443c37723bebd86669405","_id":"references/60c443c37723bebd86669405","_rev":"_cfFlUdS---","tei":"\n\t\n\t\tCoDockPP: A Multistage Approach for Global and Site-Specific Protein–Protein Docking\n\t\t\n\t\t\tRenKong\n\t\t\t0000-0001-9010-1750\n\t\t\n\t\t\n\t\t\tFengWang\n\t\t\t0000-0002-0275-8267\n\t\t\n\t\t\n\t\t\tJianZhang\n\t\t\t0000-0002-6558-791X\n\t\t\n\t\t\n\t\t\tFengfeiWang\n\t\t\t0000-0003-3423-211X\n\t\t\n\t\t\n\t\t\tShanChang\n\t\t\t0000-0001-7169-9398\n\t\t\n\t\t10.1021/acs.jcim.9b00445\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t59\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c443c37723bebd86669404"},"refKey":1},
{"_key":"60c443c37723bebd86669406","_id":"references/60c443c37723bebd86669406","_rev":"_cfFlUde---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c443c37723bebd86669404"},"refKey":4},
{"_key":"60c4442a7723bebd86669453","_id":"references/60c4442a7723bebd86669453","_rev":"_cfFlUdu---","tei":"\n\t\n\t\tLeveraging Convolutional Pose Machines for Fast and Accurate Head Pose Estimation\n\t\t\n\t\t\tYuanzhouhanCao\n\t\t\n\t\t\n\t\t\tOlivierCanevet\n\t\t\n\t\t\n\t\t\tJean-MarcOdobez\n\t\t\n\t\t10.1109/iros.2018.8594223\n\t\n\t\n\t\t2018 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t2018\n\t\t\n\t\n\n","document":{"$oid":"60c4442a7723bebd86669452"},"refKey":22},
{"_key":"60c4442a7723bebd86669454","_id":"references/60c4442a7723bebd86669454","_rev":"_cfFlUd6---","tei":"\n\t\n\t\tConvolutional pose machines\n\t\t\n\t\t\tSEWei\n\t\t\n\t\t\n\t\t\tVRamakrishna\n\t\t\n\t\t\n\t\t\tTKanade\n\t\t\n\t\t\n\t\t\tYSheikh\n\t\t\n\t\t\n\t\t\t\n\t\t\tCVPR\n\t\t\n\t\n\n","document":{"$oid":"60c4442a7723bebd86669452"},"refKey":133},
{"_key":"60c444347723bebd8666945e","_id":"references/60c444347723bebd8666945e","_rev":"_cfFlUeG---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJulieDThompson\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t\n\t\t\tTobyJGibson\n\t\t\n\t\t10.1093/nar/22.22.4673\n\t\t7984417\n\t\tPMC308517\n\t\tark:/67375/HXZ-F03BKBVP-7\n\t\t779EA0D5394D5256976CC2873144010B7F618F65\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c444347723bebd8666945d"},"refKey":28},
{"_key":"60c444347723bebd8666945f","_id":"references/60c444347723bebd8666945f","_rev":"_cfFlUeS---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c444347723bebd8666945d"},"refKey":29},
{"_key":"60c444437723bebd86669478","_id":"references/60c444437723bebd86669478","_rev":"_cfFlUee---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c444437723bebd86669477"},"refKey":28},
{"_key":"60c444477723bebd86669486","_id":"references/60c444477723bebd86669486","_rev":"_cfFlUeq---","tei":"\n\t\n\t\tComparative protein modeling by satisfaction of spatial restraints\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1107/s0108767396095578\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t52\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c444477723bebd86669485"},"refKey":32},
{"_key":"60c444477723bebd86669487","_id":"references/60c444477723bebd86669487","_rev":"_cfFlUe2---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c444477723bebd86669485"},"refKey":31},
{"_key":"60c444777723bebd866694b5","_id":"references/60c444777723bebd866694b5","_rev":"_cfFlUfC---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c444777723bebd866694b4"},"refKey":55},
{"_key":"60c444907723bebd866694bd","_id":"references/60c444907723bebd866694bd","_rev":"_cfFlUfO---","tei":"\n\t\n\t\tCHARMM: The biomolecular simulation program\n\t\t\n\t\t\tBRBrooks\n\t\t\n\t\t\n\t\t\tCLBrooks\n\t\t\n\t\t\n\t\t\tADMackerellJr\n\t\t\n\t\t\n\t\t\tLNilsson\n\t\t\n\t\t\n\t\t\tRJPetrella\n\t\t\n\t\t\n\t\t\tBRoux\n\t\t\n\t\t\n\t\t\tYWon\n\t\t\n\t\t\n\t\t\tGArchontis\n\t\t\n\t\t\n\t\t\tCBartels\n\t\t\n\t\t\n\t\t\tSBoresch\n\t\t\n\t\t\n\t\t\tACaflisch\n\t\t\n\t\t\n\t\t\tLCaves\n\t\t\n\t\t\n\t\t\tQCui\n\t\t\n\t\t\n\t\t\tARDinner\n\t\t\n\t\t\n\t\t\tMFeig\n\t\t\n\t\t\n\t\t\tSFischer\n\t\t\n\t\t\n\t\t\tJGao\n\t\t\n\t\t\n\t\t\tMHodoscek\n\t\t\n\t\t\n\t\t\tWIm\n\t\t\n\t\t\n\t\t\tKKuczera\n\t\t\n\t\t\n\t\t\tTLazaridis\n\t\t\n\t\t\n\t\t\tJMa\n\t\t\n\t\t\n\t\t\tVOvchinnikov\n\t\t\n\t\t\n\t\t\tEPaci\n\t\t\n\t\t\n\t\t\tRWPastor\n\t\t\n\t\t\n\t\t\tCBPost\n\t\t\n\t\t\n\t\t\tJZPu\n\t\t\n\t\t\n\t\t\tMSchaefer\n\t\t\n\t\t\n\t\t\tBTidor\n\t\t\n\t\t\n\t\t\tRMVenable\n\t\t\n\t\t\n\t\t\tHLWoodcock\n\t\t\n\t\t\n\t\t\tXWu\n\t\t\n\t\t\n\t\t\tWYang\n\t\t\n\t\t\n\t\t\tDMYork\n\t\t\n\t\t\n\t\t\tMKarplus\n\t\t\n\t\t10.1002/jcc.21287\n\t\t19444816\n\t\tPMC2810661\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c444907723bebd866694bc"},"refKey":23},
{"_key":"60c444907723bebd866694be","_id":"references/60c444907723bebd866694be","_rev":"_cfFlUfa---","tei":"\n\t\n\t\tCHARMM-GUI: A web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tTaehoonKim\n\t\t\n\t\t\n\t\t\tVidyashankaraGIyer\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.20945\n\t\t18351591\n\t\tark:/67375/WNG-B51MBQFN-X\n\t\t3C9C30FE6273AB7B8632EBBA4EF6F91FEFB8F531\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c444907723bebd866694bc"},"refKey":26},
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{"_key":"60c444907723bebd866694c0","_id":"references/60c444907723bebd866694c0","_rev":"_cfFlUfy---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c444907723bebd866694bc"},"refKey":18},
{"_key":"60c444907723bebd866694c1","_id":"references/60c444907723bebd866694c1","_rev":"_cfFlUg----","tei":"\n\t\n\t\tCOFFEE: an objective function for multiple sequence alignments\n\t\t\n\t\t\tCNotredame\n\t\t\n\t\t\n\t\t\tLHolm\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/14.5.407\n\t\t9682054\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t14\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c444907723bebd866694bc"},"refKey":22},
{"_key":"60c444937723bebd866694d3","_id":"references/60c444937723bebd866694d3","_rev":"_cfFlUgK---","tei":"\n\t\n\t\tPaleontological statistics software package for education and data analysis\n\t\t\n\t\t\tØHammer\n\t\t\n\t\t\n\t\t\tDatHarper\n\t\t\n\t\t\n\t\t\tPDRyan\n\t\t\n\t\n\t\n\t\tPalaeontol Electron\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c444937723bebd866694d2"},"refKey":6},
{"_key":"60c444a17723bebd866694d8","_id":"references/60c444a17723bebd866694d8","_rev":"_cfFlUgS---","tei":"\n\t\n\t\tInference and analysis of cell-cell communication using CellChat\n\t\t\n\t\t\tSJin\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c444a17723bebd866694d7"},"refKey":34},
{"_key":"60c444a17723bebd866694d9","_id":"references/60c444a17723bebd866694d9","_rev":"_cfFlUge---","tei":"\n\t\n\t\tComprehensive integration of single cell data\n\t\t\n\t\t\tTimStuart\n\t\t\t0000-0002-3044-0897\n\t\t\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\t0000-0002-7693-8957\n\t\t\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\t0000-0001-5898-694X\n\t\t\n\t\t\n\t\t\tWilliamMMauck\n\t\t\n\t\t\n\t\t\tMarlonStoeckius\n\t\t\t0000-0002-5658-029X\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\t0000-0003-0772-1647\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/460147\n\t\t\n\t\n\t\n\t\tComprehensive Integration of Single-Cell Data. Cell\n\t\t\n\t\t\t177\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c444a17723bebd866694d7"},"refKey":30},
{"_key":"60c444a17723bebd866694da","_id":"references/60c444a17723bebd866694da","_rev":"_cfFlUgq---","tei":"\n\t\n\t\tReference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage\n\t\t\n\t\t\tDAran\n\t\t\n\t\n\t\n\t\tNat Immunol\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c444a17723bebd866694d7"},"refKey":25},
{"_key":"60c444bb7723bebd86669508","_id":"references/60c444bb7723bebd86669508","_rev":"_cfFlUg2---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c444bb7723bebd86669507"},"refKey":24},
{"_key":"60c444bb7723bebd86669509","_id":"references/60c444bb7723bebd86669509","_rev":"_cfFlUh----","tei":"\n\t\n\t\tProtein structure prediction on the Web: a case study using the Phyre server\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tMJSternberg\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c444bb7723bebd86669507"},"refKey":22},
{"_key":"60c444bc7723bebd86669513","_id":"references/60c444bc7723bebd86669513","_rev":"_cfFlUhK---","tei":"\n\t\n\t\tLinearDesign: Efficient Algorithms for Optimized mRNA Sequence Design\n\t\t\n\t\t\tHZhang\n\t\t\n\t\t\n\t\t\tLZhang\n\t\t\n\t\t\n\t\t\tZLi\n\t\t\n\t\t\n\t\t\tKLiu\n\t\t\n\t\t\n\t\t\tBLiu\n\t\t\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t\n\t\t\tLHuang\n\t\t\n\t\t\n\t\t\t\n\t\t\tArxiv\n\t\t\n\t\n\n","document":{"$oid":"60c444bc7723bebd86669512"},"refKey":29},
{"_key":"60c444bc7723bebd86669514","_id":"references/60c444bc7723bebd86669514","_rev":"_cfFlUhW---","tei":"\n\t\n\t\tRNA design rules from a massive open laboratory\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tWKladwang\n\t\t\n\t\t\n\t\t\tMLee\n\t\t\n\t\t\n\t\t\tDCantu\n\t\t\n\t\t\n\t\t\tMAzizyan\n\t\t\n\t\t\n\t\t\tHKim\n\t\t\n\t\t\n\t\t\tALimpaecher\n\t\t\n\t\t\n\t\t\tSYoon\n\t\t\n\t\t\n\t\t\tATreuille\n\t\t\n\t\t\n\t\t\tRDas\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t111\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c444bc7723bebd86669512"},"refKey":36},
{"_key":"60c444bc7723bebd86669515","_id":"references/60c444bc7723bebd86669515","_rev":"_cfFlUhi---","tei":"\n\t\n\t\tCDSfold: an algorithm for designing a protein-coding sequence with the most stable secondary structure\n\t\t\n\t\t\tGoroTerai\n\t\t\n\t\t\n\t\t\tSatoshiKamegai\n\t\t\n\t\t\n\t\t\tKiyoshiAsai\n\t\t\n\t\t10.1093/bioinformatics/btv678\n\t\t26589279\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c444bc7723bebd86669512"},"refKey":28},
{"_key":"60c444cb7723bebd86669546","_id":"references/60c444cb7723bebd86669546","_rev":"_cfFlUhq---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c444cb7723bebd86669545"},"refKey":39},
{"_key":"60c444d07723bebd86669552","_id":"references/60c444d07723bebd86669552","_rev":"_cfFlUh2---","tei":"\n\t\n\t\tGeneralized additive models: an introduction with R\n\t\t\n\t\t\tSNWood\n\t\t\n\t\t\n\t\t\t\n\t\t\tCRC Press\n\t\t\tBoca Raton, FL\n\t\t\n\t\n\n","document":{"$oid":"60c444d07723bebd86669551"},"refKey":54},
{"_key":"60c445367723bebd86669589","_id":"references/60c445367723bebd86669589","_rev":"_cfFlUiC---","tei":"\n\t\n\t\tRELION-3: new tools for automated high-resolution cryo-EM structure determination\n\t\t\n\t\t\tJasenkoZivanov\n\t\t\t0000-0001-8407-0759\n\t\t\n\t\t\n\t\t\tTakanoriNakane\n\t\t\t0000-0003-2697-2767\n\t\t\n\t\t\n\t\t\tBjörnForsberg\n\t\t\t0000-0002-6247-4063\n\t\t\n\t\t\n\t\t\tDariKimanius\n\t\t\t0000-0002-2662-6373\n\t\t\n\t\t\n\t\t\tWimJ HHagen\n\t\t\t0000-0001-6229-2692\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\t0000-0002-2734-2794\n\t\t\n\t\t\n\t\t\tSjorsH WScheres\n\t\t\t0000-0002-0462-6540\n\t\t\n\t\t10.1101/421123\n\t\t30412051\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t7\n\t\t\te42166\n\t\t\n\t\n\n","document":{"$oid":"60c445367723bebd86669588"},"refKey":109},
{"_key":"60c445367723bebd8666958a","_id":"references/60c445367723bebd8666958a","_rev":"_cfFlUiO---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tJohnHMorris\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\t0000-0001-6227-0637\n\t\t\n\t\t10.1002/pro.3235\n\t\t28710774\n\t\tPMC5734306\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c445367723bebd86669588"},"refKey":36},
{"_key":"60c445367723bebd8666958b","_id":"references/60c445367723bebd8666958b","_rev":"_cfFlUia---","tei":"\n\t\n\t\tGENCODE reference annotation for the human and mouse genomes\n\t\t\n\t\t\tAFrankish\n\t\t\n\t\t\n\t\t\tMDiekhans\n\t\t\n\t\t\n\t\t\tAMFerreira\n\t\t\n\t\t\n\t\t\tRJohnson\n\t\t\n\t\t\n\t\t\tIJungreis\n\t\t\n\t\t\n\t\t\tJLoveland\n\t\t\n\t\t\n\t\t\tJMMudge\n\t\t\n\t\t\n\t\t\tCSisu\n\t\t\n\t\t\n\t\t\tJWright\n\t\t\n\t\t\n\t\t\tJArmstrong\n\t\t\n\t\t\n\t\t\tIBarnes\n\t\t\n\t\t\n\t\t\tABerry\n\t\t\n\t\t\n\t\t\tABignell\n\t\t\n\t\t\n\t\t\tCarbonellSala\n\t\t\n\t\t\n\t\t\tSChrast\n\t\t\n\t\t\n\t\t\tJCunningham\n\t\t\n\t\t\n\t\t\tF\n\t\t\n\t\t\n\t\t\tDiDomenico\n\t\t\n\t\t\n\t\t\tTDonaldson\n\t\t\n\t\t\n\t\t\tSFiddes\n\t\t\n\t\t\n\t\t\tITGarcı ´a Giro ´n\n\t\t\n\t\t\n\t\t\tC\n\t\t\n\t\t10.1093/nar/gky955\n\t\t30357393\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c445367723bebd86669588"},"refKey":32},
{"_key":"60c445367723bebd8666958c","_id":"references/60c445367723bebd8666958c","_rev":"_cfFlUii---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c445367723bebd86669588"},"refKey":10},
{"_key":"60c445367723bebd8666958d","_id":"references/60c445367723bebd8666958d","_rev":"_cfFlUiu---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c445367723bebd86669588"},"refKey":66},
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{"_key":"60c445367723bebd8666958f","_id":"references/60c445367723bebd8666958f","_rev":"_cfFlUjG---","tei":"\n\t\n\t\tMotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tKlimentAVerba\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1038/nmeth.4193\n\t\t28250466\n\t\tPMC5494038\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c445367723bebd86669588"},"refKey":107},
{"_key":"60c445407723bebd866695bf","_id":"references/60c445407723bebd866695bf","_rev":"_cfFlUjS---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tCKnyaz\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMega X\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c445407723bebd866695be"},"refKey":8},
{"_key":"60c445407723bebd866695c0","_id":"references/60c445407723bebd866695c0","_rev":"_cfFlUja---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c445407723bebd866695be"},"refKey":9},
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{"_key":"60c4457d7723bebd866695f2","_id":"references/60c4457d7723bebd866695f2","_rev":"_cfFlUjy---","tei":"\n\t\n\t\t\n\t\t\tDPKingma\n\t\t\n\t\t\n\t\t\tJBa\n\t\t\n\t\t\n\t\t\tAdam\n\t\t\n\t\tarXiv:1412.6980\n\t\tA method for stochastic optimization\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c4457d7723bebd866695f1"},"refKey":37},
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{"_key":"60c445a77723bebd8666960b","_id":"references/60c445a77723bebd8666960b","_rev":"_cfFlUkG---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t102\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c445a77723bebd8666960a"},"refKey":44},
{"_key":"60c445a77723bebd8666960c","_id":"references/60c445a77723bebd8666960c","_rev":"_cfFlUkS---","tei":"\n\t\n\t\tPGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tCMLindgren\n\t\t\n\t\t\n\t\t\tKFEriksson\n\t\t\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tSSihag\n\t\t\n\t\t\n\t\t\tJLehar\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t34\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c445a77723bebd8666960a"},"refKey":45},
{"_key":"60c445a77723bebd8666960d","_id":"references/60c445a77723bebd8666960d","_rev":"_cfFlUke---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c445a77723bebd8666960a"},"refKey":43},
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{"_key":"60c445b37723bebd86669620","_id":"references/60c445b37723bebd86669620","_rev":"_cfFlUk2---","tei":"\n\t\n\t\tS3: syntaxand semantic-guided repair synthesis via programming by examples\n\t\t\n\t\t\tX.-BDLe\n\t\t\n\t\t\n\t\t\tD.-HChu\n\t\t\n\t\t\n\t\t\tDLo\n\t\t\n\t\t\n\t\t\tCLGoues\n\t\t\n\t\t\n\t\t\tWVisser\n\t\t\n\t\n\t\n\t\tESEC/SIGSOFT FSE\n\t\t\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c445b37723bebd8666961e"},"refKey":13},
{"_key":"60c445b37723bebd86669621","_id":"references/60c445b37723bebd86669621","_rev":"_cfFlUl----","tei":"\n\t\n\t\tSketchFix: a tool for automated program repair approach using lazy candidate generation\n\t\t\n\t\t\tJinruHua\n\t\t\n\t\t\n\t\t\tMengshiZhang\n\t\t\n\t\t\n\t\t\tKaiyuanWang\n\t\t\n\t\t\n\t\t\tSarfrazKhurshid\n\t\t\n\t\t10.1145/3236024.3264600\n\t\n\t\n\t\tProceedings of the 2018 26th ACM Joint Meeting on European Software Engineering Conference and Symposium on the Foundations of Software Engineering - ESEC/FSE 2018\n\t\t\t\tthe 2018 26th ACM Joint Meeting on European Software Engineering Conference and Symposium on the Foundations of Software Engineering - ESEC/FSE 2018\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c445b37723bebd8666961e"},"refKey":6},
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{"_key":"60c445b37723bebd86669623","_id":"references/60c445b37723bebd86669623","_rev":"_cfFlUlW---","tei":"\n\t\n\t\tReAssert: Suggesting Repairs for Broken Unit Tests\n\t\t\n\t\t\tBrettDaniel\n\t\t\n\t\t\n\t\t\tVilasJagannath\n\t\t\n\t\t\n\t\t\tDannyDig\n\t\t\n\t\t\n\t\t\tDarkoMarinov\n\t\t\n\t\t10.1109/ase.2009.17\n\t\t\n\t\n\t\n\t\t2009 IEEE/ACM International Conference on Automated Software Engineering\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c445b37723bebd8666961e"},"refKey":3},
{"_key":"60c445b37723bebd86669624","_id":"references/60c445b37723bebd86669624","_rev":"_cfFlUli---","tei":"\n\t\n\t\tSemfix: program repair via semantic analysis\n\t\t\n\t\t\tHD TNguyen\n\t\t\n\t\t\n\t\t\tDQi\n\t\t\n\t\t\n\t\t\tARoychoudhury\n\t\t\n\t\t\n\t\t\tSChandra\n\t\t\n\t\n\t\n\t\tICSE\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tIEEE Computer Society\n\t\t\n\t\n\n","document":{"$oid":"60c445b37723bebd8666961e"},"refKey":17},
{"_key":"60c445b37723bebd86669625","_id":"references/60c445b37723bebd86669625","_rev":"_cfFlUlu---","tei":"\n\t\n\t\tUPPAAL — a tool suite for automatic verification of real-time systems\n\t\t\n\t\t\tJohanBengtsson\n\t\t\n\t\t\n\t\t\tKimLarsen\n\t\t\n\t\t\n\t\t\tFredrikLarsson\n\t\t\n\t\t\n\t\t\tPaulPettersson\n\t\t\n\t\t\n\t\t\tWangYi\n\t\t\n\t\t10.1007/bfb0020949\n\t\tark:/67375/HCB-Q7TRT148-T\n\t\t775C42C5976C09344BEF1405175599253EE449E8\n\t\t\n\t\n\t\n\t\tHybrid Systems III\n\t\t\t\t\n\t\t\tRAlur\n\t\t\tTAHenzinger\n\t\t\tEDSontag\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t1066\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c445b37723bebd8666961e"},"refKey":1},
{"_key":"60c445b37723bebd86669626","_id":"references/60c445b37723bebd86669626","_rev":"_cfFlUl2---","tei":"\n\t\n\t\topaal: A Lattice Model Checker\n\t\t\n\t\t\tAndreasEngelbredtDalsgaard\n\t\t\n\t\t\n\t\t\tRenéRydhofHansen\n\t\t\n\t\t\n\t\t\tKennethYrkeJørgensen\n\t\t\n\t\t\n\t\t\tKimGulstrandLarsen\n\t\t\n\t\t\n\t\t\tMadsChr. Olesen\n\t\t\n\t\t\n\t\t\tPeturOlsen\n\t\t\n\t\t\n\t\t\tJiříSrba\n\t\t\n\t\t10.1007/978-3-642-20398-5_37\n\t\tark:/67375/HCB-FJJS9LLX-W\n\t\tAA9ED5220B85A6C417971CF3C77598F503F032C9\n\t\t\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tRJoshi\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t6617\n\t\t\t\n\t\t\n\t\n\tNFM 2011. LNCS\n\n","document":{"$oid":"60c445b37723bebd8666961e"},"refKey":4},
{"_key":"60c445d87723bebd86669662","_id":"references/60c445d87723bebd86669662","_rev":"_cfFlUmC---","tei":"\n\t\n\t\tPERMANOVA for PRIMER: guide to software and statistical methods\n\t\t\n\t\t\tMJAnderson\n\t\t\n\t\t\n\t\t\tRNGorley\n\t\t\n\t\t\n\t\t\tKRClarke\n\t\t\n\t\t\n\t\t\t\n\t\t\tPRIMER-E Ltd\n\t\t\tPlymouth\n\t\t\n\t\n\n","document":{"$oid":"60c445d87723bebd86669661"},"refKey":1},
{"_key":"60c445e97723bebd86669677","_id":"references/60c445e97723bebd86669677","_rev":"_cfFlUmO---","tei":"\n\t\n\t\tEnrichr: interactive and collaborative HTML5 gene list enrichment analysis tool\n\t\t\n\t\t\tEdwardYChen\n\t\t\n\t\t\n\t\t\tChristopherMTan\n\t\t\n\t\t\n\t\t\tYanKou\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tGabrielaMeirelles\n\t\t\n\t\t\n\t\t\tNeilRClark\n\t\t\n\t\t\n\t\t\tAviMa’ayan\n\t\t\n\t\t10.1186/1471-2105-14-128\n\t\t23586463\n\t\tPMC3637064\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t128\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c445e97723bebd86669676"},"refKey":9},
{"_key":"60c445e97723bebd86669678","_id":"references/60c445e97723bebd86669678","_rev":"_cfFlUma---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMaximVKuleshov\n\t\t\n\t\t\n\t\t\tMatthewRJones\n\t\t\n\t\t\n\t\t\tAndrewDRouillard\n\t\t\n\t\t\n\t\t\tNicolasFFernandez\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tSimonKoplev\n\t\t\n\t\t\n\t\t\tSherryLJenkins\n\t\t\n\t\t\n\t\t\tKathleenMJagodnik\n\t\t\n\t\t\n\t\t\tAlexanderLachmann\n\t\t\n\t\t\n\t\t\tMichaelGMcdermott\n\t\t\n\t\t\n\t\t\tCarolineDMonteiro\n\t\t\n\t\t\n\t\t\tGregoryWGundersen\n\t\t\n\t\t\n\t\t\tAviMa'ayan\n\t\t\n\t\t10.1093/nar/gkw377\n\t\t27141961\n\t\tPMC4987924\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c445e97723bebd86669676"},"refKey":26},
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{"_key":"60c4462a7723bebd86669698","_id":"references/60c4462a7723bebd86669698","_rev":"_cfFlUmu---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4462a7723bebd86669697"},"refKey":36},
{"_key":"60c4462a7723bebd86669699","_id":"references/60c4462a7723bebd86669699","_rev":"_cfFlUm6---","tei":"\n\t\n\t\tUCSF Chimera -A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4462a7723bebd86669697"},"refKey":33},
{"_key":"60c4465f7723bebd866696c2","_id":"references/60c4465f7723bebd866696c2","_rev":"_cfFlUnG---","tei":"\n\t\n\t\tPseAAC-Builder: A cross-platform stand-alone program for generating various special Chou’s pseudo-amino acid compositions\n\t\t\n\t\t\tPufengDu\n\t\t\n\t\t\n\t\t\tXinWang\n\t\t\n\t\t\n\t\t\tChaoXu\n\t\t\n\t\t\n\t\t\tYangGao\n\t\t\n\t\t10.1016/j.ab.2012.03.015\n\t\t22459120\n\t\n\t\n\t\tAnalytical Biochemistry\n\t\tAnalytical Biochemistry\n\t\t0003-2697\n\t\t\n\t\t\t425\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4465f7723bebd866696c1"},"refKey":64},
{"_key":"60c446947723bebd866696f1","_id":"references/60c446947723bebd866696f1","_rev":"_cfFlUnS---","tei":"\n\t\n\t\tMSAViewer: interactive JavaScript visualization of multiple sequence alignments\n\t\t\n\t\t\tGuyYachdav\n\t\t\n\t\t\n\t\t\tSebastianWilzbach\n\t\t\n\t\t\n\t\t\tBenediktRauscher\n\t\t\n\t\t\n\t\t\tRobertSheridan\n\t\t\n\t\t\n\t\t\tIanSillitoe\n\t\t\n\t\t\n\t\t\tJamesProcter\n\t\t\n\t\t\n\t\t\tSuzannaELewis\n\t\t\n\t\t\n\t\t\tBurkhardRost\n\t\t\n\t\t\n\t\t\tTatyanaGoldberg\n\t\t\n\t\t10.1093/bioinformatics/btw474\n\t\t27412096\n\t\tPMC5181560\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t22\n\t\t\tbtw474\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446947723bebd866696f0"},"refKey":56},
{"_key":"60c446947723bebd866696f2","_id":"references/60c446947723bebd866696f2","_rev":"_cfFlUna---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t10.1093/bioinformatics/btq461\n\t\t20709691\n\t\tark:/67375/HXZ-GJV3Q6N3-6\n\t\tE899EDEA476A0A93BC2365EEC6AA3B7EEEC99891\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446947723bebd866696f0"},"refKey":50},
{"_key":"60c446947723bebd866696f3","_id":"references/60c446947723bebd866696f3","_rev":"_cfFlUnm---","tei":"\n\t\n\t\tData Structures for Statistical Computing in Python\n\t\t\n\t\t\tWMckinney\n\t\t\n\t\n\t\n\t\tProceedings of the 9th Python in Science Conference\n\t\t\t\tthe 9th Python in Science Conference\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446947723bebd866696f0"},"refKey":54},
{"_key":"60c446947723bebd866696f4","_id":"references/60c446947723bebd866696f4","_rev":"_cfFlUny---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDmaM AMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btp033\n\t\t19151095\n\t\tPMC2672624\n\t\tark:/67375/HXZ-5L762ZQS-N\n\t\t984BAD740626CEADBD2E31F4094D8E18B07D49EA\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446947723bebd866696f0"},"refKey":52},
{"_key":"60c446a37723bebd86669716","_id":"references/60c446a37723bebd86669716","_rev":"_cfFlUo----","tei":"\n\t\n\t\tCanu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation\n\t\t\n\t\t\tSKoren\n\t\t\n\t\t\n\t\t\tBPWalenz\n\t\t\n\t\t\n\t\t\tKBerlin\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":49},
{"_key":"60c446a37723bebd86669717","_id":"references/60c446a37723bebd86669717","_rev":"_cfFlUoG---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tCCamacho\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tVAvagyan\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t10\n\t\t\t421\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":40},
{"_key":"60c446a37723bebd86669718","_id":"references/60c446a37723bebd86669718","_rev":"_cfFlUoS---","tei":"\n\t\n\t\tJava bioinformatics analysis web services for multiple sequence alignment--JABAWS:MSA\n\t\t\n\t\t\tPVTroshin\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btr304\n\t\t21593132\n\t\tPMC3129525\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":66},
{"_key":"60c446a37723bebd86669719","_id":"references/60c446a37723bebd86669719","_rev":"_cfFlUoe---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":58},
{"_key":"60c446a37723bebd8666971a","_id":"references/60c446a37723bebd8666971a","_rev":"_cfFlUoq---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBBuchfink\n\t\t\n\t\t\n\t\t\tCXie\n\t\t\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":39},
{"_key":"60c446a37723bebd8666971b","_id":"references/60c446a37723bebd8666971b","_rev":"_cfFlUoy---","tei":"\n\t\n\t\tMinimap and miniasm: fast mapping and de novo assembly for noisy long sequences\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":50},
{"_key":"60c446a37723bebd8666971c","_id":"references/60c446a37723bebd8666971c","_rev":"_cfFlUp----","tei":"\n\t\n\t\tMinimap2: pairwise alignment for nucleotide sequences\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":46},
{"_key":"60c446a37723bebd8666971d","_id":"references/60c446a37723bebd8666971d","_rev":"_cfFlUpK---","tei":"\n\t\n\t\tQUAST: quality assessment tool for genome assemblies\n\t\t\n\t\t\tAGurevich\n\t\t\n\t\t\n\t\t\tVSaveliev\n\t\t\n\t\t\n\t\t\tNVyahhi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":44},
{"_key":"60c446a37723bebd8666971e","_id":"references/60c446a37723bebd8666971e","_rev":"_cfFlUpW---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":57},
{"_key":"60c446a37723bebd8666971f","_id":"references/60c446a37723bebd8666971f","_rev":"_cfFlUpi---","tei":"\n\t\n\t\tNanoPack: visualizing and processing long read sequencing data\n\t\t\n\t\t\tWouterDe Coster\n\t\t\t0000-0002-5248-8197\n\t\t\n\t\t\n\t\t\tSvennD’hert\n\t\t\n\t\t\n\t\t\tDarrinTSchultz\n\t\t\t0000-0003-1190-1122\n\t\t\n\t\t\n\t\t\tMarcCruts\n\t\t\t0000-0002-1338-992X\n\t\t\n\t\t\n\t\t\tChristineVan Broeckhoven\n\t\t\t0000-0003-0183-7665\n\t\t\n\t\t10.1101/237180\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":45},
{"_key":"60c446a37723bebd86669720","_id":"references/60c446a37723bebd86669720","_rev":"_cfFlUpu---","tei":"\n\t\n\t\tAccurate detection of complex structural variations using single molecule sequencing\n\t\t\n\t\t\tFritzJSedlazeck\n\t\t\t0000-0001-6040-2691\n\t\t\n\t\t\n\t\t\tPhilippRescheneder\n\t\t\n\t\t\n\t\t\tMoritzSmolka\n\t\t\n\t\t\n\t\t\tHanFang\n\t\t\n\t\t\n\t\t\tMariaNattestad\n\t\t\n\t\t\n\t\t\tArndtVonHaeseler\n\t\t\n\t\t\n\t\t\tMichaelCSchatz\n\t\t\n\t\t10.1101/169557\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":47},
{"_key":"60c446a37723bebd86669721","_id":"references/60c446a37723bebd86669721","_rev":"_cfFlUp2---","tei":"\n\t\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\t\n\t\t\tPhylip\n\t\t\n\t\t\n\t\tversion 3.5c. March\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tphylogeny inference package\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":113},
{"_key":"60c446a37723bebd86669722","_id":"references/60c446a37723bebd86669722","_rev":"_cfFlUqC---","tei":"\n\t\n\t\tT-Coffee: a novel method for fast and accurate multiple sequence alignment\n\t\t\n\t\t\tCNotredame\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJHeringa\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t302\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":59},
{"_key":"60c446a37723bebd86669723","_id":"references/60c446a37723bebd86669723","_rev":"_cfFlUqO---","tei":"\n\t\n\t\tImproved data analysis for the MinION nanopore sequencer\n\t\t\n\t\t\tMJain\n\t\t\n\t\t\n\t\t\tITFiddes\n\t\t\n\t\t\n\t\t\tKHMiga\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":48},
{"_key":"60c446a37723bebd86669724","_id":"references/60c446a37723bebd86669724","_rev":"_cfFlUqa---","tei":"\n\t\n\t\tFast gapped-read alignment with bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":27},
{"_key":"60c446a37723bebd86669725","_id":"references/60c446a37723bebd86669725","_rev":"_cfFlUqi---","tei":"\n\t\n\t\twebPRANK: a phylogeny-aware multiple sequence aligner with interactive alignment browser\n\t\t\n\t\t\tAriLöytynoja\n\t\t\n\t\t\n\t\t\tNickGoldman\n\t\t\n\t\t10.1186/1471-2105-11-579\n\t\t21110866\n\t\tPMC3009689\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t579\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":68},
{"_key":"60c446a37723bebd86669726","_id":"references/60c446a37723bebd86669726","_rev":"_cfFlUqu---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":105},
{"_key":"60c446a37723bebd86669727","_id":"references/60c446a37723bebd86669727","_rev":"_cfFlUq6---","tei":"\n\t\n\t\tSortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data\n\t\t\n\t\t\tEKopylova\n\t\t\n\t\t\n\t\t\tLNoe\n\t\t\n\t\t\n\t\t\tHTouzet\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":29},
{"_key":"60c446a37723bebd86669728","_id":"references/60c446a37723bebd86669728","_rev":"_cfFlUrG---","tei":"\n\t\n\t\tPhyloSuite: an integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies\n\t\t\n\t\t\tDZhang\n\t\t\n\t\t\n\t\t\tFGao\n\t\t\n\t\t\n\t\t\tIJakovlic\n\t\t\n\t\n\t\n\t\tMol Ecol Resour\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":94},
{"_key":"60c446a37723bebd86669729","_id":"references/60c446a37723bebd86669729","_rev":"_cfFlUrO---","tei":"\n\t\n\t\tInferring evolutionary trees with PAUP *\n\t\t\n\t\t\tJCWilgenbusch\n\t\t\n\t\t\n\t\t\tDSwofford\n\t\t\n\t\n\t\n\t\tCurr Protoc Bioinformatics\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":92},
{"_key":"60c446a37723bebd8666972a","_id":"references/60c446a37723bebd8666972a","_rev":"_cfFlUra---","tei":"\n\t\n\t\tAfterQC: automatic filtering, trimming, error removing and quality control for fastq data\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tTanxiaoHuang\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYueHan\n\t\t\n\t\t\n\t\t\tMingyanXu\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1186/s12859-017-1469-3\n\t\t28361673\n\t\tPMC5374548\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t18\n\t\t\tS3\n\t\t\t80\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":22},
{"_key":"60c446a37723bebd8666972b","_id":"references/60c446a37723bebd8666972b","_rev":"_cfFlUrm---","tei":"\n\t\n\t\tVirus Variation Resource – improved response to emergent viral outbreaks\n\t\t\n\t\t\tEneidaLHatcher\n\t\t\n\t\t\n\t\t\tSergeyAZhdanov\n\t\t\n\t\t\n\t\t\tYimingBao\n\t\t\n\t\t\n\t\t\tOlgaBlinkova\n\t\t\n\t\t\n\t\t\tEricPNawrocki\n\t\t\n\t\t\n\t\t\tYuriOstapchuck\n\t\t\n\t\t\n\t\t\tAlejandroASchäffer\n\t\t\n\t\t\n\t\t\tJRodneyBrister\n\t\t\n\t\t10.1093/nar/gkw1065\n\t\t27899678\n\t\tPMC5210549\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":52},
{"_key":"60c446a37723bebd8666972c","_id":"references/60c446a37723bebd8666972c","_rev":"_cfFlUry---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":43},
{"_key":"60c446a37723bebd8666972d","_id":"references/60c446a37723bebd8666972d","_rev":"_cfFlUs----","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":93},
{"_key":"60c446a37723bebd8666972e","_id":"references/60c446a37723bebd8666972e","_rev":"_cfFlUsK---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1101/274100\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":23},
{"_key":"60c446a37723bebd8666972f","_id":"references/60c446a37723bebd8666972f","_rev":"_cfFlUsS---","tei":"\n\t\n\t\tGenomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding\n\t\t\n\t\t\tRLu\n\t\t\n\t\t\n\t\t\tXZhao\n\t\t\n\t\t\n\t\t\tJLi\n\t\t\n\t\n\t\n\t\tLancet\n\t\t\n\t\t\t395\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":1},
{"_key":"60c446a37723bebd86669730","_id":"references/60c446a37723bebd86669730","_rev":"_cfFlUse---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tVonHaeseler\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":87},
{"_key":"60c446a37723bebd86669731","_id":"references/60c446a37723bebd86669731","_rev":"_cfFlUsq---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":86},
{"_key":"60c446a37723bebd86669732","_id":"references/60c446a37723bebd86669732","_rev":"_cfFlUs2---","tei":"\n\t\n\t\tJalview version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":70},
{"_key":"60c446a37723bebd86669733","_id":"references/60c446a37723bebd86669733","_rev":"_cfFlUtC---","tei":"\n\t\n\t\tMSAViewer: interactive JavaScript visualization of multiple sequence alignments\n\t\t\n\t\t\tGuyYachdav\n\t\t\n\t\t\n\t\t\tSebastianWilzbach\n\t\t\n\t\t\n\t\t\tBenediktRauscher\n\t\t\n\t\t\n\t\t\tRobertSheridan\n\t\t\n\t\t\n\t\t\tIanSillitoe\n\t\t\n\t\t\n\t\t\tJamesProcter\n\t\t\n\t\t\n\t\t\tSuzannaELewis\n\t\t\n\t\t\n\t\t\tBurkhardRost\n\t\t\n\t\t\n\t\t\tTatyanaGoldberg\n\t\t\n\t\t10.1093/bioinformatics/btw474\n\t\t27412096\n\t\tPMC5181560\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\tbtw474\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":71},
{"_key":"60c446a37723bebd86669734","_id":"references/60c446a37723bebd86669734","_rev":"_cfFlUtK---","tei":"\n\t\n\t\tBIONJ: an improved version of the NJ algorithm based on a simple model of sequence data\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\t10.1093/oxfordjournals.molbev.a025808\n\t\t9254330\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t14\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":84},
{"_key":"60c446a37723bebd86669735","_id":"references/60c446a37723bebd86669735","_rev":"_cfFlUtW---","tei":"\n\t\n\t\tAliView: a fast and lightweight alignment viewer and editor for large datasets\n\t\t\n\t\t\tALarsson\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":72},
{"_key":"60c446a37723bebd86669736","_id":"references/60c446a37723bebd86669736","_rev":"_cfFlUti---","tei":"\n\t\n\t\tPyMod 2.0: improvements in protein sequence-structure analysis and homology modeling within PyMOL\n\t\t\n\t\t\tGiacomoJanson\n\t\t\n\t\t\n\t\t\tChengxinZhang\n\t\t\n\t\t\n\t\t\tMariaGiuliaPrado\n\t\t\n\t\t\n\t\t\tAlessandroPaiardini\n\t\t\n\t\t10.1093/bioinformatics/btw638\n\t\t28158668\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\tbtw638\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":118},
{"_key":"60c446a37723bebd86669737","_id":"references/60c446a37723bebd86669737","_rev":"_cfFlUtu---","tei":"\n\t\n\t\tPHYML online-a web server for fast maximum likelihood-based phylogenetic inference\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tFLethiec\n\t\t\n\t\t\n\t\t\tPDuroux\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":85},
{"_key":"60c446a37723bebd86669738","_id":"references/60c446a37723bebd86669738","_rev":"_cfFlUt2---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":73},
{"_key":"60c446a37723bebd86669739","_id":"references/60c446a37723bebd86669739","_rev":"_cfFlUuC---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tSMezulis\n\t\t\n\t\t\n\t\t\tCMYates\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":42},
{"_key":"60c446a37723bebd8666973a","_id":"references/60c446a37723bebd8666973a","_rev":"_cfFlUuO---","tei":"\n\t\n\t\tjModelTest: phylogenetic model averaging\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":78},
{"_key":"60c446a37723bebd8666973b","_id":"references/60c446a37723bebd8666973b","_rev":"_cfFlUua---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":56},
{"_key":"60c446a37723bebd8666973c","_id":"references/60c446a37723bebd8666973c","_rev":"_cfFlUum---","tei":"\n\t\n\t\tProtTest: selection of best-fit models of protein evolution\n\t\t\n\t\t\tFAbascal\n\t\t\n\t\t\n\t\t\tRZardoya\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bti263\n\t\t15647292\n\t\tark:/67375/HXZ-D6WW2837-4\n\t\t14C86F5F104B729355097F145DAB071E95F816FF\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":79},
{"_key":"60c446a37723bebd8666973d","_id":"references/60c446a37723bebd8666973d","_rev":"_cfFlUuu---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":103},
{"_key":"60c446a37723bebd8666973e","_id":"references/60c446a37723bebd8666973e","_rev":"_cfFlUu6---","tei":"\n\t\n\t\tWhole genome and phylogenetic analysis of two SARS-CoV-2 strains isolated in Italy in\n\t\t\n\t\t\tPStefanelli\n\t\t\n\t\t\n\t\t\tGFaggioni\n\t\t\n\t\t\n\t\t\tLoPresti\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\n\t\n\t\tEuro Surveill\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t2000305\n\t\t\t\n\t\t\n\t\n\t: additional clues on multiple introductions and further circulation in Europe\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":104},
{"_key":"60c446a37723bebd8666973f","_id":"references/60c446a37723bebd8666973f","_rev":"_cfFlUvG---","tei":"\n\t\n\t\tPhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating\n\t\t\n\t\t\tNLartillot\n\t\t\n\t\t\n\t\t\tTLepage\n\t\t\n\t\t\n\t\t\tSBlanquart\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":89},
{"_key":"60c446a37723bebd86669740","_id":"references/60c446a37723bebd86669740","_rev":"_cfFlUvS---","tei":"\n\t\n\t\tFull-length transcriptome assembly from RNA-Seq data without a reference genome\n\t\t\n\t\t\tMGGrabherr\n\t\t\n\t\t\n\t\t\tBJHaas\n\t\t\n\t\t\n\t\t\tMYassour\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":31},
{"_key":"60c446a37723bebd86669741","_id":"references/60c446a37723bebd86669741","_rev":"_cfFlUva---","tei":"\n\t\n\t\tMEGAHIT v1.0: a fast and scalable metagenome assembler driven by advanced methodologies and community practices\n\t\t\n\t\t\tDLi\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tCMLiu\n\t\t\n\t\n\t\n\t\tMethods\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":32},
{"_key":"60c446a37723bebd86669742","_id":"references/60c446a37723bebd86669742","_rev":"_cfFlUvm---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to singlecell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":33},
{"_key":"60c446a37723bebd86669743","_id":"references/60c446a37723bebd86669743","_rev":"_cfFlUvy---","tei":"\n\t\n\t\tDe novo assembly and analysis of RNA-seq data\n\t\t\n\t\t\tGRobertson\n\t\t\n\t\t\n\t\t\tJSchein\n\t\t\n\t\t\n\t\t\tRChiu\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":34},
{"_key":"60c446a37723bebd86669744","_id":"references/60c446a37723bebd86669744","_rev":"_cfFlUw----","tei":"\n\t\n\t\tProbCons: Probabilistic consistency-based multiple sequence alignment\n\t\t\n\t\t\tCBDo\n\t\t\n\t\t\n\t\t\tMSMahabhashyam\n\t\t\n\t\t\n\t\t\tMBrudno\n\t\t\n\t\t10.1101/gr.2821705\n\t\t15687296\n\t\tPMC546535\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t15\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":60},
{"_key":"60c446a37723bebd86669745","_id":"references/60c446a37723bebd86669745","_rev":"_cfFlUwK---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":19},
{"_key":"60c446a37723bebd86669746","_id":"references/60c446a37723bebd86669746","_rev":"_cfFlUwa---","tei":"\n\t\n\t\tGraph-based genome alignment and genotyping with HISAT2 and HISAT-genotype\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tJMPaggi\n\t\t\n\t\t\n\t\t\tCPark\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":24},
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{"_key":"60c446a37723bebd8666974c","_id":"references/60c446a37723bebd8666974c","_rev":"_cfFlUxe---","tei":"\n\t\n\t\tPhylogeny-aware alignment with PRANK\n\t\t\n\t\t\tALoytynoja\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t1079\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":63},
{"_key":"60c446a37723bebd8666974d","_id":"references/60c446a37723bebd8666974d","_rev":"_cfFlUxq---","tei":"\n\t\n\t\tBAli-Phy: simultaneous Bayesian inference of alignment and phylogeny\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tBDRedelings\n\t\t\n\t\t10.1093/bioinformatics/btl175\n\t\t16679334\n\t\tark:/67375/HXZ-VP29SFXN-8\n\t\t3C51F543D08B14ADB526CB42C43B1ED0BF38CC5C\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":64},
{"_key":"60c446a37723bebd8666974e","_id":"references/60c446a37723bebd8666974e","_rev":"_cfFlUx2---","tei":"\n\t\n\t\tStatAlign: an extendable software package for joint Bayesian estimation of alignments and evolutionary trees\n\t\t\n\t\t\tÁdámNovák\n\t\t\n\t\t\n\t\t\tIstvánMiklós\n\t\t\n\t\t\n\t\t\tRuneLyngsø\n\t\t\n\t\t\n\t\t\tJotunHein\n\t\t\n\t\t10.1093/bioinformatics/btn457\n\t\t18753153\n\t\tark:/67375/HXZ-1D5ZFN1B-J\n\t\t3297BCF3A2A560B9A16EF8588726640BDD607F55\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c446a37723bebd86669715"},"refKey":65},
{"_key":"60c446ba7723bebd866697b6","_id":"references/60c446ba7723bebd866697b6","_rev":"_cfFlUyC---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446ba7723bebd866697b5"},"refKey":28},
{"_key":"60c446ba7723bebd866697b7","_id":"references/60c446ba7723bebd866697b7","_rev":"_cfFlUyO---","tei":"\n\t\n\t\tTreeView: an application to display phylogenetic trees on personal computers\n\t\t\n\t\t\tRDPage\n\t\t\n\t\n\t\n\t\tComput Appl Biosci\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446ba7723bebd866697b5"},"refKey":29},
{"_key":"60c446c27723bebd866697bb","_id":"references/60c446c27723bebd866697bb","_rev":"_cfFlUyW---","tei":"\n\t\n\t\tOrdered quantile normalization: a semiparametric transformation built for the cross-validation era\n\t\t\n\t\t\tRyanAPeterson\n\t\t\t0000-0002-4650-5798\n\t\t\n\t\t\n\t\t\tJosephECavanaugh\n\t\t\t0000-0002-0514-7664\n\t\t\n\t\t10.1080/02664763.2019.1630372\n\t\n\t\n\t\tJournal of Applied Statistics\n\t\tJournal of Applied Statistics\n\t\t0266-4763\n\t\t1360-0532\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c446c27723bebd866697ba"},"refKey":58},
{"_key":"60c446d77723bebd866697c7","_id":"references/60c446d77723bebd866697c7","_rev":"_cfFlUyi---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c446d77723bebd866697c6"},"refKey":221},
{"_key":"60c446d77723bebd866697c8","_id":"references/60c446d77723bebd866697c8","_rev":"_cfFlUyu---","tei":"\n\t\n\t\tLessons Learned in Empirical Scoring with smina from the CSAR 2011 Benchmarking Exercise\n\t\t\n\t\t\tDavidRyanKoes\n\t\t\n\t\t\n\t\t\tMatthewPBaumgartner\n\t\t\n\t\t\n\t\t\tCarlosJCamacho\n\t\t\n\t\t10.1021/ci300604z\n\t\t23379370\n\t\tPMC3726561\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t53\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c446d77723bebd866697c6"},"refKey":121},
{"_key":"60c446d77723bebd866697c9","_id":"references/60c446d77723bebd866697c9","_rev":"_cfFlUy6---","tei":"\n\t\n\t\tProtein-ligand scoring with convolutional neural networks\n\t\t\n\t\t\tMRagoza\n\t\t\n\t\t\n\t\t\tJHochuli\n\t\t\n\t\t\n\t\t\tEIdrobo\n\t\t\n\t\t\n\t\t\tJSunseri\n\t\t\n\t\t\n\t\t\tDRKoes\n\t\t\n\t\t10.1021/acs.jcim.6b00740.PMID:28368587\n\t\t28368587\n\t\t\n\t\n\t\n\t\tJ. Chem. Inf. Model\n\t\t\n\t\t\t57\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c446d77723bebd866697c6"},"refKey":185},
{"_key":"60c447087723bebd8666981d","_id":"references/60c447087723bebd8666981d","_rev":"_cfFlUzG---","tei":"\n\t\n\t\tQuantTB – A method to classify mixed Mycobacterium tuberculosis infections within whole genome sequencing data\n\t\t\n\t\t\tChristineAnyansi\n\t\t\n\t\t\n\t\t\tArlinKeo\n\t\t\n\t\t\n\t\t\tBruceWalker\n\t\t\n\t\t\n\t\t\tTimothyJStraub\n\t\t\n\t\t\n\t\t\tAbigailLManson\n\t\t\n\t\t\n\t\t\tAshleeMEarl\n\t\t\n\t\t\n\t\t\tThomasAbeel\n\t\t\t0000-0002-7205-7431\n\t\t\n\t\t10.1101/676296\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t21\n\t\t\t80\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c447087723bebd8666981c"},"refKey":12},
{"_key":"60c447497723bebd8666984e","_id":"references/60c447497723bebd8666984e","_rev":"_cfFlUzO---","tei":"\n\t\n\t\t\n\t\t\tPBojanowski\n\t\t\n\t\t\n\t\t\tEGrave\n\t\t\n\t\t\n\t\t\tAJoulin\n\t\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\tarXiv:1607.04606\n\t\tEnriching word vectors with subword information\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c447497723bebd8666984d"},"refKey":18},
{"_key":"60c447497723bebd8666984f","_id":"references/60c447497723bebd8666984f","_rev":"_cfFlUza---","tei":"\n\t\n\t\tClassification and Regression Trees\n\t\t\n\t\t\tLBreiman\n\t\t\n\t\n\t\n\t\tRoutledge\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c447497723bebd8666984d"},"refKey":24},
{"_key":"60c4477b7723bebd86669890","_id":"references/60c4477b7723bebd86669890","_rev":"_cfFlUzm---","tei":"\n\t\n\t\t\n\t\t\tHWickham\n\t\t\n\t\tElegant Graphics for Data Analysis\n\t\t\t\tNew York\n\t\t\n\t\t\tSpringer-Verlag\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4477b7723bebd8666988f"},"refKey":62},
{"_key":"60c447cc7723bebd866698c4","_id":"references/60c447cc7723bebd866698c4","_rev":"_cfFlUzy---","tei":"\n\t\n\t\tFastQC -A quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tBabraham Bioinforma\n\t\t\n\t\n\n","document":{"$oid":"60c447cc7723bebd866698c3"},"refKey":45},
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{"_key":"60c4483b7723bebd866698fb","_id":"references/60c4483b7723bebd866698fb","_rev":"_cfFlU0G---","tei":"\n\t\n\t\tMEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t10.1093/molbev/msr121\n\t\t21546353\n\t\tPMC3203626\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t28\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4483b7723bebd866698fa"},"refKey":10},
{"_key":"60c448467723bebd86669902","_id":"references/60c448467723bebd86669902","_rev":"_cfFlU0S---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c448467723bebd86669901"},"refKey":87},
{"_key":"60c448467723bebd86669903","_id":"references/60c448467723bebd86669903","_rev":"_cfFlU0e---","tei":"\n\t\n\t\tThe MPI bioinformatics Toolkit as an integrative platform for advanced protein sequence and structure analysis\n\t\t\n\t\t\tVikramAlva\n\t\t\n\t\t\n\t\t\tSeung-ZinNam\n\t\t\n\t\t\n\t\t\tJohannesSöding\n\t\t\n\t\t\n\t\t\tAndreiNLupas\n\t\t\n\t\t10.1093/nar/gkw348\n\t\t27131380\n\t\tPMC4987908\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c448467723bebd86669901"},"refKey":61},
{"_key":"60c448467723bebd86669904","_id":"references/60c448467723bebd86669904","_rev":"_cfFlU0q---","tei":"\n\t\n\t\tComparative Protein Modelling by Satisfaction of Spatial Restraints\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t10.1006/jmbi.1993.1626\n\t\t8254673\n\t\tS0022-2836(83)71626-8\n\t\tark:/67375/6H6-V8LLTQS6-L\n\t\t2C8C000B43453FC88FD8A84DE0D8EF341E168A46\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t234\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c448467723bebd86669901"},"refKey":63},
{"_key":"60c448467723bebd86669905","_id":"references/60c448467723bebd86669905","_rev":"_cfFlU02---","tei":"\n\t\n\t\tEvaluation of comparative protein modeling by MODELLER\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t\n\t\t\tLizPotterton\n\t\t\n\t\t\n\t\t\tFengYuan\n\t\t\n\t\t\n\t\t\tHermanVan Vlijmen\n\t\t\n\t\t\n\t\t\tMartinKarplus\n\t\t\n\t\t10.1002/prot.340230306\n\t\t8710825\n\t\tark:/67375/WNG-7LDN8FMT-D\n\t\t24C464764B519EB3E843FC27A97D13B0BFFA8788\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t23\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c448467723bebd86669901"},"refKey":64},
{"_key":"60c448497723bebd8666992c","_id":"references/60c448497723bebd8666992c","_rev":"_cfFlU1----","tei":"\n\t\n\t\tHidden Markov model applications in QuB: analysis of nanometer steps in single molecule fluorescence data and ensemble ion channel kinetics\n\t\t\n\t\t\tLSMilescu\n\t\t\n\t\t\n\t\t\tCNicolai\n\t\t\n\t\t\n\t\t\tAYildiz\n\t\t\n\t\t\n\t\t\tPRSelvin\n\t\t\n\t\t\n\t\t\tFSachs\n\t\t\n\t\n\t\n\t\tBiophys J\n\t\t\n\t\t\t84\n\t\t\t2\n\t\t\t124\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c448497723bebd8666992b"},"refKey":20},
{"_key":"60c448527723bebd86669933","_id":"references/60c448527723bebd86669933","_rev":"_cfFlU1K---","tei":"\n\t\n\t\tTandem repeats lead to sequence assembly errors and impose multi-level challenges for genome and protein databases\n\t\t\n\t\t\tOKTørresen\n\t\t\n\t\t\n\t\t\tBStar\n\t\t\n\t\t\n\t\t\tPMier\n\t\t\n\t\t\n\t\t\tMAAndrade-Navarro\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tPJarnot\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c448527723bebd86669932"},"refKey":30},
{"_key":"60c448527723bebd86669934","_id":"references/60c448527723bebd86669934","_rev":"_cfFlU1W---","tei":"\n\t\n\t\tQuantitative Conformational Analysis of Functionally Important Electrostatic Interactions in the Intrinsically Disordered Region of Delta Subunit of Bacterial RNA Polymerase\n\t\t\n\t\t\tVKubáň\n\t\t\n\t\t\n\t\t\tPSrb\n\t\t\n\t\t\n\t\t\tHŠtégnerová\n\t\t\n\t\t\n\t\t\tPPadrta\n\t\t\n\t\t\n\t\t\tMZachrdla\n\t\t\n\t\t\n\t\t\tZJaseňáková\n\t\t\n\t\n\t\n\t\tJ Am Chem Soc\n\t\t\n\t\t\t141\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c448527723bebd86669932"},"refKey":31},
{"_key":"60c448527723bebd86669935","_id":"references/60c448527723bebd86669935","_rev":"_cfFlU1i---","tei":"\n\t\n\t\tMotifLCR: motif-based method for clustering low complexity regions (master thesis)\n\t\t\n\t\t\tJZiemska-Legiecka\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tcited 4 May 2020\n\n","document":{"$oid":"60c448527723bebd86669932"},"refKey":32},
{"_key":"60c448527723bebd86669936","_id":"references/60c448527723bebd86669936","_rev":"_cfFlU1u---","tei":"\n\t\n\t\tPlaToLoCo: the first web meta-server for visualization and annotation of low complexity regions in proteins\n\t\t\n\t\t\tPJarnot\n\t\t\n\t\t\n\t\t\tJZiemska-Legiecka\n\t\t\n\t\t\n\t\t\tLDobson\n\t\t\n\t\t\n\t\t\tMMerski\n\t\t\n\t\t\n\t\t\tPMier\n\t\t\n\t\t\n\t\t\tMAAndrade-Navarro\n\t\t\n\t\t10.1093/nar/gkaa339\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c448527723bebd86669932"},"refKey":33},
{"_key":"60c448527723bebd86669937","_id":"references/60c448527723bebd86669937","_rev":"_cfFlU16---","tei":"\n\t\n\t\tLCR-BLAST—A New Modification of BLAST to Search for Similar Low Complexity Regions in Protein Sequences\n\t\t\n\t\t\tPatrykJarnot\n\t\t\n\t\t\n\t\t\tJoannaZiemska-Legięcka\n\t\t\n\t\t\n\t\t\tMarcinGrynberg\n\t\t\n\t\t\n\t\t\tAleksandraGruca\n\t\t\n\t\t10.1007/978-3-030-31964-9_16\n\t\n\t\n\t\tAdvances in Intelligent Systems and Computing\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c448527723bebd86669932"},"refKey":34},
{"_key":"60c448837723bebd86669970","_id":"references/60c448837723bebd86669970","_rev":"_cfFlU2G---","tei":"\n\t\n\t\tFSTAT, a program to estimate and test gene diversities and fixation indices (version 2.9.3). Available at\n\t\t\n\t\t\tJGoudet\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c448837723bebd8666996f"},"refKey":15},
{"_key":"60c448837723bebd86669971","_id":"references/60c448837723bebd86669971","_rev":"_cfFlU2S---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/ NT\n\t\t\n\t\t\tTEHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c448837723bebd8666996f"},"refKey":17},
{"_key":"60c448837723bebd86669972","_id":"references/60c448837723bebd86669972","_rev":"_cfFlU2e---","tei":"\n\t\n\t\tThe Meandering Phenomenon in the Pathogenesis of Varices\n\t\t\n\t\t\tGöranNylander\n\t\t\n\t\t\n\t\t\tGöranNylander\n\t\t\n\t\t10.1177/000331976902001005\n\t\t5347948\n\t\tark:/67375/M70-Z85PJ963-H\n\t\t6EC9D23FD6010D95F6DB0492C57CDB95378DFB26\n\t\t\n\t\n\t\n\t\tAngiology\n\t\tAngiology\n\t\t0003-3197\n\t\t1940-1574\n\t\t\n\t\t\t20\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\tMrModeltest2. Available at\n\n","document":{"$oid":"60c448837723bebd8666996f"},"refKey":34},
{"_key":"60c448837723bebd86669973","_id":"references/60c448837723bebd86669973","_rev":"_cfFlU2m---","tei":"\n\t\n\t\tMEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tBrief. Bioinform\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c448837723bebd8666996f"},"refKey":23},
{"_key":"60c448837723bebd86669974","_id":"references/60c448837723bebd86669974","_rev":"_cfFlU2y---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tTracer v1.3. Available at\n\n","document":{"$oid":"60c448837723bebd8666996f"},"refKey":43},
{"_key":"60c448a07723bebd86669997","_id":"references/60c448a07723bebd86669997","_rev":"_cfFlU3----","tei":"\n\t\n\t\tElectrostatics of nanosystems: application to microtubules and the ribosome\n\t\t\n\t\t\tNABaker\n\t\t\n\t\t\n\t\t\tDSept\n\t\t\n\t\t\n\t\t\tSJoseph\n\t\t\n\t\t\n\t\t\tMJHolst\n\t\t\n\t\t\n\t\t\tJAMccammon\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t98\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c448a07723bebd86669996"},"refKey":55},
{"_key":"60c448a07723bebd86669998","_id":"references/60c448a07723bebd86669998","_rev":"_cfFlU3K---","tei":"\n\t\n\t\tProtein Structure Modeling with MODELLER\n\t\t\n\t\t\tNarayananEswar\n\t\t\n\t\t\n\t\t\tDavidEramian\n\t\t\n\t\t\n\t\t\tBenWebb\n\t\t\n\t\t\n\t\t\tMin-YiShen\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1007/978-1-60327-058-8_8\n\t\t18542861\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tUnit 5.6\n\n","document":{"$oid":"60c448a07723bebd86669996"},"refKey":53},
{"_key":"60c448d17723bebd866699c7","_id":"references/60c448d17723bebd866699c7","_rev":"_cfFlU3W---","tei":"\n\t\n\t\tPytorch: An imperative style, high-performance deep learning library\n\t\t\n\t\t\tAPaszke\n\t\t\n\t\t\n\t\t\tSGross\n\t\t\n\t\t\n\t\t\tFMassa\n\t\t\n\t\t\n\t\t\tALerer\n\t\t\n\t\t\n\t\t\tJBradbury\n\t\t\n\t\t\n\t\t\tGChanan\n\t\t\n\t\t\n\t\t\tTKilleen\n\t\t\n\t\t\n\t\t\tZLin\n\t\t\n\t\t\n\t\t\tNGimelshein\n\t\t\n\t\t\n\t\t\tLAntiga\n\t\t\n\t\n\t\n\t\tAdvances in Neural Information Processing Systems\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c448d17723bebd866699c6"},"refKey":34},
{"_key":"60c448d17723bebd866699c8","_id":"references/60c448d17723bebd866699c8","_rev":"_cfFlU3i---","tei":"\n\t\n\t\t\n\t\t\tRRSelvaraju\n\t\t\n\t\t\n\t\t\tMCogswell\n\t\t\n\t\t\n\t\t\tADas\n\t\t\n\t\t\n\t\t\tRVedantam\n\t\t\n\t\t\n\t\t\tDParikh\n\t\t\n\t\t\n\t\t\tDBatra\n\t\t\n\t\t\n\t\t\t-CamGrad\n\t\t\n\t\tVisual explanations from deep networks via gradient-based localization\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tProceedings of the IEEE International Conference on Computer Vision\n\n","document":{"$oid":"60c448d17723bebd866699c6"},"refKey":38},
{"_key":"60c448d77723bebd866699d7","_id":"references/60c448d77723bebd866699d7","_rev":"_cfFlU3u---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMJFrisch\n\t\t\n\t\t\n\t\t\tGWTrucks\n\t\t\n\t\t\n\t\t\tHBSchlegel\n\t\t\n\t\t\n\t\t\tGEScuseria\n\t\t\n\t\t\n\t\t\tMARobb\n\t\t\n\t\t\n\t\t\tJRCheeseman\n\t\t\n\t\t\n\t\t\tGScalmani\n\t\t\n\t\t\n\t\t\tVBarone\n\t\t\n\t\t\n\t\t\tBMennucci\n\t\t\n\t\t\n\t\t\tGAPetersson\n\t\t\n\t\t\n\t\t\tHNakatsuji\n\t\t\n\t\t\n\t\t\tMCaricato\n\t\t\n\t\t\n\t\t\tXLi\n\t\t\n\t\t\n\t\t\tHPHratchian\n\t\t\n\t\t\n\t\t\tAFIzmaylov\n\t\t\n\t\t\n\t\t\tJBloino\n\t\t\n\t\t\n\t\t\tGZheng\n\t\t\n\t\t\n\t\t\tJLSonnenberg\n\t\t\n\t\t\n\t\t\tMHada\n\t\t\n\t\t\n\t\t\tMEhara\n\t\t\n\t\t\n\t\t\tKToyota\n\t\t\n\t\t\n\t\t\tRFukuda\n\t\t\n\t\t\n\t\t\tJHasegawa\n\t\t\n\t\t\n\t\t\tMIshida\n\t\t\n\t\t\n\t\t\tTNakajima\n\t\t\n\t\t\n\t\t\tYHonda\n\t\t\n\t\t\n\t\t\tOKitao\n\t\t\n\t\t\n\t\t\tHNakai\n\t\t\n\t\t\n\t\t\tTVreven\n\t\t\n\t\t\n\t\t\tMontgomeryJrJa\n\t\t\n\t\t\n\t\t\tJEPeralta\n\t\t\n\t\t\n\t\t\tFOgliaro\n\t\t\n\t\t\n\t\t\tMBearpark\n\t\t\n\t\t\n\t\t\tJJHeyd\n\t\t\n\t\t\n\t\t\tEBrothers\n\t\t\n\t\t\n\t\t\tKNKudin\n\t\t\n\t\t\n\t\t\tVNStaroverov\n\t\t\n\t\t\n\t\t\tRKobayashi\n\t\t\n\t\t\n\t\t\tJNormand\n\t\t\n\t\t\n\t\t\tKRaghavachari\n\t\t\n\t\t\n\t\t\tARendell\n\t\t\n\t\t\n\t\t\tJCBurant\n\t\t\n\t\t\n\t\t\tSSIyengar\n\t\t\n\t\t\n\t\t\tJTomasi\n\t\t\n\t\t\n\t\t\tMCossi\n\t\t\n\t\t\n\t\t\tNRega\n\t\t\n\t\t\n\t\t\tJMMillam\n\t\t\n\t\t\n\t\t\tMKlene\n\t\t\n\t\t\n\t\t\tJEKnox\n\t\t\n\t\t\n\t\t\tJBCross\n\t\t\n\t\t\n\t\t\tVBakken\n\t\t\n\t\t\n\t\t\tCAdamo\n\t\t\n\t\t\n\t\t\tJJaramillo\n\t\t\n\t\t\n\t\t\tRGomperts\n\t\t\n\t\t\n\t\t\tREStratmann\n\t\t\n\t\t\n\t\t\tOYazyev\n\t\t\n\t\t\n\t\t\tAJAustin\n\t\t\n\t\t\n\t\t\tCammiRPomelli\n\t\t\n\t\t\n\t\t\tCOchterski\n\t\t\n\t\t\n\t\t\tJWMartin\n\t\t\n\t\t\n\t\t\tRLMorokuma\n\t\t\n\t\t\n\t\t\tKZakrzewski\n\t\t\n\t\t\n\t\t\tVGVoth\n\t\t\n\t\t\n\t\t\tGASalvador\n\t\t\n\t\t\n\t\t\tPDannenberg\n\t\t\n\t\t\n\t\t\tJJDapprich\n\t\t\n\t\t\n\t\t\tSDaniels\n\t\t\n\t\t\n\t\t\tADFarkas\n\t\t\n\t\t\n\t\t\tO ¨Foresman\n\t\t\n\t\t\n\t\t\tJBOrtiz\n\t\t\n\t\t\n\t\t\tJVCioslowski\n\t\t\n\t\t\n\t\t\tJFox\n\t\t\n\t\t\n\t\t\tDJ\n\t\t\n\t\t\n\t\t\t\n\t\t\tGaussian, Inc\n\t\t\tWallingford, CT\n\t\t\n\t\n\tGaussian 09, revision B.01.\n\n","document":{"$oid":"60c448d77723bebd866699d6"},"refKey":19},
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{"_key":"60c449067723bebd86669a22","_id":"references/60c449067723bebd86669a22","_rev":"_cfFlU4G---","tei":"\n\t\n\t\tProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMWiederstein\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\t10.1093/nar/gkm290\n\t\t17517781\n\t\tPMC1933241\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c449067723bebd86669a21"},"refKey":26},
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{"_key":"60c449067723bebd86669a26","_id":"references/60c449067723bebd86669a26","_rev":"_cfFlU4y---","tei":"\n\t\n\t\tDynaMut: predicting the impact of mutations on protein conformation, flexibility and stability\n\t\t\n\t\t\tCarlosHmRodrigues\n\t\t\n\t\t\n\t\t\tDouglasEvPires\n\t\t\t0000-0002-3004-2119\n\t\t\n\t\t\n\t\t\tDavidBAscher\n\t\t\t0000-0003-2948-2413\n\t\t\n\t\t10.1093/nar/gky300\n\t\t29718330\n\t\tPMC6031064\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c449067723bebd86669a21"},"refKey":31},
{"_key":"60c449067723bebd86669a27","_id":"references/60c449067723bebd86669a27","_rev":"_cfFlU5----","tei":"\n\t\n\t\tSWISS-MODEL and the Swiss-Pdb Viewer: An environment for comparative protein modeling\n\t\t\n\t\t\tNicolasGuex\n\t\t\n\t\t\n\t\t\tManuelCPeitsch\n\t\t\n\t\t10.1002/elps.1150181505\n\t\t9504803\n\t\tark:/67375/WNG-JM4T1Z8G-K\n\t\t80A3D30408CDDCFAD6FB0CF212ABBA114995BAF3\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\tElectrophoresis\n\t\t0173-0835\n\t\t1522-2683\n\t\t\n\t\t\t18\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c449067723bebd86669a21"},"refKey":24},
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{"_key":"60c4491a7723bebd86669a42","_id":"references/60c4491a7723bebd86669a42","_rev":"_cfFlU5S---","tei":"\n\t\n\t\tIdentification of protein coding regions by database similarity search\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tDJStates\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4491a7723bebd86669a41"},"refKey":31},
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{"_key":"60c4495a7723bebd86669a9f","_id":"references/60c4495a7723bebd86669a9f","_rev":"_cfFlU6----","tei":"\n\t\n\t\tEfficient sampling algorithm for estimating subgraph concentrations and detecting network motifs\n\t\t\n\t\t\tNKashtan\n\t\t\n\t\t\n\t\t\tSItzkovitz\n\t\t\n\t\t\n\t\t\tRMilo\n\t\t\n\t\t\n\t\t\tUAlon\n\t\t\n\t\t10.1093/bioinformatics/bth163\n\t\t15001476\n\t\tark:/67375/HXZ-H7LWHN7T-W\n\t\t5D107C5C71D54120EC2A5D183DB6A1C92227CECD\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4495a7723bebd86669a9e"},"refKey":8},
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{"_key":"60c449757723bebd86669ac5","_id":"references/60c449757723bebd86669ac5","_rev":"_cfFlU6i---","tei":"\n\t\n\t\tGeneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMentjies\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c449757723bebd86669ac4"},"refKey":15},
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{"_key":"60c449987723bebd86669ad6","_id":"references/60c449987723bebd86669ad6","_rev":"_cfFlU62---","tei":"\n\t\n\t\tProtein identification and analysis tools on the ExPASy server\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\t\n\t\t\tMRWilkins\n\t\t\n\t\t\n\t\t\tRDAppel\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\n\t\n\t\tThe proteomics protocols handbook\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c449987723bebd86669ad4"},"refKey":18},
{"_key":"60c449987723bebd86669ad7","_id":"references/60c449987723bebd86669ad7","_rev":"_cfFlU7C---","tei":"\n\t\n\t\tEzMol: A Web Server Wizard for the Rapid Visualization and Image Production of Protein and Nucleic Acid Structures\n\t\t\n\t\t\tChristopherRReynolds\n\t\t\n\t\t\n\t\t\tSuhailAIslam\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1016/j.jmb.2018.01.013\n\t\t29391170\n\t\tPMC5961936\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t430\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c449987723bebd86669ad4"},"refKey":52},
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{"_key":"60c449b87723bebd86669b45","_id":"references/60c449b87723bebd86669b45","_rev":"_cfFlU7a---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c449b87723bebd86669b44"},"refKey":16},
{"_key":"60c449ee7723bebd86669b76","_id":"references/60c449ee7723bebd86669b76","_rev":"_cfFlU7i---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c449ee7723bebd86669b75"},"refKey":15},
{"_key":"60c44a037723bebd86669b8c","_id":"references/60c44a037723bebd86669b8c","_rev":"_cfFlU7u---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, version 1.8, Schroedinger, LLC\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c44a037723bebd86669b8b"},"refKey":82},
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{"_key":"60c44a6a7723bebd86669bc2","_id":"references/60c44a6a7723bebd86669bc2","_rev":"_cfFlU8G---","tei":"\n\t\n\t\t\n\t\t\tMWollmer\n\t\t\n\t\t\n\t\t\tFEyben\n\t\t\n\t\t\n\t\t\tBSchuller\n\t\t\n\t\topenSMILE -The Munich Versatile and Fast Open-Source Audio Feature Extractor\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44a6a7723bebd86669bc1"},"refKey":4},
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{"_key":"60c44aa07723bebd86669bdf","_id":"references/60c44aa07723bebd86669bdf","_rev":"_cfFlU8m---","tei":"\n\t\n\t\tImproved methods for predicting peptide binding affinity to MHC class II molecules\n\t\t\n\t\t\tKKJensen\n\t\t\n\t\t\n\t\t\tMAndreatta\n\t\t\n\t\t\n\t\t\tPMarcatili\n\t\t\n\t\t\n\t\t\tSBuus\n\t\t\n\t\t\n\t\t\tJAGreenbaum\n\t\t\n\t\t\n\t\t\tZYan\n\t\t\n\t\n\t\n\t\tImmunology\n\t\t\n\t\t\t154\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44aa07723bebd86669bde"},"refKey":33},
{"_key":"60c44aa07723bebd86669be0","_id":"references/60c44aa07723bebd86669be0","_rev":"_cfFlU8y---","tei":"\n\t\n\t\tSea view version 4: A multiplatform graphical user interface for sequence alignment and phylogenetic tree building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44aa07723bebd86669bde"},"refKey":39},
{"_key":"60c44aa07723bebd86669be1","_id":"references/60c44aa07723bebd86669be1","_rev":"_cfFlU9----","tei":"\n\t\n\t\tEvoEF2: Accurate and fast energy function for computational protein design\n\t\t\n\t\t\tXHuang\n\t\t\n\t\t\n\t\t\tRPearce\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44aa07723bebd86669bde"},"refKey":30},
{"_key":"60c44ad07723bebd86669c00","_id":"references/60c44ad07723bebd86669c00","_rev":"_cfFlU9G---","tei":"\n\t\n\t\tAgent-based Simulation of Urban Air Mobility\n\t\t\n\t\t\tRaoulRothfeld\n\t\t\n\t\t\n\t\t\tMilosBalac\n\t\t\n\t\t\n\t\t\tKayOPloetner\n\t\t\n\t\t\n\t\t\tConstantinosAntoniou\n\t\t\n\t\t10.2514/6.2018-3891\n\t\t\n\t\n\t\n\t\t2018 Modeling and Simulation Technologies Conference\n\t\t\t\tAtlanta\n\t\t\n\t\t\tAmerican Institute of Aeronautics and Astronautics\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44ad07723bebd86669bff"},"refKey":10},
{"_key":"60c44adc7723bebd86669c0d","_id":"references/60c44adc7723bebd86669c0d","_rev":"_cfFlU9S---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSas Institute\n\t\t\n\t\t\n\t\t\tSas/Stat User's Guide\n\t\t\n\t\t\n\t\t\t\n\t\t\t9\n\t\t\tInstitute, Cary, NC, USA\n\t\t\n\t\n\n","document":{"$oid":"60c44adc7723bebd86669c0c"},"refKey":27},
{"_key":"60c44aee7723bebd86669c13","_id":"references/60c44aee7723bebd86669c13","_rev":"_cfFlU9e---","tei":"\n\t\n\t\tNetLogo: design and implementation of a multi-agent modeling environment\n\t\t\n\t\t\tSTisue\n\t\t\n\t\t\n\t\t\tUWilensky\n\t\t\n\t\n\t\n\t\tProc. Agent\n\t\t\t\tAgent\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44aee7723bebd86669c12"},"refKey":54},
{"_key":"60c44aee7723bebd86669c14","_id":"references/60c44aee7723bebd86669c14","_rev":"_cfFlU9q---","tei":"\n\t\n\t\tThe WEKA data mining software\n\t\t\n\t\t\tMHall\n\t\t\n\t\t\n\t\t\tEFrank\n\t\t\n\t\t\n\t\t\tGHolmes\n\t\t\n\t\t\n\t\t\tBPfahringer\n\t\t\n\t\t\n\t\t\tPReutemann\n\t\t\n\t\t\n\t\t\tIHWitten\n\t\t\n\t\t10.1016/j.jocs.2015.09.008\n\t\n\t\n\t\tACM SIGKDD Explor. Newsl\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44aee7723bebd86669c12"},"refKey":51},
{"_key":"60c44b317723bebd86669c43","_id":"references/60c44b317723bebd86669c43","_rev":"_cfFlU92---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tMol Syst Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44b317723bebd86669c42"},"refKey":22},
{"_key":"60c44b317723bebd86669c44","_id":"references/60c44b317723bebd86669c44","_rev":"_cfFlV-----","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c44b317723bebd86669c42"},"refKey":20},
{"_key":"60c44b367723bebd86669c48","_id":"references/60c44b367723bebd86669c48","_rev":"_cfFlV-K---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44b367723bebd86669c47"},"refKey":17},
{"_key":"60c44b377723bebd86669c51","_id":"references/60c44b377723bebd86669c51","_rev":"_cfFlV-W---","tei":"\n\t\n\t\tThe Galaxy Platform for accessible, reproducible and collaborative biomedical analyses: 2018 update\n\t\t\n\t\t\tEAfgan\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\t\n\t\t\tBBatut\n\t\t\n\t\t\n\t\t\tMVan Den Beek\n\t\t\n\t\t\n\t\t\tDBouvier\n\t\t\n\t\t\n\t\t\tMCech\n\t\t\n\t\t\n\t\t\tJChilton\n\t\t\n\t\t\n\t\t\tDClements\n\t\t\n\t\t\n\t\t\tNCoraor\n\t\t\n\t\t\n\t\t\tBGrüning\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\n\t\n\tIssue W1. W537-W544\n\n","document":{"$oid":"60c44b377723bebd86669c50"},"refKey":0},
{"_key":"60c44b377723bebd86669c52","_id":"references/60c44b377723bebd86669c52","_rev":"_cfFlV-i---","tei":"\n\t\n\t\tA Galaxy Implementation of Next-Generation Clustered Heatmaps for Interactive Exploration of Molecular Profiling Data\n\t\t\n\t\t\tBradleyMBroom\n\t\t\n\t\t\n\t\t\tMichaelCRyan\n\t\t\n\t\t\n\t\t\tRobertEBrown\n\t\t\n\t\t\n\t\t\tFutaIkeda\n\t\t\n\t\t\n\t\t\tMarkStucky\n\t\t\n\t\t\n\t\t\tDavidWKane\n\t\t\n\t\t\n\t\t\tJamesMelott\n\t\t\n\t\t\n\t\t\tChrisWakefield\n\t\t\n\t\t\n\t\t\tTodDCasasent\n\t\t\n\t\t\n\t\t\tRehanAkbani\n\t\t\n\t\t\n\t\t\tJohnNWeinstein\n\t\t\n\t\t10.1158/0008-5472.can-17-0318\n\t\t29092932\n\t\tPMC5715806\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t77\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c44b377723bebd86669c50"},"refKey":4},
{"_key":"60c44b377723bebd86669c53","_id":"references/60c44b377723bebd86669c53","_rev":"_cfFlV-q---","tei":"\n\t\n\t\tThe GenePattern Notebook Environment\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tThorinTabor\n\t\t\n\t\t\n\t\t\tTedLiefeld\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdóttir\n\t\t\n\t\t\n\t\t\tBarbaraHill\n\t\t\n\t\t\n\t\t\tPabloTamayo\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t10.1016/j.cels.2017.07.003\n\t\t28822753\n\t\tPMC5572818\n\t\n\t\n\t\tCell Systems\n\t\tCell Systems\n\t\t2405-4712\n\t\t\n\t\t\t5\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\te1\n\n","document":{"$oid":"60c44b377723bebd86669c50"},"refKey":38},
{"_key":"60c44b377723bebd86669c54","_id":"references/60c44b377723bebd86669c54","_rev":"_cfFlV-2---","tei":"\n\t\n\t\tThe cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data\n\t\t\n\t\t\tECerami\n\t\t\n\t\t\n\t\t\tJGao\n\t\t\n\t\t\n\t\t\tUDogrusoz\n\t\t\n\t\t\n\t\t\tBEGross\n\t\t\n\t\t\n\t\t\tSOSumer\n\t\t\n\t\t\n\t\t\tBAAksoy\n\t\t\n\t\t\n\t\t\tAJacobsen\n\t\t\n\t\t\n\t\t\tCJByrne\n\t\t\n\t\t\n\t\t\tMLHeuer\n\t\t\n\t\t\n\t\t\tELarsson\n\t\t\n\t\n\t\n\t\tCancer Discov\n\t\t\n\t\t\t2\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44b377723bebd86669c50"},"refKey":6},
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{"_key":"60c44b717723bebd86669cc3","_id":"references/60c44b717723bebd86669cc3","_rev":"_cfFlVBS---","tei":"\n\t\n\t\tThe sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44b717723bebd86669cb8"},"refKey":41},
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{"_key":"60c44ce07723bebd86669dc6","_id":"references/60c44ce07723bebd86669dc6","_rev":"_cfFlVEO---","tei":"\n\t\n\t\tLocal RNA base pairing probabilities in large sequences\n\t\t\n\t\t\tSHBernhart\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t10.1093/bioinformatics/btk014\n\t\t16368769\n\t\tark:/67375/HXZ-PQG96DT4-6\n\t\tCF4176CC0704051138BDE1DD14AE13075E16EAD4\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c44ce07723bebd86669dc5"},"refKey":3},
{"_key":"60c44ce07723bebd86669dc7","_id":"references/60c44ce07723bebd86669dc7","_rev":"_cfFlVEa---","tei":"\n\t\n\t\tCONTRAfold: RNA secondary structure prediction without physics-based models\n\t\t\n\t\t\tCBDo\n\t\t\n\t\t\n\t\t\tDAWoods\n\t\t\n\t\t\n\t\t\tSBatzoglou\n\t\t\n\t\t10.1093/bioinformatics/btl246\n\t\t16873527\n\t\tark:/67375/HXZ-C13P62LX-L\n\t\t73AA6C585C59F484D11A7AA069CC3B5C29F9404C\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c44ce07723bebd86669dc5"},"refKey":9},
{"_key":"60c44ce07723bebd86669dc8","_id":"references/60c44ce07723bebd86669dc8","_rev":"_cfFlVEm---","tei":"\n\t\n\t\tA statistical test for conserved RNA structure shows lack of evidence for structure in lncRNAs\n\t\t\n\t\t\tElenaRivas\n\t\t\n\t\t\n\t\t\tJodyClements\n\t\t\n\t\t\n\t\t\tSeanREddy\n\t\t\t0000-0001-6676-4706\n\t\t\n\t\t10.1038/nmeth.4066\n\t\t27819659\n\t\tPMC5554622\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c44ce07723bebd86669dc5"},"refKey":35},
{"_key":"60c44ce07723bebd86669dc9","_id":"references/60c44ce07723bebd86669dc9","_rev":"_cfFlVEy---","tei":"\n\t\n\t\tAdding unaligned sequences into an existing alignment using MAFFT and LAST\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\n\t\t\n\t\t\tMartinCFrith\n\t\t\n\t\t10.1093/bioinformatics/bts578\n\t\t23023983\n\t\tPMC3516148\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c44ce07723bebd86669dc5"},"refKey":22},
{"_key":"60c44ce07723bebd86669dca","_id":"references/60c44ce07723bebd86669dca","_rev":"_cfFlVE6---","tei":"\n\t\n\t\tConsensus Folding of Aligned Sequences as a New Measure for the Detection of Functional RNAs by Comparative Genomics\n\t\t\n\t\t\tStefanWashietl\n\t\t\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t10.1016/j.jmb.2004.07.018\n\t\t15313604\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t342\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c44ce07723bebd86669dc5"},"refKey":43},
{"_key":"60c44ce07723bebd86669dcb","_id":"references/60c44ce07723bebd86669dcb","_rev":"_cfFlVFG---","tei":"\n\t\n\t\tBiopython: freely available Python tools for computational molecular biology and bioinformatics\n\t\t\n\t\t\tPJ ACock\n\t\t\n\t\t\n\t\t\tTAntao\n\t\t\n\t\t\n\t\t\tJTChang\n\t\t\n\t\t\n\t\t\tBAChapman\n\t\t\n\t\t\n\t\t\tCJCox\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tIFriedberg\n\t\t\n\t\t\n\t\t\tTHamelryck\n\t\t\n\t\t\n\t\t\tFKauff\n\t\t\n\t\t\n\t\t\tBWilczynski\n\t\t\n\t\t\n\t\t\tMJ LDe Hoon\n\t\t\n\t\t10.1093/bioinformatics/btp163\n\t\t19304878\n\t\tPMC2682512\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c44ce07723bebd86669dc5"},"refKey":7},
{"_key":"60c44ce07723bebd86669dcc","_id":"references/60c44ce07723bebd86669dcc","_rev":"_cfFlVFS---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c44ce07723bebd86669dc5"},"refKey":10},
{"_key":"60c44ce07723bebd86669dcd","_id":"references/60c44ce07723bebd86669dcd","_rev":"_cfFlVFe---","tei":"\n\t\n\t\tInfernal 1.1: 100-fold faster RNA homology searches\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t10.1093/bioinformatics/btt509\n\t\t24008419\n\t\tPMC3810854\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c44ce07723bebd86669dc5"},"refKey":31},
{"_key":"60c44d097723bebd86669e0d","_id":"references/60c44d097723bebd86669e0d","_rev":"_cfFlVFq---","tei":"\n\t\n\t\tQUADAS-2: A Revised Tool for the Quality Assessment of Diagnostic Accuracy Studies\n\t\t\n\t\t\tPennyFWhiting\n\t\t\n\t\t\n\t\t\tAWRutjes\n\t\t\n\t\t\n\t\t\tMEWestwood\n\t\t\n\t\t\n\t\t\tSMallett\n\t\t\n\t\t\n\t\t\tJJDeeks\n\t\t\n\t\t\n\t\t\tJBReitsma\n\t\t\n\t\t10.7326/0003-4819-155-8-201110180-00009\n\t\t22007046\n\t\t\n\t\n\t\n\t\tAnnals of Internal Medicine\n\t\tAnn Intern Med\n\t\t0003-4819\n\t\t\n\t\t\t155\n\t\t\t8\n\t\t\t529\n\t\t\t\n\t\t\tAmerican College of Physicians\n\t\t\n\t\n\n","document":{"$oid":"60c44d097723bebd86669e0c"},"refKey":42},
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{"_key":"60c44d2b7723bebd86669e40","_id":"references/60c44d2b7723bebd86669e40","_rev":"_cfFlVGW---","tei":"\n\t\n\t\tAdapting research methodology during COVID-19: lessons for transformative service research\n\t\t\n\t\t\tSDodds\n\t\t\n\t\t\n\t\t\tAHess\n\t\t\n\t\t10.1108/josm-05-2020-0153\n\t\n\t\n\t\tJOSM\n\t\t\n\t\t\t\n\t\t\n\t\n\tFREE Full text\n\n","document":{"$oid":"60c44d2b7723bebd86669e3e"},"refKey":17},
{"_key":"60c44d2b7723bebd86669e41","_id":"references/60c44d2b7723bebd86669e41","_rev":"_cfFlVGe---","tei":"\n\t\n\t\tVirtual Versus In-Person Focus Groups: Comparison of Costs, Recruitment, and Participant Logistics\n\t\t\n\t\t\tDouglasJRupert\n\t\t\t0000-0001-6701-4552\n\t\t\n\t\t\n\t\t\tJonAPoehlman\n\t\t\t0000-0003-4463-1093\n\t\t\n\t\t\n\t\t\tJenniferJHayes\n\t\t\t0000-0002-8521-5865\n\t\t\n\t\t\n\t\t\tSarahERay\n\t\t\t0000-0002-7023-4326\n\t\t\n\t\t\n\t\t\tRebeccaRMoultrie\n\t\t\t0000-0003-2102-2287\n\t\t\n\t\t10.2196/jmir.6980\n\t\t28330832\n\t\tPMC5382259\n\t\n\t\n\t\tJournal of Medical Internet Research\n\t\tJ Med Internet Res\n\t\t1438-8871\n\t\t\n\t\t\t19\n\t\t\t3\n\t\t\te80\n\t\t\t\n\t\t\tJMIR Publications Inc.\n\t\t\n\t\n\tFREE Full text. Medline: 28330832\n\n","document":{"$oid":"60c44d2b7723bebd86669e3e"},"refKey":18},
{"_key":"60c44d307723bebd86669e47","_id":"references/60c44d307723bebd86669e47","_rev":"_cfFlVGq---","tei":"\n\t\n\t\tLeveraging Applications of Formal Methods, Verification and Validation. Distributed Systems\n\t\t10.1007/978-3-030-03424-5\n\t\t\n\t\n\t\n\t\tISoLA 2018. LNCS\n\t\t\t\t\n\t\t\tTMargaria\n\t\t\tBSteffen\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11246\n\t\t\n\t\n\n","document":{"$oid":"60c44d307723bebd86669e46"},"refKey":53},
{"_key":"60c44d307723bebd86669e48","_id":"references/60c44d307723bebd86669e48","_rev":"_cfFlVG2---","tei":"\n\t\n\t\tTLA+ model checking made symbolic\n\t\t\n\t\t\tIKonnov\n\t\t\n\t\t\n\t\t\tJKukovec\n\t\t\n\t\t\n\t\t\tTTran\n\t\t\n\t\n\t\n\t\tOOPSLA)\n\t\t\n\t\t\t3\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\tPACMPL\n\n","document":{"$oid":"60c44d307723bebd86669e46"},"refKey":47},
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{"_key":"60c44e947723bebd86669fd1","_id":"references/60c44e947723bebd86669fd1","_rev":"_cfFlVNm---","tei":"\n\t\n\t\tIdentifying QT prolongation from ECG impressions using a general-purpose Natural Language Processor\n\t\t\n\t\t\tJoshuaCDenny\n\t\t\n\t\t\n\t\t\tRandolphAMiller\n\t\t\n\t\t\n\t\t\tLemuelRussellWaitman\n\t\t\n\t\t\n\t\t\tMarkAArrieta\n\t\t\n\t\t\n\t\t\tJoshuaFPeterson\n\t\t\n\t\t10.1016/j.ijmedinf.2008.09.001\n\t\t18938105\n\t\tPMC2728459\n\t\t\n\t\n\t\n\t\tInternational Journal of Medical Informatics\n\t\tInternational Journal of Medical Informatics\n\t\t1386-5056\n\t\t\n\t\t\t78\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c44e947723bebd86669fd0"},"refKey":30},
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{"_key":"60c44eb07723bebd86669fe7","_id":"references/60c44eb07723bebd86669fe7","_rev":"_cfFlVO----","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44eb07723bebd86669fe6"},"refKey":18},
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{"_key":"60c44eb07723bebd86669fe9","_id":"references/60c44eb07723bebd86669fe9","_rev":"_cfFlVOW---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44eb07723bebd86669fe6"},"refKey":17},
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{"_key":"60c44eb07723bebd86669ff2","_id":"references/60c44eb07723bebd86669ff2","_rev":"_cfFlVO2---","tei":"\n\t\n\t\tProtein secondary structure prediction based on position-specific scoring matrices 1 1Edited by G. Von Heijne\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t10.1006/jmbi.1999.3091\n\t\t10493868\n\t\tS0022-2836(99)93091-7\n\t\tark:/67375/6H6-67ZX8387-L\n\t\t77A19AF0AF72BEEF95E6D84638D9B9E9425A1040\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t292\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c44eb07723bebd86669fef"},"refKey":24},
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{"_key":"60c44ef47723bebd8666a057","_id":"references/60c44ef47723bebd8666a057","_rev":"_cfFlVRG---","tei":"\n\t\n\t\tThe application of multivariate statistical techniques improves single-wavelength anomalous diffraction phasing\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t10.1107/s0907444903020808\n\t\tark:/67375/WNG-PB0Q79KM-T\n\t\tD5CA72777B605A33BE601A6332B943FEFBF7BE8B\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t60\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c44ef47723bebd8666a051"},"refKey":51},
{"_key":"60c44ef47723bebd8666a058","_id":"references/60c44ef47723bebd8666a058","_rev":"_cfFlVRS---","tei":"\n\t\n\t\tBreaking good resolutions with ARP/wARP\n\t\t\n\t\t\tRichardJMorris\n\t\t\n\t\t\n\t\t\tPetrusHZwart\n\t\t\n\t\t\n\t\t\tSergeCohen\n\t\t\n\t\t\n\t\t\tFranciscoJFernandez\n\t\t\n\t\t\n\t\t\tMattheosKakaris\n\t\t\n\t\t\n\t\t\tOlgaKirillova\n\t\t\n\t\t\n\t\t\tClemensVonrhein\n\t\t\n\t\t\n\t\t\tAnastassisPerrakis\n\t\t\n\t\t\n\t\t\tVictorSLamzin\n\t\t\n\t\t10.1107/s090904950302394x\n\t\tark:/67375/WNG-11GD9JP8-7\n\t\t2FC3F22B7FFCD266929D732194B1D8C99B7AA4B4\n\t\n\t\n\t\tJournal of Synchrotron Radiation\n\t\tJ Synchrotron Radiat\n\t\t0909-0495\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c44ef47723bebd8666a051"},"refKey":45},
{"_key":"60c44ef47723bebd8666a059","_id":"references/60c44ef47723bebd8666a059","_rev":"_cfFlVRa---","tei":"\n\t\n\t\tThe 'Buccaneer' software for automated protein chain tracing\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\t10.1107/s0108767306098266\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t62\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c44ef47723bebd8666a051"},"refKey":14},
{"_key":"60c44f067723bebd8666a076","_id":"references/60c44f067723bebd8666a076","_rev":"_cfFlVRm---","tei":"\n\t\n\t\tMolecular evolution and phylogenetics\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\t\n\t\t\tOxford University Press\n\t\t\n\t\n\n","document":{"$oid":"60c44f067723bebd8666a075"},"refKey":18},
{"_key":"60c44f067723bebd8666a077","_id":"references/60c44f067723bebd8666a077","_rev":"_cfFlVRy---","tei":"\n\t\n\t\tThe neighbor-joining method: a new method for reconstructing phylogenetic trees\n\t\t\n\t\t\tNSaitou\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44f067723bebd8666a075"},"refKey":20},
{"_key":"60c44f237723bebd8666a097","_id":"references/60c44f237723bebd8666a097","_rev":"_cfFlVS----","tei":"\n\t\n\t\tPublic database of geographic layers for ESRI\n\t\t\n\t\t\tArcdataPraha\n\t\t\n\t\tArcČR 3.3\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44f237723bebd8666a096"},"refKey":0},
{"_key":"60c44f3b7723bebd8666a0a3","_id":"references/60c44f3b7723bebd8666a0a3","_rev":"_cfFlVSK---","tei":"\n\t\n\t\tAccurate reconstruction of a known HIV-1 transmission history by phylogenetic tree analysis\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci\n\t\t\n\t\t\t93\n\t\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tPennsylvania State University\n\t\t\n\t\n\tMolecular evolutionary genetics analysis (MEGA)\n\n","document":{"$oid":"60c44f3b7723bebd8666a0a2"},"refKey":26},
{"_key":"60c44f4d7723bebd8666a0af","_id":"references/60c44f4d7723bebd8666a0af","_rev":"_cfFlVSS---","tei":"\n\t\n\t\tExploring Diallelic Genetic Markers: TheHardyWeinbergPackage\n\t\t\n\t\t\tJanGraffelman\n\t\t\n\t\t10.18637/jss.v064.i03\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t64\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c44f4d7723bebd8666a0ae"},"refKey":36},
{"_key":"60c44f767723bebd8666a0cc","_id":"references/60c44f767723bebd8666a0cc","_rev":"_cfFlVSe---","tei":"\n\t\n\t\tMETAL: fast and efficient meta-analysis of genomewide association scans\n\t\t\n\t\t\tCJWiller\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tGRAbecasis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44f767723bebd8666a0cb"},"refKey":21},
{"_key":"60c44f957723bebd8666a0f4","_id":"references/60c44f957723bebd8666a0f4","_rev":"_cfFlVSq---","tei":"\n\t\n\t\tGurobi optimizer reference manual\n\t\t\n\t\t\tLGurobi Optimization\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t1\n\t\t\n\t\n\n","document":{"$oid":"60c44f957723bebd8666a0f3"},"refKey":9},
{"_key":"60c44f997723bebd8666a0fb","_id":"references/60c44f997723bebd8666a0fb","_rev":"_cfFlVS2---","tei":"\n\t\n\t\tAdversarial Robustness Toolbox\n\t\t\n\t\t\tM-INicolae\n\t\t\n\t\t\n\t\t\tMSinn\n\t\t\n\t\t\n\t\t\tMNTran\n\t\t\n\t\t\n\t\t\tBBuesser\n\t\t\n\t\t\n\t\t\tARawat\n\t\t\n\t\t\n\t\t\tMWistuba\n\t\t\n\t\tv1.0.0\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44f997723bebd8666a0fa"},"refKey":28},
{"_key":"60c44f9f7723bebd8666a102","_id":"references/60c44f9f7723bebd8666a102","_rev":"_cfFlVTC---","tei":"\n\t\n\t\tUltrafast and memoryefficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44f9f7723bebd8666a101"},"refKey":82},
{"_key":"60c44fbe7723bebd8666a121","_id":"references/60c44fbe7723bebd8666a121","_rev":"_cfFlVTK---","tei":"\n\t\n\t\tLung infection quantification of covid-19 in ct images with deep learning\n\t\t\n\t\t\tFShan\n\t\t\n\t\t\n\t\t\tYGao\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\t\n\t\t\tNShi\n\t\t\n\t\t\n\t\t\tMHan\n\t\t\n\t\t\n\t\t\tZXue\n\t\t\n\t\t\n\t\t\tYShi\n\t\t\n\t\n\t\n\t\tarXiv: Computer Vision and Pattern Recognition\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44fbe7723bebd8666a120"},"refKey":17},
{"_key":"60c44fbe7723bebd8666a122","_id":"references/60c44fbe7723bebd8666a122","_rev":"_cfFlVTW---","tei":"\n\t\n\t\tInf-net: Automatic covid-19 lung infection segmentation from ct images\n\t\t\n\t\t\tDFan\n\t\t\n\t\t\n\t\t\tTZhou\n\t\t\n\t\t\n\t\t\tGJi\n\t\t\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tGChen\n\t\t\n\t\t\n\t\t\tHFu\n\t\t\n\t\t\n\t\t\tJShen\n\t\t\n\t\t\n\t\t\tLShao\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Medical Imaging\n\t\t\n\t\t\t39\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44fbe7723bebd8666a120"},"refKey":19},
{"_key":"60c44fbe7723bebd8666a123","_id":"references/60c44fbe7723bebd8666a123","_rev":"_cfFlVTi---","tei":"\n\t\n\t\tRethinking atrous convolution for semantic image segmentation\n\t\t\n\t\t\tLChen\n\t\t\n\t\t\n\t\t\tGPapandreou\n\t\t\n\t\t\n\t\t\tFSchroff\n\t\t\n\t\t\n\t\t\tHAdam\n\t\t\n\t\n\t\n\t\tarXiv: Computer Vision and Pattern Recognition\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44fbe7723bebd8666a120"},"refKey":27},
{"_key":"60c44fbe7723bebd8666a124","_id":"references/60c44fbe7723bebd8666a124","_rev":"_cfFlVTu---","tei":"\n\t\n\t\tEncoderdecoder with atrous separable convolution for semantic image segmentation\n\t\t\n\t\t\tL.-CChen\n\t\t\n\t\t\n\t\t\tYZhu\n\t\t\n\t\t\n\t\t\tGPapandreou\n\t\t\n\t\t\n\t\t\tFSchroff\n\t\t\n\t\t\n\t\t\tHAdam\n\t\t\n\t\n\t\n\t\tProceedings of the European conference on computer vision (ECCV)\n\t\t\t\tthe European conference on computer vision (ECCV)\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44fbe7723bebd8666a120"},"refKey":28},
{"_key":"60c44fc17723bebd8666a12d","_id":"references/60c44fc17723bebd8666a12d","_rev":"_cfFlVT6---","tei":"\n\t\n\t\tThe Psych R package\n\t\t\n\t\t\tWRevel\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t20\n\t\t\n\t\n\n","document":{"$oid":"60c44fc17723bebd8666a12c"},"refKey":45},
{"_key":"60c44fc27723bebd8666a133","_id":"references/60c44fc27723bebd8666a133","_rev":"_cfFlVUC---","tei":"\n\t\n\t\tConducting meta-analyses inRwith theme-taforPackage\n\t\t\n\t\t\tWViechtbauer\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t36\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44fc27723bebd8666a132"},"refKey":24},
{"_key":"60c44fc57723bebd8666a135","_id":"references/60c44fc57723bebd8666a135","_rev":"_cfFlVUO---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tDeLano Scientific\n\t\t\tSan Carlos, CA, USA\n\t\t\n\t\n\n","document":{"$oid":"60c44fc57723bebd8666a134"},"refKey":29},
{"_key":"60c44fc57723bebd8666a136","_id":"references/60c44fc57723bebd8666a136","_rev":"_cfFlVUa---","tei":"\n\t\n\t\tMDAnalysis: a toolkit for the analysis of molecular dynamics simulations\n\t\t\n\t\t\tNMichaud-Agrawal\n\t\t\n\t\t\n\t\t\tEJDenning\n\t\t\n\t\t\n\t\t\tTBWoolf\n\t\t\n\t\t\n\t\t\tOBeckstein\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t32\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44fc57723bebd8666a134"},"refKey":26},
{"_key":"60c44fc57723bebd8666a137","_id":"references/60c44fc57723bebd8666a137","_rev":"_cfFlVUm---","tei":"\n\t\n\t\tMDAnalysis: A Python package for the rapid analysis of molecular dynamics simulations\n\t\t\n\t\t\tRJGowers\n\t\t\n\t\t\n\t\t\tMLinke\n\t\t\n\t\t\n\t\t\tJBarnoud\n\t\t\n\t\t\n\t\t\tTjeReddy\n\t\t\n\t\t\n\t\t\tMNMelo\n\t\t\n\t\t\n\t\t\tSLSeyler\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\t15th Python in Science Conference\n\n","document":{"$oid":"60c44fc57723bebd8666a134"},"refKey":27},
{"_key":"60c44fc57723bebd8666a138","_id":"references/60c44fc57723bebd8666a138","_rev":"_cfFlVUy---","tei":"\n\t\n\t\tHigh performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSPáll\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\n\t\n\t\tSoftwareX\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44fc57723bebd8666a134"},"refKey":21},
{"_key":"60c44ff47723bebd8666a15f","_id":"references/60c44ff47723bebd8666a15f","_rev":"_cfFlVU6---","tei":"\n\t\n\t\tPrimer3 on the WWW for general users and for biologist programmers\n\t\t\n\t\t\tSRozen\n\t\t\n\t\t\n\t\t\tHJSkaletsky\n\t\t\n\t\n\t\n\t\tBioinformatics Methods and Protocols: Methods in Molecular Biology\n\t\t\t\t\n\t\t\tSKrawetz\n\t\t\tSMisener\n\t\t\n\t\tNew Jersey\n\t\t\n\t\t\tHumana Oress\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44ff47723bebd8666a15e"},"refKey":62},
{"_key":"60c44ff47723bebd8666a160","_id":"references/60c44ff47723bebd8666a160","_rev":"_cfFlVVG---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44ff47723bebd8666a15e"},"refKey":64},
{"_key":"60c44ff47723bebd8666a161","_id":"references/60c44ff47723bebd8666a161","_rev":"_cfFlVVS---","tei":"\n\t\n\t\tGeneious v5\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44ff47723bebd8666a15e"},"refKey":63},
{"_key":"60c44ff47723bebd8666a162","_id":"references/60c44ff47723bebd8666a162","_rev":"_cfFlVVe---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: Application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tEllSonnhammer\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44ff47723bebd8666a15e"},"refKey":66},
{"_key":"60c44ff47723bebd8666a163","_id":"references/60c44ff47723bebd8666a163","_rev":"_cfFlVVq---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tEllSonnhammer\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tJGlasgow\n\t\t\n\t\t\n\t\t\tTLittlejohn\n\t\t\n\t\t\n\t\t\tFMajor\n\t\t\n\t\t\n\t\t\tRLathrop\n\t\t\n\t\t\n\t\t\tDSankoff\n\t\t\n\t\n\t\n\t\tProceedings of the Sixth International Conference on Intelligent Systems for Molecular Biology\n\t\t\t\tthe Sixth International Conference on Intelligent Systems for Molecular BiologyMenlo Park, CA\n\t\t\n\t\t\tAAAI Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c44ff47723bebd8666a15e"},"refKey":67},
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{"_key":"60c451857723bebd8666a290","_id":"references/60c451857723bebd8666a290","_rev":"_cfFlVZW---","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c451857723bebd8666a28d"},"refKey":15},
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{"_key":"60c452377723bebd8666a2ef","_id":"references/60c452377723bebd8666a2ef","_rev":"_cfFlVay---","tei":"\n\t\n\t\tThe UCUAAAC promoter motif is not required for high-frequency leader recombination in bovine coronavirus defective interfering RNA\n\t\t\n\t\t\tRYChang\n\t\t\n\t\t\n\t\t\tRKrishnan\n\t\t\n\t\t\n\t\t\tDABrian\n\t\t\n\t\n\t\n\t\tJ. Virol\n\t\t\n\t\t\t70\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c452377723bebd8666a2ed"},"refKey":6},
{"_key":"60c4524c7723bebd8666a306","_id":"references/60c4524c7723bebd8666a306","_rev":"_cfFlVb----","tei":"\n\t\n\t\tQIIME allows analysis of high-throughput community sequencing data\n\t\t\n\t\t\tJGregoryCaporaso\n\t\t\n\t\t\n\t\t\tJustinKuczynski\n\t\t\n\t\t\n\t\t\tJesseStombaugh\n\t\t\n\t\t\n\t\t\tKyleBittinger\n\t\t\n\t\t\n\t\t\tFredericDBushman\n\t\t\n\t\t\n\t\t\tElizabethKCostello\n\t\t\n\t\t\n\t\t\tNoahFierer\n\t\t\n\t\t\n\t\t\tAntonioGonzalezPeña\n\t\t\n\t\t\n\t\t\tJuliaKGoodrich\n\t\t\n\t\t\n\t\t\tJeffreyIGordon\n\t\t\n\t\t\n\t\t\tGavinAHuttley\n\t\t\n\t\t\n\t\t\tScottTKelley\n\t\t\n\t\t\n\t\t\tDanKnights\n\t\t\n\t\t\n\t\t\tJeremyEKoenig\n\t\t\n\t\t\n\t\t\tRuthELey\n\t\t\n\t\t\n\t\t\tCatherineALozupone\n\t\t\n\t\t\n\t\t\tDanielMcdonald\n\t\t\n\t\t\n\t\t\tBrianDMuegge\n\t\t\n\t\t\n\t\t\tMegPirrung\n\t\t\n\t\t\n\t\t\tJensReeder\n\t\t\n\t\t\n\t\t\tJoelRSevinsky\n\t\t\n\t\t\n\t\t\tPeterJTurnbaugh\n\t\t\n\t\t\n\t\t\tWilliamAWalters\n\t\t\n\t\t\n\t\t\tJeremyWidmann\n\t\t\n\t\t\n\t\t\tTanyaYatsunenko\n\t\t\n\t\t\n\t\t\tJesseZaneveld\n\t\t\n\t\t\n\t\t\tRobKnight\n\t\t\n\t\t10.1038/nmeth.f.303\n\t\t20383131\n\t\tPMC3156573\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t7\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\t335. [CrossRef\n\n","document":{"$oid":"60c4524c7723bebd8666a305"},"refKey":19},
{"_key":"60c452577723bebd8666a30e","_id":"references/60c452577723bebd8666a30e","_rev":"_cfFlVbK---","tei":"\n\t\n\t\tBLAST: at the core of a powerful and diverse set of sequence analysis tools\n\t\t\n\t\t\tSMcginnis\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t10.1093/nar/gkh435\n\t\t15215342\n\t\tPMC441573\n\t\tark:/67375/HXZ-DNQRBT4D-X\n\t\t85C52E7BD297069F378D827F9C4501FB5D43BAD6\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c452577723bebd8666a30d"},"refKey":9},
{"_key":"60c452797723bebd8666a319","_id":"references/60c452797723bebd8666a319","_rev":"_cfFlVbW---","tei":"\n\t\n\t\tBioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tDaWeiHuang\n\t\t\n\t\t\n\t\t\tBradTSherman\n\t\t\n\t\t\n\t\t\tRichardALempicki\n\t\t\n\t\t10.1093/nar/gkn923\n\t\t19033363\n\t\tPMC2615629\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c452797723bebd8666a318"},"refKey":24},
{"_key":"60c452797723bebd8666a31a","_id":"references/60c452797723bebd8666a31a","_rev":"_cfFlVbi---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDaWeiHuang\n\t\t\n\t\t\n\t\t\tBradTSherman\n\t\t\n\t\t\n\t\t\tRichardALempicki\n\t\t\n\t\t10.1038/nprot.2008.211\n\t\t19131956\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c452797723bebd8666a318"},"refKey":25},
{"_key":"60c452797723bebd8666a31b","_id":"references/60c452797723bebd8666a31b","_rev":"_cfFlVbu---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c452797723bebd8666a318"},"refKey":21},
{"_key":"60c452797723bebd8666a31c","_id":"references/60c452797723bebd8666a31c","_rev":"_cfFlVb6---","tei":"\n\t\n\t\tDetecting differential usage of exons from RNA-seq data\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t\n\t\t\tAReyes\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t10.1101/gr.133744.111\n\t\t22722343\n\t\tPMC3460195\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t22\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c452797723bebd8666a318"},"refKey":20},
{"_key":"60c452797723bebd8666a31d","_id":"references/60c452797723bebd8666a31d","_rev":"_cfFlVcG---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t25516281\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c452797723bebd8666a318"},"refKey":19},
{"_key":"60c452bd7723bebd8666a374","_id":"references/60c452bd7723bebd8666a374","_rev":"_cfFlVcS---","tei":"\n\t\n\t\tDAVID: Database for annotation, visualization, and integrated discovery\n\t\t\n\t\t\tGDennis\n\t\t\n\t\t\n\t\t\tJr\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tDAHosack\n\t\t\n\t\t\n\t\t\tJYang\n\t\t\n\t\t\n\t\t\tWGao\n\t\t\n\t\t\n\t\t\tHCLane\n\t\t\n\t\t\n\t\t\tRA\n\t\t\n\t\t10.1186/gb-2003-4-5-p3\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t4\n\t\t\tP3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c452bd7723bebd8666a373"},"refKey":39},
{"_key":"60c452bd7723bebd8666a375","_id":"references/60c452bd7723bebd8666a375","_rev":"_cfFlVci---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c452bd7723bebd8666a373"},"refKey":40},
{"_key":"60c452bd7723bebd8666a376","_id":"references/60c452bd7723bebd8666a376","_rev":"_cfFlVcu---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c452bd7723bebd8666a373"},"refKey":42},
{"_key":"60c452bd7723bebd8666a377","_id":"references/60c452bd7723bebd8666a377","_rev":"_cfFlVc6---","tei":"\n\t\n\t\tDecon2LS: An open-source software package for automated processing and visualization of high resolution mass spectrometry data\n\t\t\n\t\t\tNavdeepJaitly\n\t\t\n\t\t\n\t\t\tAnoopMayampurath\n\t\t\n\t\t\n\t\t\tKyleLittlefield\n\t\t\n\t\t\n\t\t\tJoshuaNAdkins\n\t\t\n\t\t\n\t\t\tGordonAAnderson\n\t\t\n\t\t\n\t\t\tRichardDSmith\n\t\t\n\t\t10.1186/1471-2105-10-87\n\t\t19292916\n\t\tPMC2666663\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t87\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c452bd7723bebd8666a373"},"refKey":48},
{"_key":"60c452bd7723bebd8666a378","_id":"references/60c452bd7723bebd8666a378","_rev":"_cfFlVdG---","tei":"\n\t\n\t\tVIPER: an advanced software package to support high-throughput LC-MS peptide identification\n\t\t\n\t\t\tMatthewEMonroe\n\t\t\n\t\t\n\t\t\tNikolaTolić\n\t\t\n\t\t\n\t\t\tNavdeepJaitly\n\t\t\n\t\t\n\t\t\tJasonLShaw\n\t\t\n\t\t\n\t\t\tJoshuaNAdkins\n\t\t\n\t\t\n\t\t\tRichardDSmith\n\t\t\n\t\t10.1093/bioinformatics/btm281\n\t\t17545182\n\t\tark:/67375/HXZ-DLKGGS2J-7\n\t\tD7D0AD6922D4B0EC4764C2A22F51F6F8C70CECB8\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c452bd7723bebd8666a373"},"refKey":49},
{"_key":"60c452fc7723bebd8666a39b","_id":"references/60c452fc7723bebd8666a39b","_rev":"_cfFlVdS---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSöding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tMol Syst Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c452fc7723bebd8666a39a"},"refKey":55},
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{"_key":"60c453c97723bebd8666a428","_id":"references/60c453c97723bebd8666a428","_rev":"_cfFlVem---","tei":"\n\t\n\t\tABodyBuilder: Automated antibody structure prediction with data–driven accuracy estimation\n\t\t\n\t\t\tJinwooLeem\n\t\t\n\t\t\n\t\t\tJamesDunbar\n\t\t\n\t\t\n\t\t\tGuyGeorges\n\t\t\n\t\t\n\t\t\tJiyeShi\n\t\t\n\t\t\n\t\t\tCharlotteMDeane\n\t\t\n\t\t10.1080/19420862.2016.1205773\n\t\t27392298\n\t\tPMC5058620\n\t\t\n\t\n\t\n\t\tmAbs\n\t\tmAbs\n\t\t1942-0862\n\t\t1942-0870\n\t\t\n\t\t\t8\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c453c97723bebd8666a426"},"refKey":42},
{"_key":"60c453c97723bebd8666a429","_id":"references/60c453c97723bebd8666a429","_rev":"_cfFlVey---","tei":"\n\t\n\t\tChange-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data: Table 1.\n\t\t\n\t\t\tNamitaTGupta\n\t\t\n\t\t\n\t\t\tJasonAVander Heiden\n\t\t\n\t\t\n\t\t\tMohamedUduman\n\t\t\n\t\t\n\t\t\tDanielGadala-Maria\n\t\t\n\t\t\n\t\t\tGurYaari\n\t\t\n\t\t\n\t\t\tStevenHKleinstein\n\t\t\n\t\t10.1093/bioinformatics/btv359\n\t\t26069265\n\t\tPMC4793929\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c453c97723bebd8666a426"},"refKey":57},
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{"_key":"60c453c97723bebd8666a42b","_id":"references/60c453c97723bebd8666a42b","_rev":"_cfFlVfK---","tei":"\n\t\n\t\tIgBLAST: an immunoglobulin variable domain sequence analysis tool\n\t\t\n\t\t\tJianYe\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t\n\t\t\tJamesMOstell\n\t\t\n\t\t10.1093/nar/gkt382\n\t\t23671333\n\t\tPMC3692102\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c453c97723bebd8666a426"},"refKey":53},
{"_key":"60c453c97723bebd8666a42c","_id":"references/60c453c97723bebd8666a42c","_rev":"_cfFlVfS---","tei":"\n\t\n\t\tFive computational developability guidelines for therapeutic antibody profiling\n\t\t\n\t\t\tMatthewI JRaybould\n\t\t\t0000-0002-5663-5297\n\t\t\n\t\t\n\t\t\tClaireMarks\n\t\t\n\t\t\n\t\t\tKonradKrawczyk\n\t\t\n\t\t\n\t\t\tBruckTaddese\n\t\t\n\t\t\n\t\t\tJaroslawNowak\n\t\t\n\t\t\n\t\t\tAlanPLewis\n\t\t\n\t\t\n\t\t\tAlexanderBujotzek\n\t\t\n\t\t\n\t\t\tJiyeShi\n\t\t\t0000-0002-9628-8680\n\t\t\n\t\t\n\t\t\tCharlotteMDeane\n\t\t\t0000-0003-1388-2252\n\t\t\n\t\t10.1073/pnas.1810576116\n\t\t30765520\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProc Natl Acad Sci USA\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t116\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c453c97723bebd8666a426"},"refKey":45},
{"_key":"60c453f17723bebd8666a458","_id":"references/60c453f17723bebd8666a458","_rev":"_cfFlVfe---","tei":"\n\t\n\t\tEpidemic curves made easy using the R package incidence\n\t\t\n\t\t\tZhianNKamvar\n\t\t\t0000-0003-1458-7108\n\t\t\n\t\t\n\t\t\tJunCai\n\t\t\t0000-0001-9495-1226\n\t\t\n\t\t\n\t\t\tJulietR CPulliam\n\t\t\t0000-0003-3314-8223\n\t\t\n\t\t\n\t\t\tJakobSchumacher\n\t\t\n\t\t\n\t\t\tThibautJombart\n\t\t\t0000-0003-2226-8692\n\t\t\n\t\t10.12688/f1000research.18002.1\n\t\t\n\t\n\t\n\t\tF1000Research\n\t\tF1000Res\n\t\t2046-1402\n\t\t\n\t\t\t8\n\t\t\t139\n\t\t\t\n\t\t\tF1000 ( Faculty of 1000 Ltd)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c453f17723bebd8666a457"},"refKey":21},
{"_key":"60c453f17723bebd8666a459","_id":"references/60c453f17723bebd8666a459","_rev":"_cfFlVfq---","tei":"\n\t\n\t\t\n\t\tThe R Development Core Team. R: A Language and Environment for Statistical Computing; R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\t28\n\t\t\n\t\n\n","document":{"$oid":"60c453f17723bebd8666a457"},"refKey":20},
{"_key":"60c453f17723bebd8666a45a","_id":"references/60c453f17723bebd8666a45a","_rev":"_cfFlVf2---","tei":"\n\t\n\t\tA New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tNeilMFerguson\n\t\t\n\t\t\n\t\t\tChristopheFraser\n\t\t\n\t\t\n\t\t\tSimonCauchemez\n\t\t\n\t\t10.1093/aje/kwt133\n\t\t24043437\n\t\tPMC3816335\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t1476-6256\n\t\t\n\t\t\t178\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c453f17723bebd8666a457"},"refKey":18},
{"_key":"60c454047723bebd8666a499","_id":"references/60c454047723bebd8666a499","_rev":"_cfFlVgC---","tei":"\n\t\n\t\tApproximate Bayesian inference for latent Gaussian models by using integrated nested Laplace approximations\n\t\t\n\t\t\tHRue\n\t\t\n\t\t\n\t\t\tSMartino\n\t\t\n\t\t\n\t\t\tNChopin\n\t\t\n\t\n\t\n\t\tJ R Stat Soc Ser B Stat Methodol\n\t\t\n\t\t\t71\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c454047723bebd8666a498"},"refKey":13},
{"_key":"60c454047723bebd8666a49a","_id":"references/60c454047723bebd8666a49a","_rev":"_cfFlVgO---","tei":"\n\t\n\t\tBayesian computing with INLA: new features. CSDA\n\t\t\n\t\t\tTGMartins\n\t\t\n\t\t\n\t\t\tDSimpson\n\t\t\n\t\t\n\t\t\tFLindgren\n\t\t\n\t\t\n\t\t\tHRue\n\t\t\n\t\t\n\t\t\t\n\t\t\t67\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c454047723bebd8666a498"},"refKey":14},
{"_key":"60c4542f7723bebd8666a4d7","_id":"references/60c4542f7723bebd8666a4d7","_rev":"_cfFlVgW---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4542f7723bebd8666a4d6"},"refKey":22},
{"_key":"60c4542f7723bebd8666a4d8","_id":"references/60c4542f7723bebd8666a4d8","_rev":"_cfFlVgi---","tei":"\n\t\n\t\tTreeTime: Maximum-likelihood phylodynamic analysis\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tVadimPuller\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\t0000-0003-2525-1407\n\t\t\n\t\t10.1093/ve/vex042\n\t\t29340210\n\t\tPMC5758920\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t42\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4542f7723bebd8666a4d6"},"refKey":25},
{"_key":"60c4542f7723bebd8666a4d9","_id":"references/60c4542f7723bebd8666a4d9","_rev":"_cfFlVgu---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4542f7723bebd8666a4d6"},"refKey":20},
{"_key":"60c4542f7723bebd8666a4da","_id":"references/60c4542f7723bebd8666a4da","_rev":"_cfFlVg6---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4542f7723bebd8666a4d6"},"refKey":19},
{"_key":"60c4542f7723bebd8666a4db","_id":"references/60c4542f7723bebd8666a4db","_rev":"_cfFlVhC---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAHaeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4542f7723bebd8666a4d6"},"refKey":24},
{"_key":"60c4542f7723bebd8666a4dc","_id":"references/60c4542f7723bebd8666a4dc","_rev":"_cfFlVhO---","tei":"\n\t\n\t\tVirGenA: a reference-based assembler for variable viral genomes\n\t\t\n\t\t\tGennadyGFedonin\n\t\t\n\t\t\n\t\t\tYurySFantin\n\t\t\n\t\t\n\t\t\tAlexnaderVFavorov\n\t\t\n\t\t\n\t\t\tGermanAShipulin\n\t\t\n\t\t\n\t\t\tAlexeyDNeverov\n\t\t\n\t\t10.1093/bib/bbx079\n\t\t28968771\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\t1477-4054\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4542f7723bebd8666a4d6"},"refKey":21},
{"_key":"60c4542f7723bebd8666a4dd","_id":"references/60c4542f7723bebd8666a4dd","_rev":"_cfFlVha---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4542f7723bebd8666a4d6"},"refKey":23},
{"_key":"60c4542f7723bebd8666a4de","_id":"references/60c4542f7723bebd8666a4de","_rev":"_cfFlVhm---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4542f7723bebd8666a4d6"},"refKey":18},
{"_key":"60c4543c7723bebd8666a4f1","_id":"references/60c4543c7723bebd8666a4f1","_rev":"_cfFlVhu---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4543c7723bebd8666a4f0"},"refKey":15},
{"_key":"60c454847723bebd8666a512","_id":"references/60c454847723bebd8666a512","_rev":"_cfFlVh6---","tei":"\n\t\n\t\tAutomated identification of multiple micro-organisms from resequencing DNA microarrays\n\t\t\n\t\t\tAnthonyPMalanoski\n\t\t\n\t\t\n\t\t\tBaochuanLin\n\t\t\n\t\t\n\t\t\tZhengWang\n\t\t\n\t\t\n\t\t\tJoelMSchnur\n\t\t\n\t\t\n\t\t\tDavidAStenger\n\t\t\n\t\t10.1093/nar/gkl565\n\t\t17012284\n\t\tPMC1636417\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c454847723bebd8666a511"},"refKey":21},
{"_key":"60c454ab7723bebd8666a521","_id":"references/60c454ab7723bebd8666a521","_rev":"_cfFlViG---","tei":"\n\t\n\t\tData processing and analysis with theautoPROCtoolbox\n\t\t\n\t\t\tClemensVonrhein\n\t\t\n\t\t\n\t\t\tClausFlensburg\n\t\t\n\t\t\n\t\t\tPeterKeller\n\t\t\n\t\t\n\t\t\tAndrewSharff\n\t\t\n\t\t\n\t\t\tOliverSmart\n\t\t\n\t\t\n\t\t\tWlodekPaciorek\n\t\t\n\t\t\n\t\t\tThomasWomack\n\t\t\n\t\t\n\t\t\tGérardBricogne\n\t\t\n\t\t10.1107/s0907444911007773\n\t\t21460447\n\t\tPMC3069744\n\t\tark:/67375/WNG-QGRWWRB0-G\n\t\t918FD858762F055BEB601ADF6EC5FFABAB0F432B\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c454ab7723bebd8666a520"},"refKey":46},
{"_key":"60c454ab7723bebd8666a522","_id":"references/60c454ab7723bebd8666a522","_rev":"_cfFlViO---","tei":"\n\t\n\t\tEnhanced fold recognition using efficient short fragment clustering\n\t\t\n\t\t\tEKrissinel\n\t\t\n\t\n\t\n\t\tJ Mol Biochem\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c454ab7723bebd8666a520"},"refKey":53},
{"_key":"60c454ab7723bebd8666a523","_id":"references/60c454ab7723bebd8666a523","_rev":"_cfFlVia---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c454ab7723bebd8666a520"},"refKey":49},
{"_key":"60c454ab7723bebd8666a524","_id":"references/60c454ab7723bebd8666a524","_rev":"_cfFlVim---","tei":"\n\t\n\t\tAn introduction to data reduction: space-group determination, scaling and intensity statistics\n\t\t\n\t\t\tPhilipREvans\n\t\t\n\t\t10.1107/s090744491003982x\n\t\t21460446\n\t\tPMC3069743\n\t\tark:/67375/WNG-7LXD5SKV-F\n\t\tD6C9A5562D48485776EE2B0E14AFC03C6725CE8C\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c454ab7723bebd8666a520"},"refKey":47},
{"_key":"60c454b07723bebd8666a535","_id":"references/60c454b07723bebd8666a535","_rev":"_cfFlViy---","tei":"\n\t\n\t\tEffects of variability in radiomics software packages on classifying patients with radiation pneumonitis\n\t\t\n\t\t\tJJFoy\n\t\t\n\t\t\n\t\t\tSGArmato\n\t\t\n\t\t\n\t\t\tHAAl-Hallaq\n\t\t\n\t\t10.1117/1.Jmi.7.1.014504\n\t\t\n\t\n\t\n\t\tJ. Med. Imaging\n\t\t\n\t\t\t7\n\t\t\t14504\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c454b07723bebd8666a534"},"refKey":14},
{"_key":"60c454b07723bebd8666a536","_id":"references/60c454b07723bebd8666a536","_rev":"_cfFlVi6---","tei":"\n\t\n\t\tRadiomics nomogram analyses for differentiating pneumonia and acute paraquat lung injury\n\t\t\n\t\t\tWYanling\n\t\t\n\t\n\t\n\t\tSci. Rep\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c454b07723bebd8666a534"},"refKey":15},
{"_key":"60c454e67723bebd8666a56b","_id":"references/60c454e67723bebd8666a56b","_rev":"_cfFlVjG---","tei":"\n\t\n\t\tPhyloWidget: web-based visualizations for the tree of life\n\t\t\n\t\t\tGEJordan\n\t\t\n\t\t\n\t\t\tWHPiel\n\t\t\n\t\t10.1093/bioinformatics/btn235\n\t\t18487241\n\t\tark:/67375/HXZ-QJ53BCZZ-D\n\t\t3E8D345FA89A0244965A7E9C652ED81FC3F65047\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c454e67723bebd8666a56a"},"refKey":30},
{"_key":"60c4556d7723bebd8666a5c7","_id":"references/60c4556d7723bebd8666a5c7","_rev":"_cfFlVjS---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4556d7723bebd8666a5c6"},"refKey":47},
{"_key":"60c4557b7723bebd8666a5dd","_id":"references/60c4557b7723bebd8666a5dd","_rev":"_cfFlVja---","tei":"\n\t\n\t\tDraft Genome Sequence of the Bordetella bronchiseptica Swine Isolate KM22\n\t\t\n\t\t\tTLNicholson\n\t\t\n\t\t\n\t\t\tSMShore\n\t\t\n\t\t\n\t\t\tDOBayles\n\t\t\n\t\t\n\t\t\tKBRegister\n\t\t\n\t\t\n\t\t\tRAKingsley\n\t\t\n\t\t10.1128/genomea.00670-14\n\t\t25013141\n\t\tPMC4110755\n\t\t\n\t\n\t\n\t\tGenome Announcements\n\t\tGenome Announcements\n\t\t2169-8287\n\t\t\n\t\t\t2\n\t\t\t4\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c4557b7723bebd8666a5dc"},"refKey":26},
{"_key":"60c4558f7723bebd8666a5e8","_id":"references/60c4558f7723bebd8666a5e8","_rev":"_cfFlVjm---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4558f7723bebd8666a5e7"},"refKey":0},
{"_key":"60c455b47723bebd8666a608","_id":"references/60c455b47723bebd8666a608","_rev":"_cfFlVjy---","tei":"\n\t\n\t\tAn open-source k-mer based machine learning tool for fast and accurate subtyping of HIV-1 genomes\n\t\t\n\t\t\tStephenSolis-Reyes\n\t\t\t0000-0003-1694-4148\n\t\t\n\t\t\n\t\t\tMarianoAvino\n\t\t\n\t\t\n\t\t\tArtPoon\n\t\t\n\t\t\n\t\t\tLilaKari\n\t\t\n\t\t10.1371/journal.pone.0206409\n\t\t30427878\n\t\tPMC6235296\n\t\t\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\te0206409\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c455b47723bebd8666a607"},"refKey":49},
{"_key":"60c455b47723bebd8666a609","_id":"references/60c455b47723bebd8666a609","_rev":"_cfFlVj6---","tei":"\n\t\n\t\tML-DSP: Machine Learning with Digital Signal Processing for ultrafast, accurate, and scalable genome classification at all taxonomic levels\n\t\t\n\t\t\tGurjitSRandhawa\n\t\t\t0000-0003-1054-125X\n\t\t\n\t\t\n\t\t\tKathleenAHill\n\t\t\n\t\t\n\t\t\tLilaKari\n\t\t\n\t\t10.1186/s12864-019-5571-y\n\t\t30943897\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t267\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c455b47723bebd8666a607"},"refKey":50},
{"_key":"60c455b47723bebd8666a60a","_id":"references/60c455b47723bebd8666a60a","_rev":"_cfFlVkG---","tei":"\n\t\n\t\tMLDSP-GUI: An alignment-free standalone tool with an interactive graphical user interface for DNA sequence comparison and analysis\n\t\t\n\t\t\tGurjitSRandhawa\n\t\t\t0000-0003-1054-125X\n\t\t\n\t\t\n\t\t\tKathleenAHill\n\t\t\n\t\t\n\t\t\tLilaKari\n\t\t\n\t\t10.1101/745406\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t918\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c455b47723bebd8666a607"},"refKey":51},
{"_key":"60c455e27723bebd8666a63d","_id":"references/60c455e27723bebd8666a63d","_rev":"_cfFlVkS---","tei":"\n\t\n\t\t“TAGS”, a program for the evaluation of test accuracy in the absence of a gold standard\n\t\t\n\t\t\tRégisPouillot\n\t\t\n\t\t\n\t\t\tGuillaumeGerbier\n\t\t\n\t\t\n\t\t\tIanAGardner\n\t\t\n\t\t10.1016/s0167-5877(01)00272-0\n\t\t11821138\n\t\n\t\n\t\tPreventive Veterinary Medicine\n\t\tPreventive Veterinary Medicine\n\t\t0167-5877\n\t\t\n\t\t\t53\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c455e27723bebd8666a63c"},"refKey":19},
{"_key":"60c455e97723bebd8666a642","_id":"references/60c455e97723bebd8666a642","_rev":"_cfFlVke---","tei":"\n\t\n\t\tOrthoMCL: identification of ortholog groups for eukaryotic genomes\n\t\t\n\t\t\tLLi\n\t\t\n\t\t\n\t\t\tCJStoeckert\n\t\t\n\t\t\n\t\t\tDSRoos\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c455e97723bebd8666a641"},"refKey":30},
{"_key":"60c455e97723bebd8666a643","_id":"references/60c455e97723bebd8666a643","_rev":"_cfFlVkm---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c455e97723bebd8666a641"},"refKey":31},
{"_key":"60c455e97723bebd8666a644","_id":"references/60c455e97723bebd8666a644","_rev":"_cfFlVky---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tGpdProc\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c455e97723bebd8666a641"},"refKey":29},
{"_key":"60c455e97723bebd8666a645","_id":"references/60c455e97723bebd8666a645","_rev":"_cfFlVl----","tei":"\n\t\n\t\tFast gapped-read alignment with bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c455e97723bebd8666a641"},"refKey":28},
{"_key":"60c4562b7723bebd8666a67a","_id":"references/60c4562b7723bebd8666a67a","_rev":"_cfFlVlK---","tei":"\n\t\n\t\tR/qtl: highthroughput multiple QTL mapping\n\t\t\n\t\t\tDArends\n\t\t\n\t\t\n\t\t\tPPrins\n\t\t\n\t\t\n\t\t\tRCJansen\n\t\t\n\t\t\n\t\t\tKWBroman\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4562b7723bebd8666a679"},"refKey":4},
{"_key":"60c456397723bebd8666a68b","_id":"references/60c456397723bebd8666a68b","_rev":"_cfFlVlS---","tei":"\n\t\n\t\tGenome-wide profiling of chicken dendritic cell response to infectious bursal disease\n\t\t\n\t\t\tJianLin\n\t\t\n\t\t\n\t\t\tJingXia\n\t\t\n\t\t\n\t\t\tKeyunZhang\n\t\t\n\t\t\n\t\t\tQianYang\n\t\t\n\t\t10.1186/s12864-016-3157-5\n\t\t27816055\n\t\tPMC5097849\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c456397723bebd8666a68a"},"refKey":61},
{"_key":"60c4563b7723bebd8666a68f","_id":"references/60c4563b7723bebd8666a68f","_rev":"_cfFlVle---","tei":"\n\t\n\t\tSoftware for computing and annotating genomic ranges\n\t\t\n\t\t\tMLawrence\n\t\t\n\t\n\t\n\t\tPLoS Comput. Biol\n\t\t\n\t\t\t9\n\t\t\te1003118\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4563b7723bebd8666a68e"},"refKey":114},
{"_key":"60c4563b7723bebd8666a690","_id":"references/60c4563b7723bebd8666a690","_rev":"_cfFlVlq---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4563b7723bebd8666a68e"},"refKey":104},
{"_key":"60c4563b7723bebd8666a691","_id":"references/60c4563b7723bebd8666a691","_rev":"_cfFlVl2---","tei":"\n\t\n\t\tFalse Discovery Rates: A New Deal\n\t\t\n\t\t\tMatthewStephens\n\t\t\n\t\t10.1101/038216\n\t\t\n\t\n\t\n\t\tBiostatistics\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4563b7723bebd8666a68e"},"refKey":119},
{"_key":"60c456767723bebd8666a6e5","_id":"references/60c456767723bebd8666a6e5","_rev":"_cfFlVmC---","tei":"\n\t\n\t\tThe evolution of the ribosome biogenesis pathway from a yeast perspective\n\t\t\n\t\t\tIngoEbersberger\n\t\t\n\t\t\n\t\t\tStefanSimm\n\t\t\n\t\t\n\t\t\tMatthiasSLeisegang\n\t\t\n\t\t\n\t\t\tPeterSchmitzberger\n\t\t\n\t\t\n\t\t\tOliverMirus\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tMarkusTBohnsack\n\t\t\n\t\t\n\t\t\tEnricoSchleiff\n\t\t\n\t\t10.1093/nar/gkt1137\n\t\t24234440\n\t\tPMC3919561\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c456767723bebd8666a6e4"},"refKey":14},
{"_key":"60c456767723bebd8666a6e6","_id":"references/60c456767723bebd8666a6e6","_rev":"_cfFlVmO---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1093/bioinformatics/btu033\n\t\t24451623\n\t\tPMC3998144\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c456767723bebd8666a6e4"},"refKey":84},
{"_key":"60c456767723bebd8666a6e7","_id":"references/60c456767723bebd8666a6e7","_rev":"_cfFlVmW---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tInternational Conference on Intelligent Systems for Molecular Biology\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c456767723bebd8666a6e4"},"refKey":82},
{"_key":"60c456767723bebd8666a6e8","_id":"references/60c456767723bebd8666a6e8","_rev":"_cfFlVmi---","tei":"\n\t\n\t\tStatistics of local complexity in amino acid sequences and sequence databases\n\t\t\n\t\t\tJohnCWootton\n\t\t\n\t\t\n\t\t\tScottFederhen\n\t\t\n\t\t10.1016/0097-8485(93)85006-x\n\t\t0097-8485(93)85006-X\n\t\tark:/67375/6H6-7ZXJ664X-S\n\t\tF5BE6B0B88010469F29FB68CD17DBF75215FBF69\n\t\t\n\t\n\t\n\t\tComputers & Chemistry\n\t\tComputers & Chemistry\n\t\t0097-8485\n\t\t\n\t\t\t17\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c456767723bebd8666a6e4"},"refKey":104},
{"_key":"60c456767723bebd8666a6e9","_id":"references/60c456767723bebd8666a6e9","_rev":"_cfFlVmu---","tei":"\n\t\n\t\tSignalP 4.0: discriminating signal peptides from transmembrane regions\n\t\t\n\t\t\tThomasNordahlPetersen\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tHenrikNielsen\n\t\t\n\t\t10.1038/nmeth.1701\n\t\t21959131\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t8\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c456767723bebd8666a6e4"},"refKey":72},
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{"_key":"60c457747723bebd8666a765","_id":"references/60c457747723bebd8666a765","_rev":"_cfFlVna---","tei":"\n\t\n\t\tThe MR-Base platform supports systematic causal inference across the human phenome\n\t\t\n\t\t\tGibranHemani\n\t\t\t0000-0003-0920-1055\n\t\t\n\t\t\n\t\t\tJieZheng\n\t\t\t0000-0002-6623-6839\n\t\t\n\t\t\n\t\t\tBenjaminElsworth\n\t\t\n\t\t\n\t\t\tKaitlinHWade\n\t\t\t0000-0003-3362-6280\n\t\t\n\t\t\n\t\t\tValeriiaHaberland\n\t\t\n\t\t\n\t\t\tDenisBaird\n\t\t\t0000-0003-4600-6013\n\t\t\n\t\t\n\t\t\tCharlesLaurin\n\t\t\n\t\t\n\t\t\tStephenBurgess\n\t\t\t0000-0001-5365-8760\n\t\t\n\t\t\n\t\t\tJackBowden\n\t\t\n\t\t\n\t\t\tRyanLangdon\n\t\t\n\t\t\n\t\t\tVanessaYTan\n\t\t\t0000-0001-7938-127X\n\t\t\n\t\t\n\t\t\tJamesYarmolinsky\n\t\t\n\t\t\n\t\t\tHashemAShihab\n\t\t\n\t\t\n\t\t\tNicholasJTimpson\n\t\t\n\t\t\n\t\t\tDavidMEvans\n\t\t\n\t\t\n\t\t\tCarolineRelton\n\t\t\t0000-0003-2052-4840\n\t\t\n\t\t\n\t\t\tRichardMMartin\n\t\t\t0000-0002-7992-7719\n\t\t\n\t\t\n\t\t\tGeorgeDavey Smith\n\t\t\t0000-0002-1407-8314\n\t\t\n\t\t\n\t\t\tTomRGaunt\n\t\t\t0000-0003-0924-3247\n\t\t\n\t\t\n\t\t\tPhilipCHaycock\n\t\t\t0000-0001-5001-3350\n\t\t\n\t\t10.7554/elife.34408\n\t\t29846171\n\t\tPMC5976434\n\t\n\t\n\t\teLife\n\t\t2050-084X\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\teLife Sciences Publications, Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c457747723bebd8666a764"},"refKey":41},
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{"_key":"60c457ca7723bebd8666a79e","_id":"references/60c457ca7723bebd8666a79e","_rev":"_cfFlVny---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-a metadatadriven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c457ca7723bebd8666a79d"},"refKey":5},
{"_key":"60c457cc7723bebd8666a7a1","_id":"references/60c457cc7723bebd8666a7a1","_rev":"_cfFlVo----","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c457cc7723bebd8666a7a0"},"refKey":10},
{"_key":"60c457cc7723bebd8666a7a2","_id":"references/60c457cc7723bebd8666a7a2","_rev":"_cfFlVoG---","tei":"\n\t\n\t\tSpreaD3: Interactive Visualization of Spatiotemporal History and Trait Evolutionary Processes\n\t\t\n\t\t\tFilipBielejec\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tBramVrancken\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\n\t\t10.1093/molbev/msw082\n\t\t27189542\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c457cc7723bebd8666a7a0"},"refKey":16},
{"_key":"60c457cc7723bebd8666a7a3","_id":"references/60c457cc7723bebd8666a7a3","_rev":"_cfFlVoS---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tTommyTLam\n\t\t\n\t\t\n\t\t\tLuizMax Carvalho\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t10.1093/ve/vew007\n\t\t27774300\n\t\tPMC4989882\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\tVirus Evol\n\t\t2057-1577\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\tvew007\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c457cc7723bebd8666a7a0"},"refKey":13},
{"_key":"60c457cc7723bebd8666a7a4","_id":"references/60c457cc7723bebd8666a7a4","_rev":"_cfFlVoe---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c457cc7723bebd8666a7a0"},"refKey":6},
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{"_key":"60c4583d7723bebd8666a7f4","_id":"references/60c4583d7723bebd8666a7f4","_rev":"_cfFlVpK---","tei":"\n\t\n\t\tInstituto Nacional de Pesquisa Espacial\n\t\t\n\t\t\tBrasil\n\t\t\n\t\t\n\t\n\tacessado em 7 maio 2020\n\n","document":{"$oid":"60c4583d7723bebd8666a7f3"},"refKey":19},
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{"_key":"60c458467723bebd8666a7ff","_id":"references/60c458467723bebd8666a7ff","_rev":"_cfFlVpi---","tei":"\n\t\n\t\tSwissADME: a free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules\n\t\t\n\t\t\tAntoineDaina\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t10.1038/srep42717\n\t\t28256516\n\t\tPMC5335600\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t42717\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c458467723bebd8666a7fd"},"refKey":22},
{"_key":"60c4584f7723bebd8666a810","_id":"references/60c4584f7723bebd8666a810","_rev":"_cfFlVpu---","tei":"\n\t\n\t\tSOAP2: an improved ultrafast tool for short read alignment\n\t\t\n\t\t\tRLi\n\t\t\n\t\t\n\t\t\tCYu\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tT-WLam\n\t\t\n\t\t\n\t\t\tS-MYiu\n\t\t\n\t\t\n\t\t\tKKristiansen\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t10.1093/bioinformatics/btp336\n\t\t19497933\n\t\tark:/67375/HXZ-ZRGFTL32-H\n\t\t533F25C433DDF563D9D448BC06436A274691B803\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4584f7723bebd8666a80f"},"refKey":37},
{"_key":"60c458727723bebd8666a835","_id":"references/60c458727723bebd8666a835","_rev":"_cfFlVp2---","tei":"\n\t\n\t\tExploration of cell development pathways through high dimensional single cell analysis in trajectory space\n\t\t\n\t\t\tDenisDermadi\n\t\t\t0000-0001-6268-4178\n\t\t\n\t\t\n\t\t\tMichaelBscheider\n\t\t\t0000-0001-7808-3270\n\t\t\n\t\t\n\t\t\tKristinaBjegovic\n\t\t\n\t\t\n\t\t\tNicoleHLazarus\n\t\t\n\t\t\n\t\t\tAgataSzade\n\t\t\t0000-0002-0575-4659\n\t\t\n\t\t\n\t\t\tHuseinHadeiba\n\t\t\t0000-0002-2491-1365\n\t\t\n\t\t\n\t\t\tEugeneCButcher\n\t\t\n\t\t10.1101/336313\n\t\t\n\t\n\t\n\t\tIscience\n\t\t\n\t\t\t23\n\t\t\t100842\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c458727723bebd8666a834"},"refKey":12},
{"_key":"60c458727723bebd8666a836","_id":"references/60c458727723bebd8666a836","_rev":"_cfFlVqC---","tei":"\n\t\n\t\tBias, robustness and scalability in differential expression analysis of single-cell RNA-seq data\n\t\t\n\t\t\tCharlotteSoneson\n\t\t\n\t\t\n\t\t\tMarkDRobinson\n\t\t\n\t\t10.1101/143289\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c458727723bebd8666a834"},"refKey":39},
{"_key":"60c458727723bebd8666a837","_id":"references/60c458727723bebd8666a837","_rev":"_cfFlVqO---","tei":"\n\t\n\t\tReference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage\n\t\t\n\t\t\tDAran\n\t\t\n\t\t\n\t\t\tAPLooney\n\t\t\n\t\t\n\t\t\tLLiu\n\t\t\n\t\t\n\t\t\tEWu\n\t\t\n\t\t\n\t\t\tVFong\n\t\t\n\t\t\n\t\t\tAHsu\n\t\t\n\t\t\n\t\t\tSChak\n\t\t\n\t\t\n\t\t\tRPNaikawadi\n\t\t\n\t\t\n\t\t\tPJWolters\n\t\t\n\t\t\n\t\t\tARAbate\n\t\t\n\t\n\t\n\t\tNature Immunology\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c458727723bebd8666a834"},"refKey":2},
{"_key":"60c458727723bebd8666a838","_id":"references/60c458727723bebd8666a838","_rev":"_cfFlVqa---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c458727723bebd8666a834"},"refKey":26},
{"_key":"60c458727723bebd8666a839","_id":"references/60c458727723bebd8666a839","_rev":"_cfFlVqm---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c458727723bebd8666a834"},"refKey":13},
{"_key":"60c458727723bebd8666a83a","_id":"references/60c458727723bebd8666a83a","_rev":"_cfFlVqu---","tei":"\n\t\n\t\tEMPOWERING MULTI-COHORT GENE EXPRESSION ANALYSIS TO INCREASE REPRODUCIBILITY\n\t\t\n\t\t\tWinstonAHaynes\n\t\t\n\t\t\n\t\t\tFrancescoVallania\n\t\t\n\t\t\n\t\t\tCharlesLiu\n\t\t\n\t\t\n\t\t\tErikaBongen\n\t\t\n\t\t\n\t\t\tAurelieTomczak\n\t\t\n\t\t\n\t\t\tMartaAndres-Terrè\n\t\t\n\t\t\n\t\t\tShaneLofgren\n\t\t\n\t\t\n\t\t\tAndrewTam\n\t\t\n\t\t\n\t\t\tColeADeisseroth\n\t\t\n\t\t\n\t\t\tMatthewDLi\n\t\t\n\t\t\n\t\t\tTimothyESweeney\n\t\t\n\t\t\n\t\t\tPurveshKhatri\n\t\t\n\t\t10.1142/9789813207813_0015\n\t\t27896970\n\t\tPMC5167529\n\t\t\n\t\n\t\n\t\tBiocomputing 2017\n\t\t\t\t\n\t\t\tWORLD SCIENTIFIC\n\t\t\t\n\t\t\t22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c458727723bebd8666a834"},"refKey":22},
{"_key":"60c4588b7723bebd8666a853","_id":"references/60c4588b7723bebd8666a853","_rev":"_cfFlVq6---","tei":"\n\t\n\t\tVerified Model Checking of Timed Automata\n\t\t\n\t\t\tSimonWimmer\n\t\t\t0000-0001-5998-4655\n\t\t\n\t\t\n\t\t\tPeterLammich\n\t\t\t0000-0003-3576-0504\n\t\t\n\t\t10.1007/978-3-319-89960-2_4\n\t\t\n\t\t\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\t\n\t\t\tDBeyer\n\t\t\tMHuisman\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4588b7723bebd8666a852"},"refKey":33},
{"_key":"60c4588b7723bebd8666a854","_id":"references/60c4588b7723bebd8666a854","_rev":"_cfFlVrG---","tei":"\n\t\n\t\tTimed Automata: Semantics, Algorithms and Tools\n\t\t\n\t\t\tJohanBengtsson\n\t\t\n\t\t\n\t\t\tWangYi\n\t\t\n\t\t10.1007/978-3-540-27755-2_3\n\t\tark:/67375/HCB-5TVCHQQ5-5\n\t\t58AE0EF0EAC08B31F86835E47ABAA40D2919F4D2\n\t\t\n\t\t\n\t\n\t\n\t\tLectures on Concurrency and Petri Nets\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t3908\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4588b7723bebd8666a852"},"refKey":4},
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{"_key":"60c4588e7723bebd8666a870","_id":"references/60c4588e7723bebd8666a870","_rev":"_cfFlVry---","tei":"\n\t\n\t\t\n\t\t\tRCGentleman\n\t\t\n\t\t\n\t\t\tVJCarey\n\t\t\n\t\t\n\t\t\tDMBates\n\t\t\n\t\t\n\t\t\tBBolstad\n\t\t\n\t\t\n\t\t\tMDettling\n\t\t\n\t\t\n\t\t\tSDudoit\n\t\t\n\t\t\n\t\t\tBEllis\n\t\t\n\t\t\n\t\t\tLGautier\n\t\t\n\t\t\n\t\t\tYGe\n\t\t\n\t\t\n\t\t\tJGentry\n\t\t\n\t\n\t\n\t\tBioconductor: open software development for computational biology and bioinformatics\n\t\t\t\t\n\t\t\t\n\t\t\t5\n\t\t\tR80\n\t\t\n\t\n\n","document":{"$oid":"60c4588e7723bebd8666a86e"},"refKey":40},
{"_key":"60c4588e7723bebd8666a871","_id":"references/60c4588e7723bebd8666a871","_rev":"_cfFlVs----","tei":"\n\t\n\t\tBiostrings: String objects representing biological sequences, and matching algorithms. R package version\n\t\t\n\t\t\tHPages\n\t\t\n\t\t\n\t\t\tPAboyoun\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\t\n\t\t\tSDebroy\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4588e7723bebd8666a86e"},"refKey":41},
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{"_key":"60c4589a7723bebd8666a882","_id":"references/60c4589a7723bebd8666a882","_rev":"_cfFlVsS---","tei":"\n\t\n\t\tMatchIt: nonparametric preprocessing for parametric causal inference\n\t\t\n\t\t\tDEHo\n\t\t\n\t\t\n\t\t\tKImai\n\t\t\n\t\t\n\t\t\tGKing\n\t\t\n\t\t\n\t\t\tEAStuart\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4589a7723bebd8666a880"},"refKey":18},
{"_key":"60c4589e7723bebd8666a887","_id":"references/60c4589e7723bebd8666a887","_rev":"_cfFlVse---","tei":"\n\t\n\t\tEMAN2: an extensible image processing suite for electron microscopy\n\t\t\n\t\t\tGTang\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4589e7723bebd8666a886"},"refKey":42},
{"_key":"60c4589e7723bebd8666a888","_id":"references/60c4589e7723bebd8666a888","_rev":"_cfFlVsq---","tei":"\n\t\n\t\tEMAN: semiautomated software for highresolution single-particle reconstructions\n\t\t\n\t\t\tSJLudtke\n\t\t\n\t\t\n\t\t\tPRBaldwin\n\t\t\n\t\t\n\t\t\tWChiu\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4589e7723bebd8666a886"},"refKey":43},
{"_key":"60c4589e7723bebd8666a889","_id":"references/60c4589e7723bebd8666a889","_rev":"_cfFlVs2---","tei":"\n\t\n\t\tFREALIGN: high-resolution refinement of single particle structures\n\t\t\n\t\t\tNGrigorieff\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4589e7723bebd8666a886"},"refKey":40},
{"_key":"60c458a97723bebd8666a895","_id":"references/60c458a97723bebd8666a895","_rev":"_cfFlVtC---","tei":"\n\t\n\t\tPorcine deltacoronavirus (PDCoV, QBQ34480) were used in ClustalW analysis. Accession codes in parentheses are for NCBI. Four genera of coronaviruses are\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t10.1002/pro.3235\n\t\t28710774\n\t\tPMC5734306\n\t\n\t\n\t\tHuman coronavirus 229E (HCoV-229E, AGW80667), Transmissible gastroenteritis virus (TGEV, ABC72413), Infectious bronchitis virus (IBV, YP_009824996), Turkey coronavirus (TCoV, YP_001941164)\n\t\t\t\tHCoV-OC43, YP_009555238), Rat coronavirus Parker (RCoV, YP_003029844\n\t\t\n\t\t\t\n\t\t\t27\n\t\t\t\n\t\t\n\t\n\tMiddle East respiratory syndrome-related coronavirus (MERS-CoV, QGV13494). indicated as α, β, γ and δ, respectively. The residues with direct contact in nsp8(I)\n\n","document":{"$oid":"60c458a97723bebd8666a894"},"refKey":50},
{"_key":"60c458a97723bebd8666a896","_id":"references/60c458a97723bebd8666a896","_rev":"_cfFlVtK---","tei":"\n\t\n\t\tcryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tJohnLRubinstein\n\t\t\t0000-0003-0566-2209\n\t\t\n\t\t\n\t\t\tDavidJFleet\n\t\t\n\t\t\n\t\t\tMarcusABrubaker\n\t\t\t0000-0002-7892-9026\n\t\t\n\t\t10.1038/nmeth.4169\n\t\t28165473\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c458a97723bebd8666a894"},"refKey":38},
{"_key":"60c458a97723bebd8666a897","_id":"references/60c458a97723bebd8666a897","_rev":"_cfFlVtW---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c458a97723bebd8666a894"},"refKey":43},
{"_key":"60c458b47723bebd8666a8a6","_id":"references/60c458b47723bebd8666a8a6","_rev":"_cfFlVti---","tei":"\n\t\n\t\tStereochemical control in the preparation of α-amino N-methylthiazolidine masked aldehydes used for peptide aldehydes synthesis\n\t\t\n\t\t\tChristelGros\n\t\t\n\t\t\n\t\t\tCyrilBoulègue\n\t\t\n\t\t\n\t\t\tNathalieGaleotti\n\t\t\n\t\t\n\t\t\tGillesNiel\n\t\t\n\t\t\n\t\t\tPatrickJouin\n\t\t\n\t\t10.1016/s0040-4020(02)00115-1\n\t\n\t\n\t\tTetrahedron\n\t\tTetrahedron\n\t\t0040-4020\n\t\t\n\t\t\t58\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c458b47723bebd8666a8a5"},"refKey":40},
{"_key":"60c458b47723bebd8666a8a7","_id":"references/60c458b47723bebd8666a8a7","_rev":"_cfFlVtu---","tei":"\n\t\n\t\tAutomated synthesis of peptide C-terminal aldehydes\n\t\t\n\t\t\tAileenMMurphy\n\t\t\n\t\t\n\t\t\tRaymondDagnino\n\t\t\n\t\t\n\t\t\tPurezaLVallar\n\t\t\n\t\t\n\t\t\tAnthonyJTrippe\n\t\t\n\t\t\n\t\t\tShannonLSherman\n\t\t\n\t\t\n\t\t\tRichardHLumpkin\n\t\t\n\t\t\n\t\t\tSusanYTamura\n\t\t\n\t\t\n\t\t\tThomasRWebb\n\t\t\n\t\t10.1021/ja00034a082\n\t\n\t\n\t\tJournal of the American Chemical Society\n\t\tJ. Am. Chem. Soc.\n\t\t0002-7863\n\t\t\n\t\t\t114\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c458b47723bebd8666a8a5"},"refKey":39},
{"_key":"60c458bc7723bebd8666a8b3","_id":"references/60c458bc7723bebd8666a8b3","_rev":"_cfFlVt6---","tei":"\n\t\n\t\tUCSF ChimeraX: meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c458bc7723bebd8666a8b2"},"refKey":50},
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{"_key":"60c458bf7723bebd8666a8c4","_id":"references/60c458bf7723bebd8666a8c4","_rev":"_cfFlVua---","tei":"\n\t\n\t\tCrystallography and NMR system: a new software suite for macromolecular structure determination\n\t\t\n\t\t\tATBrunger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tGMClore\n\t\t\n\t\t\n\t\t\tW LDelano\n\t\t\n\t\t\n\t\t\tPGros\n\t\t\n\t\t\n\t\t\tGrosse-Kunstleve\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c458bf7723bebd8666a8c2"},"refKey":33},
{"_key":"60c458e97723bebd8666a908","_id":"references/60c458e97723bebd8666a908","_rev":"_cfFlVum---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c458e97723bebd8666a907"},"refKey":13},
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{"_key":"60c4590b7723bebd8666a94d","_id":"references/60c4590b7723bebd8666a94d","_rev":"_cfFlVvC---","tei":"\n\t\n\t\tPDB-Dev: a Prototype System for Depositing Integrative/Hybrid Structural Models\n\t\t\n\t\t\tStephenKBurley\n\t\t\n\t\t\n\t\t\tGenjiKurisu\n\t\t\n\t\t\n\t\t\tJohnLMarkley\n\t\t\n\t\t\n\t\t\tHarukiNakamura\n\t\t\n\t\t\n\t\t\tSameerVelankar\n\t\t\n\t\t\n\t\t\tHelenMBerman\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\n\t\t\n\t\t\tJillTrewhella\n\t\t\n\t\t10.1016/j.str.2017.08.001\n\t\t28877501\n\t\tPMC5821105\n\t\t\n\t\n\t\n\t\tStructure\n\t\tStructure\n\t\t0969-2126\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4590b7723bebd8666a94c"},"refKey":14},
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{"_key":"60c459187723bebd8666a966","_id":"references/60c459187723bebd8666a966","_rev":"_cfFlVv6---","tei":"\n\t\n\t\t\n\t\tCypher Query Language\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c459187723bebd8666a964"},"refKey":12},
{"_key":"60c459437723bebd8666a97c","_id":"references/60c459437723bebd8666a97c","_rev":"_cfFlVwG---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c459437723bebd8666a97b"},"refKey":87},
{"_key":"60c459507723bebd8666a986","_id":"references/60c459507723bebd8666a986","_rev":"_cfFlVwS---","tei":"\n\t\n\t\tStandardizing anthropometric measures in children and adolescents with functions for egen: Update\n\t\t\n\t\t\tSIVidmar\n\t\t\n\t\t\n\t\t\tTJCole\n\t\t\n\t\t\n\t\t\tHPan\n\t\t\n\t\n\t\n\t\tStata Journal\n\t\t\n\t\t\t13\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c459507723bebd8666a985"},"refKey":44},
{"_key":"60c459607723bebd8666a98f","_id":"references/60c459607723bebd8666a98f","_rev":"_cfFlVwe---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/s0021889892009944\n\t\tark:/67375/WNG-1V02WKNX-V\n\t\t7FF6EABFE5D6E9AB8536E310B9782B625E4CA368\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c459607723bebd8666a98e"},"refKey":104},
{"_key":"60c459607723bebd8666a990","_id":"references/60c459607723bebd8666a990","_rev":"_cfFlVwq---","tei":"\n\t\n\t\tAssessing protein structures with a non-local atomic interaction energy\n\t\t\n\t\t\tFranciscoMelo\n\t\t\n\t\t\n\t\t\tErnestFeytmans\n\t\t\n\t\t10.1006/jmbi.1998.1665\n\t\t9571028\n\t\tS0022-2836(98)91665-5\n\t\tark:/67375/6H6-HGN8F4FC-L\n\t\tCC4CA75910C042D9EC0D9646BC84D5455DE6A7F0\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t277\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c459607723bebd8666a98e"},"refKey":105},
{"_key":"60c459607723bebd8666a991","_id":"references/60c459607723bebd8666a991","_rev":"_cfFlVwy---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c459607723bebd8666a98e"},"refKey":114},
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{"_key":"60c459607723bebd8666a993","_id":"references/60c459607723bebd8666a993","_rev":"_cfFlVxK---","tei":"\n\t\n\t\tSwissDock, a protein-small molecule docking web service based on EADock DSS\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\t10.1093/nar/gkr366\n\t\t21624888\n\t\tPMC3125772\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t39\n\t\t\tsuppl\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c459607723bebd8666a98e"},"refKey":112},
{"_key":"60c459607723bebd8666a994","_id":"references/60c459607723bebd8666a994","_rev":"_cfFlVxW---","tei":"\n\t\n\t\tFast docking using the CHARMM force field with EADock DSS\n\t\t\n\t\t\tAurélienGrosdidier\n\t\t\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t10.1002/jcc.21797\n\t\t21541955\n\t\tark:/67375/WNG-00375W6V-2\n\t\t498FCBEAB91B490AC28133B9343933752D85B565\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t32\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c459607723bebd8666a98e"},"refKey":113},
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{"_key":"60c459b37723bebd8666a9da","_id":"references/60c459b37723bebd8666a9da","_rev":"_cfFlVxq---","tei":"\n\t\n\t\tNormalization of Real-Time Quantitative Reverse Transcription-PCR Data: A Model-Based Variance Estimation Approach to Identify Genes Suited for Normalization, Applied to Bladder and Colon Cancer Data Sets\n\t\t\n\t\t\tClausLindbjergAndersen\n\t\t\n\t\t\n\t\t\tJensLedetJensen\n\t\t\n\t\t\n\t\t\tTorbenFalckØrntoft\n\t\t\n\t\t10.1158/0008-5472.can-04-0496\n\t\t15289330\n\t\t\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t64\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c459b37723bebd8666a9d8"},"refKey":23},
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{"_key":"60c45a397723bebd8666aa5e","_id":"references/60c45a397723bebd8666aa5e","_rev":"_cfFlVyO---","tei":"\n\t\n\t\tThe mosaic Package: Helping Students to Think with Data Using R\n\t\t\n\t\t\tRandallPruim\n\t\t\n\t\t\n\t\t\tDaniel,TKaplan\n\t\t\n\t\t\n\t\t\tNicholas,JHorton\n\t\t\n\t\t10.32614/rj-2017-024\n\t\t\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\tThe R Journal\n\t\t2073-4859\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t77\n\t\t\t\n\t\t\tThe R Foundation\n\t\t\n\t\n\n","document":{"$oid":"60c45a397723bebd8666aa5c"},"refKey":50},
{"_key":"60c45a3d7723bebd8666aa63","_id":"references/60c45a3d7723bebd8666aa63","_rev":"_cfFlVya---","tei":"\n\t\n\t\tMaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteomewide protein quantification\n\t\t\n\t\t\tJCox\n\t\t\n\t\t\n\t\t\tMMann\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t26\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45a3d7723bebd8666aa62"},"refKey":43},
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{"_key":"60c45a847723bebd8666aa8a","_id":"references/60c45a847723bebd8666aa8a","_rev":"_cfFlVyu---","tei":"\n\t\n\t\tDifferential expression analysis of multifactor RNA-Seq experiments with respect to biological variation\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45a847723bebd8666aa89"},"refKey":81},
{"_key":"60c45a847723bebd8666aa8b","_id":"references/60c45a847723bebd8666aa8b","_rev":"_cfFlVy6---","tei":"\n\t\n\t\tBioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45a847723bebd8666aa89"},"refKey":82},
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{"_key":"60c45aa07723bebd8666aaa3","_id":"references/60c45aa07723bebd8666aaa3","_rev":"_cfFlVzS---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45aa07723bebd8666aaa2"},"refKey":69},
{"_key":"60c45aa07723bebd8666aaa4","_id":"references/60c45aa07723bebd8666aaa4","_rev":"_cfFlVza---","tei":"\n\t\n\t\tMAGeCK enables robust identification of essential genes from genome-scale CRISPR/Cas9 knockout screens\n\t\t\n\t\t\tWeiLi\n\t\t\n\t\t\n\t\t\tHanXu\n\t\t\n\t\t\n\t\t\tTengfeiXiao\n\t\t\n\t\t\n\t\t\tLeCong\n\t\t\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tFengZhang\n\t\t\n\t\t\n\t\t\tRafaelAIrizarry\n\t\t\n\t\t\n\t\t\tJunSLiu\n\t\t\n\t\t\n\t\t\tMylesBrown\n\t\t\n\t\t\n\t\t\tXSLiu\n\t\t\n\t\t10.1186/preaccept-1316450832143458\n\t\t25476604\n\t\tPMC4290824\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t554\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c45aa07723bebd8666aaa2"},"refKey":44},
{"_key":"60c45aa07723bebd8666aaa5","_id":"references/60c45aa07723bebd8666aaa5","_rev":"_cfFlVzm---","tei":"\n\t\n\t\tUnsupervised correction of gene-independent cell responses to CRISPR-Cas9 targeting\n\t\t\n\t\t\tFrancescoIorio\n\t\t\t0000-0001-7063-8913\n\t\t\n\t\t\n\t\t\tFionaMBehan\n\t\t\n\t\t\n\t\t\tEmanuelGonçalves\n\t\t\t0000-0002-9967-5205\n\t\t\n\t\t\n\t\t\tShriramGBhosle\n\t\t\n\t\t\n\t\t\tElisabethChen\n\t\t\n\t\t\n\t\t\tRebeccaShepherd\n\t\t\n\t\t\n\t\t\tCharlotteBeaver\n\t\t\n\t\t\n\t\t\tRizwanAnsari\n\t\t\n\t\t\n\t\t\tRachelPooley\n\t\t\n\t\t\n\t\t\tPiersWilkinson\n\t\t\n\t\t\n\t\t\tSarahHarper\n\t\t\n\t\t\n\t\t\tAdamPButler\n\t\t\n\t\t\n\t\t\tEuanAStronach\n\t\t\n\t\t\n\t\t\tJulioSaez-Rodriguez\n\t\t\t0000-0002-8552-8976\n\t\t\n\t\t\n\t\t\tKosukeYusa\n\t\t\n\t\t\n\t\t\tMathewJGarnett\n\t\t\n\t\t10.1101/228189\n\t\t\n\t\n\t\n\t\tBMC Genom\n\t\t\n\t\t\t19\n\t\t\t604\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c45aa07723bebd8666aaa2"},"refKey":33},
{"_key":"60c45ab37723bebd8666aaf5","_id":"references/60c45ab37723bebd8666aaf5","_rev":"_cfFlVzy---","tei":"\n\t\n\t\tG*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t10.3758/bf03193146\n\t\t17695343\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c45ab37723bebd8666aaf4"},"refKey":21},
{"_key":"60c45ac17723bebd8666aaff","_id":"references/60c45ac17723bebd8666aaff","_rev":"_cfFlV0----","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45ac17723bebd8666aafe"},"refKey":26},
{"_key":"60c45ac17723bebd8666ab00","_id":"references/60c45ac17723bebd8666ab00","_rev":"_cfFlV0K---","tei":"\n\t\n\t\tPHENIX: building new software for automated crystallographic structure determination\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tTRIoerger\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t58\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45ac17723bebd8666aafe"},"refKey":27},
{"_key":"60c45ac17723bebd8666ab01","_id":"references/60c45ac17723bebd8666ab01","_rev":"_cfFlV0S---","tei":"\n\t\n\t\tMOLPROB-ITY: structure validation and all-atom contact analysis for nucleic acids and their complexes\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45ac17723bebd8666aafe"},"refKey":28},
{"_key":"60c45af27723bebd8666ab21","_id":"references/60c45af27723bebd8666ab21","_rev":"_cfFlV0e---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c45af27723bebd8666ab20"},"refKey":75},
{"_key":"60c45af67723bebd8666ab26","_id":"references/60c45af67723bebd8666ab26","_rev":"_cfFlV0q---","tei":"\n\t\n\t\tBioconductor: Open software development for computational biology and bioinformatics\n\t\t\n\t\t\tRCGentleman\n\t\t\n\t\t\n\t\t\tVJCarey\n\t\t\n\t\t\n\t\t\tDMBates\n\t\t\n\t\t\n\t\t\tBBolstad\n\t\t\n\t\t\n\t\t\tMDettling\n\t\t\n\t\t\n\t\t\tSDudoit\n\t\t\n\t\t\n\t\t\tBEllis\n\t\t\n\t\t\n\t\t\tLGautier\n\t\t\n\t\t\n\t\t\tYGe\n\t\t\n\t\t\n\t\t\tJGentry\n\t\t\n\t\t10.1186/gb-2004-5-10-r80\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t5\n\t\t\tR80\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45af67723bebd8666ab25"},"refKey":16},
{"_key":"60c45b397723bebd8666ab6c","_id":"references/60c45b397723bebd8666ab6c","_rev":"_cfFlV02---","tei":"\n\t\n\t\tModel-based analysis of ChIP-Seq (MACS)\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45b397723bebd8666ab6b"},"refKey":11},
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{"_key":"60c45b397723bebd8666ab6e","_id":"references/60c45b397723bebd8666ab6e","_rev":"_cfFlV1O---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45b397723bebd8666ab6b"},"refKey":10},
{"_key":"60c45b397723bebd8666ab6f","_id":"references/60c45b397723bebd8666ab6f","_rev":"_cfFlV1a---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45b397723bebd8666ab6b"},"refKey":4},
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{"_key":"60c45c5a7723bebd8666ac8d","_id":"references/60c45c5a7723bebd8666ac8d","_rev":"_cfFlV6S---","tei":"\n\t\n\t\tGeneralized X-ray and neutron crystallographic analysis: more accurate and complete structures for biological macromolecules\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tMaratMustyakimov\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tPaulLangan\n\t\t\n\t\t10.1107/s0907444909011548\n\t\t19465771\n\t\tPMC2685734\n\t\tark:/67375/WNG-LFPRJ7JC-7\n\t\tE916D63BD25AB9078B70BE6603D05AB3F491C94B\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t65\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c45c5a7723bebd8666ac8b"},"refKey":40},
{"_key":"60c45c5a7723bebd8666ac8e","_id":"references/60c45c5a7723bebd8666ac8e","_rev":"_cfFlV6e---","tei":"\n\t\n\t\t) nCNS; an open source distribution patch for CNS for macromolecular structure refinement\n\t\t\n\t\t\tMMustyakimov\n\t\t\n\t\t\n\t\t\tPLangan\n\t\t\n\t\t\n\t\t\t\n\t\t\tLos Alamos National Security, Los Alamos, NM, USA\n\t\t\n\t\n\n","document":{"$oid":"60c45c5a7723bebd8666ac8b"},"refKey":60},
{"_key":"60c45cd07723bebd8666acd5","_id":"references/60c45cd07723bebd8666acd5","_rev":"_cfFlV6q---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMedcalc\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45cd07723bebd8666acd4"},"refKey":21},
{"_key":"60c45cf37723bebd8666ace0","_id":"references/60c45cf37723bebd8666ace0","_rev":"_cfFlV62---","tei":"\n\t\n\t\tStata statistical software: release 15\n\t\t\n\t\t\tStatacorp\n\t\t\n\t\n\t\n\t\tStata-Corp LLC\n\t\t\t\tCollege Station, TX\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45cf37723bebd8666acdf"},"refKey":38},
{"_key":"60c45cf37723bebd8666ace1","_id":"references/60c45cf37723bebd8666ace1","_rev":"_cfFlV7----","tei":"\n\t\n\t\tA cluster randomized controlled trial of extending ART refill intervals to six-monthly for anti-retroviral adherence clubs\n\t\t\n\t\t\tLynneWilkinson\n\t\t\n\t\t\n\t\t\tAnnaGrimsrud\n\t\t\n\t\t\n\t\t\tTaliCassidy\n\t\t\t0000-0003-1268-3331\n\t\t\n\t\t\n\t\t\tCatherineOrrell\n\t\t\n\t\t\n\t\t\tJacquelineVoget\n\t\t\n\t\t\n\t\t\tHelenHayes\n\t\t\n\t\t\n\t\t\tClaireKeene\n\t\t\n\t\t\n\t\t\tSarahJaneSteele\n\t\t\n\t\t\n\t\t\tRoddGerstenhaber\n\t\t\n\t\t10.1186/s12879-019-4287-6\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Infectious Diseases\n\t\tBMC Infect Dis\n\t\t1471-2334\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t674\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c45cf37723bebd8666acdf"},"refKey":34},
{"_key":"60c45cf37723bebd8666ace2","_id":"references/60c45cf37723bebd8666ace2","_rev":"_cfFlV7K---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45cf37723bebd8666acdf"},"refKey":37},
{"_key":"60c45d377723bebd8666acfc","_id":"references/60c45d377723bebd8666acfc","_rev":"_cfFlV7W---","tei":"\n\t\n\t\tEfficient multiple genome alignment\n\t\t\n\t\t\tMHohl\n\t\t\n\t\t\n\t\t\tSKurtz\n\t\t\n\t\t\n\t\t\tEOhlebusch\n\t\t\n\t\t10.1093/bioinformatics/18.suppl_1.s312\n\t\t12169561\n\t\t1460-2059\n\t\tark:/67375/HXZ-88LJ8WV1-N\n\t\t8DD13647CD013829333200AADD4ED2AC114E5F8D\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t18\n\t\t\tSuppl 1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c45d377723bebd8666acfb"},"refKey":9},
{"_key":"60c45d5c7723bebd8666ad2a","_id":"references/60c45d5c7723bebd8666ad2a","_rev":"_cfFlV7i---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSampSize\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d5c7723bebd8666ad29"},"refKey":26},
{"_key":"60c45d847723bebd8666ad3c","_id":"references/60c45d847723bebd8666ad3c","_rev":"_cfFlV7u---","tei":"\n\t\n\t\tDetecting microRNA binding and siRNA off-target effects from expression data\n\t\t\n\t\t\tStijnVan Dongen\n\t\t\n\t\t\n\t\t\tCeiAbreu-Goodger\n\t\t\n\t\t\n\t\t\tAntonJEnright\n\t\t\n\t\t10.1038/nmeth.1267\n\t\t18978784\n\t\tPMC2635553\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t5\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c45d847723bebd8666ad3b"},"refKey":34},
{"_key":"60c45d847723bebd8666ad3d","_id":"references/60c45d847723bebd8666ad3d","_rev":"_cfFlV72---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d847723bebd8666ad3b"},"refKey":66},
{"_key":"60c45d847723bebd8666ad3e","_id":"references/60c45d847723bebd8666ad3e","_rev":"_cfFlV8C---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d847723bebd8666ad3b"},"refKey":67},
{"_key":"60c45d967723bebd8666ad54","_id":"references/60c45d967723bebd8666ad54","_rev":"_cfFlV8O---","tei":"\n\t\n\t\tCanu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation\n\t\t\n\t\t\tSKoren\n\t\t\n\t\t\n\t\t\tBPWalenz\n\t\t\n\t\t\n\t\t\tKBerlin\n\t\t\n\t\t\n\t\t\tJRMiller\n\t\t\n\t\t\n\t\t\tNHBergman\n\t\t\n\t\t\n\t\t\tAMPhillippy\n\t\t\n\t\tgr.215087.116\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":40},
{"_key":"60c45d967723bebd8666ad55","_id":"references/60c45d967723bebd8666ad55","_rev":"_cfFlV8a---","tei":"\n\t\n\t\tfinished microbial genome assemblies from long-read SMRT sequencing data\n\t\t\n\t\t\tC-SChin\n\t\t\n\t\t\n\t\t\tDHAlexander\n\t\t\n\t\t\n\t\t\tPMarks\n\t\t\n\t\t\n\t\t\tAAKlammer\n\t\t\n\t\t\n\t\t\tJDrake\n\t\t\n\t\t\n\t\t\tCHeiner\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":42},
{"_key":"60c45d967723bebd8666ad56","_id":"references/60c45d967723bebd8666ad56","_rev":"_cfFlV8m---","tei":"\n\t\n\t\tPlasmodium falciparum Erythrocyte Membrane Protein 1 Diversity in Seven Genomes – Divide and Conquer\n\t\t\n\t\t\tThomasSRask\n\t\t\n\t\t\n\t\t\tDanielAHansen\n\t\t\n\t\t\n\t\t\tThorGTheander\n\t\t\n\t\t\n\t\t\tAndersGorm Pedersen\n\t\t\n\t\t\n\t\t\tThomasLavstsen\n\t\t\n\t\t10.1371/journal.pcbi.1000933\n\t\t20862303\n\t\tPMC2940729\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t6\n\t\t\t9\n\t\t\te1000933\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":49},
{"_key":"60c45d967723bebd8666ad57","_id":"references/60c45d967723bebd8666ad57","_rev":"_cfFlV8u---","tei":"\n\t\n\t\tGMAP: a genomic mapping and alignment program for mRNA and EST sequences\n\t\t\n\t\t\tTDWu\n\t\t\n\t\t\n\t\t\tCKWatanabe\n\t\t\n\t\n\t\n\t\tBioinforma Oxf Engl\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":44},
{"_key":"60c45d967723bebd8666ad58","_id":"references/60c45d967723bebd8666ad58","_rev":"_cfFlV86---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to singlecell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":51},
{"_key":"60c45d967723bebd8666ad59","_id":"references/60c45d967723bebd8666ad59","_rev":"_cfFlV9G---","tei":"\n\t\n\t\tNetMHCpan-3.0; improved prediction of binding to MHC class I molecules integrating information from multiple receptor and peptide length datasets\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t\n\t\t\tMAndreatta\n\t\t\n\t\n\t\n\t\tGenome Med\n\t\t\n\t\t\t8\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":53},
{"_key":"60c45d967723bebd8666ad5a","_id":"references/60c45d967723bebd8666ad5a","_rev":"_cfFlV9S---","tei":"\n\t\n\t\tNew var reconstruction algorithm exposes high var sequence diversity in a single geographic location in Mali\n\t\t\n\t\t\tAntoineDara\n\t\t\n\t\t\n\t\t\tElliottFDrábek\n\t\t\n\t\t\n\t\t\tMarkATravassos\n\t\t\n\t\t\n\t\t\tKaraAMoser\n\t\t\n\t\t\n\t\t\tArthurLDelcher\n\t\t\n\t\t\n\t\t\tQiSu\n\t\t\n\t\t\n\t\t\tTimothyHostelley\n\t\t\n\t\t\n\t\t\tDrissaCoulibaly\n\t\t\n\t\t\n\t\t\tModiboDaou\n\t\t\n\t\t\n\t\t\tAhmadouDembele\n\t\t\n\t\t\n\t\t\tIssaDiarra\n\t\t\n\t\t\n\t\t\tAbdoulayeKKone\n\t\t\n\t\t\n\t\t\tBouremaKouriba\n\t\t\n\t\t\n\t\t\tMatthewBLaurens\n\t\t\n\t\t\n\t\t\tAmadouNiangaly\n\t\t\n\t\t\n\t\t\tKarimTraore\n\t\t\n\t\t\n\t\t\tYoussoufTolo\n\t\t\n\t\t\n\t\t\tClaireMFraser\n\t\t\n\t\t\n\t\t\tMahamadouAThera\n\t\t\n\t\t\n\t\t\tAbdoulayeADjimde\n\t\t\n\t\t\n\t\t\tOgobaraKDoumbo\n\t\t\n\t\t\n\t\t\tChristopherVPlowe\n\t\t\n\t\t\n\t\t\tJoanaCSilva\n\t\t\n\t\t10.1186/s13073-017-0422-4\n\t\t28351419\n\t\tPMC5368897\n\t\t\n\t\n\t\n\t\tGenome Medicine\n\t\tGenome Med\n\t\t1756-994X\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t30\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":48},
{"_key":"60c45d967723bebd8666ad5b","_id":"references/60c45d967723bebd8666ad5b","_rev":"_cfFlV9e---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":50},
{"_key":"60c45d967723bebd8666ad5c","_id":"references/60c45d967723bebd8666ad5c","_rev":"_cfFlV9m---","tei":"\n\t\n\t\tPilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement\n\t\t\n\t\t\tBJWalker\n\t\t\n\t\t\n\t\t\tTAbeel\n\t\t\n\t\t\n\t\t\tTShea\n\t\t\n\t\t\n\t\t\tMPriest\n\t\t\n\t\t\n\t\t\tAAbouelliel\n\t\t\n\t\t\n\t\t\tSSakthikumar\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t9\n\t\t\t11\n\t\t\te112963\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":43},
{"_key":"60c45d967723bebd8666ad5d","_id":"references/60c45d967723bebd8666ad5d","_rev":"_cfFlV9y---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\n\t\n\t\tMol Syst Biol\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":46},
{"_key":"60c45d967723bebd8666ad5e","_id":"references/60c45d967723bebd8666ad5e","_rev":"_cfFlW-----","tei":"\n\t\n\t\tFast model-based estimation of ancestry in unrelated individuals\n\t\t\n\t\t\tDHAlexander\n\t\t\n\t\t\n\t\t\tJNovembre\n\t\t\n\t\t\n\t\t\tKLange\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45d967723bebd8666ad53"},"refKey":62},
{"_key":"60c45db27723bebd8666ad82","_id":"references/60c45db27723bebd8666ad82","_rev":"_cfFlW-K---","tei":"\n\t\n\t\tA Fast Algorithm for the Minimum Covariance Determinant Estimator\n\t\t\n\t\t\tPeterJRousseeuw\n\t\t\n\t\t\n\t\t\tKatrienVan Driessen\n\t\t\n\t\t10.2307/1270566\n\t\n\t\n\t\tTechnometrics\n\t\tTechnometrics\n\t\t0040-1706\n\t\t\n\t\t\t41\n\t\t\t3\n\t\t\t212\n\t\t\t\n\t\t\tJSTOR\n\t\t\n\t\n\n","document":{"$oid":"60c45db27723bebd8666ad81"},"refKey":13},
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{"_key":"60c45e277723bebd8666ae33","_id":"references/60c45e277723bebd8666ae33","_rev":"_cfFlW_6---","tei":"\n\t\n\t\tTowards automated crystallographic structure refinement withphenix.refine\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tMaratMustyakimov\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1107/s0907444912001308\n\t\t22505256\n\t\tPMC3322595\n\t\tark:/67375/WNG-MXJ2DPRR-0\n\t\tBD670148C9B6E82421013A29392A96BB55B63272\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t68\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c45e277723bebd8666ae30"},"refKey":18},
{"_key":"60c45e357723bebd8666ae46","_id":"references/60c45e357723bebd8666ae46","_rev":"_cfFlWAC---","tei":"\n\t\n\t\tThe Taiwan Biobank\n\t\t\n\t\t\tTaiwanView\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45e357723bebd8666ae45"},"refKey":27},
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{"_key":"60c45e5b7723bebd8666ae66","_id":"references/60c45e5b7723bebd8666ae66","_rev":"_cfFlWAa---","tei":"\n\t\n\t\tA Brief Introduction to Analyzing Social Network Data\n\t\t\n\t\t\tRobertAHanneman\n\t\t\n\t\t\n\t\t\tMarkRiddle\n\t\t\n\t\t10.4135/9781446294413.n23\n\t\t\n\t\n\t\n\t\tThe SAGE Handbook of Social Network Analysis\n\t\t\t\t\n\t\t\tSAGE Publications Ltd\n\t\t\t2005. 23 December 2008\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45e5b7723bebd8666ae65"},"refKey":18},
{"_key":"60c45e5b7723bebd8666ae67","_id":"references/60c45e5b7723bebd8666ae67","_rev":"_cfFlWAm---","tei":"\n\t\n\t\tA simple, fast and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c45e5b7723bebd8666ae65"},"refKey":20},
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{"_key":"60c4612f7723bebd8666b082","_id":"references/60c4612f7723bebd8666b082","_rev":"_cfFlWGq---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignments through sequence weighting, position specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4612f7723bebd8666b080"},"refKey":106},
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{"_key":"60c461857723bebd8666b0be","_id":"references/60c461857723bebd8666b0be","_rev":"_cfFlWHC---","tei":"\n\t\n\t\tAdamMC -A Model Checker for Petri Nets with Transits against Flow-LTL\n\t\t\n\t\t\tBFinkbeiner\n\t\t\n\t\t\n\t\t\tMGieseking\n\t\t\n\t\t\n\t\t\tJHecking-Harbusch\n\t\t\n\t\t\n\t\t\tEOlderog\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of Oldenburg and Saarland University\n\t\t\n\t\n\n","document":{"$oid":"60c461857723bebd8666b0bd"},"refKey":11},
{"_key":"60c461857723bebd8666b0bf","_id":"references/60c461857723bebd8666b0bf","_rev":"_cfFlWHO---","tei":"\n\t\n\t\tAdam: Causality-Based Synthesis of Distributed Systems\n\t\t\n\t\t\tBerndFinkbeiner\n\t\t\n\t\t\n\t\t\tManuelGieseking\n\t\t\n\t\t\n\t\t\tErnst-RüdigerOlderog\n\t\t\n\t\t10.1007/978-3-319-21690-4_25\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461857723bebd8666b0bd"},"refKey":13},
{"_key":"60c461867723bebd8666b0e8","_id":"references/60c461867723bebd8666b0e8","_rev":"_cfFlWHW---","tei":"\n\t\n\t\tGraph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tFionaHamey\n\t\t\n\t\t\n\t\t\tMireyaPlass\n\t\t\n\t\t\n\t\t\tJordiSolana\n\t\t\n\t\t\n\t\t\tJoakimSDahlin\n\t\t\n\t\t\n\t\t\tBertholdGöttgens\n\t\t\n\t\t\n\t\t\tNikolausRajewsky\n\t\t\n\t\t\n\t\t\tLukasSimon\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/208819\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t59\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c461867723bebd8666b0e7"},"refKey":38},
{"_key":"60c461867723bebd8666b0e9","_id":"references/60c461867723bebd8666b0e9","_rev":"_cfFlWHi---","tei":"\n\t\n\t\tThe single-cell transcriptional landscape of mammalian organogenesis\n\t\t\n\t\t\tJCao\n\t\t\n\t\t\n\t\t\tMSpielmann\n\t\t\n\t\t\n\t\t\tXQiu\n\t\t\n\t\t\n\t\t\tXHuang\n\t\t\n\t\t\n\t\t\tDMIbrahim\n\t\t\n\t\t\n\t\t\tAJHill\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t566\n\t\t\t7745\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461867723bebd8666b0e7"},"refKey":42},
{"_key":"60c461867723bebd8666b0ea","_id":"references/60c461867723bebd8666b0ea","_rev":"_cfFlWHu---","tei":"\n\t\n\t\tUser-friendly, scalable tools and workows for single-cell analysis\n\t\t\n\t\t\tPMoreno\n\t\t\n\t\t\n\t\t\tNHuang\n\t\t\n\t\t\n\t\t\tJRManning\n\t\t\n\t\t\n\t\t\tSMohammed\n\t\t\n\t\t\n\t\t\tASolovyev\n\t\t\n\t\t\n\t\t\tKPolanski\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461867723bebd8666b0e7"},"refKey":41},
{"_key":"60c461867723bebd8666b0eb","_id":"references/60c461867723bebd8666b0eb","_rev":"_cfFlWH6---","tei":"\n\t\n\t\tscmap: projection of singlecell RNA-seq data across data sets\n\t\t\n\t\t\tVYKiselev\n\t\t\n\t\t\n\t\t\tAYiu\n\t\t\n\t\t\n\t\t\tMHemberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t15\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461867723bebd8666b0e7"},"refKey":43},
{"_key":"60c461867723bebd8666b0ec","_id":"references/60c461867723bebd8666b0ec","_rev":"_cfFlWIG---","tei":"\n\t\n\t\tscPred: accurate supervised method for cell-type classication from single-cell RNA-seq data\n\t\t\n\t\t\tJAlquicira-Hernandez\n\t\t\n\t\t\n\t\t\tASathe\n\t\t\n\t\t\n\t\t\tHPJi\n\t\t\n\t\t\n\t\t\tQNguyen\n\t\t\n\t\t\n\t\t\tJEPowell\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t264\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461867723bebd8666b0e7"},"refKey":44},
{"_key":"60c461c07723bebd8666b151","_id":"references/60c461c07723bebd8666b151","_rev":"_cfFlWIO---","tei":"\n\t\n\t\tEvidence for ADAR-induced hypermutation of the Drosophila sigma virus (Rhabdoviridae)\n\t\t\n\t\t\tJenniferACarpenter\n\t\t\n\t\t\n\t\t\tLiamPKeegan\n\t\t\n\t\t\n\t\t\tLenaWilfert\n\t\t\n\t\t\n\t\t\tMaryAO'connell\n\t\t\n\t\t\n\t\t\tFrancisMJiggins\n\t\t\n\t\t10.1186/1471-2156-10-75\n\t\t19941656\n\t\tPMC2790459\n\t\t\n\t\n\t\n\t\tBMC Genetics\n\t\tBMC Genet\n\t\t1471-2156\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t75\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c461c07723bebd8666b150"},"refKey":14},
{"_key":"60c461d47723bebd8666b179","_id":"references/60c461d47723bebd8666b179","_rev":"_cfFlWIa---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461d47723bebd8666b178"},"refKey":27},
{"_key":"60c461d47723bebd8666b17a","_id":"references/60c461d47723bebd8666b17a","_rev":"_cfFlWIm---","tei":"\n\t\n\t\tEnabling the democratization of the genomics revolution with a fully integrated web-based bioinformatics platform\n\t\t\n\t\t\tNull-ELi\n\t\t\n\t\t\n\t\t\tChien-ChiLo\n\t\t\n\t\t\n\t\t\tJosephJAnderson\n\t\t\n\t\t\n\t\t\tKarenWDavenport\n\t\t\n\t\t\n\t\t\tKimberlyABishop-Lilly\n\t\t\n\t\t\n\t\t\tYanXu\n\t\t\n\t\t\n\t\t\tSanaaAhmed\n\t\t\n\t\t\n\t\t\tShihaiFeng\n\t\t\n\t\t\n\t\t\tVishweshPMokashi\n\t\t\n\t\t\n\t\t\tPatrickS GChain\n\t\t\n\t\t10.1101/040477\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c461d47723bebd8666b178"},"refKey":26},
{"_key":"60c461dd7723bebd8666b183","_id":"references/60c461dd7723bebd8666b183","_rev":"_cfFlWIy---","tei":"\n\t\n\t\tGREAT improves functional interpretation of cis-regulatory regions\n\t\t\n\t\t\tCoryYMclean\n\t\t\n\t\t\n\t\t\tDaveBristor\n\t\t\n\t\t\n\t\t\tMichaelHiller\n\t\t\n\t\t\n\t\t\tShoaLClarke\n\t\t\n\t\t\n\t\t\tBruceTSchaar\n\t\t\n\t\t\n\t\t\tCraigBLowe\n\t\t\n\t\t\n\t\t\tAaronMWenger\n\t\t\n\t\t\n\t\t\tGillBejerano\n\t\t\n\t\t10.1038/nbt.1630\n\t\t20436461\n\t\tPMC4840234\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t28\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c461dd7723bebd8666b182"},"refKey":24},
{"_key":"60c461e77723bebd8666b19a","_id":"references/60c461e77723bebd8666b19a","_rev":"_cfFlWJ----","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461e77723bebd8666b199"},"refKey":19},
{"_key":"60c461e77723bebd8666b19b","_id":"references/60c461e77723bebd8666b19b","_rev":"_cfFlWJG---","tei":"\n\t\n\t\tFast grapped-read alignment with bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461e77723bebd8666b199"},"refKey":18},
{"_key":"60c461e77723bebd8666b19c","_id":"references/60c461e77723bebd8666b19c","_rev":"_cfFlWJS---","tei":"\n\t\n\t\tVarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing\n\t\t\n\t\t\tDCKoboldt\n\t\t\n\t\t\n\t\t\tQZhang\n\t\t\n\t\t\n\t\t\tDELarson\n\t\t\n\t\t\n\t\t\tDShen\n\t\t\n\t\t\n\t\t\tMDMclellan\n\t\t\n\t\t\n\t\t\tLLin\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461e77723bebd8666b199"},"refKey":21},
{"_key":"60c461e77723bebd8666b19d","_id":"references/60c461e77723bebd8666b19d","_rev":"_cfFlWJe---","tei":"\n\t\n\t\tA framework for variation discovery and genotyping using next-generation DNA sequencing data\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tRPoplin\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461e77723bebd8666b199"},"refKey":20},
{"_key":"60c461ff7723bebd8666b1b1","_id":"references/60c461ff7723bebd8666b1b1","_rev":"_cfFlWJq---","tei":"\n\t\n\t\tGoing deeper with convolutions\n\t\t\n\t\t\tChristianSzegedy\n\t\t\n\t\t\n\t\t\tWei Liu\n\t\t\n\t\t\n\t\t\tYangqing Jia\n\t\t\n\t\t\n\t\t\tPierreSermanet\n\t\t\n\t\t\n\t\t\tScottReed\n\t\t\n\t\t\n\t\t\tDragomirAnguelov\n\t\t\n\t\t\n\t\t\tDumitruErhan\n\t\t\n\t\t\n\t\t\tVincentVanhoucke\n\t\t\n\t\t\n\t\t\tAndrewRabinovich\n\t\t\n\t\t10.1109/cvpr.2015.7298594\n\t\t\n\t\t\n\t\n\t\n\t\t2015 IEEE Conference on Computer Vision and Pattern Recognition (CVPR)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461ff7723bebd8666b1b0"},"refKey":3},
{"_key":"60c461ff7723bebd8666b1b2","_id":"references/60c461ff7723bebd8666b1b2","_rev":"_cfFlWJ2---","tei":"\n\t\n\t\tRethinking the inception architecture for computer vision\n\t\t\n\t\t\tCSzegedy\n\t\t\n\t\t\n\t\t\tVVanhoucke\n\t\t\n\t\t\n\t\t\tSIoffe\n\t\t\n\t\t\n\t\t\tJShlens\n\t\t\n\t\t\n\t\t\tZWojna\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461ff7723bebd8666b1b0"},"refKey":2},
{"_key":"60c461ff7723bebd8666b1b3","_id":"references/60c461ff7723bebd8666b1b3","_rev":"_cfFlWK----","tei":"\n\t\n\t\tImagenet classification with deep convolutional neural networks\n\t\t\n\t\t\tAKrizhevsky\n\t\t\n\t\t\n\t\t\tISutskever\n\t\t\n\t\t\n\t\t\tGHinton\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461ff7723bebd8666b1b0"},"refKey":26},
{"_key":"60c461ff7723bebd8666b1b4","_id":"references/60c461ff7723bebd8666b1b4","_rev":"_cfFlWKK---","tei":"\n\t\n\t\t\n\t\t\tKSimonyan\n\t\t\n\t\t\n\t\t\tAZisserman\n\t\t\n\t\tarXiv:1409.1556\n\t\tVery deep convolutional networks for large-scale image recognition\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c461ff7723bebd8666b1b0"},"refKey":28},
{"_key":"60c4623b7723bebd8666b1d4","_id":"references/60c4623b7723bebd8666b1d4","_rev":"_cfFlWKW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tScaled Agile Framework\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4623b7723bebd8666b1d3"},"refKey":11},
{"_key":"60c462547723bebd8666b1e4","_id":"references/60c462547723bebd8666b1e4","_rev":"_cfFlWKi---","tei":"\n\t\n\t\tThe PyHST2 hybrid distributed code for high speed tomographic reconstruction with iterative reconstruction and a priori knowledge capabilities\n\t\t\n\t\t\tAMirone\n\t\t\n\t\t\n\t\t\tEBrun\n\t\t\n\t\t\n\t\t\tEGouillart\n\t\t\n\t\t\n\t\t\tPTafforeau\n\t\t\n\t\t\n\t\t\tJKieffer\n\t\t\n\t\n\t\n\t\tNucl. Instrum. Methods Phys. Res. Sect. B Beam Interact. Mater. At\n\t\t\n\t\t\t324\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c462547723bebd8666b1e3"},"refKey":44},
{"_key":"60c4625a7723bebd8666b1ea","_id":"references/60c4625a7723bebd8666b1ea","_rev":"_cfFlWKu---","tei":"\n\t\n\t\tTools for integrated sequence-structure analysis with UCSF Chimera\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\t10.1186/1471-2105-7-339\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t7\n\t\t\t339\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4625a7723bebd8666b1e9"},"refKey":17},
{"_key":"60c4625a7723bebd8666b1eb","_id":"references/60c4625a7723bebd8666b1eb","_rev":"_cfFlWK2---","tei":"\n\t\n\t\tShinyGO: a graphical enrichment tool for ani-mals and plants\n\t\t\n\t\t\tStevenXijinGe\n\t\t\t0000-0001-7406-3782\n\t\t\n\t\t\n\t\t\tDongminJung\n\t\t\n\t\t10.1101/315150\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4625a7723bebd8666b1e9"},"refKey":27},
{"_key":"60c4625a7723bebd8666b1ec","_id":"references/60c4625a7723bebd8666b1ec","_rev":"_cfFlWLC---","tei":"\n\t\n\t\tParallelization of MAFFT for large-scale multiple sequence alignments\n\t\t\n\t\t\tTsukasaNakamura\n\t\t\n\t\t\n\t\t\tKazunoriDYamada\n\t\t\n\t\t\n\t\t\tKentaroTomii\n\t\t\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\t0000-0003-4133-8393\n\t\t\n\t\t10.1093/bioinformatics/bty121\n\t\t29506019\n\t\tPMC6041967\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4625a7723bebd8666b1e9"},"refKey":14},
{"_key":"60c4625a7723bebd8666b1ed","_id":"references/60c4625a7723bebd8666b1ed","_rev":"_cfFlWLO---","tei":"\n\t\n\t\tRandom walk with restart on multiplex and heterogeneous biological networks\n\t\t\n\t\t\tAlbertoValdeolivas\n\t\t\n\t\t\n\t\t\tLaurentTichit\n\t\t\n\t\t\n\t\t\tClaireNavarro\n\t\t\n\t\t\n\t\t\tSophiePerrin\n\t\t\n\t\t\n\t\t\tGaëlleOdelin\n\t\t\n\t\t\n\t\t\tNicolasLevy\n\t\t\n\t\t\n\t\t\tPierreCau\n\t\t\n\t\t\n\t\t\tElisabethRemy\n\t\t\n\t\t\n\t\t\tAnaïsBaudot\n\t\t\n\t\t10.1093/bioinformatics/bty637\n\t\t30020411\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4625a7723bebd8666b1e9"},"refKey":26},
{"_key":"60c462647723bebd8666b205","_id":"references/60c462647723bebd8666b205","_rev":"_cfFlWLa---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c462647723bebd8666b204"},"refKey":8},
{"_key":"60c462707723bebd8666b20b","_id":"references/60c462707723bebd8666b20b","_rev":"_cfFlWLm---","tei":"\n\t\n\t\tUsing Xplor-NIH for NMR Molecular Structure Determination\n\t\t\n\t\t\tCharlesDSchwieters\n\t\t\n\t\t\n\t\t\tJohnJKuszewski\n\t\t\n\t\t\n\t\t\tGMariusClore\n\t\t\n\t\t10.1002/chin.200644278\n\t\tark:/67375/WNG-95CB8ZXM-2\n\t\t745D24C5933913C446B45032D401F25D26BB0863\n\t\n\t\n\t\tChemInform\n\t\tChemInform\n\t\t0931-7597\n\t\t1522-2667\n\t\t\n\t\t\t37\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c462707723bebd8666b20a"},"refKey":25},
{"_key":"60c462707723bebd8666b20c","_id":"references/60c462707723bebd8666b20c","_rev":"_cfFlWLu---","tei":"\n\t\n\t\tNMRFAM-SPARKY: enhanced software for biomolecular NMR spectroscopy\n\t\t\n\t\t\tWLee\n\t\t\n\t\t\n\t\t\tMTonelli\n\t\t\n\t\t\n\t\t\tJLMarkley\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c462707723bebd8666b20a"},"refKey":49},
{"_key":"60c462947723bebd8666b227","_id":"references/60c462947723bebd8666b227","_rev":"_cfFlWL6---","tei":"\n\t\n\t\tQGIS Geographic Information System Open Source Geospatial Foundation Project\n\t\t\n\t\t\tQgis\n\t\t\n\t\t\n\t\t\tOrg\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c462947723bebd8666b226"},"refKey":33},
{"_key":"60c462c97723bebd8666b244","_id":"references/60c462c97723bebd8666b244","_rev":"_cfFlWMG---","tei":"\n\t\n\t\tDynaMut: predicting the impact of mutations on protein conformation, flexibility and stability\n\t\t\n\t\t\tCarlosHmRodrigues\n\t\t\n\t\t\n\t\t\tDouglasEvPires\n\t\t\t0000-0002-3004-2119\n\t\t\n\t\t\n\t\t\tDavidBAscher\n\t\t\t0000-0003-2948-2413\n\t\t\n\t\t10.1093/nar/gky300\n\t\t29718330\n\t\tPMC6031064\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c462c97723bebd8666b243"},"refKey":17},
{"_key":"60c462c97723bebd8666b245","_id":"references/60c462c97723bebd8666b245","_rev":"_cfFlWMS---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tTGur\n\t\t\n\t\t\n\t\t\tNMadhusoodanan\n\t\t\n\t\t\n\t\t\tPBasutkar\n\t\t\n\t\t\n\t\t\tArnTivey\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t10.1093/nar/gkz268\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c462c97723bebd8666b243"},"refKey":15},
{"_key":"60c462de7723bebd8666b25a","_id":"references/60c462de7723bebd8666b25a","_rev":"_cfFlWMe---","tei":"\n\t\n\t\tImproved method for predicting linear B-cell epitopes\n\t\t\n\t\t\tJLarsen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunome Res\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c462de7723bebd8666b259"},"refKey":12},
{"_key":"60c462de7723bebd8666b25b","_id":"references/60c462de7723bebd8666b25b","_rev":"_cfFlWMq---","tei":"\n\t\n\t\tBepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes\n\t\t\n\t\t\tMartinClosterJespersen\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t10.1093/nar/gkx346\n\t\t28472356\n\t\tPMC5570230\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c462de7723bebd8666b259"},"refKey":13},
{"_key":"60c462de7723bebd8666b25c","_id":"references/60c462de7723bebd8666b25c","_rev":"_cfFlWM6---","tei":"\n\t\n\t\tJalview Version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tJProcter\n\t\t\n\t\t\n\t\t\tDMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c462de7723bebd8666b259"},"refKey":8},
{"_key":"60c462de7723bebd8666b25d","_id":"references/60c462de7723bebd8666b25d","_rev":"_cfFlWNG---","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSSaha\n\t\t\n\t\t\n\t\t\tGRaghava\n\t\t\n\t\n\t\n\t\tProteins Struct Funct Bioinf\n\t\t\n\t\t\t65\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c462de7723bebd8666b259"},"refKey":14},
{"_key":"60c462de7723bebd8666b25e","_id":"references/60c462de7723bebd8666b25e","_rev":"_cfFlWNS---","tei":"\n\t\n\t\tPVS: a web server for protein sequence variability analysis tuned to facilitate conserved epitope discovery\n\t\t\n\t\t\tMGarcia-Boronat\n\t\t\n\t\t\n\t\t\tCMDiez-Rivero\n\t\t\n\t\t\n\t\t\tELReinherz\n\t\t\n\t\t\n\t\t\tPAReche\n\t\t\n\t\t10.1093/nar/gkn211\n\t\t18442995\n\t\tPMC2447719\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c462de7723bebd8666b259"},"refKey":9},
{"_key":"60c462de7723bebd8666b25f","_id":"references/60c462de7723bebd8666b25f","_rev":"_cfFlWNe---","tei":"\n\t\n\t\tLigand docking and binding site analysis with PyMOL and Autodock/Vina\n\t\t\n\t\t\tDSeeliger\n\t\t\n\t\t\n\t\t\tBLGroot\n\t\t\n\t\n\t\n\t\tJ Comput Aided Mol Des\n\t\t\n\t\t\t24\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c462de7723bebd8666b259"},"refKey":38},
{"_key":"60c462de7723bebd8666b260","_id":"references/60c462de7723bebd8666b260","_rev":"_cfFlWNu---","tei":"\n\t\n\t\tPrediction of residues in discontinuous B-cell epitopes using protein 3D structures\n\t\t\n\t\t\tPernilleHaste Andersen\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t10.1110/ps.062405906\n\t\t17001032\n\t\tPMC2242418\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t15\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c462de7723bebd8666b259"},"refKey":15},
{"_key":"60c4630f7723bebd8666b2c3","_id":"references/60c4630f7723bebd8666b2c3","_rev":"_cfFlWN6---","tei":"\n\t\n\t\tBDNF regulates the maturation of inhibition and the critical period of plasticity in mouse visual cortex\n\t\t\n\t\t\tRAHodos\n\t\t\n\t\t\n\t\t\tBAKidd\n\t\t\n\t\t\n\t\t\tKShameer\n\t\t\n\t\t\n\t\t\tBPReadhead\n\t\t\n\t\t\n\t\t\tJt ; Crossref MedlineDudley\n\t\t\n\t\t\n\t\t\tFHong\n\t\t\n\t\t\n\t\t\tRBreitling\n\t\t\n\t\t\n\t\t\tCWMcentee\n\t\t\n\t\t\n\t\t\tBSWittner\n\t\t\n\t\t\n\t\t\tJLNemhauser\n\t\t\n\t\t\n\t\t\tJ ;Chory\n\t\t\n\t\t\n\t\t\tAKirkwood\n\t\t\n\t\t\n\t\t\tTPizzorusso\n\t\t\n\t\t\n\t\t\tVPorciatti\n\t\t\n\t\t\n\t\t\tBMorales\n\t\t\n\t\t\n\t\t\tMFBear\n\t\t\n\t\t\n\t\t\tLMaffei\n\t\t\n\t\t\n\t\t\tSTonegawa\n\t\t\n\t\t10.1093/bioinformatics/btl476\n\t\n\t\n\t\tsilico methods for drug repurposing and pharmacology\n\t\t\t\t\n\t\t\tMedline\n\t\t\t\n\t\t\t8\n\t\t\t\n\t\t\n\t\n\tCell\n\n","document":{"$oid":"60c4630f7723bebd8666b2c2"},"refKey":9},
{"_key":"60c4631a7723bebd8666b2d0","_id":"references/60c4631a7723bebd8666b2d0","_rev":"_cfFlWOK---","tei":"\n\t\n\t\tOncostatin M causes liver fibrosis by regulating cooperation between hepatic stellate cells and macrophages in mice\n\t\t\n\t\t\tMichitakaMatsuda\n\t\t\n\t\t\n\t\t\tShinyaTsurusaki\n\t\t\n\t\t\n\t\t\tNaokoMiyata\n\t\t\n\t\t\n\t\t\tEikoSaijou\n\t\t\n\t\t\n\t\t\tHitoshiOkochi\n\t\t\n\t\t\n\t\t\tAtsushiMiyajima\n\t\t\n\t\t\n\t\t\tMinoruTanaka\n\t\t\n\t\t10.1002/hep.29421\n\t\t28779552\n\t\t\n\t\n\t\n\t\tHepatology\n\t\tHepatology\n\t\t0270-9139\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4631a7723bebd8666b2cf"},"refKey":23},
{"_key":"60c463537723bebd8666b2ec","_id":"references/60c463537723bebd8666b2ec","_rev":"_cfFlWOW---","tei":"\n\t\n\t\tScalable molecular dynamics on CPU and GPU architectures with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\n\t\n\t\tThe Journal of chemical physics\n\t\t\n\t\t\t153\n\t\t\t44130\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c463537723bebd8666b2eb"},"refKey":17},
{"_key":"60c4635a7723bebd8666b2fa","_id":"references/60c4635a7723bebd8666b2fa","_rev":"_cfFlWOm---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t\n\t\t\tRA L\n\t\t\n\t\t\n\t\t\tMWm\n\t\t\n\t\t\n\t\t\tDS\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4635a7723bebd8666b2f9"},"refKey":13},
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{"_key":"60c463817723bebd8666b336","_id":"references/60c463817723bebd8666b336","_rev":"_cfFlWPO---","tei":"\n\t\n\t\tWeb based tool to extract data from plots, images, and maps. Available via the Internet at https://automeris.io/WebPlotDigitizer/. Last accessed\n\t\t\n\t\t\tARohatgi\n\t\t\n\t\t\n\t\t\tWebplotdigitizer\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c463817723bebd8666b335"},"refKey":31},
{"_key":"60c463847723bebd8666b33a","_id":"references/60c463847723bebd8666b33a","_rev":"_cfFlWPe---","tei":"\n\t\n\t\tComputer program], version 5.3. Copenhagen: The Nordic Cochrane Centre, The Cochrane Collaboration\n\t\n\t\n\t\tReview Manager (RevMan)\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c463847723bebd8666b339"},"refKey":26},
{"_key":"60c463f37723bebd8666b378","_id":"references/60c463f37723bebd8666b378","_rev":"_cfFlWPu---","tei":"\n\t\n\t\tThe R Project for Statistical Computing\n\t\t\t\t\n\t\n\tcomputer program\n\n","document":{"$oid":"60c463f37723bebd8666b377"},"refKey":4},
{"_key":"60c464117723bebd8666b395","_id":"references/60c464117723bebd8666b395","_rev":"_cfFlWP6---","tei":"\n\t\n\t\tTurkPrime.com: A versatile crowdsourcing data acquisition platform for the behavioral sciences\n\t\t\n\t\t\tLeibLitman\n\t\t\n\t\t\n\t\t\tJonathanRobinson\n\t\t\n\t\t\n\t\t\tTzviAbberbock\n\t\t\n\t\t10.3758/s13428-016-0727-z\n\t\t27071389\n\t\tPMC5405057\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehav Res\n\t\t1554-3528\n\t\t\n\t\t\t49\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c464117723bebd8666b394"},"refKey":33},
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{"_key":"60c465fc7723bebd8666b508","_id":"references/60c465fc7723bebd8666b508","_rev":"_cfFlWWK---","tei":"\n\t\n\t\tOrange: data mining toolbox in Python\n\t\t\n\t\t\tJDemsar\n\t\t\n\t\t\n\t\t\tCt\n\t\t\n\t\t\n\t\t\tAErjavec\n\t\t\n\t\t\n\t\t\tCGorup\n\t\t\n\t\n\t\n\t\tJ Mach Learn Res\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c465fc7723bebd8666b507"},"refKey":41},
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{"_key":"60c466247723bebd8666b5b5","_id":"references/60c466247723bebd8666b5b5","_rev":"_cfFlWXG---","tei":"\n\t\n\t\tFinding minimal unsatisfiable subsets in linear temporal logic using BDDs\n\t\t\n\t\t\tTSergeant\n\t\t\n\t\t\n\t\t\tSRGoré\n\t\t\n\t\t\n\t\t\tJThomson\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c466247723bebd8666b5b3"},"refKey":57},
{"_key":"60c466247723bebd8666b5b6","_id":"references/60c466247723bebd8666b5b6","_rev":"_cfFlWXS---","tei":"\n\t\n\t\t/spl chi/Chek: A model checker for multi-valued reasoning\n\t\t\n\t\t\tSEasterbrook\n\t\t\n\t\t\n\t\t\tMChechik\n\t\t\n\t\t\n\t\t\tBDevereux\n\t\t\n\t\t\n\t\t\tAGurfinkel\n\t\t\n\t\t\n\t\t\tALai\n\t\t\n\t\t\n\t\t\tVPetrovykh\n\t\t\n\t\t\n\t\t\tATafliovich\n\t\t\n\t\t\n\t\t\tCThompson-Walsh\n\t\t\n\t\t10.1109/icse.2003.1201295\n\t\n\t\n\t\t25th International Conference on Software Engineering, 2003. Proceedings.\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c466247723bebd8666b5b3"},"refKey":19},
{"_key":"60c466c37723bebd8666b614","_id":"references/60c466c37723bebd8666b614","_rev":"_cfFlWXe---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c466c37723bebd8666b613"},"refKey":60},
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{"_key":"60c466c37723bebd8666b619","_id":"references/60c466c37723bebd8666b619","_rev":"_cfFlWYa---","tei":"\n\t\n\t\tPhylogeny inference based on parsimony and other methods using PAUP\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tJackSullivan\n\t\t\n\t\t10.1017/cbo9780511819049.010\n\t\n\t\n\t\tThe Phylogenetic Handbook\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2002\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c466c37723bebd8666b613"},"refKey":63},
{"_key":"60c466c77723bebd8666b623","_id":"references/60c466c77723bebd8666b623","_rev":"_cfFlWYi---","tei":"\n\t\n\t\tCrystallography & NMR system: a new software suite for macromolecular structure determination\n\t\t\n\t\t\tATBrunger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tGMClore\n\t\t\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tPGros\n\t\t\n\t\n\t\n\t\tActa Crystallogr\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c466c77723bebd8666b622"},"refKey":3},
{"_key":"60c466c77723bebd8666b624","_id":"references/60c466c77723bebd8666b624","_rev":"_cfFlWYu---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c466c77723bebd8666b622"},"refKey":0},
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{"_key":"60c467117723bebd8666b66d","_id":"references/60c467117723bebd8666b66d","_rev":"_cfFlWZy---","tei":"\n\t\n\t\tA novel fully automatic scheme for fiducial marker-based alignment in electron tomography\n\t\t\n\t\t\tRenminHan\n\t\t\n\t\t\n\t\t\tLiansanWang\n\t\t\n\t\t\n\t\t\tZhiyongLiu\n\t\t\n\t\t\n\t\t\tFeiSun\n\t\t\n\t\t\n\t\t\tFaZhang\n\t\t\n\t\t10.1016/j.jsb.2015.09.022\n\t\t26433028\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t192\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c467117723bebd8666b66b"},"refKey":22},
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{"_key":"60c467887723bebd8666b6d4","_id":"references/60c467887723bebd8666b6d4","_rev":"_cfFlWam---","tei":"\n\t\n\t\tAn algorithm for progressive multiple alignment of sequences with insertions\n\t\t\n\t\t\tALöytynoja\n\t\t\n\t\t\n\t\t\tNGoldman\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c467887723bebd8666b6d3"},"refKey":52},
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{"_key":"60c467ee7723bebd8666b721","_id":"references/60c467ee7723bebd8666b721","_rev":"_cfFlWca---","tei":"\n\t\n\t\tA Fast Likelihood Method to Reconstruct and Visualize Ancestral Scenarios\n\t\t\n\t\t\tSohtaAIshikawa\n\t\t\n\t\t\n\t\t\tAnnaZhukova\n\t\t\n\t\t\n\t\t\tWataruIwasaki\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/molbev/msz131\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t36\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c467ee7723bebd8666b720"},"refKey":48},
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{"_key":"60c468697723bebd8666b8e7","_id":"references/60c468697723bebd8666b8e7","_rev":"_cfFlWeG---","tei":"\n\t\n\t\tWhat's new in Psychtoolbox-3?\n\t\t\n\t\t\tMKleiner\n\t\t\n\t\t\n\t\t\tDBrainard\n\t\t\n\t\t\n\t\t\tDPelli\n\t\t\n\t\t\n\t\t\tAIngling\n\t\t\n\t\t\n\t\t\tRMurray\n\t\t\n\t\t\n\t\t\tCBroussard\n\t\t\n\t\n\t\n\t\tPerception\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c468697723bebd8666b8e6"},"refKey":70},
{"_key":"60c468697723bebd8666b8e8","_id":"references/60c468697723bebd8666b8e8","_rev":"_cfFlWeO---","tei":"\n\t\n\t\tThe Psychophysics Toolbox\n\t\t\n\t\t\tDavidHBrainard\n\t\t\n\t\t10.1163/156856897x00357\n\t\t9176952\n\t\tark:/67375/JKT-G70LT13H-3\n\t\t52362CEBF9D14DD2870F7A01E2D6A8633D3AF737\n\t\t\n\t\t\n\t\n\t\n\t\tSpatial Vision\n\t\t0169-1015\n\t\t1568-5683\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tBrill Academic Publishers\n\t\t\n\t\n\n","document":{"$oid":"60c468697723bebd8666b8e6"},"refKey":22},
{"_key":"60c468697723bebd8666b8e9","_id":"references/60c468697723bebd8666b8e9","_rev":"_cfFlWea---","tei":"\n\t\n\t\tThe VideoToolbox software for visual psychophysics: transforming numbers into movies\n\t\t\n\t\t\tDenisGPelli\n\t\t\n\t\t10.1163/156856897x00366\n\t\t9176953\n\t\tark:/67375/JKT-G8JQ5ZPX-7\n\t\t079D069C4A3179C95E1635669A2619F1A606B9CA\n\t\t\n\t\t\n\t\n\t\n\t\tSpatial Vision\n\t\t0169-1015\n\t\t1568-5683\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tBrill Academic Publishers\n\t\t\n\t\n\n","document":{"$oid":"60c468697723bebd8666b8e6"},"refKey":94},
{"_key":"60c4687a7723bebd8666b8f6","_id":"references/60c4687a7723bebd8666b8f6","_rev":"_cfFlWem---","tei":"\n\t\n\t\tMSAViewer: interactive JavaScript visualization of multiple sequence alignments\n\t\t\n\t\t\tGuyYachdav\n\t\t\n\t\t\n\t\t\tSebastianWilzbach\n\t\t\n\t\t\n\t\t\tBenediktRauscher\n\t\t\n\t\t\n\t\t\tRobertSheridan\n\t\t\n\t\t\n\t\t\tIanSillitoe\n\t\t\n\t\t\n\t\t\tJamesProcter\n\t\t\n\t\t\n\t\t\tSuzannaELewis\n\t\t\n\t\t\n\t\t\tBurkhardRost\n\t\t\n\t\t\n\t\t\tTatyanaGoldberg\n\t\t\n\t\t10.1093/bioinformatics/btw474\n\t\t27412096\n\t\tPMC5181560\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t22\n\t\t\tbtw474\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4687a7723bebd8666b8f5"},"refKey":56},
{"_key":"60c4687a7723bebd8666b8f7","_id":"references/60c4687a7723bebd8666b8f7","_rev":"_cfFlWey---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t10.1093/bioinformatics/btq461\n\t\t20709691\n\t\tark:/67375/HXZ-GJV3Q6N3-6\n\t\tE899EDEA476A0A93BC2365EEC6AA3B7EEEC99891\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4687a7723bebd8666b8f5"},"refKey":50},
{"_key":"60c4687a7723bebd8666b8f8","_id":"references/60c4687a7723bebd8666b8f8","_rev":"_cfFlWe6---","tei":"\n\t\n\t\tData Structures for Statistical Computing in Python\n\t\t\n\t\t\tWMckinney\n\t\t\n\t\n\t\n\t\tProceedings of the 9th Python in Science Conference\n\t\t\t\tthe 9th Python in Science Conference\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4687a7723bebd8666b8f5"},"refKey":54},
{"_key":"60c4687a7723bebd8666b8f9","_id":"references/60c4687a7723bebd8666b8f9","_rev":"_cfFlWfG---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDmaM AMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btp033\n\t\t19151095\n\t\tPMC2672624\n\t\tark:/67375/HXZ-5L762ZQS-N\n\t\t984BAD740626CEADBD2E31F4094D8E18B07D49EA\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4687a7723bebd8666b8f5"},"refKey":52},
{"_key":"60c4687e7723bebd8666b906","_id":"references/60c4687e7723bebd8666b906","_rev":"_cfFlWfS---","tei":"\n\t\n\t\tThe HADDOCK2.2 web server: user-friendly integrative modeling of biomolecular complexes\n\t\t\n\t\t\tGcpVan Zundert\n\t\t\n\t\t\n\t\t\tJRodrigues\n\t\t\n\t\t\n\t\t\tMTrellet\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t428\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4687e7723bebd8666b905"},"refKey":25},
{"_key":"60c468b97723bebd8666b93f","_id":"references/60c468b97723bebd8666b93f","_rev":"_cfFlWfe---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c468b97723bebd8666b93e"},"refKey":12},
{"_key":"60c468cd7723bebd8666b947","_id":"references/60c468cd7723bebd8666b947","_rev":"_cfFlWfq---","tei":"\n\t\n\t\tjModelTest: phylogenetic model averaging\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c468cd7723bebd8666b946"},"refKey":32},
{"_key":"60c469387723bebd8666b99f","_id":"references/60c469387723bebd8666b99f","_rev":"_cfFlWfy---","tei":"\n\t\n\t\tgimlet: a computer program for analysing genetic individual identification data\n\t\t\n\t\t\tNathanielValière\n\t\t\n\t\t10.1046/j.1471-8286.2002.00228.x-i2\n\t\tark:/67375/WNG-8WHV3XJZ-N\n\t\t34E8B31765927A61492E7588F25B97D75A7D36DF\n\t\n\t\n\t\tMolecular Ecology Notes\n\t\t1471-8278\n\t\t\n\t\t\t2\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c469387723bebd8666b99e"},"refKey":30},
{"_key":"60c469387723bebd8666b9a0","_id":"references/60c469387723bebd8666b9a0","_rev":"_cfFlWg----","tei":"\n\t\n\t\tDevelopment of a software to presume the parent-child relationship using the result of DNA marker typing\n\t\t\n\t\t\tHFujii\n\t\t\n\t\t\n\t\t\tHYamashita\n\t\t\n\t\t\n\t\t\tFHosaka\n\t\t\n\t\t\n\t\t\tSTerakami\n\t\t\n\t\t\n\t\t\tTYamamoto\n\t\t\n\t\n\t\n\t\tHort Res (Japan)\n\t\t\n\t\t\t9\n\t\t\t34\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c469387723bebd8666b99e"},"refKey":34},
{"_key":"60c469387723bebd8666b9a1","_id":"references/60c469387723bebd8666b9a1","_rev":"_cfFlWgK---","tei":"\n\t\n\t\tHierfstat, a package for R to compute and test hierarchical F-statistics\n\t\t\n\t\t\tJGoudet\n\t\t\n\t\n\t\n\t\tMol Ecol Notes\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c469387723bebd8666b99e"},"refKey":39},
{"_key":"60c469437723bebd8666b9a9","_id":"references/60c469437723bebd8666b9a9","_rev":"_cfFlWgW---","tei":"\n\t\n\t\tComprehensive Proteomic Profiling Identifies Serum Proteomic Signatures for Detection of Hepatocellular Carcinoma and Its Subtypes\n\t\t\n\t\t\tTCPoon\n\t\t\n\t\t\n\t\t\tTTYip\n\t\t\n\t\t\n\t\t\tATChan\n\t\t\n\t\t\n\t\t\tCYip\n\t\t\n\t\t\n\t\t\tVYip\n\t\t\n\t\t\n\t\t\tTSMok\n\t\t\n\t\t10.1373/49.5.752\n\t\t12709366\n\t\t\n\t\n\t\n\t\tClinical Chemistry\n\t\tClinical Chemistry\n\t\t0009-9147\n\t\t1530-8561\n\t\t\n\t\t\t49\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Clinical Chemistry (AACC)\n\t\t\n\t\n\n","document":{"$oid":"60c469437723bebd8666b9a8"},"refKey":9},
{"_key":"60c469437723bebd8666b9aa","_id":"references/60c469437723bebd8666b9aa","_rev":"_cfFlWgi---","tei":"\n\t\n\t\tSerial Analysis of Plasma Proteomic Signatures in Pediatric Patients with Severe Acute Respiratory Syndrome and Correlation with Viral Load\n\t\t\n\t\t\tTCPoon\n\t\t\n\t\t\n\t\t\tKCChan\n\t\t\n\t\t\n\t\t\tPCNg\n\t\t\n\t\t\n\t\t\tRWChiu\n\t\t\n\t\t\n\t\t\tILAng\n\t\t\n\t\t\n\t\t\tYKTong\n\t\t\n\t\t10.1373/clinchem.2004.035352\n\t\t15178653\n\t\t\n\t\n\t\n\t\tClinical Chemistry\n\t\tClinical Chemistry\n\t\t0009-9147\n\t\t1530-8561\n\t\t\n\t\t\t50\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Clinical Chemistry (AACC)\n\t\t\n\t\n\n","document":{"$oid":"60c469437723bebd8666b9a8"},"refKey":11},
{"_key":"60c469437723bebd8666b9ab","_id":"references/60c469437723bebd8666b9ab","_rev":"_cfFlWgq---","tei":"\n\t\n\t\tPrediction of Liver Fibrosis and Cirrhosis in Chronic Hepatitis B Infection by Serum Proteomic Fingerprinting: A Pilot Study\n\t\t\n\t\t\tTCPoon\n\t\t\n\t\t\n\t\t\tAYHui\n\t\t\n\t\t\n\t\t\tHLChan\n\t\t\n\t\t\n\t\t\tILAng\n\t\t\n\t\t\n\t\t\tSMChow\n\t\t\n\t\t\n\t\t\tNWong\n\t\t\n\t\t10.1373/clinchem.2004.041764\n\t\t15590748\n\t\t\n\t\n\t\n\t\tClinical Chemistry\n\t\tClinical Chemistry\n\t\t0009-9147\n\t\t1530-8561\n\t\t\n\t\t\t51\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Clinical Chemistry (AACC)\n\t\t\n\t\n\n","document":{"$oid":"60c469437723bebd8666b9a8"},"refKey":15},
{"_key":"60c4694d7723bebd8666b9b9","_id":"references/60c4694d7723bebd8666b9b9","_rev":"_cfFlWg2---","tei":"\n\t\n\t\t\n\t\n\t\n\t\tRStudio Team. RStudio: Integrated Development for R\n\t\t\n\t\t\t\n\t\t\tRStusdio, Inc\n\t\t\n\t\n\n","document":{"$oid":"60c4694d7723bebd8666b9b8"},"refKey":32},
{"_key":"60c4694d7723bebd8666b9ba","_id":"references/60c4694d7723bebd8666b9ba","_rev":"_cfFlWhC---","tei":"\n\t\n\t\tnplr: N-Parameter Logistic Regression. R package version 0\n\t\t\n\t\t\tFCommo\n\t\t\n\t\t\n\t\t\tBMBot\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4694d7723bebd8666b9b8"},"refKey":33},
{"_key":"60c4699f7723bebd8666b9e4","_id":"references/60c4699f7723bebd8666b9e4","_rev":"_cfFlWhO---","tei":"\n\t\n\t\tRE-AIM Planning and Evaluation Framework: Adapting to New Science and Practice with a Twenty-Year Review. Front\n\t\t\n\t\t\tREGlasgow\n\t\t\n\t\t\n\t\t\tSMHarden\n\t\t\n\t\t\n\t\t\tBGaglio\n\t\t\n\t\t\n\t\t\tBARabin\n\t\t\n\t\t\n\t\t\tMLSmith\n\t\t\n\t\t\n\t\t\tGCPorter\n\t\t\n\t\t\n\t\t\tMGOry\n\t\t\n\t\t\n\t\t\tPAEstabrooks\n\t\t\n\t\t10.3389/fpubh.2019.00064\n\t\t\n\t\n\tPublic Health 2019, 7, 64. [CrossRef. PubMed\n\n","document":{"$oid":"60c4699f7723bebd8666b9e3"},"refKey":11},
{"_key":"60c469a57723bebd8666b9e8","_id":"references/60c469a57723bebd8666b9e8","_rev":"_cfFlWha---","tei":"\n\t\n\t\tQIIME allows analysis of high-throughput community sequencing data\n\t\t\n\t\t\tJGCaporaso\n\t\t\n\t\t\n\t\t\tJKuczynski\n\t\t\n\t\t\n\t\t\tJStombaugh\n\t\t\n\t\t\n\t\t\tKBittinger\n\t\t\n\t\t\n\t\t\tFDBushman\n\t\t\n\t\t\n\t\t\tEKCostello\n\t\t\n\t\t\n\t\t\tNFierer\n\t\t\n\t\t\n\t\t\tAGPeña\n\t\t\n\t\t\n\t\t\tJKGoodrich\n\t\t\n\t\t\n\t\t\tJIGordon\n\t\t\n\t\t\n\t\t\tGAHuttley\n\t\t\n\t\t\n\t\t\tSTKelley\n\t\t\n\t\t\n\t\t\tDKnights\n\t\t\n\t\t\n\t\t\tJEKoenig\n\t\t\n\t\t\n\t\t\tRELey\n\t\t\n\t\t\n\t\t\tCALozupone\n\t\t\n\t\t\n\t\t\tDMcdonald\n\t\t\n\t\t\n\t\t\tBDMuegge\n\t\t\n\t\t\n\t\t\tMPirrung\n\t\t\n\t\t\n\t\t\tJReeder\n\t\t\n\t\t\n\t\t\tJRSevinsky\n\t\t\n\t\t\n\t\t\tPJTurnbaugh\n\t\t\n\t\t\n\t\t\tWAWalters\n\t\t\n\t\t\n\t\t\tJWidmann\n\t\t\n\t\t\n\t\t\tTYatsunenko\n\t\t\n\t\t\n\t\t\tJZaneveld\n\t\t\n\t\t\n\t\t\tRKnight\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c469a57723bebd8666b9e7"},"refKey":7},
{"_key":"60c469bc7723bebd8666b9f7","_id":"references/60c469bc7723bebd8666b9f7","_rev":"_cfFlWhi---","tei":"\n\t\n\t\tPredicting unemployment in short samples with internet job search query data\n\t\t\n\t\t\tDAFrancesco\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tUniversity Library of Munich, Germany\n\t\t\n\t\n\tMPRA Paper 18403\n\n","document":{"$oid":"60c469bc7723bebd8666b9f6"},"refKey":23},
{"_key":"60c469bc7723bebd8666b9f8","_id":"references/60c469bc7723bebd8666b9f8","_rev":"_cfFlWhu---","tei":"\n\t\n\t\tGoogle it!' Forecasting the US unemployment rate with a Google job search index. ISER Working Paper Series\n\t\t\n\t\t\tDAFrancesco\n\t\t\n\t\t\n\t\t\tJMarcucci\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tInstitute for Social and Economic Research\n\t\t\n\t\n\n","document":{"$oid":"60c469bc7723bebd8666b9f6"},"refKey":24},
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{"_key":"60c46a477723bebd8666baa0","_id":"references/60c46a477723bebd8666baa0","_rev":"_cfFlWj----","tei":"\n\t\n\t\tReliable B Cell Epitope Predictions: Impacts of Method Development and Improved Benchmarking\n\t\t\n\t\t\tJensVindahlKringelum\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1371/journal.pcbi.1002829\n\t\t23300419\n\t\tPMC3531324\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t8\n\t\t\t12\n\t\t\te1002829\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c46a477723bebd8666ba9d"},"refKey":26},
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{"_key":"60c46a587723bebd8666bab6","_id":"references/60c46a587723bebd8666bab6","_rev":"_cfFlWjS---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c46a587723bebd8666bab5"},"refKey":10},
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{"_key":"60c46b527723bebd8666bb48","_id":"references/60c46b527723bebd8666bb48","_rev":"_cfFlWlC---","tei":"\n\t\n\t\tROSETTA3: an object-oriented software suite for the simulation and design of macromolecules\n\t\t\n\t\t\tALeaver-Fay\n\t\t\n\t\t\n\t\t\tMTyka\n\t\t\n\t\t\n\t\t\tSMLewis\n\t\t\n\t\t\n\t\t\tOFLange\n\t\t\n\t\t\n\t\t\tJThompson\n\t\t\n\t\t\n\t\t\tRJacak\n\t\t\n\t\t\n\t\t\tKKaufman\n\t\t\n\t\t\n\t\t\tPDRenfrew\n\t\t\n\t\t\n\t\t\tCASmith\n\t\t\n\t\t\n\t\t\tWSheffler\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tSCooper\n\t\t\n\t\t\n\t\t\tATreuille\n\t\t\n\t\t\n\t\t\tDJMandell\n\t\t\n\t\t\n\t\t\tFRichter\n\t\t\n\t\t\n\t\t\tYEBan\n\t\t\n\t\t\n\t\t\tSJFleishman\n\t\t\n\t\t\n\t\t\tJECorn\n\t\t\n\t\t\n\t\t\tDEKim\n\t\t\n\t\t\n\t\t\tSLyskov\n\t\t\n\t\t\n\t\t\tMBerrondo\n\t\t\n\t\t\n\t\t\tSMentzer\n\t\t\n\t\t\n\t\t\tZPopovic\n\t\t\n\t\t\n\t\t\tJJHavranek\n\t\t\n\t\t\n\t\t\tJKaranicolas\n\t\t\n\t\t\n\t\t\tRDas\n\t\t\n\t\t\n\t\t\tJMeiler\n\t\t\n\t\t\n\t\t\tTKortemme\n\t\t\n\t\t\n\t\t\tJJGray\n\t\t\n\t\t\n\t\t\tBKuhlman\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\t\n\t\t\tPBradley\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t487\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46b527723bebd8666bb46"},"refKey":108},
{"_key":"60c46b527723bebd8666bb49","_id":"references/60c46b527723bebd8666bb49","_rev":"_cfFlWlO---","tei":"\n\t\n\t\tCABS-fold: server for the de novo and consensus-based prediction of protein structure\n\t\t\n\t\t\tMaciejBlaszczyk\n\t\t\n\t\t\n\t\t\tMichalJamroz\n\t\t\n\t\t\n\t\t\tSebastianKmiecik\n\t\t\n\t\t\n\t\t\tAndrzejKolinski\n\t\t\n\t\t10.1093/nar/gkt462\n\t\t23748950\n\t\tPMC3692050\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c46b527723bebd8666bb46"},"refKey":13},
{"_key":"60c46b6a7723bebd8666bb58","_id":"references/60c46b6a7723bebd8666bb58","_rev":"_cfFlWla---","tei":"\n\t\n\t\t\n\t\t\tSWolfram\n\t\t\n\t\tThe Mathematica, 5th edn. Wolfram Media\n\t\t\t\tChampaign\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46b6a7723bebd8666bb57"},"refKey":14},
{"_key":"60c46b6a7723bebd8666bb59","_id":"references/60c46b6a7723bebd8666bb59","_rev":"_cfFlWli---","tei":"\n\t\n\t\tA toolbox for simulation of hybrid systems in matlab/simulink\n\t\t\n\t\t\tRicardoSanfelice\n\t\t\n\t\t\n\t\t\tDavidCopp\n\t\t\n\t\t\n\t\t\tPabloNanez\n\t\t\n\t\t10.1145/2461328.2461346\n\t\n\t\n\t\tProceedings of the 16th international conference on Hybrid systems: computation and control - HSCC '13\n\t\t\t\tthe 16th international conference on Hybrid systems: computation and control - HSCC '13\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46b6a7723bebd8666bb57"},"refKey":11},
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{"_key":"60c46db67723bebd8666bd13","_id":"references/60c46db67723bebd8666bd13","_rev":"_cfFlWq6---","tei":"\n\t\n\t\tQiita: rapid, web-enabled microbiome meta-analysis\n\t\t\n\t\t\tAGonzalez\n\t\t\n\t\t\n\t\t\tJANavas-Molina\n\t\t\n\t\t\n\t\t\tTKosciolek\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46db67723bebd8666bd12"},"refKey":21},
{"_key":"60c46db67723bebd8666bd14","_id":"references/60c46db67723bebd8666bd14","_rev":"_cfFlWrG---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46db67723bebd8666bd12"},"refKey":24},
{"_key":"60c46e117723bebd8666bd57","_id":"references/60c46e117723bebd8666bd57","_rev":"_cfFlWrS---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\n\t\n\t\tInter J Complex Syst\n\t\t\n\t\t\t1695\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46e117723bebd8666bd56"},"refKey":27},
{"_key":"60c46e117723bebd8666bd58","_id":"references/60c46e117723bebd8666bd58","_rev":"_cfFlWre---","tei":"\n\t\n\t\tPackage 'car'. Vienna: R Foundation for Statistical Computing\n\t\t\n\t\t\tJFox\n\t\t\n\t\t\n\t\t\tSWeisberg\n\t\t\n\t\t\n\t\t\tDAdler\n\t\t\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tGBaud-Bovy\n\t\t\n\t\t\n\t\t\tSEllison\n\t\t\n\t\t\n\t\t\t..Heiberger\n\t\t\n\t\t\n\t\t\tR\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46e117723bebd8666bd56"},"refKey":39},
{"_key":"60c46e1d7723bebd8666bd63","_id":"references/60c46e1d7723bebd8666bd63","_rev":"_cfFlWrm---","tei":"\n\t\n\t\tThe design and verification of MuMax3\n\t\t\n\t\t\tArneVansteenkiste\n\t\t\n\t\t\n\t\t\tJonathanLeliaert\n\t\t\n\t\t\n\t\t\tMykolaDvornik\n\t\t\n\t\t\n\t\t\tMathiasHelsen\n\t\t\n\t\t\n\t\t\tFelipeGarcia-Sanchez\n\t\t\n\t\t\n\t\t\tBartelVan Waeyenberge\n\t\t\n\t\t10.1063/1.4899186\n\t\n\t\n\t\tAIP Advances\n\t\tAIP Advances\n\t\t2158-3226\n\t\t\n\t\t\t4\n\t\t\t10\n\t\t\t107133\n\t\t\t\n\t\t\tAIP Publishing\n\t\t\n\t\n\n","document":{"$oid":"60c46e1d7723bebd8666bd62"},"refKey":44},
{"_key":"60c46e697723bebd8666bd78","_id":"references/60c46e697723bebd8666bd78","_rev":"_cfFlWry---","tei":"\n\t\n\t\tBivariate causal mixture model quantifies polygenic overlap between complex traits beyond genetic correlation\n\t\t\n\t\t\tOleksandrFrei\n\t\t\t0000-0002-6427-2625\n\t\t\n\t\t\n\t\t\tDominicHolland\n\t\t\n\t\t\n\t\t\tOlavBSmeland\n\t\t\t0000-0002-3761-5215\n\t\t\n\t\t\n\t\t\tAlexeyAShadrin\n\t\t\n\t\t\n\t\t\tChunChiehFan\n\t\t\t0000-0001-9437-2128\n\t\t\n\t\t\n\t\t\tSteffenMaeland\n\t\t\n\t\t\n\t\t\tKevinSO’connell\n\t\t\t0000-0002-6865-8795\n\t\t\n\t\t\n\t\t\tYunpengWang\n\t\t\n\t\t\n\t\t\tSrdjanDjurovic\n\t\t\t0000-0002-8140-8061\n\t\t\n\t\t\n\t\t\tWesleyKThompson\n\t\t\n\t\t\n\t\t\tOleAAndreassen\n\t\t\t0000-0002-4461-3568\n\t\t\n\t\t\n\t\t\tAndersMDale\n\t\t\n\t\t10.1038/s41467-019-10310-0\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c46e697723bebd8666bd77"},"refKey":47},
{"_key":"60c46e6b7723bebd8666bd80","_id":"references/60c46e6b7723bebd8666bd80","_rev":"_cfFlWs----","tei":"\n\t\n\t\tEnsembl Plants: Integrating Tools for Visualizing, Mining, and Analyzing Plant Genomics Data\n\t\t\n\t\t\tDanBolser\n\t\t\n\t\t\n\t\t\tDanielMStaines\n\t\t\n\t\t\n\t\t\tEmilyPritchard\n\t\t\n\t\t\n\t\t\tPaulKersey\n\t\t\n\t\t10.1007/978-1-4939-3167-5_6\n\t\t26519403\n\t\n\t\n\t\tPlant Bioinformatics\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1533\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46e6b7723bebd8666bd7f"},"refKey":14},
{"_key":"60c46e6b7723bebd8666bd81","_id":"references/60c46e6b7723bebd8666bd81","_rev":"_cfFlWsK---","tei":"\n\t\n\t\tThe Triticeae Toolbox: Combining Phenotype and Genotype Data to Advance Small-Grains Breeding\n\t\t\n\t\t\tVictoriaCBlake\n\t\t\n\t\t\n\t\t\tClayBirkett\n\t\t\n\t\t\n\t\t\tDavidEMatthews\n\t\t\n\t\t\n\t\t\tDavidLHane\n\t\t\n\t\t\n\t\t\tPeterBradbury\n\t\t\n\t\t\n\t\t\tJean-LucJannink\n\t\t\n\t\t10.3835/plantgenome2014.12.0099\n\t\t27898834\n\t\t\n\t\t\n\t\n\t\n\t\tThe Plant Genome\n\t\t1940-3372\n\t\t\n\t\t\t9\n\t\t\t2\n\t\t\t0\n\t\t\t\n\t\t\tCrop Science Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c46e6b7723bebd8666bd7f"},"refKey":12},
{"_key":"60c46e6b7723bebd8666bd82","_id":"references/60c46e6b7723bebd8666bd82","_rev":"_cfFlWsW---","tei":"\n\t\n\t\tGrainGenes: centralized small grain resources and digital platform for geneticists and breeders\n\t\t\n\t\t\tVCBlake\n\t\t\n\t\t\n\t\t\tMRWoodhouse\n\t\t\n\t\t\n\t\t\tGRLazo\n\t\t\n\t\t\n\t\t\tSGOdell\n\t\t\n\t\t\n\t\t\tCPWight\n\t\t\n\t\t\n\t\t\tNATinker\n\t\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tYQGu\n\t\t\n\t\t\n\t\t\tCLBirkett\n\t\t\n\t\t\n\t\t\tJ.-LJannink\n\t\t\n\t\t\n\t\t\tDEMatthews\n\t\t\n\t\t\n\t\t\tDLHane\n\t\t\n\t\t\n\t\t\tSLMichel\n\t\t\n\t\t\n\t\t\tEYao\n\t\t\n\t\t\n\t\t\tTZSen\n\t\t\n\t\t10.1093/database/baz065\n\t\t\n\t\n\t\n\t\tDatabase: The Journal of Biological Databases and Curation\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46e6b7723bebd8666bd7f"},"refKey":13},
{"_key":"60c46e6b7723bebd8666bd83","_id":"references/60c46e6b7723bebd8666bd83","_rev":"_cfFlWse---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tTKluyver\n\t\t\n\t\t\n\t\t\tBRagan-Kelley\n\t\t\n\t\t\n\t\t\tFPérez\n\t\t\n\t\t\n\t\t\tBEGranger\n\t\t\n\t\t\n\t\t\tMBussonnier\n\t\t\n\t\t\n\t\t\tJFrederic\n\t\t\n\t\t\n\t\t\tKKelley\n\t\t\n\t\t\n\t\t\tJBHamrick\n\t\t\n\t\t\n\t\t\tJGrout\n\t\t\n\t\t\n\t\t\tSCorlay\n\t\t\n\t\t\n\t\t\tPIvanov\n\t\t\n\t\t\n\t\t\tDAvila\n\t\t\n\t\t\n\t\t\tSAbdalla\n\t\t\n\t\t\n\t\t\tCWilling\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46e6b7723bebd8666bd7f"},"refKey":32},
{"_key":"60c46e767723bebd8666bdc1","_id":"references/60c46e767723bebd8666bdc1","_rev":"_cfFlWsq---","tei":"\n\t\n\t\tAutodock4 and AutoDockTools4: automated docking with selective receptor flexiblity\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46e767723bebd8666bdc0"},"refKey":26},
{"_key":"60c46e767723bebd8666bdc2","_id":"references/60c46e767723bebd8666bdc2","_rev":"_cfFlWs2---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c46e767723bebd8666bdc0"},"refKey":6},
{"_key":"60c46e887723bebd8666bdd5","_id":"references/60c46e887723bebd8666bdd5","_rev":"_cfFlWtC---","tei":"\n\t\n\t\tTREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tKStrimmer\n\t\t\n\t\t\n\t\t\tMVingron\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t10.1093/bioinformatics/18.3.502\n\t\t11934758\n\t\t1460-2059\n\t\tark:/67375/HXZ-5378SRLV-8\n\t\tA8FA9298006C807BBE496DD1AA0604DBBD83E8E5\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t18\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c46e887723bebd8666bdd4"},"refKey":48},
{"_key":"60c46e887723bebd8666bdd6","_id":"references/60c46e887723bebd8666bdd6","_rev":"_cfFlWtO---","tei":"\n\t\n\t\tRecombination rate estimation in the presence of hotspots\n\t\t\n\t\t\tAAuton\n\t\t\n\t\t\n\t\t\tGMcvean\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t17\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46e887723bebd8666bdd4"},"refKey":1},
{"_key":"60c46e887723bebd8666bdd7","_id":"references/60c46e887723bebd8666bdd7","_rev":"_cfFlWtW---","tei":"\n\t\n\t\tPegas: an R package for population genetics with an integrated-modular approach\n\t\t\n\t\t\tEParadis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46e887723bebd8666bdd4"},"refKey":42},
{"_key":"60c46e887723bebd8666bdd8","_id":"references/60c46e887723bebd8666bdd8","_rev":"_cfFlWti---","tei":"\n\t\n\t\tape 5.0: an environment for modern phylogenetics and evolutionary analyses in R\n\t\t\n\t\t\tEParadis\n\t\t\n\t\t\n\t\t\tKSchliep\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46e887723bebd8666bdd4"},"refKey":43},
{"_key":"60c46e9d7723bebd8666bdef","_id":"references/60c46e9d7723bebd8666bdef","_rev":"_cfFlWtu---","tei":"\n\t\n\t\tNew additions to the ClusPro server motivated by CAPRI\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t\n\t\t\tChristineYueh\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tTanggisBohnuud\n\t\t\n\t\t\n\t\t\tScottEMottarella\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t10.1002/prot.25219\n\t\t27936493\n\t\tPMC5313348\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t85\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c46e9d7723bebd8666bdee"},"refKey":36},
{"_key":"60c46e9d7723bebd8666bdf0","_id":"references/60c46e9d7723bebd8666bdf0","_rev":"_cfFlWt6---","tei":"\n\t\n\t\tThe HDOCK server for integrated protein-protein docking\n\t\t\n\t\t\tYYan\n\t\t\n\t\t\n\t\t\tHTao\n\t\t\n\t\t\n\t\t\tJHe\n\t\t\n\t\t\n\t\t\tSYHuang\n\t\t\n\t\t10.1038/s41596-020-0312-x\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c46e9d7723bebd8666bdee"},"refKey":34},
{"_key":"60c46e9d7723bebd8666bdf1","_id":"references/60c46e9d7723bebd8666bdf1","_rev":"_cfFlWuG---","tei":"\n\t\n\t\tProtein-ensemble–RNA docking by efficient consideration of protein flexibility through homology models\n\t\t\n\t\t\tJiahuaHe\n\t\t\n\t\t\n\t\t\tHuanyuTao\n\t\t\n\t\t\n\t\t\tSheng-YouHuang\n\t\t\n\t\t10.1093/bioinformatics/btz388\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c46e9d7723bebd8666bdee"},"refKey":35},
{"_key":"60c46e9d7723bebd8666bdf2","_id":"references/60c46e9d7723bebd8666bdf2","_rev":"_cfFlWuS---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1093/bioinformatics/btu033\n\t\t24451623\n\t\tPMC3998144\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c46e9d7723bebd8666bdee"},"refKey":21},
{"_key":"60c46f367723bebd8666be59","_id":"references/60c46f367723bebd8666be59","_rev":"_cfFlWue---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c46f367723bebd8666be58"},"refKey":24},
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{"_key":"60c46fb67723bebd8666bedf","_id":"references/60c46fb67723bebd8666bedf","_rev":"_cfFlWvK---","tei":"\n\t\n\t\tQuAC: Question Answering in Context\n\t\t\n\t\t\tEunsolChoi\n\t\t\n\t\t\n\t\t\tHeHe\n\t\t\n\t\t\n\t\t\tMohitIyyer\n\t\t\n\t\t\n\t\t\tMarkYatskar\n\t\t\n\t\t\n\t\t\tWen-TauYih\n\t\t\n\t\t\n\t\t\tYejinChoi\n\t\t\n\t\t\n\t\t\tPercyLiang\n\t\t\n\t\t\n\t\t\tLukeZettlemoyer\n\t\t\n\t\t10.18653/v1/d18-1241\n\t\t\n\t\n\t\n\t\tProceedings of the 2018 Conference on Empirical Methods in Natural Language Processing\n\t\t\t\tthe 2018 Conference on Empirical Methods in Natural Language Processing\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46fb67723bebd8666bede"},"refKey":5},
{"_key":"60c46fbc7723bebd8666bee3","_id":"references/60c46fbc7723bebd8666bee3","_rev":"_cfFlWvW---","tei":"\n\t\n\t\tPlot digitizer (version 2.6.3)\n\t\t\n\t\t\tJHuwaldt\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46fbc7723bebd8666bee2"},"refKey":9},
{"_key":"60c46fc77723bebd8666bee9","_id":"references/60c46fc77723bebd8666bee9","_rev":"_cfFlWvi---","tei":"\n\t\n\t\tUsing MUMmer to Identify Similar Regions in Large Sequence Sets\n\t\t\n\t\t\tArthurLDelcher\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\n\t\t10.1002/0471250953.bi1003s00\n\t\t18428693\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t\n\t\t\t00\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c46fc77723bebd8666bee8"},"refKey":31},
{"_key":"60c46fc77723bebd8666beea","_id":"references/60c46fc77723bebd8666beea","_rev":"_cfFlWvu---","tei":"\n\t\n\t\tABySS: A parallel assembler for short read sequence data\n\t\t\n\t\t\tJTSimpson\n\t\t\n\t\t\n\t\t\tKWong\n\t\t\n\t\t\n\t\t\tSDJackman\n\t\t\n\t\t\n\t\t\tJESchein\n\t\t\n\t\t\n\t\t\tSjmJ MJones\n\t\t\n\t\t\n\t\t\tIBirol\n\t\t\n\t\t10.1101/gr.089532.108\n\t\t19251739\n\t\tPMC2694472\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t19\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c46fc77723bebd8666bee8"},"refKey":26},
{"_key":"60c46ff37723bebd8666bf06","_id":"references/60c46ff37723bebd8666bf06","_rev":"_cfFlWv2---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and populationbased linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\t\n\t\t\tNealeBTodd-Brown\n\t\t\n\t\t\n\t\t\tK\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46ff37723bebd8666bf05"},"refKey":28},
{"_key":"60c46ff37723bebd8666bf07","_id":"references/60c46ff37723bebd8666bf07","_rev":"_cfFlWwC---","tei":"\n\t\n\t\tSTRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\t\n\t\t\tALGable\n\t\t\n\t\t\n\t\t\tDLyon\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c46ff37723bebd8666bf05"},"refKey":32},
{"_key":"60c46ff37723bebd8666bf08","_id":"references/60c46ff37723bebd8666bf08","_rev":"_cfFlWwO---","tei":"\n\t\n\t\tRobust and rapid algorithms facilitate large-scale whole genome sequencing downstream analysis in an integrative framework\n\t\t\n\t\t\tMiaoxinLi\n\t\t\n\t\t\n\t\t\tJiangLi\n\t\t\n\t\t\n\t\t\tMulinJunLi\n\t\t\n\t\t\n\t\t\tZhichengPan\n\t\t\n\t\t\n\t\t\tJacobShujuiHsu\n\t\t\n\t\t\n\t\t\tDajiangJLiu\n\t\t\n\t\t\n\t\t\tXiaoweiZhan\n\t\t\n\t\t\n\t\t\tJunwenWang\n\t\t\n\t\t\n\t\t\tYouqiangSong\n\t\t\n\t\t\n\t\t\tPakChungSham\n\t\t\n\t\t10.1093/nar/gkx019\n\t\t28115622\n\t\tPMC5435951\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\t9\n\t\t\tgkx019\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c46ff37723bebd8666bf05"},"refKey":30},
{"_key":"60c470017723bebd8666bf2e","_id":"references/60c470017723bebd8666bf2e","_rev":"_cfFlWwa---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c470017723bebd8666bf2d"},"refKey":64},
{"_key":"60c470127723bebd8666bf32","_id":"references/60c470127723bebd8666bf32","_rev":"_cfFlWwm---","tei":"\n\t\n\t\tVersatile and open software for comparing large genomes\n\t\t\n\t\t\tSKurtz\n\t\t\n\t\t\n\t\t\tAPhillippy\n\t\t\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tMSmoot\n\t\t\n\t\t\n\t\t\tMShumway\n\t\t\n\t\t\n\t\t\tCAntonescu\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t5\n\t\t\t2\n\t\t\tR12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c470127723bebd8666bf31"},"refKey":22},
{"_key":"60c470127723bebd8666bf33","_id":"references/60c470127723bebd8666bf33","_rev":"_cfFlWwu---","tei":"\n\t\n\t\tPrimer3 on the WWW for general users and for biologist programmers\n\t\t\n\t\t\tSRozen\n\t\t\n\t\t\n\t\t\tHSkaletsky\n\t\t\n\t\n\t\n\t\tMethods Mol. Biol\n\t\t\n\t\t\t132\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c470127723bebd8666bf31"},"refKey":31},
{"_key":"60c470127723bebd8666bf34","_id":"references/60c470127723bebd8666bf34","_rev":"_cfFlWw6---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c470127723bebd8666bf31"},"refKey":2},
{"_key":"60c470127723bebd8666bf35","_id":"references/60c470127723bebd8666bf35","_rev":"_cfFlWxG---","tei":"\n\t\n\t\tBLAST: a more efficient report with usability improvements\n\t\t\n\t\t\tGMBoratyn\n\t\t\n\t\t\n\t\t\tCCamacho\n\t\t\n\t\t\n\t\t\tPSCooper\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tAFong\n\t\t\n\t\t\n\t\t\tNMa\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tWTMatten\n\t\t\n\t\t\n\t\t\tSDMcginnis\n\t\t\n\t\t\n\t\t\tYMerezhuk\n\t\t\n\t\t\n\t\t\tYRaytselis\n\t\t\n\t\t\n\t\t\tEWSayers\n\t\t\n\t\t\n\t\t\tTTao\n\t\t\n\t\t\n\t\t\tJYe\n\t\t\n\t\t\n\t\t\tIZaretskaya\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c470127723bebd8666bf31"},"refKey":8},
{"_key":"60c470127723bebd8666bf36","_id":"references/60c470127723bebd8666bf36","_rev":"_cfFlWxS---","tei":"\n\t\n\t\tKraken: ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDEWood\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c470127723bebd8666bf31"},"refKey":38},
{"_key":"60c470127723bebd8666bf37","_id":"references/60c470127723bebd8666bf37","_rev":"_cfFlWxa---","tei":"\n\t\n\t\tScalable metagenomic taxonomy classification using a reference genome database\n\t\t\n\t\t\tSKAmes\n\t\t\n\t\t\n\t\t\tDAHysom\n\t\t\n\t\t\n\t\t\tSNGardner\n\t\t\n\t\t\n\t\t\tGSLloyd\n\t\t\n\t\t\n\t\t\tMBGokhale\n\t\t\n\t\t\n\t\t\tJEAllen\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c470127723bebd8666bf31"},"refKey":3},
{"_key":"60c470147723bebd8666bf46","_id":"references/60c470147723bebd8666bf46","_rev":"_cfFlWxm---","tei":"\n\t\n\t\tAmeliaII: A Program for Missing Data\n\t\t\n\t\t\tJamesHonaker\n\t\t\n\t\t\n\t\t\tGaryKing\n\t\t\n\t\t\n\t\t\tMatthewBlackwell\n\t\t\n\t\t10.18637/jss.v045.i07\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t45\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c470147723bebd8666bf45"},"refKey":33},
{"_key":"60c470177723bebd8666bf4c","_id":"references/60c470177723bebd8666bf4c","_rev":"_cfFlWxy---","tei":"\n\t\n\t\tVersatile and open software for comparing large genomes\n\t\t\n\t\t\tSKurtz\n\t\t\n\t\t\n\t\t\tAPhillippy\n\t\t\n\t\t\n\t\t\tADelcher\n\t\t\n\t\t\n\t\t\tMSmoot\n\t\t\n\t\t\n\t\t\tMShumway\n\t\t\n\t\t\n\t\t\tCAntonescu\n\t\t\n\t\t\n\t\t\tSalzbergS\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t5\n\t\t\tR12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c470177723bebd8666bf4b"},"refKey":4},
{"_key":"60c470177723bebd8666bf4d","_id":"references/60c470177723bebd8666bf4d","_rev":"_cfFlWy----","tei":"\n\t\n\t\tMinimap2: pairwise alignment for nucleotide sequences\n\t\t\n\t\t\tHengLi\n\t\t\n\t\t10.1093/bioinformatics/bty191\n\t\t29750242\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c470177723bebd8666bf4b"},"refKey":6},
{"_key":"60c470177723bebd8666bf4e","_id":"references/60c470177723bebd8666bf4e","_rev":"_cfFlWyK---","tei":"\n\t\n\t\tAn amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar\n\t\t\n\t\t\tNathanDGrubaugh\n\t\t\n\t\t\n\t\t\tKarthikGangavarapu\n\t\t\n\t\t\n\t\t\tJoshuaQuick\n\t\t\n\t\t\n\t\t\tNathanielLMatteson\n\t\t\n\t\t\n\t\t\tJaquelineGoesDe Jesus\n\t\t\n\t\t\n\t\t\tBradleyJMain\n\t\t\n\t\t\n\t\t\tAmandaLTan\n\t\t\n\t\t\n\t\t\tLaurenMPaul\n\t\t\n\t\t\n\t\t\tDougEBrackney\n\t\t\n\t\t\n\t\t\tSaranGrewal\n\t\t\n\t\t\n\t\t\tNikosGurfield\n\t\t\n\t\t\n\t\t\tKoenK AVan Rompay\n\t\t\n\t\t\n\t\t\tSharonIsern\n\t\t\n\t\t\n\t\t\tScottFMichael\n\t\t\n\t\t\n\t\t\tLarkLCoffey\n\t\t\n\t\t\n\t\t\tNicholasJLoman\n\t\t\n\t\t\n\t\t\tKristianGAndersen\n\t\t\t0000-0001-6431-5982\n\t\t\n\t\t10.1186/s13059-018-1618-7\n\t\t30621750\n\t\tPMC6325816\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c470177723bebd8666bf4b"},"refKey":1},
{"_key":"60c470597723bebd8666bf60","_id":"references/60c470597723bebd8666bf60","_rev":"_cfFlWyS---","tei":"\n\t\n\t\tImproved Method for Linear B-Cell Epitope Prediction Using Antigen’s Primary Sequence\n\t\t\n\t\t\tHarinderSingh\n\t\t\n\t\t\n\t\t\tHifzurRahmanAnsari\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1371/journal.pone.0062216\n\t\t23667458\n\t\tPMC3646881\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t5\n\t\t\te62216\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c470597723bebd8666bf5f"},"refKey":42},
{"_key":"60c4708f7723bebd8666bfa0","_id":"references/60c4708f7723bebd8666bfa0","_rev":"_cfFlWye---","tei":"\n\t\n\t\tAutomated MAD and MIR structure solution\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tJoelBerendzen\n\t\t\n\t\t10.1107/s0907444999000839\n\t\t10089316\n\t\tPMC2746121\n\t\tark:/67375/WNG-6990X6L4-P\n\t\t2FE8F0266CA4A6B01599B11B2A2306B9D6533034\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t55\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c4708f7723bebd8666bf9f"},"refKey":36},
{"_key":"60c4708f7723bebd8666bfa1","_id":"references/60c4708f7723bebd8666bfa1","_rev":"_cfFlWyq---","tei":"\n\t\n\t\tA short history of SHELX\n\t\t\n\t\t\tGMSheldrick\n\t\t\n\t\n\t\n\t\tActa Crystallogr. A\n\t\t\n\t\t\t64\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4708f7723bebd8666bf9f"},"refKey":32},
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{"_key":"60c470a87723bebd8666bfba","_id":"references/60c470a87723bebd8666bfba","_rev":"_cfFlWzC---","tei":"\n\t\n\t\tA Fast Flexible Docking Method using an Incremental Construction Algorithm\n\t\t\n\t\t\tMatthiasRarey\n\t\t\n\t\t\n\t\t\tBerndKramer\n\t\t\n\t\t\n\t\t\tThomasLengauer\n\t\t\n\t\t\n\t\t\tGerhardKlebe\n\t\t\n\t\t10.1006/jmbi.1996.0477\n\t\t8780787\n\t\tS0022-2836(96)90477-5\n\t\tark:/67375/6H6-KZF2QWF4-4\n\t\tF66F5BD4CAA28D99062DF70CF99157C7E2F4FDFD\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t261\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c470a87723bebd8666bfb9"},"refKey":29},
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{"_key":"60c470d67723bebd8666bfe5","_id":"references/60c470d67723bebd8666bfe5","_rev":"_cfFlWzm---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c470d67723bebd8666bfe3"},"refKey":37},
{"_key":"60c470ff7723bebd8666c008","_id":"references/60c470ff7723bebd8666c008","_rev":"_cfFlWzu---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tO\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t\n\t\t\t2\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c470ff7723bebd8666c007"},"refKey":41},
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{"_key":"60c4712c7723bebd8666c021","_id":"references/60c4712c7723bebd8666c021","_rev":"_cfFlW0e---","tei":"\n\t\n\t\tIsrael's Ministry of Health's Covid-19 Exposure Prevention App\n\t\t\n\t\t\tHamagen\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4712c7723bebd8666c01e"},"refKey":48},
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{"_key":"60c471407723bebd8666c05f","_id":"references/60c471407723bebd8666c05f","_rev":"_cfFlW02---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMarcelMartin\n\t\t\n\t\t10.14806/ej.17.1.200\n\t\n\t\n\t\tEMBnet.journal\n\t\tEMBnet j.\n\t\t2226-6089\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t10\n\t\t\t\n\t\t\tEMBnet Stichting\n\t\t\n\t\n\n","document":{"$oid":"60c471407723bebd8666c05d"},"refKey":40},
{"_key":"60c4714b7723bebd8666c079","_id":"references/60c4714b7723bebd8666c079","_rev":"_cfFlW1C---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4714b7723bebd8666c078"},"refKey":68},
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{"_key":"60c471587723bebd8666c090","_id":"references/60c471587723bebd8666c090","_rev":"_cfFlW1W---","tei":"\n\t\n\t\tSimultaneous detection and classification of breast masses in digital mammograms via a deep learning YOLO-based CAD system\n\t\t\n\t\t\tMohammedAAl-Masni\n\t\t\n\t\t\n\t\t\tMugahedAAl-Antari\n\t\t\t0000-0002-4457-4407\n\t\t\n\t\t\n\t\t\tJeong-MinPark\n\t\t\n\t\t\n\t\t\tGeonGi\n\t\t\n\t\t\n\t\t\tTae-YeonKim\n\t\t\n\t\t\n\t\t\tPatricioRivera\n\t\t\t0000-0001-6440-5478\n\t\t\n\t\t\n\t\t\tEdwinValarezo\n\t\t\n\t\t\n\t\t\tMun-TaekChoi\n\t\t\n\t\t\n\t\t\tSeung-MooHan\n\t\t\n\t\t\n\t\t\tTae-SeongKim\n\t\t\n\t\t10.1016/j.cmpb.2018.01.017\n\t\t29477437\n\t\t\n\t\n\t\n\t\tComputer Methods and Programs in Biomedicine\n\t\tComputer Methods and Programs in Biomedicine\n\t\t0169-2607\n\t\t\n\t\t\t157\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c471587723bebd8666c08f"},"refKey":9},
{"_key":"60c471587723bebd8666c091","_id":"references/60c471587723bebd8666c091","_rev":"_cfFlW1i---","tei":"\n\t\n\t\tEvaluation of deep learning detection and classification towards computer-aided diagnosis of breast lesions in digital X-ray mammograms\n\t\t\n\t\t\tMAAl-Antari\n\t\t\n\t\t\n\t\t\tT-SKim\n\t\t\n\t\t10.1016/j.cmpb.2020.105584\n\t\t\n\t\n\t\n\t\tComput Methods Prog Biomed\n\t\t\n\t\t\t196\n\t\t\t105584\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c471587723bebd8666c08f"},"refKey":27},
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{"_key":"60c473f07723bebd8666c2c1","_id":"references/60c473f07723bebd8666c2c1","_rev":"_cfFlW8K---","tei":"\n\t\n\t\tWebLogo: A Sequence Logo Generator\n\t\t\n\t\t\tGECrooks\n\t\t\n\t\t\n\t\t\tGHon\n\t\t\n\t\t\n\t\t\tJ.-MChandonia\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\t\n\t\t\tWeblogo\n\t\t\n\t\t10.1101/gr.849004\n\t\t15173120\n\t\tPMC419797\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c473f07723bebd8666c2bf"},"refKey":20},
{"_key":"60c473f07723bebd8666c2c2","_id":"references/60c473f07723bebd8666c2c2","_rev":"_cfFlW8S---","tei":"\n\t\n\t\tPrediction of functional microRNA targets by integrative modeling of microRNA binding and target expression data\n\t\t\n\t\t\tWLiu\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\t10.1186/s13059-019-1629-z\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c473f07723bebd8666c2bf"},"refKey":31},
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{"_key":"60c474477723bebd8666c2fc","_id":"references/60c474477723bebd8666c2fc","_rev":"_cfFlW82---","tei":"\n\t\n\t\tBEAGLE 3: Improved Performance, Scaling, and Usability for a High-Performance Computing Library for Statistical Phylogenetics\n\t\t\n\t\t\tDanielLAyres\n\t\t\n\t\t\n\t\t\tMichaelPCummings\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tAaronEDarling\n\t\t\n\t\t\n\t\t\tPaulOLewis\n\t\t\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tJohnPHuelsenbeck\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syz020\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c474477723bebd8666c2fb"},"refKey":1},
{"_key":"60c474477723bebd8666c2fd","_id":"references/60c474477723bebd8666c2fd","_rev":"_cfFlW9----","tei":"\n\t\n\t\tExploring the Temporal Structure of Heterochronous Sequences Using TempEst (Formerly Path-O-Gen)', Virus Evolution\n\t\t\n\t\t\tARambaut\n\t\t\n\t\n\t\n\t\tNature Microbiology\n\t\t\n\t\t\t2\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tSystematic Biology\n\n","document":{"$oid":"60c474477723bebd8666c2fb"},"refKey":17},
{"_key":"60c474477723bebd8666c2fe","_id":"references/60c474477723bebd8666c2fe","_rev":"_cfFlW9K---","tei":"\n\t\n\t\tPicante: R Tools for Integrating Phylogenies and Ecology\n\t\t\n\t\t\tSWKembel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c474477723bebd8666c2fb"},"refKey":10},
{"_key":"60c474eb7723bebd8666c37b","_id":"references/60c474eb7723bebd8666c37b","_rev":"_cfFlW9W---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c474eb7723bebd8666c37a"},"refKey":9},
{"_key":"60c474eb7723bebd8666c37c","_id":"references/60c474eb7723bebd8666c37c","_rev":"_cfFlW9i---","tei":"\n\t\n\t\tStrength and tempo of selection revealed in viral gene genealogies\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tSarahCobey\n\t\t\n\t\t\n\t\t\tMercedesPascual\n\t\t\n\t\t10.1186/1471-2148-11-220\n\t\t21787390\n\t\tPMC3199772\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t220\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c474eb7723bebd8666c37a"},"refKey":2},
{"_key":"60c474eb7723bebd8666c37d","_id":"references/60c474eb7723bebd8666c37d","_rev":"_cfFlW9u---","tei":"\n\t\n\t\tPopulation genetic processes affecting the mode of selective sweeps and effective population size in influenza virus H3N2\n\t\t\n\t\t\tKangchonKim\n\t\t\n\t\t\n\t\t\tYuseobKim\n\t\t\t0000-0002-7975-6147\n\t\t\n\t\t10.1186/s12862-016-0727-8\n\t\t27487769\n\t\tPMC4972962\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t156\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c474eb7723bebd8666c37a"},"refKey":10},
{"_key":"60c474fd7723bebd8666c384","_id":"references/60c474fd7723bebd8666c384","_rev":"_cfFlW92---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. R foundation for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c474fd7723bebd8666c383"},"refKey":21},
{"_key":"60c475037723bebd8666c387","_id":"references/60c475037723bebd8666c387","_rev":"_cfFlX-C---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c475037723bebd8666c386"},"refKey":8},
{"_key":"60c475217723bebd8666c3b3","_id":"references/60c475217723bebd8666c3b3","_rev":"_cfFlX-O---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c475217723bebd8666c3b2"},"refKey":30},
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{"_key":"60c475877723bebd8666c3fd","_id":"references/60c475877723bebd8666c3fd","_rev":"_cfFlX-u---","tei":"\n\t\n\t\tStatistical Parametric Mapping: The analysis of functional brain images\n\t\t\n\t\t\tKFriston\n\t\t\n\t\t\n\t\t\tKFriston\n\t\t\n\t\t\n\t\t\tJAshburner\n\t\t\n\t\t\n\t\t\tSKiebel\n\t\t\n\t\t\n\t\t\tTNichols\n\t\t\n\t\t\n\t\t\tWBPenny\n\t\t\n\t\t\n\t\t\t\n\t\t\tAcademic Press\n\t\t\tLondon\n\t\t\n\t\n\n","document":{"$oid":"60c475877723bebd8666c3fc"},"refKey":31},
{"_key":"60c475957723bebd8666c408","_id":"references/60c475957723bebd8666c408","_rev":"_cfFlX-6---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tExPASy Proteomics Server\n\t\t\n\t\n\n","document":{"$oid":"60c475957723bebd8666c407"},"refKey":29},
{"_key":"60c475a27723bebd8666c439","_id":"references/60c475a27723bebd8666c439","_rev":"_cfFlX_G---","tei":"\n\t\n\t\tUcsf chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c475a27723bebd8666c438"},"refKey":55},
{"_key":"60c475a27723bebd8666c43a","_id":"references/60c475a27723bebd8666c43a","_rev":"_cfFlX_O---","tei":"\n\t\n\t\tUcsf chimerax: Structure visualization for researchers, educators, and developers\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\t\n\t\t\t30\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c475a27723bebd8666c438"},"refKey":56},
{"_key":"60c475a27723bebd8666c43b","_id":"references/60c475a27723bebd8666c43b","_rev":"_cfFlX_a---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\t10.1016/0263-7855(96\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c475a27723bebd8666c438"},"refKey":48},
{"_key":"60c475a27723bebd8666c43c","_id":"references/60c475a27723bebd8666c43c","_rev":"_cfFlX_m---","tei":"\n\t\n\t\tPrediction of water and metal binding sites and their affinities by using the Fold-X force field\n\t\t\n\t\t\tJW HSchymkowitz\n\t\t\n\t\t\n\t\t\tFRousseau\n\t\t\n\t\t\n\t\t\tICMartins\n\t\t\n\t\t\n\t\t\tJFerkinghoff-Borg\n\t\t\n\t\t\n\t\t\tFStricher\n\t\t\n\t\t\n\t\t\tLSerrano\n\t\t\n\t\t10.1073/pnas.0501980102\n\t\t16006526\n\t\tPMC1177371\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t102\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c475a27723bebd8666c438"},"refKey":24},
{"_key":"60c475a27723bebd8666c43d","_id":"references/60c475a27723bebd8666c43d","_rev":"_cfFlX_y---","tei":"\n\t\n\t\tSetting up and running molecular dynamics simulations of membrane proteins\n\t\t\n\t\t\tChristianKandt\n\t\t\n\t\t\n\t\t\tWalterLAsh\n\t\t\n\t\t\n\t\t\tDPeter Tieleman\n\t\t\n\t\t10.1016/j.ymeth.2006.08.006\n\t\t17367719\n\t\t\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c475a27723bebd8666c438"},"refKey":49},
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{"_key":"60c4763c7723bebd8666c4d1","_id":"references/60c4763c7723bebd8666c4d1","_rev":"_cfFlXBi---","tei":"\n\t\n\t\tCopenhagen: The Nordic Cochrane Centre, The Cochrane Collaboration\n\t\t\n\t\t\tCochraneCommunity\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tReview Manager (RevMan)\n\n","document":{"$oid":"60c4763c7723bebd8666c4d0"},"refKey":30},
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{"_key":"60c476ce7723bebd8666c53f","_id":"references/60c476ce7723bebd8666c53f","_rev":"_cfFlXCa---","tei":"\n\t\n\t\tan R package for comparing biological themes among gene clusters\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tL.-GWang\n\t\t\n\t\t\n\t\t\tYHan\n\t\t\n\t\t\n\t\t\tQ.-YHe\n\t\t\n\t\n\t\n\t\tOMICS\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c476ce7723bebd8666c53d"},"refKey":19},
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{"_key":"60c477407723bebd8666c589","_id":"references/60c477407723bebd8666c589","_rev":"_cfFlXCu---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c477407723bebd8666c588"},"refKey":21},
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{"_key":"60c478387723bebd8666c66e","_id":"references/60c478387723bebd8666c66e","_rev":"_cfFlXHS---","tei":"\n\t\n\t\tImproved side-chain modeling for protein-protein docking\n\t\t\n\t\t\tChuWang\n\t\t\n\t\t\n\t\t\tOraSchueler-Furman\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t10.1110/ps.041222905\n\t\t15802647\n\t\tPMC2253276\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t14\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c478387723bebd8666c666"},"refKey":23},
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{"_key":"60c478387723bebd8666c671","_id":"references/60c478387723bebd8666c671","_rev":"_cfFlXHy---","tei":"\n\t\n\t\tUsing reliability information to annotate RNA secondary structures\n\t\t\n\t\t\tMichaelZuker\n\t\t\n\t\t\n\t\t\tAnnBJacobson\n\t\t\n\t\t10.1017/s1355838298980116\n\t\t9622126\n\t\tPMC1369649\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t4\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c478387723bebd8666c666"},"refKey":42},
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{"_key":"60c479b07723bebd8666c7a9","_id":"references/60c479b07723bebd8666c7a9","_rev":"_cfFlXMe---","tei":"\n\t\n\t\tGeneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c479b07723bebd8666c7a8"},"refKey":49},
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{"_key":"60c479b07723bebd8666c7ac","_id":"references/60c479b07723bebd8666c7ac","_rev":"_cfFlXNO---","tei":"\n\t\n\t\tHigh-Throughput Next-Generation Sequencing of Polioviruses\n\t\t\n\t\t\tAnnaMMontmayeur\n\t\t\n\t\t\n\t\t\tTerryFei FanNg\n\t\t\t0000-0002-4815-8697\n\t\t\n\t\t\n\t\t\tAlexanderSchmidt\n\t\t\n\t\t\n\t\t\tKunZhao\n\t\t\n\t\t\n\t\t\tLauraMagaña\n\t\t\n\t\t\n\t\t\tJaneIber\n\t\t\n\t\t\n\t\t\tChristinaJCastro\n\t\t\n\t\t\n\t\t\tQiChen\n\t\t\n\t\t\n\t\t\tElizabethHenderson\n\t\t\n\t\t\n\t\t\tEdwardRamos\n\t\t\n\t\t\n\t\t\tJingShaw\n\t\t\n\t\t\n\t\t\tRomanLTatusov\n\t\t\n\t\t\n\t\t\tNaomiDybdahl-Sissoko\n\t\t\n\t\t\n\t\t\tMarieClaireEndegue-Zanga\n\t\t\n\t\t\n\t\t\tJohnsonAAdeniji\n\t\t\n\t\t\n\t\t\tMStevenOberste\n\t\t\n\t\t\n\t\t\tCaraCBurns\n\t\t\n\t\t10.1128/jcm.02121-16\n\t\t27927929\n\t\tPMC5277531\n\t\t\n\t\n\t\n\t\tJournal of Clinical Microbiology\n\t\tJ. Clin. Microbiol.\n\t\t0095-1137\n\t\t1098-660X\n\t\t\n\t\t\t55\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c479b07723bebd8666c7a8"},"refKey":24},
{"_key":"60c479b07723bebd8666c7ad","_id":"references/60c479b07723bebd8666c7ad","_rev":"_cfFlXNq---","tei":"\n\t\n\t\tAn Improved Sequence Assembly Program\n\t\t\n\t\t\tXiaoqiuHuang\n\t\t\n\t\t\n\t\t\tAMadan\n\t\t\n\t\t10.1006/geno.1996.0155\n\t\t8617506\n\t\tS0888-7543(96)90155-X\n\t\tark:/67375/6H6-52P2KD3M-9\n\t\tA03DA029060EB407D3641D586BA98D16DE5A2FA4\n\t\n\t\n\t\tGenomics\n\t\tGenomics\n\t\t0888-7543\n\t\t\n\t\t\t33\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c479b07723bebd8666c7a8"},"refKey":40},
{"_key":"60c479b07723bebd8666c7ae","_id":"references/60c479b07723bebd8666c7ae","_rev":"_cfFlXOC---","tei":"\n\t\n\t\tUsing the miraEST Assembler for Reliable and Automated mRNA Transcript Assembly and SNP Detection in Sequenced ESTs\n\t\t\n\t\t\tBChevreux\n\t\t\n\t\t\n\t\t\tTPfisterer\n\t\t\n\t\t\n\t\t\tBDrescher\n\t\t\n\t\t\n\t\t\tAJDriesel\n\t\t\n\t\t\n\t\t\tWEMuller\n\t\t\n\t\t\n\t\t\tTWetter\n\t\t\n\t\t\n\t\t\tSSuhai\n\t\t\n\t\t10.1101/gr.1917404\n\t\t15140833\n\t\tPMC419793\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c479b07723bebd8666c7a8"},"refKey":41},
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{"_key":"60c479b07723bebd8666c7b3","_id":"references/60c479b07723bebd8666c7b3","_rev":"_cfFlXPK---","tei":"\n\t\n\t\tFull-length transcriptome assembly from RNA-Seq data without a reference genome\n\t\t\n\t\t\tMGGrabherr\n\t\t\n\t\t\n\t\t\tBJHaas\n\t\t\n\t\t\n\t\t\tMYassour\n\t\t\n\t\t\n\t\t\tJZLevin\n\t\t\n\t\t\n\t\t\tDAThompson\n\t\t\n\t\t\n\t\t\tIAmit\n\t\t\n\t\t\n\t\t\tXAdiconis\n\t\t\n\t\t\n\t\t\tLFan\n\t\t\n\t\t\n\t\t\tRRaychowdhury\n\t\t\n\t\t\n\t\t\tQZeng\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c479b07723bebd8666c7a8"},"refKey":48},
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{"_key":"60c47a607723bebd8666c848","_id":"references/60c47a607723bebd8666c848","_rev":"_cfFlXR6---","tei":"\n\t\n\t\tA Framework for Verifying Depth-First Search Algorithms\n\t\t\n\t\t\tPeterLammich\n\t\t\n\t\t\n\t\t\tRenéNeumann\n\t\t\n\t\t10.1145/2676724.2693165\n\t\t\n\t\n\t\n\t\tProceedings of the 2015 Conference on Certified Programs and Proofs - CPP '15\n\t\t\t\tthe 2015 Conference on Certified Programs and Proofs - CPP '15\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c47a607723bebd8666c846"},"refKey":26},
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{"_key":"60c47aa47723bebd8666c895","_id":"references/60c47aa47723bebd8666c895","_rev":"_cfFlXTK---","tei":"\n\t\n\t\tA Short Scale for Measuring Loneliness in Large Surveys\n\t\t\n\t\t\tMaryElizabethHughes\n\t\t\n\t\t\n\t\t\tLindaJWaite\n\t\t\n\t\t\n\t\t\tLouiseCHawkley\n\t\t\n\t\t\n\t\t\tJohnTCacioppo\n\t\t\n\t\t10.1177/0164027504268574\n\t\t18504506\n\t\tPMC2394670\n\t\tark:/67375/M70-TNK3X3N4-F\n\t\tF0B81F923C3F9EAD5C64D63F705C70D9D9555833\n\t\t\n\t\n\t\n\t\tResearch on Aging\n\t\tRes Aging\n\t\t0164-0275\n\t\t1552-7573\n\t\t\n\t\t\t26\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c47aa47723bebd8666c894"},"refKey":55},
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{"_key":"60c47acb7723bebd8666c8a8","_id":"references/60c47acb7723bebd8666c8a8","_rev":"_cfFlXTq---","tei":"\n\t\n\t\tELM: the status of the 2010 eukaryotic linear motif resource\n\t\t\n\t\t\tCathrynMGould\n\t\t\n\t\t\n\t\t\tFrancescaDiella\n\t\t\n\t\t\n\t\t\tAllegraVia\n\t\t\n\t\t\n\t\t\tPålPuntervoll\n\t\t\n\t\t\n\t\t\tChristineGemünd\n\t\t\n\t\t\n\t\t\tSophieChabanis-Davidson\n\t\t\n\t\t\n\t\t\tSushamaMichael\n\t\t\n\t\t\n\t\t\tAhmedSayadi\n\t\t\n\t\t\n\t\t\tJanChristianBryne\n\t\t\n\t\t\n\t\t\tClaudiaChica\n\t\t\n\t\t\n\t\t\tMarkusSeiler\n\t\t\n\t\t\n\t\t\tNormanEDavey\n\t\t\n\t\t\n\t\t\tNiallHaslam\n\t\t\n\t\t\n\t\t\tRobertJWeatheritt\n\t\t\n\t\t\n\t\t\tAidanBudd\n\t\t\n\t\t\n\t\t\tTimHughes\n\t\t\n\t\t\n\t\t\tJakubPaś\n\t\t\n\t\t\n\t\t\tLeszekRychlewski\n\t\t\n\t\t\n\t\t\tGillesTravé\n\t\t\n\t\t\n\t\t\tReinAasland\n\t\t\n\t\t\n\t\t\tManuelaHelmer-Citterich\n\t\t\n\t\t\n\t\t\tRuneLinding\n\t\t\n\t\t\n\t\t\tTobyJGibson\n\t\t\n\t\t10.1093/nar/gkp1016\n\t\t19920119\n\t\tPMC2808914\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tsuppl_1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a5"},"refKey":104},
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{"_key":"60c47acb7723bebd8666c8ab","_id":"references/60c47acb7723bebd8666c8ab","_rev":"_cfFlXUa---","tei":"\n\t\n\t\tModeling of loops in protein structures\n\t\t\n\t\t\tAndrásFiser\n\t\t\n\t\t\n\t\t\tRichardKinh GianDo\n\t\t\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t10.1110/ps.9.9.1753\n\t\t11045621\n\t\tPMC2144714\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t9\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":105},
{"_key":"60c47acb7723bebd8666c8ad","_id":"references/60c47acb7723bebd8666c8ad","_rev":"_cfFlXUm---","tei":"\n\t\n\t\tEvolution and Physics in Comparative Protein Structure Modeling\n\t\t\n\t\t\tAndrásFiser\n\t\t\n\t\t\n\t\t\tMichaelFeig\n\t\t\n\t\t\n\t\t\tCharlesLBrooks\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1021/ar010061h\n\t\t12069626\n\t\t\n\t\n\t\n\t\tAccounts of Chemical Research\n\t\tAcc. Chem. Res.\n\t\t0001-4842\n\t\t1520-4898\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":106},
{"_key":"60c47acb7723bebd8666c8ae","_id":"references/60c47acb7723bebd8666c8ae","_rev":"_cfFlXUu---","tei":"\n\t\n\t\tLarge-scale protein structure modeling of the Saccharomyces cerevisiae genome\n\t\t\n\t\t\tRSanchez\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\t10.1073/pnas.95.23.13597\n\t\t9811845\n\t\tPMC24864\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t95\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":30},
{"_key":"60c47acb7723bebd8666c8af","_id":"references/60c47acb7723bebd8666c8af","_rev":"_cfFlXU6---","tei":"\n\t\n\t\tTools for comparative protein structure modeling and analysis\n\t\t\n\t\t\tNEswar\n\t\t\n\t\t\n\t\t\tBJohn\n\t\t\n\t\t\n\t\t\tNMirkovic\n\t\t\n\t\t\n\t\t\tAFiser\n\t\t\n\t\t\n\t\t\tVAIlyin\n\t\t\n\t\t\n\t\t\tUPieper\n\t\t\n\t\t\n\t\t\tACStuart\n\t\t\n\t\t\n\t\t\tMAMarti-Renom\n\t\t\n\t\t\n\t\t\tMSMadhusudhan\n\t\t\n\t\t\n\t\t\tBYerkovich\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\t10.1093/nar/gkg543\n\t\t12824331\n\t\tPMC168950\n\t\tark:/67375/HXZ-1VF4H4B7-F\n\t\t65302D2B545E04BAFD3DE7DF06454141EB626FB2\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":293},
{"_key":"60c47acb7723bebd8666c8b1","_id":"references/60c47acb7723bebd8666c8b1","_rev":"_cfFlXVG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tModweb\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":311},
{"_key":"60c47acb7723bebd8666c8b3","_id":"references/60c47acb7723bebd8666c8b3","_rev":"_cfFlXVS---","tei":"\n\t\n\t\tImprovement of the GenTHREADER method for genomic fold recognition\n\t\t\n\t\t\tLJMcguffin\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t10.1093/bioinformatics/btg097\n\t\t12724298\n\t\t1460-2059\n\t\tark:/67375/HXZ-F89ZCJ5L-S\n\t\tB45FE436C92110AEFBD1B09A4D72C41B76DDEFB4\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":66},
{"_key":"60c47acb7723bebd8666c8b4","_id":"references/60c47acb7723bebd8666c8b4","_rev":"_cfFlXVa---","tei":"\n\t\n\t\tDeinococcus does the two-step\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t10.1038/nrm2046\n\t\n\t\n\t\tNature Reviews Molecular Cell Biology\n\t\tNat Rev Mol Cell Biol\n\t\t1471-0072\n\t\t1471-0080\n\t\t\n\t\t\t7\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":75},
{"_key":"60c47acb7723bebd8666c8b5","_id":"references/60c47acb7723bebd8666c8b5","_rev":"_cfFlXVm---","tei":"\n\t\n\t\tKinetic and Morphological Studies of Two Different Topological Structures Developed fromN, N’-Bis (4-N-Alkylo-Xybenzoyl) Hydrazine (4D16) Organogel\n\t\t\n\t\t\tYanZhang\n\t\t\n\t\t\n\t\t\tHaitaoWang\n\t\t\n\t\t\n\t\t\tChengxiaoZhao\n\t\t\n\t\t\n\t\t\tBinglianBai\n\t\t\n\t\t\n\t\t\tMinLi\n\t\t\n\t\t10.1080/1539445x.2013.870912\n\t\n\t\n\t\tSoft Materials\n\t\tSoft Materials\n\t\t1539-445X\n\t\t1539-4468\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":306},
{"_key":"60c47acb7723bebd8666c8b6","_id":"references/60c47acb7723bebd8666c8b6","_rev":"_cfFlXVy---","tei":"\n\t\n\t\tAccurate modeling of protein conformation by automatic segment matching\n\t\t\n\t\t\tMichaelLevitt\n\t\t\n\t\t10.1016/0022-2836(92)90964-l\n\t\t1640463\n\t\t0022-2836(92)90964-L\n\t\tark:/67375/6H6-12JLM08X-7\n\t\t6BD8FDF91CE446658D7BB606CECD39E246E7E070\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t226\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":99},
{"_key":"60c47acb7723bebd8666c8b7","_id":"references/60c47acb7723bebd8666c8b7","_rev":"_cfFlXW----","tei":"\n\t\n\t\tAnalysis and prediction of inter-strand packing distances between β-sheets of globular proteins\n\t\t\n\t\t\tHampapathaluANagarajaram\n\t\t\n\t\t\n\t\t\tBoojalaV BReddy\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t10.1093/protein/12.12.1055\n\t\t10611399\n\t\t1460-213X\n\t\tark:/67375/HXZ-VN4X29LK-8\n\t\t438B82F18008E9478346BB942EA2E722C406E73A\n\t\t\n\t\n\t\n\t\tProtein Engineering, Design and Selection\n\t\t1741-0126\n\t\t1741-0134\n\t\t\n\t\t\t12\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":90},
{"_key":"60c47acb7723bebd8666c8b8","_id":"references/60c47acb7723bebd8666c8b8","_rev":"_cfFlXWG---","tei":"\n\t\n\t\tKnowledge based modelling of homologous proteins, part I: three-dimensional frameworks derived from the simultaneous superposition of multiple structures\n\t\t\n\t\t\tMJSutcliffe\n\t\t\n\t\t\n\t\t\tIHaneef\n\t\t\n\t\t\n\t\t\tDCarney\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1093/protein/1.5.377\n\t\t3508286\n\t\tark:/67375/HXZ-279J3B9G-K\n\t\t8F4F676FC1C957E696C2CE19EE552C5E6003FFD2\n\t\n\t\n\t\t"Protein Engineering, Design and Selection"\n\t\tProtein Eng Des Sel\n\t\t1741-0126\n\t\t1741-0134\n\t\t\n\t\t\t1\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":91},
{"_key":"60c47acb7723bebd8666c8b9","_id":"references/60c47acb7723bebd8666c8b9","_rev":"_cfFlXWS---","tei":"\n\t\n\t\tKnowledge based modelling of homologous proteins, part II: rules for the conformations of substituted sidechains\n\t\t\n\t\t\tMJSutcliffe\n\t\t\n\t\t\n\t\t\tFR FHayes\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1093/protein/1.5.385\n\t\t3508287\n\t\tark:/67375/HXZ-KDH0RF6N-9\n\t\tB61A063C5AC61EEA9D2852E546A838BDD98AF567\n\t\n\t\n\t\t"Protein Engineering, Design and Selection"\n\t\tProtein Eng Des Sel\n\t\t1741-0126\n\t\t1741-0134\n\t\t\n\t\t\t1\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":92},
{"_key":"60c47acb7723bebd8666c8ba","_id":"references/60c47acb7723bebd8666c8ba","_rev":"_cfFlXWe---","tei":"\n\t\n\t\tFragment Ranking in Modelling of Protein Structure\n\t\t\n\t\t\tChristopherMTopham\n\t\t\n\t\t\n\t\t\tAlasdairMcleod\n\t\t\n\t\t\n\t\t\tFrankEisenmenger\n\t\t\n\t\t\n\t\t\tJohnPOverington\n\t\t\n\t\t\n\t\t\tMarkSJohnson\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t10.1006/jmbi.1993.1018\n\t\t8421300\n\t\tS0022-2836(83)71018-1\n\t\tark:/67375/6H6-Q2C1N407-0\n\t\t121553B2D565F8060043ACA2E1FB678625236438\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t229\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":93},
{"_key":"60c47acb7723bebd8666c8bb","_id":"references/60c47acb7723bebd8666c8bb","_rev":"_cfFlXWq---","tei":"\n\t\n\t\tEnhanced genome annotation using structural profiles in the program 3D-PSSM 1 1Edited by J. Thornton\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\n\t\t\n\t\t\tRobertMMaccallum\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1006/jmbi.2000.3741\n\t\t10860755\n\t\tS0022-2836(00)93741-0\n\t\tark:/67375/6H6-8C85NF0G-7\n\t\t863E87373652E5CCB981F3BC92DECFEE467C24A8\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t299\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":76},
{"_key":"60c47acb7723bebd8666c8bc","_id":"references/60c47acb7723bebd8666c8bc","_rev":"_cfFlXWy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDLipman\n\t\t\n\t\n\t\n\t\tJ. Nucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":39},
{"_key":"60c47acb7723bebd8666c8bd","_id":"references/60c47acb7723bebd8666c8bd","_rev":"_cfFlXX----","tei":"\n\t\n\t\tEnhancement of protein modeling by human intervention in applying the automatic programs 3D-JIGSAW and 3D-PSSM\n\t\t\n\t\t\tPaulABates\n\t\t\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\n\t\t\n\t\t\tRobertMMaccallum\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1002/prot.1168\n\t\t11835480\n\t\tark:/67375/WNG-9N6JWCTF-R\n\t\tA0C2A9BDBA1AD8948ADD8E159B092E34BBBD0B26\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t45\n\t\t\tS5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":94},
{"_key":"60c47acb7723bebd8666c8be","_id":"references/60c47acb7723bebd8666c8be","_rev":"_cfFlXXK---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":46},
{"_key":"60c47acb7723bebd8666c8bf","_id":"references/60c47acb7723bebd8666c8bf","_rev":"_cfFlXXW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tYSong\n\t\t\n\t\t\n\t\t\tFDimaio\n\t\t\n\t\t\n\t\t\tRYWang\n\t\t\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tCMiles\n\t\t\n\t\t\n\t\t\tTBrunette\n\t\t\n\t\t\n\t\t\tJThompson\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\n\t\n\t\tStructure\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":81},
{"_key":"60c47acb7723bebd8666c8c0","_id":"references/60c47acb7723bebd8666c8c0","_rev":"_cfFlXXi---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":52},
{"_key":"60c47acb7723bebd8666c8c1","_id":"references/60c47acb7723bebd8666c8c1","_rev":"_cfFlXXq---","tei":"\n\t\n\t\tEvolution of Outer Membrane β-Barrels from an Ancestral ββ Hairpin\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tDLinke\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\t\n\t\t\tJSöding\n\t\t\n\t\t10.1093/molbev/msq017\n\t\t20106904\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t27\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":53},
{"_key":"60c47acb7723bebd8666c8c2","_id":"references/60c47acb7723bebd8666c8c2","_rev":"_cfFlXX2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tNGuex\n\t\t\n\t\t\n\t\t\tMCPeitsch\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":95},
{"_key":"60c47acb7723bebd8666c8c3","_id":"references/60c47acb7723bebd8666c8c3","_rev":"_cfFlXYC---","tei":"\n\t\n\t\tHierarchical Docking of Databases of Multiple Ligand Conformations\n\t\t\n\t\t\tDavidLorber\n\t\t\n\t\t\n\t\t\tBrianShoichet\n\t\t\n\t\t10.2174/1568026054637683\n\t\t16101414\n\t\tPMC1364474\n\t\t\n\t\n\t\n\t\tCurrent Topics in Medicinal Chemistry\n\t\tCTMC\n\t\t1568-0266\n\t\t\n\t\t\t5\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tBentham Science Publishers Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":249},
{"_key":"60c47acb7723bebd8666c8c4","_id":"references/60c47acb7723bebd8666c8c4","_rev":"_cfFlXYO---","tei":"\n\t\n\t\tModeller 9\n\t\t\n\t\t\n\t\t\t12\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":54},
{"_key":"60c47acb7723bebd8666c8c5","_id":"references/60c47acb7723bebd8666c8c5","_rev":"_cfFlXYW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSWu\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t72\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c47acb7723bebd8666c8a6"},"refKey":78},
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{"_key":"60c47cac7723bebd8666ca40","_id":"references/60c47cac7723bebd8666ca40","_rev":"_cfFlXda---","tei":"\n\t\n\t\tNew Antiviral Target Revealed by the Hexameric Structure of Mouse Hepatitis Virus Nonstructural Protein nsp15\n\t\t\n\t\t\tXXu\n\t\t\n\t\t\n\t\t\tYZhai\n\t\t\n\t\t\n\t\t\tFSun\n\t\t\n\t\t\n\t\t\tZLou\n\t\t\n\t\t\n\t\t\tDSu\n\t\t\n\t\t\n\t\t\tYXu\n\t\t\n\t\t\n\t\t\tRZhang\n\t\t\n\t\t\n\t\t\tAJoachimiak\n\t\t\n\t\t\n\t\t\tXCZhang\n\t\t\n\t\t\n\t\t\tMBartlam\n\t\t\n\t\t\n\t\t\tZRao\n\t\t\n\t\t10.1128/jvi.00525-06\n\t\t16873248\n\t\tPMC1563835\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJournal of Virology\n\t\t0022-538X\n\t\t\n\t\t\t80\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c47cac7723bebd8666ca3e"},"refKey":11},
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{"_key":"60c47e8c7723bebd8666cb87","_id":"references/60c47e8c7723bebd8666cb87","_rev":"_cfFlXha---","tei":"\n\t\n\t\tProposal: a mixed methods appraisal tool for systematic mixed studies reviews\n\t\t\n\t\t\tPPluye\n\t\t\n\t\t\n\t\t\tERobert\n\t\t\n\t\t\n\t\t\tMCargo\n\t\t\n\t\t\n\t\t\tGBartlett\n\t\t\n\t\t\n\t\t\tAO'cathain\n\t\t\n\t\t\n\t\t\tFGriffiths\n\t\t\n\t\t\n\t\t\tFBoardman\n\t\t\n\t\t\n\t\t\tMPGagnon\n\t\t\n\t\t\n\t\t\tMCRousseau\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tMontreal: Department of Family Medicine, McGill University\n\t\t\n\t\n\n","document":{"$oid":"60c47e8c7723bebd8666cb86"},"refKey":36},
{"_key":"60c47e937723bebd8666cb8e","_id":"references/60c47e937723bebd8666cb8e","_rev":"_cfFlXhi---","tei":"\n\t\n\t\tLIGPLOT: a program to generate schematic diagrams of protein-ligand interactions\n\t\t\n\t\t\tACWallace\n\t\t\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tProtein Eng\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c47e937723bebd8666cb8d"},"refKey":108},
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{"_key":"60c47efc7723bebd8666cc22","_id":"references/60c47efc7723bebd8666cc22","_rev":"_cfFlXjq---","tei":"\n\t\n\t\tPhylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea\n\t\t\n\t\t\tQZhu\n\t\t\n\t\t\n\t\t\tUMai\n\t\t\n\t\t\n\t\t\tWPfeiffer\n\t\t\n\t\n\t\n\t\tNat. Commun\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t5477\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c47efc7723bebd8666cc1d"},"refKey":40},
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{"_key":"60c47fbc7723bebd8666cc95","_id":"references/60c47fbc7723bebd8666cc95","_rev":"_cfFlXkW---","tei":"\n\t\n\t\tCisco visual networking index: Forecast and methodology\n\t\t\n\t\t\tCisco\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWhite paper\n\n","document":{"$oid":"60c47fbc7723bebd8666cc94"},"refKey":10},
{"_key":"60c47fbc7723bebd8666cc96","_id":"references/60c47fbc7723bebd8666cc96","_rev":"_cfFlXke---","tei":"\n\t\n\t\tNulls in the Air: Passive and Low-Complexity QoS Estimation Method for a Large-Scale Wi-Fi Network Based on Null Function Data Frames\n\t\t\n\t\t\tNaokiIshikawa\n\t\t\t0000-0001-8978-4849\n\t\t\n\t\t\n\t\t\tYasuhiroOhishi\n\t\t\n\t\t\n\t\t\tKaoriMaeda\n\t\t\t0000-0002-9693-8380\n\t\t\n\t\t10.1109/access.2019.2902182\n\t\n\t\n\t\tIEEE Access\n\t\tIEEE Access\n\t\t2169-3536\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c47fbc7723bebd8666cc94"},"refKey":16},
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{"_key":"60c47fc97723bebd8666ccab","_id":"references/60c47fc97723bebd8666ccab","_rev":"_cfFlXlC---","tei":"\n\t\n\t\tA graphical user interface to theCCP4 program suite\n\t\t\n\t\t\tElizabethPotterton\n\t\t\n\t\t\n\t\t\tPeterBriggs\n\t\t\n\t\t\n\t\t\tMariaTurkenburg\n\t\t\n\t\t\n\t\t\tEleanorDodson\n\t\t\n\t\t10.1107/s0907444903008126\n\t\t12832755\n\t\tark:/67375/WNG-CM2L4985-P\n\t\tFB14E7ADEA511DA4BE211DEE404EE3AB48937269\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t59\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c47fc97723bebd8666cca9"},"refKey":49},
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{"_key":"60c4802e7723bebd8666ccda","_id":"references/60c4802e7723bebd8666ccda","_rev":"_cfFlXli---","tei":"\n\t\n\t\tHigh resolution single particle refinement in EMAN2.1\n\t\t\n\t\t\tJamesMBell\n\t\t\n\t\t\n\t\t\tMuyuanChen\n\t\t\n\t\t\n\t\t\tPhilipRBaldwin\n\t\t\n\t\t\n\t\t\tStevenJLudtke\n\t\t\n\t\t10.1016/j.ymeth.2016.02.018\n\t\t26931650\n\t\tPMC4848122\n\t\t\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t100\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4802e7723bebd8666ccd9"},"refKey":54},
{"_key":"60c480467723bebd8666ccf9","_id":"references/60c480467723bebd8666ccf9","_rev":"_cfFlXlu---","tei":"\n\t\n\t\tInferring Admixture Histories of Human Populations Using Linkage Disequilibrium\n\t\t\n\t\t\tPo-RuLoh\n\t\t\n\t\t\n\t\t\tMarkLipson\n\t\t\n\t\t\n\t\t\tNickPatterson\n\t\t\n\t\t\n\t\t\tPriyaMoorjani\n\t\t\n\t\t\n\t\t\tJosephKPickrell\n\t\t\n\t\t\n\t\t\tDavidReich\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t10.1534/genetics.112.147330\n\t\t23410830\n\t\tPMC3606100\n\t\t\n\t\n\t\n\t\tGenetics\n\t\tGenetics\n\t\t0016-6731\n\t\t1943-2631\n\t\t\n\t\t\t193\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tGenetics Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c480467723bebd8666ccf8"},"refKey":53},
{"_key":"60c480467723bebd8666ccfa","_id":"references/60c480467723bebd8666ccfa","_rev":"_cfFlXl6---","tei":"\n\t\n\t\tFast model-based estimation of ancestry in unrelated individuals\n\t\t\n\t\t\tDHAlexander\n\t\t\n\t\t\n\t\t\tJNovembre\n\t\t\n\t\t\n\t\t\tKLange\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c480467723bebd8666ccf8"},"refKey":0},
{"_key":"60c480467723bebd8666ccfb","_id":"references/60c480467723bebd8666ccfb","_rev":"_cfFlXmC---","tei":"\n\t\n\t\tSecond-generation PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tCCChang\n\t\t\n\t\t\n\t\t\tCCChow\n\t\t\n\t\t\n\t\t\tLCTellier\n\t\t\n\t\t\n\t\t\tSVattikuti\n\t\t\n\t\t\n\t\t\tSMPurcell\n\t\t\n\t\t\n\t\t\tJJLee\n\t\t\n\t\n\t\n\t\tGigascience\n\t\t\n\t\t\t4\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c480467723bebd8666ccf8"},"refKey":17},
{"_key":"60c480467723bebd8666ccfc","_id":"references/60c480467723bebd8666ccfc","_rev":"_cfFlXmO---","tei":"\n\t\n\t\tFast and accurate inference of local ancestry in Latino populations\n\t\t\n\t\t\tYaelBaran\n\t\t\n\t\t\n\t\t\tBogdanPasaniuc\n\t\t\n\t\t\n\t\t\tSriramSankararaman\n\t\t\n\t\t\n\t\t\tDaraGTorgerson\n\t\t\n\t\t\n\t\t\tChristopherGignoux\n\t\t\n\t\t\n\t\t\tCelesteEng\n\t\t\n\t\t\n\t\t\tWilliamRodriguez-Cintron\n\t\t\n\t\t\n\t\t\tRocioChapela\n\t\t\n\t\t\n\t\t\tJeanGFord\n\t\t\n\t\t\n\t\t\tPedroCAvila\n\t\t\n\t\t\n\t\t\tJoseRodriguez-Santana\n\t\t\n\t\t\n\t\t\tEstebanGonzàlezBurchard\n\t\t\n\t\t\n\t\t\tEranHalperin\n\t\t\n\t\t10.1093/bioinformatics/bts144\n\t\t22495753\n\t\tPMC3348558\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c480467723bebd8666ccf8"},"refKey":5},
{"_key":"60c480467723bebd8666ccfd","_id":"references/60c480467723bebd8666ccfd","_rev":"_cfFlXma---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c480467723bebd8666ccf8"},"refKey":48},
{"_key":"60c480467723bebd8666ccfe","_id":"references/60c480467723bebd8666ccfe","_rev":"_cfFlXmm---","tei":"\n\t\n\t\tQualimap 2: advanced multi-sample quality control for high-throughput sequencing data\n\t\t\n\t\t\tKonstantinOkonechnikov\n\t\t\n\t\t\n\t\t\tAnaConesa\n\t\t\n\t\t\n\t\t\tFernandoGarcía-Alcalde\n\t\t\n\t\t10.1093/bioinformatics/btv566\n\t\t26428292\n\t\tPMC4708105\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t2\n\t\t\tbtv566\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c480467723bebd8666ccf8"},"refKey":67},
{"_key":"60c480467723bebd8666ccff","_id":"references/60c480467723bebd8666ccff","_rev":"_cfFlXmu---","tei":"\n\t\n\t\tGREAT improves functional interpretation of cis-regulatory regions\n\t\t\n\t\t\tCYMclean\n\t\t\n\t\t\n\t\t\tDBristor\n\t\t\n\t\t\n\t\t\tMHiller\n\t\t\n\t\t\n\t\t\tSLClarke\n\t\t\n\t\t\n\t\t\tBTSchaar\n\t\t\n\t\t\n\t\t\tCBLowe\n\t\t\n\t\t\n\t\t\tAMWenger\n\t\t\n\t\t\n\t\t\tGBejerano\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t28\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c480467723bebd8666ccf8"},"refKey":64},
{"_key":"60c480467723bebd8666cd00","_id":"references/60c480467723bebd8666cd00","_rev":"_cfFlXm6---","tei":"\n\t\n\t\tDnaSP v5: a software for comprehensive analysis of DNA polymorphism data\n\t\t\n\t\t\tPLibrado\n\t\t\n\t\t\n\t\t\tJRozas\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c480467723bebd8666ccf8"},"refKey":51},
{"_key":"60c480517723bebd8666cd1a","_id":"references/60c480517723bebd8666cd1a","_rev":"_cfFlXnG---","tei":"\n\t\n\t\t500 cities project: local data for better health\n\t\t\n\t\n\t\n\t\tSciPy Community. minimize(method='trust-constr') -SciPy v1.4.1 Reference Guide\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tcited 2020 Mar 28. cited 2020 Mar 19\n\n","document":{"$oid":"60c480517723bebd8666cd19"},"refKey":18},
{"_key":"60c480537723bebd8666cd1d","_id":"references/60c480537723bebd8666cd1d","_rev":"_cfFlXnS---","tei":"\n\t\n\t\tA language and environment for statistical computing\n\t\t\n\t\t\tRR Core Team\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c480537723bebd8666cd1c"},"refKey":16},
{"_key":"60c480637723bebd8666cd25","_id":"references/60c480637723bebd8666cd25","_rev":"_cfFlXne---","tei":"\n\t\n\t\tMunich Personal RePEc Archive Introduction to contingent valuation using Stata Introduction to Contingent Valuation using Stata⁄\n\t\t\n\t\t\tALópez-Feldman\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c480637723bebd8666cd24"},"refKey":39},
{"_key":"60c480877723bebd8666cd39","_id":"references/60c480877723bebd8666cd39","_rev":"_cfFlXnm---","tei":"\n\t\n\t\tApplication of Phylogenetic Networks in Evolutionary Studies\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tDavidBryant\n\t\t\n\t\t10.1093/molbev/msj030\n\t\t16221896\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t23\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c480877723bebd8666cd38"},"refKey":36},
{"_key":"60c480877723bebd8666cd3a","_id":"references/60c480877723bebd8666cd3a","_rev":"_cfFlXny---","tei":"\n\t\n\t\tBayesian Phylogenetics with BEAUti and the BEAST 1.7\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t10.1093/molbev/mss075\n\t\t22367748\n\t\tPMC3408070\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t29\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c480877723bebd8666cd38"},"refKey":44},
{"_key":"60c480877723bebd8666cd3b","_id":"references/60c480877723bebd8666cd3b","_rev":"_cfFlXo----","tei":"\n\t\n\t\tBEAST: Bayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t10.1186/1471-2148-7-214\n\t\t17996036\n\t\tPMC2247476\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t214\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c480877723bebd8666cd38"},"refKey":45},
{"_key":"60c480877723bebd8666cd3c","_id":"references/60c480877723bebd8666cd3c","_rev":"_cfFlXoK---","tei":"\n\t\n\t\tBEAST 2: A Software Platform for Bayesian Evolutionary Analysis\n\t\t\n\t\t\tRemcoBouckaert\n\t\t\n\t\t\n\t\t\tJosephHeled\n\t\t\n\t\t\n\t\t\tDeniseKühnert\n\t\t\n\t\t\n\t\t\tTimVaughan\n\t\t\n\t\t\n\t\t\tChieh-HsiWu\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t10.1371/journal.pcbi.1003537\n\t\t24722319\n\t\tPMC3985171\n\t\tdoi:10. 1371/journal.pcbi.1003537\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\te1003537\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c480877723bebd8666cd38"},"refKey":46},
{"_key":"60c480a17723bebd8666cd46","_id":"references/60c480a17723bebd8666cd46","_rev":"_cfFlXoS---","tei":"\n\t\n\t\tUse of within-array replicate spots for assessing differential expression in microarray experiments\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tJMichaud\n\t\t\n\t\t\n\t\t\tHSScott\n\t\t\n\t\t10.1093/bioinformatics/bti270\n\t\t15657102\n\t\tark:/67375/HXZ-L1DB9S0S-1\n\t\t5697F154CB953A22F21422AEA96C02098FB719FB\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c480a17723bebd8666cd45"},"refKey":35},
{"_key":"60c480a17723bebd8666cd47","_id":"references/60c480a17723bebd8666cd47","_rev":"_cfFlXoe---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c480a17723bebd8666cd45"},"refKey":43},
{"_key":"60c480a17723bebd8666cd48","_id":"references/60c480a17723bebd8666cd48","_rev":"_cfFlXoq---","tei":"\n\t\n\t\tNetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis\n\t\t\n\t\t\tGuangyanZhou\n\t\t\n\t\t\n\t\t\tOthmanSoufan\n\t\t\n\t\t\n\t\t\tJessicaEwald\n\t\t\n\t\t\n\t\t\tRobertE WHancock\n\t\t\n\t\t\n\t\t\tNiladriBasu\n\t\t\n\t\t\n\t\t\tJianguoXia\n\t\t\t0000-0003-2040-2624\n\t\t\n\t\t10.1093/nar/gkz240\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c480a17723bebd8666cd45"},"refKey":37},
{"_key":"60c481097723bebd8666cd8a","_id":"references/60c481097723bebd8666cd8a","_rev":"_cfFlXo2---","tei":"\n\t\n\t\tGROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit\n\t\t\n\t\t\tSanderPronk\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tPerLarsson\n\t\t\n\t\t\n\t\t\tPärBjelkmar\n\t\t\n\t\t\n\t\t\tRossenApostolov\n\t\t\n\t\t\n\t\t\tMichaelRShirts\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tPeterMKasson\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1093/bioinformatics/btt055\n\t\t23407358\n\t\tPMC3605599\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tet al. GROMACS 4.\n\n","document":{"$oid":"60c481097723bebd8666cd89"},"refKey":64},
{"_key":"60c481097723bebd8666cd8b","_id":"references/60c481097723bebd8666cd8b","_rev":"_cfFlXpC---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c481097723bebd8666cd89"},"refKey":59},
{"_key":"60c481097723bebd8666cd8c","_id":"references/60c481097723bebd8666cd8c","_rev":"_cfFlXpK---","tei":"\n\t\n\t\tNovel polymeric inhibitors of HCoV-NL63\n\t\t\n\t\t\tAleksandraMilewska\n\t\t\n\t\t\n\t\t\tJustynaCiejka\n\t\t\n\t\t\n\t\t\tKamilKaminski\n\t\t\n\t\t\n\t\t\tAnnaKarewicz\n\t\t\n\t\t\n\t\t\tDorotaBielska\n\t\t\n\t\t\n\t\t\tSlawomirZeglen\n\t\t\n\t\t\n\t\t\tWojciechKarolak\n\t\t\n\t\t\n\t\t\tMariaNowakowska\n\t\t\n\t\t\n\t\t\tJanPotempa\n\t\t\n\t\t\n\t\t\tBerendJanBosch\n\t\t\n\t\t\n\t\t\tKrzysztofPyrc\n\t\t\n\t\t\n\t\t\tKrzysztofSzczubialka\n\t\t\n\t\t10.1016/j.antiviral.2012.11.006\n\t\t23201315\n\t\t\n\t\n\t\n\t\tAntiviral Research\n\t\tAntiviral Research\n\t\t0166-3542\n\t\t\n\t\t\t97\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c481097723bebd8666cd89"},"refKey":55},
{"_key":"60c481127723bebd8666cd9c","_id":"references/60c481127723bebd8666cd9c","_rev":"_cfFlXpW---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c481127723bebd8666cd9b"},"refKey":9},
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{"_key":"60c481187723bebd8666cdb2","_id":"references/60c481187723bebd8666cdb2","_rev":"_cfFlXqu---","tei":"\n\t\n\t\tEfficient Architecture-Aware Acceleration of BWA-MEM for Multicore Systems\n\t\t\n\t\t\tMVasimuddin\n\t\t\n\t\t\n\t\t\tSMisra\n\t\t\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tSAluru\n\t\t\n\t\n\t\n\t\tProceedings of the 2019 IEEE International Parallel and Distributed Processing Symposium (IPDPS)\n\t\t\t\tthe 2019 IEEE International Parallel and Distributed Processing Symposium (IPDPS)Rio de Janeiro, Brazil\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c481187723bebd8666cdab"},"refKey":30},
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{"_key":"60c4816f7723bebd8666ce25","_id":"references/60c4816f7723bebd8666ce25","_rev":"_cfFlXtO---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1073/pnas.0506580102\n\t\t16199517\n\t\tPMC1239896\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t102\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c4816f7723bebd8666ce24"},"refKey":66},
{"_key":"60c4816f7723bebd8666ce26","_id":"references/60c4816f7723bebd8666ce26","_rev":"_cfFlXta---","tei":"\n\t\n\t\tVisualizing Structure and Transitions for Biological Data Exploration\n\t\t\n\t\t\tKevinRMoon\n\t\t\n\t\t\n\t\t\tDavidVanDijk\n\t\t\n\t\t\n\t\t\tZhengWang\n\t\t\n\t\t\n\t\t\tDanielBurkhardt\n\t\t\n\t\t\n\t\t\tWilliamSChen\n\t\t\n\t\t\n\t\t\tKristinaYim\n\t\t\n\t\t\n\t\t\tAntoniaVan DenElzen\n\t\t\n\t\t\n\t\t\tMatthewJHirn\n\t\t\n\t\t\n\t\t\tRonaldRCoifman\n\t\t\n\t\t\n\t\t\tNataliaBIvanova\n\t\t\n\t\t\n\t\t\tGuyWolf\n\t\t\n\t\t\n\t\t\tSmitaKrishnaswamy\n\t\t\n\t\t10.2139/ssrn.3155891\n\t\n\t\n\t\tSSRN Electronic Journal\n\t\tSSRN Journal\n\t\t1556-5068\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4816f7723bebd8666ce24"},"refKey":47},
{"_key":"60c4816f7723bebd8666ce27","_id":"references/60c4816f7723bebd8666ce27","_rev":"_cfFlXtm---","tei":"\n\t\n\t\tCausal analysis approaches in Ingenuity Pathway Analysis\n\t\t\n\t\t\tAndreasKrämer\n\t\t\n\t\t\n\t\t\tJeffGreen\n\t\t\n\t\t\n\t\t\tJackPollard\n\t\t\n\t\t\n\t\t\tStuartTugendreich\n\t\t\n\t\t10.1093/bioinformatics/btt703\n\t\t24336805\n\t\tPMC3928520\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4816f7723bebd8666ce24"},"refKey":56},
{"_key":"60c481bc7723bebd8666ce59","_id":"references/60c481bc7723bebd8666ce59","_rev":"_cfFlXtu---","tei":"\n\t\n\t\tNotation (BPMN) version 2.0. OMG Specification, Object Management Group\n\t\t\n\t\t\tBPModel\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c481bc7723bebd8666ce58"},"refKey":5},
{"_key":"60c481bc7723bebd8666ce5a","_id":"references/60c481bc7723bebd8666ce5a","_rev":"_cfFlXt6---","tei":"\n\t\n\t\tTHE APPLICATION OF PETRI NETS TO WORKFLOW MANAGEMENT\n\t\t\n\t\t\tWM PVan Der Aalst\n\t\t\n\t\t10.1142/s0218126698000043\n\t\t\n\t\n\t\n\t\tJournal of Circuits, Systems and Computers\n\t\tJ CIRCUIT SYST COMP\n\t\t0218-1266\n\t\t1793-6454\n\t\t\n\t\t\t08\n\t\t\t01\n\t\t\t\n\t\t\t\n\t\t\tWorld Scientific Pub Co Pte Lt\n\t\t\n\t\n\n","document":{"$oid":"60c481bc7723bebd8666ce58"},"refKey":6},
{"_key":"60c481bc7723bebd8666ce5b","_id":"references/60c481bc7723bebd8666ce5b","_rev":"_cfFlXuG---","tei":"\n\t\n\t\tYAWL: yet another workflow language\n\t\t\n\t\t\tWM PVan Der Aalst\n\t\t\n\t\t\n\t\t\tAH MTer Hofstede\n\t\t\n\t\t10.1016/j.is.2004.02.002\n\t\t\n\t\n\t\n\t\tInformation Systems\n\t\tInformation Systems\n\t\t0306-4379\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c481bc7723bebd8666ce58"},"refKey":7},
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{"_key":"60c481d27723bebd8666ce85","_id":"references/60c481d27723bebd8666ce85","_rev":"_cfFlXue---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\n\t\n\t\tProc. Natl Acad. Sci. USA\n\t\t\n\t\t\t111\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c481d27723bebd8666ce84"},"refKey":4},
{"_key":"60c481fe7723bebd8666ce90","_id":"references/60c481fe7723bebd8666ce90","_rev":"_cfFlXuq---","tei":"\n\t\n\t\tAdvances in functional and structural MR image analysis and implementation as FSL\n\t\t\n\t\t\tSMSmith\n\t\t\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t\n\t\t\tMWWoolrich\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t23\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c481fe7723bebd8666ce8f"},"refKey":26},
{"_key":"60c481fe7723bebd8666ce91","_id":"references/60c481fe7723bebd8666ce91","_rev":"_cfFlXuy---","tei":"\n\t\n\t\tBayesian analysis of neuroimaging data in FSL\n\t\t\n\t\t\tMarkWWoolrich\n\t\t\n\t\t\n\t\t\tSaadJbabdi\n\t\t\n\t\t\n\t\t\tBrianPatenaude\n\t\t\n\t\t\n\t\t\tMichaelChappell\n\t\t\n\t\t\n\t\t\tSalimaMakni\n\t\t\n\t\t\n\t\t\tTimothyBehrens\n\t\t\n\t\t\n\t\t\tChristianBeckmann\n\t\t\n\t\t\n\t\t\tMarkJenkinson\n\t\t\n\t\t\n\t\t\tStephenMSmith\n\t\t\n\t\t10.1016/j.neuroimage.2008.10.055\n\t\t19059349\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t45\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c481fe7723bebd8666ce8f"},"refKey":28},
{"_key":"60c481fe7723bebd8666ce92","_id":"references/60c481fe7723bebd8666ce92","_rev":"_cfFlXv----","tei":"\n\t\n\t\tFSL\n\t\t\n\t\t\tMarkJenkinson\n\t\t\n\t\t\n\t\t\tChristianFBeckmann\n\t\t\n\t\t\n\t\t\tTimothyE JBehrens\n\t\t\n\t\t\n\t\t\tMarkWWoolrich\n\t\t\n\t\t\n\t\t\tStephenMSmith\n\t\t\n\t\t10.1016/j.neuroimage.2011.09.015\n\t\t21979382\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t62\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c481fe7723bebd8666ce8f"},"refKey":29},
{"_key":"60c481fe7723bebd8666ce93","_id":"references/60c481fe7723bebd8666ce93","_rev":"_cfFlXvK---","tei":"\n\t\n\t\tMRtrix3: A fast, flexible and open software framework for medical image processing and visualisation\n\t\t\n\t\t\tJDTournier\n\t\t\n\t\t\n\t\t\tRobertSmith\n\t\t\n\t\t\n\t\t\tDavidRaffelt\n\t\t\n\t\t\n\t\t\tRamiTabbara\n\t\t\n\t\t\n\t\t\tThijsDhollander\n\t\t\n\t\t\n\t\t\tMaximilianPietsch\n\t\t\n\t\t\n\t\t\tDaanChristiaens\n\t\t\n\t\t\n\t\t\tBenJeurissen\n\t\t\n\t\t\n\t\t\tChun-HungYeh\n\t\t\n\t\t\n\t\t\tAlanConnelly\n\t\t\n\t\t10.1016/j.neuroimage.2019.116137\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t202\n\t\t\t3\n\t\t\t116137\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tNeuroimage.\n\n","document":{"$oid":"60c481fe7723bebd8666ce8f"},"refKey":30},
{"_key":"60c481fe7723bebd8666ce94","_id":"references/60c481fe7723bebd8666ce94","_rev":"_cfFlXvW---","tei":"\n\t\n\t\tImproved Optimization for the Robust and Accurate Linear Registration and Motion Correction of Brain Images\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t\n\t\t\tPBannister\n\t\t\n\t\t\n\t\t\tMBrady\n\t\t\n\t\t10.1016/s1053-8119(02)91132-8\n\t\t12377157\n\t\n\t\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t17\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c481fe7723bebd8666ce8f"},"refKey":43},
{"_key":"60c481fe7723bebd8666ce95","_id":"references/60c481fe7723bebd8666ce95","_rev":"_cfFlXvi---","tei":"\n\t\n\t\tAccurate, robust, and automated longitudinal and cross-sectional brain change analysis\n\t\t\n\t\t\tSMSmith\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c481fe7723bebd8666ce8f"},"refKey":44},
{"_key":"60c4822d7723bebd8666cecc","_id":"references/60c4822d7723bebd8666cecc","_rev":"_cfFlXvu---","tei":"\n\t\n\t\tTrimmomatic: A flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4822d7723bebd8666cecb"},"refKey":36},
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{"_key":"60c4823f7723bebd8666cee1","_id":"references/60c4823f7723bebd8666cee1","_rev":"_cfFlXwO---","tei":"\n\t\n\t\tAn ensemble strategy that significantly improves de novo assembly of microbial genomes from metagenomic next-generation sequencing data\n\t\t\n\t\t\tXutaoDeng\n\t\t\n\t\t\n\t\t\tSamiaNNaccache\n\t\t\n\t\t\n\t\t\tTerryNg\n\t\t\n\t\t\n\t\t\tScotFederman\n\t\t\n\t\t\n\t\t\tLinlinLi\n\t\t\n\t\t\n\t\t\tCharlesYChiu\n\t\t\n\t\t\n\t\t\tEricLDelwart\n\t\t\n\t\t10.1093/nar/gkv002\n\t\t25586223\n\t\tPMC4402509\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\te46. [CrossRef\n\n","document":{"$oid":"60c4823f7723bebd8666cedf"},"refKey":10},
{"_key":"60c482887723bebd8666cf15","_id":"references/60c482887723bebd8666cf15","_rev":"_cfFlXwa---","tei":"\n\t\n\t\tCAIcal: a combined set of tools to assess codon usage adaptation\n\t\t\n\t\t\tPPuigb O\n\t\t\n\t\t\n\t\t\tIGBravo\n\t\t\n\t\t\n\t\t\tSGarcia-Vallve\n\t\t\n\t\n\t\n\t\tBiol. Direct\n\t\t\n\t\t\t3\n\t\t\t38\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c482887723bebd8666cf14"},"refKey":36},
{"_key":"60c4828f7723bebd8666cf26","_id":"references/60c4828f7723bebd8666cf26","_rev":"_cfFlXwm---","tei":"\n\t\n\t\tData mining in bioinformatics using Weka\n\t\t\n\t\t\tEFrank\n\t\t\n\t\t\n\t\t\tMHall\n\t\t\n\t\t\n\t\t\tLTrigg\n\t\t\n\t\t\n\t\t\tGHolmes\n\t\t\n\t\t\n\t\t\tIHWitten\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4828f7723bebd8666cf25"},"refKey":37},
{"_key":"60c4829d7723bebd8666cf56","_id":"references/60c4829d7723bebd8666cf56","_rev":"_cfFlXwu---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4829d7723bebd8666cf55"},"refKey":40},
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{"_key":"60c4829d7723bebd8666cf58","_id":"references/60c4829d7723bebd8666cf58","_rev":"_cfFlXxG---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4829d7723bebd8666cf55"},"refKey":57},
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{"_key":"60c482e37723bebd8666cf85","_id":"references/60c482e37723bebd8666cf85","_rev":"_cfFlXxe---","tei":"\n\t\n\t\tANGSD: analysis of next generation sequencing data\n\t\t\n\t\t\tTSKorneliussen\n\t\t\n\t\t\n\t\t\tAAlbrechtsen\n\t\t\n\t\t\n\t\t\tRNielsen\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t356\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c482e37723bebd8666cf84"},"refKey":43},
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{"_key":"60c482e37723bebd8666cf87","_id":"references/60c482e37723bebd8666cf87","_rev":"_cfFlXx2---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c482e37723bebd8666cf84"},"refKey":42},
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{"_key":"60c482e37723bebd8666cf89","_id":"references/60c482e37723bebd8666cf89","_rev":"_cfFlXyK---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tGenome Project Data Processing Subgroup\n\n","document":{"$oid":"60c482e37723bebd8666cf84"},"refKey":45},
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{"_key":"60c4830d7723bebd8666cfbd","_id":"references/60c4830d7723bebd8666cfbd","_rev":"_cfFlXzS---","tei":"\n\t\n\t\tA new generation of homology search tools based on probabilistic inference\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tGenome Inform\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4830d7723bebd8666cfba"},"refKey":24},
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{"_key":"60c4831c7723bebd8666cfda","_id":"references/60c4831c7723bebd8666cfda","_rev":"_cfFlXzy---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c4831c7723bebd8666cfd9"},"refKey":21},
{"_key":"60c483237723bebd8666cfdc","_id":"references/60c483237723bebd8666cfdc","_rev":"_cfFlX0----","tei":"\n\t\n\t\tAsTeRICS, a Flexible Assistive Technology Construction Set\n\t\t\n\t\t\tRolandOssmann\n\t\t\n\t\t\n\t\t\tDavidThaller\n\t\t\n\t\t\n\t\t\tGerhardNussbaum\n\t\t\n\t\t\n\t\t\tFranzPühretmair\n\t\t\n\t\t\n\t\t\tChristophVeigl\n\t\t\n\t\t\n\t\t\tChristophWeiß\n\t\t\n\t\t\n\t\t\tBlancaMorales\n\t\t\n\t\t\n\t\t\tUnaiDiaz\n\t\t\n\t\t10.1016/j.procs.2012.10.001\n\t\n\t\n\t\tProcedia Computer Science\n\t\tProcedia Computer Science\n\t\t1877-0509\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c483237723bebd8666cfdb"},"refKey":12},
{"_key":"60c483237723bebd8666cfdd","_id":"references/60c483237723bebd8666cfdd","_rev":"_cfFlX0K---","tei":"\n\t\n\t\tThe EasyReading framework -keep the user at the digital original\n\t\t\n\t\t\tPHeumader\n\t\t\n\t\t\n\t\t\tKMiesenberger\n\t\t\n\t\t\n\t\t\tKReinhard\n\t\t\n\t\n\t\n\t\tJ. Technol. Pers. Disabil\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c483237723bebd8666cfdb"},"refKey":2},
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{"_key":"60c4833d7723bebd8666cffb","_id":"references/60c4833d7723bebd8666cffb","_rev":"_cfFlX0u---","tei":"\n\t\n\t\ttclust: AnRPackage for a Trimming Approach to Cluster Analysis\n\t\t\n\t\t\tHeinrichFritz\n\t\t\n\t\t\n\t\t\tLuisAGarcía-Escudero\n\t\t\n\t\t\n\t\t\tAgustínMayo-Iscar\n\t\t\n\t\t10.18637/jss.v047.i12\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t47\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c4833d7723bebd8666cff9"},"refKey":10},
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{"_key":"60c483a67723bebd8666d05c","_id":"references/60c483a67723bebd8666d05c","_rev":"_cfFlX1O---","tei":"\n\t\n\t\tThe early history of B cells\n\t\t\n\t\t\tMDCooper\n\t\t\n\t\n\t\n\t\tNat Rev Immunol\n\t\t\n\t\t\t15\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c483a67723bebd8666d05a"},"refKey":20},
{"_key":"60c483a67723bebd8666d05d","_id":"references/60c483a67723bebd8666d05d","_rev":"_cfFlX1a---","tei":"\n\t\n\t\tA multi-subunit based, thermodynamically stable model vaccine using combined immunoinformatics and protein structure based approach\n\t\t\n\t\t\tAartiRana\n\t\t\n\t\t\n\t\t\tYusufAkhter\n\t\t\t0000-0001-9564-9790\n\t\t\n\t\t10.1016/j.imbio.2015.12.004\n\t\t26707618\n\t\n\t\n\t\tImmunobiology\n\t\tImmunobiology\n\t\t0171-2985\n\t\t\n\t\t\t221\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c483a67723bebd8666d05a"},"refKey":41},
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{"_key":"60c486237723bebd8666d2f5","_id":"references/60c486237723bebd8666d2f5","_rev":"_cfFlY-S---","tei":"\n\t\n\t\tThe Pfam protein families database\n\t\t\n\t\t\tMPunta\n\t\t\n\t\t\n\t\t\tPCCoggill\n\t\t\n\t\t\n\t\t\tRYEberhardt\n\t\t\n\t\t\n\t\t\tJMistry\n\t\t\n\t\t\n\t\t\tJTate\n\t\t\n\t\t\n\t\t\tCBoursnell\n\t\t\n\t\t\n\t\t\tNPang\n\t\t\n\t\t\n\t\t\tKForslund\n\t\t\n\t\t\n\t\t\tGCeric\n\t\t\n\t\t\n\t\t\tJClements\n\t\t\n\t\t\n\t\t\tAHeger\n\t\t\n\t\t\n\t\t\tLHolm\n\t\t\n\t\t\n\t\t\tEL LSonnhammer\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t10.1093/nar/gkr1065\n\t\t22127870\n\t\tPMC3245129\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c486237723bebd8666d2f3"},"refKey":42},
{"_key":"60c486237723bebd8666d2f6","_id":"references/60c486237723bebd8666d2f6","_rev":"_cfFlY-a---","tei":"\n\t\n\t\tTranscript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown\n\t\t\n\t\t\tMihaelaPertea\n\t\t\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tGeoMPertea\n\t\t\n\t\t\n\t\t\tJeffreyTLeek\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nprot.2016.095\n\t\t27560171\n\t\tPMC5032908\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t11\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c486237723bebd8666d2f3"},"refKey":38},
{"_key":"60c486237723bebd8666d2f7","_id":"references/60c486237723bebd8666d2f7","_rev":"_cfFlY-m---","tei":"\n\t\n\t\tPhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions\n\t\t\n\t\t\tMFLin\n\t\t\n\t\t\n\t\t\tIJungreis\n\t\t\n\t\t\n\t\t\tMKellis\n\t\t\n\t\t10.1093/bioinformatics/btr209\n\t\t21685081\n\t\tPMC3117341\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c486237723bebd8666d2f3"},"refKey":43},
{"_key":"60c4862f7723bebd8666d309","_id":"references/60c4862f7723bebd8666d309","_rev":"_cfFlY-y---","tei":"\n\t\n\t\tHierarchical Clustering Can Identify B Cell Clones with High Confidence in Ig Repertoire Sequencing Data\n\t\t\n\t\t\tNamitaTGupta\n\t\t\n\t\t\n\t\t\tKristoforDAdams\n\t\t\t0000-0002-3614-794X\n\t\t\n\t\t\n\t\t\tAdrianWBriggs\n\t\t\n\t\t\n\t\t\tSoniaCTimberlake\n\t\t\n\t\t\n\t\t\tFrancoisVigneault\n\t\t\t0000-0001-5634-5794\n\t\t\n\t\t\n\t\t\tStevenHKleinstein\n\t\t\n\t\t10.4049/jimmunol.1601850\n\t\t28179494\n\t\tPMC5340603\n\t\t\n\t\n\t\n\t\tThe Journal of Immunology\n\t\tJ.I.\n\t\t0022-1767\n\t\t1550-6606\n\t\t\n\t\t\t198\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tThe American Association of Immunologists\n\t\t\n\t\n\n","document":{"$oid":"60c4862f7723bebd8666d308"},"refKey":57},
{"_key":"60c4865e7723bebd8666d323","_id":"references/60c4865e7723bebd8666d323","_rev":"_cfFlY_----","tei":"\n\t\n\t\tViennaRNA Package 2.0\n\t\t\n\t\t\tRonnyLorenz\n\t\t\n\t\t\n\t\t\tStephanHBernhart\n\t\t\n\t\t\n\t\t\tChristianHöner Zu Siederdissen\n\t\t\n\t\t\n\t\t\tHakimTafer\n\t\t\n\t\t\n\t\t\tChristophFlamm\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t10.1186/1748-7188-6-26\n\t\t22115189\n\t\tPMC3319429\n\t\t\n\t\n\t\n\t\tAlgorithms for Molecular Biology\n\t\tAlgorithms Mol Biol\n\t\t1748-7188\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t26\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4865e7723bebd8666d322"},"refKey":32},
{"_key":"60c4865e7723bebd8666d324","_id":"references/60c4865e7723bebd8666d324","_rev":"_cfFlY_G---","tei":"\n\t\n\t\tMAFFT online service: multiple sequence alignment, interactive sequence choice and visualization\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\t0000-0003-4133-8393\n\t\t\n\t\t\n\t\t\tJohnRozewicki\n\t\t\n\t\t\n\t\t\tKazunoriDYamada\n\t\t\n\t\t10.1093/bib/bbx108\n\t\t28968734\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4865e7723bebd8666d322"},"refKey":28},
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{"_key":"60c486637723bebd8666d34c","_id":"references/60c486637723bebd8666d34c","_rev":"_cfFlY_e---","tei":"\n\t\n\t\tThe Dynamic Dictionary of Mathematical Functions (DDMF)\n\t\t\n\t\t\tAlexandreBenoit\n\t\t\n\t\t\n\t\t\tFrédéricChyzak\n\t\t\n\t\t\n\t\t\tAlexisDarrasse\n\t\t\n\t\t\n\t\t\tStefanGerhold\n\t\t\n\t\t\n\t\t\tMarcMezzarobba\n\t\t\n\t\t\n\t\t\tBrunoSalvy\n\t\t\n\t\t10.1007/978-3-642-15582-6_7\n\t\tark:/67375/HCB-9KLV5G33-4\n\t\t5A15531E49D6C8F0F03EC790E39605A3D9C79A2C\n\t\t\n\t\n\t\n\t\tMathematical Software – ICMS 2010\n\t\t\t\t\n\t\t\tKFukuda\n\t\t\tJHoeven\n\t\t\tMJoswig\n\t\t\tNTakayama\n\t\t\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t6327\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c486637723bebd8666d34a"},"refKey":1},
{"_key":"60c486637723bebd8666d34d","_id":"references/60c486637723bebd8666d34d","_rev":"_cfFlY_q---","tei":"\n\t\n\t\tRule-based integration: An extensive system of symbolic integration rules\n\t\t\n\t\t\tAlbertRich\n\t\t\t0000-0002-0792-2775\n\t\t\n\t\t\n\t\t\tPatrickScheibe\n\t\t\t0000-0003-0361-9063\n\t\t\n\t\t\n\t\t\tNasserAbbasi\n\t\t\t0000-0003-1333-1549\n\t\t\n\t\t10.21105/joss.01073\n\t\t\n\t\n\t\n\t\tJournal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t3\n\t\t\t32\n\t\t\t1073\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c486637723bebd8666d34a"},"refKey":9},
{"_key":"60c486717723bebd8666d389","_id":"references/60c486717723bebd8666d389","_rev":"_cfFlY_2---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap): a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c486717723bebd8666d388"},"refKey":27},
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{"_key":"60c487c07723bebd8666d485","_id":"references/60c487c07723bebd8666d485","_rev":"_cfFlYBa---","tei":"\n\t\n\t\tMatplotlib: A 2D Graphics Environment\n\t\t\n\t\t\tJohnDHunter\n\t\t\n\t\t10.1109/mcse.2007.55\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\tComput. Sci. Eng.\n\t\t1521-9615\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c487c07723bebd8666d483"},"refKey":19},
{"_key":"60c487c07723bebd8666d486","_id":"references/60c487c07723bebd8666d486","_rev":"_cfFlYBi---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPhilipREvans\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t10.1107/s0907444913000061\n\t\t23793146\n\t\tPMC3689523\n\t\tark:/67375/WNG-5NGXND0Q-1\n\t\tBB88595D0B6EDD2B9D3A2D34A0E0E6807A0B5A6E\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t69\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c487c07723bebd8666d483"},"refKey":13},
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{"_key":"60c487c07723bebd8666d488","_id":"references/60c487c07723bebd8666d488","_rev":"_cfFlYB6---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c487c07723bebd8666d483"},"refKey":18},
{"_key":"60c487dc7723bebd8666d4a4","_id":"references/60c487dc7723bebd8666d4a4","_rev":"_cfFlYCG---","tei":"\n\t\n\t\tGGally: Extension to "Ggplot2\n\t\t\n\t\t\tBSchloerke\n\t\t\n\t\t\n\t\t\tDCook\n\t\t\n\t\t\n\t\t\tJLarmarange\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c487dc7723bebd8666d4a3"},"refKey":20},
{"_key":"60c487dc7723bebd8666d4a5","_id":"references/60c487dc7723bebd8666d4a5","_rev":"_cfFlYCO---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c487dc7723bebd8666d4a3"},"refKey":21},
{"_key":"60c488067723bebd8666d4d4","_id":"references/60c488067723bebd8666d4d4","_rev":"_cfFlYCa---","tei":"\n\t\n\t\tMP2RAGE, a Self Bias-field corrected sequence for improved segmentation and T1-mapping at high field\n\t\t\n\t\t\tJPMarques\n\t\t\n\t\t\n\t\t\tTKober\n\t\t\n\t\t\n\t\t\tGKrueger\n\t\t\n\t\t\n\t\t\tWVan Der Zwaag\n\t\t\n\t\t\n\t\t\tP- FVan De Moortele\n\t\t\n\t\t\n\t\t\tRGruetter\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t49\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c488067723bebd8666d4d3"},"refKey":84},
{"_key":"60c488067723bebd8666d4d5","_id":"references/60c488067723bebd8666d4d5","_rev":"_cfFlYCm---","tei":"\n\t\n\t\tNipype: a flexible, lightweight and extensible neuroimaging data processing framework in python\n\t\t\n\t\t\tKGorgolewski\n\t\t\n\t\t\n\t\t\tCDBurns\n\t\t\n\t\t\n\t\t\tCMadison\n\t\t\n\t\t\n\t\t\tDClark\n\t\t\n\t\t\n\t\t\tYOHalchenko\n\t\t\n\t\t\n\t\t\tMLWaskom\n\t\t\n\t\t\n\t\t\tSSGhosh\n\t\t\n\t\n\t\n\t\tFront. Neuroinform\n\t\t\n\t\t\t5\n\t\t\t13\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c488067723bebd8666d4d3"},"refKey":43},
{"_key":"60c488067723bebd8666d4d6","_id":"references/60c488067723bebd8666d4d6","_rev":"_cfFlYCy---","tei":"\n\t\n\t\tSymmetric Diffeomorphic Image Registration: Evaluating Automated Labeling of Elderly and Neurodegenerative Cortex and Frontal Lobe\n\t\t\n\t\t\tBrianBAvants\n\t\t\n\t\t\n\t\t\tMurrayGrossman\n\t\t\n\t\t\n\t\t\tJamesCGee\n\t\t\n\t\t10.1007/11784012_7\n\t\tark:/67375/HCB-216JDBQK-F\n\t\t52E6A9A5C46975DDC4FCC65CA9A02F1CD305001C\n\t\n\t\n\t\tBiomedical Image Registration\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c488067723bebd8666d4d3"},"refKey":5},
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{"_key":"60c488067723bebd8666d4d8","_id":"references/60c488067723bebd8666d4d8","_rev":"_cfFlYDG---","tei":"\n\t\n\t\tPycortex: an interactive surface visualizer for fMRI\n\t\t\n\t\t\tJamesSGao\n\t\t\n\t\t\n\t\t\tAlexanderGHuth\n\t\t\n\t\t\n\t\t\tMarkDLescroart\n\t\t\n\t\t\n\t\t\tJackLGallant\n\t\t\n\t\t10.3389/fninf.2015.00023\n\t\t26483666\n\t\tPMC4586273\n\t\t\n\t\n\t\n\t\tFrontiers in Neuroinformatics\n\t\tFront. Neuroinform.\n\t\t1662-5196\n\t\t\n\t\t\t9\n\t\t\t23\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c488067723bebd8666d4d3"},"refKey":39},
{"_key":"60c488067723bebd8666d4d9","_id":"references/60c488067723bebd8666d4d9","_rev":"_cfFlYDS---","tei":"\n\t\n\t\tMP2RAGEME: T, T, and QSM mapping in one sequence at 7 Tesla. Hum\n\t\t\n\t\t\tMwACaan\n\t\t\n\t\t\n\t\t\tP- LBazin\n\t\t\n\t\t\n\t\t\tJPMarques\n\t\t\n\t\t\n\t\t\tGDe Hollander\n\t\t\n\t\t\n\t\t\tSODumoulin\n\t\t\n\t\t\n\t\t\tWVan Der Zwaag\n\t\t\n\t\n\t\n\t\tBrain Mapp\n\t\t\n\t\t\t40\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c488067723bebd8666d4d3"},"refKey":13},
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{"_key":"60c488067723bebd8666d4dd","_id":"references/60c488067723bebd8666d4dd","_rev":"_cfFlYE----","tei":"\n\t\n\t\tImproved Optimization for the Robust and Accurate Linear Registration and Motion Correction of Brain Images\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t10.1016/s1053-8119(02)91132-8\n\t\t12377157\n\t\n\t\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t17\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c488067723bebd8666d4d3"},"refKey":58},
{"_key":"60c488067723bebd8666d4de","_id":"references/60c488067723bebd8666d4de","_rev":"_cfFlYEK---","tei":"\n\t\n\t\tAccurate and robust brain image alignment using boundary-based registration\n\t\t\n\t\t\tDNGreve\n\t\t\n\t\t\n\t\t\tBFischl\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t48\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c488067723bebd8666d4d3"},"refKey":44},
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{"_key":"60c488067723bebd8666d530","_id":"references/60c488067723bebd8666d530","_rev":"_cfFlYEq---","tei":"\n\t\n\t\tEfficient Computation of the Phylogenetic Likelihood Function  on the Intel MIC Architecture\n\t\t\n\t\t\tAlexeyMKozlov\n\t\t\n\t\t\n\t\t\tChristianGoll\n\t\t\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1109/ipdpsw.2014.198\n\t\n\t\n\t\t2014 IEEE International Parallel & Distributed Processing Symposium Workshops\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c488067723bebd8666d52c"},"refKey":89},
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{"_key":"60c488067723bebd8666d536","_id":"references/60c488067723bebd8666d536","_rev":"_cfFlYFW---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximumlikelihood phylogenies\n\t\t\n\t\t\tL-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tVonHaeseler\n\t\t\n\t\t\n\t\t\tAMinh\n\t\t\n\t\t\n\t\t\tBQ\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c488067723bebd8666d52c"},"refKey":110},
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{"_key":"60c488067723bebd8666d53d","_id":"references/60c488067723bebd8666d53d","_rev":"_cfFlYGG---","tei":"\n\t\n\t\tA fast program for maximum likelihood-based inference of large phylogenetic trees\n\t\t\n\t\t\tAPStamatakis\n\t\t\n\t\t\n\t\t\tTLudwig\n\t\t\n\t\t\n\t\t\tHMeier\n\t\t\n\t\t10.1145/967900.967940\n\t\n\t\n\t\tProceedings of the 2004 ACM symposium on Applied computing - SAC '04\n\t\t\t\tthe 2004 ACM symposium on Applied computing - SAC '04\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t21\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c488067723bebd8666d52c"},"refKey":137},
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{"_key":"60c48a007723bebd8666d6ad","_id":"references/60c48a007723bebd8666d6ad","_rev":"_cfFlYL6---","tei":"\n\t\n\t\tA model of ultrasonic nondestructive testing for internal and subsurface cracks\n\t\t\n\t\t\tPeterBövik\n\t\t\n\t\t\n\t\t\tAndersBoström\n\t\t\n\t\t10.1121/1.420326\n\t\t\n\t\n\t\n\t\tThe Journal of the Acoustical Society of America\n\t\tThe Journal of the Acoustical Society of America\n\t\t0001-4966\n\t\t\n\t\t\t102\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAcoustical Society of America (ASA)\n\t\t\n\t\n\n","document":{"$oid":"60c48a007723bebd8666d6aa"},"refKey":11},
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{"_key":"60c48a657723bebd8666d6f0","_id":"references/60c48a657723bebd8666d6f0","_rev":"_cfFlYNi---","tei":"\n\t\n\t\tImprovement of Phylogenies after Removing Divergent and Ambiguously Aligned Blocks from Protein Sequence Alignments\n\t\t\n\t\t\tGerardTalavera\n\t\t\n\t\t\n\t\t\tJoseCastresana\n\t\t\n\t\t10.1080/10635150701472164\n\t\t17654362\n\t\tark:/67375/HXZ-BPXFB4NP-V\n\t\t7F66247F6AFD2D644E2E779ED931A9CAA1AC8D80\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t56\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c48a657723bebd8666d6ed"},"refKey":52},
{"_key":"60c48a657723bebd8666d6f1","_id":"references/60c48a657723bebd8666d6f1","_rev":"_cfFlYNu---","tei":"\n\t\n\t\tSMS: Smart Model Selection in PhyML\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tJean-EmmanuelLongueville\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/molbev/msx149\n\t\t28472384\n\t\tPMC5850602\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t34\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c48a657723bebd8666d6ed"},"refKey":54},
{"_key":"60c48adb7723bebd8666d704","_id":"references/60c48adb7723bebd8666d704","_rev":"_cfFlYN2---","tei":"\n\t\n\t\tAvailable from: www.covidence.org 47. Microsoft. MS Excel\n\t\t\n\t\t\tCovidence\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48adb7723bebd8666d703"},"refKey":53},
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{"_key":"60c48aee7723bebd8666d713","_id":"references/60c48aee7723bebd8666d713","_rev":"_cfFlYOa---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48aee7723bebd8666d710"},"refKey":74},
{"_key":"60c48af17723bebd8666d718","_id":"references/60c48af17723bebd8666d718","_rev":"_cfFlYOi---","tei":"\n\t\n\t\tCoronavirus: Half of humanity now on lockdown as 90 countries call for confinement\n\t\t\n\t\t\tYRosseel\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t48\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tlavaan: An R package for structural equation modeling\n\n","document":{"$oid":"60c48af17723bebd8666d717"},"refKey":25},
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{"_key":"60c48bd37723bebd8666d7a7","_id":"references/60c48bd37723bebd8666d7a7","_rev":"_cfFlYPm---","tei":"\n\t\n\t\tA Need for Change! A Coding Framework for Improving Transparency in Decision Modeling\n\t\t\n\t\t\tFernandoAlarid-Escudero\n\t\t\t0000-0001-5076-1172\n\t\t\n\t\t\n\t\t\tElineMKrijkamp\n\t\t\t0000-0003-3970-2205\n\t\t\n\t\t\n\t\t\tPetrosPechlivanoglou\n\t\t\t0000-0001-5090-7936\n\t\t\n\t\t\n\t\t\tHawreJalal\n\t\t\t0000-0002-8224-6834\n\t\t\n\t\t\n\t\t\tSzu-Yu ZoeKao\n\t\t\t0000-0002-4987-3983\n\t\t\n\t\t\n\t\t\tAlanYang\n\t\t\t0000-0002-0344-6812\n\t\t\n\t\t\n\t\t\tEvaAEnns\n\t\t\t0000-0003-0693-7358\n\t\t\n\t\t10.1007/s40273-019-00837-x\n\t\n\t\n\t\tPharmacoEconomics\n\t\tPharmacoEconomics\n\t\t1170-7690\n\t\t1179-2027\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c48bd37723bebd8666d7a5"},"refKey":24},
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{"_key":"60c48c527723bebd8666d7dc","_id":"references/60c48c527723bebd8666d7dc","_rev":"_cfFlYQK---","tei":"\n\t\n\t\tCommon structures of the 5′ non-coding RNA in enteroviruses and rhinoviruses\n\t\t\n\t\t\tShu-YunLe\n\t\t\n\t\t\n\t\t\tMichaelZuker\n\t\t\n\t\t10.1016/0022-2836(90)90395-3\n\t\t2175364\n\t\t0022-2836(90)90395-3\n\t\tark:/67375/6H6-G4VSFR2S-V\n\t\tD0EA9DE2FD0675A036664EC0A4BC60B7F0CF5A0A\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t216\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c48c527723bebd8666d7db"},"refKey":26},
{"_key":"60c48c5d7723bebd8666d7eb","_id":"references/60c48c5d7723bebd8666d7eb","_rev":"_cfFlYQW---","tei":"\n\t\n\t\tA computer program for frontier production function estimation\n\t\t\n\t\t\tTJCoelli\n\t\t\n\t\t10.1016/0165-1765(92)90096-h\n\t\t0165-1765(92)90096-H\n\t\tark:/67375/6H6-40XR9F7N-T\n\t\t6F0401AF47F8341B88E64DFB047A4396C9905AC6\n\t\n\t\n\t\tEconomics Letters\n\t\tEconomics Letters\n\t\t0165-1765\n\t\t\n\t\t\t39\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tCEPA Working papers\n\n","document":{"$oid":"60c48c5d7723bebd8666d7ea"},"refKey":6},
{"_key":"60c48cea7723bebd8666d859","_id":"references/60c48cea7723bebd8666d859","_rev":"_cfFlYQe---","tei":"\n\t\n\t\tCLUSTAL-W-Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48cea7723bebd8666d858"},"refKey":16},
{"_key":"60c48cea7723bebd8666d85a","_id":"references/60c48cea7723bebd8666d85a","_rev":"_cfFlYQq---","tei":"\n\t\n\t\tPhylogenetic analysis using parsimony (and other methods). Version 4\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\t\n\t\t\tPaup\n\t\t\n\t\t\n\t\t\t\n\t\t\tSinauer Associates\n\t\t\tSunderland, Massachusetts\n\t\t\n\t\n\n","document":{"$oid":"60c48cea7723bebd8666d858"},"refKey":18},
{"_key":"60c48cfb7723bebd8666d872","_id":"references/60c48cfb7723bebd8666d872","_rev":"_cfFlYQ2---","tei":"\n\t\n\t\tStatistics Notes: The use of transformation when comparing two means\n\t\t\n\t\t\tJMBland\n\t\t\n\t\t\n\t\t\tDGAltman\n\t\t\n\t\t10.1136/bmj.312.7039.1153\n\t\t8620137\n\t\tPMC2350653\n\t\tark:/67375/NVC-3PM252P6-6\n\t\t07CB7190BA42974A362E2FA83D596200734FED7C\n\t\t\n\t\n\t\n\t\tBMJ\n\t\tBMJ\n\t\t0959-8138\n\t\t1468-5833\n\t\t\n\t\t\t312\n\t\t\t7039\n\t\t\t\n\t\t\t\n\t\t\tBMJ\n\t\t\n\t\n\n","document":{"$oid":"60c48cfb7723bebd8666d871"},"refKey":36},
{"_key":"60c48d127723bebd8666d877","_id":"references/60c48d127723bebd8666d877","_rev":"_cfFlYRC---","tei":"\n\t\n\t\tEpidemic intelligence from open sources (EIOS)\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tWorld Health Organization\n\n","document":{"$oid":"60c48d127723bebd8666d876"},"refKey":22},
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{"_key":"60c48d167723bebd8666d880","_id":"references/60c48d167723bebd8666d880","_rev":"_cfFlYRa---","tei":"\n\t\n\t\tVSDK: Virtual screening of small molecules using AutoDock Vina on Windows platform\n\t\t\n\t\t\tNatsumiBaba\n\t\t\n\t\t\n\t\t\tEiichiAkaho\n\t\t\n\t\t10.6026/97320630006387\n\t\t21976864\n\t\tPMC3181425\n\t\t\n\t\n\t\n\t\tBioinformation\n\t\tBioinformation\n\t\t0973-8894\n\t\t0973-2063\n\t\t\n\t\t\t6\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tBiomedical Informatics\n\t\t\n\t\n\n","document":{"$oid":"60c48d167723bebd8666d87e"},"refKey":51},
{"_key":"60c48d167723bebd8666d881","_id":"references/60c48d167723bebd8666d881","_rev":"_cfFlYRm---","tei":"\n\t\n\t\tChEMBL: towards direct deposition of bioassay data\n\t\t\n\t\t\tDavidMendez\n\t\t\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tAPatríciaBento\n\t\t\n\t\t\n\t\t\tJonChambers\n\t\t\n\t\t\n\t\t\tMarleenDe veij\n\t\t\n\t\t\n\t\t\tEloyFélix\n\t\t\n\t\t\n\t\t\tMaríaPaulaMagariños\n\t\t\n\t\t\n\t\t\tJuanFMosquera\n\t\t\n\t\t\n\t\t\tPrudenceMutowo\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tMaríaGordillo-Marañón\n\t\t\n\t\t\n\t\t\tFionaHunter\n\t\t\n\t\t\n\t\t\tLauraJunco\n\t\t\n\t\t\n\t\t\tGraceMugumbate\n\t\t\n\t\t\n\t\t\tMilagrosRodriguez-Lopez\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tNicolasBosc\n\t\t\n\t\t\n\t\t\tChrisJRadoux\n\t\t\n\t\t\n\t\t\tAldoSegura-Cabrera\n\t\t\n\t\t\n\t\t\tAnneHersey\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t10.1093/nar/gky1075\n\t\t30398643\n\t\tPMC6323927\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c48d167723bebd8666d87e"},"refKey":34},
{"_key":"60c48d167723bebd8666d882","_id":"references/60c48d167723bebd8666d882","_rev":"_cfFlYRy---","tei":"\n\t\n\t\tNGLview–interactive molecular graphics for Jupyter notebooks\n\t\t\n\t\t\tHaiNguyen\n\t\t\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tAlexanderSRose\n\t\t\t0000-0002-0893-5551\n\t\t\n\t\t10.1093/bioinformatics/btx789\n\t\t29236954\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c48d167723bebd8666d87e"},"refKey":38},
{"_key":"60c48d167723bebd8666d883","_id":"references/60c48d167723bebd8666d883","_rev":"_cfFlYS----","tei":"\n\t\n\t\tUniChem: a unified chemical structure cross-referencing and identifier tracking system\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\t\n\t\t\tFTHeer\n\t\t\n\t\t\n\t\t\tTA PDe Beer\n\t\t\n\t\t\n\t\t\tCRempfer\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\n\t\n\t\tW296-W303. 31. Chambers\n\t\t\t\t\n\t\t\t\n\t\t\t46\n\t\t\t3\n\t\t\n\t\n\tJ. Cheminform.\n\n","document":{"$oid":"60c48d167723bebd8666d87e"},"refKey":30},
{"_key":"60c48d277723bebd8666d8a7","_id":"references/60c48d277723bebd8666d8a7","_rev":"_cfFlYSK---","tei":"\n\t\n\t\tCellPhoneDB v2.0: Inferring cell-cell communication from combined expression of multi-subunit receptor-ligand complexes\n\t\t\n\t\t\tMirjanaEfremova\n\t\t\n\t\t\n\t\t\tMiquelVento-Tormo\n\t\t\n\t\t\n\t\t\tSarahATeichmann\n\t\t\n\t\t\n\t\t\tRoserVento-Tormo\n\t\t\n\t\t10.1101/680926\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c48d277723bebd8666d8a6"},"refKey":9},
{"_key":"60c48d277723bebd8666d8a8","_id":"references/60c48d277723bebd8666d8a8","_rev":"_cfFlYSW---","tei":"\n\t\n\t\tInterferome v2.0: an updated database of annotated interferonregulated genes\n\t\t\n\t\t\tIRusinova\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48d277723bebd8666d8a6"},"refKey":41},
{"_key":"60c48d277723bebd8666d8a9","_id":"references/60c48d277723bebd8666d8a9","_rev":"_cfFlYSe---","tei":"\n\t\n\t\tBioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48d277723bebd8666d8a6"},"refKey":43},
{"_key":"60c48d6b7723bebd8666d8de","_id":"references/60c48d6b7723bebd8666d8de","_rev":"_cfFlYSq---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48d6b7723bebd8666d8dd"},"refKey":12},
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{"_key":"60c48d7f7723bebd8666d8ea","_id":"references/60c48d7f7723bebd8666d8ea","_rev":"_cfFlYTC---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using tempest (formerly path-o-gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48d7f7723bebd8666d8e8"},"refKey":33},
{"_key":"60c48d927723bebd8666d8fa","_id":"references/60c48d927723bebd8666d8fa","_rev":"_cfFlYTO---","tei":"\n\t\n\t\tR: a language and environment for statistical computing, R Foundation for Statistical Computing\n\t\t\n\t\t\tRCoreTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c48d927723bebd8666d8f9"},"refKey":23},
{"_key":"60c48db67723bebd8666d917","_id":"references/60c48db67723bebd8666d917","_rev":"_cfFlYTa---","tei":"\n\t\n\t\tThe theory of search Kinematic bases\n\t\t\n\t\t\tMKleiner\n\t\t\n\t\t\n\t\t\tDBrainard\n\t\t\n\t\t\n\t\t\tDPelli\n\t\t\n\t\n\t\n\t\tOperations Research\n\t\tKoopman, B. O.\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWhat's new in Psychtoolbox-3\n\n","document":{"$oid":"60c48db67723bebd8666d916"},"refKey":29},
{"_key":"60c48dda7723bebd8666d92b","_id":"references/60c48dda7723bebd8666d92b","_rev":"_cfFlYTi---","tei":"\n\t\n\t\tComputer visualization of three-dimensional image data using IMOD\n\t\t\n\t\t\tJRKremer\n\t\t\n\t\t\n\t\t\tDMastronarde\n\t\t\n\t\t\n\t\t\tJRMcintosh\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t116\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48dda7723bebd8666d92a"},"refKey":36},
{"_key":"60c48dfc7723bebd8666d939","_id":"references/60c48dfc7723bebd8666d939","_rev":"_cfFlYTu---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48dfc7723bebd8666d938"},"refKey":36},
{"_key":"60c48dfe7723bebd8666d93b","_id":"references/60c48dfe7723bebd8666d93b","_rev":"_cfFlYT6---","tei":"\n\t\n\t\tBusiness processes management using process algebra and relational database model\n\t\t\n\t\t\tKRBraghetto\n\t\t\n\t\t\n\t\t\tJEFerreira\n\t\t\n\t\t\n\t\t\tCPu\n\t\t\n\t\n\t\n\t\tProceedings of International Conference on eBusiness\n\t\t\t\tInternational Conference on eBusiness\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48dfe7723bebd8666d93a"},"refKey":27},
{"_key":"60c48dfe7723bebd8666d93c","_id":"references/60c48dfe7723bebd8666d93c","_rev":"_cfFlYUG---","tei":"\n\t\n\t\tThe Enhydra Shark Project\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48dfe7723bebd8666d93a"},"refKey":18},
{"_key":"60c48e117723bebd8666d94d","_id":"references/60c48e117723bebd8666d94d","_rev":"_cfFlYUS---","tei":"\n\t\n\t\tG*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t10.3758/bf03193146\n\t\t17695343\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c48e117723bebd8666d94c"},"refKey":29},
{"_key":"60c48e117723bebd8666d94e","_id":"references/60c48e117723bebd8666d94e","_rev":"_cfFlYUa---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c48e117723bebd8666d94c"},"refKey":2},
{"_key":"60c48e777723bebd8666d995","_id":"references/60c48e777723bebd8666d995","_rev":"_cfFlYUm---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\n\tVersion 1.5.0.4 Schr€ odinger\n\n","document":{"$oid":"60c48e777723bebd8666d994"},"refKey":47},
{"_key":"60c48e777723bebd8666d996","_id":"references/60c48e777723bebd8666d996","_rev":"_cfFlYUy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48e777723bebd8666d994"},"refKey":48},
{"_key":"60c48e777723bebd8666d997","_id":"references/60c48e777723bebd8666d997","_rev":"_cfFlYV----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEDodson\n\t\t\n\t\t\n\t\t\tActa\n\t\t\n\t\t\n\t\t\t\n\t\t\t53\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48e777723bebd8666d994"},"refKey":43},
{"_key":"60c48e777723bebd8666d998","_id":"references/60c48e777723bebd8666d998","_rev":"_cfFlYVG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1186/1471-2105-7-339\n\t\t16836757\n\t\tPMC1570152\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t339\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c48e777723bebd8666d994"},"refKey":50},
{"_key":"60c48e777723bebd8666d999","_id":"references/60c48e777723bebd8666d999","_rev":"_cfFlYVS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tCCBallard\n\t\t\n\t\t\n\t\t\tKDCowtan\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tRMKeegan\n\t\t\n\t\t\n\t\t\tEBKrissinel\n\t\t\n\t\t\n\t\t\tAG WLeslie\n\t\t\n\t\t\n\t\t\tAMccoy\n\t\t\n\t\t\n\t\t\tSJMcnicholas\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tEAPotterton\n\t\t\n\t\t\n\t\t\tHRPowell\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tAVagin\n\t\t\n\t\t\n\t\t\tKSWilson\n\t\t\n\t\t\n\t\t\tActa\n\t\t\n\t\t\n\t\t\t\n\t\t\t67\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48e777723bebd8666d994"},"refKey":44},
{"_key":"60c48e867723bebd8666d9b8","_id":"references/60c48e867723bebd8666d9b8","_rev":"_cfFlYVe---","tei":"\n\t\n\t\tThe InterPro database, an integrated documentation resource for protein families, domains and functional sites\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\t\n\t\t\tTKAttwood\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tMBiswas\n\t\t\n\t\t\n\t\t\tPBucher\n\t\t\n\t\t\n\t\t\tLCerutti\n\t\t\n\t\t\n\t\t\tFCorpet\n\t\t\n\t\t\n\t\t\tMDCroning\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tLFalquet\n\t\t\n\t\t\n\t\t\tWFleischmann\n\t\t\n\t\t\n\t\t\tJGouzy\n\t\t\n\t\t\n\t\t\tHHermjakob\n\t\t\n\t\t\n\t\t\tNHulo\n\t\t\n\t\t\n\t\t\tIJonassen\n\t\t\n\t\t\n\t\t\tDKahn\n\t\t\n\t\t\n\t\t\tAKanapin\n\t\t\n\t\t\n\t\t\tYKaravidopoulou\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tBMarx\n\t\t\n\t\t\n\t\t\tNJMulder\n\t\t\n\t\t\n\t\t\tTMOinn\n\t\t\n\t\t\n\t\t\tMPagni\n\t\t\n\t\t\n\t\t\tFServant\n\t\t\n\t\t\n\t\t\tCJSigrist\n\t\t\n\t\t\n\t\t\tEMZdobnov\n\t\t\n\t\t10.1093/nar/29.1.37\n\t\t11125043\n\t\tPMC29841\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c48e867723bebd8666d9b7"},"refKey":51},
{"_key":"60c48e867723bebd8666d9b9","_id":"references/60c48e867723bebd8666d9b9","_rev":"_cfFlYVq---","tei":"\n\t\n\t\tThe Pfam protein families database\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tLCerruti\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tLEtwiller\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tSGriffiths-Jones\n\t\t\n\t\t\n\t\t\tKLHowe\n\t\t\n\t\t\n\t\t\tMMarshall\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48e867723bebd8666d9b7"},"refKey":52},
{"_key":"60c48e867723bebd8666d9ba","_id":"references/60c48e867723bebd8666d9ba","_rev":"_cfFlYV2---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tProc. Int. Conf. Intell. Syst. Mol. Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48e867723bebd8666d9b7"},"refKey":53},
{"_key":"60c48e867723bebd8666d9bb","_id":"references/60c48e867723bebd8666d9bb","_rev":"_cfFlYW----","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48e867723bebd8666d9b7"},"refKey":48},
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{"_key":"60c48e867723bebd8666d9bd","_id":"references/60c48e867723bebd8666d9bd","_rev":"_cfFlYWW---","tei":"\n\t\n\t\tMulticoil2: Predicting Coiled Coils and Their Oligomerization States from Sequence in the Twilight Zone\n\t\t\n\t\t\tJasonTrigg\n\t\t\n\t\t\n\t\t\tKarlGutwin\n\t\t\n\t\t\n\t\t\tAmyEKeating\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t10.1371/journal.pone.0023519\n\t\t21901122\n\t\tPMC3162000\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t8\n\t\t\te23519\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c48e867723bebd8666d9b7"},"refKey":54},
{"_key":"60c48e867723bebd8666d9be","_id":"references/60c48e867723bebd8666d9be","_rev":"_cfFlYWi---","tei":"\n\t\n\t\tDatamonkey: rapid detection of selective pressure on individual sites of codon alignments\n\t\t\n\t\t\tSLPond\n\t\t\n\t\t\n\t\t\tSDFrost\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48e867723bebd8666d9b7"},"refKey":55},
{"_key":"60c48ec17723bebd8666d9d9","_id":"references/60c48ec17723bebd8666d9d9","_rev":"_cfFlYWq---","tei":"\n\t\n\t\tG*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t10.3758/bf03193146\n\t\t17695343\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c48ec17723bebd8666d9d8"},"refKey":14},
{"_key":"60c48ec17723bebd8666d9da","_id":"references/60c48ec17723bebd8666d9da","_rev":"_cfFlYW2---","tei":"\n\t\n\t\tStatistical power analyses using G*Power 3.1: Tests for correlation and regression analyses\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t10.3758/brm.41.4.1149\n\t\t19897823\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c48ec17723bebd8666d9d8"},"refKey":13},
{"_key":"60c48ec77723bebd8666d9e1","_id":"references/60c48ec77723bebd8666d9e1","_rev":"_cfFlYXC---","tei":"\n\t\n\t\tThe SWISS-MODEL workspace: a web-based environment for protein structure homology modelling\n\t\t\n\t\t\tKonstantinArnold\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tJürgenKopp\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\n\t\t10.1093/bioinformatics/bti770\n\t\t16301204\n\t\tark:/67375/HXZ-DQVT0R8C-2\n\t\t556F700B331B3ED919348043E6C498C8C0A6D424\n\t\tdoi:10.1093/ bioinformatics/bti770\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c48ec77723bebd8666d9e0"},"refKey":6},
{"_key":"60c48ec77723bebd8666d9e2","_id":"references/60c48ec77723bebd8666d9e2","_rev":"_cfFlYXO---","tei":"\n\t\n\t\tThe SWISS-MODEL Repository and associated resources\n\t\t\n\t\t\tFKiefer\n\t\t\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tMKunzli\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\t10.1093/nar/gkn750\n\t\t18931379\n\t\tPMC2686475\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c48ec77723bebd8666d9e0"},"refKey":50},
{"_key":"60c48efb7723bebd8666da0b","_id":"references/60c48efb7723bebd8666da0b","_rev":"_cfFlYXa---","tei":"\n\t\n\t\tScikit-learn: Machine Learning in Python\n\t\t\n\t\t\tFabianPedregosa\n\t\t\n\t\t\n\t\t\tGV\n\t\t\n\t\t\n\t\t\tAlexandreGramfort\n\t\t\n\t\t\n\t\t\tVincentMichel\n\t\t\n\t\t\n\t\t\tBertrandThirion\n\t\t\n\t\t\n\t\t\tOlivierGrisel\n\t\t\n\t\t\n\t\t\tMathieuBlondel\n\t\t\n\t\t\n\t\t\tPeterPrettenhofer\n\t\t\n\t\t\n\t\t\tRonWeiss\n\t\t\n\t\t\n\t\t\tVincentDubourg\n\t\t\n\t\t\n\t\t\tJakeVanderplas\n\t\t\n\t\t\n\t\t\tAlexandrePassos\n\t\t\n\t\t\n\t\t\tDavidCournapeau\n\t\t\n\t\t\n\t\t\tMatthieuBrucher\n\t\t\n\t\t\n\t\t\tMatthieuPerrot\n\t\t\n\t\t\n\t\t\tÉdouardDuchesnay\n\t\t\n\t\n\t\n\t\tJ Mach Learn Res\n\t\t\n\t\t\t12\n\t\t\t85\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48efb7723bebd8666da0a"},"refKey":4},
{"_key":"60c48f107723bebd8666da19","_id":"references/60c48f107723bebd8666da19","_rev":"_cfFlYXm---","tei":"\n\t\n\t\tA SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing\n\t\t\n\t\t\tDavidEGordon\n\t\t\n\t\tbioRxiv: 2020.03.22.002386\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48f107723bebd8666da18"},"refKey":10},
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{"_key":"60c48f387723bebd8666da45","_id":"references/60c48f387723bebd8666da45","_rev":"_cfFlYYS---","tei":"\n\t\n\t\tGurobi Optimization LLC, Gurobi optimizer reference manual\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c48f387723bebd8666da44"},"refKey":17},
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{"_key":"60c48f6e7723bebd8666da5c","_id":"references/60c48f6e7723bebd8666da5c","_rev":"_cfFlYYq---","tei":"\n\t\n\t\tMacromolecular Size-and-Shape Distributions by Sedimentation Velocity Analytical Ultracentrifugation\n\t\t\n\t\t\tPatrickHBrown\n\t\t\n\t\t\n\t\t\tPeterSchuck\n\t\t\n\t\t10.1529/biophysj.106.081372\n\t\t16565040\n\t\tPMC1471869\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t90\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c48f6e7723bebd8666da5b"},"refKey":32},
{"_key":"60c48f7a7723bebd8666da67","_id":"references/60c48f7a7723bebd8666da67","_rev":"_cfFlYY2---","tei":"\n\t\n\t\tThe NONMEM System\n\t\t\n\t\t\tStuartBeal\n\t\t\n\t\t\n\t\t\tLewisSheiner\n\t\t\n\t\t10.2307/2684123\n\t\n\t\n\t\tThe American Statistician\n\t\tThe American Statistician\n\t\t0003-1305\n\t\t\n\t\t\t34\n\t\t\t2\n\t\t\t118\n\t\t\t\n\t\t\tJSTOR\n\t\t\n\t\n\tICON Development Solutions\n\n","document":{"$oid":"60c48f7a7723bebd8666da66"},"refKey":21},
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{"_key":"60c492907723bebd8666dd28","_id":"references/60c492907723bebd8666dd28","_rev":"_cfFlYgW---","tei":"\n\t\n\t\tFull-length transcriptome assembly from RNA-Seq data without a reference genome\n\t\t\n\t\t\tManfredGGrabherr\n\t\t\n\t\t\n\t\t\tBrianJHaas\n\t\t\n\t\t\n\t\t\tMoranYassour\n\t\t\n\t\t\n\t\t\tJoshuaZLevin\n\t\t\n\t\t\n\t\t\tDawnAThompson\n\t\t\n\t\t\n\t\t\tIdoAmit\n\t\t\n\t\t\n\t\t\tXianAdiconis\n\t\t\n\t\t\n\t\t\tLinFan\n\t\t\n\t\t\n\t\t\tRaktimaRaychowdhury\n\t\t\n\t\t\n\t\t\tQiandongZeng\n\t\t\n\t\t\n\t\t\tZehuaChen\n\t\t\n\t\t\n\t\t\tEvanMauceli\n\t\t\n\t\t\n\t\t\tNirHacohen\n\t\t\n\t\t\n\t\t\tAndreasGnirke\n\t\t\n\t\t\n\t\t\tNicholasRhind\n\t\t\n\t\t\n\t\t\tFedericaDi Palma\n\t\t\n\t\t\n\t\t\tBruceWBirren\n\t\t\n\t\t\n\t\t\tChadNusbaum\n\t\t\n\t\t\n\t\t\tKerstinLindblad-Toh\n\t\t\n\t\t\n\t\t\tNirFriedman\n\t\t\n\t\t\n\t\t\tAvivRegev\n\t\t\n\t\t10.1038/nbt.1883\n\t\t21572440\n\t\tPMC3571712\n\t\t\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c492907723bebd8666dd26"},"refKey":86},
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{"_key":"60c494217723bebd8666df23","_id":"references/60c494217723bebd8666df23","_rev":"_cfFlYke---","tei":"\n\t\n\t\tMaintaining Existing Zoning Systems Using Automated Zone-Design Techniques: Methods for Creating the 2011 Census Output Geographies for England and Wales\n\t\t\n\t\t\tSamanthaCockings\n\t\t\n\t\t\n\t\t\tAndrewHarfoot\n\t\t\n\t\t\n\t\t\tDavidMartin\n\t\t\n\t\t\n\t\t\tDuncanHornby\n\t\t\n\t\t10.1068/a43601\n\t\n\t\n\t\tEnvironment and Planning A: Economy and Space\n\t\tEnviron Plan A\n\t\t0308-518X\n\t\t1472-3409\n\t\t\n\t\t\t43\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c494217723bebd8666df21"},"refKey":36},
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{"_key":"60c495cd7723bebd8666dfde","_id":"references/60c495cd7723bebd8666dfde","_rev":"_cfFlYn2---","tei":"\n\t\n\t\tEvaluation of methods for detecting recombination from DNA sequences: Computer simulations\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\t10.1073/pnas.241370698\n\t\t11717435\n\t\tPMC61114\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c495cd7723bebd8666dfd9"},"refKey":66},
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{"_key":"60c496647723bebd8666e06a","_id":"references/60c496647723bebd8666e06a","_rev":"_cfFlYpC---","tei":"\n\t\n\t\tClustal Omega for making accurate alignments of many protein sequences\n\t\t\n\t\t\tFabianSievers\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\t0000-0002-3952-3285\n\t\t\n\t\t10.1002/pro.3290\n\t\t28884485\n\t\tPMC5734385\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c496647723bebd8666e069"},"refKey":60},
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{"_key":"60c496647723bebd8666e06c","_id":"references/60c496647723bebd8666e06c","_rev":"_cfFlYpa---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c496647723bebd8666e069"},"refKey":61},
{"_key":"60c497067723bebd8666e0a3","_id":"references/60c497067723bebd8666e0a3","_rev":"_cfFlYpm---","tei":"\n\t\n\t\tCopenhagen: The Nordic Cochrane Centre\n\t\t\n\t\n\t\n\t\tReview Manager (RevMan)\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\tThe Cochrane Collaboration\n\n","document":{"$oid":"60c497067723bebd8666e0a2"},"refKey":38},
{"_key":"60c4970f7723bebd8666e0ad","_id":"references/60c4970f7723bebd8666e0ad","_rev":"_cfFlYpy---","tei":"\n\t\n\t\tGeneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4970f7723bebd8666e0ac"},"refKey":49},
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{"_key":"60c4970f7723bebd8666e0b0","_id":"references/60c4970f7723bebd8666e0b0","_rev":"_cfFlYqW---","tei":"\n\t\n\t\tHigh-Throughput Next-Generation Sequencing of Polioviruses\n\t\t\n\t\t\tAnnaMMontmayeur\n\t\t\n\t\t\n\t\t\tTerryFei FanNg\n\t\t\t0000-0002-4815-8697\n\t\t\n\t\t\n\t\t\tAlexanderSchmidt\n\t\t\n\t\t\n\t\t\tKunZhao\n\t\t\n\t\t\n\t\t\tLauraMagaña\n\t\t\n\t\t\n\t\t\tJaneIber\n\t\t\n\t\t\n\t\t\tChristinaJCastro\n\t\t\n\t\t\n\t\t\tQiChen\n\t\t\n\t\t\n\t\t\tElizabethHenderson\n\t\t\n\t\t\n\t\t\tEdwardRamos\n\t\t\n\t\t\n\t\t\tJingShaw\n\t\t\n\t\t\n\t\t\tRomanLTatusov\n\t\t\n\t\t\n\t\t\tNaomiDybdahl-Sissoko\n\t\t\n\t\t\n\t\t\tMarieClaireEndegue-Zanga\n\t\t\n\t\t\n\t\t\tJohnsonAAdeniji\n\t\t\n\t\t\n\t\t\tMStevenOberste\n\t\t\n\t\t\n\t\t\tCaraCBurns\n\t\t\n\t\t10.1128/jcm.02121-16\n\t\t27927929\n\t\tPMC5277531\n\t\t\n\t\n\t\n\t\tJournal of Clinical Microbiology\n\t\tJ. Clin. Microbiol.\n\t\t0095-1137\n\t\t1098-660X\n\t\t\n\t\t\t55\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c4970f7723bebd8666e0ac"},"refKey":24},
{"_key":"60c4970f7723bebd8666e0b1","_id":"references/60c4970f7723bebd8666e0b1","_rev":"_cfFlYqi---","tei":"\n\t\n\t\tAn Improved Sequence Assembly Program\n\t\t\n\t\t\tXiaoqiuHuang\n\t\t\n\t\t\n\t\t\tAMadan\n\t\t\n\t\t10.1006/geno.1996.0155\n\t\t8617506\n\t\tS0888-7543(96)90155-X\n\t\tark:/67375/6H6-52P2KD3M-9\n\t\tA03DA029060EB407D3641D586BA98D16DE5A2FA4\n\t\n\t\n\t\tGenomics\n\t\tGenomics\n\t\t0888-7543\n\t\t\n\t\t\t33\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4970f7723bebd8666e0ac"},"refKey":40},
{"_key":"60c4970f7723bebd8666e0b2","_id":"references/60c4970f7723bebd8666e0b2","_rev":"_cfFlYqu---","tei":"\n\t\n\t\tUsing the miraEST Assembler for Reliable and Automated mRNA Transcript Assembly and SNP Detection in Sequenced ESTs\n\t\t\n\t\t\tBChevreux\n\t\t\n\t\t\n\t\t\tTPfisterer\n\t\t\n\t\t\n\t\t\tBDrescher\n\t\t\n\t\t\n\t\t\tAJDriesel\n\t\t\n\t\t\n\t\t\tWEMuller\n\t\t\n\t\t\n\t\t\tTWetter\n\t\t\n\t\t\n\t\t\tSSuhai\n\t\t\n\t\t10.1101/gr.1917404\n\t\t15140833\n\t\tPMC419793\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4970f7723bebd8666e0ac"},"refKey":41},
{"_key":"60c4970f7723bebd8666e0b3","_id":"references/60c4970f7723bebd8666e0b3","_rev":"_cfFlYq6---","tei":"\n\t\n\t\tGenome sequence assembly using trace signals and additional sequence information\n\t\t\n\t\t\tBChevreux\n\t\t\n\t\t\n\t\t\tTWetter\n\t\t\n\t\t\n\t\t\tSSuhai\n\t\t\n\t\n\t\n\t\tGerman conference on bioinformatics\n\t\t\n\t\t\t99\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4970f7723bebd8666e0ac"},"refKey":42},
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{"_key":"60c4970f7723bebd8666e0b5","_id":"references/60c4970f7723bebd8666e0b5","_rev":"_cfFlYrS---","tei":"\n\t\n\t\tmetaSPAdes: a new versatile metagenomic assembler\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDMeleshko\n\t\t\n\t\t\n\t\t\tAKorobeynikov\n\t\t\n\t\t\n\t\t\tPAPevzner\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t27\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4970f7723bebd8666e0ac"},"refKey":45},
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{"_key":"60c4970f7723bebd8666e0b7","_id":"references/60c4970f7723bebd8666e0b7","_rev":"_cfFlYrq---","tei":"\n\t\n\t\tFull-length transcriptome assembly from RNA-Seq data without a reference genome\n\t\t\n\t\t\tMGGrabherr\n\t\t\n\t\t\n\t\t\tBJHaas\n\t\t\n\t\t\n\t\t\tMYassour\n\t\t\n\t\t\n\t\t\tJZLevin\n\t\t\n\t\t\n\t\t\tDAThompson\n\t\t\n\t\t\n\t\t\tIAmit\n\t\t\n\t\t\n\t\t\tXAdiconis\n\t\t\n\t\t\n\t\t\tLFan\n\t\t\n\t\t\n\t\t\tRRaychowdhury\n\t\t\n\t\t\n\t\t\tQZeng\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4970f7723bebd8666e0ac"},"refKey":48},
{"_key":"60c4978b7723bebd8666e107","_id":"references/60c4978b7723bebd8666e107","_rev":"_cfFlYr2---","tei":"\n\t\n\t\tSWAG: A Large-Scale Adversarial Dataset for Grounded Commonsense Inference\n\t\t\n\t\t\tRowanZellers\n\t\t\n\t\t\n\t\t\tYonatanBisk\n\t\t\n\t\t\n\t\t\tRoySchwartz\n\t\t\n\t\t\n\t\t\tYejinChoi\n\t\t\n\t\t10.18653/v1/d18-1009\n\t\t\n\t\n\t\n\t\tProceedings of the 2018 Conference on Empirical Methods in Natural Language Processing\n\t\t\t\tthe 2018 Conference on Empirical Methods in Natural Language Processing\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4978b7723bebd8666e106"},"refKey":30},
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{"_key":"60c498047723bebd8666e150","_id":"references/60c498047723bebd8666e150","_rev":"_cfFlYsa---","tei":"\n\t\n\t\tFactoMineR: An R Package for Multivariate Analysis\n\t\t\n\t\t\tSLê\n\t\t\n\t\t\n\t\t\tJJosse\n\t\t\n\t\t\n\t\t\tFHusson\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t25\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tArticles\n\n","document":{"$oid":"60c498047723bebd8666e14e"},"refKey":22},
{"_key":"60c498047723bebd8666e151","_id":"references/60c498047723bebd8666e151","_rev":"_cfFlYsm---","tei":"\n\t\n\t\tEstimating the number of clusters in a data set via the gap statistic\n\t\t\n\t\t\tAKassambara\n\t\t\n\t\t\n\t\t\tFMundt\n\t\t\n\t\t\n\t\t\tRTibshirani\n\t\t\n\t\t\n\t\t\tGWalther\n\t\t\n\t\t\n\t\t\tTHastie\n\t\t\n\t\t10.1111/1467-9868.00293\n\t\t\n\t\n\t\n\t\tJournal of the Royal Statistical Society: Series B (Statistical Methodology)\n\t\t\n\t\t\t63\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tExtract and Visualize the Results of Multivariate Data Analyses\n\n","document":{"$oid":"60c498047723bebd8666e14e"},"refKey":18},
{"_key":"60c498207723bebd8666e161","_id":"references/60c498207723bebd8666e161","_rev":"_cfFlYsy---","tei":"\n\t\n\t\tPhenoScanner: a database of human genotype–phenotype associations\n\t\t\n\t\t\tJamesRStaley\n\t\t\n\t\t\n\t\t\tJamesBlackshaw\n\t\t\n\t\t\n\t\t\tMihirAKamat\n\t\t\n\t\t\n\t\t\tSteveEllis\n\t\t\n\t\t\n\t\t\tPraveenSurendran\n\t\t\n\t\t\n\t\t\tBenjaminBSun\n\t\t\n\t\t\n\t\t\tDirkSPaul\n\t\t\n\t\t\n\t\t\tDanielFreitag\n\t\t\n\t\t\n\t\t\tStephenBurgess\n\t\t\n\t\t\n\t\t\tJohnDanesh\n\t\t\n\t\t\n\t\t\tRobinYoung\n\t\t\n\t\t\n\t\t\tAdamSButterworth\n\t\t\n\t\t10.1093/bioinformatics/btw373\n\t\t27318201\n\t\tPMC5048068\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c498207723bebd8666e160"},"refKey":37},
{"_key":"60c498207723bebd8666e162","_id":"references/60c498207723bebd8666e162","_rev":"_cfFlYt----","tei":"\n\t\n\t\tPhenoScanner V2: an expanded tool for searching human genotypephenotype associations\n\t\t\n\t\t\tMAKamat\n\t\t\n\t\n\t\n\t\tBioinforma. Oxf. Engl\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c498207723bebd8666e160"},"refKey":38},
{"_key":"60c498207723bebd8666e163","_id":"references/60c498207723bebd8666e163","_rev":"_cfFlYtK---","tei":"\n\t\n\t\txCell: Digitally portraying the tissue cellular heterogeneity landscape\n\t\t\n\t\t\tDvirAran\n\t\t\t0000-0001-6334-5039\n\t\t\n\t\t\n\t\t\tZichengHu\n\t\t\n\t\t\n\t\t\tAtulJButte\n\t\t\t0000-0002-7433-2740\n\t\t\n\t\t10.1101/114165\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t18\n\t\t\t220\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c498207723bebd8666e160"},"refKey":65},
{"_key":"60c498207723bebd8666e164","_id":"references/60c498207723bebd8666e164","_rev":"_cfFlYtW---","tei":"\n\t\n\t\tA scaling normalization method for differential expression analysis of RNA-seq data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tAOshlack\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t11\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c498207723bebd8666e160"},"refKey":57},
{"_key":"60c498207723bebd8666e165","_id":"references/60c498207723bebd8666e165","_rev":"_cfFlYti---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinforma. Oxf. Engl\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c498207723bebd8666e160"},"refKey":53},
{"_key":"60c498537723bebd8666e1a0","_id":"references/60c498537723bebd8666e1a0","_rev":"_cfFlYtu---","tei":"\n\t\n\t\tlavaan: AnRPackage for Structural Equation Modeling\n\t\t\n\t\t\tYvesRosseel\n\t\t\n\t\t10.18637/jss.v048.i02\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t48\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c498537723bebd8666e19f"},"refKey":61},
{"_key":"60c498537723bebd8666e1a1","_id":"references/60c498537723bebd8666e1a1","_rev":"_cfFlYt6---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\tarXiv preprint arXiv\n\n","document":{"$oid":"60c498537723bebd8666e19f"},"refKey":5},
{"_key":"60c4986d7723bebd8666e1b2","_id":"references/60c4986d7723bebd8666e1b2","_rev":"_cfFlYuC---","tei":"\n\t\n\t\tEpiCollect: Linking Smartphones to Web Applications for Epidemiology, Ecology and Community Data Collection\n\t\t\n\t\t\tDavidMAanensen\n\t\t\n\t\t\n\t\t\tDerekMHuntley\n\t\t\n\t\t\n\t\t\tEdwardJFeil\n\t\t\n\t\t\n\t\t\tFada'aAl-Own\n\t\t\n\t\t\n\t\t\tBrianGSpratt\n\t\t\n\t\t10.1371/journal.pone.0006968\n\t\t19756138\n\t\tPMC2735776\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t4\n\t\t\t9\n\t\t\te6968\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c4986d7723bebd8666e1b1"},"refKey":0},
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{"_key":"60c4986d7723bebd8666e1b4","_id":"references/60c4986d7723bebd8666e1b4","_rev":"_cfFlYua---","tei":"\n\t\n\t\tOpen Source Data Collection in the Developing World\n\t\t\n\t\t\tYawAnokwa\n\t\t\n\t\t\n\t\t\tCarlHartung\n\t\t\n\t\t\n\t\t\tWaylonBrunette\n\t\t\n\t\t\n\t\t\tGaetanoBorriello\n\t\t\n\t\t\n\t\t\tAdamLerer\n\t\t\n\t\t10.1109/mc.2009.328\n\t\t\n\t\n\t\n\t\tComputer\n\t\tComputer\n\t\t0018-9162\n\t\t\n\t\t\t42\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c4986d7723bebd8666e1b1"},"refKey":4},
{"_key":"60c498717723bebd8666e1d4","_id":"references/60c498717723bebd8666e1d4","_rev":"_cfFlYuq---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tTGur\n\t\t\n\t\t\n\t\t\tNMadhusoodanan\n\t\t\n\t\t\n\t\t\tPBasutkar\n\t\t\n\t\t\n\t\t\tAR NTivey\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t10.1093/nar/gkz268\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c498717723bebd8666e1d3"},"refKey":40},
{"_key":"60c498717723bebd8666e1d5","_id":"references/60c498717723bebd8666e1d5","_rev":"_cfFlYu2---","tei":"\n\t\n\t\tDevelopment of an epitope conservancy analysis tool to facilitate the design of epitope-based diagnostics and vaccines\n\t\t\n\t\t\tHuynh-HoaBui\n\t\t\n\t\t\n\t\t\tJohnSidney\n\t\t\n\t\t\n\t\t\tWeiLi\n\t\t\n\t\t\n\t\t\tNicolasFusseder\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t10.1186/1471-2105-8-361\n\t\t17897458\n\t\tPMC2233646\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t361\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c498717723bebd8666e1d3"},"refKey":7},
{"_key":"60c498717723bebd8666e1d6","_id":"references/60c498717723bebd8666e1d6","_rev":"_cfFlYvC---","tei":"\n\t\n\t\tProInflam: a webserver for the prediction of proinflammatory antigenicity of peptides and proteins\n\t\t\n\t\t\tSudheerGupta\n\t\t\n\t\t\n\t\t\tMidhunKMadhu\n\t\t\n\t\t\n\t\t\tAshokKSharma\n\t\t\n\t\t\n\t\t\tVineetKSharma\n\t\t\n\t\t10.1186/s12967-016-0928-3\n\t\t27301453\n\t\tPMC4908730\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Translational Medicine\n\t\tJ Transl Med\n\t\t1479-5876\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t178\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c498717723bebd8666e1d3"},"refKey":19},
{"_key":"60c498837723bebd8666e1ee","_id":"references/60c498837723bebd8666e1ee","_rev":"_cfFlYvO---","tei":"\n\t\n\t\tContinuous Real Time Breath Gas Monitoring in the Clinical Environment by Proton-Transfer-Reaction-Time-of-Flight-Mass Spectrometry\n\t\t\n\t\t\tPhillipTrefz\n\t\t\n\t\t\n\t\t\tMarkusSchmidt\n\t\t\n\t\t\n\t\t\tPeterOertel\n\t\t\n\t\t\n\t\t\tJulianeObermeier\n\t\t\n\t\t\n\t\t\tBeateBrock\n\t\t\n\t\t\n\t\t\tSvendKamysek\n\t\t\n\t\t\n\t\t\tJürgenDunkl\n\t\t\n\t\t\n\t\t\tRalfZimmermann\n\t\t\n\t\t\n\t\t\tJochenKSchubert\n\t\t\n\t\t\n\t\t\tWolframMiekisch\n\t\t\n\t\t10.1021/ac402298v\n\t\t24044609\n\t\n\t\n\t\tAnalytical Chemistry\n\t\tAnal. Chem.\n\t\t0003-2700\n\t\t1520-6882\n\t\t\n\t\t\t85\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c498837723bebd8666e1ed"},"refKey":43},
{"_key":"60c498a07723bebd8666e208","_id":"references/60c498a07723bebd8666e208","_rev":"_cfFlYve---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL): An online tool for phylogenetic tree display and annotation\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c498a07723bebd8666e207"},"refKey":17},
{"_key":"60c498a07723bebd8666e209","_id":"references/60c498a07723bebd8666e209","_rev":"_cfFlYv2---","tei":"\n\t\n\t\tA Combined Transmembrane Topology and Signal Peptide Prediction Method\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1016/j.jmb.2004.03.016\n\t\t15111065\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t338\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c498a07723bebd8666e207"},"refKey":11},
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{"_key":"60c498a07723bebd8666e20b","_id":"references/60c498a07723bebd8666e20b","_rev":"_cfFlYwm---","tei":"\n\t\n\t\tMesecar AD. The SARS-coronavirus papain-like protease: Structure, function and inhibition by designed antiviral compounds\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tBáez-Santos YM\n\t\t\t\tSt. John SE\n\t\t\n\t\t\t\n\t\t\n\t\n\tBioinformatics\n\n","document":{"$oid":"60c498a07723bebd8666e207"},"refKey":0},
{"_key":"60c498a07723bebd8666e20c","_id":"references/60c498a07723bebd8666e20c","_rev":"_cfFlYxC---","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c498a07723bebd8666e207"},"refKey":37},
{"_key":"60c498a07723bebd8666e20d","_id":"references/60c498a07723bebd8666e20d","_rev":"_cfFlYxa---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: Improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c498a07723bebd8666e207"},"refKey":13},
{"_key":"60c498a07723bebd8666e20e","_id":"references/60c498a07723bebd8666e20e","_rev":"_cfFlYxu---","tei":"\n\t\n\t\tFasttree: Computing large minimum evolution trees with profiles instead of a distance matrix\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c498a07723bebd8666e207"},"refKey":25},
{"_key":"60c498a07723bebd8666e20f","_id":"references/60c498a07723bebd8666e20f","_rev":"_cfFlYy----","tei":"\n\t\n\t\tRAxML version 8: A tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c498a07723bebd8666e207"},"refKey":30},
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{"_key":"60c49b977723bebd8666e53f","_id":"references/60c49b977723bebd8666e53f","_rev":"_cfFlZ-----","tei":"\n\t\n\t\tConducting meta-analyses in R with the metafor package\n\t\t\n\t\t\tWViechtbauer\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c49b977723bebd8666e53e"},"refKey":31},
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{"_key":"60c49b9c7723bebd8666e548","_id":"references/60c49b9c7723bebd8666e548","_rev":"_cfFlZ-i---","tei":"\n\t\n\t\tPut your money where your mouth is: Using deep learning to identify consumer tribes from word usage\n\t\t\n\t\t\tPeterGloor\n\t\t\n\t\t\n\t\t\tAndreaFronzetti Colladon\n\t\t\t0000-0002-5348-9722\n\t\t\n\t\t\n\t\t\tJoaoMarcosDe Oliveira\n\t\t\n\t\t\n\t\t\tPaolaRovelli\n\t\t\t0000-0002-1860-8693\n\t\t\n\t\t10.1016/j.ijinfomgt.2019.03.011\n\t\n\t\n\t\tInternational Journal of Information Management\n\t\tInternational Journal of Information Management\n\t\t0268-4012\n\t\t\n\t\t\t51\n\t\t\t101924\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c49b9c7723bebd8666e545"},"refKey":18},
{"_key":"60c49bcc7723bebd8666e58e","_id":"references/60c49bcc7723bebd8666e58e","_rev":"_cfFlZ-u---","tei":"\n\t\n\t\tIn-silico interactions of active phytochemicals with c-Myc EGFR and ERBB2 oncoproteins\n\t\t\n\t\t\tVChandel\n\t\t\n\t\t\n\t\t\tMSrivastava\n\t\t\n\t\t\n\t\t\tASrivastava\n\t\t\n\t\t\n\t\t\tSAsthana\n\t\t\n\t\t\n\t\t\tDKumar\n\t\t\n\t\n\t\n\t\tChemical Biology Letters\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c49bcc7723bebd8666e58d"},"refKey":3},
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{"_key":"60c49bcc7723bebd8666e590","_id":"references/60c49bcc7723bebd8666e590","_rev":"_cfFlZ_G---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNoelMO'boyle\n\t\t\n\t\t\n\t\t\tMichaelBanck\n\t\t\n\t\t\n\t\t\tCraigAJames\n\t\t\n\t\t\n\t\t\tChrisMorley\n\t\t\n\t\t\n\t\t\tTimVandermeersch\n\t\t\n\t\t\n\t\t\tGeoffreyRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t21982300\n\t\tPMC3198950\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c49bcc7723bebd8666e58d"},"refKey":31},
{"_key":"60c49bcc7723bebd8666e591","_id":"references/60c49bcc7723bebd8666e591","_rev":"_cfFlZ_O---","tei":"\n\t\n\t\tLigand docking and binding site analysis with PyMOL and Autodock/Vina\n\t\t\n\t\t\tDanielSeeliger\n\t\t\n\t\t\n\t\t\tBertLDe Groot\n\t\t\n\t\t10.1007/s10822-010-9352-6\n\t\t20401516\n\t\tPMC2881210\n\t\tark:/67375/VQC-DJ1XJHQ0-F\n\t\t3DA675CD417E345F29EFB6CC4EA712C2B6A6F1D4\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t24\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c49bcc7723bebd8666e58d"},"refKey":37},
{"_key":"60c49c307723bebd8666e5cf","_id":"references/60c49c307723bebd8666e5cf","_rev":"_cfFlZ_a---","tei":"\n\t\n\t\tSciPy 1.0: fundamental algorithms for scientific computing in Python\n\t\t\n\t\t\tPVirtanen\n\t\t\n\t\t10.1038/s41592-019-0686-2\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c49c307723bebd8666e5ce"},"refKey":31},
{"_key":"60c49c527723bebd8666e5db","_id":"references/60c49c527723bebd8666e5db","_rev":"_cfFlZ_m---","tei":"\n\t\n\t\tInitial sequence and comparative analysis of the cat genome\n\t\t\n\t\t\tJUPontius\n\t\t\n\t\t\n\t\t\tJCMullikin\n\t\t\n\t\t\n\t\t\tDRSmith\n\t\t\n\t\t\n\t\t\tKLindblad-Toh\n\t\t\n\t\t\n\t\t\tSGnerre\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tJChang\n\t\t\n\t\t\n\t\t\tRStephens\n\t\t\n\t\t\n\t\t\tBNeelam\n\t\t\n\t\t\n\t\t\tNVolfovsky\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tRAgarwala\n\t\t\n\t\t\n\t\t\tKNarfstrom\n\t\t\n\t\t\n\t\t\tWJMurphy\n\t\t\n\t\t\n\t\t\tUGiger\n\t\t\n\t\t\n\t\t\tALRoca\n\t\t\n\t\t\n\t\t\tAAntunes\n\t\t\n\t\t\n\t\t\tMMenotti-Raymond\n\t\t\n\t\t\n\t\t\tNYuhki\n\t\t\n\t\t\n\t\t\tJPecon-Slattery\n\t\t\n\t\t\n\t\t\tWEJohnson\n\t\t\n\t\t\n\t\t\tGBourque\n\t\t\n\t\t\n\t\t\tGTesler\n\t\t\n\t\t\n\t\t\tSJO'brien\n\t\t\n\t\t10.1101/gr.6380007\n\t\t17975172\n\t\tPMC2045150\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t17\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c49c527723bebd8666e5da"},"refKey":7},
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{"_key":"60c49c757723bebd8666e5f6","_id":"references/60c49c757723bebd8666e5f6","_rev":"_cfFlZA----","tei":"\n\t\n\t\tThe GROMACS development team. GROMACS user manual version 2018\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c49c757723bebd8666e5f5"},"refKey":55},
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{"_key":"60c49f0e7723bebd8666e821","_id":"references/60c49f0e7723bebd8666e821","_rev":"_cfFlZKO---","tei":"\n\t\n\t\tSciBERT: a pretrained language model for scientific text\n\t\t\n\t\t\tIBeltagy\n\t\t\n\t\t\n\t\t\tKLo\n\t\t\n\t\t\n\t\t\tACohan\n\t\t\n\t\n\t\n\t\tproceedings of the 2019 Conference on Empirical Methods in Natural Language Processing and the 9th International Joint Conference on Natural Language Processing\n\t\t\t\tthe 2019 Conference on Empirical Methods in Natural Language Processing and the 9th International Joint Conference on Natural Language ProcessingHong Kong, China\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t2019\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c49f0e7723bebd8666e81d"},"refKey":14},
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{"_key":"60c49f387723bebd8666e836","_id":"references/60c49f387723bebd8666e836","_rev":"_cfFlZKy---","tei":"\n\t\n\t\tTwenty years of West Nile virus spread and evolution in the Americas visualized by Nextstrain\n\t\t\n\t\t\tJHadfield\n\t\t\n\t\n\t\n\t\tPLoS Pathog\n\t\t\n\t\t\t15\n\t\t\te1008042\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c49f387723bebd8666e834"},"refKey":31},
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{"_key":"60c4a1457723bebd8666e99d","_id":"references/60c4a1457723bebd8666e99d","_rev":"_cfFlZOm---","tei":"\n\t\n\t\tThe ELDARICA Horn Solver\n\t\t\n\t\t\tHosseinHojjat\n\t\t\n\t\t\n\t\t\tPhilippRummer\n\t\t\n\t\t10.23919/fmcad.2018.8603013\n\t\t\n\t\n\t\n\t\t2018 Formal Methods in Computer Aided Design (FMCAD)\n\t\t\t\t\n\t\t\tNikolajBjørner\n\t\t\t& ArieGurfinkel\n\t\t\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a1457723bebd8666e99b"},"refKey":14},
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{"_key":"60c4a28a7723bebd8666eb49","_id":"references/60c4a28a7723bebd8666eb49","_rev":"_cfFlZU----","tei":"\n\t\n\t\tRobust reconstruction of indoor scenes\n\t\t\n\t\t\tSChoi\n\t\t\n\t\t\n\t\t\tQYZhou\n\t\t\n\t\t\n\t\t\tVKoltun\n\t\t\n\t\n\t\n\t\t2015 IEEE Conference on Computer Vision and Pattern Recognition (CVPR)\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a28a7723bebd8666eb47"},"refKey":5},
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{"_key":"60c4a3067723bebd8666eba2","_id":"references/60c4a3067723bebd8666eba2","_rev":"_cfFlZUi---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3067723bebd8666eba0"},"refKey":23},
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{"_key":"60c4a31d7723bebd8666ebc0","_id":"references/60c4a31d7723bebd8666ebc0","_rev":"_cfFlZVG---","tei":"\n\t\n\t\tMutation Spectrum in TPO Gene of Bangladeshi Patients with Thyroid Dyshormonogenesis and Analysis of the Effects of Different Mutations on the Structural Features and Functions of TPO Protein through In Silico Approach\n\t\t\n\t\t\tMst.NoorjahanBegum\n\t\t\t0000-0001-7975-9383\n\t\t\n\t\t\n\t\t\tMdTarikulIslam\n\t\t\t0000-0003-2822-245X\n\t\t\n\t\t\n\t\t\tShekhRezwanHossain\n\t\t\n\t\t\n\t\t\tGolamSarowerBhuyan\n\t\t\t0000-0003-0472-0040\n\t\t\n\t\t\n\t\t\tMohammadAHalim\n\t\t\t0000-0002-1698-7044\n\t\t\n\t\t\n\t\t\tImrulShahriar\n\t\t\t0000-0002-1140-6300\n\t\t\n\t\t\n\t\t\tSuprovathKumarSarker\n\t\t\t0000-0002-1647-8776\n\t\t\n\t\t\n\t\t\tShahinurHaque\n\t\t\n\t\t\n\t\t\tTasniaKawsarKonika\n\t\t\n\t\t\n\t\t\tMd.SazzadulIslam\n\t\t\n\t\t\n\t\t\tAsifuzzamanRahat\n\t\t\t0000-0001-5271-7853\n\t\t\n\t\t\n\t\t\tSyedaKashfiQadri\n\t\t\n\t\t\n\t\t\tRosySultana\n\t\t\t0000-0003-2499-1825\n\t\t\n\t\t\n\t\t\tSuraiyaBegum\n\t\t\n\t\t\n\t\t\tSadiaSultana\n\t\t\n\t\t\n\t\t\tNarayanSaha\n\t\t\n\t\t\n\t\t\tMizanulHasan\n\t\t\n\t\t\n\t\t\tMAHasanat\n\t\t\n\t\t\n\t\t\tHurjahanBanu\n\t\t\n\t\t\n\t\t\tHossainUddinShekhar\n\t\t\t0000-0002-5947-330X\n\t\t\n\t\t\n\t\t\tEmranKabirChowdhury\n\t\t\n\t\t\n\t\t\tAbuASajib\n\t\t\t0000-0003-1710-9865\n\t\t\n\t\t\n\t\t\tAbulB M M KIslam\n\t\t\t0000-0002-7274-0855\n\t\t\n\t\t\n\t\t\tSyedSaleheenQadri\n\t\t\n\t\t\n\t\t\tFirdausiQadri\n\t\t\n\t\t\n\t\t\tSharifAkhteruzzaman\n\t\t\n\t\t\n\t\t\tKaiissarMannoor\n\t\t\t0000-0002-2394-0447\n\t\t\n\t\t10.1155/2019/9218903\n\t\t\n\t\n\t\n\t\tBioMed Research International\n\t\tBioMed Research International\n\t\t2314-6133\n\t\t2314-6141\n\t\t\n\t\t\t2019\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\tand functions of TPO protein through in silico approach\n\n","document":{"$oid":"60c4a31d7723bebd8666ebbd"},"refKey":4},
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{"_key":"60c4a31d7723bebd8666ebc5","_id":"references/60c4a31d7723bebd8666ebc5","_rev":"_cfFlZW----","tei":"\n\t\n\t\tGgplot2: Elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t10.1007/978-0-387-98141-3\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\n\t\n\n","document":{"$oid":"60c4a31d7723bebd8666ebbd"},"refKey":73},
{"_key":"60c4a31d7723bebd8666ebc6","_id":"references/60c4a31d7723bebd8666ebc6","_rev":"_cfFlZWK---","tei":"\n\t\n\t\tThe ClusPro web server for protein–protein docking\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tKathrynAPorter\n\t\t\n\t\t\n\t\t\tDzmitryPadhorny\n\t\t\n\t\t\n\t\t\tChristineYueh\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t10.1038/nprot.2016.169\n\t\t28079879\n\t\tPMC5540229\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4a31d7723bebd8666ebbd"},"refKey":35},
{"_key":"60c4a31d7723bebd8666ebc7","_id":"references/60c4a31d7723bebd8666ebc7","_rev":"_cfFlZWW---","tei":"\n\t\n\t\tR programming for data science\n\t\t\n\t\t\tRDPeng\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a31d7723bebd8666ebbd"},"refKey":55},
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{"_key":"60c4a3357723bebd8666ec4d","_id":"references/60c4a3357723bebd8666ec4d","_rev":"_cfFlZWu---","tei":"\n\t\n\t\tExploring network structure, dynamics, and function using NetworkX Los Alamos National Lab\n\t\t\n\t\t\tAHagberg\n\t\t\n\t\t\n\t\t\tPSwart\n\t\t\n\t\t\n\t\t\tDChult\n\t\t\n\t\tNo. LA-UR-08-05495\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3357723bebd8666ec4c"},"refKey":19},
{"_key":"60c4a34f7723bebd8666ec71","_id":"references/60c4a34f7723bebd8666ec71","_rev":"_cfFlZW6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tACopper\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tMField\n\t\t\n\t\t\n\t\t\tJHeld\n\t\t\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a34f7723bebd8666ec70"},"refKey":3},
{"_key":"60c4a34f7723bebd8666ec72","_id":"references/60c4a34f7723bebd8666ec72","_rev":"_cfFlZXG---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t9\n\t\t\t772\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a34f7723bebd8666ec70"},"refKey":2},
{"_key":"60c4a3677723bebd8666ec7d","_id":"references/60c4a3677723bebd8666ec7d","_rev":"_cfFlZXO---","tei":"\n\t\n\t\tEpiEstim: estimate time varying reproduction numbers from epidemic curves\n\t\t\n\t\t\tCoriA\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3677723bebd8666ec7c"},"refKey":19},
{"_key":"60c4a3677723bebd8666ec7e","_id":"references/60c4a3677723bebd8666ec7e","_rev":"_cfFlZXa---","tei":"\n\t\n\t\tEstimating the time-varying reproduction number of SARS-CoV-2 using national and subnational case counts\n\t\t\n\t\t\tSAbbott\n\t\t\n\t\t\n\t\t\tJHellewell\n\t\t\n\t\t\n\t\t\tRThompson\n\t\t\n\t\t\n\t\t\tKSherratt\n\t\t\n\t\t\n\t\t\tHGibbs\n\t\t\n\t\t\n\t\t\tNBosse\n\t\t\n\t\t10.12688/wellcomeopenres.16006.1\n\t\t\n\t\n\t\n\t\tWellcome Open Res\n\t\t\n\t\t\t5\n\t\t\t112\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3677723bebd8666ec7c"},"refKey":40},
{"_key":"60c4a3677723bebd8666ec7f","_id":"references/60c4a3677723bebd8666ec7f","_rev":"_cfFlZXm---","tei":"\n\t\n\t\tEpiNow2: Estimate Real-Time Case Counts and Time-Varying Epidemiological Parameters\n\t\t\n\t\t\tSAbbott\n\t\t\n\t\t\n\t\t\tJHellewell\n\t\t\n\t\t\n\t\t\tJHickson\n\t\t\n\t\t\n\t\t\tJMunday\n\t\t\n\t\t\n\t\t\tKGostic\n\t\t\n\t\t\n\t\t\tPEllis\n\t\t\n\t\t10.5281/zenodo.3957489\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3677723bebd8666ec7c"},"refKey":43},
{"_key":"60c4a3847723bebd8666ec9a","_id":"references/60c4a3847723bebd8666ec9a","_rev":"_cfFlZXy---","tei":"\n\t\n\t\tEstimation of protein secondary structure from circular dichroism spectra: comparison of CONTIN, SELCON, and CDSSTR methods with an expanded reference set\n\t\t\n\t\t\tNSreerama\n\t\t\n\t\t\n\t\t\tRWWoody\n\t\t\n\t\n\t\n\t\tAnal. Biochem\n\t\t\n\t\t\t287\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3847723bebd8666ec99"},"refKey":11},
{"_key":"60c4a3847723bebd8666ec9b","_id":"references/60c4a3847723bebd8666ec9b","_rev":"_cfFlZY----","tei":"\n\t\n\t\tAnalysis of Circular Dichroism Data\n\t\t\n\t\t\tNormaJGreenfield\n\t\t\n\t\t10.1016/s0076-6879(04)83012-x\n\t\t15063655\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t383\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3847723bebd8666ec99"},"refKey":12},
{"_key":"60c4a3847723bebd8666ec9c","_id":"references/60c4a3847723bebd8666ec9c","_rev":"_cfFlZYK---","tei":"\n\t\n\t\tMethods to Estimate the Conformation of Proteins and Polypeptides from Circular Dichroism Data\n\t\t\n\t\t\tNormaJGreenfield\n\t\t\n\t\t10.1006/abio.1996.0084\n\t\t8850540\n\t\tS0003-2697(96)90084-6\n\t\tark:/67375/6H6-6FPM91X4-Z\n\t\t8EE4454009FF1957E7CAA3706A8551BEB316341D\n\t\n\t\n\t\tAnalytical Biochemistry\n\t\tAnalytical Biochemistry\n\t\t0003-2697\n\t\t\n\t\t\t235\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4a3847723bebd8666ec99"},"refKey":13},
{"_key":"60c4a3a87723bebd8666ecc7","_id":"references/60c4a3a87723bebd8666ecc7","_rev":"_cfFlZYW---","tei":"\n\t\n\t\tA Bayesian view on cryo-EM structure determination\n\t\t\n\t\t\tSjorsH WScheres\n\t\t\n\t\t10.1109/isbi.2012.6235807\n\t\n\t\n\t\t2012 9th IEEE International Symposium on Biomedical Imaging (ISBI)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t415\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3a87723bebd8666ecc6"},"refKey":66},
{"_key":"60c4a3a87723bebd8666ecc8","_id":"references/60c4a3a87723bebd8666ecc8","_rev":"_cfFlZYi---","tei":"\n\t\n\t\tMeeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3a87723bebd8666ecc6"},"refKey":74},
{"_key":"60c4a3a87723bebd8666ecc9","_id":"references/60c4a3a87723bebd8666ecc9","_rev":"_cfFlZYu---","tei":"\n\t\n\t\tSPHIRE-crYOLO: A fast and accurate fully automated particle picker for cryo-EM\n\t\t\n\t\t\tThorstenWagner\n\t\t\n\t\t\n\t\t\tFelipeMerino\n\t\t\t0000-0003-4166-8747\n\t\t\n\t\t\n\t\t\tMarkusStabrin\n\t\t\n\t\t\n\t\t\tToshioMoriya\n\t\t\n\t\t\n\t\t\tClaudiaAntoni\n\t\t\n\t\t\n\t\t\tAmirApelbaum\n\t\t\n\t\t\n\t\t\tPhilineHagel\n\t\t\n\t\t\n\t\t\tOlegSitsel\n\t\t\n\t\t\n\t\t\tTobiasRaisch\n\t\t\n\t\t\n\t\t\tDanielPrumbaum\n\t\t\n\t\t\n\t\t\tDennisQuentin\n\t\t\n\t\t\n\t\t\tDanielRoderer\n\t\t\n\t\t\n\t\t\tSebastianTacke\n\t\t\n\t\t\n\t\t\tBirteSiebolds\n\t\t\n\t\t\n\t\t\tEvelynSchubert\n\t\t\n\t\t\n\t\t\tTanvirRShaikh\n\t\t\n\t\t\n\t\t\tPascalLill\n\t\t\n\t\t\n\t\t\tChristosGatsogiannis\n\t\t\t0000-0002-4922-4545\n\t\t\n\t\t\n\t\t\tStefanRaunser\n\t\t\t0000-0001-9373-3016\n\t\t\n\t\t10.1101/356584\n\t\t\n\t\n\t\n\t\tCommun. Biol\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4a3a87723bebd8666ecc6"},"refKey":70},
{"_key":"60c4a3a87723bebd8666ecca","_id":"references/60c4a3a87723bebd8666ecca","_rev":"_cfFlZY2---","tei":"\n\t\n\t\tJPred4: A protein secondary structure prediction server\n\t\t\n\t\t\tADrozdetskiy\n\t\t\n\t\t\n\t\t\tCCole\n\t\t\n\t\t\n\t\t\tJProcter\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3a87723bebd8666ecc6"},"refKey":75},
{"_key":"60c4a3a87723bebd8666eccb","_id":"references/60c4a3a87723bebd8666eccb","_rev":"_cfFlZZC---","tei":"\n\t\n\t\tImproved protein structure prediction using predicted interresidue orientations\n\t\t\n\t\t\tJYang\n\t\t\n\t\t\n\t\t\tIAnishchenko\n\t\t\n\t\t\n\t\t\tHPark\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. U. S. A\n\t\t\n\t\t\t117\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a3a87723bebd8666ecc6"},"refKey":20},
{"_key":"60c4a3a87723bebd8666eccc","_id":"references/60c4a3a87723bebd8666eccc","_rev":"_cfFlZZO---","tei":"\n\t\n\t\t\n\t\t\tTWagner\n\t\t\n\t\t10.5281/zenodo.3378300\n\t\tMPI-Dortmund/sphire-janni: JANNI (Version v0.1.2). Zendodo. (2020)\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c4a3a87723bebd8666ecc6"},"refKey":69},
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{"_key":"60c4a5bf7723bebd8666ee51","_id":"references/60c4a5bf7723bebd8666ee51","_rev":"_cfFlZda---","tei":"\n\t\n\t\tScikit-learn: Machine learning in Python. the Journal of machine Learning research\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tVMichel\n\t\t\n\t\t\n\t\t\tBThirion\n\t\t\n\t\t\n\t\t\tOGrisel\n\t\t\n\t\t\n\t\t\tMBlondel\n\t\t\n\t\t\n\t\t\tPPrettenhofer\n\t\t\n\t\t\n\t\t\tRWeiss\n\t\t\n\t\t\n\t\t\tVDubourg\n\t\t\n\t\t\n\t\t\tJVanderplas\n\t\t\n\t\t\n\t\t\t\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a5bf7723bebd8666ee4e"},"refKey":41},
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{"_key":"60c4a5c77723bebd8666ee59","_id":"references/60c4a5c77723bebd8666ee59","_rev":"_cfFlZe----","tei":"\n\t\n\t\trpart: Recursive partitioning and regression Trees. R package version 4.1-8\n\t\t\n\t\t\tTMTherneau\n\t\t\n\t\t\n\t\t\tBAtkinson\n\t\t\n\t\t\n\t\t\tBRipley\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c4a5c77723bebd8666ee56"},"refKey":51},
{"_key":"60c4a6097723bebd8666ee80","_id":"references/60c4a6097723bebd8666ee80","_rev":"_cfFlZeG---","tei":"\n\t\n\t\tProposal: A mixed methods appraisal tool for systematic mixed studies reviews\n\t\t\n\t\t\tPPluye\n\t\t\n\t\t\n\t\t\tERobert\n\t\t\n\t\t\n\t\t\tMCargo\n\t\t\n\t\t\n\t\t\tGBartlett\n\t\t\n\t\t\n\t\t\tAO'cathain\n\t\t\n\t\t\n\t\t\tFGriffiths\n\t\t\n\t\t\n\t\t\tFBoardman\n\t\t\n\t\t\n\t\t\tMPGagnon\n\t\t\n\t\t\n\t\t\tMCRousseau\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a6097723bebd8666ee7f"},"refKey":15},
{"_key":"60c4a6357723bebd8666eea0","_id":"references/60c4a6357723bebd8666eea0","_rev":"_cfFlZeS---","tei":"\n\t\n\t\tCytoscape: A software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a6357723bebd8666ee9f"},"refKey":35},
{"_key":"60c4a6357723bebd8666eea1","_id":"references/60c4a6357723bebd8666eea1","_rev":"_cfFlZee---","tei":"\n\t\n\t\tDAVID: Database for annotation, visualization, and integrated discovery\n\t\t\n\t\t\tGDennisJr\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tDAHosack\n\t\t\n\t\t\n\t\t\tJYang\n\t\t\n\t\t\n\t\t\tWGao\n\t\t\n\t\t\n\t\t\tHCLane\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t4\n\t\t\tP3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a6357723bebd8666ee9f"},"refKey":33},
{"_key":"60c4a6357723bebd8666eea2","_id":"references/60c4a6357723bebd8666eea2","_rev":"_cfFlZeq---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a6357723bebd8666ee9f"},"refKey":34},
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{"_key":"60c4a7077723bebd8666ef0f","_id":"references/60c4a7077723bebd8666ef0f","_rev":"_cfFlZfu---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R foundation for statistical computing\n\t\t\n\t\t\tCoreRdevelopment\n\t\t\n\t\t\n\t\t\tTeam R\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c4a7077723bebd8666ef0e"},"refKey":30},
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{"_key":"60c4a72c7723bebd8666ef2b","_id":"references/60c4a72c7723bebd8666ef2b","_rev":"_cfFlZgG---","tei":"\n\t\n\t\tXGBoost: a scalable tree boosting system\n\t\t\n\t\t\tTChen\n\t\t\n\t\t\n\t\t\tCGuestrin\n\t\t\n\t\n\t\n\t\tProceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\t\tthe 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data MiningSan Francisco California USA\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\n\t\n\tInternet. cited 2020 Jun 11\n\n","document":{"$oid":"60c4a72c7723bebd8666ef2a"},"refKey":12},
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{"_key":"60c4a7447723bebd8666ef38","_id":"references/60c4a7447723bebd8666ef38","_rev":"_cfFlZge---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.2011.75\n\t\t21988835\n\t\tPMC3261699\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMolecular Systems Biology\n\t\t1744-4292\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4a7447723bebd8666ef36"},"refKey":23},
{"_key":"60c4a7447723bebd8666ef39","_id":"references/60c4a7447723bebd8666ef39","_rev":"_cfFlZgq---","tei":"\n\t\n\t\tDistribution of miRNA expression across human tissues\n\t\t\n\t\t\tNicoleLudwig\n\t\t\n\t\t\n\t\t\tPetraLeidinger\n\t\t\n\t\t\n\t\t\tKurtBecker\n\t\t\n\t\t\n\t\t\tChristinaBackes\n\t\t\n\t\t\n\t\t\tTobiasFehlmann\n\t\t\n\t\t\n\t\t\tChristianPallasch\n\t\t\n\t\t\n\t\t\tSteffiRheinheimer\n\t\t\n\t\t\n\t\t\tBenjaminMeder\n\t\t\n\t\t\n\t\t\tCordStähler\n\t\t\n\t\t\n\t\t\tEckartMeese\n\t\t\n\t\t\n\t\t\tAndreasKeller\n\t\t\n\t\t10.1093/nar/gkw116\n\t\t26921406\n\t\tPMC4856985\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4a7447723bebd8666ef36"},"refKey":25},
{"_key":"60c4a7547723bebd8666ef53","_id":"references/60c4a7547723bebd8666ef53","_rev":"_cfFlZg2---","tei":"\n\t\n\t\tWebLogo: a sequence logo generator\n\t\t\n\t\t\tGECrooks\n\t\t\n\t\t\n\t\t\tGHon\n\t\t\n\t\t\n\t\t\tJMChandonia\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":13},
{"_key":"60c4a7547723bebd8666ef54","_id":"references/60c4a7547723bebd8666ef54","_rev":"_cfFlZhC---","tei":"\n\t\n\t\tEnhanced recognition of protein transmembrane domains with prediction-based structural profiles\n\t\t\n\t\t\tBaoqiangCao\n\t\t\n\t\t\n\t\t\tAlekseyPorollo\n\t\t\n\t\t\n\t\t\tRafalAdamczak\n\t\t\n\t\t\n\t\t\tMarkJarrell\n\t\t\n\t\t\n\t\t\tJaroslawMeller\n\t\t\n\t\t10.1093/bioinformatics/bti784\n\t\t16293670\n\t\tark:/67375/HXZ-1FL87H3M-3\n\t\t79BE3A53E5FB1E50F3BBA5ECC3D978783F6E8701\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":9},
{"_key":"60c4a7547723bebd8666ef55","_id":"references/60c4a7547723bebd8666ef55","_rev":"_cfFlZhO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPFlicek\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":22},
{"_key":"60c4a7547723bebd8666ef56","_id":"references/60c4a7547723bebd8666ef56","_rev":"_cfFlZha---","tei":"\n\t\n\t\tAQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJARullmannn\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tRKaptein\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":43},
{"_key":"60c4a7547723bebd8666ef57","_id":"references/60c4a7547723bebd8666ef57","_rev":"_cfFlZhi---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":65},
{"_key":"60c4a7547723bebd8666ef58","_id":"references/60c4a7547723bebd8666ef58","_rev":"_cfFlZhu---","tei":"\n\t\n\t\tA novel method for predicting transmembrane segments in proteins based on a statistical analysis of the SwissProt database: the PRED-TMR algorithm\n\t\t\n\t\t\tCPasquier\n\t\t\n\t\t\n\t\t\tVJPromponas\n\t\t\n\t\t\n\t\t\tGAPalaios\n\t\t\n\t\t\n\t\t\tJSHamodrakas\n\t\t\n\t\t\n\t\t\tSJHamodrakas\n\t\t\n\t\t10.1093/protein/12.5.381\n\t\t10360978\n\t\tark:/67375/HXZ-0W5434LB-X\n\t\t4E5CD5C0F1DCB0FB4EF61AE99A7CADDA0A30AE36\n\t\t\n\t\n\t\n\t\tProtein Engineering, Design and Selection\n\t\t1741-0126\n\t\t1741-0134\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":54},
{"_key":"60c4a7547723bebd8666ef59","_id":"references/60c4a7547723bebd8666ef59","_rev":"_cfFlZh6---","tei":"\n\t\n\t\tANOLEA: a www server to assess protein structures\n\t\t\n\t\t\tFMelo\n\t\t\n\t\t\n\t\t\tDDevos\n\t\t\n\t\t\n\t\t\tEDepiereux\n\t\t\n\t\t\n\t\t\tEFeytmans\n\t\t\n\t\n\t\n\t\tProc Int Conf Intell Syst Mol Biol\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":48},
{"_key":"60c4a7547723bebd8666ef5a","_id":"references/60c4a7547723bebd8666ef5a","_rev":"_cfFlZiG---","tei":"\n\t\n\t\tUsing the NCBI Map Viewer to Browse Genomic Sequence Data\n\t\t\n\t\t\tTyraGWolfsberg\n\t\t\n\t\t10.1002/0471250953.bi0105s00\n\t\tUnit18.5\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t\n\t\t\t00\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":75},
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{"_key":"60c4a7547723bebd8666ef5c","_id":"references/60c4a7547723bebd8666ef5c","_rev":"_cfFlZie---","tei":"\n\t\n\t\tGROMACS 4: algorithms for highly efficient, load-balanced, and scalable molecular simulation\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tCKutzner\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\n\t\n\t\tJ Chem Theory Comput\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":30},
{"_key":"60c4a7547723bebd8666ef5d","_id":"references/60c4a7547723bebd8666ef5d","_rev":"_cfFlZiq---","tei":"\n\t\n\t\tSMART 7: recent updates to the protein domain annotation resource\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tTDoerks\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":44},
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{"_key":"60c4a7547723bebd8666ef60","_id":"references/60c4a7547723bebd8666ef60","_rev":"_cfFlZjO---","tei":"\n\t\n\t\tInterPro in 2011: new developments in the family and domain prediction database\n\t\t\n\t\t\tSHunter\n\t\t\n\t\t\n\t\t\tPJones\n\t\t\n\t\t\n\t\t\tAMitchell\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\t\n\t\t\tTKAttwood\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tTBernard\n\t\t\n\t\t\n\t\t\tDBinns\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t\n\t\t\tSBurge\n\t\t\n\t\t\n\t\t\tEDe Castro\n\t\t\n\t\t\n\t\t\tPCoggill\n\t\t\n\t\t\n\t\t\tMCorbett\n\t\t\n\t\t\n\t\t\tUDas\n\t\t\n\t\t\n\t\t\tLDaugherty\n\t\t\n\t\t\n\t\t\tLDuquenne\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tMFraser\n\t\t\n\t\t\n\t\t\tJGough\n\t\t\n\t\t\n\t\t\tDHaft\n\t\t\n\t\t\n\t\t\tNHulo\n\t\t\n\t\t\n\t\t\tDKahn\n\t\t\n\t\t\n\t\t\tEKelly\n\t\t\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tDLonsdale\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tMMadera\n\t\t\n\t\t\n\t\t\tJMaslen\n\t\t\n\t\t\n\t\t\tCMcanulla\n\t\t\n\t\t\n\t\t\tJMcdowall\n\t\t\n\t\t\n\t\t\tCMcmenamin\n\t\t\n\t\t\n\t\t\tHMi\n\t\t\n\t\t\n\t\t\tPMutowo-Muellenet\n\t\t\n\t\t\n\t\t\tNMulder\n\t\t\n\t\t\n\t\t\tDNatale\n\t\t\n\t\t\n\t\t\tCOrengo\n\t\t\n\t\t\n\t\t\tSPesseat\n\t\t\n\t\t\n\t\t\tMPunta\n\t\t\n\t\t\n\t\t\tAFQuinn\n\t\t\n\t\t\n\t\t\tCRivoire\n\t\t\n\t\t\n\t\t\tASangrador-Vegas\n\t\t\n\t\t\n\t\t\tJDSelengut\n\t\t\n\t\t\n\t\t\tCJ ASigrist\n\t\t\n\t\t\n\t\t\tMScheremetjew\n\t\t\n\t\t\n\t\t\tJTate\n\t\t\n\t\t\n\t\t\tMThimmajanarthanan\n\t\t\n\t\t\n\t\t\tPDThomas\n\t\t\n\t\t\n\t\t\tCHWu\n\t\t\n\t\t\n\t\t\tCYeats\n\t\t\n\t\t\n\t\t\tS-YYong\n\t\t\n\t\t\n\t\t\tJLees\n\t\t\n\t\t\n\t\t\tCYeats\n\t\t\n\t\t\n\t\t\tJPerkins\n\t\t\n\t\t\n\t\t\tISillitoe\n\t\t\n\t\t\n\t\t\tRRentzsch\n\t\t\n\t\t\n\t\t\tBHDessailly\n\t\t\n\t\t\n\t\t\tCOrengo\n\t\t\n\t\t10.1093/nar/gks456\n\t\tPMC3378909\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4a7547723bebd8666ef52"},"refKey":32},
{"_key":"60c4a77e7723bebd8666ef9b","_id":"references/60c4a77e7723bebd8666ef9b","_rev":"_cfFlZjW---","tei":"\n\t\n\t\tAn R Package for a Fast Calculation to Semi-partial Correlation Coefficients\n\t\t\n\t\t\tKimSPpcor\n\t\t\n\t\t10.5351/CSAM.2015.22.6.665\n\t\t26688802\n\t\t\n\t\n\t\n\t\tCommun Stat Appl Methods\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a77e7723bebd8666ef9a"},"refKey":5},
{"_key":"60c4a79a7723bebd8666efa5","_id":"references/60c4a79a7723bebd8666efa5","_rev":"_cfFlZjm---","tei":"\n\t\n\t\tThe automated data processing architecture for the GPI Exoplanet Survey\n\t\t\n\t\t\tJasonJWang\n\t\t\n\t\t\n\t\t\tMarshallDPerrin\n\t\t\n\t\t\n\t\t\tDmitrySavransky\n\t\t\n\t\t\n\t\t\tPaulineArriaga\n\t\t\n\t\t\n\t\t\tJeffreyKChilcote\n\t\t\n\t\t\n\t\t\tRobertJDe Rosa\n\t\t\n\t\t\n\t\t\tMaxwellAMillar-Blanchaer\n\t\t\n\t\t\n\t\t\tJacobShapiro\n\t\t\n\t\t\n\t\t\tJulienRameau\n\t\t\n\t\t\n\t\t\tSchuylerGWolff\n\t\t\n\t\t\n\t\t\tJamesRGraham\n\t\t\n\t\t\n\t\t\tBruceAMacintosh\n\t\t\n\t\t\n\t\t\tChristianMarois\n\t\t\n\t\t\n\t\t\tJean-BaptisteRuffio\n\t\t\n\t\t10.1117/12.2274531\n\t\tascl:1506.001\n\t\n\t\n\t\tTechniques and Instrumentation for Detection of Exoplanets VIII\n\t\t\t\t\n\t\t\tSPIE\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a79a7723bebd8666efa4"},"refKey":37},
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{"_key":"60c4a79d7723bebd8666efad","_id":"references/60c4a79d7723bebd8666efad","_rev":"_cfFlZkO---","tei":"\n\t\n\t\tGROMACS-the road ahead\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t10.1002/wcms.50\n\t\tark:/67375/WNG-JKP3TBS2-G\n\t\t70492371E1BC8D441F158B42344EB23949FD71E4\n\t\n\t\n\t\tWiley Interdisciplinary Reviews: Computational Molecular Science\n\t\tWIREs Comput Mol Sci\n\t\t1759-0876\n\t\t\n\t\t\t1\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4a79d7723bebd8666efab"},"refKey":41},
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{"_key":"60c4a79d7723bebd8666efaf","_id":"references/60c4a79d7723bebd8666efaf","_rev":"_cfFlZkm---","tei":"\n\t\n\t\tVery fast empirical prediction and rationalization of protein pKa values\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tADRobertson\n\t\t\n\t\t\n\t\t\tJHJensen\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\t\n\t\t\t61\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a79d7723bebd8666efab"},"refKey":39},
{"_key":"60c4a79d7723bebd8666efb0","_id":"references/60c4a79d7723bebd8666efb0","_rev":"_cfFlZky---","tei":"\n\t\n\t\tImproving efficiency of large time-scale molecular dynamics simulations of hydrogen-rich systems\n\t\t\n\t\t\tKAntonFeenstra\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tHermanJ CBerendsen\n\t\t\n\t\t10.1002/(sici)1096-987x(199906)20:8<786::aid-jcc5>3.3.co;2-2\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t20\n\t\t\t8\n\t\t\t786\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4a79d7723bebd8666efab"},"refKey":42},
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{"_key":"60c4a8407723bebd8666f0dd","_id":"references/60c4a8407723bebd8666f0dd","_rev":"_cfFlZpy---","tei":"\n\t\n\t\tNanopolish: signal-level algorithms for MinION data\n\t\t\n\t\t\tJSimpson\n\t\t\n\t\t\n\t\t\n\t\n\tcited 2020 May 10\n\n","document":{"$oid":"60c4a8407723bebd8666f0d9"},"refKey":21},
{"_key":"60c4a8407723bebd8666f0de","_id":"references/60c4a8407723bebd8666f0de","_rev":"_cfFlZqC---","tei":"\n\t\n\t\tA dynamic nomenclature proposal for SARS-CoV-2 to assist genomic epidemiology\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tECHolmes\n\t\t\n\t\t\n\t\t\tVHill\n\t\t\n\t\t\n\t\t\tÁO'toole\n\t\t\n\t\t\n\t\t\tJTMccrone\n\t\t\n\t\t\n\t\t\tCRuis\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a8407723bebd8666f0d9"},"refKey":25},
{"_key":"60c4a8407723bebd8666f0df","_id":"references/60c4a8407723bebd8666f0df","_rev":"_cfFlZqS---","tei":"\n\t\n\t\tPangolin: Phylogenetic Assignment of Named Global Outbreak LINeages\n\t\t\n\t\t\tAO'toole\n\t\t\n\t\t\n\t\t\tJTMccrone\n\t\t\n\t\t\n\t\n\tcited 2020 Jun 18\n\n","document":{"$oid":"60c4a8407723bebd8666f0d9"},"refKey":27},
{"_key":"60c4a8407723bebd8666f0e0","_id":"references/60c4a8407723bebd8666f0e0","_rev":"_cfFlZqe---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\t10.1093/nar/gkf436\n\t\t12136088\n\t\tPMC135756\n\t\tark:/67375/HXZ-NRP1F2B9-4\n\t\t5EA93CBE48016E67AE51670E4623847EAB8A8265\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4a8407723bebd8666f0d9"},"refKey":28},
{"_key":"60c4a8407723bebd8666f0e1","_id":"references/60c4a8407723bebd8666f0e1","_rev":"_cfFlZqu---","tei":"\n\t\n\t\tBBMap short read aligner, and other bioinformatic tools\n\t\t\n\t\t\tBBushnell\n\t\t\n\t\t\n\t\t\n\t\n\tcited 2020 May 10\n\n","document":{"$oid":"60c4a8407723bebd8666f0d9"},"refKey":23},
{"_key":"60c4a86f7723bebd8666f100","_id":"references/60c4a86f7723bebd8666f100","_rev":"_cfFlZr----","tei":"\n\t\n\t\tMathematica\n\t\t\n\t\t\tWolframResearch\n\t\t\n\t\t\n\t\t\tI\n\t\t\n\t\t\n\t\t\t\n\t\t\tWolfram Research, Inc\n\t\t\n\t\n\n","document":{"$oid":"60c4a86f7723bebd8666f0ff"},"refKey":106},
{"_key":"60c4a8757723bebd8666f105","_id":"references/60c4a8757723bebd8666f105","_rev":"_cfFlZrK---","tei":"\n\t\n\t\t0: predicting stability changes upon mutation from the protein sequence or structure\n\t\t\n\t\t\tECapriotti\n\t\t\n\t\t\n\t\t\tPFariselli\n\t\t\n\t\t\n\t\t\tRCasadio\n\t\t\n\t\t\n\t\t\tI-Mutant2\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t33\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a8757723bebd8666f104"},"refKey":10},
{"_key":"60c4a8757723bebd8666f106","_id":"references/60c4a8757723bebd8666f106","_rev":"_cfFlZrW---","tei":"\n\t\n\t\tDynaMut: predicting the impact of mutations on protein conformation, flexibility and stability\n\t\t\n\t\t\tCHRodrigues\n\t\t\n\t\t\n\t\t\tDEPires\n\t\t\n\t\t\n\t\t\tDBAscher\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a8757723bebd8666f104"},"refKey":12},
{"_key":"60c4a8757723bebd8666f107","_id":"references/60c4a8757723bebd8666f107","_rev":"_cfFlZri---","tei":"\n\t\n\t\tBioEdit: an important software for molecular biology\n\t\t\n\t\t\tTHall\n\t\t\n\t\t\n\t\t\tIBiosciences\n\t\t\n\t\t\n\t\t\tCCarlsbad\n\t\t\n\t\n\t\n\t\tGERF Bull Biosci\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a8757723bebd8666f104"},"refKey":8},
{"_key":"60c4a8b37723bebd8666f137","_id":"references/60c4a8b37723bebd8666f137","_rev":"_cfFlZry---","tei":"\n\t\n\t\tPLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses\n\t\t\n\t\t\tShaunPurcell\n\t\t\n\t\t\n\t\t\tBenjaminNeale\n\t\t\n\t\t\n\t\t\tKatheTodd-Brown\n\t\t\n\t\t\n\t\t\tLoriThomas\n\t\t\n\t\t\n\t\t\tManuelA RFerreira\n\t\t\n\t\t\n\t\t\tDavidBender\n\t\t\n\t\t\n\t\t\tJulianMaller\n\t\t\n\t\t\n\t\t\tPamelaSklar\n\t\t\n\t\t\n\t\t\tPaulI WDe Bakker\n\t\t\n\t\t\n\t\t\tMarkJDaly\n\t\t\n\t\t\n\t\t\tPakCSham\n\t\t\n\t\t10.1086/519795\n\t\t17701901\n\t\tPMC1950838\n\t\t\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":111},
{"_key":"60c4a8b37723bebd8666f138","_id":"references/60c4a8b37723bebd8666f138","_rev":"_cfFlZs----","tei":"\n\t\n\t\tmicropan: an R-package for microbial pan-genomics\n\t\t\n\t\t\tLarsSnipen\n\t\t\n\t\t\n\t\t\tKristianHovdeLiland\n\t\t\n\t\t10.1186/s12859-015-0517-0\n\t\t25888166\n\t\tPMC4375852\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":91},
{"_key":"60c4a8b37723bebd8666f139","_id":"references/60c4a8b37723bebd8666f139","_rev":"_cfFlZsK---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\n\t\n\t\tCore Team R\n\t\t\n\t\t\t\n\t\t\n\t\n\tVienna: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":92},
{"_key":"60c4a8b37723bebd8666f13a","_id":"references/60c4a8b37723bebd8666f13a","_rev":"_cfFlZsW---","tei":"\n\t\n\t\tScaffolding pre-assembled contigs using SSPACE\n\t\t\n\t\t\tMartenBoetzer\n\t\t\n\t\t\n\t\t\tChristiaanVHenkel\n\t\t\n\t\t\n\t\t\tHansJJansen\n\t\t\n\t\t\n\t\t\tDerekButler\n\t\t\n\t\t\n\t\t\tWalterPirovano\n\t\t\n\t\t10.1093/bioinformatics/btq683\n\t\t21149342\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":85},
{"_key":"60c4a8b37723bebd8666f13b","_id":"references/60c4a8b37723bebd8666f13b","_rev":"_cfFlZsi---","tei":"\n\t\n\t\tKalign2: high-performance multiple alignment of protein and nucleotide sequences allowing external features\n\t\t\n\t\t\tTimoLassmann\n\t\t\n\t\t\n\t\t\tOliverFrings\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1093/nar/gkn1006\n\t\t19103665\n\t\tPMC2647288\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":93},
{"_key":"60c4a8b37723bebd8666f13c","_id":"references/60c4a8b37723bebd8666f13c","_rev":"_cfFlZsu---","tei":"\n\t\n\t\tFastsimcoal: a continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios\n\t\t\n\t\t\tLExcoffier\n\t\t\n\t\t\n\t\t\tMFoll\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":45},
{"_key":"60c4a8b37723bebd8666f13d","_id":"references/60c4a8b37723bebd8666f13d","_rev":"_cfFlZs6---","tei":"\n\t\n\t\tRobust Demographic Inference from Genomic and SNP Data\n\t\t\n\t\t\tLaurentExcoffier\n\t\t\n\t\t\n\t\t\tIsabelleDupanloup\n\t\t\n\t\t\n\t\t\tEmiliaHuerta-Sánchez\n\t\t\n\t\t\n\t\t\tVitorCSousa\n\t\t\n\t\t\n\t\t\tMatthieuFoll\n\t\t\n\t\t10.1371/journal.pgen.1003905\n\t\t24204310\n\t\tPMC3812088\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS Genetics\n\t\tPLoS Genet\n\t\t1553-7404\n\t\t\n\t\t\t9\n\t\t\t10\n\t\t\te1003905\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":47},
{"_key":"60c4a8b37723bebd8666f13e","_id":"references/60c4a8b37723bebd8666f13e","_rev":"_cfFlZtG---","tei":"\n\t\n\t\tProdigal: prokaryotic gene recognition and translation initiation site identification\n\t\t\n\t\t\tDougHyatt\n\t\t\n\t\t\n\t\t\tGwo-LiangChen\n\t\t\n\t\t\n\t\t\tPhilipFLocascio\n\t\t\n\t\t\n\t\t\tMiriamLLand\n\t\t\n\t\t\n\t\t\tFrankWLarimer\n\t\t\n\t\t\n\t\t\tLorenJHauser\n\t\t\n\t\t10.1186/1471-2105-11-119\n\t\t20211023\n\t\tPMC2848648\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t119\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":88},
{"_key":"60c4a8b37723bebd8666f13f","_id":"references/60c4a8b37723bebd8666f13f","_rev":"_cfFlZtW---","tei":"\n\t\n\t\tA De-Novo Genome Analysis Pipeline (DeNoGAP) for large-scale comparative prokaryotic genomics studies\n\t\t\n\t\t\tShalabhThakur\n\t\t\n\t\t\n\t\t\tDavidSGuttman\n\t\t\t0000-0001-8479-3869\n\t\t\n\t\t10.1186/s12859-016-1142-2\n\t\t27363390\n\t\tPMC4929753\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":40},
{"_key":"60c4a8b37723bebd8666f140","_id":"references/60c4a8b37723bebd8666f140","_rev":"_cfFlZtm---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":78},
{"_key":"60c4a8b37723bebd8666f141","_id":"references/60c4a8b37723bebd8666f141","_rev":"_cfFlZu----","tei":"\n\t\n\t\tImproved scoring of functional groups from gene expression data by decorrelating GO graph structure\n\t\t\n\t\t\tAlexaARahnenfuhrer\n\t\t\n\t\t\n\t\t\tJLengauer\n\t\t\n\t\t\n\t\t\tT\n\t\t\n\t\t10.1093/bioinformatics/btl140\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":52},
{"_key":"60c4a8b37723bebd8666f142","_id":"references/60c4a8b37723bebd8666f142","_rev":"_cfFlZuS---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":83},
{"_key":"60c4a8b37723bebd8666f143","_id":"references/60c4a8b37723bebd8666f143","_rev":"_cfFlZui---","tei":"\n\t\n\t\tGapFiller: a de novo assembly approach to fill the gap within paired reads\n\t\t\n\t\t\tFrancescaNadalin\n\t\t\n\t\t\n\t\t\tFrancescoVezzi\n\t\t\n\t\t\n\t\t\tAlbertoPolicriti\n\t\t\n\t\t10.1186/1471-2105-13-s14-s8\n\t\t23095524\n\t\tPMC3439727\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\tS14\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":86},
{"_key":"60c4a8b37723bebd8666f144","_id":"references/60c4a8b37723bebd8666f144","_rev":"_cfFlZuu---","tei":"\n\t\n\t\tPoppr: an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction\n\t\t\n\t\t\tZhianNKamvar\n\t\t\n\t\t\n\t\t\tJavierFTabima\n\t\t\n\t\t\n\t\t\tNiklausJGrünwald\n\t\t\n\t\t10.7717/peerj.281\n\t\t24688859\n\t\tPMC3961149\n\t\t\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t2\n\t\t\te281\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c4a8b37723bebd8666f136"},"refKey":110},
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{"_key":"60c4acb37723bebd8666f42f","_id":"references/60c4acb37723bebd8666f42f","_rev":"_cfFlZ36---","tei":"\n\t\n\t\tERRATUM: “MODULES FOR EXPERIMENTS IN STELLAR ASTROPHYSICS (MESA): BINARIES, PULSATIONS, AND EXPLOSIONS” (2015, ApJS, 220, 15)\n\t\t\n\t\t\tBillPaxton\n\t\t\n\t\t\n\t\t\tPabloMarchant\n\t\t\n\t\t\n\t\t\tJosiahSchwab\n\t\t\n\t\t\n\t\t\tEvanBBauer\n\t\t\n\t\t\n\t\t\tLarsBildsten\n\t\t\n\t\t\n\t\t\tMatteoCantiello\n\t\t\n\t\t\n\t\t\tLucDessart\n\t\t\n\t\t\n\t\t\tRFarmer\n\t\t\n\t\t\n\t\t\tHHu\n\t\t\n\t\t\n\t\t\tNLanger\n\t\t\n\t\t\n\t\t\tRH DTownsend\n\t\t\n\t\t\n\t\t\tDeanMTownsley\n\t\t\n\t\t\n\t\t\tFXTimmes\n\t\t\n\t\t10.3847/0067-0049/223/1/18\n\t\n\t\n\t\tThe Astrophysical Journal Supplement Series\n\t\tApJS\n\t\t1538-4365\n\t\t\n\t\t\t223\n\t\t\t1\n\t\t\t18\n\t\t\t\n\t\t\tAmerican Astronomical Society\n\t\t\n\t\n\n","document":{"$oid":"60c4acb37723bebd8666f42c"},"refKey":25},
{"_key":"60c4acb37723bebd8666f430","_id":"references/60c4acb37723bebd8666f430","_rev":"_cfFlZ4C---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tBPaxton\n\t\t\n\t\t\n\t\t\tJSchwab\n\t\t\n\t\t\n\t\t\tEBBauer\n\t\t\n\t\n\t\n\t\tThe Astrophysical Journal Supplement Series\n\t\t\n\t\t\t234\n\t\t\t34\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4acb37723bebd8666f42c"},"refKey":26},
{"_key":"60c4acb37723bebd8666f431","_id":"references/60c4acb37723bebd8666f431","_rev":"_cfFlZ4O---","tei":"\n\t\n\t\tModules for Experiments in Stellar Astrophysics (MESA): Pulsating Variable Stars, Rotation, Convective Boundaries, and Energy Conservation\n\t\t\n\t\t\tBillPaxton\n\t\t\n\t\t\n\t\t\tRSmolec\n\t\t\t0000-0001-7217-4884\n\t\t\n\t\t\n\t\t\tJosiahSchwab\n\t\t\t0000-0002-4870-8855\n\t\t\n\t\t\n\t\t\tAGautschy\n\t\t\n\t\t\n\t\t\tLarsBildsten\n\t\t\n\t\t\n\t\t\tMatteoCantiello\n\t\t\t0000-0002-8171-8596\n\t\t\n\t\t\n\t\t\tAaronDotter\n\t\t\t0000-0002-4442-5700\n\t\t\n\t\t\n\t\t\tRFarmer\n\t\t\t0000-0003-3441-7624\n\t\t\n\t\t\n\t\t\tJaredAGoldberg\n\t\t\t0000-0003-1012-3031\n\t\t\n\t\t\n\t\t\tAdamSJermyn\n\t\t\t0000-0001-5048-9973\n\t\t\n\t\t\n\t\t\tSMKanbur\n\t\t\n\t\t\n\t\t\tPabloMarchant\n\t\t\t0000-0002-0338-8181\n\t\t\n\t\t\n\t\t\tAnneThoul\n\t\t\t0000-0002-8107-118X\n\t\t\n\t\t\n\t\t\tRichardH DTownsend\n\t\t\t0000-0002-2522-8605\n\t\t\n\t\t\n\t\t\tWilliamMWolf\n\t\t\t0000-0002-6828-0630\n\t\t\n\t\t\n\t\t\tMichaelZhang\n\t\t\t0000-0002-0659-1783\n\t\t\n\t\t\n\t\t\tFXTimmes\n\t\t\t0000-0002-0474-159X\n\t\t\n\t\t10.3847/1538-4365/ab2241\n\t\n\t\n\t\tThe Astrophysical Journal Supplement Series\n\t\tApJS\n\t\t1538-4365\n\t\t\n\t\t\t243\n\t\t\t1\n\t\t\t10\n\t\t\t\n\t\t\tAmerican Astronomical Society\n\t\t\n\t\n\n","document":{"$oid":"60c4acb37723bebd8666f42c"},"refKey":27},
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{"_key":"60c4acd77723bebd8666f450","_id":"references/60c4acd77723bebd8666f450","_rev":"_cfFlZ4i---","tei":"\n\t\n\t\tPosterior summarization in Bayesian phylogenetics using Tracer 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t67\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4acd77723bebd8666f44f"},"refKey":11},
{"_key":"60c4acd77723bebd8666f451","_id":"references/60c4acd77723bebd8666f451","_rev":"_cfFlZ4u---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4acd77723bebd8666f44f"},"refKey":5},
{"_key":"60c4acd77723bebd8666f452","_id":"references/60c4acd77723bebd8666f452","_rev":"_cfFlZ46---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4acd77723bebd8666f44f"},"refKey":7},
{"_key":"60c4acde7723bebd8666f45b","_id":"references/60c4acde7723bebd8666f45b","_rev":"_cfFlZ5C---","tei":"\n\t\n\t\tVersion 5.3: The Nordic Cochrane Centre, The Cochrane Collaboration\n\t\n\t\n\t\tReview Manager (RevMan)\n\t\t\n\t\t\t\n\t\t\n\t\n\tcomputer program\n\n","document":{"$oid":"60c4acde7723bebd8666f45a"},"refKey":22},
{"_key":"60c4acf67723bebd8666f465","_id":"references/60c4acf67723bebd8666f465","_rev":"_cfFlZ5O---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tDeLano Scientific\n\t\t\tSan Carlos, CA, USA\n\t\t\n\t\n\n","document":{"$oid":"60c4acf67723bebd8666f464"},"refKey":51},
{"_key":"60c4acf67723bebd8666f466","_id":"references/60c4acf67723bebd8666f466","_rev":"_cfFlZ5a---","tei":"\n\t\n\t\tPhaser crystallographic software\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4acf67723bebd8666f464"},"refKey":45},
{"_key":"60c4acf67723bebd8666f467","_id":"references/60c4acf67723bebd8666f467","_rev":"_cfFlZ5m---","tei":"\n\t\n\t\teMovie: a storyboard-based tool for making molecular movies\n\t\t\n\t\t\tEranHodis\n\t\t\n\t\t\n\t\t\tGideonSchreiber\n\t\t\n\t\t\n\t\t\tKristianRother\n\t\t\n\t\t\n\t\t\tJoelLSussman\n\t\t\n\t\t10.1016/j.tibs.2007.03.008\n\t\t17448663\n\t\n\t\n\t\tTrends in Biochemical Sciences\n\t\tTrends in Biochemical Sciences\n\t\t0968-0004\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4acf67723bebd8666f464"},"refKey":52},
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{"_key":"60c4ad027723bebd8666f470","_id":"references/60c4ad027723bebd8666f470","_rev":"_cfFlZ56---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4ad027723bebd8666f46e"},"refKey":20},
{"_key":"60c4ad027723bebd8666f471","_id":"references/60c4ad027723bebd8666f471","_rev":"_cfFlZ6G---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4ad027723bebd8666f46e"},"refKey":17},
{"_key":"60c4ad027723bebd8666f472","_id":"references/60c4ad027723bebd8666f472","_rev":"_cfFlZ6S---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis (MEGA) for macOS\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tRusso C, ed\n\t\t\n\t\n\n","document":{"$oid":"60c4ad027723bebd8666f46e"},"refKey":18},
{"_key":"60c4ad0b7723bebd8666f484","_id":"references/60c4ad0b7723bebd8666f484","_rev":"_cfFlZ6e---","tei":"\n\t\n\t\tPreliminary bioinformatics studies on the design of a synthetic vaccine and a preventative peptidomimetic antagonist against the SARS-CoV-2 (2019-nCoV, COVID-19) coronavirus\n\t\t\n\t\t\tBRobson\n\t\t\n\t\n\t\n\t\tComput. Biol. Med\n\t\t\n\t\t\t\n\t\t\n\t\n\tComputers and viral diseases\n\n","document":{"$oid":"60c4ad0b7723bebd8666f483"},"refKey":5},
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{"_key":"60c4ad5e7723bebd8666f4bd","_id":"references/60c4ad5e7723bebd8666f4bd","_rev":"_cfFlZ7C---","tei":"\n\t\n\t\tIQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tOChernomor\n\t\t\n\t\t\n\t\t\tDSchrempf\n\t\t\n\t\t\n\t\t\tMDWoodhams\n\t\t\n\t\t\n\t\t\tAHaeseler\n\t\t\n\t\t\n\t\t\tRLanfear\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t37\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ad5e7723bebd8666f4ba"},"refKey":30},
{"_key":"60c4ad5e7723bebd8666f4be","_id":"references/60c4ad5e7723bebd8666f4be","_rev":"_cfFlZ7W---","tei":"\n\t\n\t\tInferring evolutionary trees with PAUP*\n\t\t\n\t\t\tJCWilgenbusch\n\t\t\n\t\t\n\t\t\tDSwofford\n\t\t\n\t\n\t\n\t\tCurr Protoc Bioinformatics\n\t\t\n\t\t\t6\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ad5e7723bebd8666f4ba"},"refKey":32},
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{"_key":"60c4adb27723bebd8666f537","_id":"references/60c4adb27723bebd8666f537","_rev":"_cfFlZ9O---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4adb27723bebd8666f536"},"refKey":41},
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{"_key":"60c4af537723bebd8666f703","_id":"references/60c4af537723bebd8666f703","_rev":"_cfFlaFC---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4af537723bebd8666f702"},"refKey":44},
{"_key":"60c4af537723bebd8666f704","_id":"references/60c4af537723bebd8666f704","_rev":"_cfFlaFO---","tei":"\n\t\n\t\tVarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing\n\t\t\n\t\t\tDCKoboldt\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4af537723bebd8666f702"},"refKey":41},
{"_key":"60c4af537723bebd8666f705","_id":"references/60c4af537723bebd8666f705","_rev":"_cfFlaFa---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4af537723bebd8666f702"},"refKey":42},
{"_key":"60c4af537723bebd8666f706","_id":"references/60c4af537723bebd8666f706","_rev":"_cfFlaFm---","tei":"\n\t\n\t\tInteractive tree of life v2: online annotation and display of phylogenetic trees made easy\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4af537723bebd8666f702"},"refKey":45},
{"_key":"60c4af537723bebd8666f707","_id":"references/60c4af537723bebd8666f707","_rev":"_cfFlaFy---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4af537723bebd8666f702"},"refKey":46},
{"_key":"60c4af5e7723bebd8666f727","_id":"references/60c4af5e7723bebd8666f727","_rev":"_cfFlaG----","tei":"\n\t\n\t\tHDAC6 and Microtubules Are Required for Autophagic Degradation of Aggregated Huntingtin\n\t\t\n\t\t\tAtsushiIwata\n\t\t\n\t\t\n\t\t\tBrigitERiley\n\t\t\n\t\t\n\t\t\tJenniferAJohnston\n\t\t\n\t\t\n\t\t\tRonRKopito\n\t\t\n\t\t10.1074/jbc.m508786200\n\t\t16192271\n\t\t\n\t\n\t\n\t\tJournal of Biological Chemistry\n\t\tJ. Biol. Chem.\n\t\t0021-9258\n\t\t1083-351X\n\t\t\n\t\t\t280\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Biochemistry & Molecular Biology (ASBMB)\n\t\t\n\t\n\n","document":{"$oid":"60c4af5e7723bebd8666f726"},"refKey":13},
{"_key":"60c4afbc7723bebd8666f771","_id":"references/60c4afbc7723bebd8666f771","_rev":"_cfFlaGG---","tei":"\n\t\n\t\tPython: a programming language for software integration and development\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph. Model\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afbc7723bebd8666f770"},"refKey":16},
{"_key":"60c4afbc7723bebd8666f772","_id":"references/60c4afbc7723bebd8666f772","_rev":"_cfFlaGS---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afbc7723bebd8666f770"},"refKey":18},
{"_key":"60c4afbc7723bebd8666f773","_id":"references/60c4afbc7723bebd8666f773","_rev":"_cfFlaGi---","tei":"\n\t\n\t\tRoutine microsecond molecular dynamics simulations with AMBER on GPUs. 1. Generalized born\n\t\t\n\t\t\tAWG€ Otz\n\t\t\n\t\t\n\t\t\tMJWilliamson\n\t\t\n\t\t\n\t\t\tDXu\n\t\t\n\t\t\n\t\t\tDPoole\n\t\t\n\t\t\n\t\t\tSLeGrand\n\t\t\n\t\t\n\t\t\tRCWalker\n\t\t\n\t\n\t\n\t\tJ. Chem. Theor. Comput\n\t\t\n\t\t\t8\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afbc7723bebd8666f770"},"refKey":19},
{"_key":"60c4afbc7723bebd8666f774","_id":"references/60c4afbc7723bebd8666f774","_rev":"_cfFlaGu---","tei":"\n\t\n\t\tRoutine microsecond molecular dynamics simulations with AMBER on GPUs. 2. Explicit solvent particle mesh Ewald\n\t\t\n\t\t\tRSalomon-Ferrer\n\t\t\n\t\t\n\t\t\tAWG€ Otz\n\t\t\n\t\t\n\t\t\tDPoole\n\t\t\n\t\t\n\t\t\tSLeGrand\n\t\t\n\t\t\n\t\t\tRCWalker\n\t\t\n\t\n\t\n\t\tJ. Chem. Theor. Comput\n\t\t\n\t\t\t9\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afbc7723bebd8666f770"},"refKey":20},
{"_key":"60c4afbc7723bebd8666f775","_id":"references/60c4afbc7723bebd8666f775","_rev":"_cfFlaG6---","tei":"\n\t\n\t\tClustal W and clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afbc7723bebd8666f770"},"refKey":30},
{"_key":"60c4afbd7723bebd8666f788","_id":"references/60c4afbd7723bebd8666f788","_rev":"_cfFlaHC---","tei":"\n\t\n\t\tgSpan: graph-based substructure pattern mining\n\t\t\n\t\t\tXYan\n\t\t\n\t\t\n\t\t\tJHan\n\t\t\n\t\n\t\n\t\tProceedings of the IEEE International Conference on Data Mining\n\t\t\t\tthe IEEE International Conference on Data Mining\n\t\t\n\t\t\tIEEE Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afbd7723bebd8666f787"},"refKey":17},
{"_key":"60c4afbd7723bebd8666f789","_id":"references/60c4afbd7723bebd8666f789","_rev":"_cfFlaHO---","tei":"\n\t\n\t\tA quickstart in frequent structure mining can make a difference\n\t\t\n\t\t\tSiegfriedNijssen\n\t\t\n\t\t\n\t\t\tJoostNKok\n\t\t\n\t\t10.1145/1014052.1014134\n\t\n\t\n\t\tProceedings of the 2004 ACM SIGKDD international conference on Knowledge discovery and data mining - KDD '04\n\t\t\t\tthe 2004 ACM SIGKDD international conference on Knowledge discovery and data mining - KDD '04\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afbd7723bebd8666f787"},"refKey":10},
{"_key":"60c4afbd7723bebd8666f78a","_id":"references/60c4afbd7723bebd8666f78a","_rev":"_cfFlaHa---","tei":"\n\t\n\t\tgBoost: a mathematical programming approach to graph classification and regression\n\t\t\n\t\t\tHirotoSaigo\n\t\t\n\t\t\n\t\t\tSebastianNowozin\n\t\t\n\t\t\n\t\t\tTadashiKadowaki\n\t\t\n\t\t\n\t\t\tTakuKudo\n\t\t\n\t\t\n\t\t\tKojiTsuda\n\t\t\n\t\t10.1007/s10994-008-5089-z\n\t\tark:/67375/VQC-9SJNFFV6-G\n\t\t700B544DF6EBD8C2A1514B9AAF207B235598A1B2\n\t\t\n\t\t\n\t\n\t\n\t\tMachine Learning\n\t\tMach Learn\n\t\t0885-6125\n\t\t1573-0565\n\t\t\n\t\t\t75\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4afbd7723bebd8666f787"},"refKey":15},
{"_key":"60c4afec7723bebd8666f7a6","_id":"references/60c4afec7723bebd8666f7a6","_rev":"_cfFlaHm---","tei":"\n\t\n\t\tCOSMIC: mining complete cancer genomes in the Catalogue of Somatic Mutations in Cancer\n\t\t\n\t\t\tSAForbes\n\t\t\n\t\t\n\t\t\tNBindal\n\t\t\n\t\t\n\t\t\tSBamford\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afec7723bebd8666f7a5"},"refKey":10},
{"_key":"60c4afec7723bebd8666f7a7","_id":"references/60c4afec7723bebd8666f7a7","_rev":"_cfFlaHy---","tei":"\n\t\n\t\tdbSNP: the NCBI database of genetic variation\n\t\t\n\t\t\tSTSherry\n\t\t\n\t\t\n\t\t\tMHWard\n\t\t\n\t\t\n\t\t\tMKholodov\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afec7723bebd8666f7a5"},"refKey":9},
{"_key":"60c4afec7723bebd8666f7a8","_id":"references/60c4afec7723bebd8666f7a8","_rev":"_cfFlaI----","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afec7723bebd8666f7a5"},"refKey":6},
{"_key":"60c4afec7723bebd8666f7a9","_id":"references/60c4afec7723bebd8666f7a9","_rev":"_cfFlaIK---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afec7723bebd8666f7a5"},"refKey":7},
{"_key":"60c4afec7723bebd8666f7aa","_id":"references/60c4afec7723bebd8666f7aa","_rev":"_cfFlaIW---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly (Austin)\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4afec7723bebd8666f7a5"},"refKey":8},
{"_key":"60c4b00f7723bebd8666f7c7","_id":"references/60c4b00f7723bebd8666f7c7","_rev":"_cfFlaIi---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPVirtanen\n\t\t\n\t\t\n\t\t\tRGommers\n\t\t\n\t\t\n\t\t\tTEOliphant\n\t\t\n\t\t\n\t\t\tMHaberland\n\t\t\n\t\t\n\t\t\tTReddy\n\t\t\n\t\t\n\t\t\tDCournapeau\n\t\t\n\t\t\n\t\t\tEBurovski\n\t\t\n\t\t\n\t\t\tPPeterson\n\t\t\n\t\t\n\t\t\tWWeckesser\n\t\t\n\t\t\n\t\t\tJBright\n\t\t\n\t\t\n\t\t\tSJVan Der Walt\n\t\t\n\t\t\n\t\t\tMBrett\n\t\t\n\t\t\n\t\t\tJWilson\n\t\t\n\t\t\n\t\t\tKJarrodMillman\n\t\t\n\t\t\n\t\t\tNMayorov\n\t\t\n\t\t\n\t\t\tAR JNelson\n\t\t\n\t\t\n\t\t\tEJones\n\t\t\n\t\t\n\t\t\tRKern\n\t\t\n\t\t\n\t\t\tELarson\n\t\t\n\t\t\n\t\t\tCCarey\n\t\t\n\t\t\n\t\t\tİPolat\n\t\t\n\t\t\n\t\t\tYFeng\n\t\t\n\t\t\n\t\t\tEW\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b00f7723bebd8666f7c6"},"refKey":31},
{"_key":"60c4b00f7723bebd8666f7d0","_id":"references/60c4b00f7723bebd8666f7d0","_rev":"_cfFlaIu---","tei":"\n\t\n\t\tAdvances in pretraining distributed word representations\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\t\n\t\t\tEGrave\n\t\t\n\t\t\n\t\t\tPBojanowski\n\t\t\n\t\t\n\t\t\tCPuhrsch\n\t\t\n\t\t\n\t\t\tAJoulin\n\t\t\n\t\n\t\n\t\tProceedings of the International Conference on Language Resources and Evaluation\n\t\t\t\tthe International Conference on Language Resources and Evaluation\n\t\t\n\t\t\t\n\t\t\t2018\n\t\t\n\t\n\n","document":{"$oid":"60c4b00f7723bebd8666f7cf"},"refKey":8},
{"_key":"60c4b00f7723bebd8666f7d1","_id":"references/60c4b00f7723bebd8666f7d1","_rev":"_cfFlaI6---","tei":"\n\t\n\t\tGlove: Global vectors for word representation\n\t\t\n\t\t\tJPennington\n\t\t\n\t\t\n\t\t\tRSocher\n\t\t\n\t\t\n\t\t\tCManning\n\t\t\n\t\n\t\n\t\tProceedings of the 2014 conference on empirical methods in natural language processing\n\t\t\t\tthe 2014 conference on empirical methods in natural language processing\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b00f7723bebd8666f7cf"},"refKey":12},
{"_key":"60c4b00f7723bebd8666f7d2","_id":"references/60c4b00f7723bebd8666f7d2","_rev":"_cfFlaJG---","tei":"\n\t\n\t\t\n\t\t\tMEPeters\n\t\t\n\t\tarXiv:1802.05365\n\t\tDeep contextualized word representations\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c4b00f7723bebd8666f7cf"},"refKey":13},
{"_key":"60c4b00f7723bebd8666f7d3","_id":"references/60c4b00f7723bebd8666f7d3","_rev":"_cfFlaJS---","tei":"\n\t\n\t\t\n\t\t\tJDevlin\n\t\t\n\t\t\n\t\t\tMWChang\n\t\t\n\t\t\n\t\t\tKLee\n\t\t\n\t\t\n\t\t\tKToutanova\n\t\t\n\t\tarXiv:1810.04805\n\t\tBert: Pre-training of deep bidirectional transformers for language understanding\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c4b00f7723bebd8666f7cf"},"refKey":3},
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{"_key":"60c4b0b37723bebd8666f8b9","_id":"references/60c4b0b37723bebd8666f8b9","_rev":"_cfFlaNS---","tei":"\n\t\n\t\tggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tDavidKSmith\n\t\t\n\t\t\n\t\t\tHuachenZhu\n\t\t\n\t\t\n\t\t\tYiGuan\n\t\t\n\t\t\n\t\t\tTommy Tsan-YukLam\n\t\t\n\t\t10.1111/2041-210x.12628\n\t\t\n\t\n\t\n\t\tMethods in Ecology and Evolution\n\t\tMethods Ecol Evol\n\t\t2041-210X\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4b0b37723bebd8666f8b7"},"refKey":26},
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{"_key":"60c4b0b37723bebd8666f8bc","_id":"references/60c4b0b37723bebd8666f8bc","_rev":"_cfFlaN2---","tei":"\n\t\n\t\tLoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasets\n\t\t\n\t\t\tAndreasWilm\n\t\t\n\t\t\n\t\t\tPaulinePoh KimAw\n\t\t\n\t\t\n\t\t\tDenisBertrand\n\t\t\n\t\t\n\t\t\tGraceHui TingYeo\n\t\t\n\t\t\n\t\t\tSweeHoeOng\n\t\t\n\t\t\n\t\t\tChangHuaWong\n\t\t\n\t\t\n\t\t\tChieaChuenKhor\n\t\t\n\t\t\n\t\t\tRosemaryPetric\n\t\t\n\t\t\n\t\t\tMartinLloydHibberd\n\t\t\n\t\t\n\t\t\tNiranjanNagarajan\n\t\t\n\t\t10.1093/nar/gks918\n\t\t23066108\n\t\tPMC3526318\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4b0b37723bebd8666f8b7"},"refKey":22},
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{"_key":"60c4b1a87723bebd8666fa1b","_id":"references/60c4b1a87723bebd8666fa1b","_rev":"_cfFlaQ2---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4b1a87723bebd8666fa1a"},"refKey":26},
{"_key":"60c4b1c47723bebd8666fa25","_id":"references/60c4b1c47723bebd8666fa25","_rev":"_cfFlaRC---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4b1c47723bebd8666fa24"},"refKey":12},
{"_key":"60c4b1c47723bebd8666fa26","_id":"references/60c4b1c47723bebd8666fa26","_rev":"_cfFlaRO---","tei":"\n\t\n\t\tThe CLUSTAL _ X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b1c47723bebd8666fa24"},"refKey":30},
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{"_key":"60c4b20b7723bebd8666fa6f","_id":"references/60c4b20b7723bebd8666fa6f","_rev":"_cfFlaSW---","tei":"\n\t\n\t\tCheckpoint/restart approaches for a thread-based MPI runtime\n\t\t\n\t\t\tJulienAdam\n\t\t\n\t\t\n\t\t\tMaximeKermarquer\n\t\t\n\t\t\n\t\t\tJean-BaptisteBesnard\n\t\t\n\t\t\n\t\t\tLeonardoBautista-Gomez\n\t\t\n\t\t\n\t\t\tMarcPérache\n\t\t\n\t\t\n\t\t\tPatrickCarribault\n\t\t\n\t\t\n\t\t\tJulienJaeger\n\t\t\n\t\t\n\t\t\tAllenDMalony\n\t\t\n\t\t\n\t\t\tSameerShende\n\t\t\n\t\t10.1016/j.parco.2019.02.006\n\t\t\n\t\n\t\n\t\tParallel Computing\n\t\tParallel Computing\n\t\t0167-8191\n\t\t\n\t\t\t85\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4b20b7723bebd8666fa6d"},"refKey":1},
{"_key":"60c4b20b7723bebd8666fa70","_id":"references/60c4b20b7723bebd8666fa70","_rev":"_cfFlaSi---","tei":"\n\t\n\t\tSystem-Level Scalable Checkpoint-Restart for Petascale Computing\n\t\t\n\t\t\tJiajunCao\n\t\t\n\t\t\n\t\t\tKapilArya\n\t\t\n\t\t\n\t\t\tRohanGarg\n\t\t\n\t\t\n\t\t\tShawnMatott\n\t\t\n\t\t\n\t\t\tDhabaleswarKPanda\n\t\t\n\t\t\n\t\t\tHariSubramoni\n\t\t\n\t\t\n\t\t\tJeromeVienne\n\t\t\n\t\t\n\t\t\tGeneCooperman\n\t\t\n\t\t10.1109/icpads.2016.0125\n\t\t\n\t\n\t\n\t\t2016 IEEE 22nd International Conference on Parallel and Distributed Systems (ICPADS)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b20b7723bebd8666fa6d"},"refKey":9},
{"_key":"60c4b20b7723bebd8666fa71","_id":"references/60c4b20b7723bebd8666fa71","_rev":"_cfFlaSu---","tei":"\n\t\n\t\tBerkeley lab checkpoint/restart (BLCR) for Linux clusters\n\t\t\n\t\t\tPaulHHargrove\n\t\t\n\t\t\n\t\t\tJasonCDuell\n\t\t\n\t\t10.1088/1742-6596/46/1/067\n\t\tark:/67375/0T8-3ZXW43CW-C\n\t\tB7F8560350B56ACF2B82F474B96B1C897EF230E5\n\t\t\n\t\n\t\n\t\tJournal of Physics: Conference Series\n\t\tJ. Phys.: Conf. Ser.\n\t\t1742-6588\n\t\t1742-6596\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\tIOP Publishing\n\t\t\n\t\n\n","document":{"$oid":"60c4b20b7723bebd8666fa6d"},"refKey":14},
{"_key":"60c4b20b7723bebd8666fa72","_id":"references/60c4b20b7723bebd8666fa72","_rev":"_cfFlaS6---","tei":"\n\t\n\t\tA scalable and extensible checkpointing scheme for massively parallel simulations\n\t\t\n\t\t\tNilsKohl\n\t\t\n\t\t\n\t\t\tJohannesHötzer\n\t\t\n\t\t\n\t\t\tFlorianSchornbaum\n\t\t\n\t\t\n\t\t\tMartinBauer\n\t\t\n\t\t\n\t\t\tChristianGodenschwager\n\t\t\t0000-0002-2794-9510\n\t\t\n\t\t\n\t\t\tHaraldKöstler\n\t\t\n\t\t\n\t\t\tBrittaNestler\n\t\t\n\t\t\n\t\t\tUlrichRüde\n\t\t\n\t\t10.1177/1094342018767736\n\t\t\n\t\n\t\n\t\tThe International Journal of High Performance Computing Applications\n\t\tThe International Journal of High Performance Computing Applications\n\t\t1094-3420\n\t\t1741-2846\n\t\t\n\t\t\t33\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c4b20b7723bebd8666fa6d"},"refKey":19},
{"_key":"60c4b20b7723bebd8666fa73","_id":"references/60c4b20b7723bebd8666fa73","_rev":"_cfFlaTG---","tei":"\n\t\n\t\tThe Lam/Mpi Checkpoint/Restart Framework: System-Initiated Checkpointing\n\t\t\n\t\t\tSriramSankaran\n\t\t\n\t\t\n\t\t\tJeffreyMSquyres\n\t\t\n\t\t\n\t\t\tBrianBarrett\n\t\t\n\t\t\n\t\t\tVishalSahay\n\t\t\n\t\t\n\t\t\tAndrewLumsdaine\n\t\t\n\t\t\n\t\t\tJasonDuell\n\t\t\n\t\t\n\t\t\tPaulHargrove\n\t\t\n\t\t\n\t\t\tEricRoman\n\t\t\n\t\t10.1177/1094342005056139\n\t\tark:/67375/M70-3C3R53RJ-M\n\t\t419E113EDFB2466DD9516CF6FC8D43EB59413B32\n\t\n\t\n\t\tThe International Journal of High Performance Computing Applications\n\t\tThe International Journal of High Performance Computing Applications\n\t\t1094-3420\n\t\t1741-2846\n\t\t\n\t\t\t19\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c4b20b7723bebd8666fa6d"},"refKey":26},
{"_key":"60c4b20b7723bebd8666fa74","_id":"references/60c4b20b7723bebd8666fa74","_rev":"_cfFlaTS---","tei":"\n\t\n\t\tUnified fault-tolerance framework for hybrid task-parallel message-passing applications\n\t\t\n\t\t\tOmerSubasi\n\t\t\n\t\t\n\t\t\tTatianaMartsinkevich\n\t\t\n\t\t\n\t\t\tFeradZyulkyarov\n\t\t\n\t\t\n\t\t\tOsmanUnsal\n\t\t\n\t\t\n\t\t\tJesusLabarta\n\t\t\n\t\t\n\t\t\tFranckCappello\n\t\t\n\t\t10.1177/1094342016669416\n\t\t\n\t\n\t\n\t\tThe International Journal of High Performance Computing Applications\n\t\tThe International Journal of High Performance Computing Applications\n\t\t1094-3420\n\t\t1741-2846\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c4b20b7723bebd8666fa6d"},"refKey":28},
{"_key":"60c4b20b7723bebd8666fa75","_id":"references/60c4b20b7723bebd8666fa75","_rev":"_cfFlaTa---","tei":"\n\t\n\t\tA Fault-Tolerant Framework for Asynchronous Iterative Computations in Cloud Environments\n\t\t\n\t\t\tZhigangWang\n\t\t\n\t\t\n\t\t\tLixinGao\n\t\t\n\t\t\n\t\t\tYuGu\n\t\t\n\t\t\n\t\t\tYubinBao\n\t\t\n\t\t\n\t\t\tGeYu\n\t\t\n\t\t10.1145/2987550.2987552\n\t\n\t\n\t\tProceedings of the Seventh ACM Symposium on Cloud Computing - SoCC '16\n\t\t\t\tthe Seventh ACM Symposium on Cloud Computing - SoCC '16\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b20b7723bebd8666fa6d"},"refKey":31},
{"_key":"60c4b2207723bebd8666fa93","_id":"references/60c4b2207723bebd8666fa93","_rev":"_cfFlaTm---","tei":"\n\t\n\t\tESEfinder: a web resource to identify exonic splicing enhancers\n\t\t\n\t\t\tLCartegni\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tZZhu\n\t\t\n\t\t\n\t\t\tMQZhang\n\t\t\n\t\t\n\t\t\tARKrainer\n\t\t\n\t\t10.1093/nar/gkg616\n\t\t12824367\n\t\tPMC169022\n\t\tark:/67375/HXZ-L6Z9KM2L-G\n\t\t2E5754B881EBD6C50CAF852BF3AE3C2FC8288AD8\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4b2207723bebd8666fa92"},"refKey":75},
{"_key":"60c4b2207723bebd8666fa94","_id":"references/60c4b2207723bebd8666fa94","_rev":"_cfFlaTy---","tei":"\n\t\n\t\tAn increased specificity score matrix for the prediction of SF2/ASF-specific exonic splicing enhancers\n\t\t\n\t\t\tPhilipJSmith\n\t\t\n\t\t\n\t\t\tChaolinZhang\n\t\t\n\t\t\n\t\t\tJinhuaWang\n\t\t\n\t\t\n\t\t\tShernLChew\n\t\t\n\t\t\n\t\t\tMichaelQZhang\n\t\t\n\t\t\n\t\t\tAdrianRKrainer\n\t\t\n\t\t10.1093/hmg/ddl171\n\t\t16825284\n\t\t\n\t\t\n\t\n\t\n\t\tHuman Molecular Genetics\n\t\t0964-6906\n\t\t1460-2083\n\t\t\n\t\t\t15\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4b2207723bebd8666fa92"},"refKey":76},
{"_key":"60c4b2207723bebd8666fa95","_id":"references/60c4b2207723bebd8666fa95","_rev":"_cfFlaU----","tei":"\n\t\n\t\tPredictive Identification of Exonic Splicing Enhancers in Human Genes\n\t\t\n\t\t\tWGFairbrother\n\t\t\n\t\t\n\t\t\tRFYeh\n\t\t\n\t\t\n\t\t\tPASharp\n\t\t\n\t\t\n\t\t\tCBBurge\n\t\t\n\t\t10.1126/science.1073774\n\t\t12114529\n\t\t\n\t\t\n\t\n\t\n\t\tScience\n\t\t0036-8075\n\t\t1095-9203\n\t\t\n\t\t\t297\n\t\t\t5583\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c4b2207723bebd8666fa92"},"refKey":77},
{"_key":"60c4b2207723bebd8666fa96","_id":"references/60c4b2207723bebd8666fa96","_rev":"_cfFlaUK---","tei":"\n\t\n\t\tComparative Analysis Identifies Exonic Splicing Regulatory Sequences—The Complex Definition of Enhancers and Silencers\n\t\t\n\t\t\tAmirGoren\n\t\t\n\t\t\n\t\t\tOrenRam\n\t\t\n\t\t\n\t\t\tMaayanAmit\n\t\t\n\t\t\n\t\t\tHadasKeren\n\t\t\n\t\t\n\t\t\tGalitLev-Maor\n\t\t\n\t\t\n\t\t\tIdaVig\n\t\t\n\t\t\n\t\t\tTalPupko\n\t\t\n\t\t\n\t\t\tGilAst\n\t\t\n\t\t10.1016/j.molcel.2006.05.008\n\t\t16793546\n\t\t\n\t\n\t\n\t\tMolecular Cell\n\t\tMolecular Cell\n\t\t1097-2765\n\t\t\n\t\t\t22\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4b2207723bebd8666fa92"},"refKey":78},
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{"_key":"60c4b2e57723bebd8666fafa","_id":"references/60c4b2e57723bebd8666fafa","_rev":"_cfFlaVe---","tei":"\n\t\n\t\tThe InterPro database, an integrated documentation resource for protein families, domains and functional sites\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\t10.1093/nar/29.1.37\n\t\t11125043\n\t\tPMC29841\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4b2e57723bebd8666faf9"},"refKey":2},
{"_key":"60c4b2e57723bebd8666fafb","_id":"references/60c4b2e57723bebd8666fafb","_rev":"_cfFlaVq---","tei":"\n\t\n\t\tBayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tRemcoRBouckaert\n\t\t\n\t\t10.1017/cbo9781139095112.007\n\t\n\t\n\t\tBayesian Evolutionary Analysis with BEAST\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2007\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b2e57723bebd8666faf9"},"refKey":7},
{"_key":"60c4b2e57723bebd8666fafc","_id":"references/60c4b2e57723bebd8666fafc","_rev":"_cfFlaV2---","tei":"\n\t\n\t\tAssessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified\n\t\t\n\t\t\tTMKeane\n\t\t\n\t\t\n\t\t\tCJCreevey\n\t\t\n\t\t\n\t\t\tMMPentony\n\t\t\n\t\t\n\t\t\tTJNaughton\n\t\t\n\t\t\n\t\t\tJOMclnerney\n\t\t\n\t\n\t\n\t\tBMC Evol. Biol\n\t\t\n\t\t\t6\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b2e57723bebd8666faf9"},"refKey":17},
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{"_key":"60c4b2ee7723bebd8666fb11","_id":"references/60c4b2ee7723bebd8666fb11","_rev":"_cfFlaWO---","tei":"\n\t\n\t\tMaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification\n\t\t\n\t\t\tJürgenCox\n\t\t\n\t\t\n\t\t\tMatthiasMann\n\t\t\n\t\t10.1038/nbt.1511\n\t\t19029910\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t26\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4b2ee7723bebd8666fb10"},"refKey":52},
{"_key":"60c4b3477723bebd8666fb42","_id":"references/60c4b3477723bebd8666fb42","_rev":"_cfFlaWa---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 16. College Station (TX): StataCorp LLC\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b3477723bebd8666fb41"},"refKey":37},
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{"_key":"60c4b34c7723bebd8666fb48","_id":"references/60c4b34c7723bebd8666fb48","_rev":"_cfFlaWy---","tei":"\n\t\n\t\tVienna RNA secondary structure server\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t10.1093/nar/gkg599\n\t\t12824340\n\t\tPMC169005\n\t\tark:/67375/HXZ-HNC9HZWP-J\n\t\t8DDA80BB66A3C49E8D06B97FD478DF6F1B338419\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4b34c7723bebd8666fb47"},"refKey":8},
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{"_key":"60c4b3817723bebd8666fba9","_id":"references/60c4b3817723bebd8666fba9","_rev":"_cfFlaXu---","tei":"\n\t\n\t\t\n\t\t\tATBru ¨nger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tGMClore\n\t\t\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tPGros\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tJSJiang\n\t\t\n\t\t\n\t\t\tJKuszewski\n\t\t\n\t\t\n\t\t\tMNilges\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tLMRice\n\t\t\n\t\t\n\t\t\tTSimonson\n\t\t\n\t\t\n\t\t\tGLWarren\n\t\t\n\t\n\t\n\t\tCrystallography & NMR system: a new software suite for macromolecular structure determination\n\t\t\t\t\n\t\t\t\n\t\t\t54\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b3817723bebd8666fba8"},"refKey":5},
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{"_key":"60c4b4907723bebd8666fc35","_id":"references/60c4b4907723bebd8666fc35","_rev":"_cfFlaYa---","tei":"\n\t\n\t\tGIS-based multi-criteria evaluation to land suitability modelling for giant prawn (Macrobrachium rosenbergii) farming in Companigonj Upazila of Noakhali, Bangladesh\n\t\t\n\t\t\tMShahadatHossain\n\t\t\n\t\t\n\t\t\tNaniGopalDas\n\t\t\n\t\t10.1016/j.compag.2009.10.003\n\t\t\n\t\n\t\n\t\tComputers and Electronics in Agriculture\n\t\tComputers and Electronics in Agriculture\n\t\t0168-1699\n\t\t\n\t\t\t70\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4b4907723bebd8666fc34"},"refKey":7},
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{"_key":"60c4b49b7723bebd8666fc52","_id":"references/60c4b49b7723bebd8666fc52","_rev":"_cfFlaZK---","tei":"\n\t\n\t\tNetwork-based prediction of human tissue-specific metabolism\n\t\t\n\t\t\tTomerShlomi\n\t\t\n\t\t\n\t\t\tMoranNCabili\n\t\t\n\t\t\n\t\t\tMarkusJHerrgård\n\t\t\n\t\t\n\t\t\tBernhardØPalsson\n\t\t\n\t\t\n\t\t\tEytanRuppin\n\t\t\n\t\t10.1038/nbt.1487\n\t\t18711341\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t26\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4b49b7723bebd8666fc51"},"refKey":47},
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{"_key":"60c4b5817723bebd8666fd31","_id":"references/60c4b5817723bebd8666fd31","_rev":"_cfFlad6---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b5817723bebd8666fd2f"},"refKey":38},
{"_key":"60c4b5817723bebd8666fd32","_id":"references/60c4b5817723bebd8666fd32","_rev":"_cfFlaeC---","tei":"\n\t\n\t\tReply from Gordon B. Drummond and Brian D. M. Tom\n\t\t\n\t\t\tGordonBDrummond\n\t\t\n\t\t\n\t\t\tBrianD MTom\n\t\t\n\t\t10.1113/expphysiol.2011.061598\n\t\t\n\t\n\t\n\t\tExperimental Physiology\n\t\t0958-0670\n\t\t\n\t\t\t96\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tGeneious pro v5. 5.6\n\n","document":{"$oid":"60c4b5817723bebd8666fd2f"},"refKey":37},
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{"_key":"60c4b5817723bebd8666fd34","_id":"references/60c4b5817723bebd8666fd34","_rev":"_cfFlaea---","tei":"\n\t\n\t\tA hidden markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tProc Int Conf Intell Syst Mol Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b5817723bebd8666fd2f"},"refKey":30},
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{"_key":"60c4b5c77723bebd8666fd82","_id":"references/60c4b5c77723bebd8666fd82","_rev":"_cfFlagS---","tei":"\n\t\n\t\tPrediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence\n\t\t\n\t\t\tNikolajBlom\n\t\t\n\t\t\n\t\t\tThomasSicheritz-Pontén\n\t\t\n\t\t\n\t\t\tRamneekGupta\n\t\t\n\t\t\n\t\t\tSteenGammeltoft\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t10.1002/pmic.200300771\n\t\t15174133\n\t\tark:/67375/WNG-HD5ZNZ2S-G\n\t\t2FC5878BEFE279DA3613D377D3C9BC82A545F1BB\n\t\n\t\n\t\tPROTEOMICS\n\t\tPROTEOMICS\n\t\t1615-9853\n\t\t1615-9861\n\t\t\n\t\t\t4\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4b5c77723bebd8666fd7e"},"refKey":61},
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{"_key":"60c4b69f7723bebd8666fe6d","_id":"references/60c4b69f7723bebd8666fe6d","_rev":"_cfFlaji---","tei":"\n\t\n\t\tProphage Finder: a prophage loci prediction tool for prokaryotic genome sequences\n\t\t\n\t\t\tMBose\n\t\t\n\t\t\n\t\t\tRDBarber\n\t\t\n\t\n\t\n\t\tIn Silico Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b69f7723bebd8666fe6a"},"refKey":45},
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{"_key":"60c4b69f7723bebd8666fe70","_id":"references/60c4b69f7723bebd8666fe70","_rev":"_cfFlakG---","tei":"\n\t\n\t\tPILER-CR: Fast and accurate identification of CRISPR repeats\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t10.1186/1471-2105-8-18\n\t\t17239253\n\t\tPMC1790904\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t18\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4b69f7723bebd8666fe6a"},"refKey":47},
{"_key":"60c4b69f7723bebd8666fe71","_id":"references/60c4b69f7723bebd8666fe71","_rev":"_cfFlakS---","tei":"\n\t\n\t\tTICO: a tool for improving predictions of prokaryotic translation initiation sites\n\t\t\n\t\t\tMTech\n\t\t\n\t\t\n\t\t\tNPfeifer\n\t\t\n\t\t\n\t\t\tBMorgenstern\n\t\t\n\t\t\n\t\t\tPMeinicke\n\t\t\n\t\t10.1093/bioinformatics/bti563\n\t\t15994191\n\t\tark:/67375/HXZ-Z8J91RPN-5\n\t\tA39015C8719A5C4C64AAB6CE6AD9565EAD850C32\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4b69f7723bebd8666fe6a"},"refKey":39},
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{"_key":"60c4b7627723bebd8666ff12","_id":"references/60c4b7627723bebd8666ff12","_rev":"_cfFlame---","tei":"\n\t\n\t\tZero-shot learning with generative latent prototype model\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tDWang\n\t\t\n\t\tarXiv:1705.09474\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c4b7627723bebd8666ff10"},"refKey":90},
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{"_key":"60c4b7627723bebd8666ff17","_id":"references/60c4b7627723bebd8666ff17","_rev":"_cfFlanW---","tei":"\n\t\n\t\tA Generative Adversarial Approach for Zero-Shot Learning from Noisy Texts\n\t\t\n\t\t\tYizheZhu\n\t\t\n\t\t\n\t\t\tMohamedElhoseiny\n\t\t\n\t\t\n\t\t\tBingchenLiu\n\t\t\n\t\t\n\t\t\tXiPeng\n\t\t\n\t\t\n\t\t\tAhmedElgammal\n\t\t\n\t\t10.1109/cvpr.2018.00111\n\t\t\n\t\t\n\t\n\t\n\t\t2018 IEEE/CVF Conference on Computer Vision and Pattern Recognition\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b7627723bebd8666ff10"},"refKey":211},
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{"_key":"60c4b9017723bebd86670052","_id":"references/60c4b9017723bebd86670052","_rev":"_cfFlasi---","tei":"\n\t\n\t\teBURST: Inferring Patterns of Evolutionary Descent among Clusters of Related Bacterial Genotypes from Multilocus Sequence Typing Data\n\t\t\n\t\t\tEJFeil\n\t\t\n\t\t\n\t\t\tBCLi\n\t\t\n\t\t\n\t\t\tDMAanensen\n\t\t\n\t\t\n\t\t\tWPHanage\n\t\t\n\t\t\n\t\t\tBGSpratt\n\t\t\n\t\n\t\n\t\tJournal of Bacteriology\n\t\t\n\t\t\t186\n\t\t\t1518\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b9017723bebd86670050"},"refKey":14},
{"_key":"60c4b9017723bebd86670053","_id":"references/60c4b9017723bebd86670053","_rev":"_cfFlasu---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b9017723bebd86670050"},"refKey":22},
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{"_key":"60c4b9107723bebd86670070","_id":"references/60c4b9107723bebd86670070","_rev":"_cfFlatW---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b9107723bebd8667006e"},"refKey":25},
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{"_key":"60c4b9d27723bebd86670104","_id":"references/60c4b9d27723bebd86670104","_rev":"_cfFlavu---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: a MapReduce framework for analyzing nextgeneration DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tASivachenko\n\t\t\n\t\t\n\t\t\tKCibulskis\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4b9d27723bebd86670102"},"refKey":41},
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{"_key":"60c4b9fb7723bebd86670141","_id":"references/60c4b9fb7723bebd86670141","_rev":"_cfFlawe---","tei":"\n\t\n\t\tCapture-recapture and removal methods for sampling closed populations\n\t\t\n\t\t\tGCWhite\n\t\t\n\t\t\n\t\t\tDRAnderson\n\t\t\n\t\t\n\t\t\tKPBornham\n\t\t\n\t\t\n\t\t\tDLOtis\n\t\t\n\t\t\n\t\t\t\n\t\t\tLos Alamos, New Mexico\n\t\t\n\t\t\n\t\t\tLos Alamos National Laboratory, LA-8787-NERP\n\t\t\n\t\n\n","document":{"$oid":"60c4b9fb7723bebd86670140"},"refKey":28},
{"_key":"60c4ba377723bebd86670171","_id":"references/60c4ba377723bebd86670171","_rev":"_cfFlawq---","tei":"\n\t\n\t\tColonyArea: An ImageJ Plugin to Automatically Quantify Colony Formation in Clonogenic Assays. Rota R, editor\n\t\t\n\t\t\tCGuzmań\n\t\t\n\t\t\n\t\t\tMBagga\n\t\t\n\t\t\n\t\t\tAKaur\n\t\t\n\t\t\n\t\t\tJWestermarck\n\t\t\n\t\t\n\t\t\tDAbankwa\n\t\t\n\t\t10.1371/journal.pone.0092444\n\t\tdoi: 10.1371/ journal.pone.0092444\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\te92444\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ba377723bebd86670170"},"refKey":22},
{"_key":"60c4ba427723bebd8667017f","_id":"references/60c4ba427723bebd8667017f","_rev":"_cfFlaw2---","tei":"\n\t\n\t\tEconometric and statistical modeling with python\n\t\t\n\t\t\tSSeabold\n\t\t\n\t\t\n\t\t\tJPerktold\n\t\t\n\t\t\n\t\t\tStatsmodels\n\t\t\n\t\n\t\n\t\t9th Python in Science Conference\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ba427723bebd8667017e"},"refKey":28},
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{"_key":"60c4ba5c7723bebd86670189","_id":"references/60c4ba5c7723bebd86670189","_rev":"_cfFlaxK---","tei":"\n\t\n\t\tbbmle: Tools for general maximum likelihood estimation\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tTechnical report\n\tR Development Core Team and I. Giné-Vázquez. R package version 1.0.23.1\n\n","document":{"$oid":"60c4ba5c7723bebd86670188"},"refKey":2},
{"_key":"60c4ba7f7723bebd86670194","_id":"references/60c4ba7f7723bebd86670194","_rev":"_cfFlaxW---","tei":"\n\t\n\t\tMHC Ligands and Peptide Motifs\n\t\t\n\t\t\tHans-GeorgRammensee\n\t\t\n\t\t\n\t\t\tJuttaBachmann\n\t\t\n\t\t\n\t\t\tStefanStevanović\n\t\t\n\t\t10.1007/978-3-662-22162-4\n\t\n\t\n\t\tImmunogenetics\n\t\t1431-0414\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\n\t\n\n","document":{"$oid":"60c4ba7f7723bebd86670193"},"refKey":33},
{"_key":"60c4ba7f7723bebd86670195","_id":"references/60c4ba7f7723bebd86670195","_rev":"_cfFlaxi---","tei":"\n\t\n\t\tMHC ligands and peptide motifs: first listing\n\t\t\n\t\t\tHans-GeorgRammensee\n\t\t\n\t\t\n\t\t\tThomasFriede\n\t\t\n\t\t\n\t\t\tStefanStevanović\n\t\t\n\t\t10.1007/bf00172063\n\t\t7890324\n\t\tark:/67375/1BB-HM07KC23-N\n\t\t976AB4AAA42491B13C22BBEE723D29EDB9473880\n\t\n\t\n\t\tImmunogenetics\n\t\tImmunogenetics\n\t\t0093-7711\n\t\t1432-1211\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4ba7f7723bebd86670193"},"refKey":34},
{"_key":"60c4ba7f7723bebd86670196","_id":"references/60c4ba7f7723bebd86670196","_rev":"_cfFlaxu---","tei":"\n\t\n\t\tA Mathematical Framework for the Selection of an Optimal Set of Peptides for Epitope-Based Vaccines\n\t\t\n\t\t\tNoraCToussaint\n\t\t\n\t\t\n\t\t\tPierreDönnes\n\t\t\n\t\t\n\t\t\tOliverKohlbacher\n\t\t\n\t\t10.1371/journal.pcbi.1000246\n\t\t19112482\n\t\tPMC2588662\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t4\n\t\t\t12\n\t\t\te1000246\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c4ba7f7723bebd86670193"},"refKey":86},
{"_key":"60c4ba7f7723bebd86670197","_id":"references/60c4ba7f7723bebd86670197","_rev":"_cfFlax6---","tei":"\n\t\n\t\tOptiTope--a web server for the selection of an optimal set of peptides for epitope-based vaccines\n\t\t\n\t\t\tNCToussaint\n\t\t\n\t\t\n\t\t\tOKohlbacher\n\t\t\n\t\t10.1093/nar/gkp293\n\t\t19420066\n\t\tPMC2703925\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4ba7f7723bebd86670193"},"refKey":87},
{"_key":"60c4ba7f7723bebd86670198","_id":"references/60c4ba7f7723bebd86670198","_rev":"_cfFlayG---","tei":"\n\t\n\t\tCTL epitopes for influenza A including the H5N1 bird flu; genome-, pathogen-, and HLA-wide screening\n\t\t\n\t\t\tMingjunWang\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tMikkelHarndahl\n\t\t\n\t\t\n\t\t\tGustavRøder\n\t\t\n\t\t\n\t\t\tAnetteStryhn\n\t\t\n\t\t\n\t\t\tMetteVLarsen\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tSheilaTTang\n\t\t\n\t\t\n\t\t\tMortenHDziegiel\n\t\t\n\t\t\n\t\t\tJørgenRosenkvist\n\t\t\n\t\t\n\t\t\tAndersEPedersen\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t\n\t\t\tMogensHClaesson\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t10.1016/j.vaccine.2006.12.038\n\t\t17254671\n\t\n\t\n\t\tVaccine\n\t\tVaccine\n\t\t0264-410X\n\t\t\n\t\t\t25\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4ba7f7723bebd86670193"},"refKey":85},
{"_key":"60c4ba887723bebd866701a0","_id":"references/60c4ba887723bebd866701a0","_rev":"_cfFlayS---","tei":"\n\t\n\t\tEfficient and robust approximate nearest neighbor search using Hierarchical Navigable Small World graphs\n\t\t\n\t\t\tYuryAMalkov\n\t\t\n\t\t\n\t\t\tDmitryAYashunin\n\t\t\n\t\t10.1109/tpami.2018.2889473\n\t\t30602420\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Pattern Analysis and Machine Intelligence\n\t\tIEEE Trans. Pattern Anal. Mach. Intell.\n\t\t0162-8828\n\t\t1939-3539\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c4ba887723bebd8667019f"},"refKey":27},
{"_key":"60c4bb287723bebd866701c2","_id":"references/60c4bb287723bebd866701c2","_rev":"_cfFlaya---","tei":"\n\t\n\t\tBayesian phylogenetics with BEAUti and the BEAST 1.7\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bb287723bebd866701c1"},"refKey":21},
{"_key":"60c4bb287723bebd866701c3","_id":"references/60c4bb287723bebd866701c3","_rev":"_cfFlaym---","tei":"\n\t\n\t\tMEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bb287723bebd866701c1"},"refKey":20},
{"_key":"60c4bb647723bebd866701df","_id":"references/60c4bb647723bebd866701df","_rev":"_cfFlayy---","tei":"\n\t\n\t\tMolecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tMega5\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bb647723bebd866701de"},"refKey":52},
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{"_key":"60c4bb647723bebd866701e1","_id":"references/60c4bb647723bebd866701e1","_rev":"_cfFlazK---","tei":"\n\t\n\t\tA Metagenomic Analysis of Pandemic Influenza A (2009 H1N1) Infection in Patients from North America\n\t\t\n\t\t\tAlexanderLGreninger\n\t\t\n\t\t\n\t\t\tEuniceCChen\n\t\t\n\t\t\n\t\t\tTaylorSittler\n\t\t\n\t\t\n\t\t\tAlexScheinerman\n\t\t\n\t\t\n\t\t\tNaregRoubinian\n\t\t\n\t\t\n\t\t\tGuixiaYu\n\t\t\n\t\t\n\t\t\tEdwardKim\n\t\t\n\t\t\n\t\t\tDylanRPillai\n\t\t\n\t\t\n\t\t\tCyrilGuyard\n\t\t\n\t\t\n\t\t\tTonyMazzulli\n\t\t\n\t\t\n\t\t\tPavelIsa\n\t\t\n\t\t\n\t\t\tCarlosFArias\n\t\t\n\t\t\n\t\t\tJohnHackett\n\t\t\n\t\t\n\t\t\tGeraldSchochetman\n\t\t\n\t\t\n\t\t\tSteveMiller\n\t\t\n\t\t\n\t\t\tPatrickTang\n\t\t\n\t\t\n\t\t\tCharlesYChiu\n\t\t\n\t\t10.1371/journal.pone.0013381\n\t\t20976137\n\t\tPMC2956640\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t5\n\t\t\t10\n\t\t\te13381\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c4bb647723bebd866701de"},"refKey":37},
{"_key":"60c4bb647723bebd866701e2","_id":"references/60c4bb647723bebd866701e2","_rev":"_cfFlazW---","tei":"\n\t\n\t\tIn-Depth Investigation of Archival and Prospectively Collected Samples Reveals No Evidence for XMRV Infection in Prostate Cancer\n\t\t\n\t\t\tDeannaLee\n\t\t\n\t\t\n\t\t\tJaydipDas Gupta\n\t\t\n\t\t\n\t\t\tChristinaGaughan\n\t\t\n\t\t\n\t\t\tImkeSteffen\n\t\t\n\t\t\n\t\t\tNingTang\n\t\t\n\t\t\n\t\t\tKa-CheungLuk\n\t\t\n\t\t\n\t\t\tXiaoxingQiu\n\t\t\n\t\t\n\t\t\tAnatolyUrisman\n\t\t\n\t\t\n\t\t\tNicoleFischer\n\t\t\n\t\t\n\t\t\tRossMolinaro\n\t\t\n\t\t\n\t\t\tMirandaBroz\n\t\t\n\t\t\n\t\t\tGeraldSchochetman\n\t\t\n\t\t\n\t\t\tEricAKlein\n\t\t\n\t\t\n\t\t\tDonGanem\n\t\t\n\t\t\n\t\t\tJosephLDerisi\n\t\t\n\t\t\n\t\t\tGrahamSimmons\n\t\t\n\t\t\n\t\t\tJohnHackett\n\t\t\n\t\t\n\t\t\tRobertHSilverman\n\t\t\n\t\t\n\t\t\tCharlesYChiu\n\t\t\n\t\t10.1371/journal.pone.0044954\n\t\t23028701\n\t\tPMC3445615\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t7\n\t\t\t9\n\t\t\te44954\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c4bb647723bebd866701de"},"refKey":38},
{"_key":"60c4bb647723bebd866701e3","_id":"references/60c4bb647723bebd866701e3","_rev":"_cfFlazi---","tei":"\n\t\n\t\tRetroTector online, a rational tool for analysis of retroviral elements in small and medium size vertebrate genomic sequences\n\t\t\n\t\t\tGöranSperber\n\t\t\n\t\t\n\t\t\tAndersLövgren\n\t\t\n\t\t\n\t\t\tNils-EinarEriksson\n\t\t\n\t\t\n\t\t\tFaridBenachenhou\n\t\t\n\t\t\n\t\t\tJonasBlomberg\n\t\t\n\t\t10.1186/1471-2105-10-s6-s4\n\t\t19534753\n\t\tPMC2697651\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\tSuppl 6\n\t\t\tS4\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4bb647723bebd866701de"},"refKey":54},
{"_key":"60c4bb797723bebd866701f5","_id":"references/60c4bb797723bebd866701f5","_rev":"_cfFlazu---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tLMCarvalho\n\t\t\n\t\t\n\t\t\tOGPybus\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t\n\t\t\t2\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bb797723bebd866701f4"},"refKey":23},
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{"_key":"60c4bbc47723bebd8667022d","_id":"references/60c4bbc47723bebd8667022d","_rev":"_cfFla0a---","tei":"\n\t\n\t\tBovine tuberculosis: Within-herd transmission models to support and direct the decision-making process\n\t\t\n\t\t\tJulioÁlvarez\n\t\t\n\t\t\n\t\t\tJavierBezos\n\t\t\n\t\t\n\t\t\tMariaLuisaDe La Cruz\n\t\t\n\t\t\n\t\t\tCarmenCasal\n\t\t\n\t\t\n\t\t\tBeatrizRomero\n\t\t\n\t\t\n\t\t\tLucasDomínguez\n\t\t\n\t\t\n\t\t\tLucíaDe Juan\n\t\t\n\t\t\n\t\t\tAndrésPérez\n\t\t\n\t\t10.1016/j.rvsc.2014.04.009\n\t\t24875061\n\t\n\t\n\t\tResearch in Veterinary Science\n\t\tResearch in Veterinary Science\n\t\t0034-5288\n\t\t\n\t\t\t97\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4bbc47723bebd8667022a"},"refKey":31},
{"_key":"60c4bbc47723bebd8667022e","_id":"references/60c4bbc47723bebd8667022e","_rev":"_cfFla0m---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\n\t\n\t\tInterJ. Complex Syst\n\t\t\n\t\t\t1695\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bbc47723bebd8667022a"},"refKey":47},
{"_key":"60c4bbc47723bebd8667022f","_id":"references/60c4bbc47723bebd8667022f","_rev":"_cfFla0y---","tei":"\n\t\n\t\tWelcome to the Tidyverse\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tMAverick\n\t\t\n\t\t\n\t\t\tJBryan\n\t\t\n\t\t\n\t\t\tWChang\n\t\t\n\t\t\n\t\t\tLMcgowan\n\t\t\n\t\t\n\t\t\tRFrançois\n\t\t\n\t\t\n\t\t\tGGrolemund\n\t\t\n\t\t\n\t\t\tAHayes\n\t\t\n\t\t\n\t\t\tLHenry\n\t\t\n\t\t\n\t\t\tJHester\n\t\t\n\t\t10.21105/joss.01686\n\t\n\t\n\t\tJ. Open Source Softw\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bbc47723bebd8667022a"},"refKey":48},
{"_key":"60c4bbc47723bebd86670230","_id":"references/60c4bbc47723bebd86670230","_rev":"_cfFla1----","tei":"\n\t\n\t\tSimple Features for R: Standardized Support for Spatial Vector Data\n\t\t\n\t\t\tEdzerPebesma\n\t\t\n\t\t10.32614/rj-2018-009\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\tThe R Journal\n\t\t2073-4859\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t439\n\t\t\t\n\t\t\tThe R Foundation\n\t\t\n\t\n\n","document":{"$oid":"60c4bbc47723bebd8667022a"},"refKey":50},
{"_key":"60c4bc2b7723bebd8667027d","_id":"references/60c4bc2b7723bebd8667027d","_rev":"_cfFla1K---","tei":"\n\t\n\t\tGenome-wide efficient mixed-model analysis for association studies\n\t\t\n\t\t\tXiangZhou\n\t\t\n\t\t\n\t\t\tMatthewStephens\n\t\t\n\t\t10.1038/ng.2310\n\t\t22706312\n\t\tPMC3386377\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t44\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4bc2b7723bebd8667027c"},"refKey":37},
{"_key":"60c4bc2b7723bebd8667027e","_id":"references/60c4bc2b7723bebd8667027e","_rev":"_cfFla1S---","tei":"\n\t\n\t\tLinear models and empirical bayes methods for assessing differential expression in microarray experiments\n\t\t\n\t\t\tKSmyth Gordon\n\t\t\n\t\t10.2202/1544-6115.1027\n\t\n\t\n\t\tStat Appl Genet Mol Biol\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bc2b7723bebd8667027c"},"refKey":51},
{"_key":"60c4bc2b7723bebd8667027f","_id":"references/60c4bc2b7723bebd8667027f","_rev":"_cfFla1e---","tei":"\n\t\n\t\tThe sva package for removing batch effects and other unwanted variation in high-throughput experiments\n\t\t\n\t\t\tJeffreyTLeek\n\t\t\n\t\t\n\t\t\tWEvanJohnson\n\t\t\n\t\t\n\t\t\tHilarySParker\n\t\t\n\t\t\n\t\t\tAndrewEJaffe\n\t\t\n\t\t\n\t\t\tJohnDStorey\n\t\t\n\t\t10.1093/bioinformatics/bts034\n\t\t22257669\n\t\tPMC3307112\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4bc2b7723bebd8667027c"},"refKey":34},
{"_key":"60c4bc2b7723bebd86670280","_id":"references/60c4bc2b7723bebd86670280","_rev":"_cfFla1q---","tei":"\n\t\n\t\tAdjusting batch effects in microarray expression data using empirical Bayes methods\n\t\t\n\t\t\tWEvanJohnson\n\t\t\n\t\t\n\t\t\tChengLi\n\t\t\n\t\t\n\t\t\tArielRabinovic\n\t\t\n\t\t10.1093/biostatistics/kxj037\n\t\t16632515\n\t\t\n\t\n\t\n\t\tBiostatistics\n\t\t1465-4644\n\t\t1468-4357\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4bc2b7723bebd8667027c"},"refKey":35},
{"_key":"60c4bc2b7723bebd86670281","_id":"references/60c4bc2b7723bebd86670281","_rev":"_cfFla12---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tAlexanderDobin\n\t\t\n\t\t\n\t\t\tCarrieADavis\n\t\t\n\t\t\n\t\t\tFelixSchlesinger\n\t\t\n\t\t\n\t\t\tJorgDrenkow\n\t\t\n\t\t\n\t\t\tChrisZaleski\n\t\t\n\t\t\n\t\t\tSonaliJha\n\t\t\n\t\t\n\t\t\tPhilippeBatut\n\t\t\n\t\t\n\t\t\tMarkChaisson\n\t\t\n\t\t\n\t\t\tThomasRGingeras\n\t\t\n\t\t10.1093/bioinformatics/bts635\n\t\t23104886\n\t\tPMC3530905\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4bc2b7723bebd8667027c"},"refKey":31},
{"_key":"60c4bc2b7723bebd86670282","_id":"references/60c4bc2b7723bebd86670282","_rev":"_cfFla2C---","tei":"\n\t\n\t\tWebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tEJJaehnig\n\t\t\n\t\t\n\t\t\tZShi\n\t\t\n\t\t\n\t\t\tBZhang\n\t\t\n\t\t10.1093/nar/gkz401\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bc2b7723bebd8667027c"},"refKey":40},
{"_key":"60c4bc397723bebd86670296","_id":"references/60c4bc397723bebd86670296","_rev":"_cfFla2O---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\t1016/0263-7855(96)00018-5\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bc397723bebd86670295"},"refKey":53},
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{"_key":"60c4bc397723bebd86670298","_id":"references/60c4bc397723bebd86670298","_rev":"_cfFla2m---","tei":"\n\t\n\t\tGromacs: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSPáll\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindah\n\t\t\n\t\n\t\n\t\tSoftwareX\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bc397723bebd86670295"},"refKey":47},
{"_key":"60c4bc397723bebd86670299","_id":"references/60c4bc397723bebd86670299","_rev":"_cfFla2y---","tei":"\n\t\n\t\tDeciphering key features in protein structures with the new ENDscript server\n\t\t\n\t\t\tXavierRobert\n\t\t\n\t\t\n\t\t\tPatriceGouet\n\t\t\n\t\t10.1093/nar/gku316\n\t\t24753421\n\t\tPMC4086106\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4bc397723bebd86670295"},"refKey":57},
{"_key":"60c4bc5b7723bebd866702bd","_id":"references/60c4bc5b7723bebd866702bd","_rev":"_cfFla3----","tei":"\n\t\n\t\tMolProbity: all-atom contacts and structure validation for proteins and nucleic acids\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tALeaver-Fay\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tJNBlock\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJSnoeyink\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1093/nar/gkm216\n\t\t17452350\n\t\tPMC1933162\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4bc5b7723bebd866702bc"},"refKey":77},
{"_key":"60c4bc5b7723bebd866702be","_id":"references/60c4bc5b7723bebd866702be","_rev":"_cfFla3G---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tWBryanArendall\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tDanielAKeedy\n\t\t\n\t\t\n\t\t\tRobertMImmormino\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tLauraWMurray\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t10.1107/s0907444909042073\n\t\t20057044\n\t\tPMC2803126\n\t\tark:/67375/WNG-BJVGXQ30-W\n\t\t581B530166BA83A1EC7EFD28535AB1F9DD0F6CFB\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c4bc5b7723bebd866702bc"},"refKey":78},
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{"_key":"60c4bdf17723bebd86670420","_id":"references/60c4bdf17723bebd86670420","_rev":"_cfFla7i---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bdf17723bebd8667041d"},"refKey":13},
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{"_key":"60c4bdf17723bebd86670422","_id":"references/60c4bdf17723bebd86670422","_rev":"_cfFla76---","tei":"\n\t\n\t\tFastSpar: Rapid and scalable correlation estimation for compositional data\n\t\t\n\t\t\tStephenCWatts\n\t\t\n\t\t\n\t\t\tScottCRitchie\n\t\t\n\t\t\n\t\t\tMichaelInouye\n\t\t\n\t\t\n\t\t\tKathrynEHolt\n\t\t\n\t\t10.1101/272583\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4bdf17723bebd8667041d"},"refKey":54},
{"_key":"60c4bdf17723bebd86670423","_id":"references/60c4bdf17723bebd86670423","_rev":"_cfFla8K---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bdf17723bebd8667041d"},"refKey":19},
{"_key":"60c4bdf17723bebd86670424","_id":"references/60c4bdf17723bebd86670424","_rev":"_cfFla8W---","tei":"\n\t\n\t\tvegan: Community Ecology Package\n\t\t\n\t\t\tJOksanen\n\t\t\n\t\t\n\t\t\tFGBlanchet\n\t\t\n\t\t\n\t\t\tMFriendly\n\t\t\n\t\t\n\t\t\tRKindt\n\t\t\n\t\t\n\t\t\tPLegendre\n\t\t\n\t\t\n\t\t\tDMcglinn\n\t\t\n\t\t\n\t\t\tPRMinchin\n\t\t\n\t\t\n\t\t\tRBO'hara\n\t\t\n\t\t\n\t\t\tGLSimpson\n\t\t\n\t\t\n\t\t\tPSolymos\n\t\t\n\t\t\n\t\t\tMH HStevens\n\t\t\n\t\t\n\t\t\tESzoecs\n\t\t\n\t\t\n\t\t\tHWagner\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2.5-2\n\n","document":{"$oid":"60c4bdf17723bebd8667041d"},"refKey":36},
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{"_key":"60c4bfd87723bebd86670594","_id":"references/60c4bfd87723bebd86670594","_rev":"_cfFlbDC---","tei":"\n\t\n\t\tDecision-making in structure solution using Bayesian estimates of map quality: The PHENIX AutoSol wizard\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPt 6\n\n","document":{"$oid":"60c4bfd87723bebd86670590"},"refKey":46},
{"_key":"60c4bfe37723bebd8667059d","_id":"references/60c4bfe37723bebd8667059d","_rev":"_cfFlbDO---","tei":"\n\t\n\t\t\n\t\t\tAUntergasser\n\t\t\n\t\t\n\t\t\tICutcutache\n\t\t\n\t\t\n\t\t\tTKoressaar\n\t\t\n\t\t\n\t\t\tJYe\n\t\t\n\t\t\n\t\t\tBCFaircloth\n\t\t\n\t\t\n\t\t\tMRemm\n\t\t\n\t\t\n\t\t\tSGRozen\n\t\t\n\t\n\t\n\t\tPrimer3--new capabilities and interfaces\n\t\t\t\t\n\t\t\t\n\t\t\t40\n\t\t\te115\n\t\t\n\t\n\n","document":{"$oid":"60c4bfe37723bebd8667059c"},"refKey":48},
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{"_key":"60c4bff97723bebd866705d9","_id":"references/60c4bff97723bebd866705d9","_rev":"_cfFlbDy---","tei":"\n\t\n\t\tRAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bff97723bebd866705d6"},"refKey":63},
{"_key":"60c4bff97723bebd866705da","_id":"references/60c4bff97723bebd866705da","_rev":"_cfFlbD6---","tei":"\n\t\n\t\tPACo: a Novel procrustes application to cophylogenetic analysis\n\t\t\n\t\t\tJABalbuena\n\t\t\n\t\t\n\t\t\tRMı ´guez-Lozano\n\t\t\n\t\t\n\t\t\tIBlasco-Costa\n\t\t\n\t\n\t\n\t\tPloS one\n\t\t\n\t\t\t8\n\t\t\te61048\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bff97723bebd866705d6"},"refKey":70},
{"_key":"60c4bff97723bebd866705db","_id":"references/60c4bff97723bebd866705db","_rev":"_cfFlbEG---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bff97723bebd866705d6"},"refKey":68},
{"_key":"60c4bff97723bebd866705dc","_id":"references/60c4bff97723bebd866705dc","_rev":"_cfFlbES---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bff97723bebd866705d6"},"refKey":60},
{"_key":"60c4bff97723bebd866705dd","_id":"references/60c4bff97723bebd866705dd","_rev":"_cfFlbEe---","tei":"\n\t\n\t\tGeneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4bff97723bebd866705d6"},"refKey":61},
{"_key":"60c4c0097723bebd866705f3","_id":"references/60c4c0097723bebd866705f3","_rev":"_cfFlbEq---","tei":"\n\t\n\t\tPASS: prediction of activity spectra for biologically active substances\n\t\t\n\t\t\tALagunin\n\t\t\n\t\t\n\t\t\tAStepanchikova\n\t\t\n\t\t\n\t\t\tDFilimonov\n\t\t\n\t\t\n\t\t\tVPoroikov\n\t\t\n\t\t10.1093/bioinformatics/16.8.747\n\t\t11099264\n\t\t1460-2059\n\t\tark:/67375/HXZ-5SVTPMSX-X\n\t\tB9C78AB730B7BE780866FB61D00DED57F2C3AE1B\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4c0097723bebd866705f2"},"refKey":18},
{"_key":"60c4c00d7723bebd86670603","_id":"references/60c4c00d7723bebd86670603","_rev":"_cfFlbE2---","tei":"\n\t\n\t\tVersion 5.4. Copenhagen: The Nordic Cochrane Centre\n\t\t\n\t\n\t\n\t\tReview Manager (RevMan)\n\t\t\n\t\t\t\n\t\t\n\t\n\tThe Cochrane Collaboration\n\n","document":{"$oid":"60c4c00d7723bebd86670602"},"refKey":17},
{"_key":"60c4c00d7723bebd86670604","_id":"references/60c4c00d7723bebd86670604","_rev":"_cfFlbFC---","tei":"\n\t\n\t\tCochrane Handbook for Systematic Reviews of Interventions version 6\n\t\t\n\t\t\tJHiggins\n\t\t\n\t\t\n\t\t\tJThomas\n\t\t\n\t\t\n\t\t\tJChandler\n\t\t\n\t\t\n\t\t\tMCumpston\n\t\t\n\t\t\n\t\t\tTLi\n\t\t\n\t\t\n\t\t\tMPage\n\t\t\n\t\t\n\t\t\t\n\t\t\tCochrane\n\t\t\n\t\n\tAvailable at www. training.cochrane.org/handbook. Accessed November 4, 2020\n\n","document":{"$oid":"60c4c00d7723bebd86670602"},"refKey":10},
{"_key":"60c4c00d7723bebd86670605","_id":"references/60c4c00d7723bebd86670605","_rev":"_cfFlbFK---","tei":"\n\t\n\t\tRoB 2: a revised tool for assessing risk of bias in randomised trials\n\t\t\n\t\t\tJASterne\n\t\t\n\t\t\n\t\t\tJSavović\n\t\t\n\t\t\n\t\t\tMJPage\n\t\t\n\t\t\n\t\t\tRGElbers\n\t\t\n\t\t\n\t\t\tNSBlencowe\n\t\t\n\t\t\n\t\t\tIBoutron\n\t\t\n\t\t10.1136/bmj.l4898\n\t\t31462531\n\t\t\n\t\n\t\n\t\tBMJ\n\t\t\n\t\t\t366\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c00d7723bebd86670602"},"refKey":13},
{"_key":"60c4c0147723bebd86670647","_id":"references/60c4c0147723bebd86670647","_rev":"_cfFlbFW---","tei":"\n\t\n\t\tCentre for Research in Evidence Based Practice\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c0147723bebd86670646"},"refKey":21},
{"_key":"60c4c0357723bebd86670656","_id":"references/60c4c0357723bebd86670656","_rev":"_cfFlbFi---","tei":"\n\t\n\t\tTurkPrime.com: A versatile crowdsourcing data acquisition platform for the behavioral sciences\n\t\t\n\t\t\tLeibLitman\n\t\t\n\t\t\n\t\t\tJonathanRobinson\n\t\t\n\t\t\n\t\t\tTzviAbberbock\n\t\t\n\t\t10.3758/s13428-016-0727-z\n\t\t27071389\n\t\tPMC5405057\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehav Res\n\t\t1554-3528\n\t\t\n\t\t\t49\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4c0357723bebd86670655"},"refKey":7},
{"_key":"60c4c0747723bebd86670694","_id":"references/60c4c0747723bebd86670694","_rev":"_cfFlbFu---","tei":"\n\t\n\t\tSystematic evaluation of combined automated NOE assignment and structure calculation with CYANA\n\t\t\n\t\t\tLenaBuchner\n\t\t\n\t\t\n\t\t\tPeterGüntert\n\t\t\n\t\t10.1007/s10858-015-9921-z\n\t\t25796507\n\t\n\t\n\t\tJournal of Biomolecular NMR\n\t\tJ Biomol NMR\n\t\t0925-2738\n\t\t1573-5001\n\t\t\n\t\t\t62\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4c0747723bebd86670693"},"refKey":64},
{"_key":"60c4c0787723bebd86670699","_id":"references/60c4c0787723bebd86670699","_rev":"_cfFlbF6---","tei":"\n\t\n\t\tThe Parallel C++ Statistical Library ‘QUESO’: Quantification of Uncertainty for Estimation, Simulation and Optimization\n\t\t\n\t\t\tErnestoEPrudencio\n\t\t\n\t\t\n\t\t\tKarlWSchulz\n\t\t\n\t\t10.1007/978-3-642-29737-3_44\n\t\n\t\n\t\tEuro-Par 2011: Parallel Processing Workshops\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c0787723bebd86670698"},"refKey":32},
{"_key":"60c4c0ff7723bebd866706a8","_id":"references/60c4c0ff7723bebd866706a8","_rev":"_cfFlbGG---","tei":"\n\t\n\t\tRecognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c0ff7723bebd866706a7"},"refKey":36},
{"_key":"60c4c0ff7723bebd866706a9","_id":"references/60c4c0ff7723bebd866706a9","_rev":"_cfFlbGS---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tDSMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Appl Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c0ff7723bebd866706a7"},"refKey":33},
{"_key":"60c4c0ff7723bebd866706aa","_id":"references/60c4c0ff7723bebd866706aa","_rev":"_cfFlbGe---","tei":"\n\t\n\t\tVerification of protein structures: patterns of nonbonded atomic interactions\n\t\t\n\t\t\tCColovos\n\t\t\n\t\t\n\t\t\tTOYeates\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c0ff7723bebd866706a7"},"refKey":37},
{"_key":"60c4c0ff7723bebd866706ab","_id":"references/60c4c0ff7723bebd866706ab","_rev":"_cfFlbGq---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Mol Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c0ff7723bebd866706a7"},"refKey":70},
{"_key":"60c4c0ff7723bebd866706ac","_id":"references/60c4c0ff7723bebd866706ac","_rev":"_cfFlbG2---","tei":"\n\t\n\t\tGROMACS: fast, flexible, and free\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tGGroenhof\n\t\t\n\t\t\n\t\t\tAEMark\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c0ff7723bebd866706a7"},"refKey":52},
{"_key":"60c4c0ff7723bebd866706ad","_id":"references/60c4c0ff7723bebd866706ad","_rev":"_cfFlbH----","tei":"\n\t\n\t\tGROMACS 4: algorithms for highly efficient, load-balanced, and scalable molecular simulation\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tCKutzner\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\n\t\n\t\tJ Chem Theory Comput\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c0ff7723bebd866706a7"},"refKey":53},
{"_key":"60c4c0ff7723bebd866706ae","_id":"references/60c4c0ff7723bebd866706ae","_rev":"_cfFlbHK---","tei":"\n\t\n\t\tIncreasing the precision of comparative models with YASARA NOVA-a self-parameterizing force field\n\t\t\n\t\t\tElmarKrieger\n\t\t\n\t\t\n\t\t\tGüntherKoraimann\n\t\t\n\t\t\n\t\t\tGertVriend\n\t\t\n\t\t10.1002/prot.10104\n\t\t11948792\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t47\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4c0ff7723bebd866706a7"},"refKey":34},
{"_key":"60c4c0ff7723bebd866706af","_id":"references/60c4c0ff7723bebd866706af","_rev":"_cfFlbHa---","tei":"\n\t\n\t\tImproving physical realism, stereochemistry, and side-chain accuracy in homology modeling: four approaches that performed well in CASP8\n\t\t\n\t\t\tEKrieger\n\t\t\n\t\t\n\t\t\tKJoo\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tSRaman\n\t\t\n\t\t\n\t\t\tJThompson\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t77\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tSuppl 9\n\n","document":{"$oid":"60c4c0ff7723bebd866706a7"},"refKey":35},
{"_key":"60c4c0ff7723bebd866706b0","_id":"references/60c4c0ff7723bebd866706b0","_rev":"_cfFlbHm---","tei":"\n\t\n\t\tCan correct protein models be identified?\n\t\t\n\t\t\tBjörnWallner\n\t\t\n\t\t\n\t\t\tArneElofsson\n\t\t\n\t\t10.1110/ps.0236803\n\t\t12717029\n\t\tPMC2323877\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4c0ff7723bebd866706a7"},"refKey":38},
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{"_key":"60c4c0ff7723bebd866706b5","_id":"references/60c4c0ff7723bebd866706b5","_rev":"_cfFlbIe---","tei":"\n\t\n\t\tPrediction of glycosylation across the human proteome and the correlation to protein function\n\t\t\n\t\t\tRamneekGupta\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t10.1142/9789812799623_0029\n\t\t\n\t\n\t\n\t\tBiocomputing 2002\n\t\t\t\t\n\t\t\tWORLD SCIENTIFIC\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c0ff7723bebd866706a7"},"refKey":44},
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{"_key":"60c4c1a07723bebd86670795","_id":"references/60c4c1a07723bebd86670795","_rev":"_cfFlbMO---","tei":"\n\t\n\t\tCCP: Significance Tests for Canonical Correlation Analysis\n\t\t\n\t\t\tUMenzel\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c1a07723bebd8667078d"},"refKey":53},
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{"_key":"60c4c1a57723bebd866707af","_id":"references/60c4c1a57723bebd866707af","_rev":"_cfFlbMm---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c1a57723bebd866707ad"},"refKey":25},
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{"_key":"60c4c1b27723bebd866707bd","_id":"references/60c4c1b27723bebd866707bd","_rev":"_cfFlbNa---","tei":"\n\t\n\t\tCoronavirus 3CLpro proteinase cleavage sites: possible relevance to SARS virus pathology\n\t\t\n\t\t\tLKiemer\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tNBlom\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t5\n\t\t\t72\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c1b27723bebd866707bb"},"refKey":463},
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{"_key":"60c4c1b67723bebd866707cd","_id":"references/60c4c1b67723bebd866707cd","_rev":"_cfFlbOO---","tei":"\n\t\n\t\tMARVEL, a Tool for Prediction of Bacteriophage Sequences in Metagenomic Bins\n\t\t\n\t\t\tDeyvidAmgarten\n\t\t\n\t\t\n\t\t\tLucasP PBraga\n\t\t\n\t\t\n\t\t\tAlineMDa Silva\n\t\t\n\t\t\n\t\t\tJoãoCSetubal\n\t\t\n\t\t10.3389/fgene.2018.00304\n\t\t30131825\n\t\tPMC6090037\n\t\t\n\t\n\t\n\t\tFrontiers in Genetics\n\t\tFront. Genet.\n\t\t1664-8021\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c4c1b67723bebd866707ca"},"refKey":36},
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{"_key":"60c4c1b67723bebd866707d0","_id":"references/60c4c1b67723bebd866707d0","_rev":"_cfFlbOy---","tei":"\n\t\n\t\tVirSorter : mining viral signal from microbial genomic data\n\t\t\n\t\t\tSRoux\n\t\t\n\t\t\n\t\t\tFEnault\n\t\t\n\t\t\n\t\t\tBLHurwitz\n\t\t\n\t\t\n\t\t\tMBSullivan\n\t\t\n\t\t\n\t\t\t2015\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c1b67723bebd866707ca"},"refKey":25},
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{"_key":"60c4c1b67723bebd866707d5","_id":"references/60c4c1b67723bebd866707d5","_rev":"_cfFlbPq---","tei":"\n\t\n\t\tWhole-genome prokaryotic phylogeny\n\t\t\n\t\t\tSRHenz\n\t\t\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tAFAuch\n\t\t\n\t\t\n\t\t\tKNieselt-Struwe\n\t\t\n\t\t\n\t\t\tSCSchuster\n\t\t\n\t\t10.1093/bioinformatics/bth324\n\t\t15166018\n\t\tark:/67375/HXZ-MGX1SKDG-T\n\t\t093D7ACF805C9314973C20182A717AF24DE73FB8\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4c1b67723bebd866707ca"},"refKey":60},
{"_key":"60c4c1b67723bebd866707d6","_id":"references/60c4c1b67723bebd866707d6","_rev":"_cfFlbP2---","tei":"\n\t\n\t\tProphinder: a computational tool for prophage prediction in prokaryotic genomes\n\t\t\n\t\t\tGipsiLima-Mendez\n\t\t\n\t\t\n\t\t\tJacquesVan Helden\n\t\t\n\t\t\n\t\t\tArianeToussaint\n\t\t\n\t\t\n\t\t\tRaphaëlLeplae\n\t\t\n\t\t10.1093/bioinformatics/btn043\n\t\t18238785\n\t\tark:/67375/HXZ-7CLZ137S-3\n\t\t7E55B8B4CA3B761B2A3E74BF5ABEEDC3507C386D\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4c1b67723bebd866707ca"},"refKey":32},
{"_key":"60c4c1b67723bebd866707d7","_id":"references/60c4c1b67723bebd866707d7","_rev":"_cfFlbQC---","tei":"\n\t\n\t\tPhage_Finder: Automated identification and classification of prophage regions in complete bacterial genome sequences\n\t\t\n\t\t\tDerrickEFouts\n\t\t\n\t\t\n\t\t\tPhage_Finder\n\t\t\n\t\t10.1093/nar/gkl732\n\t\t17062630\n\t\tPMC1635311\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4c1b67723bebd866707ca"},"refKey":33},
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{"_key":"60c4c1b67723bebd866707d9","_id":"references/60c4c1b67723bebd866707d9","_rev":"_cfFlbQa---","tei":"\n\t\n\t\tDeep attention model for viral reads identification\n\t\t\n\t\t\tOAAly\n\t\t\n\t\t\n\t\t\tMahmoudI KElaraby\n\t\t\n\t\t\n\t\t\tMAbbas\n\t\t\n\t\t\n\t\t\tHAli\n\t\t\n\t\t\n\t\t\tHA EVirnet\n\t\t\n\t\n\t\n\t\t13th Int Conf Comput Eng Syst\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c1b67723bebd866707ca"},"refKey":41},
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{"_key":"60c4c2257723bebd86670848","_id":"references/60c4c2257723bebd86670848","_rev":"_cfFlbSO---","tei":"\n\t\n\t\t\n\t\t\tStatacorp\n\t\t\n\t\tStata statistical software: Release 14. College Station, TX: StataCorp LP\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c2257723bebd86670847"},"refKey":32},
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{"_key":"60c4c27d7723bebd86670bc3","_id":"references/60c4c27d7723bebd86670bc3","_rev":"_cfFlbT2---","tei":"\n\t\n\t\tDAVID Knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput gene functional analysis\n\t\t\n\t\t\tBradTSherman\n\t\t\n\t\t\n\t\t\tDaHuang\n\t\t\n\t\t\n\t\t\tQinaTan\n\t\t\n\t\t\n\t\t\tYongjianGuo\n\t\t\n\t\t\n\t\t\tStephanBour\n\t\t\n\t\t\n\t\t\tDavidLiu\n\t\t\n\t\t\n\t\t\tRobertStephens\n\t\t\n\t\t\n\t\t\tMichaelWBaseler\n\t\t\n\t\t\n\t\t\tHCliffordLane\n\t\t\n\t\t\n\t\t\tRichardALempicki\n\t\t\n\t\t10.1186/1471-2105-8-426\n\t\t17980028\n\t\tPMC2186358\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t426\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4c27d7723bebd86670bc2"},"refKey":16},
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{"_key":"60c4c3357723bebd86670c32","_id":"references/60c4c3357723bebd86670c32","_rev":"_cfFlbVS---","tei":"\n\t\n\t\tInteraction of α-cyperone with human serum albumin: Determination of the binding site by using Discovery Studio and via spectroscopic methods\n\t\t\n\t\t\tQingWang\n\t\t\n\t\t\n\t\t\tJiaweiHe\n\t\t\n\t\t\n\t\t\tDiWu\n\t\t\n\t\t\n\t\t\tJingWang\n\t\t\n\t\t\n\t\t\tJinYan\n\t\t\n\t\t\n\t\t\tHuiLi\n\t\t\n\t\t10.1016/j.jlumin.2015.03.025\n\t\n\t\n\t\tJournal of Luminescence\n\t\tJournal of Luminescence\n\t\t0022-2313\n\t\t\n\t\t\t164\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4c3357723bebd86670c30"},"refKey":58},
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{"_key":"60c4c3387723bebd86670c40","_id":"references/60c4c3387723bebd86670c40","_rev":"_cfFlbVq---","tei":"\n\t\n\t\tBayesian Deconvolution of Mass and Ion Mobility Spectra: From Binary Interactions to Polydisperse Ensembles\n\t\t\n\t\t\tMichaelTMarty\n\t\t\n\t\t\n\t\t\tAndrewJBaldwin\n\t\t\n\t\t\n\t\t\tErikGMarklund\n\t\t\n\t\t\n\t\t\tGeorgK AHochberg\n\t\t\n\t\t\n\t\t\tJustinL PBenesch\n\t\t\n\t\t\n\t\t\tCarolVRobinson\n\t\t\n\t\t10.1021/acs.analchem.5b00140\n\t\t25799115\n\t\tPMC4594776\n\t\t\n\t\n\t\n\t\tAnalytical Chemistry\n\t\tAnal. Chem.\n\t\t0003-2700\n\t\t1520-6882\n\t\t\n\t\t\t87\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c4c3387723bebd86670c3f"},"refKey":49},
{"_key":"60c4c33b7723bebd86670c47","_id":"references/60c4c33b7723bebd86670c47","_rev":"_cfFlbV2---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c33b7723bebd86670c46"},"refKey":29},
{"_key":"60c4c33b7723bebd86670c48","_id":"references/60c4c33b7723bebd86670c48","_rev":"_cfFlbWC---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tSchrödinger, LLC, New York\n\t\t\n\t\n\n","document":{"$oid":"60c4c33b7723bebd86670c46"},"refKey":30},
{"_key":"60c4c33e7723bebd86670c50","_id":"references/60c4c33e7723bebd86670c50","_rev":"_cfFlbWK---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJFHair\n\t\t\n\t\t\n\t\t\tGT MHult\n\t\t\n\t\t\n\t\t\tCMRingle\n\t\t\n\t\t\n\t\t\tMSarstedt\n\t\t\n\t\t\n\t\t\tKOThiele\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c33e7723bebd86670c4f"},"refKey":27},
{"_key":"60c4c35a7723bebd86670c5e","_id":"references/60c4c35a7723bebd86670c5e","_rev":"_cfFlbWW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tLLFan\n\t\t\n\t\t\n\t\t\tYQChen\n\t\t\n\t\t\n\t\t\tHHuang\n\t\t\n\t\t\n\t\t\tZZYuan\n\t\t\n\t\t\n\t\t\tJYJin\n\t\t\n\t\t\n\t\t\tMHu\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c35a7723bebd86670c5d"},"refKey":2},
{"_key":"60c4c38e7723bebd86670c83","_id":"references/60c4c38e7723bebd86670c83","_rev":"_cfFlbWi---","tei":"\n\t\n\t\tComparing regression coefficients between samesample nested models using logit and probit: A new method\n\t\t\n\t\t\tKBKarlson\n\t\t\n\t\t\n\t\t\tAHolm\n\t\t\n\t\t\n\t\t\tRBreen\n\t\t\n\t\n\t\n\t\tSociological Methodology\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c38e7723bebd86670c82"},"refKey":28},
{"_key":"60c4c38e7723bebd86670c86","_id":"references/60c4c38e7723bebd86670c86","_rev":"_cfFlbWu---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: Application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tVonHeijne\n\t\t\n\t\t\n\t\t\tGSonnhammer\n\t\t\n\t\t\n\t\t\tEL\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c38e7723bebd86670c85"},"refKey":53},
{"_key":"60c4c38e7723bebd86670c87","_id":"references/60c4c38e7723bebd86670c87","_rev":"_cfFlbW6---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c38e7723bebd86670c85"},"refKey":55},
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{"_key":"60c4c5497723bebd86670dfc","_id":"references/60c4c5497723bebd86670dfc","_rev":"_cfFlbbu---","tei":"\n\t\n\t\tThe Metagenomics RAST Server -A Public Resource for the Automatic Phylogenetic and Functional Analysis of Metagenomes\n\t\t\n\t\t\tFMeyer\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t20\n\t\t\t386\n\t\t\t\n\t\t\n\t\n\tGenome Biology\n\n","document":{"$oid":"60c4c5497723bebd86670df0"},"refKey":28},
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{"_key":"60c4c5497723bebd86670e03","_id":"references/60c4c5497723bebd86670e03","_rev":"_cfFlbd----","tei":"\n\t\n\t\tThe Bioperl Toolkit: Perl Modules for the Life Sciences\n\t\t\n\t\t\tJEStajich\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c5497723bebd86670df0"},"refKey":46},
{"_key":"60c4c5497723bebd86670e04","_id":"references/60c4c5497723bebd86670e04","_rev":"_cfFlbdK---","tei":"\n\t\n\t\tVirusFinder: Software for Efficient and Accurate Detection of Viruses and Their Integration Sites in Host Genomes through Next Generation Sequencing Data\n\t\t\n\t\t\tQingguoWang\n\t\t\n\t\t\n\t\t\tPeilinJia\n\t\t\n\t\t\n\t\t\tZhongmingZhao\n\t\t\n\t\t10.1371/journal.pone.0064465\n\t\t23717618\n\t\tPMC3663743\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t5\n\t\t\te64465\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c4c5497723bebd86670df0"},"refKey":50},
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{"_key":"60c4c5997723bebd86670e9d","_id":"references/60c4c5997723bebd86670e9d","_rev":"_cfFlbdi---","tei":"\n\t\n\t\tWAM: an improved algorithm for modelling antibodies on the WEB\n\t\t\n\t\t\tNicholasR JWhitelegg\n\t\t\n\t\t\n\t\t\tAnthonyRRees\n\t\t\n\t\t10.1093/protein/13.12.819\n\t\t11239080\n\t\t1460-213X\n\t\tark:/67375/HXZ-X53R0HMZ-B\n\t\tDCBF331203D7952E6D62300CF1B330EEA2A03654\n\t\tdoi: 10.1093/ protein/13.12.819\n\t\t\n\t\n\t\n\t\tProtein Engineering, Design and Selection\n\t\t1741-0126\n\t\t1741-0134\n\t\t\n\t\t\t13\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4c5997723bebd86670e9b"},"refKey":103},
{"_key":"60c4c5b37723bebd86670ebf","_id":"references/60c4c5b37723bebd86670ebf","_rev":"_cfFlbdq---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBenjaminBuchfink\n\t\t\n\t\t\n\t\t\tChaoXie\n\t\t\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t10.1038/nmeth.3176\n\t\t25402007\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4c5b37723bebd86670ebe"},"refKey":10},
{"_key":"60c4c5b37723bebd86670ec0","_id":"references/60c4c5b37723bebd86670ec0","_rev":"_cfFlbd2---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4c5b37723bebd86670ebe"},"refKey":27},
{"_key":"60c4c5b37723bebd86670ec1","_id":"references/60c4c5b37723bebd86670ec1","_rev":"_cfFlbeC---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepisz\n\t\t\n\t\t\n\t\n\t\n\t\tComplex Syst\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c5b37723bebd86670ebe"},"refKey":14},
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{"_key":"60c4c5d07723bebd86670edc","_id":"references/60c4c5d07723bebd86670edc","_rev":"_cfFlbea---","tei":"\n\t\n\t\tImproved inference of time-varying reproduction numbers during infectious disease outbreaks\n\t\t\n\t\t\tRNThompson\n\t\t\n\t\t\n\t\t\tJEStockwin\n\t\t\n\t\t\n\t\t\tRDVan Gaalen\n\t\t\n\t\t\n\t\t\tJAPolonsky\n\t\t\n\t\t\n\t\t\tZNKamvar\n\t\t\n\t\t\n\t\t\tPADemarsh\n\t\t\n\t\t\n\t\t\tEDahlqwist\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tEMiguel\n\t\t\n\t\t\n\t\t\tTJombart\n\t\t\n\t\t\n\t\t\tJLessler\n\t\t\n\t\t\n\t\t\tSCauchemez\n\t\t\n\t\t\n\t\t\tACori\n\t\t\n\t\t10.1016/j.epidem.2019.100356\n\t\n\t\n\t\tEpidemics\n\t\tEpidemics\n\t\t1755-4365\n\t\t\n\t\t\t29\n\t\t\t100356\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4c5d07723bebd86670edb"},"refKey":22},
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{"_key":"60c4c6197723bebd86670f04","_id":"references/60c4c6197723bebd86670f04","_rev":"_cfFlbey---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\tcited 2020 Dec 1\n\n","document":{"$oid":"60c4c6197723bebd86670f03"},"refKey":15},
{"_key":"60c4c6827723bebd86670f41","_id":"references/60c4c6827723bebd86670f41","_rev":"_cfFlbf----","tei":"\n\t\n\t\tHow much complexity is warranted in a rainfall-runoff model\n\t\t\n\t\t\tAJJakeman\n\t\t\n\t\t\n\t\t\tGMHornberger\n\t\t\n\t\n\t\n\t\tWater Resources Research\n\t\t\n\t\t\t29\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c6827723bebd86670f40"},"refKey":40},
{"_key":"60c4c6827723bebd86670f42","_id":"references/60c4c6827723bebd86670f42","_rev":"_cfFlbfK---","tei":"\n\t\n\t\tComputation of the instantaneous unit hydrograph and identifiable component flows with application to two small upland catchments\n\t\t\n\t\t\tAJJakeman\n\t\t\n\t\t\n\t\t\tIGLittlewood\n\t\t\n\t\t\n\t\t\tPGWhitehead\n\t\t\n\t\t10.1016/0022-1694(90)90097-h\n\t\t0022-1694(90)90097-H\n\t\tark:/67375/6H6-SBWPZBN9-W\n\t\t2FB5FDCDA83572C5B0AF43D695C9423CA8E961CE\n\t\n\t\n\t\tJournal of Hydrology\n\t\tJournal of Hydrology\n\t\t0022-1694\n\t\t\n\t\t\t117\n\t\t\t1-4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4c6827723bebd86670f40"},"refKey":41},
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{"_key":"60c4c6b27723bebd86670f52","_id":"references/60c4c6b27723bebd86670f52","_rev":"_cfFlbfe---","tei":"\n\t\n\t\t\n\t\t\tJThomas\n\t\t\n\t\t\n\t\t\tJBrunton\n\t\t\n\t\t\n\t\t\tSGraziosi\n\t\t\n\t\t\n\t\n\t\n\t\tSoftware for Research Synthesis [Internet], EPPI-Centre Software\n\t\t\t\tLondon\n\t\t\n\t\t\t\n\t\t\t4\n\t\t\n\t\n\n","document":{"$oid":"60c4c6b27723bebd86670f50"},"refKey":9},
{"_key":"60c4c6b97723bebd86670f59","_id":"references/60c4c6b97723bebd86670f59","_rev":"_cfFlbfq---","tei":"\n\t\n\t\tEstimation of the final size of the covid-19 epidemic\n\t\t\n\t\t\tMilanBatista\n\t\t\n\t\tdoi, 10(2020.02\n\t\n\t\n\t\tmedRxiv\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c6b97723bebd86670f58"},"refKey":5},
{"_key":"60c4c6b97723bebd86670f5a","_id":"references/60c4c6b97723bebd86670f5a","_rev":"_cfFlbf2---","tei":"\n\t\n\t\tfitviruscovid19, matlab central file exchange\n\t\t\n\t\t\tMilanBatista\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c6b97723bebd86670f58"},"refKey":6},
{"_key":"60c4c6c47723bebd86670f66","_id":"references/60c4c6c47723bebd86670f66","_rev":"_cfFlbgC---","tei":"\n\t\n\t\tAQUA-DUCT 1.0: Structural and functional analysis of macromolecules from an intramolecular voids perspective\n\t\t\n\t\t\tTMagdziarz\n\t\t\n\t\t\n\t\t\tKMitusińska\n\t\t\n\t\t\n\t\t\tMBzówka\n\t\t\n\t\t\n\t\t\tARaczyńska\n\t\t\n\t\t\n\t\t\tAStańczak\n\t\t\n\t\t\n\t\t\tMBanas\n\t\t\n\t\t\n\t\t\tWBagrowska\n\t\t\n\t\t\n\t\t\tAGóra\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c6c47723bebd86670f65"},"refKey":23},
{"_key":"60c4c6c47723bebd86670f67","_id":"references/60c4c6c47723bebd86670f67","_rev":"_cfFlbgO---","tei":"\n\t\n\t\tSoftware for processing and analysis of molecular dynamics trajectory data\n\t\t\n\t\t\tDRRoe\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tIiiPtraj\n\t\t\n\t\t\n\t\t\tCpptraj\n\t\t\n\t\n\t\n\t\tJ. Chem. Theory Comput\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c6c47723bebd86670f65"},"refKey":32},
{"_key":"60c4c6c47723bebd86670f68","_id":"references/60c4c6c47723bebd86670f68","_rev":"_cfFlbga---","tei":"\n\t\n\t\tPymol: An open-source molecular graphics tool. CCP4 Newsletter on protein crystallography\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\t40\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c6c47723bebd86670f65"},"refKey":35},
{"_key":"60c4c6d17723bebd86670f7d","_id":"references/60c4c6d17723bebd86670f7d","_rev":"_cfFlbgm---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4c6d17723bebd86670f7c"},"refKey":39},
{"_key":"60c4c7077723bebd86670f8a","_id":"references/60c4c7077723bebd86670f8a","_rev":"_cfFlbgy---","tei":"\n\t\n\t\tBeyond Baron and Kenny: Statistical Mediation Analysis in the New Millennium\n\t\t\n\t\t\tAndrewFHayes\n\t\t\n\t\t\n\t\t\tBBaron\n\t\t\n\t\t10.1080/03637750903310360\n\t\n\t\n\t\tCommunication Monographs\n\t\tCommunication Monographs\n\t\t0363-7751\n\t\t1479-5787\n\t\t\n\t\t\t76\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c4c7077723bebd86670f89"},"refKey":18},
{"_key":"60c4c7107723bebd86670f90","_id":"references/60c4c7107723bebd86670f90","_rev":"_cfFlbg6---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4c7107723bebd86670f8f"},"refKey":2},
{"_key":"60c4c7437723bebd86670fbf","_id":"references/60c4c7437723bebd86670fbf","_rev":"_cfFlbhG---","tei":"\n\t\n\t\tAn open-source platform for biological-image analysis\n\t\t\n\t\t\tJSchindelin\n\t\t\n\t\t\n\t\t\tIArganda-Carreras\n\t\t\n\t\t\n\t\t\tEFrise\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t676\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c7437723bebd86670fbe"},"refKey":23},
{"_key":"60c4c7437723bebd86670fc0","_id":"references/60c4c7437723bebd86670fc0","_rev":"_cfFlbhS---","tei":"\n\t\n\t\tGlobally optimal stitching of tiled 3d microscopic image acquisitions\n\t\t\n\t\t\tSPreibisch\n\t\t\n\t\t\n\t\t\tSSaalfeld\n\t\t\n\t\t\n\t\t\tPTomancak\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c7437723bebd86670fbe"},"refKey":24},
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{"_key":"60c4c76b7723bebd86670fe9","_id":"references/60c4c76b7723bebd86670fe9","_rev":"_cfFlbhq---","tei":"\n\t\n\t\tDifferential expression analysis for sequence count data\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t10.1186/gb-2010-11-10-r106\n\t\t20979621\n\t\tPMC3218662\n\t\tdoi:10.1186/ gb-2010-11-10-r106\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t11\n\t\t\t10\n\t\t\tR106\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4c76b7723bebd86670fe8"},"refKey":39},
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{"_key":"60c4c77e7723bebd86670ffd","_id":"references/60c4c77e7723bebd86670ffd","_rev":"_cfFlbiO---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c77e7723bebd86670ffb"},"refKey":17},
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{"_key":"60c4c7857723bebd8667100d","_id":"references/60c4c7857723bebd8667100d","_rev":"_cfFlbi6---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c7857723bebd8667100c"},"refKey":0},
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{"_key":"60c4c7cb7723bebd86671051","_id":"references/60c4c7cb7723bebd86671051","_rev":"_cfFlbje---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4c7cb7723bebd8667104f"},"refKey":32},
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{"_key":"60c4c8f47723bebd86671170","_id":"references/60c4c8f47723bebd86671170","_rev":"_cfFlbmu---","tei":"\n\t\n\t\tSmall molecule Plasmodium FKBP35 inhibitor as a potential antimalaria agent\n\t\t\n\t\t\tAmaravadhiHarikishore\n\t\t\n\t\t\n\t\t\tMakhtarNiang\n\t\t\n\t\t\n\t\t\tSreekanthRajan\n\t\t\n\t\t\n\t\t\tPeterRainerPreiser\n\t\t\n\t\t\n\t\t\tHoSupYoon\n\t\t\n\t\t10.1038/srep02501\n\t\t23974147\n\t\tPMC3752609\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t2501\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4c8f47723bebd8667116c"},"refKey":31},
{"_key":"60c4c8f47723bebd86671171","_id":"references/60c4c8f47723bebd86671171","_rev":"_cfFlbm6---","tei":"\n\t\n\t\tRevisiting De Novo Drug Design: Receptor Based Pharmacophore Screening\n\t\t\n\t\t\tHarikishoreAmaravadhi\n\t\t\n\t\t\n\t\t\tKwangheeBaek\n\t\t\n\t\t\n\t\t\tHoYoon\n\t\t\n\t\t10.2174/1568026614666140929115506\n\t\t25262804\n\t\n\t\n\t\tCurrent Topics in Medicinal Chemistry\n\t\tCTMC\n\t\t1568-0266\n\t\t\n\t\t\t14\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tBentham Science Publishers Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c4c8f47723bebd8667116c"},"refKey":32},
{"_key":"60c4c8f47723bebd86671172","_id":"references/60c4c8f47723bebd86671172","_rev":"_cfFlbnG---","tei":"\n\t\n\t\tApplication of structure‐based focusing to the estrogen receptor\n\t\t\n\t\t\tPaulDKirchhoff\n\t\t\n\t\t\n\t\t\tRobBrown\n\t\t\n\t\t\n\t\t\tScottKahn\n\t\t\n\t\t\n\t\t\tMarvinWaldman\n\t\t\n\t\t\n\t\t\tCMVenkatachalam\n\t\t\n\t\t10.1002/jcc.1060.abs\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t22\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4c8f47723bebd8667116c"},"refKey":33},
{"_key":"60c4c9557723bebd8667119b","_id":"references/60c4c9557723bebd8667119b","_rev":"_cfFlbnS---","tei":"\n\t\n\t\tOPLS3: A Force Field Providing Broad Coverage of Drug-like Small Molecules and Proteins\n\t\t\n\t\t\tEdwardHarder\n\t\t\n\t\t\n\t\t\tWolfgangDamm\n\t\t\n\t\t\n\t\t\tJonMaple\n\t\t\n\t\t\n\t\t\tChuanjieWu\n\t\t\n\t\t\n\t\t\tMarkReboul\n\t\t\n\t\t\n\t\t\tJinYuXiang\n\t\t\n\t\t\n\t\t\tLingleWang\n\t\t\n\t\t\n\t\t\tDmitryLupyan\n\t\t\n\t\t\n\t\t\tMarkusKDahlgren\n\t\t\n\t\t\n\t\t\tJenniferLKnight\n\t\t\n\t\t\n\t\t\tJosephWKaus\n\t\t\n\t\t\n\t\t\tDavidSCerutti\n\t\t\n\t\t\n\t\t\tGoranKrilov\n\t\t\n\t\t\n\t\t\tWilliamLJorgensen\n\t\t\n\t\t\n\t\t\tRobertAbel\n\t\t\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t10.1021/acs.jctc.5b00864\n\t\t26584231\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c4c9557723bebd8667119a"},"refKey":20},
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{"_key":"60c4c9f77723bebd866711f0","_id":"references/60c4c9f77723bebd866711f0","_rev":"_cfFlbnq---","tei":"\n\t\n\t\tA Modular Type Reconstruction Algorithm\n\t\t\n\t\t\tFlorianRabe\n\t\t\n\t\t10.1145/3234693\n\t\n\t\n\t\tACM Transactions on Computational Logic\n\t\tTOCL\n\t\t1529-3785\n\t\t\n\t\t\t19\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c4c9f77723bebd866711ee"},"refKey":15},
{"_key":"60c4ca117723bebd86671205","_id":"references/60c4ca117723bebd86671205","_rev":"_cfFlbn2---","tei":"\n\t\n\t\tComputational approach to study the synthesis of noscapine and potential of stereoisomers against nsP3 protease of CHIKV\n\t\t\n\t\t\tPSingh\n\t\t\n\t\t\n\t\t\tDKumar\n\t\t\n\t\t\n\t\t\tVKVishvakarma\n\t\t\n\t\t\n\t\t\tPYadav\n\t\t\n\t\t\n\t\t\tAJayaraj\n\t\t\n\t\t\n\t\t\tKKumari\n\t\t\n\t\t10.1016/j.heliyon.2019.e02795\n\t\t\n\t\n\t\n\t\tHeliyon\n\t\t\n\t\t\t5\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ca117723bebd86671204"},"refKey":47},
{"_key":"60c4ca117723bebd86671206","_id":"references/60c4ca117723bebd86671206","_rev":"_cfFlboC---","tei":"\n\t\n\t\tStructural origins of RF3/NaRF4 nanocrystal precipitation from phase-separated SiO2-Al2O3-RF3-NaF Glasses: A molecular dynamics simulation study\n\t\t\n\t\t\tJZhao\n\t\t\n\t\t\n\t\t\tXXu\n\t\t\n\t\t\n\t\t\tPLi\n\t\t\n\t\t\n\t\t\tXLi\n\t\t\n\t\t\n\t\t\tDChen\n\t\t\n\t\t\n\t\t\tXQiao\n\t\t\n\t\t\n\t\t\tJDu\n\t\t\n\t\t\n\t\t\tGQian\n\t\t\n\t\t\n\t\t\tXFan\n\t\t\n\t\t10.1021/acs.jpcb.9b01674\n\t\t\n\t\n\t\n\t\tThe Journal of Physical Chemistry B\n\t\t\n\t\t\t123\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ca117723bebd86671204"},"refKey":52},
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{"_key":"60c4ca137723bebd8667121e","_id":"references/60c4ca137723bebd8667121e","_rev":"_cfFlboa---","tei":"\n\t\n\t\tFastTree 2 -approximately maximumlikelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ca137723bebd8667121c"},"refKey":40},
{"_key":"60c4ca137723bebd8667121f","_id":"references/60c4ca137723bebd8667121f","_rev":"_cfFlbom---","tei":"\n\t\n\t\tFasttree: computing large minimum evolution trees with profiles instead of a distance matrix\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ca137723bebd8667121c"},"refKey":41},
{"_key":"60c4ca137723bebd86671220","_id":"references/60c4ca137723bebd86671220","_rev":"_cfFlboy---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ca137723bebd8667121c"},"refKey":39},
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{"_key":"60c4ca657723bebd86671275","_id":"references/60c4ca657723bebd86671275","_rev":"_cfFlbpW---","tei":"\n\t\n\t\tESMO-Magnitude of Clinical Benefit Scale version 1.1\n\t\t\n\t\t\tNICherny\n\t\t\n\t\t\n\t\t\tUDafni\n\t\t\n\t\t\n\t\t\tJBogaerts\n\t\t\n\t\t\n\t\t\tNJLatino\n\t\t\n\t\t\n\t\t\tGPentheroudakis\n\t\t\n\t\t\n\t\t\tJ-YDouillard\n\t\t\n\t\t\n\t\t\tJTabernero\n\t\t\n\t\t\n\t\t\tCZielinski\n\t\t\n\t\t\n\t\t\tMJPiccart\n\t\t\n\t\t\n\t\t\tEG EDe Vries\n\t\t\n\t\t10.1093/annonc/mdx310\n\t\t28945867\n\t\n\t\n\t\tAnnals of Oncology\n\t\t0923-7534\n\t\t1569-8041\n\t\t\n\t\t\t28\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4ca657723bebd86671274"},"refKey":12},
{"_key":"60c4cae07723bebd866712af","_id":"references/60c4cae07723bebd866712af","_rev":"_cfFlbpi---","tei":"\n\t\n\t\tMaximum entropy modeling of species geographic distributions\n\t\t\n\t\t\tSJPhillips\n\t\t\n\t\t\n\t\t\tRPAnderson\n\t\t\n\t\t\n\t\t\tRESchapire\n\t\t\n\t\n\t\n\t\tEcol Model\n\t\t\n\t\t\t190\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4cae07723bebd866712ae"},"refKey":17},
{"_key":"60c4cb117723bebd866712db","_id":"references/60c4cb117723bebd866712db","_rev":"_cfFlbpq---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tPavolSkubák\n\t\t\n\t\t\n\t\t\tAndreyALebedev\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tRobertoASteiner\n\t\t\n\t\t\n\t\t\tRobertANicholls\n\t\t\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tFeiLong\n\t\t\n\t\t\n\t\t\tAlexeiAVagin\n\t\t\n\t\t10.1107/s0907444911001314\n\t\t21460454\n\t\tPMC3069751\n\t\tark:/67375/WNG-803CZV1W-1\n\t\tA0888E7BC1F9B7777B324A0979A74D1B188F073A\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c4cb117723bebd866712da"},"refKey":29},
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{"_key":"60c4cd597723bebd866715a4","_id":"references/60c4cd597723bebd866715a4","_rev":"_cfFlbzW---","tei":"\n\t\n\t\tProtein Tertiary Structure Modeling\n\t\t\n\t\t\tNicolasGuex\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\n\t\t\n\t\t\tManuelCPeitsch\n\t\t\n\t\t10.1002/0471140864.ps0208s23\n\t\t18429155\n\t\t2.8.1-2.8.17\n\t\t\n\t\n\t\n\t\tCurr Protoc Protein Sci\n\t\t\n\t\t\t23\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c4cd597723bebd8667159f"},"refKey":56},
{"_key":"60c4cd597723bebd866715a5","_id":"references/60c4cd597723bebd866715a5","_rev":"_cfFlbzi---","tei":"\n\t\n\t\tComparative Protein Structure Modeling: Introduction and Practical Examples with Modeller\n\t\t\n\t\t\tRobertoSánchez\n\t\t\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t10.1385/1-59259-368-2:97\n\t\t11084904\n\t\n\t\n\t\tProtein Structure Prediction\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t2000\n\t\t\t143\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4cd597723bebd8667159f"},"refKey":46},
{"_key":"60c4cd597723bebd866715a6","_id":"references/60c4cd597723bebd866715a6","_rev":"_cfFlbzu---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system, version 1.1. Schrödinger LLC\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t10.1038/hr.2014.17\n\t\t\n\t\t\n\t\t\t\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c4cd597723bebd8667159f"},"refKey":57},
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{"_key":"60c4ce327723bebd86671646","_id":"references/60c4ce327723bebd86671646","_rev":"_cfFlb0m---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4ce327723bebd86671645"},"refKey":19},
{"_key":"60c4ce327723bebd86671647","_id":"references/60c4ce327723bebd86671647","_rev":"_cfFlb0y---","tei":"\n\t\n\t\tREDCap Consortium. The REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tLO'neal\n\t\t\n\t\t\n\t\t\tLMcleod\n\t\t\n\t\t\n\t\t\tGDelacqua\n\t\t\n\t\t\n\t\t\tFDelacqua\n\t\t\n\t\t\n\t\t\tJKirby\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\n\t\n\t\tJ. Biomed. Inform\n\t\t\n\t\t\t95\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ce327723bebd86671645"},"refKey":20},
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{"_key":"60c4ce3a7723bebd86671651","_id":"references/60c4ce3a7723bebd86671651","_rev":"_cfFlb1S---","tei":"\n\t\n\t\tImprovement of Phylogenies after Removing Divergent and Ambiguously Aligned Blocks from Protein Sequence Alignments\n\t\t\n\t\t\tGerardTalavera\n\t\t\n\t\t\n\t\t\tJoseCastresana\n\t\t\n\t\t10.1080/10635150701472164\n\t\t17654362\n\t\tark:/67375/HXZ-BPXFB4NP-V\n\t\t7F66247F6AFD2D644E2E779ED931A9CAA1AC8D80\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t56\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4ce3a7723bebd8667164f"},"refKey":81},
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{"_key":"60c4ce6d7723bebd866716b0","_id":"references/60c4ce6d7723bebd866716b0","_rev":"_cfFlb3S---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t5\n\t\t\t113\n\t\t\n\t\n\n","document":{"$oid":"60c4ce6d7723bebd866716ad"},"refKey":53},
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{"_key":"60c4ce737723bebd866716c8","_id":"references/60c4ce737723bebd866716c8","_rev":"_cfFlb4K---","tei":"\n\t\n\t\tPerformance evaluation of multiple precision matrix multiplications using parallelized Strassen and Winograd algorithms\n\t\t\n\t\t\tTomonoriKouya\n\t\t\n\t\t10.14495/jsiaml.8.21\n\t\t\n\t\n\t\n\t\tJSIAM Letters\n\t\tJSIAM Letters\n\t\t1883-0609\n\t\t1883-0617\n\t\t\n\t\t\t8\n\t\t\t0\n\t\t\t\n\t\t\t\n\t\t\tThe Japan Society for Industrial and Applied Mathematics\n\t\t\n\t\n\n","document":{"$oid":"60c4ce737723bebd866716c5"},"refKey":7},
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{"_key":"60c4cf067723bebd86671756","_id":"references/60c4cf067723bebd86671756","_rev":"_cfFlb5m---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing (2020)\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\n\tAvailable online at\n\n","document":{"$oid":"60c4cf067723bebd86671755"},"refKey":12},
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{"_key":"60c4d0f57723bebd8667197d","_id":"references/60c4d0f57723bebd8667197d","_rev":"_cfFlcAW---","tei":"\n\t\n\t\t20 years of the SMART protein domain annotation resource\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d0f57723bebd8667197c"},"refKey":45},
{"_key":"60c4d0f57723bebd8667197e","_id":"references/60c4d0f57723bebd8667197e","_rev":"_cfFlcAe---","tei":"\n\t\n\t\tAnalysis Tool Web Services from the EMBL-EBI\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tMUludag\n\t\t\n\t\t\n\t\t\tSSquizzato\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c4d0f57723bebd8667197c"},"refKey":46},
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{"_key":"60c4d10e7723bebd8667199f","_id":"references/60c4d10e7723bebd8667199f","_rev":"_cfFlcBO---","tei":"\n\t\n\t\tHigh-Throughput parallel blind Virtual Screening using BINDSURF\n\t\t\n\t\t\tIreneSánchez-Linares\n\t\t\n\t\t\n\t\t\tHoracioPérez-Sánchez\n\t\t\n\t\t\n\t\t\tJoséMCecilia\n\t\t\n\t\t\n\t\t\tJoséMGarcía\n\t\t\n\t\t10.1186/1471-2105-13-s14-s13\n\t\t23095663\n\t\tPMC3504923\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\tSuppl 14\n\t\t\tS13\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSuppl 14\n\n","document":{"$oid":"60c4d10e7723bebd8667199d"},"refKey":31},
{"_key":"60c4d1257723bebd866719b4","_id":"references/60c4d1257723bebd866719b4","_rev":"_cfFlcBa---","tei":"\n\t\n\t\tAn Exact Nonparametric Method for Inferring Mosaic Structure in Sequence Triplets\n\t\t\n\t\t\tMaciejFBoni\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t\n\t\t\tMarcusWFeldman\n\t\t\n\t\t10.1534/genetics.106.068874\n\t\t17409078\n\t\tPMC1894573\n\t\t\n\t\n\t\n\t\tGenetics\n\t\tGenetics\n\t\t0016-6731\n\t\t1943-2631\n\t\t\n\t\t\t176\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tGenetics Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c4d1257723bebd866719b3"},"refKey":2},
{"_key":"60c4d1257723bebd866719b5","_id":"references/60c4d1257723bebd866719b5","_rev":"_cfFlcBm---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d1257723bebd866719b3"},"refKey":5},
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{"_key":"60c4d1257723bebd866719bc","_id":"references/60c4d1257723bebd866719bc","_rev":"_cfFlcCK---","tei":"\n\t\n\t\tGraph-based genome alignment and genotyping with HISAT2 and HISAT-genotype\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tJMPaggi\n\t\t\n\t\t\n\t\t\tCPark\n\t\t\n\t\t\n\t\t\tCBennett\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t10.1038/s41587-019-0201-4\n\t\n\t\n\t\tNat Bio technol\n\t\t\n\t\t\t37\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d1257723bebd866719b9"},"refKey":62},
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{"_key":"60c4d2ba7723bebd86671b46","_id":"references/60c4d2ba7723bebd86671b46","_rev":"_cfFlcKC---","tei":"\n\t\n\t\tBayesian phylogeography finds its roots\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tPLOS Comput Biol\n\t\t\n\t\t\t5\n\t\t\t9\n\t\t\te1000520\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d2ba7723bebd86671b42"},"refKey":35},
{"_key":"60c4d2ba7723bebd86671b47","_id":"references/60c4d2ba7723bebd86671b47","_rev":"_cfFlcKO---","tei":"\n\t\n\t\tThe Vienna RNA Websuite\n\t\t\n\t\t\tARGruber\n\t\t\n\t\t\n\t\t\tRLorenz\n\t\t\n\t\t\n\t\t\tSHBernhart\n\t\t\n\t\t\n\t\t\tRNeubock\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t10.1093/nar/gkn188\n\t\t18424795\n\t\tPMC2447809\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4d2ba7723bebd86671b43"},"refKey":37},
{"_key":"60c4d2ba7723bebd86671b49","_id":"references/60c4d2ba7723bebd86671b49","_rev":"_cfFlcKa---","tei":"\n\t\n\t\tSecondary Structure Prediction for Aligned RNA Sequences\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t\n\t\t\tMartinFekete\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t10.1016/s0022-2836(02)00308-x\n\t\t12079347\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t319\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4d2ba7723bebd86671b43"},"refKey":38},
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{"_key":"60c4d36b7723bebd86671bde","_id":"references/60c4d36b7723bebd86671bde","_rev":"_cfFlcLW---","tei":"\n\t\n\t\tShort term effects of air pollution on health: a European approach using epidemiologic time series data: the APHEA protocol.\n\t\t\n\t\t\tKKatsouyanni\n\t\t\n\t\t\n\t\t\tJSchwartz\n\t\t\n\t\t\n\t\t\tCSpix\n\t\t\n\t\t\n\t\t\tGTouloumi\n\t\t\n\t\t\n\t\t\tDZmirou\n\t\t\n\t\t\n\t\t\tAZanobetti\n\t\t\n\t\t\n\t\t\tBWojtyniak\n\t\t\n\t\t\n\t\t\tJMVonk\n\t\t\n\t\t\n\t\t\tATobias\n\t\t\n\t\t\n\t\t\tAPonka\n\t\t\n\t\t\n\t\t\tSMedina\n\t\t\n\t\t\n\t\t\tLBacharova\n\t\t\n\t\t\n\t\t\tHRAnderson\n\t\t\n\t\t10.1136/jech.50.suppl_1.s12\n\t\t8758218\n\t\tPMC1060882\n\t\tark:/67375/NVC-XV90S4K2-X\n\t\t8BB40F9E52E9977BC171E93F76FD5272A242AE04\n\t\t\n\t\n\t\n\t\tJournal of Epidemiology & Community Health\n\t\tJournal of Epidemiology & Community Health\n\t\t0143-005X\n\t\t\n\t\t\t50\n\t\t\tSuppl 1\n\t\t\t\n\t\t\t\n\t\t\tBMJ\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c4d36a7723bebd86671bdd"},"refKey":8},
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{"_key":"60c4d3977723bebd86671c00","_id":"references/60c4d3977723bebd86671c00","_rev":"_cfFlcMC---","tei":"\n\t\n\t\tThe GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function\n\t\t\n\t\t\tDWarde-Farley\n\t\t\n\t\t\n\t\t\tSLDonaldson\n\t\t\n\t\t\n\t\t\tOComes\n\t\t\n\t\t\n\t\t\tKZuberi\n\t\t\n\t\t\n\t\t\tRBadrawi\n\t\t\n\t\t\n\t\t\tPChao\n\t\t\n\t\t\n\t\t\tMFranz\n\t\t\n\t\t\n\t\t\tCGrouios\n\t\t\n\t\t\n\t\t\tFKazi\n\t\t\n\t\t\n\t\t\tCTLopes\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d3977723bebd86671bfc"},"refKey":28},
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{"_key":"60c4d3977723bebd86671c02","_id":"references/60c4d3977723bebd86671c02","_rev":"_cfFlcMa---","tei":"\n\t\n\t\tQuantitative predictions of protein interactions with long noncoding RNAs\n\t\t\n\t\t\tDavideCirillo\n\t\t\n\t\t\n\t\t\tMarioBlanco\n\t\t\n\t\t\n\t\t\tAlexandrosArmaos\n\t\t\n\t\t\n\t\t\tAndreasBuness\n\t\t\n\t\t\n\t\t\tPhilipAvner\n\t\t\n\t\t\n\t\t\tMitchellGuttman\n\t\t\n\t\t\n\t\t\tAndreaCerase\n\t\t\n\t\t\n\t\t\tGianGaetanoTartaglia\n\t\t\t0000-0001-7524-6310\n\t\t\n\t\t10.1038/nmeth.4100\n\t\t28032625\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4d3977723bebd86671bfc"},"refKey":18},
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{"_key":"60c4d3b77723bebd86671c30","_id":"references/60c4d3b77723bebd86671c30","_rev":"_cfFlcNW---","tei":"\n\t\n\t\tAn open graph visualization system and its applications to software engineering\n\t\t\n\t\t\tEmdenRGansner\n\t\t\n\t\t\n\t\t\tStephenCNorth\n\t\t\n\t\t10.1002/1097-024x(200009)30:11<1203::aid-spe338>3.3.co;2-e\n\t\t\n\t\n\t\n\t\tSoftware: Practice and Experience\n\t\tSoftw: Pract. Exper.\n\t\t0038-0644\n\t\t1097-024X\n\t\t\n\t\t\t30\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4d3b77723bebd86671c2b"},"refKey":3},
{"_key":"60c4d3b77723bebd86671c31","_id":"references/60c4d3b77723bebd86671c31","_rev":"_cfFlcNe---","tei":"\n\t\n\t\tOptimising Enabling Tests and Unfoldings of Algebraic System Nets\n\t\t\n\t\t\tMarkoMäkelä\n\t\t\n\t\t10.1007/3-540-45740-2_17\n\t\tark:/67375/HCB-9KRPW1NP-J\n\t\tA8E76E89C00ABE4B9205EC4E79F7A15ECA923C78\n\t\n\t\n\t\tApplications and Theory of Petri Nets 2001\n\t\t\t\t\n\t\t\tJ.-MColom\n\t\t\tMKoutny\n\t\t\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t2075\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d3b77723bebd86671c2b"},"refKey":27},
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{"_key":"60c4d3d57723bebd86671c5a","_id":"references/60c4d3d57723bebd86671c5a","_rev":"_cfFlcOC---","tei":"\n\t\n\t\tcytoHubba: identifying hub objects and sub-networks from complex interactome\n\t\t\n\t\t\tCHChin\n\t\t\n\t\t\n\t\t\tSHChen\n\t\t\n\t\t\n\t\t\tHHWu\n\t\t\n\t\t\n\t\t\tCWHo\n\t\t\n\t\t\n\t\t\tMTKo\n\t\t\n\t\t\n\t\t\tCYLin\n\t\t\n\t\n\t\n\t\tBMC Syst Biol\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\tS11\n\t\t\t\n\t\t\n\t\n\tSuppl. Suppl\n\n","document":{"$oid":"60c4d3d57723bebd86671c58"},"refKey":12},
{"_key":"60c4d3dc7723bebd86671c67","_id":"references/60c4d3dc7723bebd86671c67","_rev":"_cfFlcOO---","tei":"\n\t\n\t\tThe Amber biomolecular simulation programs\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tIii\n\t\t\n\t\t\n\t\t\tTDarden\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tKMMerzJr\n\t\t\n\t\t\n\t\t\tAOnufriev\n\t\t\n\t\t\n\t\t\tCSimmerling\n\t\t\n\t\t\n\t\t\tBWang\n\t\t\n\t\t\n\t\t\tRWoods\n\t\t\n\t\n\t\n\t\tJ. Computat. Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d3dc7723bebd86671c66"},"refKey":15},
{"_key":"60c4d3dc7723bebd86671c68","_id":"references/60c4d3dc7723bebd86671c68","_rev":"_cfFlcOa---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d3dc7723bebd86671c66"},"refKey":16},
{"_key":"60c4d3dc7723bebd86671c69","_id":"references/60c4d3dc7723bebd86671c69","_rev":"_cfFlcOm---","tei":"\n\t\n\t\tProtein secondary structure prediction based on positionspecific scoring matrices\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t292\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d3dc7723bebd86671c66"},"refKey":12},
{"_key":"60c4d3dc7723bebd86671c6a","_id":"references/60c4d3dc7723bebd86671c6a","_rev":"_cfFlcOu---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d3dc7723bebd86671c66"},"refKey":11},
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{"_key":"60c4d4597723bebd86671cd2","_id":"references/60c4d4597723bebd86671cd2","_rev":"_cfFlcPS---","tei":"\n\t\n\t\tRoutine Microsecond Molecular Dynamics Simulations with AMBER on GPUs. 1. Generalized Born\n\t\t\n\t\t\tAWGötz\n\t\t\n\t\t\n\t\t\tMJWilliamson\n\t\t\n\t\t\n\t\t\tDXu\n\t\t\n\t\t\n\t\t\tDPoole\n\t\t\n\t\t\n\t\t\tLeGrand\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\t\n\t\t\tRC\n\t\t\n\t\n\t\n\t\tJ Chem Theory Comput\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d4597723bebd86671cd1"},"refKey":25},
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{"_key":"60c4d45e7723bebd86671ce6","_id":"references/60c4d45e7723bebd86671ce6","_rev":"_cfFlcPq---","tei":"\n\t\n\t\tStructure validation by Calpha geometry: phi,psi and Cbeta deviation\n\t\t\n\t\t\tSCLovell\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tWBArendall 3rd\n\t\t\n\t\t\n\t\t\tPIDe Bakker\n\t\t\n\t\t\n\t\t\tJMWord\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t50\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d45e7723bebd86671ce4"},"refKey":24},
{"_key":"60c4d45e7723bebd86671ce7","_id":"references/60c4d45e7723bebd86671ce7","_rev":"_cfFlcPy---","tei":"\n\t\n\t\tBimodal protein solubility distribution revealed by an aggregation analysis of the entire ensemble of Escherichia coli proteins\n\t\t\n\t\t\tTNiwa\n\t\t\n\t\t\n\t\t\tB-WYing\n\t\t\n\t\t\n\t\t\tKSaito\n\t\t\n\t\t\n\t\t\tWJin\n\t\t\n\t\t\n\t\t\tSTakada\n\t\t\n\t\t\n\t\t\tTUeda\n\t\t\n\t\t\n\t\t\tHTaguchi\n\t\t\n\t\t10.1073/pnas.0811922106\n\t\t19251648\n\t\tPMC2657415\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t106\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c4d45e7723bebd86671ce4"},"refKey":23},
{"_key":"60c4d45e7723bebd86671ce8","_id":"references/60c4d45e7723bebd86671ce8","_rev":"_cfFlcQ----","tei":"\n\t\n\t\tVERIFY3D: assessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\t\n\t\t\tRLuthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t277\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d45e7723bebd86671ce4"},"refKey":25},
{"_key":"60c4d45e7723bebd86671ce9","_id":"references/60c4d45e7723bebd86671ce9","_rev":"_cfFlcQK---","tei":"\n\t\n\t\tAllergenFP: allergenicity prediction by descriptor fingerprints\n\t\t\n\t\t\tIDimitrov\n\t\t\n\t\t\n\t\t\tLNaneva\n\t\t\n\t\t\n\t\t\tIDoytchinova\n\t\t\n\t\t\n\t\t\tIBangov\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d45e7723bebd86671ce4"},"refKey":34},
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{"_key":"60c4d45e7723bebd86671ceb","_id":"references/60c4d45e7723bebd86671ceb","_rev":"_cfFlcQi---","tei":"\n\t\n\t\tProtein identification and analysis tools on the ExPASy server\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\t\n\t\t\tSEDuvaud\n\t\t\n\t\t\n\t\t\tMRWilkins\n\t\t\n\t\t\n\t\t\tRDAppel\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\n\t\n\t\tThe Proteomics Protocols Handbook\n\t\t\t\t\n\t\t\tJMWalker\n\t\t\n\t\tTotowa, NJ\n\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d45e7723bebd86671ce4"},"refKey":15},
{"_key":"60c4d46f7723bebd86671d29","_id":"references/60c4d46f7723bebd86671d29","_rev":"_cfFlcQy---","tei":"\n\t\n\t\tCross-Modality Image Synthesis from Unpaired Data Using CycleGAN\n\t\t\n\t\t\tYutaHiasa\n\t\t\n\t\t\n\t\t\tYoshitoOtake\n\t\t\n\t\t\n\t\t\tMasakiTakao\n\t\t\n\t\t\n\t\t\tTakumiMatsuoka\n\t\t\n\t\t\n\t\t\tKazumaTakashima\n\t\t\n\t\t\n\t\t\tAaronCarass\n\t\t\n\t\t\n\t\t\tJerryLPrince\n\t\t\n\t\t\n\t\t\tNobuhikoSugano\n\t\t\n\t\t\n\t\t\tYoshinobuSato\n\t\t\n\t\t10.1007/978-3-030-00536-8_4\n\t\n\t\n\t\tSimulation and Synthesis in Medical Imaging\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d46f7723bebd86671d28"},"refKey":31},
{"_key":"60c4d46f7723bebd86671d2a","_id":"references/60c4d46f7723bebd86671d2a","_rev":"_cfFlcR6---","tei":"\n\t\n\t\tUnpaired Brain MR-to-CT Synthesis Using a Structure-Constrained CycleGAN\n\t\t\n\t\t\tHeranYang\n\t\t\n\t\t\n\t\t\tJianSun\n\t\t\n\t\t\n\t\t\tAaronCarass\n\t\t\n\t\t\n\t\t\tCanZhao\n\t\t\n\t\t\n\t\t\tJunghoonLee\n\t\t\n\t\t\n\t\t\tZongbenXu\n\t\t\n\t\t\n\t\t\tJerryPrince\n\t\t\n\t\t10.1007/978-3-030-00889-5_20\n\t\t\n\t\n\t\n\t\tDeep Learning in Medical Image Analysis and Multimodal Learning for Clinical Decision Support\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d46f7723bebd86671d28"},"refKey":47},
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{"_key":"60c4d4a57723bebd86671d67","_id":"references/60c4d4a57723bebd86671d67","_rev":"_cfFlcWW---","tei":"\n\t\n\t\tImproved RNA secondary structure prediction by maximizing expected pair accuracy\n\t\t\n\t\t\tZJLu\n\t\t\n\t\t\n\t\t\tJWGloor\n\t\t\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t10.1261/rna.1643609\n\t\t19703939\n\t\tPMC2743040\n\t\t\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t15\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4d4a57723bebd86671d60"},"refKey":45},
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{"_key":"60c4d5247723bebd86671dc7","_id":"references/60c4d5247723bebd86671dc7","_rev":"_cfFlcXi---","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 2. Enrichment Factors in Database Screening\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tHegeSBeard\n\t\t\n\t\t\n\t\t\tLeahLFrye\n\t\t\n\t\t\n\t\t\tWThomasPollard\n\t\t\n\t\t\n\t\t\tJayLBanks\n\t\t\n\t\t10.1021/jm030644s\n\t\t15027866\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c4d5247723bebd86671dc4"},"refKey":38},
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{"_key":"60c4d5a87723bebd86671e15","_id":"references/60c4d5a87723bebd86671e15","_rev":"_cfFlcZG---","tei":"\n\t\n\t\tGraph-based genome alignment and genotyping with hisat2 and hisat-genotype\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tJMPaggi\n\t\t\n\t\t\n\t\t\tCPark\n\t\t\n\t\t\n\t\t\tCBennett\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\t\n\t\t\t37\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d5a87723bebd86671e14"},"refKey":11},
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{"_key":"60c4d5ab7723bebd86671e23","_id":"references/60c4d5ab7723bebd86671e23","_rev":"_cfFlcZi---","tei":"\n\t\n\t\tipw : an R package for inverse probability weighting\n\t\t\n\t\t\tWMVan Der Wal\n\t\t\n\t\t\n\t\t\tRBGeskus\n\t\t\n\t\t10.18637/jss.v043.i13\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d5ab7723bebd86671e22"},"refKey":23},
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{"_key":"60c4d5c47723bebd86671e39","_id":"references/60c4d5c47723bebd86671e39","_rev":"_cfFlcaO---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4d5c47723bebd86671e37"},"refKey":19},
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{"_key":"60c4d64b7723bebd86671e99","_id":"references/60c4d64b7723bebd86671e99","_rev":"_cfFlcci---","tei":"\n\t\n\t\tPANTHER: A Library of Protein Families and Subfamilies Indexed by Function\n\t\t\n\t\t\tPDThomas\n\t\t\n\t\t\n\t\t\tMJCampbell\n\t\t\n\t\t\n\t\t\tAKejariwal\n\t\t\n\t\t\n\t\t\tHMi\n\t\t\n\t\t\n\t\t\tBKarlak\n\t\t\n\t\t\n\t\t\tRDaverman\n\t\t\n\t\t\n\t\t\tKDiemer\n\t\t\n\t\t\n\t\t\tAMuruganujan\n\t\t\n\t\t\n\t\t\tANarechania\n\t\t\n\t\t10.1101/gr.772403\n\t\t12952881\n\t\tPMC403709\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t13\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4d64b7723bebd86671e93"},"refKey":30},
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{"_key":"60c4d6867723bebd86671ef2","_id":"references/60c4d6867723bebd86671ef2","_rev":"_cfFlcdW---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis: A regression-based approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe Guilford Press\n\t\t\tNew York\n\t\t\n\t\n\t2nd ed.\n\n","document":{"$oid":"60c4d6867723bebd86671ef1"},"refKey":27},
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{"_key":"60c4d8c77723bebd86672126","_id":"references/60c4d8c77723bebd86672126","_rev":"_cfFlcsq---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4d8c77723bebd86672125"},"refKey":53},
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{"_key":"60c4d9127723bebd8667216f","_id":"references/60c4d9127723bebd8667216f","_rev":"_cfFlcuq---","tei":"\n\t\n\t\tA new approach to analyse longitudinal epidemiological data with an excess of zeros\n\t\t\n\t\t\tAletteSSpriensma\n\t\t\n\t\t\n\t\t\tTiborRsHajos\n\t\t\n\t\t\n\t\t\tMichielRDe Boer\n\t\t\n\t\t\n\t\t\tMartijnWHeymans\n\t\t\n\t\t\n\t\t\tJosWrTwisk\n\t\t\n\t\t10.1186/1471-2288-13-27\n\t\t23425202\n\t\tPMC3599839\n\t\t\n\t\n\t\n\t\tBMC Medical Research Methodology\n\t\tBMC Med Res Methodol\n\t\t1471-2288\n\t\t\n\t\t\t13\n\t\t\t1\n\t\t\t27\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4d9127723bebd8667216e"},"refKey":19},
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{"_key":"60c4da307723bebd86672385","_id":"references/60c4da307723bebd86672385","_rev":"_cfFlc2C---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4da307723bebd86672384"},"refKey":34},
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{"_key":"60c4da307723bebd86672387","_id":"references/60c4da307723bebd86672387","_rev":"_cfFlc2a---","tei":"\n\t\n\t\tCHARMM-GUI: A web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tTaehoonKim\n\t\t\n\t\t\n\t\t\tVidyashankaraGIyer\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.20945\n\t\t18351591\n\t\tark:/67375/WNG-B51MBQFN-X\n\t\t3C9C30FE6273AB7B8632EBBA4EF6F91FEFB8F531\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4da307723bebd86672384"},"refKey":16},
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{"_key":"60c4dbd87723bebd86672502","_id":"references/60c4dbd87723bebd86672502","_rev":"_cfFldAy---","tei":"\n\t\n\t\tAutomatic comparison and classification of protein structures\n\t\t\n\t\t\tJanneRavantti\n\t\t\n\t\t\n\t\t\tDennisBamford\n\t\t\n\t\t\n\t\t\tDavidIStuart\n\t\t\n\t\t10.1016/j.jsb.2013.05.007\n\t\t23707633\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t183\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4dbd87723bebd866724f6"},"refKey":104},
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{"_key":"60c4dd387723bebd866725e9","_id":"references/60c4dd387723bebd866725e9","_rev":"_cfFldFi---","tei":"\n\t\n\t\tMicrobial gene identification using interpolated Markov models\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tSKasif\n\t\t\n\t\t\n\t\t\tOWhite\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dd387723bebd866725e8"},"refKey":10},
{"_key":"60c4dd387723bebd866725ea","_id":"references/60c4dd387723bebd866725ea","_rev":"_cfFldF6---","tei":"\n\t\n\t\tZCURVE: a new system for recognizing protein-coding genes in bacterial and archaeal genomes\n\t\t\n\t\t\tF-BBGuo\n\t\t\n\t\t\n\t\t\tHYOu\n\t\t\n\t\t\n\t\t\tC.-TZhang\n\t\t\n\t\t10.1093/nar/gkg254\n\t\t12626720\n\t\tPMC152858\n\t\tark:/67375/HXZ-QSL55SFP-8\n\t\t8B63197F0991B75A8213382E8D1362204FEBCCC4\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4dd387723bebd866725e8"},"refKey":11},
{"_key":"60c4dd387723bebd866725eb","_id":"references/60c4dd387723bebd866725eb","_rev":"_cfFldGO---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dd387723bebd866725e8"},"refKey":16},
{"_key":"60c4dd437723bebd86672607","_id":"references/60c4dd437723bebd86672607","_rev":"_cfFldGi---","tei":"\n\t\n\t\tData, disease and diplomacy: GISAID's innovative contribution to global health\n\t\t\n\t\t\tStefanElbe\n\t\t\n\t\t\n\t\t\tGemmaBuckland-Merrett\n\t\t\n\t\t10.1002/gch2.1018\n\t\t\n\t\n\t\n\t\tGlobal Challenges\n\t\tGlobal Challenges\n\t\t2056-6646\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4dd437723bebd86672606"},"refKey":1},
{"_key":"60c4dd437723bebd86672608","_id":"references/60c4dd437723bebd86672608","_rev":"_cfFldG2---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLWang Le\n\t\t\n\t\t\n\t\t\tMCoon\n\t\t\n\t\t\n\t\t\tTNguyen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\n\t\n\t\tFly (Austin)\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dd437723bebd86672606"},"refKey":10},
{"_key":"60c4dd5f7723bebd8667261b","_id":"references/60c4dd5f7723bebd8667261b","_rev":"_cfFldHK---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dd5f7723bebd8667261a"},"refKey":4},
{"_key":"60c4dd617723bebd8667261e","_id":"references/60c4dd617723bebd8667261e","_rev":"_cfFldHa---","tei":"\n\t\n\t\tIBM SPSS statistics for windows, version 24.0\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dd617723bebd8667261d"},"refKey":36},
{"_key":"60c4ddb67723bebd8667263e","_id":"references/60c4ddb67723bebd8667263e","_rev":"_cfFldHq---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ddb67723bebd8667263d"},"refKey":33},
{"_key":"60c4ddd17723bebd8667264c","_id":"references/60c4ddd17723bebd8667264c","_rev":"_cfFldI----","tei":"\n\t\n\t\tCombinatorial sketching for finite programs\n\t\t\n\t\t\tArmandoSolar-Lezama\n\t\t\n\t\t\n\t\t\tLiviuTancau\n\t\t\n\t\t\n\t\t\tRastislavBodik\n\t\t\n\t\t\n\t\t\tSanjitSeshia\n\t\t\n\t\t\n\t\t\tVijaySaraswat\n\t\t\n\t\t10.1145/1168919.1168907\n\t\n\t\n\t\tACM SIGARCH Computer Architecture News\n\t\tSIGARCH Comput. Archit. News\n\t\t0163-5964\n\t\t\n\t\t\t34\n\t\t\t5\n\t\t\t404\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c4ddd17723bebd8667264b"},"refKey":20},
{"_key":"60c4ddd17723bebd8667264d","_id":"references/60c4ddd17723bebd8667264d","_rev":"_cfFldIO---","tei":"\n\t\n\t\tKeynote talk I: Syntax-guided synthesis\n\t\t\n\t\t\tRajeevAlur\n\t\t\n\t\t\n\t\t\tRBodík\n\t\t\n\t\t\n\t\t\tGJuniwal\n\t\t\n\t\t\n\t\t\tMM KMartin\n\t\t\n\t\t\n\t\t\tMRaghothaman\n\t\t\n\t\t\n\t\t\tSASeshia\n\t\t\n\t\t\n\t\t\tRSingh\n\t\t\n\t\t\n\t\t\tASolar-Lezama\n\t\t\n\t\t\n\t\t\tETorlak\n\t\t\n\t\t\n\t\t\tAUdupa\n\t\t\n\t\t10.1109/memcod.2015.7340460\n\t\n\t\n\t\t2015 ACM/IEEE International Conference on Formal Methods and Models for Codesign (MEMOCODE)\n\t\t\t\tPortland, OR, USA\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ddd17723bebd8667264b"},"refKey":1},
{"_key":"60c4ddd17723bebd8667264e","_id":"references/60c4ddd17723bebd8667264e","_rev":"_cfFldIe---","tei":"\n\t\n\t\tQlose: Program repair with quantitative objectives\n\t\t\n\t\t\tLAntoni\n\t\t\n\t\t\n\t\t\tRSamanta\n\t\t\n\t\t\n\t\t\tRSingh\n\t\t\n\t\n\t\n\t\tCAV\n\t\tLecture Notes in Computer Science\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t9780\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ddd17723bebd8667264b"},"refKey":6},
{"_key":"60c4ddda7723bebd86672671","_id":"references/60c4ddda7723bebd86672671","_rev":"_cfFldIu---","tei":"\n\t\n\t\tPrediction of deleterious human alleles\n\t\t\n\t\t\tSSunyaev\n\t\t\n\t\t\n\t\t\tVRamensky\n\t\t\n\t\t\n\t\t\tIKoch\n\t\t\n\t\t\n\t\t\tLathe W 3rd\n\t\t\n\t\t\n\t\t\tASKondrashov\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/hmg/10.6.591\n\t\t11230178\n\t\t\n\t\n\t\n\t\tHuman Molecular Genetics\n\t\t1460-2083\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":80},
{"_key":"60c4ddda7723bebd86672672","_id":"references/60c4ddda7723bebd86672672","_rev":"_cfFldI6---","tei":"\n\t\n\t\tA new statistical method for haplotype reconstruction from population data\n\t\t\n\t\t\tMStephens\n\t\t\n\t\t\n\t\t\tNJSmith\n\t\t\n\t\t\n\t\t\tPDonnelly\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":78},
{"_key":"60c4ddda7723bebd86672673","_id":"references/60c4ddda7723bebd86672673","_rev":"_cfFldJK---","tei":"\n\t\n\t\tAccounting for Decay of Linkage Disequilibrium in Haplotype Inference and Missing-Data Imputation\n\t\t\n\t\t\tMatthewStephens\n\t\t\n\t\t\n\t\t\tPaulScheet\n\t\t\n\t\t10.1086/428594\n\t\t15700229\n\t\tPMC1196397\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t76\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":77},
{"_key":"60c4ddda7723bebd86672674","_id":"references/60c4ddda7723bebd86672674","_rev":"_cfFldJa---","tei":"\n\t\n\t\tHaploview: analysis and visualization of LD and haplotype maps\n\t\t\n\t\t\tJCBarrett\n\t\t\n\t\t\n\t\t\tBFry\n\t\t\n\t\t\n\t\t\tJMaller\n\t\t\n\t\t\n\t\t\tMJDaly\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":4},
{"_key":"60c4ddda7723bebd86672675","_id":"references/60c4ddda7723bebd86672675","_rev":"_cfFldJm---","tei":"\n\t\n\t\tGeCo++: a C++ library for genomic features computation and annotation in the presence of variants\n\t\t\n\t\t\tMCereda\n\t\t\n\t\t\n\t\t\tMSironi\n\t\t\n\t\t\n\t\t\tMCavalleri\n\t\t\n\t\t\n\t\t\tUPozzoli\n\t\t\n\t\t10.1093/bioinformatics/btr123\n\t\t21398667\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":13},
{"_key":"60c4ddda7723bebd86672676","_id":"references/60c4ddda7723bebd86672676","_rev":"_cfFldJ2---","tei":"\n\t\n\t\tA method and server for predicting damaging missense mutations\n\t\t\n\t\t\tIAAdzhubei\n\t\t\n\t\t\n\t\t\tSSchmidt\n\t\t\n\t\t\n\t\t\tLPeshkin\n\t\t\n\t\t\n\t\t\tVERamensky\n\t\t\n\t\t\n\t\t\tAGerasimova\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t\n\t\t\tASKondrashov\n\t\t\n\t\t\n\t\t\tSRSunyaev\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":1},
{"_key":"60c4ddda7723bebd86672677","_id":"references/60c4ddda7723bebd86672677","_rev":"_cfFldKG---","tei":"\n\t\n\t\tA coalescent-based method for detecting and estimating recombination from gene sequences\n\t\t\n\t\t\tGMcvean\n\t\t\n\t\t\n\t\t\tPAwadalla\n\t\t\n\t\t\n\t\t\tPFearnhead\n\t\t\n\t\n\t\n\t\tGenetics\n\t\t\n\t\t\t160\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":55},
{"_key":"60c4ddda7723bebd86672678","_id":"references/60c4ddda7723bebd86672678","_rev":"_cfFldKW---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\t\n\t\t\tNealeBTodd-Brown\n\t\t\n\t\t\n\t\t\tK\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t81\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tco-authors)\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":68},
{"_key":"60c4ddda7723bebd86672679","_id":"references/60c4ddda7723bebd86672679","_rev":"_cfFldKm---","tei":"\n\t\n\t\tMedian-joining networks for inferring intraspecific phylogenies\n\t\t\n\t\t\tHJBandelt\n\t\t\n\t\t\n\t\t\tPForster\n\t\t\n\t\t\n\t\t\tARohl\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":2},
{"_key":"60c4ddda7723bebd8667267a","_id":"references/60c4ddda7723bebd8667267a","_rev":"_cfFldKy---","tei":"\n\t\n\t\tlibsequence: a C++ class library for evolutionary genetic analysis\n\t\t\n\t\t\tKThornton\n\t\t\n\t\t10.1093/bioinformatics/btg316\n\t\t14630667\n\t\tark:/67375/HXZ-3LFMKN5D-V\n\t\t77BFF3AE1235BC8977BE7B8640A9D6A003FC8587\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":86},
{"_key":"60c4ddda7723bebd8667267b","_id":"references/60c4ddda7723bebd8667267b","_rev":"_cfFldLC---","tei":"\n\t\n\t\tCoding single-nucleotide polymorphisms associated with complex vs. Mendelian disease: Evolutionary evidence for differences in molecular effects\n\t\t\n\t\t\tPDThomas\n\t\t\n\t\t\n\t\t\tAKejariwal\n\t\t\n\t\t10.1073/pnas.0404380101\n\t\t15492219\n\t\tPMC523449\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t101\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\tMBE evolutionary evidence for differences in molecular effects\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":83},
{"_key":"60c4ddda7723bebd8667267c","_id":"references/60c4ddda7723bebd8667267c","_rev":"_cfFldLS---","tei":"\n\t\n\t\tTwo-locus sampling distributions and their application\n\t\t\n\t\t\tRRHudson\n\t\t\n\t\n\t\n\t\tGenetics\n\t\t\n\t\t\t159\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":45},
{"_key":"60c4ddda7723bebd8667267d","_id":"references/60c4ddda7723bebd8667267d","_rev":"_cfFldLi---","tei":"\n\t\n\t\tFunctional annotations improve the predictive score of human disease-related mutations in proteins\n\t\t\n\t\t\tRemoCalabrese\n\t\t\n\t\t\n\t\t\tEmidioCapriotti\n\t\t\n\t\t\n\t\t\tPieroFariselli\n\t\t\n\t\t\n\t\t\tPierLuigiMartelli\n\t\t\n\t\t\n\t\t\tRitaCasadio\n\t\t\n\t\t10.1002/humu.21047\n\t\t19514061\n\t\tark:/67375/WNG-KPRD5QCW-6\n\t\t28F7375F40655AF164ADC8A8ABB88CC423A092BE\n\t\n\t\n\t\tHuman Mutation\n\t\tHum. Mutat.\n\t\t1059-7794\n\t\t1098-1004\n\t\t\n\t\t\t30\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4ddda7723bebd86672670"},"refKey":12},
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{"_key":"60c4df137723bebd866727c3","_id":"references/60c4df137723bebd866727c3","_rev":"_cfFldSC---","tei":"\n\t\n\t\tElectrostatics of nanosystems: application to microtubules and the ribosomes\n\t\t\n\t\t\tNABaker\n\t\t\n\t\t\n\t\t\tDSept\n\t\t\n\t\t\n\t\t\tSJoseph\n\t\t\n\t\t\n\t\t\tMJHolst\n\t\t\n\t\t\n\t\t\tAJMccammon\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci\n\t\t\n\t\t\t98\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4df137723bebd866727bd"},"refKey":4},
{"_key":"60c4df137723bebd866727c4","_id":"references/60c4df137723bebd866727c4","_rev":"_cfFldSO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSJo\n\t\t\n\t\t\n\t\t\tT;Kim\n\t\t\n\t\t\n\t\t\tCharmm-Gui\n\t\t\n\t\t\n\t\t\tSolvator\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4df137723bebd866727bd"},"refKey":45},
{"_key":"60c4df137723bebd866727c5","_id":"references/60c4df137723bebd866727c5","_rev":"_cfFldSa---","tei":"\n\t\n\t\tCHARMM-GUI Input Generator for NAMD, Gromacs, Amber, Openmm, and CHARMM/OpenMM Simulations using the CHARMM36 Additive Force Field\n\t\t\n\t\t\tJuminLee\n\t\t\n\t\t\n\t\t\tXiCheng\n\t\t\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t\n\t\t\tJefferyBKlauda\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1016/j.bpj.2015.11.3431\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t110\n\t\t\t3\n\t\t\t641a\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4df137723bebd866727bd"},"refKey":60},
{"_key":"60c4df137723bebd866727c6","_id":"references/60c4df137723bebd866727c6","_rev":"_cfFldSq---","tei":"\n\t\n\t\tCHARMM: a program for macromolecular energy, minimization, and dynamics calculations\n\t\t\n\t\t\tBRBrooks\n\t\t\n\t\t\n\t\t\tREBruccoleri\n\t\t\n\t\t\n\t\t\tBDOlafson\n\t\t\n\t\t\n\t\t\tDJStates\n\t\t\n\t\t\n\t\t\tSSwaminathan\n\t\t\n\t\t\n\t\t\tMKarplus\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4df137723bebd866727bd"},"refKey":15},
{"_key":"60c4df137723bebd866727c7","_id":"references/60c4df137723bebd866727c7","_rev":"_cfFldS2---","tei":"\n\t\n\t\tExploring network structure, dynamics, and function using NetworkX\n\t\t\n\t\t\tAAHagberg\n\t\t\n\t\t\n\t\t\tDASchult\n\t\t\n\t\t\n\t\t\tPJSwart\n\t\t\n\t\n\t\n\t\tProceedings of the 7th Phyton in Science Conference\n\t\t\t\tthe 7th Phyton in Science Conference\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4df137723bebd866727bd"},"refKey":36},
{"_key":"60c4df137723bebd866727c8","_id":"references/60c4df137723bebd866727c8","_rev":"_cfFldTC---","tei":"\n\t\n\t\tDeciphering key features in protein structures with the new ENDscript server\n\t\t\n\t\t\tXRobert\n\t\t\n\t\t\n\t\t\tPGouet\n\t\t\n\t\n\t\n\t\tNucl. Acid Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4df137723bebd866727bd"},"refKey":76},
{"_key":"60c4df137723bebd866727c9","_id":"references/60c4df137723bebd866727c9","_rev":"_cfFldTO---","tei":"\n\t\n\t\tComparative protein structure modeling of genes and genomes\n\t\t\n\t\t\tMAMarti-Renom\n\t\t\n\t\t\n\t\t\tAStuart\n\t\t\n\t\t\n\t\t\tAFiser\n\t\t\n\t\t\n\t\t\tRSanchez\n\t\t\n\t\t\n\t\t\tFMelo\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\n\t\n\t\tAnnu. Rev. Biomol. Struct\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4df137723bebd866727bd"},"refKey":68},
{"_key":"60c4df137723bebd866727ca","_id":"references/60c4df137723bebd866727ca","_rev":"_cfFldTa---","tei":"\n\t\n\t\tThe PyMol Molecular Graphics System\n\t\t\n\t\t\tLSchrödinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVersion 1.8\n\n","document":{"$oid":"60c4df137723bebd866727bd"},"refKey":78},
{"_key":"60c4df157723bebd866727e2","_id":"references/60c4df157723bebd866727e2","_rev":"_cfFldTm---","tei":"\n\t\n\t\tComparative Protein Structure Modeling Using MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1002/cpbi.3\n\t\t27322406\n\t\tPMC5031415\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\t\n\t\t\tHoboken, NJ, USA\n\t\t\n\t\n\tCurrent Protocols in Bioinformatics. Inc.; 2016. pp. 5.6.1-5.6.37\n\n","document":{"$oid":"60c4df157723bebd866727e1"},"refKey":28},
{"_key":"60c4df227723bebd866727f6","_id":"references/60c4df227723bebd866727f6","_rev":"_cfFldTy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAGaulton\n\t\t\n\t\t\n\t\t\tAHersey\n\t\t\n\t\t\n\t\t\tMNowotka\n\t\t\n\t\t\n\t\t\tAPBento\n\t\t\n\t\t\n\t\t\tJChambers\n\t\t\n\t\t\n\t\t\tDMendez\n\t\t\n\t\t\n\t\t\tPMutowo\n\t\t\n\t\t\n\t\t\tFAtkinson\n\t\t\n\t\t\n\t\t\tLJBellis\n\t\t\n\t\t\n\t\t\tECibrian-Uhalte\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4df227723bebd866727f5"},"refKey":15},
{"_key":"60c4df2e7723bebd86672818","_id":"references/60c4df2e7723bebd86672818","_rev":"_cfFldUC---","tei":"\n\t\n\t\t\n\t\t\tMSAlnaes\n\t\t\n\t\t\n\t\t\tJBlechta\n\t\t\n\t\t\n\t\t\tJHake\n\t\t\n\t\t\n\t\t\tAJohansson\n\t\t\n\t\t\n\t\t\tBKehlet\n\t\t\n\t\t\n\t\t\tALogg\n\t\t\n\t\t\n\t\t\tCRichardson\n\t\t\n\t\t\n\t\t\tJRing\n\t\t\n\t\t\n\t\t\tMERognes\n\t\t\n\t\t\n\t\t\tGNWells\n\t\t\n\t\t10.11588/ans.2015.100.20553\n\t\t\n\t\tThe fenics project version 1.5. Arch Numer Soft\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4df2e7723bebd86672817"},"refKey":1},
{"_key":"60c4df2e7723bebd86672819","_id":"references/60c4df2e7723bebd86672819","_rev":"_cfFldUO---","tei":"\n\t\n\t\tGRINS: A Multiphysics Framework Based on the libMesh Finite Element Library\n\t\t\n\t\t\tPaulTBauman\n\t\t\n\t\t\n\t\t\tRoyHStogner\n\t\t\n\t\t10.1137/15m1026110\n\t\t\n\t\n\t\n\t\tSIAM Journal on Scientific Computing\n\t\tSIAM J. Sci. Comput.\n\t\t1064-8275\n\t\t1095-7197\n\t\t\n\t\t\t38\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSociety for Industrial & Applied Mathematics (SIAM)\n\t\t\n\t\n\n","document":{"$oid":"60c4df2e7723bebd86672817"},"refKey":5},
{"_key":"60c4df807723bebd86672842","_id":"references/60c4df807723bebd86672842","_rev":"_cfFldUa---","tei":"\n\t\n\t\tThe Connectivity Map: a new tool for biomedical research\n\t\t\n\t\t\tJLamb\n\t\t\n\t\n\t\n\t\tNat. Rev. Cancer\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4df807723bebd86672841"},"refKey":21},
{"_key":"60c4dfb27723bebd86672857","_id":"references/60c4dfb27723bebd86672857","_rev":"_cfFldUq---","tei":"\n\t\n\t\tSERAPHIM: studying environmental rasters and phylogenetically informed movements\n\t\t\n\t\t\tSimonDellicour\n\t\t\n\t\t\n\t\t\tRebeccaRose\n\t\t\n\t\t\n\t\t\tNunoRFaria\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t10.1093/bioinformatics/btw384\n\t\t27334476\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4dfb27723bebd86672856"},"refKey":1},
{"_key":"60c4dfb27723bebd86672858","_id":"references/60c4dfb27723bebd86672858","_rev":"_cfFldU2---","tei":"\n\t\n\t\tIQ-TREE 2: New models and efficient methods for phylogenetic inference in the genomic era\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tOChernomor\n\t\t\n\t\t\n\t\t\tDSchrempf\n\t\t\n\t\t\n\t\t\tMDWoodhams\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tRLanfear\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dfb27723bebd86672856"},"refKey":5},
{"_key":"60c4dfb27723bebd86672859","_id":"references/60c4dfb27723bebd86672859","_rev":"_cfFldVG---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dfb27723bebd86672856"},"refKey":7},
{"_key":"60c4dfb27723bebd8667285a","_id":"references/60c4dfb27723bebd8667285a","_rev":"_cfFldVW---","tei":"\n\t\n\t\tPosterior summarization in Bayesian phylogenetics using Tracer 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dfb27723bebd86672856"},"refKey":6},
{"_key":"60c4dfb27723bebd8667285b","_id":"references/60c4dfb27723bebd8667285b","_rev":"_cfFldVm---","tei":"\n\t\n\t\tTreeTime: Maximum-likelihood phylodynamic analysis\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tVadimPuller\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\t0000-0003-2525-1407\n\t\t\n\t\t10.1093/ve/vex042\n\t\t29340210\n\t\tPMC5758920\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t42\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4dfb27723bebd86672856"},"refKey":8},
{"_key":"60c4dfb27723bebd8667285c","_id":"references/60c4dfb27723bebd8667285c","_rev":"_cfFldV2---","tei":"\n\t\n\t\tBayesian phylogenetic and phylodynamic data integration using BEAST 1.10\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tDLAyres\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t4\n\t\t\t16\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dfb27723bebd86672856"},"refKey":9},
{"_key":"60c4dfd37723bebd8667287c","_id":"references/60c4dfd37723bebd8667287c","_rev":"_cfFldWK---","tei":"\n\t\n\t\tThe PROSITE database, its status in 1999\n\t\t\n\t\t\tKHofmann\n\t\t\n\t\t\n\t\t\tPBucher\n\t\t\n\t\t\n\t\t\tLFalquet\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t10.1093/nar/27.1.215\n\t\t9847184\n\t\tPMC148139\n\t\tark:/67375/HXZ-K5XQCW4P-D\n\t\tBDB5C6FF49777C4E67680F3EEA4B01C3D7E64AE1\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4dfd37723bebd8667287b"},"refKey":32},
{"_key":"60c4dfd37723bebd8667287d","_id":"references/60c4dfd37723bebd8667287d","_rev":"_cfFldWa---","tei":"\n\t\n\t\tTREEVIEW: an application to display phylogenetic trees on personal computers\n\t\t\n\t\t\tRD MPage\n\t\t\n\t\n\t\n\t\tComputer Applications in the Biosciences\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dfd37723bebd8667287b"},"refKey":63},
{"_key":"60c4dfd37723bebd8667287e","_id":"references/60c4dfd37723bebd8667287e","_rev":"_cfFldWu---","tei":"\n\t\n\t\tThe ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4dfd37723bebd8667287b"},"refKey":76},
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{"_key":"60c4e09f7723bebd86672944","_id":"references/60c4e09f7723bebd86672944","_rev":"_cfFldd----","tei":"\n\t\n\t\tRapid and Easy In Silico Serotyping of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data\n\t\t\n\t\t\tKatrineGJoensen\n\t\t\n\t\t\n\t\t\tAnnaM MTetzschner\n\t\t\n\t\t\n\t\t\tAtsushiIguchi\n\t\t\n\t\t\n\t\t\tFrankMAarestrup\n\t\t\n\t\t\n\t\t\tFlemmingScheutz\n\t\t\n\t\t10.1128/jcm.00008-15\n\t\t25972421\n\t\tPMC4508402\n\t\t\n\t\n\t\n\t\tJournal of Clinical Microbiology\n\t\tJ. Clin. Microbiol.\n\t\t0095-1137\n\t\t1098-660X\n\t\t\n\t\t\t53\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c4e09f7723bebd86672943"},"refKey":63},
{"_key":"60c4e09f7723bebd86672945","_id":"references/60c4e09f7723bebd86672945","_rev":"_cfFlddK---","tei":"\n\t\n\t\tIdentification of acquired antimicrobial resistance genes\n\t\t\n\t\t\tEZankari\n\t\t\n\t\t\n\t\t\tHHasman\n\t\t\n\t\t\n\t\t\tSCosentino\n\t\t\n\t\t\n\t\t\tMVestergaard\n\t\t\n\t\t\n\t\t\tSRasmussen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\n\t\n\t\tJ Antimicrob Chemother\n\t\t\n\t\t\t67\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e09f7723bebd86672943"},"refKey":66},
{"_key":"60c4e09f7723bebd86672946","_id":"references/60c4e09f7723bebd86672946","_rev":"_cfFldda---","tei":"\n\t\n\t\tThe RAST server: rapid annotations using subsystems technology\n\t\t\n\t\t\tRKAziz\n\t\t\n\t\t\n\t\t\tDBartels\n\t\t\n\t\t\n\t\t\tAABest\n\t\t\n\t\t\n\t\t\tMDejongh\n\t\t\n\t\t\n\t\t\tTDisz\n\t\t\n\t\t\n\t\t\tRAEdwards\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t9\n\t\t\t75\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e09f7723bebd86672943"},"refKey":43},
{"_key":"60c4e09f7723bebd86672947","_id":"references/60c4e09f7723bebd86672947","_rev":"_cfFlddm---","tei":"\n\t\n\t\tThe SEED and the rapid annotation of microbial genomes using subsystems technology (RAST)\n\t\t\n\t\t\tROverbeek\n\t\t\n\t\t\n\t\t\tROlson\n\t\t\n\t\t\n\t\t\tGDPusch\n\t\t\n\t\t\n\t\t\tGJOlsen\n\t\t\n\t\t\n\t\t\tJJDavis\n\t\t\n\t\t\n\t\t\tTDisz\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e09f7723bebd86672943"},"refKey":44},
{"_key":"60c4e09f7723bebd86672948","_id":"references/60c4e09f7723bebd86672948","_rev":"_cfFldd2---","tei":"\n\t\n\t\tRASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes\n\t\t\n\t\t\tTBrettin\n\t\t\n\t\t\n\t\t\tJJDavis\n\t\t\n\t\t\n\t\t\tTDisz\n\t\t\n\t\t\n\t\t\tRAEdwards\n\t\t\n\t\t\n\t\t\tSGerdes\n\t\t\n\t\t\n\t\t\tGJOlsen\n\t\t\n\t\n\t\n\t\tSci Rep\n\t\t\n\t\t\t5\n\t\t\t8365\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e09f7723bebd86672943"},"refKey":45},
{"_key":"60c4e09f7723bebd86672949","_id":"references/60c4e09f7723bebd86672949","_rev":"_cfFldeC---","tei":"\n\t\n\t\tDe novo assembly of human genomes with massively parallel short read sequencing\n\t\t\n\t\t\tRLi\n\t\t\n\t\t\n\t\t\tHZhu\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tWQian\n\t\t\n\t\t\n\t\t\tXFang\n\t\t\n\t\t\n\t\t\tZShi\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t20\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e09f7723bebd86672943"},"refKey":62},
{"_key":"60c4e09f7723bebd8667294a","_id":"references/60c4e09f7723bebd8667294a","_rev":"_cfFldeS---","tei":"\n\t\n\t\tAlignment of whole genomes\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tSKasif\n\t\t\n\t\t\n\t\t\tRDFleischmann\n\t\t\n\t\t\n\t\t\tJPeterson\n\t\t\n\t\t\n\t\t\tOWhite\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t10.1093/nar/27.11.2369\n\t\t10325427\n\t\tPMC148804\n\t\tark:/67375/HXZ-TXRMSG75-Z\n\t\t5295EEA0E2FB400C2BB14A7B78BAE024FD8623BD\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t27\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4e09f7723bebd86672943"},"refKey":37},
{"_key":"60c4e0b77723bebd86672975","_id":"references/60c4e0b77723bebd86672975","_rev":"_cfFldee---","tei":"\n\t\n\t\tMOLMOL: A program for display and analysis of macromolecular structures\n\t\t\n\t\t\tRetoKoradi\n\t\t\n\t\t\n\t\t\tMartinBilleter\n\t\t\n\t\t\n\t\t\tKurtWüthrich\n\t\t\n\t\t10.1016/0263-7855(96)00009-4\n\t\t8744573\n\t\t0263-7855(96)00009-4\n\t\tark:/67375/6H6-C8TPJCL0-M\n\t\t3F06EF3F9453BA05B0B170E15A92A7DEC4B715D1\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4e0b77723bebd86672974"},"refKey":172},
{"_key":"60c4e0c47723bebd8667297d","_id":"references/60c4e0c47723bebd8667297d","_rev":"_cfFldeq---","tei":"\n\t\n\t\t\n\t\t\tAElixhauser\n\t\t\n\t\t\n\t\tClinical Classifications Software (CCS)\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e0c47723bebd8667297c"},"refKey":12},
{"_key":"60c4e0d07723bebd86672983","_id":"references/60c4e0d07723bebd86672983","_rev":"_cfFlde6---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e0d07723bebd86672982"},"refKey":17},
{"_key":"60c4e0d77723bebd8667298d","_id":"references/60c4e0d77723bebd8667298d","_rev":"_cfFldfG---","tei":"\n\t\n\t\tDeepWalk: online learning of social representations\n\t\t\n\t\t\tBPerozzi\n\t\t\n\t\t\n\t\t\tRAl-Rfou\n\t\t\n\t\t\n\t\t\tSSkiena\n\t\t\n\t\t10.1145/2623330.2623732\n\t\t\n\t\n\t\n\t\tProceedings of the ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\t\tthe ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e0d77723bebd8667298c"},"refKey":22},
{"_key":"60c4e0df7723bebd866729a5","_id":"references/60c4e0df7723bebd866729a5","_rev":"_cfFldfS---","tei":"\n\t\n\t\tSuccessful in silico predicting of intestinal lymphatic transfer\n\t\t\n\t\t\tRenéHolm\n\t\t\n\t\t\n\t\t\tJanHoest\n\t\t\n\t\t10.1016/j.ijpharm.2003.12.017\n\t\t15019082\n\t\n\t\n\t\tInternational Journal of Pharmaceutics\n\t\tInternational Journal of Pharmaceutics\n\t\t0378-5173\n\t\t\n\t\t\t272\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4e0df7723bebd866729a4"},"refKey":175},
{"_key":"60c4e0df7723bebd866729a6","_id":"references/60c4e0df7723bebd866729a6","_rev":"_cfFldfi---","tei":"\n\t\n\t\tPartial Least Squares Projections to Latent Structures (PLS) in Chemistry\n\t\t\n\t\t\tSvanteWold\n\t\t\n\t\t\n\t\t\tMichaelSj��str��m\n\t\t\n\t\t\n\t\t\tLennartEriksson\n\t\t\n\t\t10.1002/0470845015.cpa012\n\t\n\t\n\t\t3D QSAR in Drug Design\n\t\t\t\t\n\t\t\tHKubinyi\n\t\t\n\t\tEscom, Leiden\n\t\t\n\t\t\tJohn Wiley & Sons, Ltd\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e0df7723bebd866729a4"},"refKey":185},
{"_key":"60c4e0df7723bebd866729a7","_id":"references/60c4e0df7723bebd866729a7","_rev":"_cfFldfu---","tei":"\n\t\n\t\tAtom/fragment contribution method for estimating octanol-water partition coefficients\n\t\t\n\t\t\tWMMeylan\n\t\t\n\t\t\n\t\t\tPHHoward\n\t\t\n\t\n\t\n\t\tJ. Pharm. Sci\n\t\t\n\t\t\t84\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e0df7723bebd866729a4"},"refKey":184},
{"_key":"60c4e0eb7723bebd866729b5","_id":"references/60c4e0eb7723bebd866729b5","_rev":"_cfFldf6---","tei":"\n\t\n\t\tA dynamic nomenclature proposal for SARS-CoV-2 to assist genomic epidemiology\n\t\t\n\t\t\tAheRambaut\n\t\t\n\t\t\n\t\t\tVHill\n\t\t\n\t\t\n\t\t\tÁO'toole\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e0eb7723bebd866729b4"},"refKey":17},
{"_key":"60c4e0eb7723bebd866729b6","_id":"references/60c4e0eb7723bebd866729b6","_rev":"_cfFldgK---","tei":"\n\t\n\t\tViral deep sequencing needs an adaptive approach: IRMA, the iterative refinement meta-assembler\n\t\t\n\t\t\tSamuelSShepard\n\t\t\n\t\t\n\t\t\tSarahMeno\n\t\t\n\t\t\n\t\t\tJustinBahl\n\t\t\n\t\t\n\t\t\tMalaniaMWilson\n\t\t\n\t\t\n\t\t\tJohnBarnes\n\t\t\n\t\t\n\t\t\tElizabethNeuhaus\n\t\t\n\t\t10.1186/s12864-016-3030-6\n\t\t27595578\n\t\tPMC5011931\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t708\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4e0eb7723bebd866729b4"},"refKey":20},
{"_key":"60c4e0eb7723bebd866729b7","_id":"references/60c4e0eb7723bebd866729b7","_rev":"_cfFldgW---","tei":"\n\t\n\t\tIntegrative genomics viewer (IGV): high-performance genomics data visualization and exploration\n\t\t\n\t\t\tHThorvaldsdottir\n\t\t\n\t\t\n\t\t\tJTRobinson\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tBrief. Bioinform\n\t\t\n\t\t\t14\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e0eb7723bebd866729b4"},"refKey":21},
{"_key":"60c4e0eb7723bebd866729b8","_id":"references/60c4e0eb7723bebd866729b8","_rev":"_cfFldgi---","tei":"\n\t\n\t\tFastTree 2-approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLOS One\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e0eb7723bebd866729b4"},"refKey":24},
{"_key":"60c4e1027723bebd866729c9","_id":"references/60c4e1027723bebd866729c9","_rev":"_cfFldgu---","tei":"\n\t\n\t\tPROBAST: a tool to assess the risk of bias and applicability of prediction model studies\n\t\t\n\t\t\tRFWolff\n\t\t\n\t\t\n\t\t\tKgmMoons\n\t\t\n\t\t\n\t\t\tRDRiley\n\t\t\n\t\t\n\t\t\tPFWhiting\n\t\t\n\t\t\n\t\t\tMWestwood\n\t\t\n\t\t\n\t\t\tGSCollins\n\t\t\n\t\n\t\n\t\tAnn Intern Med\n\t\t\n\t\t\t170\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e1027723bebd866729c8"},"refKey":24},
{"_key":"60c4e1047723bebd866729cd","_id":"references/60c4e1047723bebd866729cd","_rev":"_cfFldh----","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e1047723bebd866729cc"},"refKey":31},
{"_key":"60c4e11b7723bebd866729da","_id":"references/60c4e11b7723bebd866729da","_rev":"_cfFldhK---","tei":"\n\t\n\t\tSTRING v11: Protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\t\n\t\t\tALGable\n\t\t\n\t\t\n\t\t\tDLyon\n\t\t\n\t\t\n\t\t\tAJunge\n\t\t\n\t\t\n\t\t\tSWyder\n\t\t\n\t\t\n\t\t\tJHuerta-Cepas\n\t\t\n\t\t\n\t\t\tMSimonovic\n\t\t\n\t\t\n\t\t\tNTDoncheva\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e11b7723bebd866729d9"},"refKey":41},
{"_key":"60c4e11b7723bebd866729db","_id":"references/60c4e11b7723bebd866729db","_rev":"_cfFldhW---","tei":"\n\t\n\t\tMetaboAnalyst 3.0-making metabolomics more meaningful\n\t\t\n\t\t\tJXia\n\t\t\n\t\t\n\t\t\tIVSinelnikov\n\t\t\n\t\t\n\t\t\tBHan\n\t\t\n\t\t\n\t\t\tDSWishart\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e11b7723bebd866729d9"},"refKey":44},
{"_key":"60c4e11b7723bebd866729dc","_id":"references/60c4e11b7723bebd866729dc","_rev":"_cfFldhm---","tei":"\n\t\n\t\tThe MaxQuant computational platform for mass spectrometry-based shotgun proteomics Nat. Protoc\n\t\t\n\t\t\tSTyanova\n\t\t\n\t\t\n\t\t\tTTemu\n\t\t\n\t\t\n\t\t\tJCox\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e11b7723bebd866729d9"},"refKey":43},
{"_key":"60c4e11b7723bebd866729dd","_id":"references/60c4e11b7723bebd866729dd","_rev":"_cfFldhy---","tei":"\n\t\n\t\tAutodock vina: improving the speed and accuracy of docking\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e11b7723bebd866729d9"},"refKey":42},
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{"_key":"60c4e1e37723bebd86672b16","_id":"references/60c4e1e37723bebd86672b16","_rev":"_cfFldma---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4e1e37723bebd86672b13"},"refKey":62},
{"_key":"60c4e1e37723bebd86672b17","_id":"references/60c4e1e37723bebd86672b17","_rev":"_cfFldmq---","tei":"\n\t\n\t\tThe Structural Basis of Peptide-Protein Binding Strategies\n\t\t\n\t\t\tNirLondon\n\t\t\n\t\t\n\t\t\tDanaMovshovitz-Attias\n\t\t\n\t\t\n\t\t\tOraSchueler-Furman\n\t\t\n\t\t10.1016/j.str.2009.11.012\n\t\t20159464\n\t\t\n\t\n\t\n\t\tStructure\n\t\tStructure\n\t\t0969-2126\n\t\t\n\t\t\t18\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4e1e37723bebd86672b13"},"refKey":53},
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{"_key":"60c4e1fd7723bebd86672b52","_id":"references/60c4e1fd7723bebd86672b52","_rev":"_cfFldoe---","tei":"\n\t\n\t\tPositive-unlabeled convolutional neural networks for particle picking in cryo-electron micrographs\n\t\t\n\t\t\tTBepler\n\t\t\n\t\t\n\t\t\tAMorin\n\t\t\n\t\t\n\t\t\tMRapp\n\t\t\n\t\t\n\t\t\tJBrasch\n\t\t\n\t\t\n\t\t\tLShapiro\n\t\t\n\t\t\n\t\t\tAJNoble\n\t\t\n\t\t\n\t\t\tBBerger\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e1fd7723bebd86672b51"},"refKey":9},
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{"_key":"60c4e2017723bebd86672b68","_id":"references/60c4e2017723bebd86672b68","_rev":"_cfFldqK---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. (R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e2017723bebd86672b67"},"refKey":29},
{"_key":"60c4e2017723bebd86672b69","_id":"references/60c4e2017723bebd86672b69","_rev":"_cfFldqe---","tei":"\n\t\n\t\tSimple Features for R: Standardized Support for Spatial Vector Data\n\t\t\n\t\t\tEdzerPebesma\n\t\t\n\t\t10.32614/rj-2018-009\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\tThe R Journal\n\t\t2073-4859\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t439\n\t\t\t\n\t\t\tThe R Foundation\n\t\t\n\t\n\n","document":{"$oid":"60c4e2017723bebd86672b67"},"refKey":30},
{"_key":"60c4e2217723bebd86672b8c","_id":"references/60c4e2217723bebd86672b8c","_rev":"_cfFldqy---","tei":"\n\t\n\t\tE -a brainiac theorem prover\n\t\t\n\t\t\tSSchulz\n\t\t\n\t\n\t\n\t\tJ. AI Commun\n\t\t\n\t\t\t15\n\t\t\t2/3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e2217723bebd86672b8b"},"refKey":7},
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{"_key":"60c4e2217723bebd86672b8e","_id":"references/60c4e2217723bebd86672b8e","_rev":"_cfFldra---","tei":"\n\t\n\t\tleanCoP 2.0 and ileanCoP 1.2: High Performance Lean Theorem Proving in Classical and Intuitionistic Logic (System Descriptions)\n\t\t\n\t\t\tJensOtten\n\t\t\n\t\t10.1007/978-3-540-71070-7_23\n\t\tark:/67375/HCB-37DFG3S6-G\n\t\t9217FB1ECF32FD6D2BD7C2CEE4AED0B7EF8357A9\n\t\n\t\n\t\tAutomated Reasoning\n\t\t\t\t\n\t\t\tAArmando\n\t\t\tPBaumgartner\n\t\t\tGDowek\n\t\t\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\tnull\n\t\t\t5195\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e2217723bebd86672b8b"},"refKey":4},
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{"_key":"60c4e2217723bebd86672b90","_id":"references/60c4e2217723bebd86672b90","_rev":"_cfFldsO---","tei":"\n\t\n\t\tiProver – An Instantiation-Based Theorem Prover for First-Order Logic (System Description)\n\t\t\n\t\t\tKonstantinKorovin\n\t\t\n\t\t10.1007/978-3-540-71070-7_24\n\t\tark:/67375/HCB-J6HCM7M3-8\n\t\tD034545BF73F31B3C796DFC51D26ED6A977C0569\n\t\t\n\t\n\t\n\t\tAutomated Reasoning\n\t\t\t\t\n\t\t\tAArmando\n\t\t\tPBaumgartner\n\t\t\tGDowek\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t2008\n\t\t\t5195\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e2217723bebd86672b8b"},"refKey":1},
{"_key":"60c4e2557723bebd86672bc9","_id":"references/60c4e2557723bebd86672bc9","_rev":"_cfFldsi---","tei":"\n\t\n\t\tBioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e2557723bebd86672bc8"},"refKey":23},
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{"_key":"60c4e26a7723bebd86672be0","_id":"references/60c4e26a7723bebd86672be0","_rev":"_cfFldtm---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e26a7723bebd86672bdc"},"refKey":32},
{"_key":"60c4e2747723bebd86672bf0","_id":"references/60c4e2747723bebd86672bf0","_rev":"_cfFldt2---","tei":"\n\t\n\t\tNetwork meta‐analysis of rare events using the Mantel‐Haenszel method\n\t\t\n\t\t\tOrestisEfthimiou\n\t\t\t0000-0002-0955-7572\n\t\t\n\t\t\n\t\t\tGertaRücker\n\t\t\t0000-0002-2192-2560\n\t\t\n\t\t\n\t\t\tGuidoSchwarzer\n\t\t\t0000-0001-6214-9087\n\t\t\n\t\t\n\t\t\tJulianP THiggins\n\t\t\n\t\t\n\t\t\tMatthiasEgger\n\t\t\n\t\t\n\t\t\tGeorgiaSalanti\n\t\t\t0000-0002-3830-8508\n\t\t\n\t\t10.1002/sim.8158\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatistics in Medicine\n\t\t0277-6715\n\t\t1097-0258\n\t\t\n\t\t\t38\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4e2747723bebd86672bef"},"refKey":87},
{"_key":"60c4e2767723bebd86672bf6","_id":"references/60c4e2767723bebd86672bf6","_rev":"_cfFlduG---","tei":"\n\t\n\t\tMolDock: A New Technique for High-Accuracy Molecular Docking\n\t\t\n\t\t\tRenéThomsen\n\t\t\n\t\t\n\t\t\tMikaelHChristensen\n\t\t\n\t\t10.1021/jm051197e\n\t\t16722650\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t49\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c4e2767723bebd86672bf5"},"refKey":31},
{"_key":"60c4e2767723bebd86672bf7","_id":"references/60c4e2767723bebd86672bf7","_rev":"_cfFlduW---","tei":"\n\t\n\t\tThe MM/PBSA and MM/GBSA methods to estimate ligand-binding affinities\n\t\t\n\t\t\tSGenheden\n\t\t\n\t\t\n\t\t\tURyde\n\t\t\n\t\n\t\n\t\tExpet Opin. Drug Discov\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e2767723bebd86672bf5"},"refKey":39},
{"_key":"60c4e2767723bebd86672bf8","_id":"references/60c4e2767723bebd86672bf8","_rev":"_cfFldum---","tei":"\n\t\n\t\tMMPBSA.py: an efficient program for end-state free energy calculations\n\t\t\n\t\t\tBRMiller\n\t\t\n\t\t\n\t\t\tTDMcgee\n\t\t\n\t\t\n\t\t\tJMSwails\n\t\t\n\t\t\n\t\t\tNHomeyer\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tAERoitberg\n\t\t\n\t\n\t\n\t\tJ. Chem. Theor. Comput\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e2767723bebd86672bf5"},"refKey":40},
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{"_key":"60c4e27e7723bebd86672c04","_id":"references/60c4e27e7723bebd86672c04","_rev":"_cfFldvC---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4e27e7723bebd86672c03"},"refKey":107},
{"_key":"60c4e27e7723bebd86672c05","_id":"references/60c4e27e7723bebd86672c05","_rev":"_cfFldvO---","tei":"\n\t\n\t\tNew Substructure Filters for Removal of Pan Assay Interference Compounds (PAINS) from Screening Libraries and for Their Exclusion in Bioassays\n\t\t\n\t\t\tJonathanBBaell\n\t\t\n\t\t\n\t\t\tGeorginaAHolloway\n\t\t\n\t\t10.1021/jm901137j\n\t\t20131845\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t53\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c4e27e7723bebd86672c03"},"refKey":6},
{"_key":"60c4e27e7723bebd86672c06","_id":"references/60c4e27e7723bebd86672c06","_rev":"_cfFldve---","tei":"\n\t\n\t\tGEMDOCK: A generic evolutionary method for molecular docking\n\t\t\n\t\t\tJinn-MoonYang\n\t\t\n\t\t\n\t\t\tChun-ChenChen\n\t\t\n\t\t10.1002/prot.20035\n\t\t15048822\n\t\tark:/67375/WNG-2D234NDG-L\n\t\t5BC029F381183B0E287819BDCD50275CABB9ED21\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t55\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4e27e7723bebd86672c03"},"refKey":124},
{"_key":"60c4e27e7723bebd86672c07","_id":"references/60c4e27e7723bebd86672c07","_rev":"_cfFldvq---","tei":"\n\t\n\t\tSteroidal glycoalkaloids from Solanum nigrum target cytoskeletal proteins: an in silico analysis\n\t\t\n\t\t\tRumanaAhmad\n\t\t\n\t\t10.7717/peerj.6012\n\t\t30627484\n\t\tPMC6321755\n\t\t\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t7\n\t\t\te6012\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c4e27e7723bebd86672c03"},"refKey":1},
{"_key":"60c4e27e7723bebd86672c08","_id":"references/60c4e27e7723bebd86672c08","_rev":"_cfFldv6---","tei":"\n\t\n\t\tSynthesis, characterization, computational studies and biological activity evaluation of Cu, Fe, Co and Zn complexes with 2-butanone thiosemicarbazone and 1, 10-phenanthroline ligands as anticancer and antibacterial agents\n\t\t\n\t\t\tTKhan\n\t\t\n\t\t\n\t\t\tIAzad\n\t\t\n\t\t\n\t\t\tRAhmad\n\t\t\n\t\t\n\t\t\tSRaza\n\t\t\n\t\t\n\t\t\tSDixit\n\t\t\n\t\t\n\t\t\tSJoshi\n\t\t\n\t\t\n\t\t\tARKhan\n\t\t\n\t\n\t\n\t\tEXCLI Journal\n\t\t\n\t\t\t17\n\t\t\t331\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e27e7723bebd86672c03"},"refKey":64},
{"_key":"60c4e2967723bebd86672c58","_id":"references/60c4e2967723bebd86672c58","_rev":"_cfFldwG---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e2967723bebd86672c57"},"refKey":56},
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{"_key":"60c4e2ed7723bebd86672ca0","_id":"references/60c4e2ed7723bebd86672ca0","_rev":"_cfFldwy---","tei":"\n\t\n\t\tSeaView version 4: A multiplatform graphical user interface for sequence alignment and phylogenetic tree building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e2ed7723bebd86672c9f"},"refKey":30},
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{"_key":"60c4e3457723bebd86672cd7","_id":"references/60c4e3457723bebd86672cd7","_rev":"_cfFldxO---","tei":"\n\t\n\t\tAutoMotif server: prediction of single residue post-translational modifications in proteins\n\t\t\n\t\t\tDPlewczynski\n\t\t\n\t\t\n\t\t\tATkacz\n\t\t\n\t\t\n\t\t\tLSWyrwicz\n\t\t\n\t\t\n\t\t\tLRychlewski\n\t\t\n\t\t10.1093/bioinformatics/bti333\n\t\t15728119\n\t\tark:/67375/HXZ-J4ZXP07C-F\n\t\tD422F87330BF1D21BD00192711900FC0A33289FF\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4e3457723bebd86672cd6"},"refKey":22},
{"_key":"60c4e3457723bebd86672cd8","_id":"references/60c4e3457723bebd86672cd8","_rev":"_cfFldxe---","tei":"\n\t\n\t\tKinasePhos 2.0: a web server for identifying protein kinase-specific phosphorylation sites based on sequences and coupling patterns\n\t\t\n\t\t\tYung-HaoWong\n\t\t\n\t\t\n\t\t\tTzong-YiLee\n\t\t\n\t\t\n\t\t\tHan-KuenLiang\n\t\t\n\t\t\n\t\t\tChia-MaoHuang\n\t\t\n\t\t\n\t\t\tTing-YuanWang\n\t\t\n\t\t\n\t\t\tYi-HuanYang\n\t\t\n\t\t\n\t\t\tChia-HueiChu\n\t\t\n\t\t\n\t\t\tHsien-DaHuang\n\t\t\n\t\t\n\t\t\tMing-TatKo\n\t\t\n\t\t\n\t\t\tJenn-KangHwang\n\t\t\n\t\t10.1093/nar/gkm322\n\t\t17517770\n\t\tPMC1933228\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4e3457723bebd86672cd6"},"refKey":23},
{"_key":"60c4e3457723bebd86672cd9","_id":"references/60c4e3457723bebd86672cd9","_rev":"_cfFldxu---","tei":"\n\t\n\t\tThe Sulfinator: predicting tyrosine sulfation sites in protein sequences\n\t\t\n\t\t\tFMonigatti\n\t\t\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t\n\t\t\tEJung\n\t\t\n\t\t10.1093/bioinformatics/18.5.769\n\t\t12050077\n\t\t1460-2059\n\t\tark:/67375/HXZ-NL7FWN1F-7\n\t\tCE125A2FF7135FB7FAA0E5C4353660B90B20C140\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t18\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4e3457723bebd86672cd6"},"refKey":24},
{"_key":"60c4e3457723bebd86672cda","_id":"references/60c4e3457723bebd86672cda","_rev":"_cfFldx6---","tei":"\n\t\n\t\tPROSITE: a documented database using patterns and profiles as motif descriptors\n\t\t\n\t\t\tCJSigrist\n\t\t\n\t\t\n\t\t\tLCerutti\n\t\t\n\t\t\n\t\t\tNHulo\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\t\n\t\t\tLFalquet\n\t\t\n\t\t\n\t\t\tMPagni\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t\n\t\t\tPBucher\n\t\t\n\t\n\t\n\t\tBriefings in bioinformatics\n\t\t\n\t\t\t3\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e3457723bebd86672cd6"},"refKey":4},
{"_key":"60c4e3457723bebd86672cdb","_id":"references/60c4e3457723bebd86672cdb","_rev":"_cfFldyK---","tei":"\n\t\n\t\tSequence and structure-based prediction of eukaryotic protein phosphorylation sites\n\t\t\n\t\t\tNBlom\n\t\t\n\t\t\n\t\t\tSGammeltoft\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t294\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e3457723bebd86672cd6"},"refKey":9},
{"_key":"60c4e3457723bebd86672cdc","_id":"references/60c4e3457723bebd86672cdc","_rev":"_cfFldya---","tei":"\n\t\n\t\tPrediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence\n\t\t\n\t\t\tNBlom\n\t\t\n\t\t\n\t\t\tTSicheritz-Ponten\n\t\t\n\t\t\n\t\t\tRGupta\n\t\t\n\t\t\n\t\t\tSGammeltoft\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\n\t\n\t\tProteomics\n\t\t\n\t\t\t4\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e3457723bebd86672cd6"},"refKey":10},
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{"_key":"60c4e9157723bebd86673302","_id":"references/60c4e9157723bebd86673302","_rev":"_cfFleOi---","tei":"\n\t\n\t\tWelcome to the Tidyverse\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tMAverick\n\t\t\n\t\t\n\t\t\tJBryan\n\t\t\n\t\t\n\t\t\tWChang\n\t\t\n\t\t\n\t\t\tLMcgowan\n\t\t\n\t\t\n\t\t\tFranc ¸ois R\n\t\t\n\t\n\t\n\t\tJ Open Source Soft\n\t\t\n\t\t\t4\n\t\t\t43\n\t\t\t1686\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e9157723bebd86673300"},"refKey":33},
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{"_key":"60c4e91f7723bebd8667330f","_id":"references/60c4e91f7723bebd8667330f","_rev":"_cfFlePO---","tei":"\n\t\n\t\tA Completely Reimplemented MPI Bioinformatics Toolkit with a New HHpred Server at its Core\n\t\t\n\t\t\tLukasZimmermann\n\t\t\n\t\t\n\t\t\tAndrewStephens\n\t\t\n\t\t\n\t\t\tSeung-ZinNam\n\t\t\n\t\t\n\t\t\tDavidRau\n\t\t\n\t\t\n\t\t\tJonasKübler\n\t\t\n\t\t\n\t\t\tMarkoLozajic\n\t\t\n\t\t\n\t\t\tFelixGabler\n\t\t\n\t\t\n\t\t\tJohannesSöding\n\t\t\n\t\t\n\t\t\tAndreiNLupas\n\t\t\n\t\t\n\t\t\tVikramAlva\n\t\t\n\t\t10.1016/j.jmb.2017.12.007\n\t\t29258817\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t430\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4e91f7723bebd8667330d"},"refKey":36},
{"_key":"60c4e91f7723bebd86673310","_id":"references/60c4e91f7723bebd86673310","_rev":"_cfFlePi---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: Recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/nar/gkz239\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e91f7723bebd8667330d"},"refKey":45},
{"_key":"60c4e91f7723bebd86673311","_id":"references/60c4e91f7723bebd86673311","_rev":"_cfFleP2---","tei":"\n\t\n\t\tProtein structure prediction on the Web: a case study using the Phyre server\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1038/nprot.2009.2\n\t\t19247286\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4e91f7723bebd8667330d"},"refKey":37},
{"_key":"60c4e91f7723bebd86673312","_id":"references/60c4e91f7723bebd86673312","_rev":"_cfFleQK---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1093/bioinformatics/bty560\n\t\t30423086\n\t\tPMC6129281\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4e91f7723bebd8667330d"},"refKey":32},
{"_key":"60c4e91f7723bebd86673313","_id":"references/60c4e91f7723bebd86673313","_rev":"_cfFleQi---","tei":"\n\t\n\t\tURec: a system for unrooted reconciliation\n\t\t\n\t\t\tPGorecki\n\t\t\n\t\t\n\t\t\tJTiuryn\n\t\t\n\t\t10.1093/bioinformatics/btl634\n\t\t17182699\n\t\tark:/67375/HXZ-2PRKX44N-H\n\t\t966F25F1296746E8304A5A33E879F84447F42984\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4e91f7723bebd8667330d"},"refKey":44},
{"_key":"60c4e91f7723bebd86673314","_id":"references/60c4e91f7723bebd86673314","_rev":"_cfFleQ2---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4e91f7723bebd8667330d"},"refKey":42},
{"_key":"60c4e91f7723bebd86673315","_id":"references/60c4e91f7723bebd86673315","_rev":"_cfFleRK---","tei":"\n\t\n\t\tProtTest 3: fast selection of best-fit models of protein evolution\n\t\t\n\t\t\tDiegoDarriba\n\t\t\n\t\t\n\t\t\tGuillermoLTaboada\n\t\t\n\t\t\n\t\t\tRamónDoallo\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t10.1093/bioinformatics/btr088\n\t\t21335321\n\t\tPMC5215816\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4e91f7723bebd8667330d"},"refKey":43},
{"_key":"60c4e91f7723bebd86673316","_id":"references/60c4e91f7723bebd86673316","_rev":"_cfFleRi---","tei":"\n\t\n\t\ttrimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses\n\t\t\n\t\t\tSCapella-Gutierrez\n\t\t\n\t\t\n\t\t\tJMSilla-Martinez\n\t\t\n\t\t\n\t\t\tTGabaldon\n\t\t\n\t\t10.1093/bioinformatics/btp348\n\t\t19505945\n\t\tPMC2712344\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4e91f7723bebd8667330d"},"refKey":41},
{"_key":"60c4e93d7723bebd86673338","_id":"references/60c4e93d7723bebd86673338","_rev":"_cfFleR2---","tei":"\n\t\n\t\tHybrid correction of highly noisy long reads using a variable-order de Bruijn graph\n\t\t\n\t\t\tPierreMorisse\n\t\t\n\t\t\n\t\t\tThierryLecroq\n\t\t\n\t\t\n\t\t\tArnaudLefebvre\n\t\t\n\t\t10.1093/bioinformatics/bty521\n\t\t29955770\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4e93d7723bebd86673337"},"refKey":43},
{"_key":"60c4e93d7723bebd86673339","_id":"references/60c4e93d7723bebd86673339","_rev":"_cfFleSK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t10.1016/S0022-2836(05\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e93d7723bebd86673337"},"refKey":1},
{"_key":"60c4e93d7723bebd8667333a","_id":"references/60c4e93d7723bebd8667333a","_rev":"_cfFleSe---","tei":"\n\t\n\t\tCanu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation\n\t\t\n\t\t\tSKoren\n\t\t\n\t\t\n\t\t\tBPWalenz\n\t\t\n\t\t\n\t\t\tKBerlin\n\t\t\n\t\t\n\t\t\tJRMiller\n\t\t\n\t\t\n\t\t\tNHBergman\n\t\t\n\t\t\n\t\t\tAMPhillippy\n\t\t\n\t\tdoi:10 .1101/gr.215087.116\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e93d7723bebd86673337"},"refKey":26},
{"_key":"60c4e93d7723bebd8667333b","_id":"references/60c4e93d7723bebd8667333b","_rev":"_cfFleS2---","tei":"\n\t\n\t\tOcoco: an online consensus caller\n\t\t\n\t\t\tKBrǐnda\n\t\t\n\t\t\n\t\t\tVBoeva\n\t\t\n\t\t\n\t\t\tGKucherov\n\t\t\n\t\tarXiv:1712.01146\n\t\t\n\t\t\t\n\t\t\n\t\n\tq-bio.GN\n\n","document":{"$oid":"60c4e93d7723bebd86673337"},"refKey":5},
{"_key":"60c4e9497723bebd8667334d","_id":"references/60c4e9497723bebd8667334d","_rev":"_cfFleTK---","tei":"\n\t\n\t\tRecombination and Selection in the Evolution of Picornaviruses and Other Mammalian Positive-Stranded RNA Viruses\n\t\t\n\t\t\tPSimmonds\n\t\t\n\t\t10.1128/jvi.01076-06\n\t\t16956935\n\t\tPMC1642140\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJournal of Virology\n\t\t0022-538X\n\t\t\n\t\t\t80\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c4e9497723bebd8667334c"},"refKey":45},
{"_key":"60c4e9797723bebd86673371","_id":"references/60c4e9797723bebd86673371","_rev":"_cfFleTe---","tei":"\n\t\n\t\t\n\t\tChainer: a flexible framework for neural networks\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e9797723bebd86673370"},"refKey":5},
{"_key":"60c4e9797723bebd86673372","_id":"references/60c4e9797723bebd86673372","_rev":"_cfFleT2---","tei":"\n\t\n\t\t\n\t\t\tDPKingma\n\t\t\n\t\t\n\t\t\tJBa\n\t\t\n\t\tarXiv:1412.6980\n\t\tAdam: a method for stochastic optimization\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c4e9797723bebd86673370"},"refKey":12},
{"_key":"60c4e97e7723bebd8667337a","_id":"references/60c4e97e7723bebd8667337a","_rev":"_cfFleUK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t10.1016/S0022-2836%2805%2980360-2\n\t\t2231712\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4e97e7723bebd86673379"},"refKey":20},
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{"_key":"60c4e9927723bebd86673477","_id":"references/60c4e9927723bebd86673477","_rev":"_cfFleU2---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4e9927723bebd86673476"},"refKey":4},
{"_key":"60c4e9927723bebd86673478","_id":"references/60c4e9927723bebd86673478","_rev":"_cfFleVa---","tei":"\n\t\n\t\tRotaC: A web-based tool for the complete genome classification of group A rotaviruses\n\t\t\n\t\t\tPietMaes\n\t\t\n\t\t\n\t\t\tJelleMatthijnssens\n\t\t\n\t\t\n\t\t\tMustafizurRahman\n\t\t\n\t\t\n\t\t\tMarcVan Ranst\n\t\t\n\t\t10.1186/1471-2180-9-238\n\t\t19930627\n\t\tPMC2785824\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Microbiology\n\t\tBMC Microbiology\n\t\t1471-2180\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t238\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4e9927723bebd86673476"},"refKey":5},
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{"_key":"60c4ea297723bebd866734ee","_id":"references/60c4ea297723bebd866734ee","_rev":"_cfFleWG---","tei":"\n\t\n\t\tUCSF Chimera -a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ea297723bebd866734ed"},"refKey":26},
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{"_key":"60c4eb0a7723bebd866735a7","_id":"references/60c4eb0a7723bebd866735a7","_rev":"_cfFleZ----","tei":"\n\t\n\t\tThe HHpred interactive server for protein homology detection and structure prediction\n\t\t\n\t\t\tJSo ¨ding\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4eb0a7723bebd866735a6"},"refKey":63},
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{"_key":"60c4eb257723bebd866735c0","_id":"references/60c4eb257723bebd866735c0","_rev":"_cfFleZm---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4eb257723bebd866735bf"},"refKey":20},
{"_key":"60c4eb257723bebd866735c1","_id":"references/60c4eb257723bebd866735c1","_rev":"_cfFleZ2---","tei":"\n\t\n\t\tLigPlotþ: multiple ligand-protein interaction diagrams for drug discovery\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMBSwindells\n\t\t\n\t\n\t\n\t\tJ. Chem. Inf. Model\n\t\t\n\t\t\t51\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4eb257723bebd866735bf"},"refKey":21},
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{"_key":"60c4ec1b7723bebd8667361e","_id":"references/60c4ec1b7723bebd8667361e","_rev":"_cfFlebO---","tei":"\n\t\n\t\tSpike mutation pipeline reveals the emergence of a more transmissible form of SARS-CoV-2\n\t\t\n\t\t\tBKorber\n\t\t\n\t\t\n\t\t\tWMFischer\n\t\t\n\t\t\n\t\t\tSGnanakaran\n\t\t\n\t\t10.1101/2020.04.29.069054\n\t\t\n\t\n\tpublished online April 30, 2020\n\n","document":{"$oid":"60c4ec1b7723bebd8667361c"},"refKey":26},
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{"_key":"60c4ec1b7723bebd86673620","_id":"references/60c4ec1b7723bebd86673620","_rev":"_cfFlebq---","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\tdoi:10.1038/ nmeth.3213\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c4ec1b7723bebd8667361c"},"refKey":30},
{"_key":"60c4ec407723bebd86673674","_id":"references/60c4ec407723bebd86673674","_rev":"_cfFleb2---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ec407723bebd86673673"},"refKey":25},
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{"_key":"60c4ec567723bebd86673682","_id":"references/60c4ec567723bebd86673682","_rev":"_cfFlecS---","tei":"\n\t\n\t\tMochiView: versatile software for genome browsing and DNA motif analysis\n\t\t\n\t\t\tOliverRHomann\n\t\t\n\t\t\n\t\t\tAlexanderDJohnson\n\t\t\n\t\t10.1186/1741-7007-8-49\n\t\t20409324\n\t\tPMC2867778\n\t\t\n\t\n\t\n\t\tBMC Biology\n\t\tBMC Biol\n\t\t1741-7007\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t49\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4ec567723bebd86673681"},"refKey":19},
{"_key":"60c4ec997723bebd866736a6","_id":"references/60c4ec997723bebd866736a6","_rev":"_cfFlece---","tei":"\n\t\n\t\tRevBayes: Bayesian phylogenetic inference using graphical models and an interactive model-specification language\n\t\t\n\t\t\tSHohna\n\t\t\n\t\t\n\t\t\tMJLandis\n\t\t\n\t\t\n\t\t\tTAHeath\n\t\t\n\t\t\n\t\t\tBBoussau\n\t\t\n\t\t\n\t\t\tNLartillot\n\t\t\n\t\t\n\t\t\tBRMoore\n\t\t\n\t\t\n\t\t\tJPHuelsenbeck\n\t\t\n\t\t\n\t\t\tFRonquist\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t65\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ec997723bebd866736a5"},"refKey":32},
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{"_key":"60c4ec997723bebd866736a9","_id":"references/60c4ec997723bebd866736a9","_rev":"_cfFledG---","tei":"\n\t\n\t\tDeveloping and Applying Heterogeneous Phylogenetic Models with XRate\n\t\t\n\t\t\tOscarWestesson\n\t\t\n\t\t\n\t\t\tIanHolmes\n\t\t\n\t\t10.1371/journal.pone.0036898\n\t\t22693624\n\t\tPMC3367922\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t7\n\t\t\t6\n\t\t\te36898\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c4ec997723bebd866736a5"},"refKey":39},
{"_key":"60c4ecbd7723bebd866736b4","_id":"references/60c4ecbd7723bebd866736b4","_rev":"_cfFledS---","tei":"\n\t\n\t\tElegant Graphics for Data Analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t10.1007/978-0-387-98141-3\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York, NY\n\t\t\n\t\n\n","document":{"$oid":"60c4ecbd7723bebd866736b3"},"refKey":11},
{"_key":"60c4ecc27723bebd866736bc","_id":"references/60c4ecc27723bebd866736bc","_rev":"_cfFlede---","tei":"\n\t\n\t\tAnt Colony Optimization\n\t\t\n\t\t\tMarcoDorigo\n\t\t\n\t\t\n\t\t\tMauroBirattari\n\t\t\n\t\t\n\t\t\tThomasStutzle\n\t\t\n\t\t10.1109/ci-m.2006.248054\n\t\t\n\t\n\t\n\t\tIEEE Computational Intelligence Magazine\n\t\tIEEE Comput. Intell. Mag.\n\t\t1556-603X\n\t\t\n\t\t\t1\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c4ecc27723bebd866736bb"},"refKey":3},
{"_key":"60c4ecc27723bebd866736bd","_id":"references/60c4ecc27723bebd866736bd","_rev":"_cfFledq---","tei":"\n\t\n\t\tA comprehensive survey: artificial bee colony (ABC) algorithm and applications\n\t\t\n\t\t\tDKaraboga\n\t\t\n\t\t\n\t\t\tBGorkemli\n\t\t\n\t\t\n\t\t\tCOzturk\n\t\t\n\t\t\n\t\t\tNKaraboga\n\t\t\n\t\n\t\n\t\tArtif. Intell. Rev\n\t\t\n\t\t\t42\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ecc27723bebd866736bb"},"refKey":5},
{"_key":"60c4ed987723bebd8667372d","_id":"references/60c4ed987723bebd8667372d","_rev":"_cfFled2---","tei":"\n\t\n\t\tA Map of Protein-rRNA Distribution in the 70 SEscherichia coliRibosome\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t\n\t\t\tKnudHNierhaus\n\t\t\n\t\t10.1074/jbc.275.19.14432\n\t\t10799526\n\t\t\n\t\n\t\n\t\tJournal of Biological Chemistry\n\t\tJ. Biol. Chem.\n\t\t0021-9258\n\t\t1083-351X\n\t\t\n\t\t\t275\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Biochemistry & Molecular Biology (ASBMB)\n\t\t\n\t\n\n","document":{"$oid":"60c4ed987723bebd8667372c"},"refKey":54},
{"_key":"60c4ed987723bebd8667372e","_id":"references/60c4ed987723bebd8667372e","_rev":"_cfFleeG---","tei":"\n\t\n\t\tSolving the generalized indirect Fourier transformation (GIFT) by Boltzmann simplex simulated annealing (BSSA)\n\t\t\n\t\t\tABergmann\n\t\t\n\t\t\n\t\t\tGFritz\n\t\t\n\t\t\n\t\t\tOGlatter\n\t\t\n\t\t10.1107/s0021889800008372\n\t\tark:/67375/WNG-3R8T8485-1\n\t\t998C5C524B95FDBC9CCFCBAD6ABB88E6206E7E2B\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t33\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c4ed987723bebd8667372c"},"refKey":5},
{"_key":"60c4ed987723bebd8667372f","_id":"references/60c4ed987723bebd8667372f","_rev":"_cfFleeS---","tei":"\n\t\n\t\tCrystallography & NMR system: a new software suite for macromolecular structure determination\n\t\t\n\t\t\tATBrünger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tGMClore\n\t\t\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tPGros\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tJSJiang\n\t\t\n\t\t\n\t\t\tJKuszewski\n\t\t\n\t\t\n\t\t\tMNilges\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D: Biol. Crystallogr\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ed987723bebd8667372c"},"refKey":9},
{"_key":"60c4ed987723bebd86673730","_id":"references/60c4ed987723bebd86673730","_rev":"_cfFleee---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ed987723bebd8667372c"},"refKey":27},
{"_key":"60c4ed987723bebd86673731","_id":"references/60c4ed987723bebd86673731","_rev":"_cfFleeq---","tei":"\n\t\n\t\tUniqueness ofab initioshape determination in small-angle scattering\n\t\t\n\t\t\tVladimirVVolkov\n\t\t\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t10.1107/s0021889803000268\n\t\tark:/67375/WNG-2N76ZP8B-G\n\t\t2D083EEC03184EC205B1DA5CD3E0ED83285B2FA5\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t36\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c4ed987723bebd8667372c"},"refKey":57},
{"_key":"60c4ed987723bebd86673732","_id":"references/60c4ed987723bebd86673732","_rev":"_cfFlee2---","tei":"\n\t\n\t\tGlobal Rigid Body Modeling of Macromolecular Complexes against Small-Angle Scattering Data\n\t\t\n\t\t\tMaximVPetoukhov\n\t\t\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t10.1529/biophysj.105.064154\n\t\t15923225\n\t\tPMC1366608\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t89\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4ed987723bebd8667372c"},"refKey":44},
{"_key":"60c4ed987723bebd86673733","_id":"references/60c4ed987723bebd86673733","_rev":"_cfFlefG---","tei":"\n\t\n\t\tATSAS2.1, a program package for small-angle scattering data analysis\n\t\t\n\t\t\tPetrVKonarev\n\t\t\n\t\t\n\t\t\tMaximVPetoukhov\n\t\t\n\t\t\n\t\t\tVladimirVVolkov\n\t\t\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t10.1107/s0021889806004699\n\t\tark:/67375/WNG-7906CMLK-Q\n\t\t79BEE97CFD3351E4361373BDB30471E47DDE22E6\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c4ed987723bebd8667372c"},"refKey":26},
{"_key":"60c4ed987723bebd86673734","_id":"references/60c4ed987723bebd86673734","_rev":"_cfFlefS---","tei":"\n\t\n\t\tThe program xeasy for computer-supported NMR spectral analysis in the three-dimensional structure determination of biomacromolecules\n\t\t\n\t\t\tChristianBartels\n\t\t\n\t\t\n\t\t\tTai-HeXia\n\t\t\n\t\t\n\t\t\tKurtWüthrich\n\t\t\n\t\t10.1016/0263-7855(93)80019-n\n\t\t0263-7855(93)80019-N\n\t\tark:/67375/6H6-J06ZPNBT-D\n\t\t1D3D5AA90AD4963B09C9861BD4F7E62B4300906E\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t11\n\t\t\t4\n\t\t\t263\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4ed987723bebd8667372c"},"refKey":4},
{"_key":"60c4ee3f7723bebd86673792","_id":"references/60c4ee3f7723bebd86673792","_rev":"_cfFlefi---","tei":"\n\t\n\t\tA Completely Reimplemented MPI Bioinformatics Toolkit with a New HHpred Server at its Core\n\t\t\n\t\t\tLukasZimmermann\n\t\t\n\t\t\n\t\t\tAndrewStephens\n\t\t\n\t\t\n\t\t\tSeung-ZinNam\n\t\t\n\t\t\n\t\t\tDavidRau\n\t\t\n\t\t\n\t\t\tJonasKübler\n\t\t\n\t\t\n\t\t\tMarkoLozajic\n\t\t\n\t\t\n\t\t\tFelixGabler\n\t\t\n\t\t\n\t\t\tJohannesSöding\n\t\t\n\t\t\n\t\t\tAndreiNLupas\n\t\t\n\t\t\n\t\t\tVikramAlva\n\t\t\n\t\t10.1016/j.jmb.2017.12.007\n\t\t29258817\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t430\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c4ee3f7723bebd86673791"},"refKey":35},
{"_key":"60c4eec07723bebd866737b1","_id":"references/60c4eec07723bebd866737b1","_rev":"_cfFlefu---","tei":"\n\t\n\t\tPartitionFinder 2: new methods for selecting partitioned models of evolution for molecular and morphological phylogenetic analyses\n\t\t\n\t\t\tRLanfear\n\t\t\n\t\t\n\t\t\tPBFrandsen\n\t\t\n\t\t\n\t\t\tAMWright\n\t\t\n\t\t\n\t\t\tTSenfeld\n\t\t\n\t\t\n\t\t\tBCalcott\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t34\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4eec07723bebd866737b0"},"refKey":5},
{"_key":"60c4eed57723bebd866737bd","_id":"references/60c4eed57723bebd866737bd","_rev":"_cfFlef6---","tei":"\n\t\n\t\tTowards error-free profiling of immune repertoires\n\t\t\n\t\t\tMShugay\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4eed57723bebd866737bc"},"refKey":29},
{"_key":"60c4eed57723bebd866737be","_id":"references/60c4eed57723bebd866737be","_rev":"_cfFlegK---","tei":"\n\t\n\t\tMiXCR: software for comprehensive adaptive immunity profiling\n\t\t\n\t\t\tDABolotin\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4eed57723bebd866737bc"},"refKey":30},
{"_key":"60c4eef67723bebd866737d8","_id":"references/60c4eef67723bebd866737d8","_rev":"_cfFlegW---","tei":"\n\t\n\t\tRapid generation of high quality approximate 3D molecular structures\n\t\t\n\t\t\tRSPearlman\n\t\t\n\t\n\t\n\t\tChem. Des. Auto. News\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4eef67723bebd866737d7"},"refKey":50},
{"_key":"60c4eef67723bebd866737d9","_id":"references/60c4eef67723bebd866737d9","_rev":"_cfFlegi---","tei":"\n\t\n\t\tSurflex-Dock: Docking benchmarks and real-world application\n\t\t\n\t\t\tRussellSpitzer\n\t\t\n\t\t\n\t\t\tAjayNJain\n\t\t\n\t\t10.1007/s10822-011-9533-y\n\t\t22569590\n\t\tPMC3398190\n\t\tark:/67375/VQC-S7TMS26R-W\n\t\tC96A3645519DB36C8FA29EF73E6A11B72721EFD0\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t26\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4eef67723bebd866737d7"},"refKey":52},
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{"_key":"60c4ef377723bebd86673838","_id":"references/60c4ef377723bebd86673838","_rev":"_cfFlehi---","tei":"\n\t\n\t\timplementation within R package vars\n\t\t\n\t\t\tBPfaff\n\t\t\n\t\t\n\t\t\tDLeeuw\n\t\t\n\t\t\n\t\t\tAZeileis\n\t\t\n\t\t\n\t\t\tVar\n\t\t\n\t\t\n\t\t\tModels\n\t\t\n\t\n\t\n\t\tJ. STAT. SOFTW\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ef377723bebd86673837"},"refKey":13},
{"_key":"60c4ef377723bebd86673839","_id":"references/60c4ef377723bebd86673839","_rev":"_cfFlehu---","tei":"\n\t\n\t\tThreshold cointegration: overview and implementation in R\n\t\t\n\t\t\tMStigler\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ef377723bebd86673837"},"refKey":14},
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{"_key":"60c4ef5c7723bebd8667384d","_id":"references/60c4ef5c7723bebd8667384d","_rev":"_cfFleiW---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ef5c7723bebd8667384b"},"refKey":6},
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{"_key":"60c4ef5c7723bebd8667384f","_id":"references/60c4ef5c7723bebd8667384f","_rev":"_cfFleiu---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4ef5c7723bebd8667384b"},"refKey":20},
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{"_key":"60c4f0767723bebd86673930","_id":"references/60c4f0767723bebd86673930","_rev":"_cfFlenG---","tei":"\n\t\n\t\tA tick-borne segmented RNA virus contains genome segments derived from unsegmented viral ancestors\n\t\t\n\t\t\tX-CQin\n\t\t\n\t\t\n\t\t\tMShi\n\t\t\n\t\t\n\t\t\tJ-HTian\n\t\t\n\t\t\n\t\t\tX-DLin\n\t\t\n\t\t\n\t\t\tD-YGao\n\t\t\n\t\t\n\t\t\tJ-RHe\n\t\t\n\t\t\n\t\t\tJ-BWang\n\t\t\n\t\t\n\t\t\tC-XLi\n\t\t\n\t\t\n\t\t\tY-JKang\n\t\t\n\t\t\n\t\t\tBYu\n\t\t\n\t\t\n\t\t\tD-JZhou\n\t\t\n\t\t\n\t\t\tJXu\n\t\t\n\t\t\n\t\t\tAPlyusnin\n\t\t\n\t\t\n\t\t\tECHolmes\n\t\t\n\t\t\n\t\t\tY-ZZhang\n\t\t\n\t\t10.1073/pnas.1324194111\n\t\t24753611\n\t\tPMC4020047\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t111\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c4f0767723bebd8667392b"},"refKey":6},
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{"_key":"60c4f0767723bebd86673941","_id":"references/60c4f0767723bebd86673941","_rev":"_cfFlenu---","tei":"\n\t\n\t\tDeviations from Standard Atomic Volumes as a Quality Measure for Protein Crystal Structures\n\t\t\n\t\t\tJoanPontius\n\t\t\n\t\t\n\t\t\tJeanRichelle\n\t\t\n\t\t\n\t\t\tShoshanaJWodak\n\t\t\n\t\t10.1006/jmbi.1996.0628\n\t\t8950272\n\t\tS0022-2836(96)90628-2\n\t\tark:/67375/6H6-VP7KCSTT-0\n\t\t2FAFC82733959FA167F7E701AF0BA09CFD1AE0CD\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t264\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4f0767723bebd8667393e"},"refKey":33},
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{"_key":"60c4f13b7723bebd866739cf","_id":"references/60c4f13b7723bebd866739cf","_rev":"_cfFleq6---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4f13b7723bebd866739cb"},"refKey":53},
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{"_key":"60c4f14d7723bebd866739f8","_id":"references/60c4f14d7723bebd866739f8","_rev":"_cfFlerS---","tei":"\n\t\n\t\tPLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses\n\t\t\n\t\t\tShaunPurcell\n\t\t\n\t\t\n\t\t\tBenjaminNeale\n\t\t\n\t\t\n\t\t\tKatheTodd-Brown\n\t\t\n\t\t\n\t\t\tLoriThomas\n\t\t\n\t\t\n\t\t\tManuelA RFerreira\n\t\t\n\t\t\n\t\t\tDavidBender\n\t\t\n\t\t\n\t\t\tJulianMaller\n\t\t\n\t\t\n\t\t\tPamelaSklar\n\t\t\n\t\t\n\t\t\tPaulI WDe Bakker\n\t\t\n\t\t\n\t\t\tMarkJDaly\n\t\t\n\t\t\n\t\t\tPakCSham\n\t\t\n\t\t10.1086/519795\n\t\t17701901\n\t\tPMC1950838\n\t\t\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4f14d7723bebd866739f7"},"refKey":39},
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{"_key":"60c4f24b7723bebd86673a39","_id":"references/60c4f24b7723bebd86673a39","_rev":"_cfFleru---","tei":"\n\t\n\t\tMaftools: efficient and comprehensive analysis of somatic variants in cancer\n\t\t\n\t\t\tAMayakonda\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t28\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f24b7723bebd86673a38"},"refKey":24},
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{"_key":"60c4f2827723bebd86673a4f","_id":"references/60c4f2827723bebd86673a4f","_rev":"_cfFles6---","tei":"\n\t\n\t\tA new coronavirus associated with human respiratory disease in China\n\t\t\n\t\t\tFWu\n\t\t\n\t\t\n\t\t\tSZhao\n\t\t\n\t\t\n\t\t\tBYu\n\t\t\n\t\t\n\t\t\tYMChen\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tZGSong\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t579\n\t\t\t7798\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f2827723bebd86673a49"},"refKey":35},
{"_key":"60c4f2827723bebd86673a50","_id":"references/60c4f2827723bebd86673a50","_rev":"_cfFletG---","tei":"\n\t\n\t\tClinical characteristics and outcome of influenza virus infection among adults hospitalized with severe COVID-19: A retrospective cohort study from Wuhan\n\t\t\n\t\t\tXTong\n\t\t\n\t\t\n\t\t\tXXu\n\t\t\n\t\t\n\t\t\tGLv\n\t\t\n\t\t\n\t\t\tHWang\n\t\t\n\t\t\n\t\t\tACheng\n\t\t\n\t\t\n\t\t\tDWang\n\t\t\n\t\t\n\t\t\t\n\t\t\tChina. Research Square\n\t\t\n\t\n\n","document":{"$oid":"60c4f2827723bebd86673a49"},"refKey":11},
{"_key":"60c4f2b47723bebd86673aa3","_id":"references/60c4f2b47723bebd86673aa3","_rev":"_cfFletS---","tei":"\n\t\n\t\tQuantitative and unbiased analysis of directional persistence in cell migration\n\t\t\n\t\t\tRGorelik\n\t\t\n\t\t\n\t\t\tAGautreau\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f2b47723bebd86673aa2"},"refKey":11},
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{"_key":"60c4f4367723bebd86673bb9","_id":"references/60c4f4367723bebd86673bb9","_rev":"_cfFlewe---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)−−a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f4367723bebd86673bb8"},"refKey":32},
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{"_key":"60c4f4637723bebd86673bcc","_id":"references/60c4f4637723bebd86673bcc","_rev":"_cfFlexC---","tei":"\n\t\n\t\tGuidelines for including grey literature and conducting multivocal literature reviews in software engineering\n\t\t\n\t\t\tVahidGarousi\n\t\t\t0000-0001-6590-7576\n\t\t\n\t\t\n\t\t\tMichaelFelderer\n\t\t\n\t\t\n\t\t\tMikaVMäntylä\n\t\t\n\t\t10.1016/j.infsof.2018.09.006\n\t\t\n\t\n\t\n\t\tInformation and Software Technology\n\t\tInformation and Software Technology\n\t\t0950-5849\n\t\t\n\t\t\t106\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4f4637723bebd86673bcb"},"refKey":14},
{"_key":"60c4f47e7723bebd86673bdc","_id":"references/60c4f47e7723bebd86673bdc","_rev":"_cfFlexO---","tei":"\n\t\n\t\tDisparities in Cancer Screening: Acceptance of Pap Smears among Homeless Women\n\t\t\n\t\t\tMonicaBharel\n\t\t\n\t\t\n\t\t\tCarolynCasey\n\t\t\n\t\t\n\t\t\tEveWittenberg\n\t\t\n\t\t10.1089/jwh.2008.1111\n\t\t20044864\n\t\n\t\n\t\tJournal of Women's Health\n\t\tJournal of Women's Health\n\t\t1540-9996\n\t\t1931-843X\n\t\t\n\t\t\t18\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c4f47e7723bebd86673bdb"},"refKey":32},
{"_key":"60c4f4807723bebd86673be3","_id":"references/60c4f4807723bebd86673be3","_rev":"_cfFlexa---","tei":"\n\t\n\t\tStata statistical software: release 15\n\t\t\n\t\t\tStatacorp\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f4807723bebd86673be2"},"refKey":9},
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{"_key":"60c4f4c67723bebd86673c03","_id":"references/60c4f4c67723bebd86673c03","_rev":"_cfFlex2---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protocols\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f4c67723bebd86673c02"},"refKey":27},
{"_key":"60c4f4c67723bebd86673c04","_id":"references/60c4f4c67723bebd86673c04","_rev":"_cfFleyC---","tei":"\n\t\n\t\tBioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f4c67723bebd86673c02"},"refKey":28},
{"_key":"60c4f5047723bebd86673c3a","_id":"references/60c4f5047723bebd86673c3a","_rev":"_cfFleyO---","tei":"\n\t\n\t\tA scoring system for appraising mixed methods research, and concomitantly appraising qualitative, quantitative and mixed methods primary studies in Mixed Studies Reviews\n\t\t\n\t\t\tPierrePluye\n\t\t\n\t\t\n\t\t\tMarie-PierreGagnon\n\t\t\n\t\t\n\t\t\tFrancesGriffiths\n\t\t\n\t\t\n\t\t\tJaniqueJohnson-Lafleur\n\t\t\n\t\t10.1016/j.ijnurstu.2009.01.009\n\t\t19233357\n\t\n\t\n\t\tInternational Journal of Nursing Studies\n\t\tInternational Journal of Nursing Studies\n\t\t0020-7489\n\t\t\n\t\t\t46\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4f5047723bebd86673c39"},"refKey":38},
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{"_key":"60c4f5767723bebd86673c7d","_id":"references/60c4f5767723bebd86673c7d","_rev":"_cfFlezm---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\n\t\n\t\tProc. Natl Acad. Sci. USA\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f5767723bebd86673c7a"},"refKey":63},
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{"_key":"60c4f5db7723bebd86673ced","_id":"references/60c4f5db7723bebd86673ced","_rev":"_cfFle0a---","tei":"\n\t\n\t\tA computational procedure for determining energetically favorable binding sites on biologically important macromolecules\n\t\t\n\t\t\tPJGoodford\n\t\t\n\t\t10.1021/jm00145a002\n\t\t3892003\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t28\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c4f5db7723bebd86673cec"},"refKey":23},
{"_key":"60c4f5e57723bebd86673d01","_id":"references/60c4f5e57723bebd86673d01","_rev":"_cfFle0m---","tei":"\n\t\n\t\tEntity resolution for longitudinal studies in education using OYSTER\n\t\t\n\t\t\tENelson\n\t\t\n\t\t\n\t\t\tJRTalburt\n\t\t\n\t\n\t\n\t\tProceedings of 2011 Information and Knowledge Engineering Conference (IKE)\n\t\t\t\t2011 Information and Knowledge Engineering Conference (IKE)\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f5e57723bebd86673d00"},"refKey":4},
{"_key":"60c4f5e57723bebd86673d02","_id":"references/60c4f5e57723bebd86673d02","_rev":"_cfFle0y---","tei":"\n\t\n\t\tA Practical Guide to Entity Resolution with OYSTER\n\t\t\n\t\t\tJohnRTalburt\n\t\t\n\t\t\n\t\t\tYinleZhou\n\t\t\n\t\t10.1007/978-3-642-36257-6_11\n\t\n\t\n\t\tHandbook of Data Quality\n\t\t\t\t\n\t\t\tSSadiq\n\t\t\n\t\tHeidelberg, Germany\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tHandbook of data quality\n\n","document":{"$oid":"60c4f5e57723bebd86673d00"},"refKey":5},
{"_key":"60c4f5e57723bebd86673d03","_id":"references/60c4f5e57723bebd86673d03","_rev":"_cfFle1C---","tei":"\n\t\n\t\tDeveloping and refining matching rules for entity resolution\n\t\t\n\t\t\tHSyed\n\t\t\n\t\t\n\t\t\tJTalburt\n\t\t\n\t\t\n\t\t\tFLiu\n\t\t\n\t\t\n\t\t\tDPullen\n\t\t\n\t\t\n\t\t\tNWu\n\t\t\n\t\n\t\n\t\tProceedings of the International Conference on Information and Knowledge Engineering (IKE)\n\t\t\t\tthe International Conference on Information and Knowledge Engineering (IKE)\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f5e57723bebd86673d00"},"refKey":28},
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{"_key":"60c4f5eb7723bebd86673d20","_id":"references/60c4f5eb7723bebd86673d20","_rev":"_cfFle1m---","tei":"\n\t\n\t\tComparative protein structure modeling of genes and genomes\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tNEswar\n\t\t\n\t\t\n\t\t\tUPieper\n\t\t\n\t\t\n\t\t\tMAMarti-Renom\n\t\t\n\t\t\n\t\t\tMMadhusudhan\n\t\t\n\t\t\n\t\t\tAFiser\n\t\t\n\t\t\n\t\t\tVIlyin\n\t\t\n\t\t10.1107/s0108767302087068\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t58\n\t\t\ts1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c4f5eb7723bebd86673d1e"},"refKey":28},
{"_key":"60c4f5eb7723bebd86673d21","_id":"references/60c4f5eb7723bebd86673d21","_rev":"_cfFle12---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f5eb7723bebd86673d1e"},"refKey":29},
{"_key":"60c4f5eb7723bebd86673d22","_id":"references/60c4f5eb7723bebd86673d22","_rev":"_cfFle2C---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f5eb7723bebd86673d1e"},"refKey":37},
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{"_key":"60c4f6557723bebd86673d70","_id":"references/60c4f6557723bebd86673d70","_rev":"_cfFle3e---","tei":"\n\t\n\t\tAllergenFP: allergenicity prediction by descriptor fingerprints\n\t\t\n\t\t\tIDimitrov\n\t\t\n\t\t\n\t\t\tLNaneva\n\t\t\n\t\t\n\t\t\tIDoytchinova\n\t\t\n\t\t\n\t\t\tIBangov\n\t\t\n\t\t10.1093/bioinformatics/btt619\n\t\t24167156\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4f6557723bebd86673d6e"},"refKey":24},
{"_key":"60c4f6557723bebd86673d71","_id":"references/60c4f6557723bebd86673d71","_rev":"_cfFle3q---","tei":"\n\t\n\t\tAllerTOP v.2—a server for in silico prediction of allergens\n\t\t\n\t\t\tIvanDimitrov\n\t\t\n\t\t\n\t\t\tIvanBangov\n\t\t\n\t\t\n\t\t\tDarrenRFlower\n\t\t\n\t\t\n\t\t\tIriniDoytchinova\n\t\t\n\t\t10.1007/s00894-014-2278-5\n\t\t24878803\n\t\t\n\t\n\t\n\t\tJournal of Molecular Modeling\n\t\tJ Mol Model\n\t\t1610-2940\n\t\t0948-5023\n\t\t\n\t\t\t20\n\t\t\t6\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4f6557723bebd86673d6e"},"refKey":23},
{"_key":"60c4f65e7723bebd86673db3","_id":"references/60c4f65e7723bebd86673db3","_rev":"_cfFle32---","tei":"\n\t\n\t\tThe Rough Set Exploration System\n\t\t\n\t\t\tJanGBazan\n\t\t\n\t\t\n\t\t\tMarcinSzczuka\n\t\t\n\t\t10.1007/11427834_2\n\t\tark:/67375/HCB-4D58MJ11-X\n\t\t84F74AAA6C972993842760B82513AAE99C1314CE\n\t\t\n\t\n\t\n\t\tTransactions on Rough Sets III\n\t\t\t\t\n\t\t\tJFPeters\n\t\t\tASkowron\n\t\t\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t3400\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f65e7723bebd86673db2"},"refKey":3},
{"_key":"60c4f6637723bebd86673db6","_id":"references/60c4f6637723bebd86673db6","_rev":"_cfFle4C---","tei":"\n\t\n\t\tThe Definitive ANTLR 4 Reference\n\t\t\n\t\t\tTParr\n\t\t\n\t\t\n\t\t\t\n\t\t\tPragmatic Bookshelf\n\t\t\n\t\n\n","document":{"$oid":"60c4f6637723bebd86673db5"},"refKey":24},
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{"_key":"60c4f6947723bebd86673dfe","_id":"references/60c4f6947723bebd86673dfe","_rev":"_cfFle5q---","tei":"\n\t\n\t\tAllergenOnline: A peer-reviewed\n\t\t\n\t\t\tREGoodman\n\t\t\n\t\t\n\t\t\tMEbisawa\n\t\t\n\t\t\n\t\t\tFFerreira\n\t\t\n\t\t\n\t\t\tHASampson\n\t\t\n\t\t\n\t\t\tRVan Ree\n\t\t\n\t\t\n\t\t\tSVieths\n\t\t\n\t\t\n\t\n\tcurated allergen database to assess novel food proteins for potential cross-reactivity\n\n","document":{"$oid":"60c4f6947723bebd86673dfa"},"refKey":56},
{"_key":"60c4f6947723bebd86673dff","_id":"references/60c4f6947723bebd86673dff","_rev":"_cfFle56---","tei":"\n\t\n\t\tAllerTOP v.2—a server for in silico prediction of allergens\n\t\t\n\t\t\tIvanDimitrov\n\t\t\n\t\t\n\t\t\tIvanBangov\n\t\t\n\t\t\n\t\t\tDarrenRFlower\n\t\t\n\t\t\n\t\t\tIriniDoytchinova\n\t\t\n\t\t10.1007/s00894-014-2278-5\n\t\t24878803\n\t\t\n\t\n\t\n\t\tJournal of Molecular Modeling\n\t\tJ Mol Model\n\t\t1610-2940\n\t\t0948-5023\n\t\t\n\t\t\t20\n\t\t\t6\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c4f6947723bebd86673dfa"},"refKey":54},
{"_key":"60c4f6947723bebd86673e00","_id":"references/60c4f6947723bebd86673e00","_rev":"_cfFle6G---","tei":"\n\t\n\t\tThe immune epitope database (IEDB) 3.0\n\t\t\n\t\t\tRandiVita\n\t\t\n\t\t\n\t\t\tJamesAOverton\n\t\t\n\t\t\n\t\t\tJasonAGreenbaum\n\t\t\n\t\t\n\t\t\tJuliaPonomarenko\n\t\t\n\t\t\n\t\t\tJasonDClark\n\t\t\n\t\t\n\t\t\tJasonRCantrell\n\t\t\n\t\t\n\t\t\tDanielKWheeler\n\t\t\n\t\t\n\t\t\tJosephLGabbard\n\t\t\n\t\t\n\t\t\tDeborahHix\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t10.1093/nar/gku938\n\t\t25300482\n\t\tPMC4384014\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4f6947723bebd86673dfa"},"refKey":52},
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{"_key":"60c4f6947723bebd86673e02","_id":"references/60c4f6947723bebd86673e02","_rev":"_cfFle6e---","tei":"\n\t\n\t\tSTRING v11: Protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\t\n\t\t\tALGable\n\t\t\n\t\t\n\t\t\tDLyon\n\t\t\n\t\t\n\t\t\tAJunge\n\t\t\n\t\t\n\t\t\tSWyder\n\t\t\n\t\t\n\t\t\tJHuerta-Cepas\n\t\t\n\t\t10.1093/nar/gky1131\n\t\t30476243\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f6947723bebd86673dfa"},"refKey":48},
{"_key":"60c4f6947723bebd86673e03","_id":"references/60c4f6947723bebd86673e03","_rev":"_cfFle6u---","tei":"\n\t\n\t\tEvolution of In Silico Strategies for Protein-Protein Interaction Drug Discovery\n\t\t\n\t\t\tStephaniJoy YMacalino\n\t\t\n\t\t\n\t\t\tShaherinBasith\n\t\t\n\t\t\n\t\t\tNinaAbigail BClavio\n\t\t\n\t\t\n\t\t\tHyerimChang\n\t\t\n\t\t\n\t\t\tSoosungKang\n\t\t\n\t\t\n\t\t\tSunChoi\n\t\t\t0000-0002-7669-7954\n\t\t\n\t\t10.3390/molecules23081963\n\t\t30082644\n\t\tPMC6222862\n\t\t\n\t\t\n\t\n\t\n\t\tMolecules\n\t\tMolecules\n\t\t1420-3049\n\t\t\n\t\t\t23\n\t\t\t8\n\t\t\t1963\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c4f6947723bebd86673dfa"},"refKey":77},
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{"_key":"60c4f6947723bebd86673e05","_id":"references/60c4f6947723bebd86673e05","_rev":"_cfFle7G---","tei":"\n\t\n\t\tImproving the Physical Realism and Structural Accuracy of Protein Models by a Two-Step Atomic-Level Energy Minimization\n\t\t\n\t\t\tDongXu\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1016/j.bpj.2011.10.024\n\t\t22098752\n\t\tPMC3218324\n\t\t\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t101\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4f6947723bebd86673dfa"},"refKey":73},
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{"_key":"60c4f6997723bebd86673e95","_id":"references/60c4f6997723bebd86673e95","_rev":"_cfFle76---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4f6997723bebd86673e91"},"refKey":40},
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{"_key":"60c4f6997723bebd86673e97","_id":"references/60c4f6997723bebd86673e97","_rev":"_cfFle8W---","tei":"\n\t\n\t\tThe R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads\n\t\t\n\t\t\tYangLiao\n\t\t\n\t\t\n\t\t\tGordonKSmyth\n\t\t\t0000-0001-9221-2892\n\t\t\n\t\t\n\t\t\tWeiShi\n\t\t\t0000-0003-1182-7735\n\t\t\n\t\t10.1093/nar/gkz114\n\t\t30783653\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4f6997723bebd86673e91"},"refKey":34},
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{"_key":"60c4f6a37723bebd86673eb4","_id":"references/60c4f6a37723bebd86673eb4","_rev":"_cfFle86---","tei":"\n\t\n\t\tA simple and fast secondary structure prediction method using hidden neural networks\n\t\t\n\t\t\tKLin\n\t\t\n\t\t\n\t\t\tVASimossis\n\t\t\n\t\t\n\t\t\tWRTaylor\n\t\t\n\t\t\n\t\t\tJHeringa\n\t\t\n\t\t10.1093/bioinformatics/bth487\n\t\t15377504\n\t\tark:/67375/HXZ-V666B13C-K\n\t\t7FDCDB8D64040C2B76A66CC790B70483462EE6DD\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4f6a37723bebd86673eb1"},"refKey":26},
{"_key":"60c4f6a37723bebd86673eb5","_id":"references/60c4f6a37723bebd86673eb5","_rev":"_cfFle9K---","tei":"\n\t\n\t\tCombining prediction of secondary structure and solvent accessibility in proteins\n\t\t\n\t\t\tRafałAdamczak\n\t\t\n\t\t\n\t\t\tAlekseyPorollo\n\t\t\n\t\t\n\t\t\tJarosławMeller\n\t\t\n\t\t10.1002/prot.20441\n\t\t15768403\n\t\tark:/67375/WNG-5Z3W9QZG-Q\n\t\t76D519BD7F7480ABDD1CE8B1F9F89AB605856571\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4f6a37723bebd86673eb1"},"refKey":27},
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{"_key":"60c4f76e7723bebd86673f50","_id":"references/60c4f76e7723bebd86673f50","_rev":"_cfFlf_2---","tei":"\n\t\n\t\tMultivariate discovery and replication of five novel loci associated with Immunoglobulin G N-glycosylation\n\t\t\n\t\t\tXiaShen\n\t\t\t0000-0003-4390-1979\n\t\t\n\t\t\n\t\t\tLucijaKlarić\n\t\t\t0000-0003-3105-8929\n\t\t\n\t\t\n\t\t\tSodboSharapov\n\t\t\n\t\t\n\t\t\tMassimoMangino\n\t\t\t0000-0002-2167-7470\n\t\t\n\t\t\n\t\t\tZhengNing\n\t\t\n\t\t\n\t\t\tDiWu\n\t\t\n\t\t\n\t\t\tIrenaTrbojević-Akmačić\n\t\t\n\t\t\n\t\t\tMajaPučić-Baković\n\t\t\n\t\t\n\t\t\tIgorRudan\n\t\t\n\t\t\n\t\t\tOzrenPolašek\n\t\t\n\t\t\n\t\t\tCarolineHayward\n\t\t\t0000-0002-9405-9550\n\t\t\n\t\t\n\t\t\tTimothyDSpector\n\t\t\n\t\t\n\t\t\tJamesFWilson\n\t\t\t0000-0001-5751-9178\n\t\t\n\t\t\n\t\t\tGordanLauc\n\t\t\n\t\t\n\t\t\tYuriiSAulchenko\n\t\t\t0000-0002-7899-1575\n\t\t\n\t\t10.1038/s41467-017-00453-3\n\t\t28878392\n\t\tPMC5587582\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t447\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4f76e7723bebd86673f4d"},"refKey":13},
{"_key":"60c4f76e7723bebd86673f51","_id":"references/60c4f76e7723bebd86673f51","_rev":"_cfFlfAC---","tei":"\n\t\n\t\tBeyond power: Multivariate discovery, replication, and interpretation of pleiotropic loci using summary association statistics\n\t\t\n\t\t\tZhengNing\n\t\t\n\t\t\n\t\t\tYakovATsepilov\n\t\t\n\t\t\n\t\t\tSodboZh. Sharapov\n\t\t\n\t\t\n\t\t\tAlexanderKGrishenko\n\t\t\n\t\t\n\t\t\tXiaoFeng\n\t\t\n\t\t\n\t\t\tMasoudShirali\n\t\t\n\t\t\n\t\t\tPeterKJoshi\n\t\t\n\t\t\n\t\t\tJamesFWilson\n\t\t\n\t\t\n\t\t\tYudiPawitan\n\t\t\n\t\t\n\t\t\tChrisSHaley\n\t\t\n\t\t\n\t\t\tYuriiSAulchenko\n\t\t\n\t\t\n\t\t\tXiaShen\n\t\t\t0000-0003-4390-1979\n\t\t\n\t\t10.1101/022269\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c4f76e7723bebd86673f4d"},"refKey":27},
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{"_key":"60c4fa9d7723bebd86674368","_id":"references/60c4fa9d7723bebd86674368","_rev":"_cfFlfMa---","tei":"\n\t\n\t\tDistributed lag linear and NonLinear models in R: the package dlnm\n\t\t\n\t\t\tAGasparrini\n\t\t\n\t\t\n\t\n\t\n\t\tJ. Stat. Software\n\t\t\n\t\t\t43\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4fa9d7723bebd86674367"},"refKey":10},
{"_key":"60c4fa9d7723bebd86674369","_id":"references/60c4fa9d7723bebd86674369","_rev":"_cfFlfMq---","tei":"\n\t\n\t\tFast stable restricted maximum likelihood and marginal likelihood estimation of semiparametric generalized linear models\n\t\t\n\t\t\tSimonNWood\n\t\t\n\t\t10.1111/j.1467-9868.2010.00749.x\n\t\tark:/67375/WNG-08K5335V-H\n\t\t47DEC35338CB6AD431B99A0EF5538DFF2193351B\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of the Royal Statistical Society: Series B (Statistical Methodology)\n\t\t1369-7412\n\t\t\n\t\t\t73\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c4fa9d7723bebd86674367"},"refKey":44},
{"_key":"60c4faa17723bebd8667436d","_id":"references/60c4faa17723bebd8667436d","_rev":"_cfFlfM2---","tei":"\n\t\n\t\tThe Genotype-Tissue Expression (GTEx) project\n\t\t\n\t\t\tJohnLonsdale\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJeffreyThomas\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMikeSalvatore\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tRebeccaPhillips\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tEdmundLo\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSaboorShad\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tRichardHasz\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tGaryWalters\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tFernandoGarcia\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tNancyYoung\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tBarbaraFoster\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMikeMoser\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tEllenKarasik\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tBryanGillard\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tKimberleyRamsey\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSusanSullivan\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJasonBridge\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tHaroldMagazine\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJohnSyron\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJohnelleFleming\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tLauraSiminoff\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tHeatherTraino\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMaghboebaMosavel\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tLauraBarker\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tScottJewell\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDanRohrer\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDanMaxim\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDanaFilkins\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tPhilipHarbach\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tEddieCortadillo\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tBreeBerghuis\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tLisaTurner\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tEricHudson\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tKristinFeenstra\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tLeslieSobin\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJamesRobb\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tPhillipBranton\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tGregKorzeniewski\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tCharlesShive\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDavidTabor\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tLiqunQi\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tKevinGroch\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSreenathNampally\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSteveBuia\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAngelaZimmerman\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAnnaSmith\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tRobinBurges\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tKarnaRobinson\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tKimValentino\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDeborahBradbury\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMarkCosentino\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tNormaDiaz-Mayoral\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMaryKennedy\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tTheresaEngel\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tPenelopeWilliams\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tKenyonErickson\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tKristinArdlie\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDavidDeluca\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDanielMacarthur\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tManolisKellis\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAlexanderThomson\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tTaylorYoung\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tEllenGelfand\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMollyDonovan\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tYanMeng\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tGeorgeGrant\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDeborahMash\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tYvonneMarcus\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMargaretBasile\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJunLiu\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJunZhu\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tZhidongTu\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tNancyJCox\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDanLNicolae\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tEricRGamazon\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tHaeKyungIm\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAnuarKonkashbaev\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJonathanPritchard\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMatthewStevens\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tTimothèeFlutre\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tXiaoquanWen\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tEmmanouilTDermitzakis\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tTuuliLappalainen\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tRodericGuigo\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJeanMonlong\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMichaelSammeth\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDaphneKoller\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAlexisBattle\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSaraMostafavi\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMarkMccarthy\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tManualRivas\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJulianMaller\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tIvanRusyn\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAndrewNobel\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tFredWright\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAndreyShabalin\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMikeFeolo\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tNataliyaSharopova\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAnneSturcke\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJustinPaschal\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJamesMAnderson\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tElizabethLWilder\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tLeslieKDerr\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tEricDGreen\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJefferyPStruewing\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tGaryTemple\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSimonaVolpi\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJoyTBoyer\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tElizabethJThomson\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMarkSGuyer\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tCathyNg\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAssyaAbdallah\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDeborahColantuoni\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tThomasRInsel\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSusanEKoester\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tARogerLittle\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tPatrickKBender\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tThomasLehner\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tYinYao\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tCarolynCCompton\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJimmieBVaught\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSherilynSawyer\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tNicoleCLockhart\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJoanneDemchok\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tHelenFMoore\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t10.1038/ng.2653\n\t\t23715323\n\t\tPMC4010069\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t45\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4faa17723bebd8667436c"},"refKey":11},
{"_key":"60c4faa17723bebd8667436e","_id":"references/60c4faa17723bebd8667436e","_rev":"_cfFlfNG---","tei":"\n\t\n\t\tThe Gene Ontology Resource: 20 years and still GOing strong\n\t\t10.1093/nar/gky1055\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tThe Gene Ontology Consortium. PubMed\n\n","document":{"$oid":"60c4faa17723bebd8667436c"},"refKey":12},
{"_key":"60c4faaf7723bebd86674375","_id":"references/60c4faaf7723bebd86674375","_rev":"_cfFlfNS---","tei":"\n\t\n\t\tQuantitative analysis of protein far UV circular dichroism spectra by neural networks\n\t\t\n\t\t\tGBo ¨hm\n\t\t\n\t\t\n\t\t\tRMuhr\n\t\t\n\t\t\n\t\t\tRJaenicke\n\t\t\n\t\n\t\n\t\tProt Eng\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4faaf7723bebd86674374"},"refKey":22},
{"_key":"60c4fab07723bebd8667437b","_id":"references/60c4fab07723bebd8667437b","_rev":"_cfFlfNe---","tei":"\n\t\n\t\tChange-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data: Table 1.\n\t\t\n\t\t\tNamitaTGupta\n\t\t\n\t\t\n\t\t\tJasonAVander Heiden\n\t\t\n\t\t\n\t\t\tMohamedUduman\n\t\t\n\t\t\n\t\t\tDanielGadala-Maria\n\t\t\n\t\t\n\t\t\tGurYaari\n\t\t\n\t\t\n\t\t\tStevenHKleinstein\n\t\t\n\t\t10.1093/bioinformatics/btv359\n\t\t26069265\n\t\tPMC4793929\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c4fab07723bebd8667437a"},"refKey":57},
{"_key":"60c4fac17723bebd8667438c","_id":"references/60c4fac17723bebd8667438c","_rev":"_cfFlfNu---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4fac07723bebd8667438b"},"refKey":20},
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{"_key":"60c4fad07723bebd8667439a","_id":"references/60c4fad07723bebd8667439a","_rev":"_cfFlfOG---","tei":"\n\t\n\t\tMeasure text readability -readability and keyword density analysis and tools -unique readability tools to improve your writing! Readable\n\t\t\n\t\t\tReadable\n\t\t\n\t\t\n\t\t\tIo\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4fad07723bebd86674398"},"refKey":19},
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{"_key":"60c4faf17723bebd866743d9","_id":"references/60c4faf17723bebd866743d9","_rev":"_cfFlfOu---","tei":"\n\t\n\t\tPubMed Abstract | Publisher Full Text | Free Full Text 24. NM: Maternal antenatal screening for group B Streptoco, MPRU conference\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\n\t\n\t\tMucosal Pathogens Reseach Unit\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\tJ Biomed Inform\n\n","document":{"$oid":"60c4faf17723bebd866743d8"},"refKey":21},
{"_key":"60c4fb177723bebd866743df","_id":"references/60c4fb177723bebd866743df","_rev":"_cfFlfO6---","tei":"\n\t\n\t\tPotent and selective inhibition of pathogenic viruses by engineered ubiquitin variants\n\t\t\n\t\t\tWeiZhang\n\t\t\n\t\t\n\t\t\tBenABailey-Elkin\n\t\t\t0000-0001-6863-2643\n\t\t\n\t\t\n\t\t\tRobertC MKnaap\n\t\t\n\t\t\n\t\t\tBaldeepKhare\n\t\t\n\t\t\n\t\t\tTimJDalebout\n\t\t\n\t\t\n\t\t\tGarrettGJohnson\n\t\t\n\t\t\n\t\t\tPuckBVan Kasteren\n\t\t\n\t\t\n\t\t\tNigelJMcleish\n\t\t\t0000-0003-2216-2687\n\t\t\n\t\t\n\t\t\tJunGu\n\t\t\n\t\t\n\t\t\tWenguangHe\n\t\t\n\t\t\n\t\t\tMarjoleinKikkert\n\t\t\n\t\t\n\t\t\tBrianLMark\n\t\t\n\t\t\n\t\t\tSachdevSSidhu\n\t\t\t0000-0001-7755-5918\n\t\t\n\t\t10.1371/journal.ppat.1006372\n\t\t28542609\n\t\tPMC5451084\n\t\t\n\t\n\t\n\t\tPLOS Pathogens\n\t\tPLoS Pathog\n\t\t1553-7374\n\t\t\n\t\t\t13\n\t\t\t5\n\t\t\te1006372\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c4fb177723bebd866743de"},"refKey":26},
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{"_key":"60c4fb4f7723bebd86674402","_id":"references/60c4fb4f7723bebd86674402","_rev":"_cfFlfPu---","tei":"\n\t\n\t\tUnbiased metagenomic sequencing complements specific routine diagnostic methods and increases chances to detect rare viral strains\n\t\t\n\t\t\tDagmaraWLewandowska\n\t\t\n\t\t\n\t\t\tOsvaldoZagordi\n\t\t\n\t\t\n\t\t\tAndreaZbinden\n\t\t\n\t\t\n\t\t\tMacéMSchuurmans\n\t\t\n\t\t\n\t\t\tPeterSchreiber\n\t\t\n\t\t\n\t\t\tFabienne-DesiréeGeissberger\n\t\t\n\t\t\n\t\t\tJonBHuder\n\t\t\n\t\t\n\t\t\tJürgBöni\n\t\t\n\t\t\n\t\t\tChristianBenden\n\t\t\n\t\t\n\t\t\tNicolasJMueller\n\t\t\n\t\t\n\t\t\tAlexandraTrkola\n\t\t\n\t\t\n\t\t\tMichaelHuber\n\t\t\n\t\t10.1016/j.diagmicrobio.2015.06.017\n\t\t26231254\n\t\n\t\n\t\tDiagnostic Microbiology and Infectious Disease\n\t\tDiagnostic Microbiology and Infectious Disease\n\t\t0732-8893\n\t\t\n\t\t\t83\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c4fb4f7723bebd86674400"},"refKey":4},
{"_key":"60c4fb4f7723bebd86674403","_id":"references/60c4fb4f7723bebd86674403","_rev":"_cfFlfP6---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4fb4f7723bebd86674400"},"refKey":5},
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{"_key":"60c4fb5b7723bebd8667440f","_id":"references/60c4fb5b7723bebd8667440f","_rev":"_cfFlfQW---","tei":"\n\t\n\t\tStataCorp. Stata statistical software: release 15. College Station: StataCorp LLC\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4fb5b7723bebd8667440e"},"refKey":18},
{"_key":"60c4fb9c7723bebd86674439","_id":"references/60c4fb9c7723bebd86674439","_rev":"_cfFlfQi---","tei":"\n\t\n\t\tEvaluation of methods for detecting recombination from DNA sequences: Computer simulations\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\t10.1073/pnas.241370698\n\t\t11717435\n\t\tPMC61114\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c4fb9c7723bebd86674438"},"refKey":107},
{"_key":"60c4fbc87723bebd86674454","_id":"references/60c4fbc87723bebd86674454","_rev":"_cfFlfQu---","tei":"\n\t\n\t\tSoftware survey: VOSviewer, a computer program for bibliometric mapping\n\t\t\n\t\t\tNeesJanVan Eck\n\t\t\n\t\t\n\t\t\tLudoWaltman\n\t\t\n\t\t10.1007/s11192-009-0146-3\n\t\t20585380\n\t\tPMC2883932\n\t\tark:/67375/VQC-8X87T0TL-D\n\t\tDC112260644E1E345B37DC3D68B3E9728A97835E\n\t\t\n\t\n\t\n\t\tScientometrics\n\t\tScientometrics\n\t\t0138-9130\n\t\t1588-2861\n\t\t\n\t\t\t84\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c4fbc87723bebd86674453"},"refKey":8},
{"_key":"60c4fbcc7723bebd86674457","_id":"references/60c4fbcc7723bebd86674457","_rev":"_cfFlfQ6---","tei":"\n\t\n\t\tThe Multi-Agent Transport Simulation MATSim\n\t\t\n\t\t\tAHorni\n\t\t\n\t\t\n\t\t\tKNagel\n\t\t\n\t\t\n\t\t\tAxhausen\n\t\t\n\t\tK. W.\n\t\t\n\t\t\t\n\t\t\tUbiquity\n\t\t\tLondon, England\n\t\t\n\t\n\n","document":{"$oid":"60c4fbcc7723bebd86674456"},"refKey":41},
{"_key":"60c4fbcc7723bebd86674458","_id":"references/60c4fbcc7723bebd86674458","_rev":"_cfFlfRG---","tei":"\n\t\n\t\tA New BDI Agent Architecture Based on the Belief Theory. Application to the Modelling of Cropping Plan Decision-Making\n\t\t\n\t\t\tPTaillandier\n\t\t\n\t\t\n\t\t\tOTherond\n\t\t\n\t\t\n\t\t\tBGaudou\n\t\t\n\t\n\t\n\t\t2012 International Congress on Environmental Modelling and Software, International Environmental Modelling and Software Society\n\t\t\t\t\n\t\t\tRSeppelt\n\t\t\tAAVoinov\n\t\t\tSLange\n\t\t\tDBankamp\n\t\t\n\t\tLeipzig, Germany\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c4fbcc7723bebd86674456"},"refKey":79},
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{"_key":"60c4fbe67723bebd86674467","_id":"references/60c4fbe67723bebd86674467","_rev":"_cfFlfRi---","tei":"\n\t\n\t\tA user's guide to MLwiN\n\t\t\n\t\t\tJRasbash\n\t\t\n\t\t\n\t\t\tWBrowne\n\t\t\n\t\t\n\t\t\tHGoldstein\n\t\t\n\t\t\n\t\t\tMYang\n\t\t\n\t\t\n\t\t\tIPlewis\n\t\t\n\t\t\n\t\t\tMHealy\n\t\t\n\t\t\n\t\t\t\n\t\t\tInstitute of Education\n\t\t\t286\n\t\t\tLondon\n\t\t\n\t\n\n","document":{"$oid":"60c4fbe67723bebd86674465"},"refKey":40},
{"_key":"60c4fbe67723bebd86674468","_id":"references/60c4fbe67723bebd86674468","_rev":"_cfFlfRu---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis: A regression-based approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford publications\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c4fbe67723bebd86674465"},"refKey":21},
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{"_key":"60c500037723bebd866746ca","_id":"references/60c500037723bebd866746ca","_rev":"_cfFlfY6---","tei":"\n\t\n\t\tSMS: Smart Model Selection in PhyML\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tJean-EmmanuelLongueville\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/molbev/msx149\n\t\t28472384\n\t\tPMC5850602\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t34\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c500037723bebd866746c9"},"refKey":78},
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{"_key":"60c500297723bebd866746f0","_id":"references/60c500297723bebd866746f0","_rev":"_cfFlfZi---","tei":"\n\t\n\t\tInfernal 1.0: inference of RNA alignments\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tDLKolbe\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t10.1093/bioinformatics/btp326\n\t\tPMC2912718\n\t\tark:/67375/HXZ-C1Q8Z89R-Z\n\t\t35E179293422FAC344C7CAFBA3CBE84FA2B8BA41\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":37},
{"_key":"60c500297723bebd866746f1","_id":"references/60c500297723bebd866746f1","_rev":"_cfFlfZu---","tei":"\n\t\n\t\tProdigal: prokaryotic gene recognition and translation initiation site identification\n\t\t\n\t\t\tDHyatt\n\t\t\n\t\t\n\t\t\tGLChen\n\t\t\n\t\t\n\t\t\tPFLocascio\n\t\t\n\t\t\n\t\t\tMLLand\n\t\t\n\t\t\n\t\t\tFWLarimer\n\t\t\n\t\t\n\t\t\tLJHauser\n\t\t\n\t\n\t\n\t\tBmc Bioinformatics\n\t\t\n\t\t\t11\n\t\t\t119\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":35},
{"_key":"60c500297723bebd866746f2","_id":"references/60c500297723bebd866746f2","_rev":"_cfFlfa----","tei":"\n\t\n\t\tCRISPR recognition tool (CRT): a tool for automatic detection of clustered regularly interspaced palindromic repeats\n\t\t\n\t\t\tCBland\n\t\t\n\t\t\n\t\t\tTLRamsey\n\t\t\n\t\t\n\t\t\tFSabree\n\t\t\n\t\t\n\t\t\tMLowe\n\t\t\n\t\t\n\t\t\tKBrown\n\t\t\n\t\t\n\t\t\tNCKyrpides\n\t\t\n\t\t\n\t\t\tPHugenholtz\n\t\t\n\t\n\t\n\t\tBmc Bioinformatics\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":38},
{"_key":"60c500297723bebd866746f3","_id":"references/60c500297723bebd866746f3","_rev":"_cfFlfaK---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":47},
{"_key":"60c500297723bebd866746f4","_id":"references/60c500297723bebd866746f4","_rev":"_cfFlfaW---","tei":"\n\t\n\t\tImproved microbial gene identification with GLIMMER\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tDHarmon\n\t\t\n\t\t\n\t\t\tSKasif\n\t\t\n\t\t\n\t\t\tOWhite\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t27\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":39},
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{"_key":"60c500297723bebd866746f6","_id":"references/60c500297723bebd866746f6","_rev":"_cfFlfau---","tei":"\n\t\n\t\tGenome project data processing S: the sequence alignment/ map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":45},
{"_key":"60c500297723bebd866746f7","_id":"references/60c500297723bebd866746f7","_rev":"_cfFlfb----","tei":"\n\t\n\t\tFQC Dashboard: integrates FastQC results into a web-based, interactive, and extensible FASTQ quality control tool\n\t\t\n\t\t\tJosephBrown\n\t\t\n\t\t\n\t\t\tMegPirrung\n\t\t\n\t\t\n\t\t\tLeeAnnMccue\n\t\t\n\t\t10.1093/bioinformatics/btx373\n\t\t28605449\n\t\tPMC5870778\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":42},
{"_key":"60c500297723bebd866746f8","_id":"references/60c500297723bebd866746f8","_rev":"_cfFlfbK---","tei":"\n\t\n\t\tGeneMark.hmm: new solutions for gene finding\n\t\t\n\t\t\tAVLukashin\n\t\t\n\t\t\n\t\t\tMBorodovsky\n\t\t\n\t\t\n\t\t\tGenemark\n\t\t\n\t\t10.1093/nar/26.4.1107\n\t\t9461475\n\t\tPMC147337\n\t\tark:/67375/HXZ-68G8RQTG-0\n\t\t0042FF67A01C9649922BE71DE8C44E559AC35DEA\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t26\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":40},
{"_key":"60c500297723bebd866746f9","_id":"references/60c500297723bebd866746f9","_rev":"_cfFlfbW---","tei":"\n\t\n\t\tBLAST: at the core of a powerful and diverse set of sequence analysis tools\n\t\t\n\t\t\tSMcginnis\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t10.1093/nar/gkh435\n\t\t15215342\n\t\tPMC441573\n\t\tark:/67375/HXZ-DNQRBT4D-X\n\t\t85C52E7BD297069F378D827F9C4501FB5D43BAD6\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":27},
{"_key":"60c500297723bebd866746fa","_id":"references/60c500297723bebd866746fa","_rev":"_cfFlfbi---","tei":"\n\t\n\t\tHardware acceleration of BWA-MEM genomic short read mapping for longer read lengths\n\t\t\n\t\t\tErnstJoachimHoutgast\n\t\t\n\t\t\n\t\t\tVlad-MihaiSima\n\t\t\n\t\t\n\t\t\tKoenBertels\n\t\t\n\t\t\n\t\t\tZaidAl-Ars\n\t\t\n\t\t10.1016/j.compbiolchem.2018.03.024\n\t\t29747076\n\t\n\t\n\t\tComputational Biology and Chemistry\n\t\tComputational Biology and Chemistry\n\t\t1476-9271\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":44},
{"_key":"60c500297723bebd866746fb","_id":"references/60c500297723bebd866746fb","_rev":"_cfFlfby---","tei":"\n\t\n\t\tNCBI prokaryotic genome annotation pipeline\n\t\t\n\t\t\tTTatusova\n\t\t\n\t\t\n\t\t\tMDicuccio\n\t\t\n\t\t\n\t\t\tABadretdin\n\t\t\n\t\t\n\t\t\tVChetvernin\n\t\t\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tLZaslavsky\n\t\t\n\t\t\n\t\t\tALomsadze\n\t\t\n\t\t\n\t\t\tKDPruitt\n\t\t\n\t\t\n\t\t\tMBorodovsky\n\t\t\n\t\t\n\t\t\tJOstell\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":7},
{"_key":"60c500297723bebd866746fc","_id":"references/60c500297723bebd866746fc","_rev":"_cfFlfc----","tei":"\n\t\n\t\tMyPro: A seamless pipeline for automated prokaryotic genome assembly and annotation\n\t\t\n\t\t\tYu-ChiehLiao\n\t\t\t0000-0002-4360-7932\n\t\t\n\t\t\n\t\t\tHsin-HungLin\n\t\t\n\t\t\n\t\t\tAmarpreetSabharwal\n\t\t\n\t\t\n\t\t\tElaineMHaase\n\t\t\n\t\t\n\t\t\tFrankAScannapieco\n\t\t\n\t\t10.1016/j.mimet.2015.04.006\n\t\t25911337\n\t\tPMC4828917\n\t\n\t\n\t\tJournal of Microbiological Methods\n\t\tJournal of Microbiological Methods\n\t\t0167-7012\n\t\t\n\t\t\t113\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c500297723bebd866746ef"},"refKey":22},
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{"_key":"60c5004a7723bebd86674733","_id":"references/60c5004a7723bebd86674733","_rev":"_cfFlfci---","tei":"\n\t\n\t\tThe R0 package: a toolbox to estimate reproduction numbers for epidemic outbreaks\n\t\t\n\t\t\tTObadia\n\t\t\n\t\t\n\t\t\tRHaneef\n\t\t\n\t\t\n\t\t\tPYBoëlle\n\t\t\n\t\n\t\n\t\tBmc Med Inform Decis\n\t\t\n\t\t\t12\n\t\t\t147\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5004a7723bebd86674732"},"refKey":5},
{"_key":"60c5004a7723bebd86674734","_id":"references/60c5004a7723bebd86674734","_rev":"_cfFlfcy---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c5004a7723bebd86674732"},"refKey":11},
{"_key":"60c5005b7723bebd86674739","_id":"references/60c5005b7723bebd86674739","_rev":"_cfFlfd----","tei":"\n\t\n\t\tClinical features of patients infected with 2019 novel coronavirus in Wuhan\n\t\t\n\t\t\tCHuang\n\t\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tXLi\n\t\t\n\t\n\t\n\t\tChina. Lancet\n\t\t\n\t\t\t395\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5005b7723bebd86674738"},"refKey":18},
{"_key":"60c5005f7723bebd86674747","_id":"references/60c5005f7723bebd86674747","_rev":"_cfFlfdK---","tei":"\n\t\n\t\tBitML: a calculus for Bitcoin smart contracts\n\t\t\n\t\t\tMBartoletti\n\t\t\n\t\t\n\t\t\tRZunino\n\t\t\n\t\t10.1145/3243734.3243795\n\t\t\n\t\n\t\n\t\tACM CCS\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5005f7723bebd86674746"},"refKey":12},
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{"_key":"60c500e37723bebd866747ac","_id":"references/60c500e37723bebd866747ac","_rev":"_cfFlfdm---","tei":"\n\t\n\t\tSupport for a Multiple-Factor Model of Auditory Processing\n\t\t\n\t\t\tRonaldLSchow\n\t\t\n\t\t\n\t\t\tJAnthonySeikel\n\t\t\n\t\t\n\t\t\tGailChermak\n\t\t\n\t\t\n\t\t\tMatthewBerent\n\t\t\n\t\t\n\t\t\tDeborahMDomitz-Vieira\n\t\t\n\t\t10.1044/1059-0889(2002/ltr02)\n\t\t26650505\n\t\n\t\n\t\tAmerican Journal of Audiology\n\t\tAm J Audiol\n\t\t1059-0889\n\t\t1558-9137\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Speech Language Hearing Association\n\t\t\n\t\n\n","document":{"$oid":"60c500e37723bebd866747ab"},"refKey":61},
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{"_key":"60c501227723bebd86674812","_id":"references/60c501227723bebd86674812","_rev":"_cfFlfeK---","tei":"\n\t\n\t\tJalview version 2 -a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c501227723bebd8667480f"},"refKey":39},
{"_key":"60c5016c7723bebd86674844","_id":"references/60c5016c7723bebd86674844","_rev":"_cfFlfea---","tei":"\n\t\n\t\tComprehensive serological profiling of human populations using a synthetic human virome\n\t\t\n\t\t\tGJXu\n\t\t\n\t\t\n\t\t\tTKula\n\t\t\n\t\t\n\t\t\tQXu\n\t\t\n\t\t\n\t\t\tMZLi\n\t\t\n\t\t\n\t\t\tSDVernon\n\t\t\n\t\t\n\t\t\tTNdung'u\n\t\t\n\t\t\n\t\t\tKRuxrungtham\n\t\t\n\t\t\n\t\t\tJSanchez\n\t\t\n\t\t\n\t\t\tCBrander\n\t\t\n\t\t\n\t\t\tRTChung\n\t\t\n\t\t\n\t\t\tKCO'connor\n\t\t\n\t\t\n\t\t\tBWalker\n\t\t\n\t\t\n\t\t\tHBLarman\n\t\t\n\t\t\n\t\t\tSJElledge\n\t\t\n\t\t10.1126/science.aaa0698\n\t\t26045439\n\t\tPMC4844011\n\t\tpmid: 26045439\n\t\t\n\t\n\t\n\t\tScience\n\t\tScience\n\t\t0036-8075\n\t\t1095-9203\n\t\t\n\t\t\t348\n\t\t\t6239\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c5016c7723bebd86674843"},"refKey":6},
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{"_key":"60c501957723bebd86674856","_id":"references/60c501957723bebd86674856","_rev":"_cfFlfey---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c501957723bebd86674854"},"refKey":41},
{"_key":"60c501ab7723bebd86674863","_id":"references/60c501ab7723bebd86674863","_rev":"_cfFlff----","tei":"\n\t\n\t\tDeep Learning with Python: A Hands-on Introduction\n\t\t\n\t\t\tNKetkar\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c501ab7723bebd86674862"},"refKey":31},
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{"_key":"60c501ef7723bebd86674892","_id":"references/60c501ef7723bebd86674892","_rev":"_cfFlffa---","tei":"\n\t\n\t\tForLab laboratory quantification tool and LabEQIP software tool\n\t\tUSAID\n\t\t\n\t\t\n\t\t\t\n\t\t\t17\n\t\t\n\t\n\taccessed May\n\n","document":{"$oid":"60c501ef7723bebd86674891"},"refKey":6},
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{"_key":"60c502e07723bebd86674915","_id":"references/60c502e07723bebd86674915","_rev":"_cfFlfgC---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c502e07723bebd86674914"},"refKey":12},
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{"_key":"60c503327723bebd86674940","_id":"references/60c503327723bebd86674940","_rev":"_cfFlfgm---","tei":"\n\t\n\t\tElpaas: event log privacy as a service\n\t\t\n\t\t\tMBauer\n\t\t\n\t\t\n\t\t\tSAFahrenkrog-Petersen\n\t\t\n\t\t\n\t\t\tAKoschmider\n\t\t\n\t\t\n\t\t\tFMannhardt\n\t\t\n\t\t\n\t\t\tHVan Der Aa\n\t\t\n\t\t\n\t\t\tMWeidlich\n\t\t\n\t\n\t\n\t\tProceedings of the Dissertation Award, Doctoral Consortium, and Demonstration Track at BPM 2019 co-located with 17th International Conference on Business Process Management, BPM 2019\n\t\t\t\tthe Dissertation Award, Doctoral Consortium, and Demonstration Track at BPM 2019 co-located with 17th International Conference on Business Process Management, BPM 2019Vienna, Austria\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c503327723bebd8667493e"},"refKey":4},
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{"_key":"60c503637723bebd86674993","_id":"references/60c503637723bebd86674993","_rev":"_cfFlfhe---","tei":"\n\t\n\t\tEris: an automated estimator of protein stability\n\t\t\n\t\t\tSYin\n\t\t\n\t\t\n\t\t\tFDing\n\t\t\n\t\t\n\t\t\tNVDokholyan\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c503637723bebd86674991"},"refKey":24},
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{"_key":"60c5043d7723bebd86674a1f","_id":"references/60c5043d7723bebd86674a1f","_rev":"_cfFlfji---","tei":"\n\t\n\t\tA New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tNeilMFerguson\n\t\t\n\t\t\n\t\t\tChristopheFraser\n\t\t\n\t\t\n\t\t\tSimonCauchemez\n\t\t\n\t\t10.1093/aje/kwt133\n\t\t24043437\n\t\tPMC3816335\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t1476-6256\n\t\t\n\t\t\t178\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5043d7723bebd86674a1e"},"refKey":17},
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{"_key":"60c504577723bebd86674a4c","_id":"references/60c504577723bebd86674a4c","_rev":"_cfFlfkG---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tRBraun\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tJGumbart\n\t\t\n\t\t\n\t\t\tETajkhorshid\n\t\t\n\t\t\n\t\t\tEVilla\n\t\t\n\t\t\n\t\t\tCChipot\n\t\t\n\t\t\n\t\t\tRDSkeel\n\t\t\n\t\t\n\t\t\tLKale\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c504577723bebd86674a4a"},"refKey":26},
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{"_key":"60c504577723bebd86674a4e","_id":"references/60c504577723bebd86674a4e","_rev":"_cfFlfkq---","tei":"\n\t\n\t\tCHARMM general force field: a force field for drug-like molecules compatible with the CHARMM all-atom additive biological force fields\n\t\t\n\t\t\tKVanommeslaeghe\n\t\t\n\t\t\n\t\t\tEHatcher\n\t\t\n\t\t\n\t\t\tCAcharya\n\t\t\n\t\t\n\t\t\tSKundu\n\t\t\n\t\t\n\t\t\tSZhong\n\t\t\n\t\t\n\t\t\tJShim\n\t\t\n\t\t\n\t\t\tDarianEGuvench\n\t\t\n\t\t\n\t\t\tOLopes\n\t\t\n\t\t\n\t\t\tPVorobyov\n\t\t\n\t\t\n\t\t\tIMackerell\n\t\t\n\t\t\n\t\t\tADJr\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c504577723bebd86674a4a"},"refKey":33},
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{"_key":"60c5047b7723bebd86674a5f","_id":"references/60c5047b7723bebd86674a5f","_rev":"_cfFlfmO---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t10.1093/nar/gkz268\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5047b7723bebd86674a59"},"refKey":67},
{"_key":"60c5047b7723bebd86674a60","_id":"references/60c5047b7723bebd86674a60","_rev":"_cfFlfma---","tei":"\n\t\n\t\tMapgene2chrom, a tool to draw gene physical map based on perl and svg languages\n\t\t\n\t\t\tCJiangtao\n\t\t\n\t\n\t\n\t\tHereditas\n\t\t\n\t\t\t37\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5047b7723bebd86674a59"},"refKey":76},
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{"_key":"60c5047b7723bebd86674a62","_id":"references/60c5047b7723bebd86674a62","_rev":"_cfFlfm6---","tei":"\n\t\n\t\tSTRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\t\n\t\t\tALGable\n\t\t\n\t\t\n\t\t\tDLyon\n\t\t\n\t\t10.1093/nar/gky1131\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5047b7723bebd86674a59"},"refKey":73},
{"_key":"60c504997723bebd86674ab1","_id":"references/60c504997723bebd86674ab1","_rev":"_cfFlfnK---","tei":"\n\t\n\t\tMetastasis: a question of life or death\n\t\t\n\t\t\tPMehlen\n\t\t\n\t\t\n\t\t\tAPuisieux\n\t\t\n\t\n\t\n\t\tNat Rev Cancer\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c504997723bebd86674ab0"},"refKey":4},
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{"_key":"60c505987723bebd86674b4e","_id":"references/60c505987723bebd86674b4e","_rev":"_cfFlfpa---","tei":"\n\t\n\t\tMEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph\n\t\t\n\t\t\tDLi\n\t\t\n\t\t\n\t\t\tCMLiu\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tKSadakane\n\t\t\n\t\t\n\t\t\tTWLam\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c505987723bebd86674b4c"},"refKey":8},
{"_key":"60c505987723bebd86674b4f","_id":"references/60c505987723bebd86674b4f","_rev":"_cfFlfpq---","tei":"\n\t\n\t\tMAFFT online service: multiple sequence alignment, interactive sequence choice and visualization\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tJRozewicki\n\t\t\n\t\t\n\t\t\tKDYamada\n\t\t\n\t\n\t\n\t\tBrief. Bioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c505987723bebd86674b4c"},"refKey":5},
{"_key":"60c505987723bebd86674b50","_id":"references/60c505987723bebd86674b50","_rev":"_cfFlfp2---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tMinh\n\t\t\n\t\t\n\t\t\tBQ\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c505987723bebd86674b4c"},"refKey":15},
{"_key":"60c5062a7723bebd86674bad","_id":"references/60c5062a7723bebd86674bad","_rev":"_cfFlfqC---","tei":"\n\t\n\t\tsmcUtils: Utility functions for sequential Monte Carlo\n\t\t\n\t\t\tAJNiemi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 0.2.2\n\n","document":{"$oid":"60c5062a7723bebd86674bac"},"refKey":3},
{"_key":"60c507317723bebd86674c04","_id":"references/60c507317723bebd86674c04","_rev":"_cfFlfqS---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c507317723bebd86674c03"},"refKey":30},
{"_key":"60c507317723bebd86674c05","_id":"references/60c507317723bebd86674c05","_rev":"_cfFlfqe---","tei":"\n\t\n\t\tGlobal optimal eBURST analysis of multilocus typing data using a graphic matroid approach\n\t\t\n\t\t\tAPFrancisco\n\t\t\n\t\t\n\t\t\tMBugalho\n\t\t\n\t\t\n\t\t\tMRamirez\n\t\t\n\t\t\n\t\t\tJACarriço\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t10\n\t\t\t152\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c507317723bebd86674c03"},"refKey":31},
{"_key":"60c507337723bebd86674c0c","_id":"references/60c507337723bebd86674c0c","_rev":"_cfFlfqq---","tei":"\n\t\n\t\tA Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1080/10635150390235520\n\t\t14530136\n\t\tark:/67375/HXZ-32P26Z5L-9\n\t\t10D069593FA116F90817B5F2773320087F8156B0\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t52\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c507337723bebd86674c0b"},"refKey":18},
{"_key":"60c507337723bebd86674c0d","_id":"references/60c507337723bebd86674c0d","_rev":"_cfFlfq6---","tei":"\n\t\n\t\tRecovering evolutionary trees under a more realistic model of sequence evolution\n\t\t\n\t\t\tPJLockhart\n\t\t\n\t\t\n\t\t\tMASteel\n\t\t\n\t\t\n\t\t\tMDHendy\n\t\t\n\t\t\n\t\t\tDPenny\n\t\t\n\t\t10.1093/oxfordjournals.molbev.a040136\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c507337723bebd86674c0b"},"refKey":7},
{"_key":"60c507337723bebd86674c0e","_id":"references/60c507337723bebd86674c0e","_rev":"_cfFlfrG---","tei":"\n\t\n\t\tMultiple alignment of DNA sequences with MAFFT\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tGAsimenos\n\t\t\n\t\t\n\t\t\tHToh\n\t\t\n\t\n\t\n\t\tMethods Mol. Biol\n\t\t\n\t\t\t537\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c507337723bebd86674c0b"},"refKey":45},
{"_key":"60c507337723bebd86674c0f","_id":"references/60c507337723bebd86674c0f","_rev":"_cfFlfrS---","tei":"\n\t\n\t\tMAFFT version 5: improvement in accuracy of multiple sequence alignment\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tK.-IKuma\n\t\t\n\t\t\n\t\t\tHToh\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\t10.1093/nar/gki198\n\t\t15661851\n\t\tPMC548345\n\t\tark:/67375/HXZ-5GKR6N1M-5\n\t\t88D98880597984321DF1C853C0EE04D93910D636\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c507337723bebd86674c0b"},"refKey":46},
{"_key":"60c507377723bebd86674c21","_id":"references/60c507377723bebd86674c21","_rev":"_cfFlfre---","tei":"\n\t\n\t\tPharmer: Efficient and exact pharmacophore search\n\t\t\n\t\t\tDRKoes\n\t\t\n\t\t\n\t\t\tCJCamacho\n\t\t\n\t\n\t\n\t\tJ. Chem. Inf. Model\n\t\t\n\t\t\t51\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c507377723bebd86674c20"},"refKey":18},
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{"_key":"60c507c27723bebd86674c58","_id":"references/60c507c27723bebd86674c58","_rev":"_cfFlfsG---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ .Comput. Chem\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c507c27723bebd86674c56"},"refKey":8},
{"_key":"60c507dc7723bebd86674c69","_id":"references/60c507dc7723bebd86674c69","_rev":"_cfFlfsW---","tei":"\n\t\n\t\tMEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c507dc7723bebd86674c68"},"refKey":10},
{"_key":"60c507f87723bebd86674c7a","_id":"references/60c507f87723bebd86674c7a","_rev":"_cfFlfsi---","tei":"\n\t\n\t\tA sensitive array for microRNA expression profiling (miChip) based on locked nucleic acids (LNA)\n\t\t\n\t\t\tMCastoldi\n\t\t\n\t\t\n\t\t\tSSchmidt\n\t\t\n\t\t\n\t\t\tVBenes\n\t\t\n\t\t10.1261/rna.2332406\n\t\t16540696\n\t\tPMC1440900\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c507f87723bebd86674c79"},"refKey":14},
{"_key":"60c508477723bebd86674cb7","_id":"references/60c508477723bebd86674cb7","_rev":"_cfFlfsu---","tei":"\n\t\n\t\t\n\t\t\tAPaszke\n\t\t\n\t\tAutomatic differentiation in PyTorch\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c508477723bebd86674cb6"},"refKey":28},
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{"_key":"60c508637723bebd86674cbe","_id":"references/60c508637723bebd86674cbe","_rev":"_cfFlftG---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software. Release\n\t\t\t\t\n\t\t\t\n\t\t\t12\n\t\t\n\t\n\tStataCorp LP: College Station: TX\n\n","document":{"$oid":"60c508637723bebd86674cbd"},"refKey":53},
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{"_key":"60c508767723bebd86674ccd","_id":"references/60c508767723bebd86674ccd","_rev":"_cfFlfti---","tei":"\n\t\n\t\tHeart Rate n-Variability (HRnV) and Its Application to Risk Stratification of Chest Pain Patients in the Emergency Department\n\t\t\n\t\t\tNanLiu\n\t\t\n\t\t\n\t\t\tDagangGuo\n\t\t\n\t\t\n\t\t\tZhiXiongKoh\n\t\t\n\t\t\n\t\t\tAndrewFuWah Ho\n\t\t\n\t\t\n\t\t\tFengXie\n\t\t\n\t\t\n\t\t\tTakashiTagami\n\t\t\n\t\t\n\t\t\tJeffreyTadashiSakamoto\n\t\t\n\t\t\n\t\t\tPinPinPek\n\t\t\n\t\t\n\t\t\tBibhasChakraborty\n\t\t\n\t\t\n\t\t\tSweeHanLim\n\t\t\n\t\t\n\t\t\tJackWeiChieh Tan\n\t\t\n\t\t\n\t\t\tMarcusEngHock Ong\n\t\t\n\t\t10.1101/738989\n\t\t\n\t\n\t\n\t\tBMC Cardiovasc Disord\n\t\t\n\t\t\t2020\n\t\t\t1\n\t\t\t168\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c508767723bebd86674ccc"},"refKey":27},
{"_key":"60c508827723bebd86674cd3","_id":"references/60c508827723bebd86674cd3","_rev":"_cfFlftu---","tei":"\n\t\n\t\tAutomated Sholl analysis of digitized neuronal morphology at multiple scales: Whole cell Sholl analysis versus Sholl analysis of arbor subregions\n\t\t\n\t\t\tChristopherGLanghammer\n\t\t\n\t\t\n\t\t\tMichelleLPrevitera\n\t\t\n\t\t\n\t\t\tEricSSweet\n\t\t\n\t\t\n\t\t\tSimranjeetSSran\n\t\t\n\t\t\n\t\t\tMaxineChen\n\t\t\n\t\t\n\t\t\tBonnieLFirestein\n\t\t\n\t\t10.1002/cyto.a.20954\n\t\t20687200\n\t\tPMC4619108\n\t\t\n\t\n\t\n\t\tCytometry Part A\n\t\tCytometry\n\t\t1552-4922\n\t\t\n\t\t\t77A\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c508827723bebd86674cd2"},"refKey":29},
{"_key":"60c508827723bebd86674cd4","_id":"references/60c508827723bebd86674cd4","_rev":"_cfFlft6---","tei":"\n\t\n\t\tFiji: an open-source platform for biological-image analysis\n\t\t\n\t\t\tJSchindelin\n\t\t\n\t\t\n\t\t\tIArganda-Carreras\n\t\t\n\t\t\n\t\t\tEFrise\n\t\t\n\t\t\n\t\t\tVKaynig\n\t\t\n\t\t\n\t\t\tMLongair\n\t\t\n\t\t\n\t\t\tTPietzsch\n\t\t\n\t\t\n\t\t\tSPreibisch\n\t\t\n\t\t\n\t\t\tCRueden\n\t\t\n\t\t\n\t\t\tSSaalfeld\n\t\t\n\t\t\n\t\t\tBSchmid\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c508827723bebd86674cd2"},"refKey":47},
{"_key":"60c508827723bebd86674cd5","_id":"references/60c508827723bebd86674cd5","_rev":"_cfFlfuG---","tei":"\n\t\n\t\tAutomated Three-Dimensional Detection and Shape Classification of Dendritic Spines from Fluorescence Microscopy Images\n\t\t\n\t\t\tAlfredoRodriguez\n\t\t\n\t\t\n\t\t\tDouglasBEhlenberger\n\t\t\n\t\t\n\t\t\tDaraLDickstein\n\t\t\n\t\t\n\t\t\tPatrickRHof\n\t\t\n\t\t\n\t\t\tSusanLWearne\n\t\t\n\t\t10.1371/journal.pone.0001997\n\t\t18431482\n\t\tPMC2292261\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t3\n\t\t\t4\n\t\t\te1997\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c508827723bebd86674cd2"},"refKey":45},
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{"_key":"60c5091f7723bebd86674d13","_id":"references/60c5091f7723bebd86674d13","_rev":"_cfFlfuu---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\t\n\t\t\tCMorley\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\n\t\n\t\tJ Cheminformatics\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5091f7723bebd86674d11"},"refKey":42},
{"_key":"60c509207723bebd86674d14","_id":"references/60c509207723bebd86674d14","_rev":"_cfFlfu6---","tei":"\n\t\n\t\tEvaluation of comparative protein modeling by MODELLER\n\t\t\n\t\t\tAŠali\n\t\t\n\t\t\n\t\t\tLPotterton\n\t\t\n\t\t\n\t\t\tFYuan\n\t\t\n\t\t\n\t\t\tHVan Vlijmen\n\t\t\n\t\t\n\t\t\tMKarplus\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t23\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5091f7723bebd86674d11"},"refKey":34},
{"_key":"60c509207723bebd86674d15","_id":"references/60c509207723bebd86674d15","_rev":"_cfFlfvG---","tei":"\n\t\n\t\tAQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJacRullmann\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tRKaptein\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5091f7723bebd86674d11"},"refKey":35},
{"_key":"60c509207723bebd86674d16","_id":"references/60c509207723bebd86674d16","_rev":"_cfFlfvS---","tei":"\n\t\n\t\tThe PubChem chemical structure sketcher\n\t\t\n\t\t\tWolfDIhlenfeldt\n\t\t\n\t\t\n\t\t\tEvanEBolton\n\t\t\n\t\t\n\t\t\tStephenHBryant\n\t\t\n\t\t10.1186/1758-2946-1-20\n\t\t20298522\n\t\tPMC2820498\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJ Cheminform\n\t\t1758-2946\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t20\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c5091f7723bebd86674d11"},"refKey":51},
{"_key":"60c509207723bebd86674d17","_id":"references/60c509207723bebd86674d17","_rev":"_cfFlfvi---","tei":"\n\t\n\t\tThe SWISS-MODEL workspace: a web-based environment for protein structure homology modelling\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5091f7723bebd86674d11"},"refKey":36},
{"_key":"60c509207723bebd86674d18","_id":"references/60c509207723bebd86674d18","_rev":"_cfFlfvu---","tei":"\n\t\n\t\tProperty distribution of drug-related chemical databases\n\t\t\n\t\t\tTIOprea\n\t\t\n\t\n\t\n\t\tJ Comput Aided Mol Des\n\t\t\n\t\t\t14\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5091f7723bebd86674d11"},"refKey":45},
{"_key":"60c509207723bebd86674d19","_id":"references/60c509207723bebd86674d19","_rev":"_cfFlfv6---","tei":"\n\t\n\t\tMultiple sequence alignment using ClustalW and ClustalX\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tCurr Protoc Bioinformatics\n\t\t\n\t\t\t\n\t\t\n\t\n\t1) 2.3. 1-2.3. 22\n\n","document":{"$oid":"60c5091f7723bebd86674d11"},"refKey":30},
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{"_key":"60c509627723bebd86674d64","_id":"references/60c509627723bebd86674d64","_rev":"_cfFlfwS---","tei":"\n\t\n\t\tPositioning\n\t\t\n\t\t\tHadleyWickham\n\t\t\n\t\t10.1007/978-0-387-98141-3_7\n\t\tark:/67375/HCB-GN4X0PK4-X\n\t\t593F62EBBCB5DC49E7CB3BCBB4898FEDA565F082\n\t\tggplot2\n\t\n\t\n\t\tggplot2\n\t\t\t\tNew York, NY; New York\n\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c509627723bebd86674d63"},"refKey":33},
{"_key":"60c509627723bebd86674d65","_id":"references/60c509627723bebd86674d65","_rev":"_cfFlfwi---","tei":"\n\t\n\t\tTwo Methods for Mapping and Visualizing Associated Data on Phylogeny Using Ggtree\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tTommy Tsan-YukLam\n\t\t\n\t\t\n\t\t\tHuachenZhu\n\t\t\n\t\t\n\t\t\tYiGuan\n\t\t\n\t\t10.1093/molbev/msy194\n\t\t30351396\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c509627723bebd86674d63"},"refKey":37},
{"_key":"60c509627723bebd86674d66","_id":"references/60c509627723bebd86674d66","_rev":"_cfFlfwu---","tei":"\n\t\n\t\tggtree: An rpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tDKSmith\n\t\t\n\t\t\n\t\t\tHZhu\n\t\t\n\t\t\n\t\t\tYGuan\n\t\t\n\t\t\n\t\t\tT.-T.-YLam\n\t\t\n\t\n\t\n\t\tMethods in Ecology and Evolution\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c509627723bebd86674d63"},"refKey":38},
{"_key":"60c509627723bebd86674d67","_id":"references/60c509627723bebd86674d67","_rev":"_cfFlfw6---","tei":"\n\t\n\t\tUncovering epidemiological dynamics in heterogeneous host populations using phylogenetic methods\n\t\t\n\t\t\tTanjaStadler\n\t\t\n\t\t\n\t\t\tSebastianBonhoeffer\n\t\t\n\t\t10.1098/rstb.2012.0198\n\t\t23382421\n\t\tPMC3678323\n\t\t\n\t\t\n\t\n\t\n\t\tPhilosophical Transactions of the Royal Society B: Biological Sciences\n\t\tPhil. Trans. R. Soc. B\n\t\t0962-8436\n\t\t1471-2970\n\t\t\n\t\t\t368\n\t\t\t1614\n\t\t\t20120198\n\t\t\t\n\t\t\tThe Royal Society\n\t\t\n\t\n\n","document":{"$oid":"60c509627723bebd86674d63"},"refKey":29},
{"_key":"60c509627723bebd86674d68","_id":"references/60c509627723bebd86674d68","_rev":"_cfFlfxG---","tei":"\n\t\n\t\t'SEEDY' (Simulation of Evolutionary and Epidemiological Dynamics): An R Package to Follow Accumulation of Within-Host Mutation in Pathogens\n\t\t\n\t\t\tColinJWorby\n\t\t\n\t\t\n\t\t\tTimothyDRead\n\t\t\n\t\t10.1371/journal.pone.0129745\n\t\t26075402\n\t\tPMC4467979\n\t\t\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\te0129745\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c509627723bebd86674d63"},"refKey":35},
{"_key":"60c509627723bebd86674d69","_id":"references/60c509627723bebd86674d69","_rev":"_cfFlfxS---","tei":"\n\t\n\t\toutbreaker2: a modular platform for outbreak reconstruction\n\t\t\n\t\t\tFinlayCampbell\n\t\t\n\t\t\n\t\t\tXavierDidelot\n\t\t\n\t\t\n\t\t\tRichFitzjohn\n\t\t\n\t\t\n\t\t\tNeilFerguson\n\t\t\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tThibautJombart\n\t\t\n\t\t10.1186/s12859-018-2330-z\n\t\t30343663\n\t\tPMC6196407\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t19\n\t\t\tS11\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c509627723bebd86674d63"},"refKey":4},
{"_key":"60c509627723bebd86674d6a","_id":"references/60c509627723bebd86674d6a","_rev":"_cfFlfxe---","tei":"\n\t\n\t\tBayesian phylogenetic and phylodynamic data integration using BEAST 1.10\n\t\t\n\t\t\tMarcASuchard\n\t\t\t0000-0001-9818-479X\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\t0000-0003-2826-5353\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tDanielLAyres\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\t0000-0003-4337-3707\n\t\t\n\t\t10.1093/ve/vey016\n\t\t29942656\n\t\tPMC6007674\n\t\t\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c509627723bebd86674d63"},"refKey":30},
{"_key":"60c509667723bebd86674d7a","_id":"references/60c509667723bebd86674d7a","_rev":"_cfFlfxu---","tei":"\n\t\n\t\tCoNet app: inference of biological association networks using Cytoscape\n\t\t\n\t\t\tKarolineFaust\n\t\t\n\t\t\n\t\t\tJeroenRaes\n\t\t\n\t\t10.12688/f1000research.9050.2\n\t\t27853510\n\t\tPMC5089131\n\t\t\n\t\n\t\n\t\tF1000Research\n\t\tF1000Res\n\t\t2046-1402\n\t\t\n\t\t\t5\n\t\t\t1519\n\t\t\t\n\t\t\tF1000 ( Faculty of 1000 Ltd)\n\t\t\n\t\n\n","document":{"$oid":"60c509667723bebd86674d79"},"refKey":65},
{"_key":"60c5099e7723bebd86674da2","_id":"references/60c5099e7723bebd86674da2","_rev":"_cfFlfx6---","tei":"\n\t\n\t\tAutomated Evaluation of Text and Discourse with Coh-Metrix\n\t\t\n\t\t\tDanielleSMcnamara\n\t\t\n\t\t\n\t\t\tArthurCGraesser\n\t\t\n\t\t\n\t\t\tPhilipMMccarthy\n\t\t\n\t\t\n\t\t\tZhiqiangCai\n\t\t\n\t\t10.1017/cbo9780511894664\n\t\t\n\t\t\n\t\t\t\n\t\t\tCambridge University Press\n\t\t\tCambridge\n\t\t\n\t\n\n","document":{"$oid":"60c5099e7723bebd86674da1"},"refKey":35},
{"_key":"60c509a17723bebd86674da8","_id":"references/60c509a17723bebd86674da8","_rev":"_cfFlfyG---","tei":"\n\t\n\t\t\n\t\tThe R Project for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c509a17723bebd86674da7"},"refKey":57},
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{"_key":"60c509c87723bebd86674db9","_id":"references/60c509c87723bebd86674db9","_rev":"_cfFlfye---","tei":"\n\t\n\t\tProtVista: visualization of protein sequence annotations\n\t\t\n\t\t\tXWatkins\n\t\t\n\t\t\n\t\t\tLJGarcia\n\t\t\n\t\t\n\t\t\tSPundir\n\t\t\n\t\t\n\t\t\tMJMartin\n\t\t\n\t\t\n\t\t\tUniprot Consortium\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c509c87723bebd86674db8"},"refKey":43},
{"_key":"60c509c87723bebd86674dba","_id":"references/60c509c87723bebd86674dba","_rev":"_cfFlfyq---","tei":"\n\t\n\t\tMerging and scoring molecular interactions utilising existing community standards: tools, use-cases and a case study\n\t\t\n\t\t\tJMVillaveces\n\t\t\n\t\t\n\t\t\t\n\t\t\t131\n\t\t\n\t\n\n","document":{"$oid":"60c509c87723bebd86674db8"},"refKey":50},
{"_key":"60c509c87723bebd86674dbb","_id":"references/60c509c87723bebd86674dbb","_rev":"_cfFlfy6---","tei":"\n\t\n\t\tEncompassing new use cases -level 3.0 of the HUPO-PSI format for molecular interactions\n\t\t\n\t\t\tMSivade Dumousseau\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t19\n\t\t\t134\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c509c87723bebd86674db8"},"refKey":18},
{"_key":"60c509c87723bebd86674dbc","_id":"references/60c509c87723bebd86674dbc","_rev":"_cfFlfzG---","tei":"\n\t\n\t\tJAMI: a Java library for molecular interactions and data interoperability\n\t\t\n\t\t\tMSivade Dumousseau\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t19\n\t\t\t133\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c509c87723bebd86674db8"},"refKey":40},
{"_key":"60c509c97723bebd86674dd7","_id":"references/60c509c97723bebd86674dd7","_rev":"_cfFlfzS---","tei":"\n\t\n\t\tThe CCP4 suite: programs for protein crystallography\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\tCollaborative Computational Project, N.\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c509c97723bebd86674dd6"},"refKey":24},
{"_key":"60c509ce7723bebd86674de0","_id":"references/60c509ce7723bebd86674de0","_rev":"_cfFlfze---","tei":"\n\t\n\t\tSequence tag–based analysis of microbial population dynamics\n\t\t\n\t\t\tSörenAbel\n\t\t\n\t\t\n\t\t\tPiaAbel Zur Wiesch\n\t\t\n\t\t\n\t\t\tHsiao-HanChang\n\t\t\n\t\t\n\t\t\tBrigidMDavis\n\t\t\n\t\t\n\t\t\tMarcLipsitch\n\t\t\n\t\t\n\t\t\tMatthewKWaldor\n\t\t\n\t\t10.1038/nmeth.3253\n\t\t25599549\n\t\tPMC4344388\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c509ce7723bebd86674ddf"},"refKey":10},
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{"_key":"60c50baf7723bebd86674fe7","_id":"references/60c50baf7723bebd86674fe7","_rev":"_cfFlf9O---","tei":"\n\t\n\t\tGalaxyTBM: template-based modeling by building a reliable core and refining unreliable local regions\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\t\n\t\t\tJKo\n\t\t\n\t\t\n\t\t\tHPark\n\t\t\n\t\t\n\t\t\tCSeok\n\t\t\n\t\t10.1186/1471-2105-13-198\n\t\n\t\n\t\tJ. Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t15\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\tBMC Bioinf\n\n","document":{"$oid":"60c50baf7723bebd86674fe3"},"refKey":13},
{"_key":"60c50baf7723bebd86674fe8","_id":"references/60c50baf7723bebd86674fe8","_rev":"_cfFlf9a---","tei":"\n\t\n\t\tCHARMM-GUI PDB Manipulator for Advanced Modeling and Simulations of Proteins Containing Nonstandard Residues\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tXiCheng\n\t\t\n\t\t\n\t\t\tShahidulMIslam\n\t\t\n\t\t\n\t\t\tLeiHuang\n\t\t\n\t\t\n\t\t\tHuanRui\n\t\t\n\t\t\n\t\t\tAllenZhu\n\t\t\n\t\t\n\t\t\tHuiSunLee\n\t\t\n\t\t\n\t\t\tYifeiQi\n\t\t\n\t\t\n\t\t\tWeiHan\n\t\t\n\t\t\n\t\t\tKennoVanommeslaeghe\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t\n\t\t\tBenoîtRoux\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1016/bs.apcsb.2014.06.002\n\t\t25443960\n\t\tPMC4739825\n\t\t\n\t\n\t\n\t\tAdvances in Protein Chemistry and Structural Biology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t96\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50baf7723bebd86674fe3"},"refKey":32},
{"_key":"60c50baf7723bebd86674fe9","_id":"references/60c50baf7723bebd86674fe9","_rev":"_cfFlf9m---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJamesCPhillips\n\t\t\n\t\t\n\t\t\tRosemaryBraun\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tJamesGumbart\n\t\t\n\t\t\n\t\t\tEmadTajkhorshid\n\t\t\n\t\t\n\t\t\tElizabethVilla\n\t\t\n\t\t\n\t\t\tChristopheChipot\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tLaxmikantKalé\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1002/jcc.20289\n\t\t16222654\n\t\tPMC2486339\n\t\tark:/67375/WNG-4VV0NHGH-L\n\t\t9CA05D9586DF2A6CDED3A7F227C6C9CF046796F7\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c50baf7723bebd86674fe3"},"refKey":34},
{"_key":"60c50baf7723bebd86674fea","_id":"references/60c50baf7723bebd86674fea","_rev":"_cfFlf92---","tei":"\n\t\n\t\tThe Amber biomolecular simulation programs\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tThomasECheatham\n\t\t\n\t\t\n\t\t\tTomDarden\n\t\t\n\t\t\n\t\t\tHolgerGohlke\n\t\t\n\t\t\n\t\t\tRayLuo\n\t\t\n\t\t\n\t\t\tKennethMMerz\n\t\t\n\t\t\n\t\t\tAlexeyOnufriev\n\t\t\n\t\t\n\t\t\tCarlosSimmerling\n\t\t\n\t\t\n\t\t\tBingWang\n\t\t\n\t\t\n\t\t\tRobertJWoods\n\t\t\n\t\t10.1002/jcc.20290\n\t\t16200636\n\t\tPMC1989667\n\t\tark:/67375/WNG-SM7M10M5-T\n\t\t96193A43CE477101A1574AF2E58893F449F4F999\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c50baf7723bebd86674fe3"},"refKey":37},
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{"_key":"60c50bb57723bebd86675017","_id":"references/60c50bb57723bebd86675017","_rev":"_cfFlg-e---","tei":"\n\t\n\t\tDysregulation of microRNA-204 mediates migration and invasion of endometrial cancer by regulating FOXC1\n\t\t\n\t\t\tTK HChung\n\t\t\n\t\t\n\t\t\tTSLau\n\t\t\n\t\t\n\t\t\tTHCheung\n\t\t\n\t\t\n\t\t\tSFYim\n\t\t\n\t\t\n\t\t\tKW KLo\n\t\t\n\t\t\n\t\t\tNS SSiu\n\t\t\n\t\t\n\t\t\tLK YChan\n\t\t\n\t\t\n\t\t\tMYYu\n\t\t\n\t\t\n\t\t\tJKwong\n\t\t\n\t\t\n\t\t\tGDoran\n\t\t\n\t\t\n\t\t\tLMBarroilhet\n\t\t\n\t\t\n\t\t\tAS WNg\n\t\t\n\t\t\n\t\t\tRR YWong\n\t\t\n\t\t\n\t\t\tVWWang\n\t\t\n\t\t\n\t\t\tSCMok\n\t\t\n\t\t\n\t\t\tDISmith\n\t\t\n\t\t\n\t\t\tRSBerkowitz\n\t\t\n\t\t\n\t\t\tYFWong\n\t\t\n\t\t10.1002/ijc.26060\n\t\t21400511\n\t\tark:/67375/WNG-9V1TJ63Z-Z\n\t\tCD9A7B7F4078D04E59E722863B9A9BD52DAD85F5\n\t\n\t\n\t\tInternational Journal of Cancer\n\t\tInt. J. Cancer\n\t\t0020-7136\n\t\t\n\t\t\t130\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c50bb57723bebd86675016"},"refKey":28},
{"_key":"60c50bb57723bebd86675018","_id":"references/60c50bb57723bebd86675018","_rev":"_cfFlg-q---","tei":"\n\t\n\t\tCytoscape: A software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50bb57723bebd86675016"},"refKey":29},
{"_key":"60c50bbe7723bebd86675027","_id":"references/60c50bbe7723bebd86675027","_rev":"_cfFlg-2---","tei":"\n\t\n\t\tA Bayesian model of shape and appearance for subcortical brain\n\t\t\n\t\t\tBPatenaude\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\t\n\t\t\tDKennedy\n\t\t\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t56\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50bbe7723bebd86675026"},"refKey":22},
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{"_key":"60c50bda7723bebd86675050","_id":"references/60c50bda7723bebd86675050","_rev":"_cfFlgAi---","tei":"\n\t\n\t\tSoftware for Computing and Annotating Genomic Ranges\n\t\t\n\t\t\tMichaelLawrence\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tHervéPagès\n\t\t\n\t\t\n\t\t\tPatrickAboyoun\n\t\t\n\t\t\n\t\t\tMarcCarlson\n\t\t\n\t\t\n\t\t\tRobertGentleman\n\t\t\n\t\t\n\t\t\tMartinTMorgan\n\t\t\n\t\t\n\t\t\tVincentJCarey\n\t\t\n\t\t10.1371/journal.pcbi.1003118\n\t\t23950696\n\t\tPMC3738458\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\te1003118\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c50bda7723bebd86675049"},"refKey":53},
{"_key":"60c50bda7723bebd86675051","_id":"references/60c50bda7723bebd86675051","_rev":"_cfFlgAu---","tei":"\n\t\n\t\tPAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments\n\t\t\n\t\t\tMSuyama\n\t\t\n\t\t\n\t\t\tDTorrents\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/nar/gkl315\n\t\t16845082\n\t\tPMC1538804\n\t\tark:/67375/HXZ-QCC2883C-N\n\t\tD512AFD23320B12B9DCDD9BDE158B9E90AC3C192\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c50bda7723bebd86675049"},"refKey":80},
{"_key":"60c50bda7723bebd86675052","_id":"references/60c50bda7723bebd86675052","_rev":"_cfFlgB----","tei":"\n\t\n\t\tBiopython: freely available Python tools for computational molecular biology and bioinformatics\n\t\t\n\t\t\tPJ ACock\n\t\t\n\t\t\n\t\t\tTAntao\n\t\t\n\t\t\n\t\t\tJTChang\n\t\t\n\t\t\n\t\t\tBAChapman\n\t\t\n\t\t\n\t\t\tCJCox\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tIFriedberg\n\t\t\n\t\t\n\t\t\tTHamelryck\n\t\t\n\t\t\n\t\t\tFKauff\n\t\t\n\t\t\n\t\t\tBWilczynski\n\t\t\n\t\t\n\t\t\tMJ LDe Hoon\n\t\t\n\t\t10.1093/bioinformatics/btp163\n\t\t19304878\n\t\tPMC2682512\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c50bda7723bebd86675049"},"refKey":13},
{"_key":"60c50bda7723bebd86675053","_id":"references/60c50bda7723bebd86675053","_rev":"_cfFlgBK---","tei":"\n\t\n\t\tVOLPES: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences\n\t\t\n\t\t\tLukasBartonek\n\t\t\n\t\t\n\t\t\tBojanZagrovic\n\t\t\t0000-0003-3814-3675\n\t\t\n\t\t10.1093/nar/gkz407\n\t\t31114895\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c50bda7723bebd86675049"},"refKey":3},
{"_key":"60c50bda7723bebd86675054","_id":"references/60c50bda7723bebd86675054","_rev":"_cfFlgBW---","tei":"\n\t\n\t\tImproved prediction of MHC II antigen presentation through integration and motif deconvolution of mass spectrometry MHC eluted ligand data\n\t\t\n\t\t\tBReynisson\n\t\t\n\t\t\n\t\t\tCBarra\n\t\t\n\t\t\n\t\t\tSKaabinejadian\n\t\t\n\t\t\n\t\t\tWHHildebrand\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t10.1021/acs.jproteome.9b00874\n\t\t32308001\n\t\t\n\t\n\t\n\t\tJournal of Proteome Research\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50bda7723bebd86675049"},"refKey":72},
{"_key":"60c50bda7723bebd86675055","_id":"references/60c50bda7723bebd86675055","_rev":"_cfFlgBm---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c50bda7723bebd86675049"},"refKey":51},
{"_key":"60c50bda7723bebd86675056","_id":"references/60c50bda7723bebd86675056","_rev":"_cfFlgBy---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c50bda7723bebd86675049"},"refKey":66},
{"_key":"60c50bda7723bebd86675057","_id":"references/60c50bda7723bebd86675057","_rev":"_cfFlgC----","tei":"\n\t\n\t\tProbCons: Probabilistic consistency-based multiple sequence alignment\n\t\t\n\t\t\tCBDo\n\t\t\n\t\t\n\t\t\tMSMahabhashyam\n\t\t\n\t\t\n\t\t\tMBrudno\n\t\t\n\t\t\n\t\t\tSBatzoglou\n\t\t\n\t\t10.1101/gr.2821705\n\t\t15687296\n\t\tPMC546535\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t15\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c50bda7723bebd86675049"},"refKey":20},
{"_key":"60c50be77723bebd8667507a","_id":"references/60c50be77723bebd8667507a","_rev":"_cfFlgCO---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50be77723bebd86675079"},"refKey":42},
{"_key":"60c50be77723bebd8667507b","_id":"references/60c50be77723bebd8667507b","_rev":"_cfFlgCa---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50be77723bebd86675079"},"refKey":40},
{"_key":"60c50be77723bebd8667507c","_id":"references/60c50be77723bebd8667507c","_rev":"_cfFlgCm---","tei":"\n\t\n\t\tRDP4: detection and analysis of recombination patterns in virus genomes\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tBMurrell\n\t\t\n\t\t\n\t\t\tMGolden\n\t\t\n\t\t\n\t\t\tAKhoosal\n\t\t\n\t\t\n\t\t\tBMuhire\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t1\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50be77723bebd86675079"},"refKey":47},
{"_key":"60c50bfa7723bebd86675093","_id":"references/60c50bfa7723bebd86675093","_rev":"_cfFlgC2---","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50bfa7723bebd86675092"},"refKey":76},
{"_key":"60c50bfa7723bebd86675094","_id":"references/60c50bfa7723bebd86675094","_rev":"_cfFlgDC---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50bfa7723bebd86675092"},"refKey":16},
{"_key":"60c50bfa7723bebd86675095","_id":"references/60c50bfa7723bebd86675095","_rev":"_cfFlgDO---","tei":"\n\t\n\t\tSide-chain-directed model and map validation for 3D Electron Cryomicroscopy\n\t\t\n\t\t\tBenjaminABarad\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\n\t\t10.1101/014738\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c50bfa7723bebd86675092"},"refKey":5},
{"_key":"60c50bfa7723bebd86675096","_id":"references/60c50bfa7723bebd86675096","_rev":"_cfFlgDa---","tei":"\n\t\n\t\tRELION-3: new tools for automated high-resolution cryo-EM structure determination\n\t\t\n\t\t\tJasenkoZivanov\n\t\t\t0000-0001-8407-0759\n\t\t\n\t\t\n\t\t\tTakanoriNakane\n\t\t\t0000-0003-2697-2767\n\t\t\n\t\t\n\t\t\tBjörnForsberg\n\t\t\t0000-0002-6247-4063\n\t\t\n\t\t\n\t\t\tDariKimanius\n\t\t\t0000-0002-2662-6373\n\t\t\n\t\t\n\t\t\tWimJ HHagen\n\t\t\t0000-0001-6229-2692\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\t0000-0002-2734-2794\n\t\t\n\t\t\n\t\t\tSjorsH WScheres\n\t\t\t0000-0002-0462-6540\n\t\t\n\t\t10.1101/421123\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tdetermination in RELION-3. Elife 7\n\n","document":{"$oid":"60c50bfa7723bebd86675092"},"refKey":132},
{"_key":"60c50bfa7723bebd86675097","_id":"references/60c50bfa7723bebd86675097","_rev":"_cfFlgDq---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tBHintze\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Struct Biol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50bfa7723bebd86675092"},"refKey":63},
{"_key":"60c50c1b7723bebd866750b5","_id":"references/60c50c1b7723bebd866750b5","_rev":"_cfFlgD2---","tei":"\n\t\n\t\tEmergence of influenza A (H1N1)pdm09 genogroup 6B and drug resistant virus, India, January to May 2015\n\t\t\n\t\t\tManmohanParida\n\t\t\n\t\t\n\t\t\tPabanKumarDash\n\t\t\n\t\t\n\t\t\tJyotiSKumar\n\t\t\n\t\t\n\t\t\tGauravJoshi\n\t\t\n\t\t\n\t\t\tKundanTandel\n\t\t\n\t\t\n\t\t\tShashiSharma\n\t\t\n\t\t\n\t\t\tAmbujSrivastava\n\t\t\n\t\t\n\t\t\tAnkitaAgarwal\n\t\t\n\t\t\n\t\t\tAmritaSaha\n\t\t\n\t\t\n\t\t\tShwetaSaraswat\n\t\t\n\t\t\n\t\t\tDivyanshiKarothia\n\t\t\n\t\t\n\t\t\tVatsalaMalviya\n\t\t\n\t\t10.2807/1560-7917.es.2016.21.5.30124\n\t\t26876980\n\t\t\n\t\n\t\n\t\tEurosurveillance\n\t\tEuro Surveill.\n\t\t1025-496X\n\t\t1560-7917\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tEuropean Centre for Disease Control and Prevention (ECDC)\n\t\t\n\t\n\n","document":{"$oid":"60c50c1b7723bebd866750b4"},"refKey":28},
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{"_key":"60c50db97723bebd8667528f","_id":"references/60c50db97723bebd8667528f","_rev":"_cfFlgK2---","tei":"\n\t\n\t\tAndromeda: A Peptide Search Engine Integrated into the MaxQuant Environment\n\t\t\n\t\t\tJürgenCox\n\t\t\n\t\t\n\t\t\tNadinNeuhauser\n\t\t\n\t\t\n\t\t\tAnnetteMichalski\n\t\t\n\t\t\n\t\t\tRichardAScheltema\n\t\t\n\t\t\n\t\t\tJesperVOlsen\n\t\t\n\t\t\n\t\t\tMatthiasMann\n\t\t\n\t\t10.1021/pr101065j\n\t\t21254760\n\t\t\n\t\n\t\n\t\tJournal of Proteome Research\n\t\tJ. Proteome Res.\n\t\t1535-3893\n\t\t1535-3907\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c50db97723bebd8667528d"},"refKey":33},
{"_key":"60c50dba7723bebd86675293","_id":"references/60c50dba7723bebd86675293","_rev":"_cfFlgLG---","tei":"\n\t\n\t\tPLINK: A tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 17701901\n\n","document":{"$oid":"60c50dba7723bebd86675292"},"refKey":57},
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{"_key":"60c50e377723bebd86675300","_id":"references/60c50e377723bebd86675300","_rev":"_cfFlgLq---","tei":"\n\t\n\t\tFlowSOM: Using self-organizing maps for visualization and interpretation of cytometry data\n\t\t\n\t\t\tSofieVan Gassen\n\t\t\n\t\t\n\t\t\tBrittCallebaut\n\t\t\n\t\t\n\t\t\tMaryJVan Helden\n\t\t\n\t\t\n\t\t\tBartNLambrecht\n\t\t\n\t\t\n\t\t\tPietDemeester\n\t\t\n\t\t\n\t\t\tTomDhaene\n\t\t\n\t\t\n\t\t\tYvanSaeys\n\t\t\n\t\t10.1002/cyto.a.22625\n\t\t25573116\n\t\t\n\t\n\t\n\t\tCytometry Part A\n\t\tCytometry\n\t\t1552-4922\n\t\t\n\t\t\t87\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c50e377723bebd866752ff"},"refKey":8},
{"_key":"60c50e377723bebd86675301","_id":"references/60c50e377723bebd86675301","_rev":"_cfFlgL2---","tei":"\n\t\n\t\tRapid cell population identification in flow cytometry data\n\t\t\n\t\t\tNimaAghaeepour\n\t\t\n\t\t\n\t\t\tRadinaNikolic\n\t\t\n\t\t\n\t\t\tHolgerHHoos\n\t\t\n\t\t\n\t\t\tRyanRBrinkman\n\t\t\n\t\t10.1002/cyto.a.21007\n\t\t21182178\n\t\tPMC3137288\n\t\t\n\t\t\n\t\n\t\n\t\tCytometry Part A\n\t\tCytometry\n\t\t1552-4922\n\t\t\n\t\t\t79A\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c50e377723bebd866752ff"},"refKey":6},
{"_key":"60c50e597723bebd8667533a","_id":"references/60c50e597723bebd8667533a","_rev":"_cfFlgMC---","tei":"\n\t\n\t\tRefinement of Protein Structures into Low-Resolution Density Maps Using Rosetta\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tMichaelDTyka\n\t\t\n\t\t\n\t\t\tMatthewLBaker\n\t\t\n\t\t\n\t\t\tWahChiu\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t10.1016/j.jmb.2009.07.008\n\t\t19596339\n\t\tPMC3899897\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t392\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c50e597723bebd86675339"},"refKey":33},
{"_key":"60c50e597723bebd8667533b","_id":"references/60c50e597723bebd8667533b","_rev":"_cfFlgMS---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c50e597723bebd86675339"},"refKey":32},
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{"_key":"60c50e7d7723bebd86675367","_id":"references/60c50e7d7723bebd86675367","_rev":"_cfFlgNy---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tNBlast\n\t\t\n\t\n\t\n\t\tNatl. Libr. Med. Natl. Cent. Biotechnol. Inf\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50e7d7723bebd86675361"},"refKey":31},
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{"_key":"60c50ee57723bebd866753e6","_id":"references/60c50ee57723bebd866753e6","_rev":"_cfFlgPC---","tei":"\n\t\n\t\tNormalization of real-time quantitative RT-PCR data: a model based variance estimation approach to identify genes suited for normalization, applied to bladder and colon cancer data sets\n\t\t\n\t\t\tCLAndersen\n\t\t\n\t\t\n\t\t\tJLedet-Jensen\n\t\t\n\t\t\n\t\t\tTØrntoft\n\t\t\n\t\n\t\n\t\tCancer Res\n\t\t\n\t\t\t64\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50ee57723bebd866753e5"},"refKey":15},
{"_key":"60c50ee57723bebd866753e7","_id":"references/60c50ee57723bebd866753e7","_rev":"_cfFlgPO---","tei":"\n\t\n\t\tAccurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tKDe Preter\n\t\t\n\t\t\n\t\t\tFPattyn\n\t\t\n\t\t\n\t\t\tBPoppe\n\t\t\n\t\t\n\t\t\tNVan Roy\n\t\t\n\t\t\n\t\t\tADe Paepe\n\t\t\n\t\t\n\t\t\tFSpeleman\n\t\t\n\t\t10.1186/gb-2002-3-7-research0034\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50ee57723bebd866753e5"},"refKey":0},
{"_key":"60c50f427723bebd86675433","_id":"references/60c50f427723bebd86675433","_rev":"_cfFlgPa---","tei":"\n\t\n\t\tAt the Intersection of Public-health Informatics and Bioinformatics\n\t\t\n\t\t\tMatthewScotch\n\t\t\n\t\t\n\t\t\tChangjiangMei\n\t\t\n\t\t\n\t\t\tCynthiaBrandt\n\t\t\n\t\t\n\t\t\tIndraNeilSarkar\n\t\t\n\t\t\n\t\t\tKeiCheung\n\t\t\n\t\t10.1097/ede.0b013e3181f534dd\n\t\t20924230\n\t\tPMC3150210\n\t\t\n\t\n\t\n\t\tEpidemiology\n\t\tEpidemiology\n\t\t1044-3983\n\t\t\n\t\t\t21\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOvid Technologies (Wolters Kluwer Health)\n\t\t\n\t\n\n","document":{"$oid":"60c50f427723bebd86675432"},"refKey":33},
{"_key":"60c50f427723bebd86675434","_id":"references/60c50f427723bebd86675434","_rev":"_cfFlgPi---","tei":"\n\t\n\t\tSPREAD: spatial phylogenetic reconstruction of evolutionary dynamics\n\t\t\n\t\t\tFBielejec\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t10.1093/bioinformatics/btr481\n\t\t21911333\n\t\tPMC3187652\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c50f427723bebd86675432"},"refKey":40},
{"_key":"60c50f427723bebd86675435","_id":"references/60c50f427723bebd86675435","_rev":"_cfFlgPu---","tei":"\n\t\n\t\tBayesian tip-significance testing (BaTS)\n\t\t\n\t\t\tJParker\n\t\t\n\t\t10.1186/1471-2164-14-871\n\t\t\n\t\t\t\n\t\t\tOxford, UK: University of Oxford\n\t\t\n\t\n\n","document":{"$oid":"60c50f427723bebd86675432"},"refKey":44},
{"_key":"60c50f427723bebd86675436","_id":"references/60c50f427723bebd86675436","_rev":"_cfFlgP6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMatlabV\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50f427723bebd86675432"},"refKey":41},
{"_key":"60c50f427723bebd86675437","_id":"references/60c50f427723bebd86675437","_rev":"_cfFlgQG---","tei":"\n\t\n\t\tBayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tRemcoRBouckaert\n\t\t\n\t\t10.1017/cbo9781139095112.007\n\t\n\t\n\t\tBayesian Evolutionary Analysis with BEAST\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2007\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50f427723bebd86675432"},"refKey":37},
{"_key":"60c50f427723bebd86675438","_id":"references/60c50f427723bebd86675438","_rev":"_cfFlgQS---","tei":"\n\t\n\t\tSelection of Models of DNA Evolution with jModelTest\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t10.1007/978-1-59745-251-9_5\n\t\t19378141\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t537\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50f427723bebd86675432"},"refKey":36},
{"_key":"60c50f427723bebd86675439","_id":"references/60c50f427723bebd86675439","_rev":"_cfFlgQa---","tei":"\n\t\n\t\tCLUSTAL: a package for performing multiple sequence alignment on a microcomputer\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tPMSharp\n\t\t\n\t\n\t\n\t\tGene\n\t\t\n\t\t\t73\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50f427723bebd86675432"},"refKey":34},
{"_key":"60c50f427723bebd8667543a","_id":"references/60c50f427723bebd8667543a","_rev":"_cfFlgQm---","tei":"\n\t\n\t\tClustal W and clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50f427723bebd86675432"},"refKey":35},
{"_key":"60c50f637723bebd8667545d","_id":"references/60c50f637723bebd8667545d","_rev":"_cfFlgQy---","tei":"\n\t\n\t\tVEGAN, a package of R functions for community ecology\n\t\t\n\t\t\tPhilipDixon\n\t\t\n\t\t10.1111/j.1654-1103.2003.tb02228.x\n\t\tark:/67375/WNG-MPQK1T94-T\n\t\tEDAEDBC1E6C8D2B23332F449094842A86DEFAF95\n\t\n\t\n\t\tJournal of Vegetation Science\n\t\t1100-9233\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c50f637723bebd8667545c"},"refKey":69},
{"_key":"60c50f647723bebd8667545e","_id":"references/60c50f647723bebd8667545e","_rev":"_cfFlgR----","tei":"\n\t\n\t\tBuilding Predictive Models inRUsing thecaretPackage\n\t\t\n\t\t\tMaxKuhn\n\t\t\n\t\t10.18637/jss.v028.i05\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t28\n\t\t\t5\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c50f637723bebd8667545c"},"refKey":71},
{"_key":"60c50f887723bebd8667547d","_id":"references/60c50f887723bebd8667547d","_rev":"_cfFlgRG---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c50f887723bebd8667547c"},"refKey":28},
{"_key":"60c50f887723bebd8667547e","_id":"references/60c50f887723bebd8667547e","_rev":"_cfFlgRS---","tei":"\n\t\n\t\tThe PROCESS macro for SPSS and SAS\n\t\t\n\t\t\tAHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50f887723bebd8667547c"},"refKey":38},
{"_key":"60c50fb37723bebd866754b2","_id":"references/60c50fb37723bebd866754b2","_rev":"_cfFlgRe---","tei":"\n\t\n\t\tThe Berlin Brain-Computer Interface: Progress Beyond Communication and Control\n\t\t\n\t\t\tBenjaminBlankertz\n\t\t\n\t\t\n\t\t\tLauraAcqualagna\n\t\t\n\t\t\n\t\t\tSvenDähne\n\t\t\n\t\t\n\t\t\tStefanHaufe\n\t\t\n\t\t\n\t\t\tMatthiasSchultze-Kraft\n\t\t\n\t\t\n\t\t\tIreneSturm\n\t\t\n\t\t\n\t\t\tMarijaUšćumlic\n\t\t\n\t\t\n\t\t\tMarkusAWenzel\n\t\t\n\t\t\n\t\t\tGabrielCurio\n\t\t\n\t\t\n\t\t\tKlaus-RobertMüller\n\t\t\n\t\t10.3389/fnins.2016.00530\n\t\t27917107\n\t\tPMC5116473\n\t\t\n\t\n\t\n\t\tFrontiers in Neuroscience\n\t\tFront. Neurosci.\n\t\t1662-453X\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c50fb37723bebd866754b1"},"refKey":19},
{"_key":"60c50fee7723bebd866754e0","_id":"references/60c50fee7723bebd866754e0","_rev":"_cfFlgRq---","tei":"\n\t\n\t\tA dynamic nomenclature proposal for SARS-CoV-2 to assist genomic epidemiology\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tECHolmes\n\t\t\n\t\t\n\t\t\tVHill\n\t\t\n\t\t\n\t\t\tA ´O'toole\n\t\t\n\t\t\n\t\t\tJMccrone\n\t\t\n\t\t\n\t\t\tCRuis\n\t\t\n\t\t10.1038/s41564-020-0770-5\n\t\t32669681\n\t\t\n\t\n\t\n\t\tNature Microbiology\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c50fee7723bebd866754df"},"refKey":10},
{"_key":"60c50fee7723bebd866754e1","_id":"references/60c50fee7723bebd866754e1","_rev":"_cfFlgR2---","tei":"\n\t\n\t\tCoV-GLUE: A web application for tracking SARS-CoV-2 genomic variation\n\t\t\n\t\t\tJBSinger\n\t\t\n\t\t\n\t\t\tRJGifford\n\t\t\n\t\t\n\t\t\tMCotten\n\t\t\n\t\t\n\t\t\tDLRobertson\n\t\t\n\t\t10.20944/preprints202006.0225.v1\n\t\t\n\t\t\n\t\n\tPreprint]. 2020 [cited 2020 September 28\n\n","document":{"$oid":"60c50fee7723bebd866754df"},"refKey":9},
{"_key":"60c510137723bebd8667550d","_id":"references/60c510137723bebd8667550d","_rev":"_cfFlgS----","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c510137723bebd8667550c"},"refKey":30},
{"_key":"60c510137723bebd8667550e","_id":"references/60c510137723bebd8667550e","_rev":"_cfFlgSK---","tei":"\n\t\n\t\tCar: companion to applied regression\n\t\t\n\t\t\tJFox\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 1.2-14\n\n","document":{"$oid":"60c510137723bebd8667550c"},"refKey":27},
{"_key":"60c510177723bebd86675511","_id":"references/60c510177723bebd86675511","_rev":"_cfFlgSW---","tei":"\n\t\n\t\tExpLOD: Summary-Based Exploration of Interlinking and RDF Usage in the Linked Open Data Cloud\n\t\t\n\t\t\tShahanKhatchadourian\n\t\t\n\t\t\n\t\t\tMarianoPConsens\n\t\t\n\t\t10.1007/978-3-642-13489-0_19\n\t\tark:/67375/HCB-N61L52KW-J\n\t\tD05E06F50BA9C354287A5B18FBA7B66E9DE54684\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tLAroyo\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t6089\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c510177723bebd86675510"},"refKey":7},
{"_key":"60c510357723bebd8667551e","_id":"references/60c510357723bebd8667551e","_rev":"_cfFlgSi---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing; 2015. R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c510357723bebd8667551d"},"refKey":19},
{"_key":"60c510397723bebd86675529","_id":"references/60c510397723bebd86675529","_rev":"_cfFlgSu---","tei":"\n\t\n\t\tGROMACS: Fast, flexible, and free\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tGerritGroenhof\n\t\t\n\t\t\n\t\t\tAlanEMark\n\t\t\n\t\t\n\t\t\tHermanJ CBerendsen\n\t\t\n\t\t10.1002/jcc.20291\n\t\t16211538\n\t\tark:/67375/WNG-FZWKDCST-G\n\t\t1B9A91E56BE3B9919FC3D0665CD10F2EB65C307A\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c510397723bebd86675528"},"refKey":49},
{"_key":"60c510397723bebd8667552a","_id":"references/60c510397723bebd8667552a","_rev":"_cfFlgS2---","tei":"\n\t\n\t\tIntegration of control of neglected tropical diseases into health-care systems: challenges and opportunities\n\t\t\n\t\t\tJohnOGyapong\n\t\t\n\t\t\n\t\t\tMargaretGyapong\n\t\t\n\t\t\n\t\t\tNathanielYellu\n\t\t\n\t\t\n\t\t\tKwadwoAnakwah\n\t\t\n\t\t\n\t\t\tGeorgeAmofah\n\t\t\n\t\t\n\t\t\tMosesBockarie\n\t\t\n\t\t\n\t\t\tSamAdjei\n\t\t\n\t\t10.1016/s0140-6736(09)61249-6\n\t\t20109893\n\t\n\t\n\t\tThe Lancet\n\t\tThe Lancet\n\t\t0140-6736\n\t\t\n\t\t\t375\n\t\t\t9709\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c510397723bebd86675528"},"refKey":5},
{"_key":"60c510397723bebd8667552b","_id":"references/60c510397723bebd8667552b","_rev":"_cfFlgTC---","tei":"\n\t\n\t\tImmune effector mechanisms against schistosomiasis: looking for a chink in the parasite's armour\n\t\t\n\t\t\tSCOliveira\n\t\t\n\t\t\n\t\t\tCTFonseca\n\t\t\n\t\t\n\t\t\tFCCardoso\n\t\t\n\t\t\n\t\t\tLPFarias\n\t\t\n\t\t\n\t\t\tLc ;Leite\n\t\t\n\t\t\n\t\t\tRAWilson\n\t\t\n\t\t\n\t\t\tPSCoulson\n\t\t\n\t\t10.1016/j.pt.2009.05.011\n\t\tdoi: 10.1016/j.pt.2009.05.011\n\t\n\t\n\t\tTrends Parasitol\n\t\t\n\t\t\t108\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tActa Trop.\n\n","document":{"$oid":"60c510397723bebd86675528"},"refKey":12},
{"_key":"60c510727723bebd86675572","_id":"references/60c510727723bebd86675572","_rev":"_cfFlgTO---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJ.-FDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c510727723bebd86675571"},"refKey":3},
{"_key":"60c510817723bebd86675576","_id":"references/60c510817723bebd86675576","_rev":"_cfFlgTa---","tei":"\n\t\n\t\tGeneOverlap: Test and visualize gene overlaps. R package version 1\n\t\t\n\t\t\tLShen\n\t\t\n\t\t\n\t\t\tMSinai\n\t\t\n\t\t\n\t\t\tGeneoverlap\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c510817723bebd86675575"},"refKey":17},
{"_key":"60c510a27723bebd8667559e","_id":"references/60c510a27723bebd8667559e","_rev":"_cfFlgTm---","tei":"\n\t\n\t\tPhysical versus virtual manipulative experimentation in physics learning\n\t\t\n\t\t\tZachariasCZacharia\n\t\t\n\t\t\n\t\t\tGeorgiosOlympiou\n\t\t\n\t\t10.1016/j.learninstruc.2010.03.001\n\t\t\n\t\n\t\n\t\tLearning and Instruction\n\t\tLearning and Instruction\n\t\t0959-4752\n\t\t\n\t\t\t21\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c510a27723bebd8667559d"},"refKey":12},
{"_key":"60c510b57723bebd866755b0","_id":"references/60c510b57723bebd866755b0","_rev":"_cfFlgTy---","tei":"\n\t\n\t\tProbabilistic programming in Python using PyMC3\n\t\t\n\t\t\tJohnSalvatier\n\t\t\n\t\t\n\t\t\tThomasVWiecki\n\t\t\n\t\t\n\t\t\tChristopherFonnesbeck\n\t\t\n\t\t10.7287/peerj.preprints.1686\n\t\t\n\t\n\t\n\t\tPeer J. Comput. Sci\n\t\t\n\t\t\t2\n\t\t\te55\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c510b57723bebd866755af"},"refKey":68},
{"_key":"60c510e27723bebd866755c3","_id":"references/60c510e27723bebd866755c3","_rev":"_cfFlgT6---","tei":"\n\t\n\t\tMuki) Haklay, OpenStreetMap: User-Generated Street Maps\n\t\t\n\t\t\tPWeber\n\t\t\n\t\t\n\t\t\tM\n\t\t\n\t\t10.1109/MPRV.2008.80\n\t\n\t\n\t\tIEEE Pervasive Comput\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c510e27723bebd866755c2"},"refKey":47},
{"_key":"60c510e27723bebd866755c4","_id":"references/60c510e27723bebd866755c4","_rev":"_cfFlgUG---","tei":"\n\t\n\t\tGoogle Earth Engine: Planetary-scale geospatial analysis for everyone\n\t\t\n\t\t\tNoelGorelick\n\t\t\t0000-0002-5548-2436\n\t\t\n\t\t\n\t\t\tMattHancher\n\t\t\n\t\t\n\t\t\tMikeDixon\n\t\t\n\t\t\n\t\t\tSimonIlyushchenko\n\t\t\n\t\t\n\t\t\tDavidThau\n\t\t\n\t\t\n\t\t\tRebeccaMoore\n\t\t\n\t\t10.1016/j.rse.2017.06.031\n\t\n\t\n\t\tRemote Sensing of Environment\n\t\tRemote Sensing of Environment\n\t\t0034-4257\n\t\t\n\t\t\t202\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c510e27723bebd866755c2"},"refKey":50},
{"_key":"60c510fb7723bebd866755de","_id":"references/60c510fb7723bebd866755de","_rev":"_cfFlgUS---","tei":"\n\t\n\t\tNetDraw Software for Network Visualization\n\t\t\n\t\t\tSPBorgatti\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t17\n\t\t\n\t\n\n","document":{"$oid":"60c510fb7723bebd866755dd"},"refKey":38},
{"_key":"60c510fb7723bebd866755df","_id":"references/60c510fb7723bebd866755df","_rev":"_cfFlgUe---","tei":"\n\t\n\t\tConcept mapping as a methodical and transparent data analysis process\n\t\t\n\t\t\tPBalan\n\t\t\n\t\t\n\t\t\tEBalan-Vnuk\n\t\t\n\t\t\n\t\t\tMMetcalfe\n\t\t\n\t\t\n\t\t\tNLindsay\n\t\t\n\t\n\t\n\t\tHandbook of Qualitative Organizational Research: Innovative Pathways and Methods\n\t\t\t\t\n\t\t\tKDElsbach\n\t\t\tRMKramer\n\t\t\tEds\n\t\t\t&Taylor\n\t\t\tFrancis/Routledge\n\t\t\n\t\tNew York, NY, USA\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c510fb7723bebd866755dd"},"refKey":26},
{"_key":"60c510fb7723bebd866755e0","_id":"references/60c510fb7723bebd866755e0","_rev":"_cfFlgUq---","tei":"\n\t\n\t\tUcinet 6 for Windows: Software for Social Network Analysis; Analytic Technologies\n\t\t\n\t\t\tSPBorgatti\n\t\t\n\t\t\n\t\t\tMGEverett\n\t\t\n\t\t\n\t\t\tLCFreeman\n\t\t\n\t\t\n\t\t\t\n\t\t\tHarvard, MA, USA\n\t\t\n\t\n\n","document":{"$oid":"60c510fb7723bebd866755dd"},"refKey":37},
{"_key":"60c511147723bebd866755ed","_id":"references/60c511147723bebd866755ed","_rev":"_cfFlgUy---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. the R Foundation for Statistical Computing\n\t\t\n\t\t\tRD CTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c511147723bebd866755ec"},"refKey":39},
{"_key":"60c511317723bebd86675601","_id":"references/60c511317723bebd86675601","_rev":"_cfFlgV----","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c511317723bebd86675600"},"refKey":23},
{"_key":"60c511417723bebd86675606","_id":"references/60c511417723bebd86675606","_rev":"_cfFlgVK---","tei":"\n\t\n\t\tSemEval-2019 Task 10: Math question answering\n\t\t\n\t\t\tMHopkins\n\t\t\n\t\t\n\t\t\tRLe Bras\n\t\t\n\t\t\n\t\t\tCPetrescu-Prahova\n\t\t\n\t\t\n\t\t\tGStanovsky\n\t\t\n\t\t\n\t\t\tHHajishirzi\n\t\t\n\t\t\n\t\t\tRKoncel-Kedziorski\n\t\t\n\t\n\t\n\t\tProceedings of the 13th International Workshop on Semantic Evaluation\n\t\t\t\tthe 13th International Workshop on Semantic Evaluation\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c511417723bebd86675605"},"refKey":3},
{"_key":"60c5114c7723bebd8667561a","_id":"references/60c5114c7723bebd8667561a","_rev":"_cfFlgVW---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1093/bioinformatics/bty560\n\t\t30423086\n\t\tPMC6129281\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5114c7723bebd86675619"},"refKey":13},
{"_key":"60c5114c7723bebd8667561b","_id":"references/60c5114c7723bebd8667561b","_rev":"_cfFlgVi---","tei":"\n\t\n\t\tphydms: software for phylogenetic analyses informed by deep mutational scanning\n\t\t\n\t\t\tSarahKHilton\n\t\t\n\t\t\n\t\t\tMichaelBDoud\n\t\t\n\t\t\n\t\t\tJesseDBloom\n\t\t\n\t\t10.7717/peerj.3657\n\t\t28785526\n\t\tPMC5541924\n\t\t\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t5\n\t\t\te3657\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c5114c7723bebd86675619"},"refKey":32},
{"_key":"60c5114c7723bebd8667561c","_id":"references/60c5114c7723bebd8667561c","_rev":"_cfFlgVu---","tei":"\n\t\n\t\tPrediction of sequence-dependent and mutational effects on the aggregation of peptides and proteins\n\t\t\n\t\t\tAna-MariaFernandez-Escamilla\n\t\t\n\t\t\n\t\t\tFredericRousseau\n\t\t\n\t\t\n\t\t\tJoostSchymkowitz\n\t\t\n\t\t\n\t\t\tLuisSerrano\n\t\t\n\t\t10.1038/nbt1012\n\t\t15361882\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t22\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5114c7723bebd86675619"},"refKey":21},
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{"_key":"60c5114c7723bebd8667561e","_id":"references/60c5114c7723bebd8667561e","_rev":"_cfFlgWC---","tei":"\n\t\n\t\tComprehensive Mapping of HIV-1 Escape from a Broadly Neutralizing Antibody\n\t\t\n\t\t\tAdamSDingens\n\t\t\n\t\t\n\t\t\tHughKHaddox\n\t\t\n\t\t\n\t\t\tJulieOverbaugh\n\t\t\n\t\t\n\t\t\tJesseDBloom\n\t\t\n\t\t10.1016/j.chom.2017.05.003\n\t\t28579254\n\t\tPMC5512576\n\t\t\n\t\t\n\t\n\t\n\t\tCell Host & Microbe\n\t\tCell Host & Microbe\n\t\t1931-3128\n\t\t\n\t\t\t21\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5114c7723bebd86675619"},"refKey":17},
{"_key":"60c5114c7723bebd8667561f","_id":"references/60c5114c7723bebd8667561f","_rev":"_cfFlgWO---","tei":"\n\t\n\t\tDetecting ultralow-frequency mutations by Duplex Sequencing\n\t\t\n\t\t\tScottRKennedy\n\t\t\n\t\t\n\t\t\tMichaelWSchmitt\n\t\t\n\t\t\n\t\t\tEdwardJFox\n\t\t\t0000-0002-3740-651X\n\t\t\n\t\t\n\t\t\tBrendanFKohrn\n\t\t\n\t\t\n\t\t\tJesseJSalk\n\t\t\n\t\t\n\t\t\tEunHyunAhn\n\t\t\n\t\t\n\t\t\tMarcJPrindle\n\t\t\n\t\t\n\t\t\tKawaiJKuong\n\t\t\n\t\t\n\t\t\tJiang-ChengShen\n\t\t\n\t\t\n\t\t\tRosa-AnaRisques\n\t\t\n\t\t\n\t\t\tLawrenceALoeb\n\t\t\n\t\t10.1038/nprot.2014.170\n\t\t25299156\n\t\tPMC4271547\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t9\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5114c7723bebd86675619"},"refKey":37},
{"_key":"60c5114c7723bebd86675620","_id":"references/60c5114c7723bebd86675620","_rev":"_cfFlgWa---","tei":"\n\t\n\t\tThe FoldX web server: an online force field\n\t\t\n\t\t\tJSchymkowitz\n\t\t\n\t\t\n\t\t\tJBorg\n\t\t\n\t\t\n\t\t\tFStricher\n\t\t\n\t\t\n\t\t\tRNys\n\t\t\n\t\t\n\t\t\tFRousseau\n\t\t\n\t\t\n\t\t\tLSerrano\n\t\t\n\t\t10.1093/nar/gki387\n\t\t15980494\n\t\tPMC1160148\n\t\tark:/67375/HXZ-V6X7NMFL-H\n\t\tA51143A3E07B7E7A7C24EC25C3CEF7EAFEF10791\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5114c7723bebd86675619"},"refKey":56},
{"_key":"60c5114c7723bebd86675621","_id":"references/60c5114c7723bebd86675621","_rev":"_cfFlgWm---","tei":"\n\t\n\t\tVIPERdb2: an enhanced and web API enabled relational database for structural virology\n\t\t\n\t\t\tMCarrillo-Tripp\n\t\t\n\t\t\n\t\t\tCMShepherd\n\t\t\n\t\t\n\t\t\tIABorelli\n\t\t\n\t\t\n\t\t\tSVenkataraman\n\t\t\n\t\t\n\t\t\tGLander\n\t\t\n\t\t\n\t\t\tPNatarajan\n\t\t\n\t\t\n\t\t\tJEJohnson\n\t\t\n\t\t\n\t\t\tCLBrooks\n\t\t\n\t\t\n\t\t\tVSReddy\n\t\t\n\t\t10.1093/nar/gkn840\n\t\t18981051\n\t\tPMC2686430\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5114c7723bebd86675619"},"refKey":11},
{"_key":"60c5114f7723bebd86675641","_id":"references/60c5114f7723bebd86675641","_rev":"_cfFlgWy---","tei":"\n\t\n\t\tSoftware survey: vosviewer, a computer program for bibliometric mapping\n\t\t\n\t\t\tNjvEck\n\t\t\n\t\t\n\t\t\tLWaltman\n\t\t\n\t\n\t\n\t\tScientometrics\n\t\t\n\t\t\t84\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5114f7723bebd86675640"},"refKey":25},
{"_key":"60c511617723bebd86675657","_id":"references/60c511617723bebd86675657","_rev":"_cfFlgW6---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 7984417\n\n","document":{"$oid":"60c511617723bebd86675656"},"refKey":23},
{"_key":"60c511647723bebd86675664","_id":"references/60c511647723bebd86675664","_rev":"_cfFlgXG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRDNoel Rappin\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\twxPython in Action\n\n","document":{"$oid":"60c511647723bebd86675663"},"refKey":59},
{"_key":"60c511647723bebd86675665","_id":"references/60c511647723bebd86675665","_rev":"_cfFlgXS---","tei":"\n\t\n\t\tDrawing Graphs with Dot\n\t\t\n\t\t\tEKoutsofios\n\t\t\n\t\t\n\t\t\t\n\t\t\tNJ, USA\n\t\t\n\t\t\n\t\t\tAT&T Bell Laboratories. Murray Hill\n\t\t\n\t\n\n","document":{"$oid":"60c511647723bebd86675663"},"refKey":43},
{"_key":"60c511757723bebd8667567b","_id":"references/60c511757723bebd8667567b","_rev":"_cfFlgXe---","tei":"\n\t\n\t\tGeneralized Crick Equations for Modeling Noncanonical Coiled Coils\n\t\t\n\t\t\tGeraldOffer\n\t\t\n\t\t\n\t\t\tMatthewRHicks\n\t\t\n\t\t\n\t\t\tDerekNWoolfson\n\t\t\n\t\t10.1006/jsbi.2002.4448\n\t\t12064932\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t137\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c511757723bebd8667567a"},"refKey":74},
{"_key":"60c511757723bebd8667567c","_id":"references/60c511757723bebd8667567c","_rev":"_cfFlgXq---","tei":"\n\t\n\t\tProbing Designability via a Generalized Model of Helical Bundle Geometry\n\t\t\n\t\t\tGevorgGrigoryan\n\t\t\n\t\t\n\t\t\tWilliamFDegrado\n\t\t\n\t\t10.1016/j.jmb.2010.08.058\n\t\t20932976\n\t\tPMC3052747\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t405\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c511757723bebd8667567a"},"refKey":36},
{"_key":"60c511757723bebd8667567d","_id":"references/60c511757723bebd8667567d","_rev":"_cfFlgXy---","tei":"\n\t\n\t\tCC+: a relational database of coiled-coil structures\n\t\t\n\t\t\tODTesta\n\t\t\n\t\t\n\t\t\tEMoutevelis\n\t\t\n\t\t\n\t\t\tDNWoolfson\n\t\t\n\t\t10.1093/nar/gkn675\n\t\t18842638\n\t\tPMC2686509\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c511757723bebd8667567a"},"refKey":93},
{"_key":"60c511757723bebd8667567e","_id":"references/60c511757723bebd8667567e","_rev":"_cfFlgY----","tei":"\n\t\n\t\tCCBuilder: an interactive web-based tool for building, designing and assessing coiled-coil protein assemblies\n\t\t\n\t\t\tCWWood\n\t\t\n\t\t\n\t\t\tMBruning\n\t\t\n\t\t\n\t\t\tAAIbarra\n\t\t\n\t\t\n\t\t\tGJBartlett\n\t\t\n\t\t\n\t\t\tARThomson\n\t\t\n\t\t\n\t\t\tRBSessions\n\t\t\n\t\t\n\t\t\tRLBrady\n\t\t\n\t\t\n\t\t\tDNWoolfson\n\t\t\n\t\t10.1093/bioinformatics/btu502\n\t\t25064570\n\t\tPMC4201159\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c511757723bebd8667567a"},"refKey":104},
{"_key":"60c511827723bebd866756a5","_id":"references/60c511827723bebd866756a5","_rev":"_cfFlgYK---","tei":"\n\t\n\t\tFiji: an open-source platform for biological-image analysis\n\t\t\n\t\t\tJohannesSchindelin\n\t\t\n\t\t\n\t\t\tIgnacioArganda-Carreras\n\t\t\n\t\t\n\t\t\tErwinFrise\n\t\t\n\t\t\n\t\t\tVerenaKaynig\n\t\t\n\t\t\n\t\t\tMarkLongair\n\t\t\n\t\t\n\t\t\tTobiasPietzsch\n\t\t\n\t\t\n\t\t\tStephanPreibisch\n\t\t\n\t\t\n\t\t\tCurtisRueden\n\t\t\n\t\t\n\t\t\tStephanSaalfeld\n\t\t\n\t\t\n\t\t\tBenjaminSchmid\n\t\t\n\t\t\n\t\t\tJean-YvesTinevez\n\t\t\n\t\t\n\t\t\tDanielJamesWhite\n\t\t\n\t\t\n\t\t\tVolkerHartenstein\n\t\t\n\t\t\n\t\t\tKevinEliceiri\n\t\t\n\t\t\n\t\t\tPavelTomancak\n\t\t\n\t\t\n\t\t\tAlbertCardona\n\t\t\n\t\t10.1038/nmeth.2019\n\t\t22743772\n\t\tPMC3855844\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c511827723bebd866756a4"},"refKey":18},
{"_key":"60c511857723bebd866756b2","_id":"references/60c511857723bebd866756b2","_rev":"_cfFlgYW---","tei":"\n\t\n\t\tBeta regression in R\n\t\t\n\t\t\tFCribari-Neto\n\t\t\n\t\t\n\t\t\tAZeileis\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c511857723bebd866756b1"},"refKey":8},
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{"_key":"60c511857723bebd866756b4","_id":"references/60c511857723bebd866756b4","_rev":"_cfFlgYu---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c511857723bebd866756b1"},"refKey":4},
{"_key":"60c511a57723bebd866756cc","_id":"references/60c511a57723bebd866756cc","_rev":"_cfFlgY2---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tSMezulis\n\t\t\n\t\t\n\t\t\tCMYates\n\t\t\n\t\t\n\t\t\tMNWass\n\t\t\n\t\t\n\t\t\tMJSternberg\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c511a57723bebd866756cb"},"refKey":43},
{"_key":"60c511a57723bebd866756cd","_id":"references/60c511a57723bebd866756cd","_rev":"_cfFlgZC---","tei":"\n\t\n\t\tSWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information\n\t\t\n\t\t\tMBiasini\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tTSchmidt\n\t\t\n\t\t\n\t\t\tFKiefer\n\t\t\n\t\t\n\t\t\tTGallo Cassarino\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c511a57723bebd866756cb"},"refKey":7},
{"_key":"60c511ac7723bebd866756d8","_id":"references/60c511ac7723bebd866756d8","_rev":"_cfFlgZO---","tei":"\n\t\n\t\tAccessed\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tRevMan 5.\n\n","document":{"$oid":"60c511ac7723bebd866756d7"},"refKey":25},
{"_key":"60c511b17723bebd866756de","_id":"references/60c511b17723bebd866756de","_rev":"_cfFlgZa---","tei":"\n\t\n\t\tNumerical modeling of impact-induced hydrothermal activity at the Chicxulub crater\n\t\t\n\t\t\tOlegAbramov\n\t\t\n\t\t\n\t\t\tDavidAKring\n\t\t\n\t\t10.1111/j.1945-5100.2007.tb00220.x\n\t\tark:/67375/WNG-577JPM9V-N\n\t\tFFEBD2C68E43D6FDABBA46755CE86B30E4891A32\n\t\n\t\n\t\tMeteoritics & Planetary Science\n\t\t1086-9379\n\t\t1945-5100\n\t\t\n\t\t\t42\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c511b17723bebd866756dd"},"refKey":2},
{"_key":"60c511c47723bebd866756f2","_id":"references/60c511c47723bebd866756f2","_rev":"_cfFlgZm---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c511c47723bebd866756f1"},"refKey":46},
{"_key":"60c511f47723bebd8667570a","_id":"references/60c511f47723bebd8667570a","_rev":"_cfFlgZu---","tei":"\n\t\n\t\tBLAT-the BLAST-like alignment tool\n\t\t\n\t\t\tWJKent\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c511f47723bebd86675709"},"refKey":39},
{"_key":"60c511f47723bebd8667570b","_id":"references/60c511f47723bebd8667570b","_rev":"_cfFlgZ6---","tei":"\n\t\n\t\tDfam: a database of repetitive DNA based on profile hidden Markov models\n\t\t\n\t\t\tTJWheeler\n\t\t\n\t\t\n\t\t\tJClements\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tRHubley\n\t\t\n\t\t\n\t\t\tTAJones\n\t\t\n\t\t\n\t\t\tJJurka\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c511f47723bebd86675709"},"refKey":40},
{"_key":"60c512147723bebd86675716","_id":"references/60c512147723bebd86675716","_rev":"_cfFlgaG---","tei":"\n\t\n\t\tUsing Small RNA-seq Data to Detect siRNA Duplexes Induced by Plant Viruses\n\t\t\n\t\t\tXiaoranNiu\n\t\t\n\t\t\n\t\t\tYuSun\n\t\t\n\t\t\n\t\t\tZeChen\n\t\t\n\t\t\n\t\t\tRugangLi\n\t\t\n\t\t\n\t\t\tChellappanPadmanabhan\n\t\t\n\t\t\n\t\t\tJishouRuan\n\t\t\n\t\t\n\t\t\tJanKreuze\n\t\t\n\t\t\n\t\t\tKaishuLing\n\t\t\n\t\t\n\t\t\tZhangjunFei\n\t\t\n\t\t\n\t\t\tShanGao\n\t\t\n\t\t10.3390/genes8060163\n\t\t28621718\n\t\tPMC5485527\n\t\t\n\t\n\t\n\t\tGenes\n\t\tGenes\n\t\t2073-4425\n\t\t\n\t\t\t8\n\t\t\t6\n\t\t\t163\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c512147723bebd86675715"},"refKey":6},
{"_key":"60c512147723bebd86675717","_id":"references/60c512147723bebd86675717","_rev":"_cfFlgaS---","tei":"\n\t\n\t\tVirusDetect: An automated pipeline for efficient virus discovery using deep sequencing of small RNAs\n\t\t\n\t\t\tYiZheng\n\t\t\n\t\t\n\t\t\tShanGao\n\t\t\n\t\t\n\t\t\tChellappanPadmanabhan\n\t\t\n\t\t\n\t\t\tRugangLi\n\t\t\n\t\t\n\t\t\tMarcoGalvez\n\t\t\n\t\t\n\t\t\tDinaGutierrez\n\t\t\n\t\t\n\t\t\tSegundoFuentes\n\t\t\n\t\t\n\t\t\tKai-ShuLing\n\t\t\n\t\t\n\t\t\tJanKreuze\n\t\t\n\t\t\n\t\t\tZhangjunFei\n\t\t\n\t\t10.1016/j.virol.2016.10.017\n\t\t27825033\n\t\n\t\n\t\tVirology\n\t\tVirology\n\t\t0042-6822\n\t\t\n\t\t\t500\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c512147723bebd86675715"},"refKey":3},
{"_key":"60c512147723bebd86675718","_id":"references/60c512147723bebd86675718","_rev":"_cfFlgae---","tei":"\n\t\n\t\tFastq_clean: An optimized pipeline to clean the Illumina sequencing data with quality control\n\t\t\n\t\t\tMiZhang\n\t\t\n\t\t\n\t\t\tHongheSun\n\t\t\n\t\t\n\t\t\tZhangjunFei\n\t\t\n\t\t\n\t\t\tFengZhan\n\t\t\n\t\t\n\t\t\tXiujunGong\n\t\t\n\t\t\n\t\t\tShanGao\n\t\t\n\t\t10.1109/bibm.2014.6999309\n\t\n\t\n\t\t2014 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c512147723bebd86675715"},"refKey":14},
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{"_key":"60c5121d7723bebd86675734","_id":"references/60c5121d7723bebd86675734","_rev":"_cfFlgay---","tei":"\n\t\n\t\tJCat: A novel tool to adapt codon usage of a target gene to its potential expression host\n\t\t\n\t\t\tAGrote\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c5121d7723bebd86675732"},"refKey":41},
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{"_key":"60c5121d7723bebd8667573d","_id":"references/60c5121d7723bebd8667573d","_rev":"_cfFlgbW---","tei":"\n\t\n\t\tFactoMineR: An r package for multivariate analysis\n\t\t\n\t\t\tSLê\n\t\t\n\t\t\n\t\t\tJJosse\n\t\t\n\t\t\n\t\t\tFHusson\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5121d7723bebd8667573a"},"refKey":42},
{"_key":"60c5125c7723bebd86675759","_id":"references/60c5125c7723bebd86675759","_rev":"_cfFlgbi---","tei":"\n\t\n\t\tAutomated Protein Structure Modeling with SWISS-MODEL Workspace and the Protein Model Portal\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\n\t\t10.1007/978-1-61779-588-6_5\n\t\t22323219\n\t\tPMC5651980\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t857\n\t\t\t\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c5125c7723bebd86675758"},"refKey":95},
{"_key":"60c512667723bebd86675768","_id":"references/60c512667723bebd86675768","_rev":"_cfFlgbq---","tei":"\n\t\n\t\tEpiR: Tools for the analysis of epidemiological data\n\t\t\n\t\t\tMarkStevenson\n\t\t\n\t\t\n\t\t\tTN\n\t\t\n\t\t\n\t\t\tCordHeuer\n\t\t\n\t\t\n\t\t\tJonathonMarshall\n\t\t\n\t\t\n\t\t\tJavierSanchez\n\t\t\n\t\t\n\t\t\tRonThorn-Ton\n\t\t\n\t\t\n\t\t\tJenoReiczigel\n\t\t\n\t\t\n\t\t\tJimRobison-Cox\n\t\t\n\t\t\n\t\t\tPaolaSebastiani\n\t\t\n\t\t\n\t\t\tPeterSolymos\n\t\t\n\t\t\n\t\t\tKazukiYoshida\n\t\t\n\t\t\n\t\t\tGe-OffJones\n\t\t\n\t\t\n\t\t\tSarahPirikahu\n\t\t\n\t\t\n\t\t\tSimonFirestone\n\t\t\n\t\t\n\t\t\tRyanKyle\n\t\t\n\t\t\n\t\t\tJo-HannPopp\n\t\t\n\t\t\n\t\t\tMathewJay\n\t\t\n\t\t\n\t\t\tCharlesReynard\n\t\t\n\t\t\n\t\t\t\n\t\t\tCity\n\t\t\n\t\n\n","document":{"$oid":"60c512667723bebd86675767"},"refKey":10},
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{"_key":"60c512727723bebd86675778","_id":"references/60c512727723bebd86675778","_rev":"_cfFlgcO---","tei":"\n\t\n\t\tPEAR: a fast and accurate Illumina Paired-End reAd mergeR\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tKKobert\n\t\t\n\t\t\n\t\t\tTFlouri\n\t\t\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c512727723bebd86675777"},"refKey":18},
{"_key":"60c512727723bebd86675779","_id":"references/60c512727723bebd86675779","_rev":"_cfFlgca---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\n\t\n\t\tEMBnry J\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c512727723bebd86675777"},"refKey":17},
{"_key":"60c512727723bebd8667577a","_id":"references/60c512727723bebd8667577a","_rev":"_cfFlgcm---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c512727723bebd86675777"},"refKey":19},
{"_key":"60c512727723bebd8667577b","_id":"references/60c512727723bebd8667577b","_rev":"_cfFlgcu---","tei":"\n\t\n\t\tQuality control and preprocessing of metagenomic datasets\n\t\t\n\t\t\tRSchmieder\n\t\t\n\t\t\n\t\t\tREdwards\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c512727723bebd86675777"},"refKey":16},
{"_key":"60c512807723bebd86675792","_id":"references/60c512807723bebd86675792","_rev":"_cfFlgc6---","tei":"\n\t\n\t\n\t\n\t\tStataCorp LLC: College Station\n\t\t\t\tTX, USA\n\t\t\n\t\t\t\n\t\t\t15\n\t\t\n\t\n\n","document":{"$oid":"60c512807723bebd86675791"},"refKey":23},
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{"_key":"60c512cf7723bebd866757c4","_id":"references/60c512cf7723bebd866757c4","_rev":"_cfFlgdS---","tei":"\n\t\n\t\tEBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments\n\t\t\n\t\t\tNLeng\n\t\t\n\t\t\n\t\t\tJADawson\n\t\t\n\t\t\n\t\t\tJAThomson\n\t\t\n\t\t\n\t\t\tVRuotti\n\t\t\n\t\t\n\t\t\tAIRissman\n\t\t\n\t\t\n\t\t\tBmgM GSmits\n\t\t\n\t\t\n\t\t\tJDHaag\n\t\t\n\t\t\n\t\t\tMNGould\n\t\t\n\t\t\n\t\t\tRMStewart\n\t\t\n\t\t\n\t\t\tCKendziorski\n\t\t\n\t\t10.1093/bioinformatics/btt337\n\t\tPMC3888201\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c512cf7723bebd866757c3"},"refKey":55},
{"_key":"60c512cf7723bebd866757c5","_id":"references/60c512cf7723bebd866757c5","_rev":"_cfFlgde---","tei":"\n\t\n\t\tAnalysis of Phylogenetics and Evolution with R\n\t\t\n\t\t\tEmmanuelParadis\n\t\t\n\t\t\n\t\t\tJClaude\n\t\t\n\t\t\n\t\t\tKStrimmer\n\t\t\n\t\t10.1007/978-1-4614-1743-9\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tSpringer New York\n\t\t\n\t\n\n","document":{"$oid":"60c512cf7723bebd866757c3"},"refKey":73},
{"_key":"60c512cf7723bebd866757c6","_id":"references/60c512cf7723bebd866757c6","_rev":"_cfFlgdm---","tei":"\n\t\n\t\tComparison of sequencing utility programs\n\t\t\n\t\t\tEAronesty\n\t\t\n\t\n\t\n\t\tOpen Bioinforma J\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c512cf7723bebd866757c3"},"refKey":2},
{"_key":"60c512cf7723bebd866757c7","_id":"references/60c512cf7723bebd866757c7","_rev":"_cfFlgdy---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tGenome Project Data Processing Subgroup\n\n","document":{"$oid":"60c512cf7723bebd866757c3"},"refKey":58},
{"_key":"60c512cf7723bebd866757c8","_id":"references/60c512cf7723bebd866757c8","_rev":"_cfFlge----","tei":"\n\t\n\t\tGene ontology analysis for RNA-seq: accounting for selection bias\n\t\t\n\t\t\tMDYoung\n\t\t\n\t\t\n\t\t\tMJWakefield\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tAOshlack\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t11\n\t\t\tR14\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c512cf7723bebd866757c3"},"refKey":122},
{"_key":"60c512cf7723bebd866757c9","_id":"references/60c512cf7723bebd866757c9","_rev":"_cfFlgeK---","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBLi\n\t\t\n\t\t\n\t\t\tCNDewey\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t12\n\t\t\t323\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c512cf7723bebd866757c3"},"refKey":57},
{"_key":"60c512e97723bebd866757e1","_id":"references/60c512e97723bebd866757e1","_rev":"_cfFlgeW---","tei":"\n\t\n\t\tSurflex-Dock 2.1: Robust performance from ligand energetic modeling, ring flexibility, and knowledge-based search\n\t\t\n\t\t\tAjayNJain\n\t\t\n\t\t10.1007/s10822-007-9114-2\n\t\t17387436\n\t\tark:/67375/VQC-Z8V52CB6-3\n\t\tF98D46E836890CCABBCF39215478A1D054C082B3\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t21\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c512e97723bebd866757e0"},"refKey":30},
{"_key":"60c512e97723bebd866757e2","_id":"references/60c512e97723bebd866757e2","_rev":"_cfFlgei---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Appl Cryst\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c512e97723bebd866757e0"},"refKey":27},
{"_key":"60c513087723bebd8667580d","_id":"references/60c513087723bebd8667580d","_rev":"_cfFlgeq---","tei":"\n\t\n\t\tA knowledge base for predicting protein localization sites in eukaryotic cells\n\t\t\n\t\t\tKentaNakai\n\t\t\n\t\t\n\t\t\tMinoruKanehisa\n\t\t\n\t\t10.1016/s0888-7543(05)80111-9\n\t\t1478671\n\t\tS0888-7543(05)80111-9\n\t\tark:/67375/6H6-BF2TW6P8-C\n\t\tFC63FDDDCC5116A584674779F5CBE366E4721E84\n\t\n\t\n\t\tGenomics\n\t\tGenomics\n\t\t0888-7543\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c513087723bebd8667580c"},"refKey":28},
{"_key":"60c513167723bebd8667583c","_id":"references/60c513167723bebd8667583c","_rev":"_cfFlge2---","tei":"\n\t\n\t\tChEMBL: a large-scale bioactivity database for drug discovery\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tJLouisa\n\t\t\n\t\t\n\t\t\tPatriciaBellis\n\t\t\n\t\t\n\t\t\tJonBento\n\t\t\n\t\t\n\t\t\tMarkChambers\n\t\t\n\t\t\n\t\t\tAnneDavies\n\t\t\n\t\t\n\t\t\tYvonneHersey\n\t\t\n\t\t\n\t\t\tShaunLight\n\t\t\n\t\t\n\t\t\tDavidMcglinchey\n\t\t\n\t\t\n\t\t\tBissanMichalovich\n\t\t\n\t\t\n\t\t\tAl-Lazikani\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t40\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c513167723bebd8667583b"},"refKey":13},
{"_key":"60c513167723bebd8667583d","_id":"references/60c513167723bebd8667583d","_rev":"_cfFlgfC---","tei":"\n\t\n\t\tGlide: a new approach for rapid, accurate docking and scoring. 1. Method and assessment of docking accuracy\n\t\t\n\t\t\tARichard\n\t\t\n\t\t\n\t\t\tJayLFriesner\n\t\t\n\t\t\n\t\t\tBanks\n\t\t\n\t\t\n\t\t\tBRobert\n\t\t\n\t\t\n\t\t\tThomasAMurphy\n\t\t\n\t\t\n\t\t\tHalgren\n\t\t\n\t\t\n\t\t\tJJasna\n\t\t\n\t\t\n\t\t\tKlicic\n\t\t\n\t\t\n\t\t\tTDaniel\n\t\t\n\t\t\n\t\t\tMainz\n\t\t\n\t\t\n\t\t\tPMatthew\n\t\t\n\t\t\n\t\t\tEricHRepasky\n\t\t\n\t\t\n\t\t\tMeeKnoll\n\t\t\n\t\t\n\t\t\tJasonKShelley\n\t\t\n\t\t\n\t\t\tPerry\n\t\t\n\t\n\t\n\t\tJournal of medicinal chemistry\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c513167723bebd8667583b"},"refKey":26},
{"_key":"60c513197723bebd8667584b","_id":"references/60c513197723bebd8667584b","_rev":"_cfFlgfO---","tei":"\n\t\n\t\tGraph message passing with cross-location attentions for long-term ILI prediction\n\t\t\n\t\t\tSDeng\n\t\t\n\t\t\n\t\t\tSWang\n\t\t\n\t\t\n\t\t\tHRangwala\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tYNing\n\t\t\n\t\tarXiv:1912.10202\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c513197723bebd8667584a"},"refKey":8},
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{"_key":"60c513377723bebd86675860","_id":"references/60c513377723bebd86675860","_rev":"_cfFlgfm---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGHeijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c513377723bebd8667585f"},"refKey":124},
{"_key":"60c513377723bebd86675861","_id":"references/60c513377723bebd86675861","_rev":"_cfFlgfy---","tei":"\n\t\n\t\tImproving the accuracy of transmembrane protein topology prediction using evolutionary information\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t10.1093/bioinformatics/btl677\n\t\t17237066\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c513377723bebd8667585f"},"refKey":126},
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{"_key":"60c513377723bebd86675863","_id":"references/60c513377723bebd86675863","_rev":"_cfFlggK---","tei":"\n\t\n\t\tA Combined Transmembrane Topology and Signal Peptide Prediction Method\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1016/j.jmb.2004.03.016\n\t\t15111065\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t338\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c513377723bebd8667585f"},"refKey":127},
{"_key":"60c513487723bebd8667587b","_id":"references/60c513487723bebd8667587b","_rev":"_cfFlggW---","tei":"\n\t\n\t\tmediation:RPackage for Causal Mediation Analysis\n\t\t\n\t\t\tDustinTingley\n\t\t\n\t\t\n\t\t\tTeppeiYamamoto\n\t\t\n\t\t\n\t\t\tKentaroHirose\n\t\t\n\t\t\n\t\t\tLukeKeele\n\t\t\n\t\t\n\t\t\tKosukeImai\n\t\t\n\t\t10.18637/jss.v059.i05\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t59\n\t\t\t5\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c513487723bebd8667587a"},"refKey":22},
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{"_key":"60c513987723bebd866758ad","_id":"references/60c513987723bebd866758ad","_rev":"_cfFlggu---","tei":"\n\t\n\t\tMultiplexing droplet-based single cell RNA-sequencing using natural genetic barcodes\n\t\t\n\t\t\tHyunMinKang\n\t\t\n\t\t\n\t\t\tMeenaSubramaniam\n\t\t\n\t\t\n\t\t\tSashaTarg\n\t\t\n\t\t\n\t\t\tMichelleNguyen\n\t\t\n\t\t\n\t\t\tLenkaMaliskova\n\t\t\n\t\t\n\t\t\tEuniceWan\n\t\t\n\t\t\n\t\t\tSimonWong\n\t\t\n\t\t\n\t\t\tLaurenByrnes\n\t\t\n\t\t\n\t\t\tCristinaLanata\n\t\t\n\t\t\n\t\t\tRachelGate\n\t\t\n\t\t\n\t\t\tSaraMostafavi\n\t\t\n\t\t\n\t\t\tAlexanderMarson\n\t\t\n\t\t\n\t\t\tNoahZaitlen\n\t\t\n\t\t\n\t\t\tLindseyACriswell\n\t\t\n\t\t\n\t\t\tJimmieYe\n\t\t\n\t\t10.1101/118778\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c513987723bebd866758ab"},"refKey":40},
{"_key":"60c513987723bebd866758ae","_id":"references/60c513987723bebd866758ae","_rev":"_cfFlgg6---","tei":"\n\t\n\t\tGSVA: gene set variation analysis for microarray and RNA-seq data\n\t\t\n\t\t\tSHa ¨nzelmann\n\t\t\n\t\t\n\t\t\tRCastelo\n\t\t\n\t\t\n\t\t\tJGuinney\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t14\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c513987723bebd866758ab"},"refKey":31},
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{"_key":"60c514cb7723bebd866759f0","_id":"references/60c514cb7723bebd866759f0","_rev":"_cfFlgma---","tei":"\n\t\n\t\tXGBoost: a scalable tree boosting system\n\t\t\n\t\t\tTChen\n\t\t\n\t\t\n\t\t\tCGuestrin\n\t\t\n\t\n\t\n\t\tProceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD 2016)\n\t\t\t\tthe 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD 2016)New York\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c514cb7723bebd866759ef"},"refKey":3},
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{"_key":"60c514fd7723bebd86675a26","_id":"references/60c514fd7723bebd86675a26","_rev":"_cfFlgnu---","tei":"\n\t\n\t\tZDOCK server: interactive docking prediction of protein-protein complexes and symmetric multimers\n\t\t\n\t\t\tBGPierce\n\t\t\n\t\t\n\t\t\tKWiehe\n\t\t\n\t\t\n\t\t\tHHwang\n\t\t\n\t\t\n\t\t\tB-HKim\n\t\t\n\t\t\n\t\t\tTVreven\n\t\t\n\t\t\n\t\t\tZWeng\n\t\t\n\t\t10.1093/bioinformatics/btu097\n\t\t24532726\n\t\tPMC4058926\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":34},
{"_key":"60c514fd7723bebd86675a27","_id":"references/60c514fd7723bebd86675a27","_rev":"_cfFlgn6---","tei":"\n\t\n\t\tClarifying the signal network of salvianolic acid B using proteomic assay and bioinformatic analysis\n\t\t\n\t\t\tLi-XingFeng\n\t\t\n\t\t\n\t\t\tChun-JieJing\n\t\t\n\t\t\n\t\t\tKai-LinTang\n\t\t\n\t\t\n\t\t\tLinTao\n\t\t\n\t\t\n\t\t\tZhi-WeiCao\n\t\t\n\t\t\n\t\t\tWan-YingWu\n\t\t\n\t\t\n\t\t\tShu-HongGuan\n\t\t\n\t\t\n\t\t\tBao-HongJiang\n\t\t\n\t\t\n\t\t\tMinYang\n\t\t\n\t\t\n\t\t\tXuanLiu\n\t\t\n\t\t\n\t\t\tDe-AnGuo\n\t\t\n\t\t10.1002/pmic.201000482\n\t\t21365754\n\t\tark:/67375/WNG-WF2XKBPS-7\n\t\t92658F974852A67B347200E14DA00B1D2C543EEA\n\t\n\t\n\t\tPROTEOMICS\n\t\tProteomics\n\t\t1615-9853\n\t\t\n\t\t\t11\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":24},
{"_key":"60c514fd7723bebd86675a28","_id":"references/60c514fd7723bebd86675a28","_rev":"_cfFlgoG---","tei":"\n\t\n\t\tAutomated structure-based prediction of functional sites in proteins: applications to assessing the validity of inheriting protein function from homology in genome annotation and to protein docking\n\t\t\n\t\t\tPatrickAloy\n\t\t\n\t\t\n\t\t\tEnriqueQuerol\n\t\t\n\t\t\n\t\t\tFrancescXAviles\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1006/jmbi.2001.4870\n\t\t11478868\n\t\tS0022-2836(01)94870-3\n\t\tark:/67375/6H6-FNGVMZTC-8\n\t\t6CC6A6234662FA22709130C8A616B2C9FDB14E11\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t311\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":32},
{"_key":"60c514fd7723bebd86675a29","_id":"references/60c514fd7723bebd86675a29","_rev":"_cfFlgoS---","tei":"\n\t\n\t\tGeauxDock: A novel approach for mixed-resolution ligand docking using a descriptor-based force field\n\t\t\n\t\t\tYunDing\n\t\t\n\t\t\n\t\t\tYeFang\n\t\t\n\t\t\n\t\t\tWeiPFeinstein\n\t\t\n\t\t\n\t\t\tJagannathanRamanujam\n\t\t\n\t\t\n\t\t\tDavidMKoppelman\n\t\t\n\t\t\n\t\t\tJuanaMoreno\n\t\t\n\t\t\n\t\t\tMichalBrylinski\n\t\t\n\t\t\n\t\t\tMarkJarrell\n\t\t\n\t\t10.1002/jcc.24031\n\t\t26250822\n\t\tark:/67375/WNG-CH593SBC-M\n\t\tDB47CE6B94732ED8E7848CF8C621CDC6AA24E283\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t36\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":49},
{"_key":"60c514fd7723bebd86675a2a","_id":"references/60c514fd7723bebd86675a2a","_rev":"_cfFlgoe---","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 1. Method and Assessment of Docking Accuracy\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tJayLBanks\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tJasnaJKlicic\n\t\t\n\t\t\n\t\t\tDanielTMainz\n\t\t\n\t\t\n\t\t\tMatthewPRepasky\n\t\t\n\t\t\n\t\t\tEricHKnoll\n\t\t\n\t\t\n\t\t\tMeeShelley\n\t\t\n\t\t\n\t\t\tJasonKPerry\n\t\t\n\t\t\n\t\t\tDavidEShaw\n\t\t\n\t\t\n\t\t\tPerryFrancis\n\t\t\n\t\t\n\t\t\tPeterSShenkin\n\t\t\n\t\t10.1021/jm0306430\n\t\t15027865\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":42},
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{"_key":"60c514fd7723bebd86675a2c","_id":"references/60c514fd7723bebd86675a2c","_rev":"_cfFlgo2---","tei":"\n\t\n\t\tBiGGER: A new (soft) docking algorithm for predicting protein interactions\n\t\t\n\t\t\tPNunoPalma\n\t\t\n\t\t\n\t\t\tLudwigKrippahl\n\t\t\n\t\t\n\t\t\tJohnEWampler\n\t\t\n\t\t\n\t\t\tJoséJ GMoura\n\t\t\n\t\t10.1002/(sici)1097-0134(20000601)39:4<372::aid-prot100>3.3.co;2-h\n\t\t10813819\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t39\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":58},
{"_key":"60c514fd7723bebd86675a2d","_id":"references/60c514fd7723bebd86675a2d","_rev":"_cfFlgpC---","tei":"\n\t\n\t\tGalaxyDock BP2 score: a hybrid scoring function for accurate protein–ligand docking\n\t\t\n\t\t\tMinkyungBaek\n\t\t\n\t\t\n\t\t\tWoong-HeeShin\n\t\t\n\t\t\n\t\t\tHwanWonChung\n\t\t\n\t\t\n\t\t\tChaokSeok\n\t\t\t0000-0002-1419-9888\n\t\t\n\t\t10.1007/s10822-017-0030-9\n\t\t28623486\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t31\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":50},
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{"_key":"60c514fd7723bebd86675a2f","_id":"references/60c514fd7723bebd86675a2f","_rev":"_cfFlgpW---","tei":"\n\t\n\t\tFRODOCK: a new approach for fast rotational protein–protein docking\n\t\t\n\t\t\tJoséIgnacioGarzon\n\t\t\n\t\t\n\t\t\tJoséRamónLopéz-Blanco\n\t\t\n\t\t\n\t\t\tCarlesPons\n\t\t\n\t\t\n\t\t\tJulioKovacs\n\t\t\n\t\t\n\t\t\tRubenAbagyan\n\t\t\n\t\t\n\t\t\tJuanFernandez-Recio\n\t\t\n\t\t\n\t\t\tPabloChacon\n\t\t\n\t\t10.1093/bioinformatics/btp447\n\t\t19620099\n\t\tPMC2800348\n\t\tark:/67375/HXZ-SPXPRSVX-Z\n\t\t2A9743087A2E57F6C79156356DA6DD168195659C\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":37},
{"_key":"60c514fd7723bebd86675a30","_id":"references/60c514fd7723bebd86675a30","_rev":"_cfFlgpi---","tei":"\n\t\n\t\tRecent Advances in Free Energy Calculations with a Combination of Molecular Mechanics and Continuum Models\n\t\t\n\t\t\tJunmeiWang\n\t\t\n\t\t\n\t\t\tTingjunHou\n\t\t\n\t\t\n\t\t\tXiaojieXu\n\t\t\n\t\t10.2174/157340906778226454\n\t\t\n\t\n\t\n\t\tCurrent Computer Aided-Drug Design\n\t\tCAD\n\t\t1573-4099\n\t\t\n\t\t\t2\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tBentham Science Publishers Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":48},
{"_key":"60c514fd7723bebd86675a31","_id":"references/60c514fd7723bebd86675a31","_rev":"_cfFlgpu---","tei":"\n\t\n\t\tOptimization of virtual screening protocols: FlexX based virtual screening for COX-2 inhibitors reveals the importance of tailoring screen parameters\n\t\t\n\t\t\tAndrásBauer\n\t\t\n\t\t\n\t\t\tZoltánKovári\n\t\t\n\t\t\n\t\t\tGyörgyMKeserű\n\t\t\n\t\t10.1016/j.theochem.2004.01.016\n\t\n\t\n\t\tJournal of Molecular Structure: THEOCHEM\n\t\tJournal of Molecular Structure: THEOCHEM\n\t\t0166-1280\n\t\t\n\t\t\t676\n\t\t\t1-3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":51},
{"_key":"60c514fd7723bebd86675a32","_id":"references/60c514fd7723bebd86675a32","_rev":"_cfFlgp6---","tei":"\n\t\n\t\tExploring computational lead optimisation with affinity constants obtained by surface plasmon resonance for the interaction of PorA epitope peptides with antibody against Neisseria meningitidis\n\t\t\n\t\t\tMarcelJ EFischer\n\t\t\n\t\t\n\t\t\tChristiaanKuipers\n\t\t\n\t\t\n\t\t\tRolfPHofkes\n\t\t\n\t\t\n\t\t\tLovinaJ FHofmeyer\n\t\t\n\t\t\n\t\t\tEdEMoret\n\t\t\n\t\t\n\t\t\tNicoJDe Mol\n\t\t\n\t\t10.1016/s0304-4165(01)00215-x\n\t\t11786227\n\t\tS0304-4165(01)00215-X\n\t\tark:/67375/6H6-4FCTVMW7-Z\n\t\tD03FE4F3CCBADF1E33951877F198A484DE0A0B13\n\t\n\t\n\t\tBiochimica et Biophysica Acta (BBA) - General Subjects\n\t\tBiochimica et Biophysica Acta (BBA) - General Subjects\n\t\t0304-4165\n\t\t\n\t\t\t1568\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":52},
{"_key":"60c514fd7723bebd86675a33","_id":"references/60c514fd7723bebd86675a33","_rev":"_cfFlgqG---","tei":"\n\t\n\t\tZDOCK: An initial-stage protein-docking algorithm\n\t\t\n\t\t\tRongChen\n\t\t\n\t\t\n\t\t\tLiLi\n\t\t\n\t\t\n\t\t\tZhipingWeng\n\t\t\n\t\t10.1002/prot.10389\n\t\t12784371\n\t\tark:/67375/WNG-F4FSLGJN-4\n\t\tF06B146AE6FF9C63FE0E4A56B78AF4B5BC98DB83\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t52\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":53},
{"_key":"60c514fd7723bebd86675a34","_id":"references/60c514fd7723bebd86675a34","_rev":"_cfFlgqS---","tei":"\n\t\n\t\tMolecular surface recognition: determination of geometric fit between proteins and their ligands by correlation techniques.\n\t\t\n\t\t\tESKatchalski-Katzir\n\t\t\n\t\t\n\t\t\tIShariv\n\t\t\n\t\t\n\t\t\tMEisenstein\n\t\t\n\t\t\n\t\t\tAAFriesem\n\t\t\n\t\t\n\t\t\tCAflalo\n\t\t\n\t\t\n\t\t\tIAVakser\n\t\t\n\t\t10.1073/pnas.89.6.2195\n\t\t1549581\n\t\tPMC48623\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t89\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":31},
{"_key":"60c514fd7723bebd86675a35","_id":"references/60c514fd7723bebd86675a35","_rev":"_cfFlgqe---","tei":"\n\t\n\t\tAutomated template-based small molecule docking\n\t\t\n\t\t\tAAlekseenko\n\t\t\n\t\t\n\t\t\tSKotelnikov\n\t\t\n\t\t\n\t\t\tMIgnatov\n\t\t\n\t\t\n\t\t\tMEgbert\n\t\t\n\t\t\n\t\t\tYKholodov\n\t\t\n\t\t\n\t\t\tSVajda\n\t\t\n\t\t\n\t\t\tDClusproKozakov\n\t\t\n\t\t\n\t\t\tLigtbm\n\t\t\n\t\t10.1016/j.jmb.2019.12.011\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t2020\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c514fd7723bebd86675a25"},"refKey":33},
{"_key":"60c514ff7723bebd86675a6f","_id":"references/60c514ff7723bebd86675a6f","_rev":"_cfFlgqq---","tei":"\n\t\n\t\tpkCSM: Predicting Small-Molecule Pharmacokinetic and Toxicity Properties Using Graph-Based Signatures\n\t\t\n\t\t\tDouglasE VPires\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t\n\t\t\tDavidBAscher\n\t\t\n\t\t10.1021/acs.jmedchem.5b00104\n\t\t25860834\n\t\tPMC4434528\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t58\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c514ff7723bebd86675a6e"},"refKey":24},
{"_key":"60c514ff7723bebd86675a70","_id":"references/60c514ff7723bebd86675a70","_rev":"_cfFlgq2---","tei":"\n\t\n\t\tA hierarchical approach to all-atom protein loop prediction\n\t\t\n\t\t\tMatthewPJacobson\n\t\t\n\t\t\n\t\t\tDavidLPincus\n\t\t\n\t\t\n\t\t\tChayaSRapp\n\t\t\n\t\t\n\t\t\tTylerJ FDay\n\t\t\n\t\t\n\t\t\tBarryHonig\n\t\t\n\t\t\n\t\t\tDavidEShaw\n\t\t\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t10.1002/prot.10613\n\t\t15048827\n\t\tark:/67375/WNG-JFGMBQSS-S\n\t\tB2D66039DD31AC4DBC9CDBC782CF42D0F2EDBADB\n\t\t\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t55\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c514ff7723bebd86675a6e"},"refKey":13},
{"_key":"60c514ff7723bebd86675a71","_id":"references/60c514ff7723bebd86675a71","_rev":"_cfFlgr----","tei":"\n\t\n\t\tEpik: a software program for pK a prediction and protonation state generation for drug-like molecules\n\t\t\n\t\t\tJohnCShelley\n\t\t\n\t\t\n\t\t\tAnuradhaCholleti\n\t\t\n\t\t\n\t\t\tLeahLFrye\n\t\t\n\t\t\n\t\t\tJeremyRGreenwood\n\t\t\n\t\t\n\t\t\tMathewRTimlin\n\t\t\n\t\t\n\t\t\tMakotoUchimaya\n\t\t\n\t\t10.1007/s10822-007-9133-z\n\t\t17899391\n\t\tark:/67375/VQC-Q5M8883J-N\n\t\t53E5616631F9B327804151C99A9FEF1919E8DF62\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t21\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c514ff7723bebd86675a6e"},"refKey":29},
{"_key":"60c514ff7723bebd86675a72","_id":"references/60c514ff7723bebd86675a72","_rev":"_cfFlgrK---","tei":"\n\t\n\t\tOPLS3e: Extending force field coverage for drug-like small molecules\n\t\t\n\t\t\tKRoos\n\t\t\n\t\t\n\t\t\tCWu\n\t\t\n\t\t\n\t\t\tWDamm\n\t\t\n\t\t\n\t\t\tMReboul\n\t\t\n\t\t\n\t\t\tJMStevenson\n\t\t\n\t\t\n\t\t\tCLu\n\t\t\n\t\t\n\t\t\tMKDahlgren\n\t\t\n\t\t\n\t\t\tSMondal\n\t\t\n\t\t\n\t\t\tWChen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tRAbel\n\t\t\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tEDHarder\n\t\t\n\t\t10.1021/acs.jctc.8b01026\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\t\n\t\t\t15\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c514ff7723bebd86675a6e"},"refKey":26},
{"_key":"60c514ff7723bebd86675a73","_id":"references/60c514ff7723bebd86675a73","_rev":"_cfFlgrW---","tei":"\n\t\n\t\tProtein and ligand preparation: Parameters, protocols, and influence on virtual screening enrichments\n\t\t\n\t\t\tGMSastry\n\t\t\n\t\t\n\t\t\tMAdzhigirey\n\t\t\n\t\t\n\t\t\tTDay\n\t\t\n\t\t\n\t\t\tRAnnabhimoju\n\t\t\n\t\t\n\t\t\tWSherman\n\t\t\n\t\t10.1007/s10822-013-9644-8\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\t\n\t\t\t27\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c514ff7723bebd86675a6e"},"refKey":28},
{"_key":"60c514ff7723bebd86675a74","_id":"references/60c514ff7723bebd86675a74","_rev":"_cfFlgri---","tei":"\n\t\n\t\tVirtual Screening Based Prediction of Potential Drugs for COVID-19\n\t\t\n\t\t\tSTalluri\n\t\t\n\t\t10.20944/preprints202002.0418.v2\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tPreprint\n\n","document":{"$oid":"60c514ff7723bebd86675a6e"},"refKey":30},
{"_key":"60c515017723bebd86675a87","_id":"references/60c515017723bebd86675a87","_rev":"_cfFlgru---","tei":"\n\t\n\t\tLLVM and Clang: Next generation compiler technology\n\t\t\n\t\t\tCLattner\n\t\t\n\t\n\t\n\t\tThe BSD Conference\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c515017723bebd86675a86"},"refKey":14},
{"_key":"60c515017723bebd86675a88","_id":"references/60c515017723bebd86675a88","_rev":"_cfFlgr6---","tei":"\n\t\n\t\tUltimate Automizer and the Search for Perfect Interpolants\n\t\t\n\t\t\tMatthiasHeizmann\n\t\t\n\t\t\n\t\t\tYu-FangChen\n\t\t\n\t\t\n\t\t\tDanielDietsch\n\t\t\n\t\t\n\t\t\tMariusGreitschus\n\t\t\n\t\t\n\t\t\tJochenHoenicke\n\t\t\n\t\t\n\t\t\tYongLi\n\t\t\n\t\t\n\t\t\tAlexanderNutz\n\t\t\n\t\t\n\t\t\tBetimMusa\n\t\t\n\t\t\n\t\t\tChristianSchilling\n\t\t\n\t\t\n\t\t\tTanjaSchindler\n\t\t\n\t\t\n\t\t\tAndreasPodelski\n\t\t\n\t\t10.1007/978-3-319-89963-3_30\n\t\t\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c515017723bebd86675a86"},"refKey":10},
{"_key":"60c515017723bebd86675a89","_id":"references/60c515017723bebd86675a89","_rev":"_cfFlgsG---","tei":"\n\t\n\t\tBoosting k-Induction with Continuously-Refined Invariants\n\t\t\n\t\t\tDirkBeyer\n\t\t\n\t\t\n\t\t\tMatthiasDangl\n\t\t\n\t\t\n\t\t\tPhilippWendler\n\t\t\n\t\t10.1007/978-3-319-21690-4_42\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c515017723bebd86675a86"},"refKey":4},
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{"_key":"60c515017723bebd86675a8b","_id":"references/60c515017723bebd86675a8b","_rev":"_cfFlgse---","tei":"\n\t\n\t\tStatic program analysis of large embedded code base\n\t\t\n\t\t\tShubhangiKhare\n\t\t\n\t\t\n\t\t\tSandeepSaraswat\n\t\t\n\t\t\n\t\t\tShrawanKumar\n\t\t\n\t\t10.1145/1953355.1953368\n\t\n\t\n\t\tProceedings of the 4th India Software Engineering Conference on - ISEC '11\n\t\t\t\tthe 4th India Software Engineering Conference on - ISEC '11\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c515017723bebd86675a86"},"refKey":12},
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{"_key":"60c5157e7723bebd86675b10","_id":"references/60c5157e7723bebd86675b10","_rev":"_cfFlguq---","tei":"\n\t\n\t\tGraph-based genome alignment and genotyping with HISAT2 and HISAT-genotype\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tJMPaggi\n\t\t\n\t\t\n\t\t\tCPark\n\t\t\n\t\t\n\t\t\tCBennett\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5157e7723bebd86675b0c"},"refKey":36},
{"_key":"60c515b47723bebd86675b43","_id":"references/60c515b47723bebd86675b43","_rev":"_cfFlguy---","tei":"\n\t\n\t\tFast Reverse-Mode Automatic Differentiation using Expression Templates in C++\n\t\t\n\t\t\tRobinJHogan\n\t\t\n\t\t10.1145/2560359\n\t\t\n\t\n\t\n\t\tACM Transactions on Mathematical Software\n\t\tACM Trans. Math. Softw.\n\t\t0098-3500\n\t\t\n\t\t\t40\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c515b47723bebd86675b42"},"refKey":6},
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{"_key":"60c515b47723bebd86675b46","_id":"references/60c515b47723bebd86675b46","_rev":"_cfFlgvW---","tei":"\n\t\n\t\tThe Stan Math Library: reverse-mode automatic differentiation in C++\n\t\t\n\t\t\tBCarpenter\n\t\t\n\t\t\n\t\t\tMDHoffman\n\t\t\n\t\t\n\t\t\tMBrubaker\n\t\t\n\t\t\n\t\t\tDLee\n\t\t\n\t\t\n\t\t\tPLi\n\t\t\n\t\t\n\t\t\tMBetancourt\n\t\t\n\t\tabs/1509.07164\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c515b47723bebd86675b42"},"refKey":1},
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{"_key":"60c516217723bebd86675be6","_id":"references/60c516217723bebd86675be6","_rev":"_cfFlgwy---","tei":"\n\t\n\t\tHigh Performance Molecular Simulations through Multi-Level Parallelism from Laptops to Supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSPáll\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tGromacs\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c516217723bebd86675be5"},"refKey":76},
{"_key":"60c516217723bebd86675be7","_id":"references/60c516217723bebd86675be7","_rev":"_cfFlgx----","tei":"\n\t\n\t\tScalable Molecular Dynamics with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tRBraun\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tJGumbart\n\t\t\n\t\t\n\t\t\tETajkhorshid\n\t\t\n\t\t\n\t\t\tEVilla\n\t\t\n\t\t\n\t\t\tCChipot\n\t\t\n\t\t\n\t\t\tRDSkeel\n\t\t\n\t\t\n\t\t\tLKalé\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c516217723bebd86675be5"},"refKey":66},
{"_key":"60c5164b7723bebd86675c02","_id":"references/60c5164b7723bebd86675c02","_rev":"_cfFlgxK---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJamesCPhillips\n\t\t\n\t\t\n\t\t\tRosemaryBraun\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tJamesGumbart\n\t\t\n\t\t\n\t\t\tEmadTajkhorshid\n\t\t\n\t\t\n\t\t\tElizabethVilla\n\t\t\n\t\t\n\t\t\tChristopheChipot\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tLaxmikantKalé\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1002/jcc.20289\n\t\t16222654\n\t\tPMC2486339\n\t\tark:/67375/WNG-4VV0NHGH-L\n\t\t9CA05D9586DF2A6CDED3A7F227C6C9CF046796F7\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":91},
{"_key":"60c5164b7723bebd86675c03","_id":"references/60c5164b7723bebd86675c03","_rev":"_cfFlgxW---","tei":"\n\t\n\t\tAutomated docking of flexible ligands: applications of AutoDock\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t10.1002/(SICI)1099-1352(199601)9:1<1::AID-JMR241>3.0.CO\n\t\n\t\n\t\tJ. Mol. Recognit\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":38},
{"_key":"60c5164b7723bebd86675c04","_id":"references/60c5164b7723bebd86675c04","_rev":"_cfFlgxi---","tei":"\n\t\n\t\tThe SWISS-MODEL workspace: a web-based environment for protein structure homology modelling\n\t\t\n\t\t\tKonstantinArnold\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tJürgenKopp\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\n\t\t10.1093/bioinformatics/bti770\n\t\t16301204\n\t\tark:/67375/HXZ-DQVT0R8C-2\n\t\t556F700B331B3ED919348043E6C498C8C0A6D424\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":0},
{"_key":"60c5164b7723bebd86675c05","_id":"references/60c5164b7723bebd86675c05","_rev":"_cfFlgxu---","tei":"\n\t\n\t\tCHARMMing: A New, Flexible Web Portal for CHARMM\n\t\t\n\t\t\tBenjaminTMiller\n\t\t\n\t\t\n\t\t\tRishiPSingh\n\t\t\n\t\t\n\t\t\tJefferyBKlauda\n\t\t\n\t\t\n\t\t\tMilanHodošček\n\t\t\n\t\t\n\t\t\tBernardRBrooks\n\t\t\n\t\t\n\t\t\tHLeeWoodcock\n\t\t\n\t\t10.1021/ci800133b\n\t\t18698840\n\t\tPMC2676146\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t48\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":76},
{"_key":"60c5164b7723bebd86675c06","_id":"references/60c5164b7723bebd86675c06","_rev":"_cfFlgx6---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":121},
{"_key":"60c5164b7723bebd86675c07","_id":"references/60c5164b7723bebd86675c07","_rev":"_cfFlgyG---","tei":"\n\t\n\t\tComparison of Protein Force Fields for Molecular Dynamics Simulations\n\t\t\n\t\t\tOlgunGuvench\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t10.1007/978-1-59745-177-2_4\n\t\t18446282\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t443\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":39},
{"_key":"60c5164b7723bebd86675c08","_id":"references/60c5164b7723bebd86675c08","_rev":"_cfFlgyS---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":78},
{"_key":"60c5164b7723bebd86675c09","_id":"references/60c5164b7723bebd86675c09","_rev":"_cfFlgye---","tei":"\n\t\n\t\tA Fast Flexible Docking Method using an Incremental Construction Algorithm\n\t\t\n\t\t\tMatthiasRarey\n\t\t\n\t\t\n\t\t\tBerndKramer\n\t\t\n\t\t\n\t\t\tThomasLengauer\n\t\t\n\t\t\n\t\t\tGerhardKlebe\n\t\t\n\t\t10.1006/jmbi.1996.0477\n\t\t8780787\n\t\tS0022-2836(96)90477-5\n\t\tark:/67375/6H6-KZF2QWF4-4\n\t\tF66F5BD4CAA28D99062DF70CF99157C7E2F4FDFD\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t261\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":96},
{"_key":"60c5164b7723bebd86675c0a","_id":"references/60c5164b7723bebd86675c0a","_rev":"_cfFlgyu---","tei":"\n\t\n\t\tAccurate modeling of protein conformation by automatic segment matching\n\t\t\n\t\t\tMichaelLevitt\n\t\t\n\t\t10.1016/0022-2836(92)90964-l\n\t\t1640463\n\t\t0022-2836(92)90964-L\n\t\tark:/67375/6H6-12JLM08X-7\n\t\t6BD8FDF91CE446658D7BB606CECD39E246E7E070\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t226\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":59},
{"_key":"60c5164b7723bebd86675c0b","_id":"references/60c5164b7723bebd86675c0b","_rev":"_cfFlgz----","tei":"\n\t\n\t\tDevelopment and validation of a genetic algorithm for flexible docking 1 1Edited by F. E. Cohen\n\t\t\n\t\t\tGarethJones\n\t\t\n\t\t\n\t\t\tPeterWillett\n\t\t\n\t\t\n\t\t\tRobertCGlen\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t\n\t\t\tRobinTaylor\n\t\t\n\t\t10.1006/jmbi.1996.0897\n\t\t9126849\n\t\tS0022-2836(96)90897-9\n\t\tark:/67375/6H6-GNV4R2V8-6\n\t\tEA7BD423E77C5C32200506C1F153E88DAD7A1E33\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t267\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":52},
{"_key":"60c5164b7723bebd86675c0c","_id":"references/60c5164b7723bebd86675c0c","_rev":"_cfFlgzO---","tei":"\n\t\n\t\tGROMACS: Fast, flexible, and free\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tGerritGroenhof\n\t\t\n\t\t\n\t\t\tAlanEMark\n\t\t\n\t\t\n\t\t\tHermanJ CBerendsen\n\t\t\n\t\t10.1002/jcc.20291\n\t\t16211538\n\t\tark:/67375/WNG-FZWKDCST-G\n\t\t1B9A91E56BE3B9919FC3D0665CD10F2EB65C307A\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":123},
{"_key":"60c5164b7723bebd86675c0d","_id":"references/60c5164b7723bebd86675c0d","_rev":"_cfFlgza---","tei":"\n\t\n\t\tMolecular dynamics insights into protein‐glycosaminoglycan systems from microsecond‐scale simulations\n\t\t\n\t\t\tKrzysztofKBojarski\n\t\t\n\t\t\n\t\t\tAdamKSieradzan\n\t\t\n\t\t\n\t\t\tSergeyASamsonov\n\t\t\t0000-0002-5166-4849\n\t\t\n\t\t10.1002/bip.23252\n\t\t30667535\n\t\n\t\n\t\tBiopolymers\n\t\tBiopolymers\n\t\t0006-3525\n\t\t1097-0282\n\t\t\n\t\t\t110\n\t\t\t7\n\t\t\te23252\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":8},
{"_key":"60c5164b7723bebd86675c0e","_id":"references/60c5164b7723bebd86675c0e","_rev":"_cfFlgzq---","tei":"\n\t\n\t\tCHARMM: The biomolecular simulation program\n\t\t\n\t\t\tBRBrooks\n\t\t\n\t\t\n\t\t\tCLBrooks\n\t\t\n\t\t\n\t\t\tADMackerellJr\n\t\t\n\t\t\n\t\t\tLNilsson\n\t\t\n\t\t\n\t\t\tRJPetrella\n\t\t\n\t\t\n\t\t\tBRoux\n\t\t\n\t\t\n\t\t\tYWon\n\t\t\n\t\t\n\t\t\tGArchontis\n\t\t\n\t\t\n\t\t\tCBartels\n\t\t\n\t\t\n\t\t\tSBoresch\n\t\t\n\t\t\n\t\t\tACaflisch\n\t\t\n\t\t\n\t\t\tLCaves\n\t\t\n\t\t\n\t\t\tQCui\n\t\t\n\t\t\n\t\t\tARDinner\n\t\t\n\t\t\n\t\t\tMFeig\n\t\t\n\t\t\n\t\t\tSFischer\n\t\t\n\t\t\n\t\t\tJGao\n\t\t\n\t\t\n\t\t\tMHodoscek\n\t\t\n\t\t\n\t\t\tWIm\n\t\t\n\t\t\n\t\t\tKKuczera\n\t\t\n\t\t\n\t\t\tTLazaridis\n\t\t\n\t\t\n\t\t\tJMa\n\t\t\n\t\t\n\t\t\tVOvchinnikov\n\t\t\n\t\t\n\t\t\tEPaci\n\t\t\n\t\t\n\t\t\tRWPastor\n\t\t\n\t\t\n\t\t\tCBPost\n\t\t\n\t\t\n\t\t\tJZPu\n\t\t\n\t\t\n\t\t\tMSchaefer\n\t\t\n\t\t\n\t\t\tBTidor\n\t\t\n\t\t\n\t\t\tRMVenable\n\t\t\n\t\t\n\t\t\tHLWoodcock\n\t\t\n\t\t\n\t\t\tXWu\n\t\t\n\t\t\n\t\t\tWYang\n\t\t\n\t\t\n\t\t\tDMYork\n\t\t\n\t\t\n\t\t\tMKarplus\n\t\t\n\t\t10.1002/jcc.21287\n\t\t19444816\n\t\tPMC2810661\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":11},
{"_key":"60c5164b7723bebd86675c0f","_id":"references/60c5164b7723bebd86675c0f","_rev":"_cfFlgz2---","tei":"\n\t\n\t\tUsing multiple structure alignments, fast model building, and energetic analysis in fold recognition and homology modeling\n\t\t\n\t\t\tDonaldPetrey\n\t\t\n\t\t\n\t\t\tZhexinXiang\n\t\t\n\t\t\n\t\t\tChristopherLTang\n\t\t\n\t\t\n\t\t\tLeiXie\n\t\t\n\t\t\n\t\t\tMarinaGimpelev\n\t\t\n\t\t\n\t\t\tThereseMitros\n\t\t\n\t\t\n\t\t\tCinqueSSoto\n\t\t\n\t\t\n\t\t\tSharonGoldsmith-Fischman\n\t\t\n\t\t\n\t\t\tAndrewKernytsky\n\t\t\n\t\t\n\t\t\tAvnerSchlessinger\n\t\t\n\t\t\n\t\t\tIngridY YKoh\n\t\t\n\t\t\n\t\t\tEmilAlexov\n\t\t\n\t\t\n\t\t\tBarryHonig\n\t\t\n\t\t10.1002/prot.10550\n\t\t14579332\n\t\tark:/67375/WNG-JDT5R5FB-M\n\t\tDEC6BE2D7BD9EC65791709290676646FCD95106D\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t53\n\t\t\tS6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tSuppl.6\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":90},
{"_key":"60c5164b7723bebd86675c10","_id":"references/60c5164b7723bebd86675c10","_rev":"_cfFlg0G---","tei":"\n\t\n\t\tGROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tCarstenKutzner\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1021/ct700301q\n\t\t26620784\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c5164b7723bebd86675c01"},"refKey":44},
{"_key":"60c516617723bebd86675c2a","_id":"references/60c516617723bebd86675c2a","_rev":"_cfFlg0S---","tei":"\n\t\n\t\tPresumed asymptomatic carrier transmission of covid-19\n\t\t\n\t\t\tYanBai\n\t\t\n\t\t\n\t\t\tLingshengYao\n\t\t\n\t\t\n\t\t\tTaoWei\n\t\t\n\t\t\n\t\t\tFeiTian\n\t\t\n\t\t\n\t\t\tDong-YanJin\n\t\t\n\t\t\n\t\t\tLijuanChen\n\t\t\n\t\t\n\t\t\tMeiyunWang\n\t\t\n\t\n\t\n\t\tJAMA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c516617723bebd86675c29"},"refKey":3},
{"_key":"60c5166f7723bebd86675c38","_id":"references/60c5166f7723bebd86675c38","_rev":"_cfFlg0i---","tei":"\n\t\n\t\tSimplifying decision trees\n\t\t\n\t\t\tJRQuinlan\n\t\t\n\t\t10.1006/ijhc.1987.0321\n\t\tS1071-5819(87)60321-6\n\t\tark:/67375/6H6-QGL7XPVF-K\n\t\t4F7322772288780559DCE73975610C4848227F32\n\t\t\n\t\n\t\n\t\tInternational Journal of Human-Computer Studies\n\t\tInternational Journal of Human-Computer Studies\n\t\t1071-5819\n\t\t\n\t\t\t51\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5166f7723bebd86675c37"},"refKey":14},
{"_key":"60c516857723bebd86675c47","_id":"references/60c516857723bebd86675c47","_rev":"_cfFlg0u---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRLanfear\n\t\t\n\t\t\n\t\t\tPBFrandsen\n\t\t\n\t\t\n\t\t\tAMWright\n\t\t\n\t\t\n\t\t\tTSenfeld\n\t\t\n\t\t\n\t\t\tBCalcott\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c516857723bebd86675c46"},"refKey":33},
{"_key":"60c5170c7723bebd86675cc2","_id":"references/60c5170c7723bebd86675cc2","_rev":"_cfFlg06---","tei":"\n\t\n\t\tIntroduction to Meta-analysis\n\t\t\n\t\t\tMBorenstein\n\t\t\n\t\t\n\t\t\tLVHedges\n\t\t\n\t\t\n\t\t\tJPHiggins\n\t\t\n\t\t\n\t\t\tHRRothstein\n\t\t\n\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons\n\t\t\n\t\n\n","document":{"$oid":"60c5170c7723bebd86675cc1"},"refKey":21},
{"_key":"60c5170c7723bebd86675cc3","_id":"references/60c5170c7723bebd86675cc3","_rev":"_cfFlg1G---","tei":"\n\t\n\t\tRandom-effects meta-analysis\n\t\t\n\t\t\tEKontopantelis\n\t\t\n\t\t\n\t\t\tDReeves\n\t\t\n\t\t\n\t\t\tMetaan\n\t\t\n\t\t10.1177/1536867X1001000307\n\t\tdoi:10.1177/ 1536867X1001000307\n\t\n\t\n\t\tStata J\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\t395\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5170c7723bebd86675cc1"},"refKey":22},
{"_key":"60c517287723bebd86675cd6","_id":"references/60c517287723bebd86675cd6","_rev":"_cfFlg1W---","tei":"\n\t\n\t\tArchitecture of the open-source clinical research chart from informatics for integrating biology and the bedside\n\t\t\n\t\t\tSNMurphy\n\t\t\n\t\t\n\t\t\tMEMendis\n\t\t\n\t\t\n\t\t\tKHackett\n\t\t\n\t\t\n\t\t\tRKuttan\n\t\t\n\t\t\n\t\t\tWPan\n\t\t\n\t\t\n\t\t\tLPhillips\n\t\t\n\t\t\n\t\t\tVSGainer\n\t\t\n\t\t\n\t\t\tDBerkowicz\n\t\t\n\t\t\n\t\t\tJGlaser\n\t\t\n\t\t\n\t\t\tISKohane\n\t\t\n\t\t\n\t\t\tHChueh\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tAMIA Annual Symposium Proceedings\n\n","document":{"$oid":"60c517287723bebd86675cd5"},"refKey":19},
{"_key":"60c5174e7723bebd86675ce4","_id":"references/60c5174e7723bebd86675ce4","_rev":"_cfFlg1i---","tei":"\n\t\n\t\tMEG A4: Molecular evolutionary genetics analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5174e7723bebd86675ce3"},"refKey":20},
{"_key":"60c517767723bebd86675cf9","_id":"references/60c517767723bebd86675cf9","_rev":"_cfFlg1u---","tei":"\n\t\n\t\tThe R0 package: a toolbox to estimate reproduction numbers for epidemic outbreaks. BMC medical informatics and decision making\n\t\t\n\t\t\tTObadia\n\t\t\n\t\t\n\t\t\tRHaneef\n\t\t\n\t\t\n\t\t\tBoe\n\t\t\n\t\t\n\t\t\tPy\n\t\t\n\t\t\n\t\t\t\n\t\t\t12\n\t\t\t147\n\t\t\n\t\n\n","document":{"$oid":"60c517767723bebd86675cf8"},"refKey":9},
{"_key":"60c517767723bebd86675cfa","_id":"references/60c517767723bebd86675cfa","_rev":"_cfFlg16---","tei":"\n\t\n\t\tIncidence Modelling-COVID19-Computational Workflow\n\t\t\n\t\t\tAMitra\n\t\t\n\t\t\n\t\t\tAPakhare\n\t\t\n\t\t\n\t\t\tAJoshi\n\t\t\n\t\t\n\t\t\tARoy\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517767723bebd86675cf8"},"refKey":11},
{"_key":"60c5177b7723bebd86675e2d","_id":"references/60c5177b7723bebd86675e2d","_rev":"_cfFlg2G---","tei":"\n\t\n\t\tOxMetrics: An interface to empirical modelling\n\t\t\n\t\t\tJADoornik\n\t\t\n\t\t\n\t\t\tDFHendry\n\t\t\n\t\t\n\t\t\t\n\t\t\tTimberlake Consultants Press\n\t\t\tLondon\n\t\t\n\t\n\t8th ed.\n\n","document":{"$oid":"60c5177b7723bebd86675e2c"},"refKey":16},
{"_key":"60c5177e7723bebd86675e33","_id":"references/60c5177e7723bebd86675e33","_rev":"_cfFlg2S---","tei":"\n\t\n\t\tYouTube as a source of information on COVID-19: a pandemic of misinformation?\n\t\t\n\t\t\tHOLi\n\t\t\n\t\t\n\t\t\tABailey\n\t\t\n\t\t\n\t\t\tDHuynh\n\t\t\n\t\t\n\t\t\tJChan\n\t\t\n\t\t10.1136/bmjgh-2020-002604\n\t\n\t\n\t\tBMJ Glob Health\n\t\t\n\t\t\t5\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\tFREE Full text. Medline: 32409327\n\n","document":{"$oid":"60c5177e7723bebd86675e32"},"refKey":35},
{"_key":"60c5177e7723bebd86675e34","_id":"references/60c5177e7723bebd86675e34","_rev":"_cfFlg2e---","tei":"\n\t\n\t\tThe role of YouTube and the entertainment industry in saving lives by educating and mobilizing the public to adopt behaviors for community mitigation of COVID-19: successive sampling design study. JMIR Public Health Surveill\n\t\t\n\t\t\tCEBasch\n\t\t\n\t\t\n\t\t\tCHBasch\n\t\t\n\t\t\n\t\t\tGCHillyer\n\t\t\n\t\t\n\t\t\tCJaime\n\t\t\n\t\t10.2196/19145\n\t\t\n\t\t\t\n\t\t\t6\n\t\t\te19145\n\t\t\n\t\n\tFREE Full text. Medline: 32297593\n\n","document":{"$oid":"60c5177e7723bebd86675e32"},"refKey":36},
{"_key":"60c5177e7723bebd86675e35","_id":"references/60c5177e7723bebd86675e35","_rev":"_cfFlg2q---","tei":"\n\t\n\t\tPreventive behaviors conveyed on YouTube to mitigate transmission of COVID-19: cross-sectional study. JMIR Public Health Surveill\n\t\t\n\t\t\tCBasch\n\t\t\n\t\t\n\t\t\tGHillyer\n\t\t\n\t\t\n\t\t\tZMeleo-Erwin\n\t\t\n\t\t\n\t\t\tCJaime\n\t\t\n\t\t\n\t\t\tJMohlman\n\t\t\n\t\t\n\t\t\tCBasch\n\t\t\n\t\t10.2196/18807\n\t\t\n\t\t\t\n\t\t\t6\n\t\t\te18807\n\t\t\n\t\n\tFREE Full text. Medline: 32240096\n\n","document":{"$oid":"60c5177e7723bebd86675e32"},"refKey":37},
{"_key":"60c5177e7723bebd86675e36","_id":"references/60c5177e7723bebd86675e36","_rev":"_cfFlg22---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDomainApis\n\t\t\n\t\t\n\t\t\tWebshrinker\n\t\t\n\t\t2020-10-16\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5177e7723bebd86675e32"},"refKey":54},
{"_key":"60c5177f7723bebd86675e74","_id":"references/60c5177f7723bebd86675e74","_rev":"_cfFlg3C---","tei":"\n\t\n\t\tWall-based measurement features provides an improved IVUS coronary artery risk assessment when fused with plaque texture-based features during machine learning paradigm\n\t\t\n\t\t\tSumitKBanchhor\n\t\t\n\t\t\n\t\t\tNarendraDLondhe\n\t\t\n\t\t\n\t\t\tTadashiAraki\n\t\t\n\t\t\n\t\t\tLucaSaba\n\t\t\n\t\t\n\t\t\tPetiaRadeva\n\t\t\n\t\t\n\t\t\tJohnRLaird\n\t\t\n\t\t\n\t\t\tJasjitSSuri\n\t\t\n\t\t10.1016/j.compbiomed.2017.10.019\n\t\t29100114\n\t\n\t\n\t\tComputers in Biology and Medicine\n\t\tComputers in Biology and Medicine\n\t\t0010-4825\n\t\t\n\t\t\t91\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5177f7723bebd86675e73"},"refKey":16},
{"_key":"60c5177f7723bebd86675e75","_id":"references/60c5177f7723bebd86675e75","_rev":"_cfFlg3O---","tei":"\n\t\n\t\tCan Carotid Bulb Plaque Assessment Rule Out Significant Coronary Artery Disease? A Comparison of Plaque Quantification by Two- and Three-Dimensional Ultrasound\n\t\t\n\t\t\tAmerMJohri\n\t\t\n\t\t\n\t\t\tDavidWChitty\n\t\t\n\t\t\n\t\t\tMurrayMatangi\n\t\t\n\t\t\n\t\t\tPaulMalik\n\t\t\n\t\t\n\t\t\tParvinMousavi\n\t\t\n\t\t\n\t\t\tAndrewDay\n\t\t\n\t\t\n\t\t\tMatthewGravett\n\t\t\n\t\t\n\t\t\tChrisSimpson\n\t\t\n\t\t10.1016/j.echo.2012.09.005\n\t\t23084880\n\t\n\t\n\t\tJournal of the American Society of Echocardiography\n\t\tJournal of the American Society of Echocardiography\n\t\t0894-7317\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5177f7723bebd86675e73"},"refKey":93},
{"_key":"60c5177f7723bebd86675e76","_id":"references/60c5177f7723bebd86675e76","_rev":"_cfFlg3a---","tei":"\n\t\n\t\tThe relationship of erectile dysfunction and subclinical cardiovascular disease: A systematic review and meta-analysis\n\t\t\n\t\t\tChukwuemekaUOsondu\n\t\t\n\t\t\n\t\t\tBryanVo\n\t\t\n\t\t\n\t\t\tEbenezerTOni\n\t\t\n\t\t\n\t\t\tMichaelJBlaha\n\t\t\n\t\t\n\t\t\tEmirVeledar\n\t\t\n\t\t\n\t\t\tTheodoreFeldman\n\t\t\n\t\t\n\t\t\tArthurSAgatston\n\t\t\n\t\t\n\t\t\tKhurramNasir\n\t\t\n\t\t\n\t\t\tEhimenCAneni\n\t\t\n\t\t10.1177/1358863x17725809\n\t\t29243995\n\t\t\n\t\n\t\n\t\tVascular Medicine\n\t\tVasc Med\n\t\t1358-863X\n\t\t1477-0377\n\t\t\n\t\t\t23\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c5177f7723bebd86675e73"},"refKey":137},
{"_key":"60c517987723bebd86675e85","_id":"references/60c517987723bebd86675e85","_rev":"_cfFlg3m---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGithub\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517987723bebd86675e84"},"refKey":14},
{"_key":"60c517987723bebd86675e86","_id":"references/60c517987723bebd86675e86","_rev":"_cfFlg3y---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517987723bebd86675e84"},"refKey":15},
{"_key":"60c517bf7723bebd86675e98","_id":"references/60c517bf7723bebd86675e98","_rev":"_cfFlg4----","tei":"\n\t\n\t\tA method and server for predicting damaging missense mutations\n\t\t\n\t\t\tIAAdzhubei\n\t\t\n\t\t\n\t\t\tSSchmidt\n\t\t\n\t\t\n\t\t\tLPeshkin\n\t\t\n\t\t\n\t\t\tVERamensky\n\t\t\n\t\t\n\t\t\tAGerasimova\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t\n\t\t\tASKondrashov\n\t\t\n\t\t\n\t\t\tSRSunyaev\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517bf7723bebd86675e97"},"refKey":0},
{"_key":"60c517bf7723bebd86675e99","_id":"references/60c517bf7723bebd86675e99","_rev":"_cfFlg4K---","tei":"\n\t\n\t\tRecognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517bf7723bebd86675e97"},"refKey":54},
{"_key":"60c517bf7723bebd86675e9a","_id":"references/60c517bf7723bebd86675e9a","_rev":"_cfFlg4S---","tei":"\n\t\n\t\tProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMWiederstein\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517bf7723bebd86675e97"},"refKey":61},
{"_key":"60c517bf7723bebd86675e9b","_id":"references/60c517bf7723bebd86675e9b","_rev":"_cfFlg4e---","tei":"\n\t\n\t\tDnaSP v5: a software for comprehensive analysis of DNA polymorphism data\n\t\t\n\t\t\tPLibrado\n\t\t\n\t\t\n\t\t\tJRozas\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517bf7723bebd86675e97"},"refKey":40},
{"_key":"60c517bf7723bebd86675e9c","_id":"references/60c517bf7723bebd86675e9c","_rev":"_cfFlg4q---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517bf7723bebd86675e97"},"refKey":58},
{"_key":"60c517bf7723bebd86675e9d","_id":"references/60c517bf7723bebd86675e9d","_rev":"_cfFlg42---","tei":"\n\t\n\t\tVERIFY3D: assessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\t\n\t\t\tRLuthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t277\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517bf7723bebd86675e97"},"refKey":14},
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{"_key":"60c517d07723bebd86675ecc","_id":"references/60c517d07723bebd86675ecc","_rev":"_cfFlg5O---","tei":"\n\t\n\t\tSoftware Review: Borenstein, M., Hedges, L. V., Higgins, J. P. T., & Rothstein, H. R. (2006). Comprehensive Meta-Analysis (Version 2.2.027) [Computer software]. Englewood, NJ: Biostat\n\t\t\n\t\t\tCa ; MPierce\n\t\t\n\t\t\n\t\t\tLVHedges\n\t\t\n\t\t\n\t\t\tJP THiggins\n\t\t\n\t\t\n\t\t\tHRRothstein\n\t\t\n\t\t10.1177/1094428106296641\n\t\tark:/67375/M70-53743940-B\n\t\t660D78D98C304537B97548A0A557CB098E92D50C\n\t\n\t\n\t\tOrganizational Research Methods\n\t\tOrganizational Research Methods\n\t\t1094-4281\n\t\t1552-7425\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\tComprehensive Meta-Analysis. Version 2.2.027) [Computer software\n\n","document":{"$oid":"60c517d07723bebd86675ecb"},"refKey":9},
{"_key":"60c517d37723bebd86675ed4","_id":"references/60c517d37723bebd86675ed4","_rev":"_cfFlg5a---","tei":"\n\t\n\t\tVirusDetect: An automated pipeline for efficient virus discovery using deep sequencing of small RNAs\n\t\t\n\t\t\tYiZheng\n\t\t\n\t\t\n\t\t\tShanGao\n\t\t\n\t\t\n\t\t\tChellappanPadmanabhan\n\t\t\n\t\t\n\t\t\tRugangLi\n\t\t\n\t\t\n\t\t\tMarcoGalvez\n\t\t\n\t\t\n\t\t\tDinaGutierrez\n\t\t\n\t\t\n\t\t\tSegundoFuentes\n\t\t\n\t\t\n\t\t\tKai-ShuLing\n\t\t\n\t\t\n\t\t\tJanKreuze\n\t\t\n\t\t\n\t\t\tZhangjunFei\n\t\t\n\t\t10.1016/j.virol.2016.10.017\n\t\t27825033\n\t\t\n\t\n\t\n\t\tVirology\n\t\tVirology\n\t\t0042-6822\n\t\t\n\t\t\t500\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c517d37723bebd86675ed3"},"refKey":24},
{"_key":"60c517d37723bebd86675ed5","_id":"references/60c517d37723bebd86675ed5","_rev":"_cfFlg5m---","tei":"\n\t\n\t\tFastq_clean: An optimized pipeline to clean the Illumina sequencing data with quality control\n\t\t\n\t\t\tMiZhang\n\t\t\n\t\t\n\t\t\tHongheSun\n\t\t\n\t\t\n\t\t\tZhangjunFei\n\t\t\n\t\t\n\t\t\tFengZhan\n\t\t\n\t\t\n\t\t\tXiujunGong\n\t\t\n\t\t\n\t\t\tShanGao\n\t\t\n\t\t10.1109/bibm.2014.6999309\n\t\t\n\t\n\t\n\t\t2014 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)\n\t\t\t\tBelfast\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t2014\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517d37723bebd86675ed3"},"refKey":23},
{"_key":"60c517d37723bebd86675ed6","_id":"references/60c517d37723bebd86675ed6","_rev":"_cfFlg5u---","tei":"\n\t\n\t\tFast Program for Clustering and Comparing Large Sets of Protein or Nucleotide Sequences\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1007/978-1-4899-7478-5_221\n\t\t\n\t\n\t\n\t\tEncyclopedia of Metagenomics\n\t\t\t\t\n\t\t\tSpringer US\n\t\t\t\n\t\t\t22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c517d37723bebd86675ed3"},"refKey":20},
{"_key":"60c517d37723bebd86675ed7","_id":"references/60c517d37723bebd86675ed7","_rev":"_cfFlg56---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c517d37723bebd86675ed3"},"refKey":21},
{"_key":"60c517d37723bebd86675ed8","_id":"references/60c517d37723bebd86675ed8","_rev":"_cfFlg6G---","tei":"\n\t\n\t\tMEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t10.1093/bib/bbn017\n\t\t18417537\n\t\tPMC2562624\n\t\t\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c517d37723bebd86675ed3"},"refKey":22},
{"_key":"60c517d47723bebd86675ee2","_id":"references/60c517d47723bebd86675ee2","_rev":"_cfFlg6S---","tei":"\n\t\n\t\tAccessible High-Throughput Virtual Screening Molecular Docking Software for Students and Educators\n\t\t\n\t\t\tReedBJacob\n\t\t\n\t\t\n\t\t\tTimAndersen\n\t\t\n\t\t\n\t\t\tOwenMMcdougal\n\t\t\n\t\t10.1371/journal.pcbi.1002499\n\t\t22693435\n\t\tPMC3364939\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t8\n\t\t\t5\n\t\t\te1002499\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c517d47723bebd86675ee1"},"refKey":95},
{"_key":"60c517e37723bebd86675ee9","_id":"references/60c517e37723bebd86675ee9","_rev":"_cfFlg6e---","tei":"\n\t\n\t\tStatistical notes for clinical researchers: logistic regression\n\t\t\n\t\t\tHae-YoungYKim\n\t\t\t0000-0003-2043-2575\n\t\t\n\t\t10.5395/rde.2017.42.4.342\n\t\t29142883\n\t\tPMC5682151\n\t\n\t\n\t\tRestorative Dentistry & Endodontics\n\t\tRestor Dent Endod\n\t\t2234-7658\n\t\t2234-7666\n\t\t\n\t\t\t42\n\t\t\t4\n\t\t\t342\n\t\t\t\n\t\t\tThe Korean Academy of Conservative Dentistry (KAMJE)\n\t\t\n\t\n\n","document":{"$oid":"60c517e37723bebd86675ee8"},"refKey":2},
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{"_key":"60c5187f7723bebd86675f16","_id":"references/60c5187f7723bebd86675f16","_rev":"_cfFlg62---","tei":"\n\t\n\t\tA storm is coming: A modern probabilistic model checker\n\t\t\n\t\t\tChristianDehnert\n\t\t\n\t\t\n\t\t\tSebastianJunges\n\t\t\n\t\t\n\t\t\tJoost-PieterKatoen\n\t\t\n\t\t\n\t\t\tMatthiasVolk\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5187f7723bebd86675f15"},"refKey":17},
{"_key":"60c518957723bebd86675f2a","_id":"references/60c518957723bebd86675f2a","_rev":"_cfFlg7C---","tei":"\n\t\n\t\tJuicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom\n\t\t\n\t\t\tNevaCDurand\n\t\t\n\t\t\n\t\t\tJamesTRobinson\n\t\t\n\t\t\n\t\t\tMuhammadSShamim\n\t\t\n\t\t\n\t\t\tIdoMachol\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t\n\t\t\tEricSLander\n\t\t\n\t\t\n\t\t\tErezLiebermanAiden\n\t\t\n\t\t10.1016/j.cels.2015.07.012\n\t\t27467250\n\t\tPMC5596920\n\t\t\n\t\n\t\n\t\tCell Systems\n\t\tCell Systems\n\t\t2405-4712\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c518957723bebd86675f29"},"refKey":29},
{"_key":"60c518957723bebd86675f2b","_id":"references/60c518957723bebd86675f2b","_rev":"_cfFlg7O---","tei":"\n\t\n\t\tHiGlass: Web-based Visual Exploration and Analysis of Genome Interaction Maps\n\t\t\n\t\t\tPeterKerpedjiev\n\t\t\t0000-0002-0454-1803\n\t\t\n\t\t\n\t\t\tNezarAbdennur\n\t\t\t0000-0001-5814-0864\n\t\t\n\t\t\n\t\t\tFritzLekschas\n\t\t\t0000-0001-8432-4835\n\t\t\n\t\t\n\t\t\tChuckMccallum\n\t\t\t0000-0003-4039-9768\n\t\t\n\t\t\n\t\t\tKasperDinkla\n\t\t\n\t\t\n\t\t\tHendrikStrobelt\n\t\t\n\t\t\n\t\t\tJacobMLuber\n\t\t\t0000-0001-5268-5732\n\t\t\n\t\t\n\t\t\tScottOuellette\n\t\t\n\t\t\n\t\t\tAlalehAzhir\n\t\t\n\t\t\n\t\t\tNikhilKumar\n\t\t\n\t\t\n\t\t\tJeewonHwang\n\t\t\n\t\t\n\t\t\tSoohyunLee\n\t\t\n\t\t\n\t\t\tBurakHAlver\n\t\t\t0000-0002-5019-7652\n\t\t\n\t\t\n\t\t\tHanspeterPfister\n\t\t\t0000-0002-3620-2582\n\t\t\n\t\t\n\t\t\tLeonidAMirny\n\t\t\t0000-0002-0785-5410\n\t\t\n\t\t\n\t\t\tPeterJPark\n\t\t\t0000-0001-9378-960X\n\t\t\n\t\t\n\t\t\tNilsGehlenborg\n\t\t\t0000-0003-0327-8297\n\t\t\n\t\t10.1101/121889\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t19\n\t\t\t125\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c518957723bebd86675f29"},"refKey":17},
{"_key":"60c518957723bebd86675f2c","_id":"references/60c518957723bebd86675f2c","_rev":"_cfFlg7a---","tei":"\n\t\n\t\tJuicebox.js provides a cloud-based visualization system for Hi-C data\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tDouglassTurner\n\t\t\n\t\t\n\t\t\tNevaCDurand\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t\n\t\t\tErezLiebermanAiden\n\t\t\n\t\t10.1101/205740\n\t\t\n\t\n\t\n\t\tCell Syst\n\t\t\n\t\t\t6\n\t\t\te1\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c518957723bebd86675f29"},"refKey":16},
{"_key":"60c518957723bebd86675f2d","_id":"references/60c518957723bebd86675f2d","_rev":"_cfFlg7m---","tei":"\n\t\n\t\tBEDTools: A flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c518957723bebd86675f29"},"refKey":31},
{"_key":"60c518957723bebd86675f2e","_id":"references/60c518957723bebd86675f2e","_rev":"_cfFlg7y---","tei":"\n\t\n\t\tExploring long-range genome interactions using the WashU Epigenome Browser\n\t\t\n\t\t\tXinZhou\n\t\t\n\t\t\n\t\t\tRebeccaFLowdon\n\t\t\n\t\t\n\t\t\tDaofengLi\n\t\t\n\t\t\n\t\t\tHeatherALawson\n\t\t\n\t\t\n\t\t\tPamelaA FMadden\n\t\t\n\t\t\n\t\t\tJosephFCostello\n\t\t\n\t\t\n\t\t\tTingWang\n\t\t\n\t\t10.1038/nmeth.2440\n\t\t23629413\n\t\tPMC3820286\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t10\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c518957723bebd86675f29"},"refKey":18},
{"_key":"60c518957723bebd86675f2f","_id":"references/60c518957723bebd86675f2f","_rev":"_cfFlg8----","tei":"\n\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tFSong\n\t\t\n\t\t\n\t\t\tBZhang\n\t\t\n\t\t\n\t\t\tLZhang\n\t\t\n\t\t\n\t\t\tJXu\n\t\t\n\t\t\n\t\t\tDKuang\n\t\t\n\t\t\n\t\t\tDLi\n\t\t\n\t\t\n\t\t\tMN KChoudhary\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tMHu\n\t\t\n\t\t\n\t\t\tRHardison\n\t\t\n\t\t\n\t\t\tTWang\n\t\t\n\t\t\n\t\t\tFYue\n\t\t\n\t\tThe 3D Genome Browser: A web-based browser for visualizing 3D genome organization and long-range chromatin interactions\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c518957723bebd86675f29"},"refKey":19},
{"_key":"60c518957723bebd86675f30","_id":"references/60c518957723bebd86675f30","_rev":"_cfFlg8G---","tei":"\n\t\n\t\tMango: a bias-correcting ChIA-PET analysis pipeline\n\t\t\n\t\t\tDouglasHPhanstiel\n\t\t\n\t\t\n\t\t\tAlanPBoyle\n\t\t\n\t\t\n\t\t\tNastaranHeidari\n\t\t\n\t\t\n\t\t\tMichaelPSnyder\n\t\t\n\t\t10.1093/bioinformatics/btv336\n\t\t26034063\n\t\tPMC4592333\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c518957723bebd86675f29"},"refKey":12},
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{"_key":"60c518ac7723bebd86675f93","_id":"references/60c518ac7723bebd86675f93","_rev":"_cfFlg8e---","tei":"\n\t\n\t\tComplex heatmaps reveal patterns and correlations in multidimensional genomic data\n\t\t\n\t\t\tZGu\n\t\t\n\t\t\n\t\t\tREils\n\t\t\n\t\t\n\t\t\tMSchlesner\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c518ac7723bebd86675f92"},"refKey":37},
{"_key":"60c518ac7723bebd86675f94","_id":"references/60c518ac7723bebd86675f94","_rev":"_cfFlg8q---","tei":"\n\t\n\t\tggtree : an r package for visualization and annotation of phylogenetic trees with their covariates and other associated data\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tDKSmith\n\t\t\n\t\t\n\t\t\tHZhu\n\t\t\n\t\t\n\t\t\tYGuan\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\t.-Y\n\t\t\n\t\n\t\n\t\tMethods Ecol. Evol\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c518ac7723bebd86675f92"},"refKey":35},
{"_key":"60c518ac7723bebd86675f95","_id":"references/60c518ac7723bebd86675f95","_rev":"_cfFlg86---","tei":"\n\t\n\t\tTreeShrink: fast and accurate detection of outlier long branches in collections of phylogenetic trees\n\t\t\n\t\t\tUyenMai\n\t\t\n\t\t\n\t\t\tSiavashMirarab\n\t\t\n\t\t10.1186/s12864-018-4620-2\n\t\t29745847\n\t\tPMC5998883\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t19\n\t\t\tS5\n\t\t\t272\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c518ac7723bebd86675f92"},"refKey":33},
{"_key":"60c518ce7723bebd86675fae","_id":"references/60c518ce7723bebd86675fae","_rev":"_cfFlg9G---","tei":"\n\t\n\t\tPhmon: a programmable hardware monitor and its security use cases\n\t\t\n\t\t\tLDelshadtehrani\n\t\t\n\t\t\n\t\t\tSCanakci\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tSEldridge\n\t\t\n\t\t\n\t\t\tAJoshi\n\t\t\n\t\t\n\t\t\tMEgele\n\t\t\n\t\n\t\n\t\tProceedings of the USENIX Security Symposium\n\t\t\t\tthe USENIX Security Symposium\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c518ce7723bebd86675fad"},"refKey":14},
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{"_key":"60c518ce7723bebd86675fb0","_id":"references/60c518ce7723bebd86675fb0","_rev":"_cfFlg9e---","tei":"\n\t\n\t\tCFIMon: detecting violation of control flow integrity using performance counters\n\t\t\n\t\t\tYXia\n\t\t\n\t\t\n\t\t\tYLiu\n\t\t\n\t\t\n\t\t\tHChen\n\t\t\n\t\t\n\t\t\tBZang\n\t\t\n\t\n\t\n\t\tIEEE/IFIP International Conference on Dependable Systems and Networks\n\t\t\t\t\n\t\t\tDSN\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c518ce7723bebd86675fad"},"refKey":37},
{"_key":"60c518ce7723bebd86675fb1","_id":"references/60c518ce7723bebd86675fb1","_rev":"_cfFlg9u---","tei":"\n\t\n\t\tHAFIX: hardware-assisted flow integrity extension\n\t\t\n\t\t\tLDavi\n\t\t\n\t\n\t\n\t\tProceedings of the Design Automation Conference\n\t\t\t\tthe Design Automation Conference\n\t\t\n\t\t\tDAC\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c518ce7723bebd86675fad"},"refKey":12},
{"_key":"60c518ce7723bebd86675fb2","_id":"references/60c518ce7723bebd86675fb2","_rev":"_cfFlg96---","tei":"\n\t\n\t\tEfficient protection of path-sensitive control security\n\t\t\n\t\t\tRDing\n\t\t\n\t\t\n\t\t\tCQian\n\t\t\n\t\t\n\t\t\tCSong\n\t\t\n\t\t\n\t\t\tBHarris\n\t\t\n\t\t\n\t\t\tTKim\n\t\t\n\t\t\n\t\t\tWLee\n\t\t\n\t\n\t\n\t\tProceedings of the USENIX Security Symposium\n\t\t\t\tthe USENIX Security Symposium\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c518ce7723bebd86675fad"},"refKey":15},
{"_key":"60c518d57723bebd86675fc3","_id":"references/60c518d57723bebd86675fc3","_rev":"_cfFlh-G---","tei":"\n\t\n\t\tSwissADME: a free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules\n\t\t\n\t\t\tAntoineDaina\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t10.1038/srep42717\n\t\t28256516\n\t\tPMC5335600\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c518d57723bebd86675fc2"},"refKey":22},
{"_key":"60c5191a7723bebd86675fea","_id":"references/60c5191a7723bebd86675fea","_rev":"_cfFlh-W---","tei":"\n\t\n\t\tUClncR: Ultrafast and comprehensive long non-coding RNA detection from RNA-seq\n\t\t\n\t\t\tZhifuSun\n\t\t\t0000-0001-8461-7523\n\t\t\n\t\t\n\t\t\tAshaNair\n\t\t\n\t\t\n\t\t\tXianfengChen\n\t\t\t0000-0002-7531-5862\n\t\t\n\t\t\n\t\t\tNareshProdduturi\n\t\t\n\t\t\n\t\t\tJunwenWang\n\t\t\n\t\t\n\t\t\tJean-PierreKocher\n\t\t\n\t\t10.1038/s41598-017-14595-3\n\t\t29079769\n\t\tPMC5660178\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSci. Rep. 2017, 7, 14196. [CrossRef\n\n","document":{"$oid":"60c5191a7723bebd86675fe9"},"refKey":28},
{"_key":"60c519227723bebd86675ffc","_id":"references/60c519227723bebd86675ffc","_rev":"_cfFlh-i---","tei":"\n\t\n\t\tSide-chain-directed model and map validation for 3D Electron Cryomicroscopy\n\t\t\n\t\t\tBenjaminABarad\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\n\t\t10.1101/014738\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c519227723bebd86675ffb"},"refKey":3},
{"_key":"60c519227723bebd86675ffd","_id":"references/60c519227723bebd86675ffd","_rev":"_cfFlh-y---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c519227723bebd86675ffb"},"refKey":43},
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{"_key":"60c519457723bebd86676024","_id":"references/60c519457723bebd86676024","_rev":"_cfFlh_q---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.2011.75\n\t\t21988835\n\t\tPMC3261699\n\t\t\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMolecular Systems Biology\n\t\t1744-4292\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c519457723bebd86676023"},"refKey":43},
{"_key":"60c519457723bebd86676025","_id":"references/60c519457723bebd86676025","_rev":"_cfFlh_6---","tei":"\n\t\n\t\tProcessing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\t10.1016/S0076-6879\n\t\t\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\n\t\t\t97\n\t\t\t76066\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c519457723bebd86676023"},"refKey":37},
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{"_key":"60c5194c7723bebd86676039","_id":"references/60c5194c7723bebd86676039","_rev":"_cfFlhAS---","tei":"\n\t\n\t\tDistributed representations of sentences and documents\n\t\t\n\t\t\tQVLe\n\t\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\n\t\n\t\tICML\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5194c7723bebd86676038"},"refKey":9},
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{"_key":"60c51a0a7723bebd86676099","_id":"references/60c51a0a7723bebd86676099","_rev":"_cfFlhBq---","tei":"\n\t\n\t\tGenome-wide analysis of drosophila circular RNAs reveals their structural and sequence properties and age-dependent neural accumulation\n\t\t\n\t\t\tJOWestholm\n\t\t\n\t\t\n\t\t\tPMiura\n\t\t\n\t\t\n\t\t\tSOlson\n\t\t\n\t\n\t\n\t\tCell Rep\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51a0a7723bebd86676096"},"refKey":34},
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{"_key":"60c51a0a7723bebd8667609b","_id":"references/60c51a0a7723bebd8667609b","_rev":"_cfFlhCC---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51a0a7723bebd86676096"},"refKey":42},
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{"_key":"60c51a287723bebd866760d6","_id":"references/60c51a287723bebd866760d6","_rev":"_cfFlhC6---","tei":"\n\t\n\t\tTM4: a free, open-source system for microarray data management and analysis\n\t\t\n\t\t\tAISaeed\n\t\t\n\t\t\n\t\t\tVSharov\n\t\t\n\t\t\n\t\t\tJWhite\n\t\t\n\t\t\n\t\t\tJLi\n\t\t\n\t\t\n\t\t\tWLiang\n\t\t\n\t\t\n\t\t\tNBhagabati\n\t\t\n\t\t\n\t\t\tJBraisted\n\t\t\n\t\t\n\t\t\tMKlapa\n\t\t\n\t\t\n\t\t\tTCurrier\n\t\t\n\t\t\n\t\t\tMThiagarajan\n\t\t\n\t\t\n\t\t\tASturn\n\t\t\n\t\t\n\t\t\tMSnuffin\n\t\t\n\t\t\n\t\t\tARezantsev\n\t\t\n\t\t\n\t\t\tDPopov\n\t\t\n\t\t\n\t\t\tARyltsov\n\t\t\n\t\t\n\t\t\tEKostukovich\n\t\t\n\t\t\n\t\t\tIBorisovsky\n\t\t\n\t\t\n\t\t\tZLiu\n\t\t\n\t\t\n\t\t\tAVinsavich\n\t\t\n\t\t\n\t\t\tVTrush\n\t\t\n\t\t\n\t\t\tJQuackenbush\n\t\t\n\t\n\t\n\t\tBiotechniques\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51a287723bebd866760d5"},"refKey":37},
{"_key":"60c51a3d7723bebd866760e6","_id":"references/60c51a3d7723bebd866760e6","_rev":"_cfFlhDG---","tei":"\n\t\n\t\tAssessment of contact predictions in CASP12: Co-evolution and deep learning coming of age\n\t\t\n\t\t\tJoergSchaarschmidt\n\t\t\t0000-0002-4389-2366\n\t\t\n\t\t\n\t\t\tBohdanMonastyrskyy\n\t\t\n\t\t\n\t\t\tAndriyKryshtafovych\n\t\t\t0000-0001-5066-7178\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\t0000-0001-7369-1322\n\t\t\n\t\t10.1002/prot.25407\n\t\t29071738\n\t\tPMC5820169\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t86\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c51a3d7723bebd866760e5"},"refKey":36},
{"_key":"60c51a3d7723bebd866760e7","_id":"references/60c51a3d7723bebd866760e7","_rev":"_cfFlhDS---","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\t\n\t\n\t\n\t\tNat Met\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c51a3d7723bebd866760e5"},"refKey":49},
{"_key":"60c51a3d7723bebd866760e8","_id":"references/60c51a3d7723bebd866760e8","_rev":"_cfFlhDe---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51a3d7723bebd866760e5"},"refKey":30},
{"_key":"60c51a3d7723bebd866760e9","_id":"references/60c51a3d7723bebd866760e9","_rev":"_cfFlhDq---","tei":"\n\t\n\t\tModBase, a database of annotated comparative protein structure models and associated resources\n\t\t\n\t\t\tUrsulaPieper\n\t\t\n\t\t\n\t\t\tBenjaminMWebb\n\t\t\n\t\t\n\t\t\tGuangQiangDong\n\t\t\n\t\t\n\t\t\tDinaSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tHaoFan\n\t\t\n\t\t\n\t\t\tSeungJoongKim\n\t\t\n\t\t\n\t\t\tNataliaKhuri\n\t\t\n\t\t\n\t\t\tYannickGSpill\n\t\t\n\t\t\n\t\t\tPatrickWeinkam\n\t\t\n\t\t\n\t\t\tMichalHammel\n\t\t\n\t\t\n\t\t\tJohnATainer\n\t\t\n\t\t\n\t\t\tMichaelNilges\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1093/nar/gkt1144\n\t\t24271400\n\t\tPMC3965011\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl. Acids Res.\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c51a3d7723bebd866760e5"},"refKey":31},
{"_key":"60c51a707723bebd86676130","_id":"references/60c51a707723bebd86676130","_rev":"_cfFlhDy---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51a707723bebd8667612f"},"refKey":47},
{"_key":"60c51a707723bebd86676131","_id":"references/60c51a707723bebd86676131","_rev":"_cfFlhE----","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\n\t\n\t\tFly (Austin)\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51a707723bebd8667612f"},"refKey":83},
{"_key":"60c51a707723bebd86676132","_id":"references/60c51a707723bebd86676132","_rev":"_cfFlhEK---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51a707723bebd8667612f"},"refKey":81},
{"_key":"60c51a997723bebd8667615d","_id":"references/60c51a997723bebd8667615d","_rev":"_cfFlhEa---","tei":"\n\t\n\t\tCD-HIT: accelerated for clustering the next-generation sequencing data\n\t\t\n\t\t\tLiminFu\n\t\t\n\t\t\n\t\t\tBeifangNiu\n\t\t\n\t\t\n\t\t\tZhengweiZhu\n\t\t\n\t\t\n\t\t\tSitaoWu\n\t\t\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51a997723bebd8667615c"},"refKey":24},
{"_key":"60c51ae27723bebd8667617d","_id":"references/60c51ae27723bebd8667617d","_rev":"_cfFlhEm---","tei":"\n\t\n\t\tSemi-Supervised Methods to Predict Patient Survival from Gene Expression Data\n\t\t\n\t\t\tEricBair\n\t\t\n\t\t\n\t\t\tRobertTibshirani\n\t\t\n\t\t10.1371/journal.pbio.0020108\n\t\t15094809\n\t\tPMC387275\n\t\t\n\t\n\t\n\t\tPLoS Biology\n\t\tPLoS Biol\n\t\t1545-7885\n\t\t\n\t\t\t2\n\t\t\t4\n\t\t\te108\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c51ae27723bebd8667617c"},"refKey":0},
{"_key":"60c51ae27723bebd8667617e","_id":"references/60c51ae27723bebd8667617e","_rev":"_cfFlhEy---","tei":"\n\t\n\t\tImproving GSEA for analysis of biologic pathways for differential gene expression across a binary phenotype\n\t\t\n\t\t\tIDinu\n\t\t\n\t\t\n\t\t\tJDPotter\n\t\t\n\t\t\n\t\t\tTMueller\n\t\t\n\t\t\n\t\t\tQLiu\n\t\t\n\t\t\n\t\t\tAJAdewale\n\t\t\n\t\t\n\t\t\tGSJhangri\n\t\t\n\t\t\n\t\t\tGEinecke\n\t\t\n\t\t\n\t\t\tKSFamulski\n\t\t\n\t\t\n\t\t\tPHalloran\n\t\t\n\t\t\n\t\t\tYYasui\n\t\t\n\t\n\t\n\t\tCOBRA Prepr Ser\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51ae27723bebd8667617c"},"refKey":12},
{"_key":"60c51b0a7723bebd8667618b","_id":"references/60c51b0a7723bebd8667618b","_rev":"_cfFlhF----","tei":"\n\t\n\t\tRNAither, an automated pipeline for the statistical analysis of high-throughput RNAi screens\n\t\t\n\t\t\tNRieber\n\t\t\n\t\t\n\t\t\tBKnapp\n\t\t\n\t\t\n\t\t\tREils\n\t\t\n\t\t\n\t\t\tLKaderali\n\t\t\n\t\t10.1093/bioinformatics/btp014\n\t\t19168909\n\t\tark:/67375/HXZ-KKMHKVTW-4\n\t\t2AB10E4957E594DE3EF44FB46C01918291A3924B\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c51b0a7723bebd8667618a"},"refKey":94},
{"_key":"60c51b0a7723bebd86676198","_id":"references/60c51b0a7723bebd86676198","_rev":"_cfFlhFK---","tei":"\n\t\n\t\tEvaluation of two automated and three rapid lateral flow immunoassays for the detection of anti-SARS-CoV-2 antibodies\n\t\t\n\t\t\tIMontesinos\n\t\t\n\t\n\t\n\t\tJ Clin Virol\n\t\t\n\t\t\t128\n\t\t\t104413\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51b0a7723bebd86676197"},"refKey":7},
{"_key":"60c51b1c7723bebd866761a8","_id":"references/60c51b1c7723bebd866761a8","_rev":"_cfFlhFW---","tei":"\n\t\n\t\tQuickTree: building huge Neighbour-Joining trees of protein sequences\n\t\t\n\t\t\tKHowe\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/18.11.1546\n\t\t12424131\n\t\t1460-2059\n\t\tark:/67375/HXZ-16C4LK42-Q\n\t\t671141D4C8B241C854A0EAFDBD4B3D068ED07C8E\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t18\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c51b1c7723bebd866761a7"},"refKey":16},
{"_key":"60c51b247723bebd866761b6","_id":"references/60c51b247723bebd866761b6","_rev":"_cfFlhFi---","tei":"\n\t\n\t\tDeciding on the number of classes in latent class analysis and growth mixture modeling: a Monte Carlo Simulation Study\n\t\t\n\t\t\tKLNylund\n\t\t\n\t\t\n\t\t\tTAsparouhov\n\t\t\n\t\t\n\t\t\tBMuthen\n\t\t\n\t\n\t\n\t\tStructEqu Model\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51b247723bebd866761b5"},"refKey":55},
{"_key":"60c51b2e7723bebd866761bf","_id":"references/60c51b2e7723bebd866761bf","_rev":"_cfFlhFu---","tei":"\n\t\n\t\tDoG Picker and TiltPicker: software tools to facilitate particle selection in single particle electron microscopy\n\t\t\n\t\t\tNRVoss\n\t\t\n\t\t\n\t\t\tCKYoshioka\n\t\t\n\t\t\n\t\t\tMRadermacher\n\t\t\n\t\t\n\t\t\tCSPotter\n\t\t\n\t\t\n\t\t\tBCarragher\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t166\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51b2e7723bebd866761be"},"refKey":24},
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{"_key":"60c51b2e7723bebd866761c1","_id":"references/60c51b2e7723bebd866761c1","_rev":"_cfFlhGG---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51b2e7723bebd866761be"},"refKey":29},
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{"_key":"60c51d337723bebd86676397","_id":"references/60c51d337723bebd86676397","_rev":"_cfFlhPi---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tDanielPeterson\n\t\t\n\t\t\n\t\t\tAlanFilipski\n\t\t\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t10.1093/molbev/mst197\n\t\t24132122\n\t\tPMC3840312\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c51d337723bebd86676396"},"refKey":81},
{"_key":"60c51d337723bebd86676398","_id":"references/60c51d337723bebd86676398","_rev":"_cfFlhPu---","tei":"\n\t\n\t\tProposal for a unified norovirus nomenclature and genotyping\n\t\t\n\t\t\tAnneliesKroneman\n\t\t\n\t\t\n\t\t\tEverardoVega\n\t\t\n\t\t\n\t\t\tHarryVennema\n\t\t\n\t\t\n\t\t\tJanVinjé\n\t\t\n\t\t\n\t\t\tPeterAWhite\n\t\t\n\t\t\n\t\t\tGrantHansman\n\t\t\n\t\t\n\t\t\tKimGreen\n\t\t\n\t\t\n\t\t\tVitoMartella\n\t\t\n\t\t\n\t\t\tKazuhikoKatayama\n\t\t\n\t\t\n\t\t\tMarionKoopmans\n\t\t\n\t\t10.1007/s00705-013-1708-5\n\t\t23615870\n\t\tPMC5570552\n\t\tark:/67375/VQC-PWZGKLJN-Z\n\t\t95307BC62565A3A99806844307A3ACA2D8086933\n\t\t\n\t\t\n\t\n\t\n\t\tArchives of Virology\n\t\tArch Virol\n\t\t0304-8608\n\t\t1432-8798\n\t\t\n\t\t\t158\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c51d337723bebd86676396"},"refKey":80},
{"_key":"60c51d507723bebd866763a5","_id":"references/60c51d507723bebd866763a5","_rev":"_cfFlhP6---","tei":"\n\t\n\t\tBase-calling of automated sequencer traces using phred. II. Error probabilities\n\t\t\n\t\t\tBEwing\n\t\t\n\t\t\n\t\t\tPGreen\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51d507723bebd866763a4"},"refKey":17},
{"_key":"60c51d507723bebd866763a6","_id":"references/60c51d507723bebd866763a6","_rev":"_cfFlhQG---","tei":"\n\t\n\t\tBase-calling of automated sequencer traces using phred. I. Accuracy assessment\n\t\t\n\t\t\tBEwing\n\t\t\n\t\t\n\t\t\tLHillier\n\t\t\n\t\t\n\t\t\tMCWendl\n\t\t\n\t\t\n\t\t\tPGreen\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51d507723bebd866763a4"},"refKey":18},
{"_key":"60c51d507723bebd866763a7","_id":"references/60c51d507723bebd866763a7","_rev":"_cfFlhQS---","tei":"\n\t\n\t\tConsed: a graphical editor for next-generation sequencing\n\t\t\n\t\t\tDavidGordon\n\t\t\n\t\t\n\t\t\tPhilGreen\n\t\t\n\t\t10.1093/bioinformatics/btt515\n\t\t23995391\n\t\tPMC3810858\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c51d507723bebd866763a4"},"refKey":19},
{"_key":"60c51d507723bebd866763a8","_id":"references/60c51d507723bebd866763a8","_rev":"_cfFlhQa---","tei":"\n\t\n\t\tThe RAST Server: rapid annotations using subsystems technology\n\t\t\n\t\t\tRKAziz\n\t\t\n\t\t\n\t\t\tDBartels\n\t\t\n\t\t\n\t\t\tAABest\n\t\t\n\t\t\n\t\t\tMDejongh\n\t\t\n\t\t\n\t\t\tTDisz\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t9\n\t\t\t75\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51d507723bebd866763a4"},"refKey":21},
{"_key":"60c51d507723bebd866763a9","_id":"references/60c51d507723bebd866763a9","_rev":"_cfFlhQm---","tei":"\n\t\n\t\tVelvet: algorithms for de novo short read assembly using de Bruijn graphs\n\t\t\n\t\t\tDRZerbino\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51d507723bebd866763a4"},"refKey":16},
{"_key":"60c51d7a7723bebd866763d4","_id":"references/60c51d7a7723bebd866763d4","_rev":"_cfFlhQy---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 19505943\n\n","document":{"$oid":"60c51d7a7723bebd866763d3"},"refKey":45},
{"_key":"60c51d7a7723bebd866763d5","_id":"references/60c51d7a7723bebd866763d5","_rev":"_cfFlhR----","tei":"\n\t\n\t\tSomaticSniper: identification of somatic point mutations in whole genome sequencing data\n\t\t\n\t\t\tDELarson\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 22155872\n\n","document":{"$oid":"60c51d7a7723bebd866763d3"},"refKey":43},
{"_key":"60c51d7a7723bebd866763d6","_id":"references/60c51d7a7723bebd866763d6","_rev":"_cfFlhRK---","tei":"\n\t\n\t\tPindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads\n\t\t\n\t\t\tKYe\n\t\t\n\t\t\n\t\t\tMHSchulz\n\t\t\n\t\t\n\t\t\tQLong\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\t\n\t\t\tZNing\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 19561018\n\n","document":{"$oid":"60c51d7a7723bebd866763d3"},"refKey":46},
{"_key":"60c51d7a7723bebd866763d7","_id":"references/60c51d7a7723bebd866763d7","_rev":"_cfFlhRW---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 19451168\n\n","document":{"$oid":"60c51d7a7723bebd866763d3"},"refKey":42},
{"_key":"60c51d7a7723bebd866763d8","_id":"references/60c51d7a7723bebd866763d8","_rev":"_cfFlhRi---","tei":"\n\t\n\t\tVarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing\n\t\t\n\t\t\tDCKoboldt\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 22300766\n\n","document":{"$oid":"60c51d7a7723bebd866763d3"},"refKey":44},
{"_key":"60c51d7d7723bebd866763ed","_id":"references/60c51d7d7723bebd866763ed","_rev":"_cfFlhRu---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51d7d7723bebd866763ec"},"refKey":51},
{"_key":"60c51d7d7723bebd866763ee","_id":"references/60c51d7d7723bebd866763ee","_rev":"_cfFlhR6---","tei":"\n\t\n\t\tFrom expression footprints to causal pathways: contextualizing large signaling networks with CARNIVAL\n\t\t\n\t\t\tAnikaLiu\n\t\t\t0000-0002-8561-4700\n\t\t\n\t\t\n\t\t\tPanuwatTrairatphisan\n\t\t\t0000-0001-9015-5855\n\t\t\n\t\t\n\t\t\tEnioGjerga\n\t\t\t0000-0001-8042-0395\n\t\t\n\t\t\n\t\t\tAthanasiosDidangelos\n\t\t\n\t\t\n\t\t\tJonathanBarratt\n\t\t\t0000-0002-9063-7229\n\t\t\n\t\t\n\t\t\tJulioSaez-Rodriguez\n\t\t\t0000-0002-8552-8976\n\t\t\n\t\t10.1101/541888\n\t\t\n\t\n\t\n\t\tNPJ Syst Biol Appl\n\t\t\n\t\t\t5\n\t\t\t40\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c51d7d7723bebd866763ec"},"refKey":42},
{"_key":"60c51db17723bebd8667642f","_id":"references/60c51db17723bebd8667642f","_rev":"_cfFlhSC---","tei":"\n\t\n\t\tThe RAST Server: rapid annotations using subsystems technology\n\t\t\n\t\t\tRKAziz\n\t\t\n\t\t\n\t\t\tDBartels\n\t\t\n\t\t\n\t\t\tAABest\n\t\t\n\t\t\n\t\t\tMDejongh\n\t\t\n\t\t\n\t\t\tTDisz\n\t\t\n\t\t\n\t\t\tRAEdwards\n\t\t\n\t\t\n\t\t\tKFormsma\n\t\t\n\t\t\n\t\t\tSGerdes\n\t\t\n\t\t\n\t\t\tEMGlass\n\t\t\n\t\t\n\t\t\tMKubal\n\t\t\n\t\t\n\t\t\tFMeyer\n\t\t\n\t\t\n\t\t\tGJOlsen\n\t\t\n\t\t\n\t\t\tROlson\n\t\t\n\t\t\n\t\t\tALOsterman\n\t\t\n\t\t\n\t\t\tRAOverbeek\n\t\t\n\t\t\n\t\t\tLKMcneil\n\t\t\n\t\t\n\t\t\tDPaarmann\n\t\t\n\t\t\n\t\t\tTPaczian\n\t\t\n\t\t\n\t\t\tBParrello\n\t\t\n\t\t\n\t\t\tGDPusch\n\t\t\n\t\t\n\t\t\tCReich\n\t\t\n\t\t\n\t\t\tRStevens\n\t\t\n\t\t\n\t\t\tOVassieva\n\t\t\n\t\t\n\t\t\tVVonstein\n\t\t\n\t\t\n\t\t\tAWilke\n\t\t\n\t\t\n\t\t\tOZagnitko\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t9\n\t\t\t75\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51db17723bebd8667642e"},"refKey":18},
{"_key":"60c51db17723bebd86676430","_id":"references/60c51db17723bebd86676430","_rev":"_cfFlhSO---","tei":"\n\t\n\t\tGeneMark: web software for gene finding in prokaryotes, eukaryotes and viruses\n\t\t\n\t\t\tJBesemer\n\t\t\n\t\t\n\t\t\tMBorodovsky\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c51db17723bebd8667642e"},"refKey":19},
{"_key":"60c51db17723bebd86676431","_id":"references/60c51db17723bebd86676431","_rev":"_cfFlhSa---","tei":"\n\t\n\t\tImproved microbial gene identification with GLIMMER\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tDHarmon\n\t\t\n\t\t\n\t\t\tSKasif\n\t\t\n\t\t\n\t\t\tOWhite\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t27\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51db17723bebd8667642e"},"refKey":20},
{"_key":"60c51dfb7723bebd8667646b","_id":"references/60c51dfb7723bebd8667646b","_rev":"_cfFlhSm---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: automated docking with selective receptor flexibility\n\t\t\n\t\t\tMorrisGarrett\n\t\t\n\t\t\n\t\t\tM\n\t\t\n\t\t\n\t\t\tHueyRuth\n\t\t\n\t\t\n\t\t\tLindstromWilliam\n\t\t\n\t\t\n\t\t\tSannerMichel\n\t\t\n\t\t\n\t\t\tF\n\t\t\n\t\t\n\t\t\tBelewRichard\n\t\t\n\t\t\n\t\t\tK\n\t\t\n\t\t\n\t\t\tGoodsellDavid\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\t\n\t\t\tOlsonArthur\n\t\t\n\t\t\n\t\t\tJ\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51dfb7723bebd8667646a"},"refKey":40},
{"_key":"60c51e1b7723bebd86676484","_id":"references/60c51e1b7723bebd86676484","_rev":"_cfFlhSy---","tei":"\n\t\n\t\tRevBayes: Bayesian phylogenetic inference using graphical models and an interactive model-specification language\n\t\t\n\t\t\tSHöhna\n\t\t\n\t\t\n\t\t\tMJLandis\n\t\t\n\t\t\n\t\t\tTAHeath\n\t\t\n\t\t\n\t\t\tBBoussau\n\t\t\n\t\t\n\t\t\tNLartillot\n\t\t\n\t\t\n\t\t\tBRMoore\n\t\t\n\t\n\t\n\t\tSystematic biology\n\t\t\n\t\t\t65\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51e1b7723bebd86676483"},"refKey":11},
{"_key":"60c51e1b7723bebd86676485","_id":"references/60c51e1b7723bebd86676485","_rev":"_cfFlhT----","tei":"\n\t\n\t\tMATLAB Guide, Third Edition\n\t\t\n\t\t\tDesmondJHigham\n\t\t\n\t\t\n\t\t\tNicholasJHigham\n\t\t\n\t\t10.1137/1.9781611974669\n\t\t\n\t\t\n\t\t\t\n\t\t\tSociety for Industrial and Applied Mathematics\n\t\t\n\t\n\n","document":{"$oid":"60c51e1b7723bebd86676483"},"refKey":41},
{"_key":"60c51e847723bebd866764ba","_id":"references/60c51e847723bebd866764ba","_rev":"_cfFlhTK---","tei":"\n\t\n\t\tDesign, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics\n\t\t\n\t\t\tJReeder\n\t\t\n\t\t\n\t\t\tRGiegerich\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t104\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c51e847723bebd866764b9"},"refKey":19},
{"_key":"60c51e847723bebd866764bb","_id":"references/60c51e847723bebd866764bb","_rev":"_cfFlhTW---","tei":"\n\t\n\t\tHotKnots: Heuristic prediction of RNA secondary structures including pseudoknots\n\t\t\n\t\t\tJRen\n\t\t\n\t\t\n\t\t\tBRastegari\n\t\t\n\t\t\n\t\t\tAECondon\n\t\t\n\t\t\n\t\t\tHHHoos\n\t\t\n\t\t10.1261/rna.7284905\n\t\t16199760\n\t\tPMC1370833\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t11\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c51e847723bebd866764b9"},"refKey":20},
{"_key":"60c51e847723bebd866764bc","_id":"references/60c51e847723bebd866764bc","_rev":"_cfFlhTi---","tei":"\n\t\n\t\tImproved free energy parameters for RNA pseudoknotted secondary structure prediction\n\t\t\n\t\t\tMSAndronescu\n\t\t\n\t\t\n\t\t\tCPop\n\t\t\n\t\t\n\t\t\tAECondon\n\t\t\n\t\t10.1261/rna.1689910\n\t\t19933322\n\t\tPMC2802035\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c51e847723bebd866764b9"},"refKey":2},
{"_key":"60c51e8f7723bebd866764cc","_id":"references/60c51e8f7723bebd866764cc","_rev":"_cfFlhTu---","tei":"\n\t\n\t\tNew ways to boost molecular dynamics simulations\n\t\t\n\t\t\tElmarKrieger\n\t\t\n\t\t\n\t\t\tGertVriend\n\t\t\n\t\t10.1002/jcc.23899\n\t\t25824339\n\t\tark:/67375/WNG-VNT0F4VZ-4\n\t\t5390B43351820EEA34F4A839A41D035BD09BBEAD\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t36\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c51e8f7723bebd866764cb"},"refKey":23},
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{"_key":"60c522097723bebd86676731","_id":"references/60c522097723bebd86676731","_rev":"_cfFlhdK---","tei":"\n\t\n\t\tFast and Flexible Probabilistic Model Counting\n\t\t\n\t\t\tDimitrisAchlioptas\n\t\t\n\t\t\n\t\t\tZaydHammoudeh\n\t\t\n\t\t\n\t\t\tPanosTheodoropoulos\n\t\t\n\t\t10.1007/978-3-319-94144-8_10\n\t\t\n\t\n\t\n\t\tTheory and Applications of Satisfiability Testing – SAT 2018\n\t\t\t\t\n\t\t\tOBeyersdorff\n\t\t\tCMWintersteiger\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t10929\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c522097723bebd86676730"},"refKey":0},
{"_key":"60c522097723bebd86676732","_id":"references/60c522097723bebd86676732","_rev":"_cfFlhdS---","tei":"\n\t\n\t\tExtending SAT Solvers to Cryptographic Problems\n\t\t\n\t\t\tMateSoos\n\t\t\n\t\t\n\t\t\tKarstenNohl\n\t\t\n\t\t\n\t\t\tClaudeCastelluccia\n\t\t\n\t\t10.1007/978-3-642-02777-2_24\n\t\tark:/67375/HCB-VQNM32T5-F\n\t\t4A3940AD002371AE6D5C53B1EDF90B0995B1ED5A\n\t\t\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tOKullmann\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t5584\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c522097723bebd86676730"},"refKey":25},
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{"_key":"60c522517723bebd86676762","_id":"references/60c522517723bebd86676762","_rev":"_cfFlhdq---","tei":"\n\t\n\t\tRSEM: Accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBLi\n\t\t\n\t\t\n\t\t\tCNDewey\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c522517723bebd86676760"},"refKey":46},
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{"_key":"60c5226b7723bebd86676783","_id":"references/60c5226b7723bebd86676783","_rev":"_cfFlheC---","tei":"\n\t\n\t\tBuilding a case-based diet recommendation system without a knowledge engineer\n\t\t\n\t\t\tAbdusSalamKhan\n\t\t\n\t\t\n\t\t\tAchimHoffmann\n\t\t\n\t\t10.1016/s0933-3657(02)00113-6\n\t\t12636977\n\t\t\n\t\n\t\n\t\tArtificial Intelligence in Medicine\n\t\tArtificial Intelligence in Medicine\n\t\t0933-3657\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5226b7723bebd86676782"},"refKey":49},
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{"_key":"60c522a67723bebd866767b7","_id":"references/60c522a67723bebd866767b7","_rev":"_cfFlhea---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c522a67723bebd866767b6"},"refKey":14},
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{"_key":"60c522a67723bebd866767b9","_id":"references/60c522a67723bebd866767b9","_rev":"_cfFlhey---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tTGur\n\t\t\n\t\t\n\t\t\tNMadhusoodanan\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c522a67723bebd866767b6"},"refKey":11},
{"_key":"60c523047723bebd866767ee","_id":"references/60c523047723bebd866767ee","_rev":"_cfFlhf----","tei":"\n\t\n\t\tComprehensive integration of single cell data\n\t\t\n\t\t\tTimStuart\n\t\t\t0000-0002-3044-0897\n\t\t\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\t0000-0002-7693-8957\n\t\t\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\t0000-0001-5898-694X\n\t\t\n\t\t\n\t\t\tWilliamMMauck\n\t\t\n\t\t\n\t\t\tMarlonStoeckius\n\t\t\t0000-0002-5658-029X\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\t0000-0003-0772-1647\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/460147\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t177\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c523047723bebd866767ed"},"refKey":25},
{"_key":"60c523047723bebd866767ef","_id":"references/60c523047723bebd866767ef","_rev":"_cfFlhfK---","tei":"\n\t\n\t\tWebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tEJJaehnig\n\t\t\n\t\t\n\t\t\tZShi\n\t\t\n\t\t\n\t\t\tBZhang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523047723bebd866767ed"},"refKey":29},
{"_key":"60c523057723bebd8667680b","_id":"references/60c523057723bebd8667680b","_rev":"_cfFlhfW---","tei":"\n\t\n\t\tbibliometrix : An R-tool for comprehensive science mapping analysis\n\t\t\n\t\t\tMassimoAria\n\t\t\n\t\t\n\t\t\tCorradoCuccurullo\n\t\t\n\t\t10.1016/j.joi.2017.08.007\n\t\t\n\t\n\t\n\t\tJournal of Informetrics\n\t\tJournal of Informetrics\n\t\t1751-1577\n\t\t\n\t\t\t11\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c523057723bebd8667680a"},"refKey":61},
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{"_key":"60c523a87723bebd866768b6","_id":"references/60c523a87723bebd866768b6","_rev":"_cfFlhh----","tei":"\n\t\n\t\tAutomating a severity score guideline for community-acquired pneumonia employing medical language processing of discharge summaries\n\t\t\n\t\t\tCFriedman\n\t\t\n\t\t\n\t\t\tCKnirsch\n\t\t\n\t\t\n\t\t\tLShagina\n\t\t\n\t\n\t\n\t\tProc AMIA Symp\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":24},
{"_key":"60c523a87723bebd866768b7","_id":"references/60c523a87723bebd866768b7","_rev":"_cfFlhhK---","tei":"\n\t\n\t\tApplication of natural language processing to VA electronic health records to identify phenotypic characteristics for clinical and research purposes\n\t\t\n\t\t\tAVGundlapalli\n\t\t\n\t\t\n\t\t\tBRSouth\n\t\t\n\t\t\n\t\t\tSPhansalkar\n\t\t\n\t\n\t\n\t\tSummit Transl Bioinform\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":26},
{"_key":"60c523a87723bebd866768b8","_id":"references/60c523a87723bebd866768b8","_rev":"_cfFlhhW---","tei":"\n\t\n\t\tExploring the Ability of Natural Language Processing to Extract Data From Nursing Narratives\n\t\t\n\t\t\tSookyungHyun\n\t\t\n\t\t\n\t\t\tStephenBJohnson\n\t\t\n\t\t\n\t\t\tSuzanneBakken\n\t\t\n\t\t10.1097/ncn.0b013e3181a91b58\n\t\t19574746\n\t\tPMC4415266\n\t\t\n\t\n\t\n\t\tCIN: Computers, Informatics, Nursing\n\t\tCIN: Computers, Informatics, Nursing\n\t\t1538-2931\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\tOvid Technologies (Wolters Kluwer Health)\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":30},
{"_key":"60c523a87723bebd866768b9","_id":"references/60c523a87723bebd866768b9","_rev":"_cfFlhhi---","tei":"\n\t\n\t\tAutomated knowledge acquisition from clinical narrative reports\n\t\t\n\t\t\tXWang\n\t\t\n\t\t\n\t\t\tAChused\n\t\t\n\t\t\n\t\t\tNElhadad\n\t\t\n\t\n\t\n\t\tAMIA Annu Symp Proc\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":42},
{"_key":"60c523a87723bebd866768ba","_id":"references/60c523a87723bebd866768ba","_rev":"_cfFlhhu---","tei":"\n\t\n\t\tActive Computerized Pharmacovigilance Using Natural Language Processing, Statistics, and Electronic Health Records: A Feasibility Study\n\t\t\n\t\t\tXWang\n\t\t\n\t\t\n\t\t\tGHripcsak\n\t\t\n\t\t\n\t\t\tMMarkatou\n\t\t\n\t\t\n\t\t\tCFriedman\n\t\t\n\t\t10.1197/jamia.m3028\n\t\t19261932\n\t\tPMC2732239\n\t\t\n\t\n\t\n\t\tJournal of the American Medical Informatics Association\n\t\tJournal of the American Medical Informatics Association\n\t\t1067-5027\n\t\t1527-974X\n\t\t\n\t\t\t16\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":43},
{"_key":"60c523a87723bebd866768bb","_id":"references/60c523a87723bebd866768bb","_rev":"_cfFlhh6---","tei":"\n\t\n\t\tNatural language processing to extract symptoms of severe mental illness from clinical text: the Clinical Record Interactive Search Comprehensive Data Extraction (CRIS-CODE) project\n\t\t\n\t\t\tRichardGJackson\n\t\t\t0000-0002-3278-8547\n\t\t\n\t\t\n\t\t\tRashmiPatel\n\t\t\t0000-0002-9259-8788\n\t\t\n\t\t\n\t\t\tNishamaliJayatilleke\n\t\t\n\t\t\n\t\t\tAnnaKolliakou\n\t\t\n\t\t\n\t\t\tMichaelBall\n\t\t\n\t\t\n\t\t\tGenevieveGorrell\n\t\t\n\t\t\n\t\t\tAngusRoberts\n\t\t\n\t\t\n\t\t\tRichardJDobson\n\t\t\t0000-0003-4224-9245\n\t\t\n\t\t\n\t\t\tRobertStewart\n\t\t\n\t\t10.1136/bmjopen-2016-012012\n\t\t28096249\n\t\tPMC5253558\n\t\t\n\t\n\t\n\t\tBMJ Open\n\t\tBMJ Open\n\t\t2044-6055\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\te012012\n\t\t\t\n\t\t\tBMJ\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":32},
{"_key":"60c523a87723bebd866768bc","_id":"references/60c523a87723bebd866768bc","_rev":"_cfFlhiG---","tei":"\n\t\n\t\tMood instability is a common feature of mental health disorders and is associated with poor clinical outcomes\n\t\t\n\t\t\tRPatel\n\t\t\n\t\t\n\t\t\tTLloyd\n\t\t\n\t\t\n\t\t\tRJackson\n\t\t\n\t\t\n\t\t\tMBall\n\t\t\n\t\t\n\t\t\tHShetty\n\t\t\n\t\t\n\t\t\tMBroadbent\n\t\t\n\t\t\n\t\t\tJRGeddes\n\t\t\n\t\t\n\t\t\tRStewart\n\t\t\n\t\t\n\t\t\tPMcguire\n\t\t\n\t\t\n\t\t\tMTaylor\n\t\t\n\t\t10.1136/bmjopen-2014-007504\n\t\t25998036\n\t\tPMC4452754\n\t\t\n\t\n\t\n\t\tBMJ Open\n\t\tBMJ Open\n\t\t2044-6055\n\t\t\n\t\t\t5\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tBMJ\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":38},
{"_key":"60c523a87723bebd866768bd","_id":"references/60c523a87723bebd866768bd","_rev":"_cfFlhiS---","tei":"\n\t\n\t\tComparison of Natural Language Processing Biosurveillance Methods for Identifying Influenza From Encounter Notes\n\t\t\n\t\t\tPeterLElkin\n\t\t\n\t\t\n\t\t\tDavidAFroehling\n\t\t\n\t\t\n\t\t\tDietlindLWahner-Roedler\n\t\t\n\t\t\n\t\t\tStevenHBrown\n\t\t\n\t\t\n\t\t\tKentRBailey\n\t\t\n\t\t10.7326/0003-4819-156-1-201201030-00003\n\t\t22213490\n\t\n\t\n\t\tAnnals of Internal Medicine\n\t\tAnn Intern Med\n\t\t0003-4819\n\t\t\n\t\t\t156\n\t\t\t1_Part_1\n\t\t\t11\n\t\t\t\n\t\t\tAmerican College of Physicians\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":23},
{"_key":"60c523a87723bebd866768be","_id":"references/60c523a87723bebd866768be","_rev":"_cfFlhie---","tei":"\n\t\n\t\tDetection of infectious symptoms from VA emergency department and primary care clinical documentation\n\t\t\n\t\t\tMichaelEMatheny\n\t\t\n\t\t\n\t\t\tFernFitzhenry\n\t\t\n\t\t\n\t\t\tTheodoreSperoff\n\t\t\n\t\t\n\t\t\tJenniferKGreen\n\t\t\n\t\t\n\t\t\tMichelleLGriffith\n\t\t\n\t\t\n\t\t\tEduardEVasilevskis\n\t\t\n\t\t\n\t\t\tElliotMFielstein\n\t\t\n\t\t\n\t\t\tPeterLElkin\n\t\t\n\t\t\n\t\t\tStevenHBrown\n\t\t\n\t\t10.1016/j.ijmedinf.2011.11.005\n\t\t22244191\n\t\n\t\n\t\tInternational Journal of Medical Informatics\n\t\tInternational Journal of Medical Informatics\n\t\t1386-5056\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":34},
{"_key":"60c523a87723bebd866768bf","_id":"references/60c523a87723bebd866768bf","_rev":"_cfFlhiq---","tei":"\n\t\n\t\tGeneral symptom extraction from VA electronic medical notes\n\t\t\n\t\t\tGDivita\n\t\t\n\t\t\n\t\t\tGLuo\n\t\t\n\t\t\n\t\t\tL-TtTran\n\t\t\n\t\n\t\n\t\tStud Health Technol Inform\n\t\t\n\t\t\t245\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":22},
{"_key":"60c523a87723bebd866768c0","_id":"references/60c523a87723bebd866768c0","_rev":"_cfFlhi2---","tei":"\n\t\n\t\tDetecting the presence of an indwelling urinary catheter and urinary symptoms in hospitalized patients using natural language processing\n\t\t\n\t\t\tAdiVGundlapalli\n\t\t\n\t\t\n\t\t\tGuyDivita\n\t\t\n\t\t\n\t\t\tAndrewRedd\n\t\t\n\t\t\n\t\t\tMarjorieECarter\n\t\t\n\t\t\n\t\t\tDanetteKo\n\t\t\n\t\t\n\t\t\tMichaelRubin\n\t\t\n\t\t\n\t\t\tMatthewSamore\n\t\t\n\t\t\n\t\t\tJudithStrymish\n\t\t\n\t\t\n\t\t\tSarahKrein\n\t\t\n\t\t\n\t\t\tKalpanaGupta\n\t\t\n\t\t\n\t\t\tAnneSales\n\t\t\n\t\t\n\t\t\tBarbaraWTrautner\n\t\t\n\t\t10.1016/j.jbi.2016.07.012\n\t\t27404849\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t71\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":27},
{"_key":"60c523a87723bebd866768c1","_id":"references/60c523a87723bebd866768c1","_rev":"_cfFlhjC---","tei":"\n\t\n\t\tMayo clinical Text Analysis and Knowledge Extraction System (cTAKES): architecture, component evaluation and applications\n\t\t\n\t\t\tGKSavova\n\t\t\n\t\t\n\t\t\tJJMasanz\n\t\t\n\t\t\n\t\t\tPVOgren\n\t\t\n\t\n\t\n\t\tJ Am Med Inform Assoc\n\t\t\n\t\t\t17\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523a87723bebd866768b4"},"refKey":49},
{"_key":"60c523ab7723bebd866768cb","_id":"references/60c523ab7723bebd866768cb","_rev":"_cfFlhjK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523ab7723bebd866768ca"},"refKey":13},
{"_key":"60c523ab7723bebd866768cc","_id":"references/60c523ab7723bebd866768cc","_rev":"_cfFlhjW---","tei":"\n\t\n\t\tInterProScan -an integration platform for the signature-recognition methods in InterPro\n\t\t\n\t\t\tEMZdobnov\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523ab7723bebd866768ca"},"refKey":22},
{"_key":"60c523c37723bebd866768dd","_id":"references/60c523c37723bebd866768dd","_rev":"_cfFlhji---","tei":"\n\t\n\t\tScikit-learn: Machine Learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\n\t\n\t\tJournal of Machine Learning Research\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523c37723bebd866768dc"},"refKey":22},
{"_key":"60c523c37723bebd866768de","_id":"references/60c523c37723bebd866768de","_rev":"_cfFlhjy---","tei":"\n\t\n\t\taffy--analysis of Affymetrix GeneChip data at the probe level\n\t\t\n\t\t\tLGautier\n\t\t\n\t\t\n\t\t\tLCope\n\t\t\n\t\t\n\t\t\tBMBolstad\n\t\t\n\t\t\n\t\t\tRAIrizarry\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523c37723bebd866768dc"},"refKey":17},
{"_key":"60c523c47723bebd866768e9","_id":"references/60c523c47723bebd866768e9","_rev":"_cfFlhk----","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c523c47723bebd866768e8"},"refKey":24},
{"_key":"60c523dd7723bebd8667690b","_id":"references/60c523dd7723bebd8667690b","_rev":"_cfFlhkK---","tei":"\n\t\n\t\tPowered by the 3DEXPERIENCE®Platform, BIOVIA™ Provides Global, Collaborative Product Lifecycle Experiences to Transform Scientific Innovation\n\t\t\n\t\t\n\t\t\t\n\t\t\t28\n\t\t\n\t\n\n","document":{"$oid":"60c523dd7723bebd8667690a"},"refKey":37},
{"_key":"60c523dd7723bebd8667690c","_id":"references/60c523dd7723bebd8667690c","_rev":"_cfFlhkW---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c523dd7723bebd8667690a"},"refKey":33},
{"_key":"60c524067723bebd8667691e","_id":"references/60c524067723bebd8667691e","_rev":"_cfFlhki---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c524067723bebd8667691d"},"refKey":74},
{"_key":"60c5242b7723bebd8667695b","_id":"references/60c5242b7723bebd8667695b","_rev":"_cfFlhku---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5242b7723bebd8667695a"},"refKey":22},
{"_key":"60c5242b7723bebd8667695c","_id":"references/60c5242b7723bebd8667695c","_rev":"_cfFlhk6---","tei":"\n\t\n\t\tMEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5242b7723bebd8667695a"},"refKey":23},
{"_key":"60c524537723bebd8667697e","_id":"references/60c524537723bebd8667697e","_rev":"_cfFlhlG---","tei":"\n\t\n\t\tRoutine Microsecond Molecular Dynamics Simulations with AMBER on GPUs. 2. Explicit Solvent Particle Mesh Ewald\n\t\t\n\t\t\tRomeliaSalomon-Ferrer\n\t\t\n\t\t\n\t\t\tAndreasWGötz\n\t\t\n\t\t\n\t\t\tDuncanPoole\n\t\t\n\t\t\n\t\t\tScottLe Grand\n\t\t\n\t\t\n\t\t\tRossCWalker\n\t\t\n\t\t10.1021/ct400314y\n\t\t26592383\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t9\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c524537723bebd8667697d"},"refKey":80},
{"_key":"60c524537723bebd8667697f","_id":"references/60c524537723bebd8667697f","_rev":"_cfFlhlS---","tei":"\n\t\n\t\tRoutine Microsecond Molecular Dynamics Simulations with AMBER on GPUs. 1. Generalized Born\n\t\t\n\t\t\tAndreasWGötz\n\t\t\n\t\t\n\t\t\tMarkJWilliamson\n\t\t\n\t\t\n\t\t\tDongXu\n\t\t\n\t\t\n\t\t\tDuncanPoole\n\t\t\n\t\t\n\t\t\tScottLe Grand\n\t\t\n\t\t\n\t\t\tRossCWalker\n\t\t\n\t\t10.1021/ct200909j\n\t\t22582031\n\t\tPMC3348677\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t8\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c524537723bebd8667697d"},"refKey":81},
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{"_key":"60c524b27723bebd866769a7","_id":"references/60c524b27723bebd866769a7","_rev":"_cfFlhlq---","tei":"\n\t\n\t\tClassification and regression by randomForest\n\t\t\n\t\t\tALiaw\n\t\t\n\t\t\n\t\t\tMWiener\n\t\t\n\t\t\n\t\t\t\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\tR news\n\n","document":{"$oid":"60c524b27723bebd866769a5"},"refKey":33},
{"_key":"60c524b27723bebd866769a8","_id":"references/60c524b27723bebd866769a8","_rev":"_cfFlhl2---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t25\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c524b27723bebd866769a5"},"refKey":0},
{"_key":"60c524b27723bebd866769a9","_id":"references/60c524b27723bebd866769a9","_rev":"_cfFlhmC---","tei":"\n\t\n\t\tProtein database searches using compositionally adjusted substitution matrices\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tJCWootton\n\t\t\n\t\t\n\t\t\tEMGertz\n\t\t\n\t\t\n\t\t\tRAgarwala\n\t\t\n\t\t\n\t\t\tAMorgulis\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tYu\n\t\t\n\t\t\n\t\t\tY.-K\n\t\t\n\t\n\t\n\t\tFEBS Journal\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c524b27723bebd866769a5"},"refKey":1},
{"_key":"60c524b27723bebd866769aa","_id":"references/60c524b27723bebd866769aa","_rev":"_cfFlhmO---","tei":"\n\t\n\t\tImproving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\t\n\t\t\tLAravind\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tSShavirin\n\t\t\n\t\t\n\t\t\tJLSpouge\n\t\t\n\t\t\n\t\t\tYIWolf\n\t\t\n\t\t\n\t\t\tEVKoonin\n\t\t\n\t\t\n\t\t\tAltschul\n\t\t\n\t\t\n\t\t\tSF\n\t\t\n\t\t10.1093/nar/29.14.2994\n\t\t11452024\n\t\tPMC55814\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c524b27723bebd866769a5"},"refKey":45},
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{"_key":"60c524b27723bebd866769ad","_id":"references/60c524b27723bebd866769ad","_rev":"_cfFlhmy---","tei":"\n\t\n\t\tBEST: Improved Prediction of B-Cell Epitopes from Antigen Sequences\n\t\t\n\t\t\tJianzhaoGao\n\t\t\n\t\t\n\t\t\tEshelFaraggi\n\t\t\n\t\t\n\t\t\tYaoqiZhou\n\t\t\n\t\t\n\t\t\tJishouRuan\n\t\t\n\t\t\n\t\t\tLukaszKurgan\n\t\t\n\t\t10.1371/journal.pone.0040104\n\t\t22761950\n\t\tPMC3384636\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t7\n\t\t\t6\n\t\t\te40104\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c524b27723bebd866769a5"},"refKey":18},
{"_key":"60c524b27723bebd866769ae","_id":"references/60c524b27723bebd866769ae","_rev":"_cfFlhn----","tei":"\n\t\n\t\tIn Silico Prediction of Linear B-Cell Epitopes on Proteins\n\t\t\n\t\t\tYasserEl-Manzalawy\n\t\t\n\t\t\n\t\t\tDrenaDobbs\n\t\t\n\t\t\n\t\t\tVasantGHonavar\n\t\t\n\t\t10.1007/978-1-4939-6406-2_17\n\t\t27787831\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1484\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c524b27723bebd866769a5"},"refKey":13},
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{"_key":"60c524b27723bebd866769b0","_id":"references/60c524b27723bebd866769b0","_rev":"_cfFlhnS---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t5\n\t\t\n\t\n\n","document":{"$oid":"60c524b27723bebd866769a5"},"refKey":10},
{"_key":"60c524f77723bebd866769d8","_id":"references/60c524f77723bebd866769d8","_rev":"_cfFlhne---","tei":"\n\t\n\t\tRevSCA\n\t\t\n\t\t\tAlirezaMahzoon\n\t\t\n\t\t\n\t\t\tDanielGroße\n\t\t\n\t\t\n\t\t\tRolfDrechsler\n\t\t\n\t\t10.1145/3316781.3317898\n\t\t\n\t\n\t\n\t\tProceedings of the 56th Annual Design Automation Conference 2019 on - DAC '19\n\t\t\t\tthe 56th Annual Design Automation Conference 2019 on - DAC '19\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c524f77723bebd866769d7"},"refKey":28},
{"_key":"60c524f77723bebd866769d9","_id":"references/60c524f77723bebd866769d9","_rev":"_cfFlhnq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tCWolf\n\t\t\n\t\t\n\t\t\tJGlaser\n\t\t\n\t\t\n\t\t\tJKepler\n\t\t\n\t\t\n\t\t\t\n\t\t\tYosys-A Free Verilog Synthesis Suite\n\t\t\n\t\n\n","document":{"$oid":"60c524f77723bebd866769d7"},"refKey":43},
{"_key":"60c5251f7723bebd866769ef","_id":"references/60c5251f7723bebd866769ef","_rev":"_cfFlhn2---","tei":"\n\t\n\t\tRSEARCH: Finding Homologs of Single Structured RNA Sequences\n\t\t\n\t\t\tRJKlein\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t4\n\t\t\t44\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5251f7723bebd866769ee"},"refKey":16},
{"_key":"60c5251f7723bebd866769f0","_id":"references/60c5251f7723bebd866769f0","_rev":"_cfFlhoC---","tei":"\n\t\n\t\tPISCES: a protein sequence culling server\n\t\t\n\t\t\tGWang\n\t\t\n\t\t\n\t\t\tRLDunbrack\n\t\t\n\t\t\n\t\t\tJr\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5251f7723bebd866769ee"},"refKey":32},
{"_key":"60c5253b7723bebd86676a03","_id":"references/60c5253b7723bebd86676a03","_rev":"_cfFlhoO---","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSudiptoSaha\n\t\t\n\t\t\n\t\t\tGpsP SRaghava\n\t\t\n\t\t10.1002/prot.21078\n\t\t16894596\n\t\tark:/67375/WNG-PBJLFFDS-Q\n\t\t962AE5C732980F572DE0640D65F024AE7EF06A67\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t65\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5253b7723bebd86676a02"},"refKey":30},
{"_key":"60c525637723bebd86676a1a","_id":"references/60c525637723bebd86676a1a","_rev":"_cfFlhoa---","tei":"\n\t\n\t\tD3Pockets: A Method and Web Server for Systematic Analysis of Protein Pocket Dynamics\n\t\t\n\t\t\tZhaoqiangChen\n\t\t\n\t\t\n\t\t\tXinbenZhang\n\t\t\n\t\t\n\t\t\tChengPeng\n\t\t\n\t\t\n\t\t\tJinanWang\n\t\t\n\t\t\n\t\t\tZhijianXu\n\t\t\t0000-0002-3063-8473\n\t\t\n\t\t\n\t\t\tKaixianChen\n\t\t\n\t\t\n\t\t\tJiyeShi\n\t\t\n\t\t\n\t\t\tWeiliangZhu\n\t\t\t0000-0001-6699-5299\n\t\t\n\t\t10.1021/acs.jcim.9b00332\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t59\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c525637723bebd86676a19"},"refKey":19},
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{"_key":"60c525897723bebd86676a40","_id":"references/60c525897723bebd86676a40","_rev":"_cfFlho6---","tei":"\n\t\n\t\tThe Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update\n\t\t\n\t\t\tEAfgan\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\t\n\t\t\tBBatut\n\t\t\n\t\t\n\t\t\tMVan Den Beek\n\t\t\n\t\t\n\t\t\tDBouvier\n\t\t\n\t\t\n\t\t\tMČech\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c525897723bebd86676a3f"},"refKey":15},
{"_key":"60c525897723bebd86676a41","_id":"references/60c525897723bebd86676a41","_rev":"_cfFlhpG---","tei":"\n\t\n\t\tMagic-BLAST, an accurate RNA-seq aligner for long and short reads\n\t\t\n\t\t\tGrzegorzMBoratyn\n\t\t\n\t\t\n\t\t\tJeanThierry-Mieg\n\t\t\n\t\t\n\t\t\tDanielleThierry-Mieg\n\t\t\n\t\t\n\t\t\tBenBusby\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\t0000-0003-1641-7321\n\t\t\n\t\t10.1186/s12859-019-2996-x\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t405\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c525897723bebd86676a3f"},"refKey":17},
{"_key":"60c525d27723bebd86676a80","_id":"references/60c525d27723bebd86676a80","_rev":"_cfFlhpS---","tei":"\n\t\n\t\tGeneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t22543367\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c525d27723bebd86676a7f"},"refKey":35},
{"_key":"60c525d27723bebd86676a81","_id":"references/60c525d27723bebd86676a81","_rev":"_cfFlhpe---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\tPMCID: PMCPmc2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c525d27723bebd86676a7f"},"refKey":37},
{"_key":"60c525e67723bebd86676a95","_id":"references/60c525e67723bebd86676a95","_rev":"_cfFlhpq---","tei":"\n\t\n\t\tSeamless R and C++ Integration with Rcpp\n\t\t\n\t\t\tDirkEddelbuettel\n\t\t\n\t\t\n\t\t\tRFrancois\n\t\t\n\t\t10.1007/978-1-4614-6868-4\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\tSpringer New York\n\t\t\n\t\n\n","document":{"$oid":"60c525e67723bebd86676a94"},"refKey":18},
{"_key":"60c526277723bebd86676ae3","_id":"references/60c526277723bebd86676ae3","_rev":"_cfFlhp2---","tei":"\n\t\n\t\t\n\t\t\tHealthcareAgency\n\t\t\n\t\t\n\t\t\tQualityResearch\n\t\t\n\t\t\n\t\tClinical Classifications Software Refined (CCSR) for ICD-10-CM Diagnoses\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c526277723bebd86676ae2"},"refKey":26},
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{"_key":"60c526507723bebd86676af8","_id":"references/60c526507723bebd86676af8","_rev":"_cfFlhqa---","tei":"\n\t\n\t\tOpenStreetMap: User-generated street maps\n\t\t\n\t\t\tMHaklay\n\t\t\n\t\t\n\t\t\tPWeber\n\t\t\n\t\n\t\n\t\tIEEE Pervasive Computing\n\t\t\n\t\t\t7\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c526507723bebd86676af7"},"refKey":8},
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{"_key":"60c526807723bebd86676b1e","_id":"references/60c526807723bebd86676b1e","_rev":"_cfFlhq6---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c526807723bebd86676b1d"},"refKey":38},
{"_key":"60c526867723bebd86676b25","_id":"references/60c526867723bebd86676b25","_rev":"_cfFlhrG---","tei":"\n\t\n\t\tWGCNA: an R package for weighted correlation network analysis\n\t\t\n\t\t\tPLangfelder\n\t\t\n\t\t\n\t\t\tSHorvath\n\t\t\n\t\n\t\n\t\tBMC Bioinf\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t559\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c526867723bebd86676b24"},"refKey":7},
{"_key":"60c526977723bebd86676b36","_id":"references/60c526977723bebd86676b36","_rev":"_cfFlhrS---","tei":"\n\t\n\t\tPepitope: epitope mapping from affinity-selected peptides\n\t\t\n\t\t\tIMayrose\n\t\t\n\t\t\n\t\t\tOPenn\n\t\t\n\t\t\n\t\t\tEErez\n\t\t\n\t\t\n\t\t\tNDRubinstein\n\t\t\n\t\t\n\t\t\tTShlomi\n\t\t\n\t\t\n\t\t\tNTFreund\n\t\t\n\t\t\n\t\t\tEMBublil\n\t\t\n\t\t\n\t\t\tERuppin\n\t\t\n\t\t\n\t\t\tRSharan\n\t\t\n\t\t\n\t\t\tJMGershoni\n\t\t\n\t\t\n\t\t\tEMartz\n\t\t\n\t\t\n\t\t\tTPupko\n\t\t\n\t\t10.1093/bioinformatics/btm493\n\t\t17977889\n\t\tark:/67375/HXZ-CF72SDWL-3\n\t\t15C902BA76D1A6AB92574326139F3AECB485E127\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c526977723bebd86676b35"},"refKey":21},
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{"_key":"60c5269f7723bebd86676b62","_id":"references/60c5269f7723bebd86676b62","_rev":"_cfFlhrq---","tei":"\n\t\n\t\tBiopython: freely available Python tools for computational molecular biology and bioinformatics\n\t\t\n\t\t\tPjaCock\n\t\t\n\t\t\n\t\t\tTAntao\n\t\t\n\t\t\n\t\t\tJTChang\n\t\t\n\t\t\n\t\t\tBAChapman\n\t\t\n\t\t\n\t\t\tCJCox\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tIFriedberg\n\t\t\n\t\t\n\t\t\tTHamelryck\n\t\t\n\t\t\n\t\t\tFKauff\n\t\t\n\t\t\n\t\t\tBWilczynski\n\t\t\n\t\t\n\t\t\tMjlHoon\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5269f7723bebd86676b60"},"refKey":21},
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{"_key":"60c526ce7723bebd86676bbb","_id":"references/60c526ce7723bebd86676bbb","_rev":"_cfFlhsK---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c526ce7723bebd86676bba"},"refKey":23},
{"_key":"60c526ce7723bebd86676bbc","_id":"references/60c526ce7723bebd86676bbc","_rev":"_cfFlhsW---","tei":"\n\t\n\t\tMCMCvis: Tools to Visualize, Manipulate, and Summarize MCMC Output\n\t\t\n\t\t\tCaseyYoungflesh\n\t\t\t0000-0001-6343-3311\n\t\t\n\t\t10.21105/joss.00640\n\t\n\t\n\t\tJournal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t3\n\t\t\t24\n\t\t\t640\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c526ce7723bebd86676bba"},"refKey":24},
{"_key":"60c526ce7723bebd86676bbd","_id":"references/60c526ce7723bebd86676bbd","_rev":"_cfFlhsi---","tei":"\n\t\n\t\tCODA: Convergence Diagnosis and Output Analysis for MCMC\n\t\t\n\t\t\tMPlummer\n\t\t\n\t\t\n\t\t\tNBest\n\t\t\n\t\t\n\t\t\tKCowles\n\t\t\n\t\t\n\t\t\tKVines\n\t\t\n\t\t\n\t\n\t\n\t\tNews\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c526ce7723bebd86676bba"},"refKey":25},
{"_key":"60c526ce7723bebd86676bbe","_id":"references/60c526ce7723bebd86676bbe","_rev":"_cfFlhsu---","tei":"\n\t\n\t\tR2WinBUGS: A Package for Running WinBUGS from R\n\t\t\n\t\t\tSSturtz\n\t\t\n\t\t\n\t\t\tULigges\n\t\t\n\t\t\n\t\t\tAGelman\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t12\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c526ce7723bebd86676bba"},"refKey":26},
{"_key":"60c526f57723bebd86676bd3","_id":"references/60c526f57723bebd86676bd3","_rev":"_cfFlhs6---","tei":"\n\t\n\t\tConfidence intervals after multiple imputation: combining profile likelihood information from logistic regressions\n\t\t\n\t\t\tGeorgHeinze\n\t\t\n\t\t\n\t\t\tMeinhardPloner\n\t\t\n\t\t\n\t\t\tJanBeyea\n\t\t\n\t\t10.1002/sim.5899\n\t\t23873477\n\t\tark:/67375/WNG-02NHDRPK-1\n\t\t106E23F1C5A5AC7044750B81E99C63E20B1050B1\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t\n\t\t\t32\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c526f57723bebd86676bd2"},"refKey":17},
{"_key":"60c526f57723bebd86676bd4","_id":"references/60c526f57723bebd86676bd4","_rev":"_cfFlhtG---","tei":"\n\t\n\t\tAn introduction to recursive partitioning: rationale, application, and characteristics of classification and regression trees, bagging, and random forests\n\t\t\n\t\t\tCStrobl\n\t\t\n\t\t\n\t\t\tJMalley\n\t\t\n\t\t\n\t\t\tGTutz\n\t\t\n\t\n\t\n\t\tPsychol Methods\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c526f57723bebd86676bd2"},"refKey":18},
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{"_key":"60c5271c7723bebd86676bf2","_id":"references/60c5271c7723bebd86676bf2","_rev":"_cfFlhtm---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5271c7723bebd86676bf1"},"refKey":8},
{"_key":"60c5271c7723bebd86676bf3","_id":"references/60c5271c7723bebd86676bf3","_rev":"_cfFlhty---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5271c7723bebd86676bf1"},"refKey":7},
{"_key":"60c5271e7723bebd86676bf7","_id":"references/60c5271e7723bebd86676bf7","_rev":"_cfFlhu----","tei":"\n\t\n\t\tLanguage models are unsupervised multitask learners\n\t\t\n\t\t\tAlecRadford\n\t\t\n\t\t\n\t\t\tJeffreyWu\n\t\t\n\t\t\n\t\t\tRewonChild\n\t\t\n\t\t\n\t\t\tDavidLuan\n\t\t\n\t\t\n\t\t\tDarioAmodei\n\t\t\n\t\t\n\t\t\tIlyaSutskever\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5271e7723bebd86676bf6"},"refKey":9},
{"_key":"60c527217723bebd86676c05","_id":"references/60c527217723bebd86676c05","_rev":"_cfFlhuK---","tei":"\n\t\n\t\tThe developer's dilemma: factors affecting the decision torepay code debt\n\t\t\n\t\t\tTAmanatidis\n\t\t\n\t\t\n\t\t\tNMittas\n\t\t\n\t\t\n\t\t\tAChatzigeorgiou\n\t\t\n\t\t\n\t\t\tAAmpatzoglou\n\t\t\n\t\t\n\t\t\tLAngelis\n\t\t\n\t\n\t\n\t\tProceedings of the 2018 International Conference on technical debt\n\t\t\t\tthe 2018 International Conference on technical debt\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c527217723bebd86676c04"},"refKey":0},
{"_key":"60c527447723bebd86676c1a","_id":"references/60c527447723bebd86676c1a","_rev":"_cfFlhuW---","tei":"\n\t\n\t\tMaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteomewide protein quantification\n\t\t\n\t\t\tJCox\n\t\t\n\t\t\n\t\t\tMMann\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c527447723bebd86676c19"},"refKey":8},
{"_key":"60c527d47723bebd86676c53","_id":"references/60c527d47723bebd86676c53","_rev":"_cfFlhui---","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c527d47723bebd86676c52"},"refKey":25},
{"_key":"60c527d47723bebd86676c54","_id":"references/60c527d47723bebd86676c54","_rev":"_cfFlhuu---","tei":"\n\t\n\t\tTowards automated crystallographic structure refinement with phenix.refine\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c527d47723bebd86676c52"},"refKey":27},
{"_key":"60c527fc7723bebd86676c76","_id":"references/60c527fc7723bebd86676c76","_rev":"_cfFlhu6---","tei":"\n\t\n\t\t\n\t\t\tQVLe\n\t\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\tDistributed representations of sentences and documents\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c527fc7723bebd86676c75"},"refKey":9},
{"_key":"60c528527723bebd86676ca0","_id":"references/60c528527723bebd86676ca0","_rev":"_cfFlhvC---","tei":"\n\t\n\t\tImproved metagenomic analysis with Kraken 2\n\t\t\n\t\t\tDerrickEWood\n\t\t\t0000-0002-7429-1854\n\t\t\n\t\t\n\t\t\tJenniferLu\n\t\t\t0000-0001-9167-2002\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\t0000-0003-2437-1976\n\t\t\n\t\t10.1101/762302\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t257\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c528527723bebd86676c9f"},"refKey":44},
{"_key":"60c5285e7723bebd86676cac","_id":"references/60c5285e7723bebd86676cac","_rev":"_cfFlhvO---","tei":"\n\t\n\t\tRepertoire Builder: high-throughput structural modeling of B and T cell receptors\n\t\t\n\t\t\tDimitriSchritt\n\t\t\n\t\t\n\t\t\tSonglingLi\n\t\t\n\t\t\n\t\t\tJohnRozewicki\n\t\t\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\n\t\t\n\t\t\tKazuoYamashita\n\t\t\n\t\t\n\t\t\tWayneVolkmuth\n\t\t\n\t\t\n\t\t\tGuyCavet\n\t\t\n\t\t\n\t\t\tDaronMStandley\n\t\t\t0000-0003-4078-0817\n\t\t\n\t\t10.1039/c9me00020h\n\t\t\n\t\n\t\n\t\tMolecular Systems Design & Engineering\n\t\tMol. Syst. Des. Eng.\n\t\t2058-9689\n\t\t\n\t\t\t4\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tRoyal Society of Chemistry (RSC)\n\t\t\n\t\n\n","document":{"$oid":"60c5285e7723bebd86676cab"},"refKey":39},
{"_key":"60c5285e7723bebd86676cad","_id":"references/60c5285e7723bebd86676cad","_rev":"_cfFlhva---","tei":"\n\t\n\t\tProtein Structure Modeling with MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1007/978-1-4939-0366-5_1\n\t\t24573470\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t54\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5285e7723bebd86676cab"},"refKey":38},
{"_key":"60c5285f7723bebd86676cb6","_id":"references/60c5285f7723bebd86676cb6","_rev":"_cfFlhvm---","tei":"\n\t\n\t\tNetMHCpan, a method for MHC class I binding prediction beyond humans\n\t\t\n\t\t\tIHoof\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tJSidney\n\t\t\n\t\t\n\t\t\tLEPedersen\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tSBuus\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunogenetics\n\t\t\n\t\t\t61\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 19002680\n\n","document":{"$oid":"60c5285f7723bebd86676cb5"},"refKey":9},
{"_key":"60c5285f7723bebd86676cb7","_id":"references/60c5285f7723bebd86676cb7","_rev":"_cfFlhvy---","tei":"\n\t\n\t\tSensitive quantitative predictions of peptide-MHC binding by a 'Query by Committee' artificial neural network approach\n\t\t\n\t\t\tSBuus\n\t\t\n\t\t\n\t\t\tSLLauemoller\n\t\t\n\t\t\n\t\t\tPWorning\n\t\t\n\t\t\n\t\t\tCKesmir\n\t\t\n\t\t\n\t\t\tTFrimurer\n\t\t\n\t\t\n\t\t\tSCorbet\n\t\t\n\t\t\n\t\t\tAFomsgaard\n\t\t\n\t\t\n\t\t\tJHilden\n\t\t\n\t\t\n\t\t\tAHolm\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t10.1034/j.1399-0039.2003.00112.x\n\t\t14617044\n\t\tark:/67375/WNG-W7JK3DH2-3\n\t\t77A1FF53C02F263B211144C4943761B6A19A9E04\n\t\t\n\t\n\t\n\t\tTissue Antigens\n\t\tTissue Antigens\n\t\t0001-2815\n\t\t1399-0039\n\t\t\n\t\t\t62\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed: 14617044\n\n","document":{"$oid":"60c5285f7723bebd86676cb5"},"refKey":1},
{"_key":"60c5285f7723bebd86676cb8","_id":"references/60c5285f7723bebd86676cb8","_rev":"_cfFlhw----","tei":"\n\t\n\t\tThe validity of predicted T-cell epitopes\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t10.1016/j.tibtech.2006.10.001\n\t\t17045685\n\t\n\t\n\t\tTrends in Biotechnology\n\t\tTrends in Biotechnology\n\t\t0167-7799\n\t\t\n\t\t\t24\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed: 17045685\n\n","document":{"$oid":"60c5285f7723bebd86676cb5"},"refKey":20},
{"_key":"60c5285f7723bebd86676cb9","_id":"references/60c5285f7723bebd86676cb9","_rev":"_cfFlhwK---","tei":"\n\t\n\t\tReliable prediction of T-cell epitopes using neural networks with novel sequence representations\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t\n\t\t\tCLundegaard\n\t\t\n\t\t\n\t\t\tPWorning\n\t\t\n\t\t\n\t\t\tSLLauemøller\n\t\t\n\t\t\n\t\t\tKLamberth\n\t\t\n\t\t\n\t\t\tSBuus\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 12717023\n\n","document":{"$oid":"60c5285f7723bebd86676cb5"},"refKey":24},
{"_key":"60c528677723bebd86676ce0","_id":"references/60c528677723bebd86676ce0","_rev":"_cfFlhwW---","tei":"\n\t\n\t\tRegression and Mediation Analysis Using Mplus\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tTAsparouhov\n\t\t\n\t\t\n\t\t\t\n\t\t\tMuthén & Muthén\n\t\t\tLos Angeles, CA\n\t\t\n\t\n\n","document":{"$oid":"60c528677723bebd86676cdf"},"refKey":28},
{"_key":"60c528a57723bebd86676d04","_id":"references/60c528a57723bebd86676d04","_rev":"_cfFlhwi---","tei":"\n\t\n\t\tCausal Inference in Conjoint Analysis: Understanding Multidimensional Choices via Stated Preference Experiments\n\t\t\n\t\t\tJensHainmueller\n\t\t\n\t\t\n\t\t\tDanielJHopkins\n\t\t\n\t\t\n\t\t\tTeppeiYamamoto\n\t\t\n\t\t10.1093/pan/mpt024\n\t\t\n\t\n\t\n\t\tPolitical Analysis\n\t\tPolit. anal.\n\t\t1047-1987\n\t\t1476-4989\n\t\t\n\t\t\t22\n\t\t\t01\n\t\t\t\n\t\t\t\n\t\t\tCambridge University Press (CUP)\n\t\t\n\t\n\n","document":{"$oid":"60c528a57723bebd86676d03"},"refKey":7},
{"_key":"60c528c87723bebd86676d0d","_id":"references/60c528c87723bebd86676d0d","_rev":"_cfFlhwu---","tei":"\n\t\n\t\tLIBSVM: a Library for Support Vector Machines. China: Personal website\n\t\t\n\t\t\tCChang\n\t\t\n\t\t\n\t\t\tCLin\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c528c87723bebd86676d0c"},"refKey":32},
{"_key":"60c528c87723bebd86676d0e","_id":"references/60c528c87723bebd86676d0e","_rev":"_cfFlhw6---","tei":"\n\t\n\t\tDetecting influenza epidemics using search engine query data\n\t\t\n\t\t\tJGinsberg\n\t\t\n\t\t\n\t\t\tMMohebbi\n\t\t\n\t\t\n\t\t\tRPatel\n\t\t\n\t\t\n\t\t\tLBrammer\n\t\t\n\t\t\n\t\t\tMSmolinski\n\t\t\n\t\t\n\t\t\tLBrilliant\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t7232\n\t\t\t457\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c528c87723bebd86676d0c"},"refKey":16},
{"_key":"60c528f17723bebd86676d37","_id":"references/60c528f17723bebd86676d37","_rev":"_cfFlhxG---","tei":"\n\t\n\t\tImproved methods for building protein models in electron density maps and the location of errors in these models\n\t\t\n\t\t\tTAJones\n\t\t\n\t\t\n\t\t\tJYZou\n\t\t\n\t\t\n\t\t\tSWCowan\n\t\t\n\t\t\n\t\t\tMKjeldgaard\n\t\t\n\t\t10.1107/s0108767390010224\n\t\t2025413\n\t\tark:/67375/WNG-GBHHNF3S-L\n\t\t57FDDD7C394014D3E6FC34232973FE3B2BFA6FCB\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t47\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c528f17723bebd86676d36"},"refKey":27},
{"_key":"60c529017723bebd86676d46","_id":"references/60c529017723bebd86676d46","_rev":"_cfFlhxO---","tei":"\n\t\n\t\tJModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t772\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c529017723bebd86676d45"},"refKey":6},
{"_key":"60c529017723bebd86676d47","_id":"references/60c529017723bebd86676d47","_rev":"_cfFlhxa---","tei":"\n\t\n\t\tProtein Identification and Analysis Tools in the ExPASy Server\n\t\t\n\t\t\tMarcRWilkins\n\t\t\n\t\t\n\t\t\tElisabethGasteiger\n\t\t\n\t\t\n\t\t\tAmosBairoch\n\t\t\n\t\t\n\t\t\tJean-CharlesSanchez\n\t\t\n\t\t\n\t\t\tKeithLWilliams\n\t\t\n\t\t\n\t\t\tRonDAppel\n\t\t\n\t\t\n\t\t\tDenisFHochstrasser\n\t\t\n\t\t10.1385/1-59259-584-7:531\n\t\n\t\n\t\t2-D Proteome Analysis Protocols\n\t\t\t\tClifton, N.J.\n\t\t\n\t\t\tHumana Press\n\t\t\t1999\n\t\t\t112\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c529017723bebd86676d45"},"refKey":59},
{"_key":"60c529017723bebd86676d48","_id":"references/60c529017723bebd86676d48","_rev":"_cfFlhxm---","tei":"\n\t\n\t\tRaxmlGUI: a graphical front-end for RAxML\n\t\t\n\t\t\tDSilvestro\n\t\t\n\t\t\n\t\t\tIMichalak\n\t\t\n\t\n\t\n\t\tOrgan. Divers. Evol\n\t\t\n\t\t\t12\n\t\t\t335\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c529017723bebd86676d45"},"refKey":49},
{"_key":"60c529017723bebd86676d49","_id":"references/60c529017723bebd86676d49","_rev":"_cfFlhxy---","tei":"\n\t\n\t\tMesquite: a modular system for evolutionary analysis\n\t\t\n\t\t\tWMaddison\n\t\t\n\t\t\n\t\t\tPD RMaddison\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c529017723bebd86676d45"},"refKey":25},
{"_key":"60c529017723bebd86676d4a","_id":"references/60c529017723bebd86676d4a","_rev":"_cfFlhy----","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c529017723bebd86676d45"},"refKey":55},
{"_key":"60c529017723bebd86676d4b","_id":"references/60c529017723bebd86676d4b","_rev":"_cfFlhyK---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJ.-FDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c529017723bebd86676d45"},"refKey":14},
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{"_key":"60c529e07723bebd86676de5","_id":"references/60c529e07723bebd86676de5","_rev":"_cfFlhzS---","tei":"\n\t\n\t\tAn R Package for a Fast Calculation to Semi-partial Correlation Coefficients\n\t\t\n\t\t\tKimSPpcor\n\t\t\n\t\t10.5351/CSAM.2015.22.6.665\n\t\t26688802\n\t\t\n\t\n\t\n\t\tCommun Stat Appl Methods\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c529e07723bebd86676de4"},"refKey":5},
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{"_key":"60c52a3e7723bebd86676e35","_id":"references/60c52a3e7723bebd86676e35","_rev":"_cfFlh02---","tei":"\n\t\n\t\tAn automated method for finding molecular complexes in large protein interaction networks\n\t\t\n\t\t\tGd\n\t\t\n\t\t\n\t\t\tBader\n\t\t\n\t\t\n\t\t\tHogue\n\t\t\n\t\n\t\n\t\tBMC Bioinforma\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52a3e7723bebd86676e33"},"refKey":97},
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{"_key":"60c52dc07723bebd8667719c","_id":"references/60c52dc07723bebd8667719c","_rev":"_cfFliBa---","tei":"\n\t\n\t\tEMBOSS: the European Molecular Biology Open Software Suite\n\t\t\n\t\t\tPRice\n\t\t\n\t\t\n\t\t\tILongden\n\t\t\n\t\t\n\t\t\tABleasby\n\t\t\n\t\n\t\n\t\tTrends Genet\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52dc07723bebd8667719b"},"refKey":59},
{"_key":"60c52dc07723bebd8667719d","_id":"references/60c52dc07723bebd8667719d","_rev":"_cfFliBm---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tSMezulis\n\t\t\n\t\t\n\t\t\tCMYates\n\t\t\n\t\t\n\t\t\tMNWass\n\t\t\n\t\t\n\t\t\tMJSternberg\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52dc07723bebd8667719b"},"refKey":32},
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{"_key":"60c52ddf7723bebd866771c4","_id":"references/60c52ddf7723bebd866771c4","_rev":"_cfFliCK---","tei":"\n\t\n\t\t\n\t\tUNAFold: Software for Nucleic Acid Folding and Hybridization\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c52ddf7723bebd866771c3"},"refKey":10},
{"_key":"60c52e327723bebd866771ea","_id":"references/60c52e327723bebd866771ea","_rev":"_cfFliCW---","tei":"\n\t\n\t\tThe FoldX web server: an online force field\n\t\t\n\t\t\tJSchymkowitz\n\t\t\n\t\t\n\t\t\tJBorg\n\t\t\n\t\t\n\t\t\tFStricher\n\t\t\n\t\t\n\t\t\tRNys\n\t\t\n\t\t\n\t\t\tFRousseau\n\t\t\n\t\t\n\t\t\tLSerrano\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52e327723bebd866771e9"},"refKey":24},
{"_key":"60c52e327723bebd866771eb","_id":"references/60c52e327723bebd866771eb","_rev":"_cfFliCi---","tei":"\n\t\n\t\tA resource of variant effect predictions of single nucleotide variants in model organisms\n\t\t\n\t\t\tOmarWagih\n\t\t\n\t\t\n\t\t\tMarcoGalardini\n\t\t\n\t\t\n\t\t\tBedePBusby\n\t\t\t0000-0003-3410-9998\n\t\t\n\t\t\n\t\t\tDanishMemon\n\t\t\n\t\t\n\t\t\tAthanasiosTypas\n\t\t\t0000-0002-0797-9018\n\t\t\n\t\t\n\t\t\tPedroBeltrao\n\t\t\t0000-0002-2724-7703\n\t\t\n\t\t10.15252/msb.20188430\n\t\t30573687\n\t\tPMC6301329\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMol Syst Biol\n\t\t1744-4292\n\t\t\n\t\t\t14\n\t\t\t12\n\t\t\te8430\n\t\t\t\n\t\t\tEMBO\n\t\t\n\t\n\n","document":{"$oid":"60c52e327723bebd866771e9"},"refKey":31},
{"_key":"60c52e327723bebd866771ec","_id":"references/60c52e327723bebd866771ec","_rev":"_cfFliCu---","tei":"\n\t\n\t\tSIFT missense predictions for genomes\n\t\t\n\t\t\tRVaser\n\t\t\n\t\t\n\t\t\tSAdusumalli\n\t\t\n\t\t\n\t\t\tSNLeng\n\t\t\n\t\t\n\t\t\tMSikic\n\t\t\n\t\t\n\t\t\tPCNg\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52e327723bebd866771e9"},"refKey":30},
{"_key":"60c52e327723bebd866771ed","_id":"references/60c52e327723bebd866771ed","_rev":"_cfFliC6---","tei":"\n\t\n\t\tSnakemake—a scalable bioinformatics workflow engine\n\t\t\n\t\t\tJohannesKöster\n\t\t\n\t\t\n\t\t\tSvenRahmann\n\t\t\n\t\t10.1093/bioinformatics/bty350\n\t\t29788404\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c52e327723bebd866771e9"},"refKey":16},
{"_key":"60c52e327723bebd866771ee","_id":"references/60c52e327723bebd866771ee","_rev":"_cfFliDG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tADYates\n\t\t\n\t\t\n\t\t\tPAchuthan\n\t\t\n\t\t\n\t\t\tWAkanni\n\t\t\n\t\t\n\t\t\tJAllen\n\t\t\n\t\t\n\t\t\tJAllen\n\t\t\n\t\t\n\t\t\tJAlvarez-Jarreta\n\t\t\n\t\t\n\t\t\tMRAmode\n\t\t\n\t\t\n\t\t\tIMArmean\n\t\t\n\t\t\n\t\t\tAGAzov\n\t\t\n\t\t\n\t\t\tRBennett\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52e327723bebd866771e9"},"refKey":34},
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{"_key":"60c52e327723bebd866771f0","_id":"references/60c52e327723bebd866771f0","_rev":"_cfFliDe---","tei":"\n\t\n\t\tThe EVcouplings Python framework for coevolutionary sequence analysis\n\t\t\n\t\t\tThomasAHopf\n\t\t\t0000-0002-7476-9539\n\t\t\n\t\t\n\t\t\tAnnaGGreen\n\t\t\t0000-0001-7548-3682\n\t\t\n\t\t\n\t\t\tBenjaminSchubert\n\t\t\t0000-0003-3412-1102\n\t\t\n\t\t\n\t\t\tSophiaMersmann\n\t\t\n\t\t\n\t\t\tCharlottaP ISchäerfe\n\t\t\t0000-0002-6689-6423\n\t\t\n\t\t\n\t\t\tJohnBIngraham\n\t\t\n\t\t\n\t\t\tAgnesToth-Petroczy\n\t\t\n\t\t\n\t\t\tKellyBrock\n\t\t\n\t\t\n\t\t\tAdamRiesselman\n\t\t\n\t\t\n\t\t\tChanKang\n\t\t\n\t\t\n\t\t\tChristianDallago\n\t\t\t0000-0003-4650-6181\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t\n\t\t\tDeboraSMarks\n\t\t\t0000-0001-9388-2281\n\t\t\n\t\t10.1101/326918\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c52e327723bebd866771e9"},"refKey":11},
{"_key":"60c52e327723bebd866771f1","_id":"references/60c52e327723bebd866771f1","_rev":"_cfFliDq---","tei":"\n\t\n\t\tRole of conformational sampling in computing mutation-induced changes in protein structure and stability\n\t\t\n\t\t\tEHKellogg\n\t\t\n\t\t\n\t\t\tALeaver-Fay\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t79\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52e327723bebd866771e9"},"refKey":13},
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{"_key":"60c52e7d7723bebd8667725b","_id":"references/60c52e7d7723bebd8667725b","_rev":"_cfFliEC---","tei":"\n\t\n\t\tDiabetes mellitus and the beta cell: The last ten years\n\t\t\n\t\t\tFMAshcroft\n\t\t\n\t\t\n\t\t\tPRorsman\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t148\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52e7d7723bebd8667725a"},"refKey":0},
{"_key":"60c52e7d7723bebd8667725c","_id":"references/60c52e7d7723bebd8667725c","_rev":"_cfFliEO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tIFellows\n\t\t\n\t\t09/09/2015\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52e7d7723bebd8667725a"},"refKey":162},
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{"_key":"60c52e7d7723bebd8667725e","_id":"references/60c52e7d7723bebd8667725e","_rev":"_cfFliEm---","tei":"\n\t\n\t\tDatabase for Annotation, Visualization, and Integrated Discovery\n\t\t\n\t\t\tGDennisJr\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t4\n\t\t\tP3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52e7d7723bebd8667725a"},"refKey":171},
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{"_key":"60c52e987723bebd86677293","_id":"references/60c52e987723bebd86677293","_rev":"_cfFliF----","tei":"\n\t\n\t\tClustal Omega for making accurate alignments of many protein sequences\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52e987723bebd86677292"},"refKey":75},
{"_key":"60c52e987723bebd86677294","_id":"references/60c52e987723bebd86677294","_rev":"_cfFliFK---","tei":"\n\t\n\t\tProtTest 3: fast selection of best-fit models of protein evolution\n\t\t\n\t\t\tDiegoDarriba\n\t\t\n\t\t\n\t\t\tGuillermoLTaboada\n\t\t\n\t\t\n\t\t\tRamónDoallo\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t10.1093/bioinformatics/btr088\n\t\t21335321\n\t\tPMC5215816\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c52e987723bebd86677292"},"refKey":15},
{"_key":"60c52e987723bebd86677295","_id":"references/60c52e987723bebd86677295","_rev":"_cfFliFW---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52e987723bebd86677292"},"refKey":28},
{"_key":"60c52e987723bebd86677296","_id":"references/60c52e987723bebd86677296","_rev":"_cfFliFi---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c52e987723bebd86677292"},"refKey":41},
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{"_key":"60c52eda7723bebd866772b5","_id":"references/60c52eda7723bebd866772b5","_rev":"_cfFliGS---","tei":"\n\t\n\t\tA Completely Reimplemented MPI Bioinformatics Toolkit with a New HHpred Server at its Core\n\t\t\n\t\t\tLukasZimmermann\n\t\t\n\t\t\n\t\t\tAndrewStephens\n\t\t\n\t\t\n\t\t\tSeung-ZinNam\n\t\t\n\t\t\n\t\t\tDavidRau\n\t\t\n\t\t\n\t\t\tJonasKübler\n\t\t\n\t\t\n\t\t\tMarkoLozajic\n\t\t\n\t\t\n\t\t\tFelixGabler\n\t\t\n\t\t\n\t\t\tJohannesSöding\n\t\t\n\t\t\n\t\t\tAndreiNLupas\n\t\t\n\t\t\n\t\t\tVikramAlva\n\t\t\n\t\t10.1016/j.jmb.2017.12.007\n\t\t29258817\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t430\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c52eda7723bebd866772af"},"refKey":82},
{"_key":"60c52eda7723bebd866772b6","_id":"references/60c52eda7723bebd866772b6","_rev":"_cfFliGe---","tei":"\n\t\n\t\tRPANDA: an R package for macroevolutionary analyses on phylogenetic trees\n\t\t\n\t\t\tHélèneMorlon\n\t\t\n\t\t\n\t\t\tEricLewitus\n\t\t\n\t\t\n\t\t\tFabienLCondamine\n\t\t\n\t\t\n\t\t\tMarcManceau\n\t\t\n\t\t\n\t\t\tJulienClavel\n\t\t\n\t\t\n\t\t\tJonathanDrury\n\t\t\n\t\t10.1111/2041-210x.12526\n\t\t\n\t\n\t\n\t\tMethods in Ecology and Evolution\n\t\tMethods Ecol Evol\n\t\t2041-210X\n\t\t\n\t\t\t7\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c52eda7723bebd866772ae"},"refKey":40},
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{"_key":"60c52eda7723bebd866772b8","_id":"references/60c52eda7723bebd866772b8","_rev":"_cfFliGy---","tei":"\n\t\n\t\tmvmorph: anrpackage for fitting multivariate evolutionary models to morphometric data\n\t\t\n\t\t\tJulienClavel\n\t\t\n\t\t\n\t\t\tGillesEscarguel\n\t\t\n\t\t\n\t\t\tGildasMerceron\n\t\t\n\t\t10.1111/2041-210x.12420\n\t\n\t\n\t\tMethods in Ecology and Evolution\n\t\tMethods Ecol Evol\n\t\t2041-210X\n\t\t\n\t\t\t6\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c52eda7723bebd866772ae"},"refKey":16},
{"_key":"60c52eda7723bebd866772b9","_id":"references/60c52eda7723bebd866772b9","_rev":"_cfFliH----","tei":"\n\t\n\t\tAnalyzing Protein-Protein Interactions from Affinity Purification-Mass Spectrometry Data with SAINT\n\t\t\n\t\t\tHyungwonChoi\n\t\t\n\t\t\n\t\t\tGuominLiu\n\t\t\n\t\t\n\t\t\tDattatreyaMellacheruvu\n\t\t\n\t\t\n\t\t\tMikeTyers\n\t\t\n\t\t\n\t\t\tAnne-ClaudeGingras\n\t\t\n\t\t\n\t\t\tAlexeyINesvizhskii\n\t\t\n\t\t10.1002/0471250953.bi0815s39\n\t\t22948729\n\t\tPMC3446209\n\t\t\n\t\t\n\t\n\t\n\t\tCurrProtoc Bioinform\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c52eda7723bebd866772af"},"refKey":34},
{"_key":"60c52eda7723bebd866772ba","_id":"references/60c52eda7723bebd866772ba","_rev":"_cfFliHK---","tei":"\n\t\n\t\tphytools: an R package for phylogenetic comparative biology (and other things)\n\t\t\n\t\t\tLJRevell\n\t\t\n\t\n\t\n\t\tMeth Ecol Evol\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52eda7723bebd866772ae"},"refKey":46},
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{"_key":"60c52eda7723bebd866772c0","_id":"references/60c52eda7723bebd866772c0","_rev":"_cfFliIG---","tei":"\n\t\n\t\tAssembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and bayesian scoring functions\n\t\t\n\t\t\tKimTSimons\n\t\t\n\t\t\n\t\t\tCharlesKooperberg\n\t\t\n\t\t\n\t\t\tEnochHuang\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t10.1006/jmbi.1997.0959\n\t\t9149153\n\t\tS0022-2836(97)90959-1\n\t\tark:/67375/6H6-3WL5S18B-Q\n\t\tB358EB08D5F4770A0DF0C2CCDA77A48C02D844E5\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t268\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c52eda7723bebd866772af"},"refKey":79},
{"_key":"60c52eda7723bebd866772c3","_id":"references/60c52eda7723bebd866772c3","_rev":"_cfFliIS---","tei":"\n\t\n\t\tRosettaES: a sampling strategy enabling automated interpretation of difficult cryo-EM maps\n\t\t\n\t\t\tBrandonFrenz\n\t\t\n\t\t\n\t\t\tAlexandraCWalls\n\t\t\n\t\t\n\t\t\tEdwardHEgelman\n\t\t\n\t\t\n\t\t\tDavidVeesler\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t10.1038/nmeth.4340\n\t\t28628127\n\t\tPMC6009829\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c52eda7723bebd866772af"},"refKey":87},
{"_key":"60c52eda7723bebd866772c5","_id":"references/60c52eda7723bebd866772c5","_rev":"_cfFliIe---","tei":"\n\t\n\t\tCS-ROSETTA\n\t\t\n\t\t\tSantruptiNerli\n\t\t\n\t\t\n\t\t\tNikolaosGSgourakis\n\t\t\n\t\t10.1016/bs.mie.2018.07.005\n\t\t30611429\n\t\t\n\t\n\t\n\t\tBiological NMR Part A\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t614\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52eda7723bebd866772af"},"refKey":88},
{"_key":"60c52eda7723bebd866772c7","_id":"references/60c52eda7723bebd866772c7","_rev":"_cfFliIq---","tei":"\n\t\n\t\tIntegrative Protein Modeling in RosettaNMR from Sparse Paramagnetic Restraints\n\t\t\n\t\t\tGeorgKuenze\n\t\t\n\t\t\n\t\t\tRichardBonneau\n\t\t\n\t\t\n\t\t\tJuliaKoehlerLeman\n\t\t\n\t\t\n\t\t\tJensMeiler\n\t\t\n\t\t10.1016/j.str.2019.08.012\n\t\n\t\n\t\tStructure\n\t\tStructure\n\t\t0969-2126\n\t\t\n\t\t\t597872\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c52eda7723bebd866772af"},"refKey":89},
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{"_key":"60c52f7e7723bebd8667736e","_id":"references/60c52f7e7723bebd8667736e","_rev":"_cfFliJi---","tei":"\n\t\n\t\tMultiplexing droplet-based single cell RNA-sequencing using natural genetic barcodes\n\t\t\n\t\t\tHyunMinKang\n\t\t\n\t\t\n\t\t\tMeenaSubramaniam\n\t\t\n\t\t\n\t\t\tSashaTarg\n\t\t\n\t\t\n\t\t\tMichelleNguyen\n\t\t\n\t\t\n\t\t\tLenkaMaliskova\n\t\t\n\t\t\n\t\t\tEuniceWan\n\t\t\n\t\t\n\t\t\tSimonWong\n\t\t\n\t\t\n\t\t\tLaurenByrnes\n\t\t\n\t\t\n\t\t\tCristinaLanata\n\t\t\n\t\t\n\t\t\tRachelGate\n\t\t\n\t\t\n\t\t\tSaraMostafavi\n\t\t\n\t\t\n\t\t\tAlexanderMarson\n\t\t\n\t\t\n\t\t\tNoahZaitlen\n\t\t\n\t\t\n\t\t\tLindseyACriswell\n\t\t\n\t\t\n\t\t\tJimmieYe\n\t\t\n\t\t10.1101/118778\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\t\n\t\t\t36\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c52f7e7723bebd8667736d"},"refKey":18},
{"_key":"60c52f7e7723bebd8667736f","_id":"references/60c52f7e7723bebd8667736f","_rev":"_cfFliJu---","tei":"\n\t\n\t\tMULTI-seq: Scalable sample multiplexing for single-cell RNA sequencing using lipid-tagged indices\n\t\t\n\t\t\tChristopherSMcginnis\n\t\t\n\t\t\n\t\t\tDavidMPatterson\n\t\t\n\t\t\n\t\t\tJulianeWinkler\n\t\t\n\t\t\n\t\t\tMarcoYHein\n\t\t\n\t\t\n\t\t\tVasudhaSrivastava\n\t\t\n\t\t\n\t\t\tDanielNConrad\n\t\t\n\t\t\n\t\t\tLyndsayMMurrow\n\t\t\n\t\t\n\t\t\tJonathanSWeissman\n\t\t\n\t\t\n\t\t\tZenaWerb\n\t\t\n\t\t\n\t\t\tEricDChow\n\t\t\n\t\t\n\t\t\tZevJGartner\n\t\t\n\t\t10.1101/387241\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t16\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c52f7e7723bebd8667736d"},"refKey":20},
{"_key":"60c52f847723bebd86677399","_id":"references/60c52f847723bebd86677399","_rev":"_cfFliJ6---","tei":"\n\t\n\t\tGROMACS: A message-passing parallel molecular dynamics implementation\n\t\t\n\t\t\tHJ CBerendsen\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tRVan Drunen\n\t\t\n\t\n\t\n\t\tComput. Phys. Commn\n\t\t\n\t\t\t91\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52f847723bebd86677398"},"refKey":1},
{"_key":"60c52f847723bebd8667739a","_id":"references/60c52f847723bebd8667739a","_rev":"_cfFliKG---","tei":"\n\t\n\t\tGROMACS: Fast, flexible, and free\n\t\t\n\t\t\tDV DSpoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52f847723bebd86677398"},"refKey":12},
{"_key":"60c52f847723bebd8667739b","_id":"references/60c52f847723bebd8667739b","_rev":"_cfFliKS---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tSoftwareX 1-2, 19-25\n\n","document":{"$oid":"60c52f847723bebd86677398"},"refKey":0},
{"_key":"60c52f8c7723bebd866773ba","_id":"references/60c52f8c7723bebd866773ba","_rev":"_cfFliKe---","tei":"\n\t\n\t\tPredicting the functional effect of amino acid substitutions and indels\n\t\t\n\t\t\tYChoi\n\t\t\n\t\t\n\t\t\tGESims\n\t\t\n\t\t\n\t\t\tSMurphy\n\t\t\n\t\t\n\t\t\tJRMiller\n\t\t\n\t\t\n\t\t\tAPChan\n\t\t\n\t\n\t\n\t\tPloS One\n\t\t\n\t\t\t7\n\t\t\t10\n\t\t\te46688\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52f8c7723bebd866773b9"},"refKey":20},
{"_key":"60c52f8c7723bebd866773bb","_id":"references/60c52f8c7723bebd866773bb","_rev":"_cfFliKm---","tei":"\n\t\n\t\tPROVEAN web server: a tool to predict the functional effect of amino acid substitutions and indels\n\t\t\n\t\t\tYChoi\n\t\t\n\t\t\n\t\t\tAPChan\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52f8c7723bebd866773b9"},"refKey":21},
{"_key":"60c52f8c7723bebd866773bc","_id":"references/60c52f8c7723bebd866773bc","_rev":"_cfFliKy---","tei":"\n\t\n\t\tA method and server for predicting damaging missense mutations\n\t\t\n\t\t\tIAAdzhubei\n\t\t\n\t\t\n\t\t\tSSchmidt\n\t\t\n\t\t\n\t\t\tLPeshkin\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t7\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52f8c7723bebd866773b9"},"refKey":22},
{"_key":"60c52f8c7723bebd866773bd","_id":"references/60c52f8c7723bebd866773bd","_rev":"_cfFliL----","tei":"\n\t\n\t\tGenomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding\n\t\t\n\t\t\tRLu\n\t\t\n\t\t\n\t\t\tXZhao\n\t\t\n\t\t\n\t\t\tJLi\n\t\t\n\t\n\t\n\t\tLancet\n\t\t\n\t\t\t395\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52f8c7723bebd866773b9"},"refKey":0},
{"_key":"60c52f8c7723bebd866773be","_id":"references/60c52f8c7723bebd866773be","_rev":"_cfFliLK---","tei":"\n\t\n\t\tThe SWISS-MODEL Repository-new features and functionality\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tTADe Beer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52f8c7723bebd866773b9"},"refKey":23},
{"_key":"60c52f8c7723bebd866773bf","_id":"references/60c52f8c7723bebd866773bf","_rev":"_cfFliLW---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52f8c7723bebd866773b9"},"refKey":24},
{"_key":"60c52f8c7723bebd866773c0","_id":"references/60c52f8c7723bebd866773c0","_rev":"_cfFliLi---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c52f8c7723bebd866773b9"},"refKey":17},
{"_key":"60c52f8c7723bebd866773c1","_id":"references/60c52f8c7723bebd866773c1","_rev":"_cfFliLu---","tei":"\n\t\n\t\tTreeTime: Maximum-likelihood phylodynamic analysis\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tVadimPuller\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\t0000-0003-2525-1407\n\t\t\n\t\t10.1093/ve/vex042\n\t\t29340210\n\t\tPMC5758920\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c52f8c7723bebd866773b9"},"refKey":18},
{"_key":"60c52fbd7723bebd86677412","_id":"references/60c52fbd7723bebd86677412","_rev":"_cfFliL6---","tei":"\n\t\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\tA Language and Environment for Statistical Computing; R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52fbd7723bebd86677411"},"refKey":75},
{"_key":"60c52fc17723bebd8667741a","_id":"references/60c52fc17723bebd8667741a","_rev":"_cfFliMG---","tei":"\n\t\n\t\tSpatio-Temporal Areal Unit Modeling in R with Conditional Autoregressive Priors Using the CARBayesST Package\n\t\t\n\t\t\tDuncanLee\n\t\t\n\t\t\n\t\t\tAlastairRushworth\n\t\t\n\t\t\n\t\t\tGaryNapier\n\t\t\n\t\t10.18637/jss.v084.i09\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t84\n\t\t\t9\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c52fc17723bebd86677419"},"refKey":44},
{"_key":"60c52fcc7723bebd86677426","_id":"references/60c52fcc7723bebd86677426","_rev":"_cfFliMO---","tei":"\n\t\n\t\tMetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads\n\t\t\n\t\t\tToshiakiNamiki\n\t\t\n\t\t\n\t\t\tTsuyoshiHachiya\n\t\t\n\t\t\n\t\t\tHideakiTanaka\n\t\t\n\t\t\n\t\t\tYasubumiSakakibara\n\t\t\n\t\t10.1093/nar/gks678\n\t\t22821567\n\t\tPMC3488206\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c52fcc7723bebd86677425"},"refKey":16},
{"_key":"60c52fcc7723bebd86677427","_id":"references/60c52fcc7723bebd86677427","_rev":"_cfFliMa---","tei":"\n\t\n\t\tErratum: SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tBinghangLiu\n\t\t\n\t\t\n\t\t\tYinlongXie\n\t\t\n\t\t\n\t\t\tZhenyuLi\n\t\t\n\t\t\n\t\t\tWeihuaHuang\n\t\t\n\t\t\n\t\t\tJianyingYuan\n\t\t\n\t\t\n\t\t\tGuangzhuHe\n\t\t\n\t\t\n\t\t\tYanxiangChen\n\t\t\n\t\t\n\t\t\tQiPan\n\t\t\n\t\t\n\t\t\tYunjieLiu\n\t\t\n\t\t\n\t\t\tJingboTang\n\t\t\n\t\t\n\t\t\tGengxiongWu\n\t\t\n\t\t\n\t\t\tHaoZhang\n\t\t\n\t\t\n\t\t\tYujianShi\n\t\t\n\t\t\n\t\t\tYongLiu\n\t\t\n\t\t\n\t\t\tChangYu\n\t\t\n\t\t\n\t\t\tBoWang\n\t\t\n\t\t\n\t\t\tYaoLu\n\t\t\n\t\t\n\t\t\tChangleiHan\n\t\t\n\t\t\n\t\t\tDavidWCheung\n\t\t\n\t\t\n\t\t\tSiu-MingYiu\n\t\t\n\t\t\n\t\t\tShaoliangPeng\n\t\t\n\t\t\n\t\t\tZhuXiaoqian\n\t\t\n\t\t\n\t\t\tGuangmingLiu\n\t\t\n\t\t\n\t\t\tXiangkeLiao\n\t\t\n\t\t\n\t\t\tYingruiLi\n\t\t\n\t\t\n\t\t\tHuanmingYang\n\t\t\n\t\t\n\t\t\tJianWang\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t\n\t\t\tJunWang\n\t\t\n\t\t10.1186/s13742-015-0069-2\n\t\t26161257\n\t\tPMC4496933\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\tGigaSci\n\t\t2047-217X\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t18\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c52fcc7723bebd86677425"},"refKey":13},
{"_key":"60c52fcc7723bebd86677428","_id":"references/60c52fcc7723bebd86677428","_rev":"_cfFliMm---","tei":"\n\t\n\t\tAn Improved Sequence Assembly Program\n\t\t\n\t\t\tXiaoqiuHuang\n\t\t\n\t\t\n\t\t\tAMadan\n\t\t\n\t\t10.1006/geno.1996.0155\n\t\t8617506\n\t\tS0888-7543(96)90155-X\n\t\tark:/67375/6H6-52P2KD3M-9\n\t\tA03DA029060EB407D3641D586BA98D16DE5A2FA4\n\t\n\t\n\t\tGenomics\n\t\tGenomics\n\t\t0888-7543\n\t\t\n\t\t\t33\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c52fcc7723bebd86677425"},"refKey":9},
{"_key":"60c52fcc7723bebd86677429","_id":"references/60c52fcc7723bebd86677429","_rev":"_cfFliMy---","tei":"\n\t\n\t\tABySS: a parallel assembler for short read sequence data\n\t\t\n\t\t\tJTSimpson\n\t\t\n\t\t\n\t\t\tKWong\n\t\t\n\t\t\n\t\t\tSDJackman\n\t\t\n\t\t\n\t\t\tJESchein\n\t\t\n\t\t\n\t\t\tSJJones\n\t\t\n\t\t\n\t\t\tIBirol\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52fcc7723bebd86677425"},"refKey":14},
{"_key":"60c52fcc7723bebd8667742a","_id":"references/60c52fcc7723bebd8667742a","_rev":"_cfFliN----","tei":"\n\t\n\t\tExtending assembly of short DNA sequences to handle error\n\t\t\n\t\t\tWRJeck\n\t\t\n\t\t\n\t\t\tJAReinhardt\n\t\t\n\t\t\n\t\t\tDABaltrus\n\t\t\n\t\t\n\t\t\tMTHickenbotham\n\t\t\n\t\t\n\t\t\tVMagrini\n\t\t\n\t\t\n\t\t\tERMardis\n\t\t\n\t\t\n\t\t\tJLDangl\n\t\t\n\t\t\n\t\t\tCDJones\n\t\t\n\t\t10.1093/bioinformatics/btm451\n\t\t17893086\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c52fcc7723bebd86677425"},"refKey":11},
{"_key":"60c52fcc7723bebd8667742b","_id":"references/60c52fcc7723bebd8667742b","_rev":"_cfFliNK---","tei":"\n\t\n\t\tVelvet: algorithms for de novo short read assembly using de Bruijn graphs\n\t\t\n\t\t\tDRZerbino\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52fcc7723bebd86677425"},"refKey":15},
{"_key":"60c52fcc7723bebd8667742c","_id":"references/60c52fcc7723bebd8667742c","_rev":"_cfFliNW---","tei":"\n\t\n\t\tIntroducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities\n\t\t\n\t\t\tPDSchloss\n\t\t\n\t\t\n\t\t\tSLWestcott\n\t\t\n\t\t\n\t\t\tTRyabin\n\t\t\n\t\t\n\t\t\tJRHall\n\t\t\n\t\t\n\t\t\tMHartmann\n\t\t\n\t\t\n\t\t\tEBHollister\n\t\t\n\t\t\n\t\t\tRALesniewski\n\t\t\n\t\t\n\t\t\tBBOakley\n\t\t\n\t\t\n\t\t\tDHParks\n\t\t\n\t\t\n\t\t\tCJRobinson\n\t\t\n\t\n\t\n\t\tAppl. Environ. Microbiol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c52fcc7723bebd86677425"},"refKey":36},
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{"_key":"60c52ff07723bebd86677458","_id":"references/60c52ff07723bebd86677458","_rev":"_cfFliNu---","tei":"\n\t\n\t\tEfficiency of ab-initio total energy calculations for metals and semiconductors using a plane-wave basis set\n\t\t\n\t\t\tGKresse\n\t\t\n\t\t\n\t\t\tJFurthmüller\n\t\t\n\t\t10.1016/0927-0256(96)00008-0\n\t\t0927-0256(96)00008-0\n\t\tark:/67375/6H6-P9DW9Z98-Q\n\t\t441DA87A48E592B85526AEC1090C1F02D7AB8D19\n\t\n\t\n\t\tComputational Materials Science\n\t\tComputational Materials Science\n\t\t0927-0256\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c52ff07723bebd86677457"},"refKey":22},
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{"_key":"60c530107723bebd86677485","_id":"references/60c530107723bebd86677485","_rev":"_cfFliPK---","tei":"\n\t\n\t\tA new progressive-iterative algorithm for multiple structure alignment\n\t\t\n\t\t\tDLupyan\n\t\t\n\t\t\n\t\t\tALeo-Macias\n\t\t\n\t\t\n\t\t\tAROrtiz\n\t\t\n\t\t10.1093/bioinformatics/bti527\n\t\t15941743\n\t\tark:/67375/HXZ-5X0NB9MF-S\n\t\t3FBF1E71EAC3A231E15561A0169F1083C7E4464E\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c530107723bebd86677484"},"refKey":9},
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{"_key":"60c530b37723bebd866774f0","_id":"references/60c530b37723bebd866774f0","_rev":"_cfFliQy---","tei":"\n\t\n\t\tStructural Equation Modeling with the Smartpls\n\t\t\n\t\t\tChristianMRingle\n\t\t\n\t\t\n\t\t\tDirceuDa Silva\n\t\t\n\t\t\n\t\t\tDiógenesDe SouzaBido\n\t\t\n\t\t10.5585/remark.v13i2.2717\n\t\t\n\t\n\t\n\t\tRevista Brasileira de Marketing\n\t\tREMark\n\t\t2177-5184\n\t\t\n\t\t\t13\n\t\t\t02\n\t\t\t\n\t\t\t\n\t\t\tUniversity Nove de Julho\n\t\t\n\t\n\n","document":{"$oid":"60c530b37723bebd866774ef"},"refKey":55},
{"_key":"60c530b47723bebd866774f5","_id":"references/60c530b47723bebd866774f5","_rev":"_cfFliR----","tei":"\n\t\n\t\tSwissADME: a free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules\n\t\t\n\t\t\tAntoineDaina\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t10.1038/srep42717\n\t\t28256516\n\t\tPMC5335600\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSci. Rep. 2017, 7, 42717. [CrossRef\n\n","document":{"$oid":"60c530b47723bebd866774f4"},"refKey":16},
{"_key":"60c530b47723bebd866774f6","_id":"references/60c530b47723bebd866774f6","_rev":"_cfFliRK---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c530b47723bebd866774f4"},"refKey":36},
{"_key":"60c530ef7723bebd86677529","_id":"references/60c530ef7723bebd86677529","_rev":"_cfFliRW---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c530ef7723bebd86677528"},"refKey":88},
{"_key":"60c5313b7723bebd86677550","_id":"references/60c5313b7723bebd86677550","_rev":"_cfFliRi---","tei":"\n\t\n\t\tFLEXBAR—Flexible Barcode and Adapter Processing for Next-Generation Sequencing Platforms\n\t\t\n\t\t\tMatthiasDodt\n\t\t\n\t\t\n\t\t\tJohannesRoehr\n\t\t\n\t\t\n\t\t\tRinaAhmed\n\t\t\n\t\t\n\t\t\tChristophDieterich\n\t\t\n\t\t10.3390/biology1030895\n\t\t24832523\n\t\tPMC4009805\n\t\t\n\t\n\t\n\t\tBiology\n\t\tBiology\n\t\t2079-7737\n\t\t\n\t\t\t1\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c5313b7723bebd8667754f"},"refKey":57},
{"_key":"60c531777723bebd8667757d","_id":"references/60c531777723bebd8667757d","_rev":"_cfFliRu---","tei":"\n\t\n\t\tSAS Institute. SAS/GRAPH 9.1 Reference; SAS Institute\n\t\t\t\tCary, CA, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c531777723bebd8667757c"},"refKey":22},
{"_key":"60c5318a7723bebd86677588","_id":"references/60c5318a7723bebd86677588","_rev":"_cfFliR6---","tei":"\n\t\n\t\tBayesian phylodynamic inference on the temporal evolution and global transmission of SARS-CoV-2\n\t\t\n\t\t\tJLi\n\t\t\n\t\t\n\t\t\tZLi\n\t\t\n\t\t\n\t\t\tXCui\n\t\t\n\t\t\n\t\t\tCWu\n\t\t\n\t\t10.1016/j.jinf.2020.04.016\n\t\n\t\n\t\tJ Infect\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5318a7723bebd86677587"},"refKey":15},
{"_key":"60c531e17723bebd866775b6","_id":"references/60c531e17723bebd866775b6","_rev":"_cfFliSG---","tei":"\n\t\n\t\tComputation of measures of effect size for neuroscience data sets\n\t\t\n\t\t\tHaraldHentschke\n\t\t\n\t\t\n\t\t\tMaikCStüttgen\n\t\t\n\t\t10.1111/j.1460-9568.2011.07902.x\n\t\t22082031\n\t\tark:/67375/WNG-KRDFXWHF-2\n\t\t2394AA57BFA7C425A6A09845E604D3A2BF70F554\n\t\n\t\n\t\tEuropean Journal of Neuroscience\n\t\t0953-816X\n\t\t\n\t\t\t34\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c531e17723bebd866775b5"},"refKey":30},
{"_key":"60c531ea7723bebd866775c0","_id":"references/60c531ea7723bebd866775c0","_rev":"_cfFliSS---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\t\n\t\n\t\n\t\tInterJournal\n\t\t\n\t\t\t1695\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c531ea7723bebd866775bf"},"refKey":30},
{"_key":"60c531f87723bebd866775c9","_id":"references/60c531f87723bebd866775c9","_rev":"_cfFliSe---","tei":"\n\t\n\t\tInterPro and InterProScan: Tools for Protein Sequence Classification and Comparison\n\t\t\n\t\t\tNicolaMulder\n\t\t\n\t\t\n\t\t\tRolfApweiler\n\t\t\n\t\t10.1385/1-59745-515-6:59\n\t\n\t\n\t\tComparative Genomics\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t2007\n\t\t\t396\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c531f87723bebd866775c8"},"refKey":36},
{"_key":"60c5323d7723bebd8667761b","_id":"references/60c5323d7723bebd8667761b","_rev":"_cfFliSm---","tei":"\n\t\n\t\tJAGS: A program for analysis of Bayesian graphical models using Gibbs sampling\n\t\t\n\t\t\tMPlummer\n\t\t\n\t\t\n\t\t\t\n\t\t\t125\n\t\t\tVienna\n\t\t\n\t\n\n","document":{"$oid":"60c5323d7723bebd8667761a"},"refKey":10},
{"_key":"60c532587723bebd86677640","_id":"references/60c532587723bebd86677640","_rev":"_cfFliSy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAPBento\n\t\t\n\t\t\n\t\t\tAGaulton\n\t\t\n\t\t\n\t\t\tAHersey\n\t\t\n\t\t\n\t\t\tLJBellis\n\t\t\n\t\t\n\t\t\tJChambers\n\t\t\n\t\t\n\t\t\tMDavies\n\t\t\n\t\t\n\t\t\tFAKrüger\n\t\t\n\t\t\n\t\t\tYLight\n\t\t\n\t\t\n\t\t\tLMak\n\t\t\n\t\t\n\t\t\tSMcglinchey\n\t\t\n\t\t\n\t\t\tMNowotka\n\t\t\n\t\t\n\t\t\tGPapadatos\n\t\t\n\t\t\n\t\t\tRSantos\n\t\t\n\t\t\n\t\t\tJPOverington\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\tD1083\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c532587723bebd8667763f"},"refKey":28},
{"_key":"60c532a47723bebd86677666","_id":"references/60c532a47723bebd86677666","_rev":"_cfFliT----","tei":"\n\t\n\t\tFitting linear mixed-effects models using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMächler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\t&SWalker\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c532a47723bebd86677665"},"refKey":49},
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{"_key":"60c532e57723bebd8667767f","_id":"references/60c532e57723bebd8667767f","_rev":"_cfFliTW---","tei":"\n\t\n\t\tiNEXT: an R package for rarefaction and extrapolation of species diversity (Hill numbers)\n\t\t\n\t\t\tTCHsieh\n\t\t\n\t\t\n\t\t\tKHMa\n\t\t\n\t\t\n\t\t\tAChao\n\t\t\n\t\n\t\n\t\tMethods Ecol Evol\n\t\t\n\t\t\t7\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c532e57723bebd8667767e"},"refKey":37},
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{"_key":"60c532e57723bebd86677681","_id":"references/60c532e57723bebd86677681","_rev":"_cfFliTu---","tei":"\n\t\n\t\tranacapa: An R package and Shiny web app to explore environmental DNA data with exploratory statistics and interactive visualizations\n\t\t\n\t\t\tGauravSKandlikar\n\t\t\t0000-0003-3043-6780\n\t\t\n\t\t\n\t\t\tZacharyJGold\n\t\t\n\t\t\n\t\t\tMadelineCCowen\n\t\t\n\t\t\n\t\t\tRachelSMeyer\n\t\t\n\t\t\n\t\t\tAmandaCFreise\n\t\t\t0000-0002-8704-5185\n\t\t\n\t\t\n\t\t\tNathanJ BKraft\n\t\t\n\t\t\n\t\t\tJordanMoberg-Parker\n\t\t\t0000-0003-1445-9587\n\t\t\n\t\t\n\t\t\tJoshuaSprague\n\t\t\n\t\t\n\t\t\tDavidJKushner\n\t\t\n\t\t\n\t\t\tEmilyECurd\n\t\t\n\t\t10.12688/f1000research.16680.1\n\t\t30613396\n\t\tPMC6305237\n\t\t\n\t\n\t\n\t\tF1000Research\n\t\tF1000Res\n\t\t2046-1402\n\t\t\n\t\t\t7\n\t\t\t0\n\t\t\t1734\n\t\t\t\n\t\t\tF1000 ( Faculty of 1000 Ltd)\n\t\t\n\t\n\tversion 1; referees: 1 approved, 2 approved with reservations\n\n","document":{"$oid":"60c532e57723bebd8667767e"},"refKey":38},
{"_key":"60c532e57723bebd86677682","_id":"references/60c532e57723bebd86677682","_rev":"_cfFliT6---","tei":"\n\t\n\t\tPhyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data\n\t\t\n\t\t\tPJMcmurdie\n\t\t\n\t\t\n\t\t\tSHolmes\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c532e57723bebd8667767e"},"refKey":35},
{"_key":"60c532e57723bebd86677683","_id":"references/60c532e57723bebd86677683","_rev":"_cfFliUG---","tei":"\n\t\n\t\tAnacapa Toolkit: an environmental DNA toolkit for processing multilocus metabarcode datasets\n\t\t\n\t\t\tEmilyECurd\n\t\t\t0000-0003-0336-6852\n\t\t\n\t\t\n\t\t\tZackGold\n\t\t\t0000-0003-0490-7630\n\t\t\n\t\t\n\t\t\tGauravSKandlikar\n\t\t\t0000-0003-3043-6780\n\t\t\n\t\t\n\t\t\tJesseGomer\n\t\t\n\t\t\n\t\t\tMaxOgden\n\t\t\n\t\t\n\t\t\tTaylorO’connell\n\t\t\n\t\t\n\t\t\tLenorePipes\n\t\t\n\t\t\n\t\t\tTeiaSchweizer\n\t\t\n\t\t\n\t\t\tLauraRabichow\n\t\t\n\t\t\n\t\t\tMeixiLin\n\t\t\n\t\t\n\t\t\tBaochenShi\n\t\t\n\t\t\n\t\t\tPaulBarber\n\t\t\n\t\t\n\t\t\tNathanKraft\n\t\t\n\t\t\n\t\t\tRobertWayne\n\t\t\n\t\t\n\t\t\tRachelSMeyer\n\t\t\n\t\t10.1101/488627\n\t\t\n\t\n\t\n\t\tMethods Ecol Evol\n\t\t\n\t\t\t10\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c532e57723bebd8667767e"},"refKey":22},
{"_key":"60c532e57723bebd86677684","_id":"references/60c532e57723bebd86677684","_rev":"_cfFliUO---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c532e57723bebd8667767e"},"refKey":33},
{"_key":"60c532e57723bebd86677685","_id":"references/60c532e57723bebd86677685","_rev":"_cfFliUa---","tei":"\n\t\n\t\tmicroDecon: A highly accurate read‐subtraction tool for the post‐sequencing removal of contamination in metabarcoding studies\n\t\t\n\t\t\tDonaldTMcknight\n\t\t\t0000-0001-8543-098X\n\t\t\n\t\t\n\t\t\tRogerHuerlimann\n\t\t\t0000-0002-6020-334X\n\t\t\n\t\t\n\t\t\tDeborahSBower\n\t\t\n\t\t\n\t\t\tLinSchwarzkopf\n\t\t\t0000-0002-1009-670X\n\t\t\n\t\t\n\t\t\tRossAAlford\n\t\t\n\t\t\n\t\t\tKyallRZenger\n\t\t\n\t\t10.1002/edn3.11\n\t\t\n\t\n\t\n\t\tEnvironmental DNA\n\t\tEnvironmental DNA\n\t\t2637-4943\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c532e57723bebd8667767e"},"refKey":30},
{"_key":"60c532e57723bebd86677686","_id":"references/60c532e57723bebd86677686","_rev":"_cfFliUm---","tei":"\n\t\n\t\tGruinard Decon Version 0.0\n\t\t\n\t\t\tZGold\n\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c532e57723bebd8667767e"},"refKey":31},
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{"_key":"60c532e97723bebd8667769b","_id":"references/60c532e97723bebd8667769b","_rev":"_cfFliV----","tei":"\n\t\n\t\tTranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations\n\t\t\n\t\t\tFAbascal\n\t\t\n\t\t\n\t\t\tRZardoya\n\t\t\n\t\t\n\t\t\tMJTelford\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c532e97723bebd8667769a"},"refKey":0},
{"_key":"60c532e97723bebd8667769c","_id":"references/60c532e97723bebd8667769c","_rev":"_cfFliVK---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c532e97723bebd8667769a"},"refKey":4},
{"_key":"60c532f07723bebd866776a6","_id":"references/60c532f07723bebd866776a6","_rev":"_cfFliVW---","tei":"\n\t\n\t\tA Language and Environment for Statistical Computing\n\t\t\n\t\t\tRDevelopment Core\n\t\t\n\t\t\n\t\t\tTeam\n\t\t\n\t\t\n\t\n\t\n\t\t351jmbntvnsjt1aadkposzje))/reference/ReferencesPapers.aspx?ReferenceID=2600003\n\t\t\t\t\n\t\t\t\n\t\t\t11\n\t\t\n\t\n\n","document":{"$oid":"60c532f07723bebd866776a5"},"refKey":32},
{"_key":"60c533077723bebd866776aa","_id":"references/60c533077723bebd866776aa","_rev":"_cfFliVi---","tei":"\n\t\n\t\tHLA typing from RNA-Seq sequence reads\n\t\t\n\t\t\tSebastianBoegel\n\t\t\n\t\t\n\t\t\tMartinLöwer\n\t\t\n\t\t\n\t\t\tMichaelSchäfer\n\t\t\n\t\t\n\t\t\tThomasBukur\n\t\t\n\t\t\n\t\t\tJosDe Graaf\n\t\t\n\t\t\n\t\t\tValescaBoisguérin\n\t\t\n\t\t\n\t\t\tÖzlemTüreci\n\t\t\n\t\t\n\t\t\tMustafaDiken\n\t\t\n\t\t\n\t\t\tJohnCCastle\n\t\t\n\t\t\n\t\t\tUgurSahin\n\t\t\n\t\t10.1186/gm403\n\t\t23259685\n\t\tPMC4064318\n\t\t\n\t\n\t\n\t\tGenome Medicine\n\t\tGenome Medicine\n\t\t1756-994X\n\t\t\n\t\t\t4\n\t\t\t12\n\t\t\t102\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c533077723bebd866776a9"},"refKey":26},
{"_key":"60c533077723bebd866776ab","_id":"references/60c533077723bebd866776ab","_rev":"_cfFliVu---","tei":"\n\t\n\t\tDerivation of HLA types from shotgun sequence datasets\n\t\t\n\t\t\tRenéLWarren\n\t\t\n\t\t\n\t\t\tGinaChoe\n\t\t\n\t\t\n\t\t\tDouglasJFreeman\n\t\t\n\t\t\n\t\t\tMauroCastellarin\n\t\t\n\t\t\n\t\t\tSarahMunro\n\t\t\n\t\t\n\t\t\tRichardMoore\n\t\t\n\t\t\n\t\t\tRobertAHolt\n\t\t\n\t\t10.1186/gm396\n\t\t23228053\n\t\tPMC3580435\n\t\t\n\t\n\t\n\t\tGenome Medicine\n\t\tGenome Medicine\n\t\t1756-994X\n\t\t\n\t\t\t4\n\t\t\t12\n\t\t\t95\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c533077723bebd866776a9"},"refKey":27},
{"_key":"60c533077723bebd866776ac","_id":"references/60c533077723bebd866776ac","_rev":"_cfFliV6---","tei":"\n\t\n\t\tOptiType: precision HLA typing from next-generation sequencing data\n\t\t\n\t\t\tASzolek\n\t\t\n\t\t\n\t\t\tBSchubert\n\t\t\n\t\t\n\t\t\tCMohr\n\t\t\n\t\t\n\t\t\tMSturm\n\t\t\n\t\t\n\t\t\tMFeldhahn\n\t\t\n\t\t\n\t\t\tOKohlbacher\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c533077723bebd866776a9"},"refKey":25},
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{"_key":"60c5333a7723bebd866776d6","_id":"references/60c5333a7723bebd866776d6","_rev":"_cfFliWW---","tei":"\n\t\n\t\tImproved tools for biological sequence comparison\n\t\t\n\t\t\tWRPearson\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. U.S.A\n\t\t\n\t\t\t85\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5333a7723bebd866776d5"},"refKey":145},
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{"_key":"60c5339e7723bebd86677727","_id":"references/60c5339e7723bebd86677727","_rev":"_cfFliXm---","tei":"\n\t\n\t\tImpact on patient outcome of emergency department length of stay prior to ICU admission\n\t\t\n\t\t\tRGarcía-Gigorro\n\t\t\n\t\t\n\t\t\tFDe La Cruz Vigo\n\t\t\n\t\t\n\t\t\tEMAndrés-Esteban\n\t\t\n\t\t\n\t\t\tSChacón-Alves\n\t\t\n\t\t\n\t\t\tGMorales Varas\n\t\t\n\t\t\n\t\t\tJASánchez-Izquierdo\n\t\t\n\t\t\n\t\t\tJCMontejo González\n\t\t\n\t\t10.1016/j.medin.2016.05.008\n\t\t27553889\n\t\t\n\t\n\t\n\t\tMedicina Intensiva\n\t\tMedicina Intensiva\n\t\t0210-5691\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5339e7723bebd86677725"},"refKey":32},
{"_key":"60c533a87723bebd8667772a","_id":"references/60c533a87723bebd8667772a","_rev":"_cfFliX2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c533a87723bebd86677729"},"refKey":21},
{"_key":"60c533d57723bebd8667774f","_id":"references/60c533d57723bebd8667774f","_rev":"_cfFliYG---","tei":"\n\t\n\t\tRAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c533d57723bebd8667774e"},"refKey":45},
{"_key":"60c533f37723bebd86677767","_id":"references/60c533f37723bebd86677767","_rev":"_cfFliYW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\t;Bruker\n\t\t\n\t\t\n\t\t\tApex2\n\t\t\n\t\t\n\t\t\tSadabs\n\t\t\n\t\t\n\t\t\tShelxtl\n\t\t\n\t\t\n\t\t\t-AxsBruker\n\t\t\n\t\t\n\t\t\tWIMadison\n\t\t\n\t\t\n\t\t\tUsa\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c533f37723bebd86677766"},"refKey":6},
{"_key":"60c534147723bebd8667778a","_id":"references/60c534147723bebd8667778a","_rev":"_cfFliYi---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c534147723bebd86677789"},"refKey":26},
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{"_key":"60c534347723bebd866777a4","_id":"references/60c534347723bebd866777a4","_rev":"_cfFliZ----","tei":"\n\t\n\t\tElectron-correlated fragment-molecular-orbital calculations for biomolecular and nano systems\n\t\t\n\t\t\tShigenoriTanaka\n\t\t\n\t\t\n\t\t\tYujiMochizuki\n\t\t\n\t\t\n\t\t\tYutoKomeiji\n\t\t\n\t\t\n\t\t\tYoshioOkiyama\n\t\t\n\t\t\n\t\t\tKaoriFukuzawa\n\t\t\n\t\t10.1039/c4cp00316k\n\t\t24740821\n\t\n\t\n\t\tPhys. Chem. Chem. Phys.\n\t\tPhys. Chem. Chem. Phys.\n\t\t1463-9076\n\t\t1463-9084\n\t\t\n\t\t\t16\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tRoyal Society of Chemistry (RSC)\n\t\t\n\t\n\n","document":{"$oid":"60c534347723bebd866777a2"},"refKey":19},
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{"_key":"60c534967723bebd86677807","_id":"references/60c534967723bebd86677807","_rev":"_cfFlibK---","tei":"\n\t\n\t\tSolvation thermodynamic mapping of molecular surfaces in AmberTools: GIST\n\t\t\n\t\t\tStevenRamsey\n\t\t\n\t\t\n\t\t\tCrystalNguyen\n\t\t\n\t\t\n\t\t\tRomeliaSalomon-Ferrer\n\t\t\n\t\t\n\t\t\tRossCWalker\n\t\t\n\t\t\n\t\t\tMichaelKGilson\n\t\t\n\t\t\n\t\t\tTomKurtzman\n\t\t\n\t\t10.1002/jcc.24417\n\t\t27317094\n\t\tPMC5052087\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t37\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c534967723bebd86677805"},"refKey":20},
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{"_key":"60c534967723bebd86677809","_id":"references/60c534967723bebd86677809","_rev":"_cfFlibi---","tei":"\n\t\n\t\tThree-Dimensional Molecular Theory of Solvation Coupled with Molecular Dynamics in Amber\n\t\t\n\t\t\tTylerLuchko\n\t\t\n\t\t\n\t\t\tSergeyGusarov\n\t\t\n\t\t\n\t\t\tDanielRRoe\n\t\t\n\t\t\n\t\t\tCarlosSimmerling\n\t\t\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tJackTuszynski\n\t\t\n\t\t\n\t\t\tAndriyKovalenko\n\t\t\n\t\t10.1021/ct900460m\n\t\t20440377\n\t\tPMC2861832\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t6\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c534967723bebd86677805"},"refKey":23},
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{"_key":"60c534f17723bebd86677847","_id":"references/60c534f17723bebd86677847","_rev":"_cfFlicG---","tei":"\n\t\n\t\tA gradient-boosting approach for filtering de novo mutations in parent–offspring trios\n\t\t\n\t\t\tYongzhuangLiu\n\t\t\n\t\t\n\t\t\tBingshanLi\n\t\t\n\t\t\n\t\t\tRenjieTan\n\t\t\n\t\t\n\t\t\tXiaolinZhu\n\t\t\n\t\t\n\t\t\tYadongWang\n\t\t\n\t\t10.1093/bioinformatics/btu141\n\t\t24618463\n\t\tPMC4071207\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c534f17723bebd86677846"},"refKey":36},
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{"_key":"60c534f17723bebd86677849","_id":"references/60c534f17723bebd86677849","_rev":"_cfFlica---","tei":"\n\t\n\t\tA Bayesian framework for de novo mutation calling in parents-offspring trios\n\t\t\n\t\t\tQiangWei\n\t\t\n\t\t\n\t\t\tXiaoweiZhan\n\t\t\n\t\t\n\t\t\tXueZhong\n\t\t\n\t\t\n\t\t\tYongzhuangLiu\n\t\t\n\t\t\n\t\t\tYujunHan\n\t\t\n\t\t\n\t\t\tWeiChen\n\t\t\n\t\t\n\t\t\tBingshanLi\n\t\t\n\t\t10.1093/bioinformatics/btu839\n\t\t25535243\n\t\tPMC4410659\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c534f17723bebd86677846"},"refKey":35},
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{"_key":"60c535717723bebd866778af","_id":"references/60c535717723bebd866778af","_rev":"_cfFliee---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c535717723bebd866778ad"},"refKey":23},
{"_key":"60c535717723bebd866778b0","_id":"references/60c535717723bebd866778b0","_rev":"_cfFlieq---","tei":"\n\t\n\t\tUnipro UGENE: a unified bioinformatics toolkit\n\t\t\n\t\t\tKonstantinOkonechnikov\n\t\t\n\t\t\n\t\t\tOlgaGolosova\n\t\t\n\t\t\n\t\t\tMikhailFursov\n\t\t\n\t\t10.1093/bioinformatics/bts091\n\t\t22368248\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c535717723bebd866778ad"},"refKey":25},
{"_key":"60c535717723bebd866778b1","_id":"references/60c535717723bebd866778b1","_rev":"_cfFliey---","tei":"\n\t\n\t\tIDT SciTools: a suite for analysis and design of nucleic acid oligomers\n\t\t\n\t\t\tROwczarzy\n\t\t\n\t\t\n\t\t\tAVTataurov\n\t\t\n\t\t\n\t\t\tYWu\n\t\t\n\t\t\n\t\t\tJAManthey\n\t\t\n\t\t\n\t\t\tKAMcquisten\n\t\t\n\t\t\n\t\t\tHGAlmabrazi\n\t\t\n\t\t\n\t\t\tKFPedersen\n\t\t\n\t\t\n\t\t\tYLin\n\t\t\n\t\t\n\t\t\tJGarretson\n\t\t\n\t\t\n\t\t\tNOMcentaggart\n\t\t\n\t\t\n\t\t\tCASailor\n\t\t\n\t\t\n\t\t\tRBDawson\n\t\t\n\t\t\n\t\t\tASPeek\n\t\t\n\t\t10.1093/nar/gkn198\n\t\t18440976\n\t\tPMC2447751\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c535717723bebd866778ad"},"refKey":31},
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{"_key":"60c5358b7723bebd866778c3","_id":"references/60c5358b7723bebd866778c3","_rev":"_cfFlifW---","tei":"\n\t\n\t\tAnalysis of combinations of antiviral drugs and design of effective multidrug therapies\n\t\t\n\t\t\tMNPrichard\n\t\t\n\t\t\n\t\t\tCShipmanJr\n\t\t\n\t\n\t\n\t\tAntivir. Ther\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5358b7723bebd866778c1"},"refKey":29},
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{"_key":"60c5359f7723bebd866778ca","_id":"references/60c5359f7723bebd866778ca","_rev":"_cfFlifu---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5359f7723bebd866778c8"},"refKey":201},
{"_key":"60c5359f7723bebd866778cb","_id":"references/60c5359f7723bebd866778cb","_rev":"_cfFlif6---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJ-FDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5359f7723bebd866778c8"},"refKey":183},
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{"_key":"60c5359f7723bebd866778cd","_id":"references/60c5359f7723bebd866778cd","_rev":"_cfFligO---","tei":"\n\t\n\t\tphytools: an R package for phylogenetic comparative biology (and other things)\n\t\t\n\t\t\tLJRevell\n\t\t\n\t\n\t\n\t\tMethods Ecol Evol\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5359f7723bebd866778c8"},"refKey":206},
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{"_key":"60c536f97723bebd86677a28","_id":"references/60c536f97723bebd86677a28","_rev":"_cfFlim----","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c536f87723bebd86677a26"},"refKey":189},
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{"_key":"60c536f97723bebd86677a30","_id":"references/60c536f97723bebd86677a30","_rev":"_cfFlina---","tei":"\n\t\n\t\tA new generation of homology search tools based on probabilistic inference\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t20180275\n\t\n\t\n\t\tGenome Inform\n\t\t\n\t\t\t23\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c536f87723bebd86677a26"},"refKey":220},
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{"_key":"60c536f97723bebd86677a33","_id":"references/60c536f97723bebd86677a33","_rev":"_cfFlio----","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c536f87723bebd86677a26"},"refKey":192},
{"_key":"60c5370c7723bebd86677a4e","_id":"references/60c5370c7723bebd86677a4e","_rev":"_cfFlioG---","tei":"\n\t\n\t\tBuilding customized program analysis tools with dynamic instrumentation\n\t\t\n\t\t\tC.-KLuk\n\t\t\n\t\n\t\n\t\tSIGPLAN Not\n\t\t\n\t\t\t40\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5370c7723bebd86677a4d"},"refKey":7},
{"_key":"60c537177723bebd86677a57","_id":"references/60c537177723bebd86677a57","_rev":"_cfFlioS---","tei":"\n\t\n\t\tFoundation M. An introduction to recursive partitioning using the RPART routines\n\t\t\n\t\t\tTMTherneau\n\t\t\n\t\t\n\t\t\tEJAtkinson\n\t\t\n\t\n\t\n\t\tJournal\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c537177723bebd86677a56"},"refKey":31},
{"_key":"60c537177723bebd86677a58","_id":"references/60c537177723bebd86677a58","_rev":"_cfFlioe---","tei":"\n\t\n\t\tRattle: a data mining GUI for R\n\t\t\n\t\t\tGJWilliams\n\t\t\n\t\n\t\n\t\tJournal\n\t\t\n\t\t\t1\n\t\t\t45\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c537177723bebd86677a56"},"refKey":32},
{"_key":"60c537177723bebd86677a59","_id":"references/60c537177723bebd86677a59","_rev":"_cfFlioq---","tei":"\n\t\n\t\tAn Introduction to glmnet\n\t\t\n\t\t\tTHastie\n\t\t\n\t\t\n\t\t\tJQian\n\t\t\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c537177723bebd86677a56"},"refKey":33},
{"_key":"60c5374e7723bebd86677a75","_id":"references/60c5374e7723bebd86677a75","_rev":"_cfFlio2---","tei":"\n\t\n\t\tDistributed representations of sentences and documents\n\t\t\n\t\t\tQLe\n\t\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\t\n\t\t\t\n\t\t\tICLR\n\t\t\n\t\n\n","document":{"$oid":"60c5374e7723bebd86677a74"},"refKey":11},
{"_key":"60c537747723bebd86677a9b","_id":"references/60c537747723bebd86677a9b","_rev":"_cfFlipC---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\n\t\n\t\tEMBnet J\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c537747723bebd86677a9a"},"refKey":49},
{"_key":"60c537747723bebd86677a9c","_id":"references/60c537747723bebd86677a9c","_rev":"_cfFlipO---","tei":"\n\t\n\t\tUltrafast and memoryefficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c537747723bebd86677a9a"},"refKey":41},
{"_key":"60c537747723bebd86677a9d","_id":"references/60c537747723bebd86677a9d","_rev":"_cfFlipa---","tei":"\n\t\n\t\tPhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions\n\t\t\n\t\t\tMFLin\n\t\t\n\t\t\n\t\t\tIJungreis\n\t\t\n\t\t\n\t\t\tMKellis\n\t\t\n\t\t10.1093/bioinformatics/btr209\n\t\t21685081\n\t\tPMC3117341\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c537747723bebd86677a9a"},"refKey":48},
{"_key":"60c537747723bebd86677a9e","_id":"references/60c537747723bebd86677a9e","_rev":"_cfFlipi---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c537747723bebd86677a9a"},"refKey":19},
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{"_key":"60c537787723bebd86677ab2","_id":"references/60c537787723bebd86677ab2","_rev":"_cfFlip6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tMField\n\t\t\n\t\t\n\t\t\tJHeled\n\t\t\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tGeneious v5.4 [computer program\n\n","document":{"$oid":"60c537787723bebd86677ab1"},"refKey":20},
{"_key":"60c5377f7723bebd86677ab7","_id":"references/60c5377f7723bebd86677ab7","_rev":"_cfFliqG---","tei":"\n\t\n\t\tLoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasets\n\t\t\n\t\t\tAndreasWilm\n\t\t\n\t\t\n\t\t\tPaulinePoh KimAw\n\t\t\n\t\t\n\t\t\tDenisBertrand\n\t\t\n\t\t\n\t\t\tGraceHui TingYeo\n\t\t\n\t\t\n\t\t\tSweeHoeOng\n\t\t\n\t\t\n\t\t\tChangHuaWong\n\t\t\n\t\t\n\t\t\tChieaChuenKhor\n\t\t\n\t\t\n\t\t\tRosemaryPetric\n\t\t\n\t\t\n\t\t\tMartinLloydHibberd\n\t\t\n\t\t\n\t\t\tNiranjanNagarajan\n\t\t\n\t\t10.1093/nar/gks918\n\t\t23066108\n\t\tPMC3526318\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5377f7723bebd86677ab6"},"refKey":61},
{"_key":"60c5379b7723bebd86677ad4","_id":"references/60c5379b7723bebd86677ad4","_rev":"_cfFliqS---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5379b7723bebd86677ad3"},"refKey":35},
{"_key":"60c5379b7723bebd86677ad5","_id":"references/60c5379b7723bebd86677ad5","_rev":"_cfFliqe---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5379b7723bebd86677ad3"},"refKey":5},
{"_key":"60c537ec7723bebd86677b36","_id":"references/60c537ec7723bebd86677b36","_rev":"_cfFliqq---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Found\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\n\t\n\t\tStat. Comput\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c537ec7723bebd86677b35"},"refKey":16},
{"_key":"60c537ec7723bebd86677b37","_id":"references/60c537ec7723bebd86677b37","_rev":"_cfFliq2---","tei":"\n\t\n\t\tConducting meta-analyses in R with the metafor\n\t\t\n\t\t\tWViechtbauer\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c537ec7723bebd86677b35"},"refKey":17},
{"_key":"60c538387723bebd86677b53","_id":"references/60c538387723bebd86677b53","_rev":"_cfFlirC---","tei":"\n\t\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\tIBM SPSS Statistics for Windows; Version 26.0; IBM Corp\n\t\t\t\tArmonk, NY, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c538387723bebd86677b52"},"refKey":49},
{"_key":"60c5386e7723bebd86677b85","_id":"references/60c5386e7723bebd86677b85","_rev":"_cfFlirO---","tei":"\n\t\n\t\tHigh-resolution magnetic resonance imaging reveals nuclei of the human amygdala: manual segmentation to automatic atlas\n\t\t\n\t\t\tZMSaygin\n\t\t\n\t\t\n\t\t\tDKliemann\n\t\t\n\t\t\n\t\t\tJEIglesias\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t155\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5386e7723bebd86677b84"},"refKey":15},
{"_key":"60c5386e7723bebd86677b86","_id":"references/60c5386e7723bebd86677b86","_rev":"_cfFlirW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t\n\t\t\tCFBeckmann\n\t\t\n\t\t\n\t\t\tTEBehrens\n\t\t\n\t\t\n\t\t\tMWWoolrich\n\t\t\n\t\t\n\t\t\tSMSmith\n\t\t\n\t\t\n\t\t\tFsl\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t62\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5386e7723bebd86677b84"},"refKey":14},
{"_key":"60c538827723bebd86677b99","_id":"references/60c538827723bebd86677b99","_rev":"_cfFliri---","tei":"\n\t\n\t\tPrincipal Component Analysis of the Effects of Environmental Enrichment and (-)-epigallocatechin-3-gallate on Age-Associated Learning Deficits in a Mouse Model of Down Syndrome\n\t\t\n\t\t\tSilvinaCatuara-Solarz\n\t\t\n\t\t\n\t\t\tJoseEspinosa-Carrasco\n\t\t\n\t\t\n\t\t\tIonasErb\n\t\t\n\t\t\n\t\t\tKlausLangohr\n\t\t\n\t\t\n\t\t\tCedricNotredame\n\t\t\n\t\t\n\t\t\tJuanRGonzalez\n\t\t\n\t\t\n\t\t\tMaraDierssen\n\t\t\n\t\t10.3389/fnbeh.2015.00330\n\t\t26696850\n\t\tPMC4675859\n\t\t\n\t\n\t\n\t\tFrontiers in Behavioral Neuroscience\n\t\tFront. Behav. Neurosci.\n\t\t1662-5153\n\t\t\n\t\t\t9\n\t\t\t330\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c538827723bebd86677b98"},"refKey":25},
{"_key":"60c538827723bebd86677b9a","_id":"references/60c538827723bebd86677b9a","_rev":"_cfFliru---","tei":"\n\t\n\t\tFactoMineR: AnRPackage for multivariate analysis\n\t\t\n\t\t\tSLê\n\t\t\n\t\t\n\t\t\tJJosse\n\t\t\n\t\t\n\t\t\tFHusson\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c538827723bebd86677b98"},"refKey":26},
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{"_key":"60c538827723bebd86677b9c","_id":"references/60c538827723bebd86677b9c","_rev":"_cfFlisG---","tei":"\n\t\n\t\tVisualizing Social Science Data with 'ggplot2\n\t\t\n\t\t\tFTiedemann\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c538827723bebd86677b98"},"refKey":19},
{"_key":"60c5389c7723bebd86677bb5","_id":"references/60c5389c7723bebd86677bb5","_rev":"_cfFlisS---","tei":"\n\t\n\t\tZDOCK: an initial-stage proteindocking algorithm\n\t\t\n\t\t\tRChen\n\t\t\n\t\t\n\t\t\tLLi\n\t\t\n\t\t\n\t\t\tZWeng\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t52\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5389c7723bebd86677bb4"},"refKey":21},
{"_key":"60c5389c7723bebd86677bb6","_id":"references/60c5389c7723bebd86677bb6","_rev":"_cfFlise---","tei":"\n\t\n\t\tA novel shape complementarity scoring function for protein-protein docking\n\t\t\n\t\t\tRongChen\n\t\t\n\t\t\n\t\t\tZhipingWeng\n\t\t\n\t\t10.1002/prot.10334\n\t\t12696051\n\t\tark:/67375/WNG-ZXQ9HCLJ-D\n\t\t0C60BB86559DDFACEBFE9E4E711481EDB7A3DFA4\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t51\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5389c7723bebd86677bb4"},"refKey":22},
{"_key":"60c5389c7723bebd86677bb7","_id":"references/60c5389c7723bebd86677bb7","_rev":"_cfFlisq---","tei":"\n\t\n\t\tRDOCK: Refinement of rigid-body protein docking predictions\n\t\t\n\t\t\tLiLi\n\t\t\n\t\t\n\t\t\tRongChen\n\t\t\n\t\t\n\t\t\tZhipingWeng\n\t\t\n\t\t10.1002/prot.10460\n\t\t14579360\n\t\tark:/67375/WNG-4T4S4733-7\n\t\tA77E009A9368CA3C63B4F3564E4767B1D5BC7C03\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t53\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5389c7723bebd86677bb4"},"refKey":23},
{"_key":"60c5389c7723bebd86677bb8","_id":"references/60c5389c7723bebd86677bb8","_rev":"_cfFlisy---","tei":"\n\t\n\t\tDetermination of atomic desolvation energies from the structures of crystallized proteins 1 1Edited by B. Honig\n\t\t\n\t\t\tChaoZhang\n\t\t\n\t\t\n\t\t\tGeorgeVasmatzis\n\t\t\n\t\t\n\t\t\tJamesLCornette\n\t\t\n\t\t\n\t\t\tCharlesDelisi\n\t\t\n\t\t10.1006/jmbi.1996.0859\n\t\t9126848\n\t\tS0022-2836(96)90859-1\n\t\tark:/67375/6H6-5C4SRG4X-P\n\t\tE31CFAF5CECED277274E5BEABF5A60F7C6001262\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t267\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5389c7723bebd86677bb4"},"refKey":24},
{"_key":"60c5389c7723bebd86677bb9","_id":"references/60c5389c7723bebd86677bb9","_rev":"_cfFlit----","tei":"\n\t\n\t\tDiANNA: a web server for disulfide connectivity prediction\n\t\t\n\t\t\tFFerre\n\t\t\n\t\t\n\t\t\tPClote\n\t\t\n\t\t10.1093/nar/gki412\n\t\t15980459\n\t\tPMC1160173\n\t\tark:/67375/HXZ-J66PCFFJ-8\n\t\tF3DC72BB02911DF5AB690A6D5A29267F9B60322E\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5389c7723bebd86677bb4"},"refKey":19},
{"_key":"60c5389c7723bebd86677bba","_id":"references/60c5389c7723bebd86677bba","_rev":"_cfFlitK---","tei":"\n\t\n\t\tI-TASSER: Fully automated protein structure prediction in CASP8\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/prot.22588\n\t\t19768687\n\t\tPMC2782770\n\t\tark:/67375/WNG-3RJJP0P6-5\n\t\t99CD3019D20C1D37C7833A10909B955EA8EE806F\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t77\n\t\t\tS9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5389c7723bebd86677bb4"},"refKey":15},
{"_key":"60c5389c7723bebd86677bbb","_id":"references/60c5389c7723bebd86677bbb","_rev":"_cfFlitW---","tei":"\n\t\n\t\tI-TASSER: a unified platform for automated protein structure and function prediction\n\t\t\n\t\t\tARoy\n\t\t\n\t\t\n\t\t\tAKucukural\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\n\t\n\t\tNature protocols\n\t\t\n\t\t\t5\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5389c7723bebd86677bb4"},"refKey":16},
{"_key":"60c5389c7723bebd86677bbc","_id":"references/60c5389c7723bebd86677bbc","_rev":"_cfFliti---","tei":"\n\t\n\t\tImproving the physical realism and structural accuracy of protein models by a two-step atomiclevel energy minimization\n\t\t\n\t\t\tDXu\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\t\n\t\t\t101\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5389c7723bebd86677bb4"},"refKey":17},
{"_key":"60c538c17723bebd86677be4","_id":"references/60c538c17723bebd86677be4","_rev":"_cfFlitu---","tei":"\n\t\n\t\tBayesian inference of recent migration rates using multilocus genotypes\n\t\t\n\t\t\tGAWilson\n\t\t\n\t\t\n\t\t\tBRannala\n\t\t\n\t\n\t\n\t\tGenetics\n\t\t\n\t\t\t163\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c538c17723bebd86677be3"},"refKey":90},
{"_key":"60c538c17723bebd86677be5","_id":"references/60c538c17723bebd86677be5","_rev":"_cfFlit6---","tei":"\n\t\n\t\tGenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and researchan update\n\t\t\n\t\t\tRPeakall\n\t\t\n\t\t\n\t\t\tPESmouse\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c538c17723bebd86677be3"},"refKey":64},
{"_key":"60c538c17723bebd86677be6","_id":"references/60c538c17723bebd86677be6","_rev":"_cfFliuG---","tei":"\n\t\n\t\tHierfstat, a package for R to compute and test variance components and F-statistics\n\t\t\n\t\t\tJGoudet\n\t\t\n\t\n\t\n\t\tMolecular Ecology Notes\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c538c17723bebd86677be3"},"refKey":34},
{"_key":"60c538e87723bebd86677bf6","_id":"references/60c538e87723bebd86677bf6","_rev":"_cfFliuS---","tei":"\n\t\n\t\tPosterior Summarization in Bayesian Phylogenetics Using Tracer 1.7\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syy032\n\t\t29718447\n\t\tPMC6101584\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t67\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c538e87723bebd86677bf5"},"refKey":110},
{"_key":"60c538e87723bebd86677bf7","_id":"references/60c538e87723bebd86677bf7","_rev":"_cfFliue---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c538e87723bebd86677bf5"},"refKey":47},
{"_key":"60c538e87723bebd86677bf8","_id":"references/60c538e87723bebd86677bf8","_rev":"_cfFliuq---","tei":"\n\t\n\t\tT-coffee: a novel method for fast and accurate multiple sequence alignment 1 1Edited by J. Thornton\n\t\t\n\t\t\tCédricNotredame\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t\n\t\t\tJaapHeringa\n\t\t\n\t\t10.1006/jmbi.2000.4042\n\t\t10964570\n\t\tS0022-2836(00)94042-7\n\t\tark:/67375/6H6-NLGG6LXP-Z\n\t\tA8393455188EC71DAF2C82693D1AC0DB7C49DD5C\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t302\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c538e87723bebd86677bf5"},"refKey":48},
{"_key":"60c538e87723bebd86677bf9","_id":"references/60c538e87723bebd86677bf9","_rev":"_cfFliu2---","tei":"\n\t\n\t\tBuilding Phylogenetic Trees from Molecular Data with MEGA\n\t\t\n\t\t\tBGHall\n\t\t\n\t\t10.1093/molbev/mst012\n\t\t23486614\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c538e87723bebd86677bf5"},"refKey":54},
{"_key":"60c538e87723bebd86677bfa","_id":"references/60c538e87723bebd86677bfa","_rev":"_cfFlivC---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1093/bioinformatics/btu033\n\t\t24451623\n\t\tPMC3998144\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c538e87723bebd86677bf5"},"refKey":55},
{"_key":"60c538e87723bebd86677bfb","_id":"references/60c538e87723bebd86677bfb","_rev":"_cfFlivO---","tei":"\n\t\n\t\tBayesian phylogenetic and phylodynamic data integration using BEAST 1.10\n\t\t\n\t\t\tMarcASuchard\n\t\t\t0000-0001-9818-479X\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\t0000-0003-2826-5353\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tDanielLAyres\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\t0000-0003-4337-3707\n\t\t\n\t\t10.1093/ve/vey016\n\t\t29942656\n\t\tPMC6007674\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t16\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c538e87723bebd86677bf5"},"refKey":23},
{"_key":"60c538e87723bebd86677bfc","_id":"references/60c538e87723bebd86677bfc","_rev":"_cfFliva---","tei":"\n\t\n\t\tBayesian Phylogenetics with BEAUti and the BEAST 1.7\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t10.1093/molbev/mss075\n\t\t22367748\n\t\tPMC3408070\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t29\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c538e87723bebd86677bf5"},"refKey":104},
{"_key":"60c539867723bebd86677c6b","_id":"references/60c539867723bebd86677c6b","_rev":"_cfFlivm---","tei":"\n\t\n\t\tOpenVigil—free eyeballs on AERS pharmacovigilance data\n\t\t\n\t\t\tRuwenBöhm\n\t\t\n\t\t\n\t\t\tJanHöcker\n\t\t\n\t\t\n\t\t\tIngolfCascorbi\n\t\t\n\t\t\n\t\t\tThomasHerdegen\n\t\t\n\t\t10.1038/nbt.2113\n\t\t22318027\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t30\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c539867723bebd86677c6a"},"refKey":0},
{"_key":"60c539867723bebd86677c6c","_id":"references/60c539867723bebd86677c6c","_rev":"_cfFlivy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAGaulton\n\t\t\n\t\t\n\t\t\tAHersey\n\t\t\n\t\t\n\t\t\tMNowotka\n\t\t\n\t\t\n\t\t\tAPBento\n\t\t\n\t\t\n\t\t\tJChambers\n\t\t\n\t\t\n\t\t\tDMendez\n\t\t\n\t\t\n\t\t\tPMutowo\n\t\t\n\t\t\n\t\t\tFAtkinson\n\t\t\n\t\t\n\t\t\tLJBellis\n\t\t\n\t\t\n\t\t\tECibriánuhalte\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c539867723bebd86677c6a"},"refKey":15},
{"_key":"60c539867723bebd86677c7e","_id":"references/60c539867723bebd86677c7e","_rev":"_cfFliw----","tei":"\n\t\n\t\tBioEdit, version 725; software for biological sequence alignment\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tIbis Biosciences\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c539867723bebd86677c7d"},"refKey":43},
{"_key":"60c539867723bebd86677c7f","_id":"references/60c539867723bebd86677c7f","_rev":"_cfFliwK---","tei":"\n\t\n\t\tSDT: a virus classification tool based on pairwise sequence alignment and identity calculation\n\t\t\n\t\t\tBMMuhire\n\t\t\n\t\t\n\t\t\tAVarsani\n\t\t\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\t\n\t\t\t9\n\t\t\te108277\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c539867723bebd86677c7d"},"refKey":45},
{"_key":"60c539867723bebd86677c80","_id":"references/60c539867723bebd86677c80","_rev":"_cfFliwS---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c539867723bebd86677c7d"},"refKey":46},
{"_key":"60c5398b7723bebd86677c90","_id":"references/60c5398b7723bebd86677c90","_rev":"_cfFliwe---","tei":"\n\t\n\t\tIntroduction to Meta-Analysis\n\t\t\n\t\t\tMBorenstein\n\t\t\n\t\t\n\t\t\tLVHedges\n\t\t\n\t\t\n\t\t\tJPHiggins\n\t\t\n\t\t\n\t\t\tHRRothstein\n\t\t\n\t\t\n\t\t\t\n\t\t\tWiley, West Sussex\n\t\t\n\t\n\n","document":{"$oid":"60c5398b7723bebd86677c8f"},"refKey":19},
{"_key":"60c539a07723bebd86677ca3","_id":"references/60c539a07723bebd86677ca3","_rev":"_cfFliwq---","tei":"\n\t\n\t\tMiddle-aged healthy women and Alzheimer's disease patients present an overlapping of brain cell transcriptional profile\n\t\t\n\t\t\tCristinaSanfilippo\n\t\t\n\t\t\n\t\t\tPaolaCastrogiovanni\n\t\t\n\t\t\n\t\t\tRosaImbesi\n\t\t\n\t\t\n\t\t\tDanieleTibullo\n\t\t\n\t\t\n\t\t\tGiovanniLi Volti\n\t\t\n\t\t\n\t\t\tIgnazioBarbagallo\n\t\t\n\t\t\n\t\t\tNunzioVicario\n\t\t\n\t\t\n\t\t\tGiuseppeMusumeci\n\t\t\n\t\t\n\t\t\tMichelinoDi Rosa\n\t\t\n\t\t10.1016/j.neuroscience.2019.03.008\n\t\n\t\n\t\tNeuroscience\n\t\tNeuroscience\n\t\t0306-4522\n\t\t\n\t\t\t406\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c539a07723bebd86677ca2"},"refKey":6},
{"_key":"60c539a07723bebd86677ca4","_id":"references/60c539a07723bebd86677ca4","_rev":"_cfFliw2---","tei":"\n\t\n\t\tCircos: an information aesthetic for comparative genomics\n\t\t\n\t\t\tMKrzywinski\n\t\t\n\t\t\n\t\t\tJSchein\n\t\t\n\t\t\n\t\t\tIBirol\n\t\t\n\t\t\n\t\t\tJConnors\n\t\t\n\t\t\n\t\t\tRGascoyne\n\t\t\n\t\t\n\t\t\tDHorsman\n\t\t\n\t\t\n\t\t\tSJJones\n\t\t\n\t\t\n\t\t\tMAMarra\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c539a07723bebd86677ca2"},"refKey":15},
{"_key":"60c539a07723bebd86677ca5","_id":"references/60c539a07723bebd86677ca5","_rev":"_cfFlixC---","tei":"\n\t\n\t\tFasting and Fast Food Diet Play an Opposite Role in Mice Brain Aging\n\t\t\n\t\t\tPaolaCastrogiovanni\n\t\t\n\t\t\n\t\t\tGiovanniLi Volti\n\t\t\n\t\t\n\t\t\tCristinaSanfilippo\n\t\t\n\t\t\n\t\t\tDanieleTibullo\n\t\t\n\t\t\n\t\t\tFabioGalvano\n\t\t\n\t\t\n\t\t\tMicheleVecchio\n\t\t\n\t\t\n\t\t\tRobertoAvola\n\t\t\n\t\t\n\t\t\tIgnazioBarbagallo\n\t\t\n\t\t\n\t\t\tLuciaMalaguarnera\n\t\t\n\t\t\n\t\t\tSergioCastorina\n\t\t\n\t\t\n\t\t\tGiuseppeMusumeci\n\t\t\n\t\t\n\t\t\tRosaImbesi\n\t\t\n\t\t\n\t\t\tMichelinoDi Rosa\n\t\t\t0000-0002-1837-9325\n\t\t\n\t\t10.1007/s12035-018-0891-5\n\t\t29353457\n\t\n\t\n\t\tMolecular Neurobiology\n\t\tMol Neurobiol\n\t\t0893-7648\n\t\t1559-1182\n\t\t\n\t\t\t55\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c539a07723bebd86677ca2"},"refKey":16},
{"_key":"60c539a07723bebd86677ca6","_id":"references/60c539a07723bebd86677ca6","_rev":"_cfFlixO---","tei":"\n\t\n\t\tGATHER: a systems approach to interpreting genomic signatures\n\t\t\n\t\t\tJeffreyTChang\n\t\t\n\t\t\n\t\t\tJosephRNevins\n\t\t\n\t\t10.1093/bioinformatics/btl483\n\t\t17000751\n\t\tark:/67375/HXZ-5603H4NT-D\n\t\t6F649BF4E7A21CD92204DE10A0BFE5ED4254FA2A\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c539a07723bebd86677ca2"},"refKey":13},
{"_key":"60c539a07723bebd86677ca7","_id":"references/60c539a07723bebd86677ca7","_rev":"_cfFlixa---","tei":"\n\t\n\t\tGeneMANIA Prediction Server 2013 Update\n\t\t\n\t\t\tKhalidZuberi\n\t\t\n\t\t\n\t\t\tMaxFranz\n\t\t\n\t\t\n\t\t\tHaroldRodriguez\n\t\t\n\t\t\n\t\t\tJasonMontojo\n\t\t\n\t\t\n\t\t\tChristianTannusLopes\n\t\t\n\t\t\n\t\t\tGaryDBader\n\t\t\n\t\t\n\t\t\tQuaidMorris\n\t\t\n\t\t10.1093/nar/gkt533\n\t\t23794635\n\t\tPMC3692113\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c539a07723bebd86677ca2"},"refKey":12},
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{"_key":"60c539b67723bebd86677cbe","_id":"references/60c539b67723bebd86677cbe","_rev":"_cfFliyW---","tei":"\n\t\n\t\tDetection of DNA base modifications by deep recurrent neural network on Oxford Nanopore sequencing data\n\t\t\n\t\t\tQianLiu\n\t\t\n\t\t\n\t\t\tLiFang\n\t\t\t0000-0001-5456-0255\n\t\t\n\t\t\n\t\t\tGuoliangYu\n\t\t\n\t\t\n\t\t\tDepengWang\n\t\t\n\t\t\n\t\t\tChuan-LeXiao\n\t\t\t0000-0002-4680-0682\n\t\t\n\t\t\n\t\t\tKaiWang\n\t\t\n\t\t10.1038/s41467-019-10168-2\n\t\t\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c539b67723bebd86677cb9"},"refKey":14},
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{"_key":"60c53a337723bebd86677d75","_id":"references/60c53a337723bebd86677d75","_rev":"_cfFli0q---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53a337723bebd86677d74"},"refKey":0},
{"_key":"60c53a537723bebd86677da5","_id":"references/60c53a537723bebd86677da5","_rev":"_cfFli02---","tei":"\n\t\n\t\tCheShift-2: graphic validation of protein structures\n\t\t\n\t\t\tOsvaldoAMartin\n\t\t\n\t\t\n\t\t\tJorgeAVila\n\t\t\n\t\t\n\t\t\tHaroldAScheraga\n\t\t\n\t\t10.1093/bioinformatics/bts179\n\t\t22495749\n\t\tPMC3356844\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c53a537723bebd86677da4"},"refKey":48},
{"_key":"60c53a537723bebd86677da6","_id":"references/60c53a537723bebd86677da6","_rev":"_cfFli1C---","tei":"\n\t\n\t\tRapid and accurate calculation of protein 1H, 13C and 15 N chemical shifts\n\t\t\n\t\t\tSNeal\n\t\t\n\t\t\n\t\t\tAMNip\n\t\t\n\t\t\n\t\t\tHZhang\n\t\t\n\t\t\n\t\t\tDSWishart\n\t\t\n\t\n\t\n\t\tJ. Biomol. NMR\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53a537723bebd86677da4"},"refKey":23},
{"_key":"60c53a537723bebd86677da7","_id":"references/60c53a537723bebd86677da7","_rev":"_cfFli1O---","tei":"\n\t\n\t\tProbing multiple effects on15N,13C?,13C?, and13C? chemical shifts in peptides using density functional theory\n\t\t\n\t\t\tXiao-PingXu\n\t\t\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t10.1002/bip.10276\n\t\t12434429\n\t\tark:/67375/WNG-QK70FFKD-Z\n\t\t11A9B269E3FB40F68AC6BCA24415F79C3837425A\n\t\n\t\n\t\tBiopolymers\n\t\tBiopolymers\n\t\t0006-3525\n\t\t1097-0282\n\t\t\n\t\t\t65\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c53a537723bebd86677da4"},"refKey":37},
{"_key":"60c53a537723bebd86677da8","_id":"references/60c53a537723bebd86677da8","_rev":"_cfFli1a---","tei":"\n\t\n\t\tAutomated prediction of 15 N, 13Cα, 13Cβ and 13C' chemical shifts in proteins using a density functional database\n\t\t\n\t\t\tX.-PXu\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\n\t\n\t\tJ. Biomol. NMR\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53a537723bebd86677da4"},"refKey":38},
{"_key":"60c53a537723bebd86677da9","_id":"references/60c53a537723bebd86677da9","_rev":"_cfFli1m---","tei":"\n\t\n\t\tAssessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tRLüthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t356\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53a537723bebd86677da4"},"refKey":9},
{"_key":"60c53a537723bebd86677daa","_id":"references/60c53a537723bebd86677daa","_rev":"_cfFli1y---","tei":"\n\t\n\t\tRecognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53a537723bebd86677da4"},"refKey":136},
{"_key":"60c53a537723bebd86677dab","_id":"references/60c53a537723bebd86677dab","_rev":"_cfFli2----","tei":"\n\t\n\t\tPROCHECK-a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53a537723bebd86677da4"},"refKey":7},
{"_key":"60c53a537723bebd86677dac","_id":"references/60c53a537723bebd86677dac","_rev":"_cfFli2K---","tei":"\n\t\n\t\tMolProbity: all-atom contacts and structure validation for proteins and nucleic acids\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tALeaver-Fay\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tJNBlock\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tIiiArendall\n\t\t\n\t\t\n\t\t\tWBSnoeyink\n\t\t\n\t\t\n\t\t\tJRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDC\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53a537723bebd86677da4"},"refKey":4},
{"_key":"60c53a757723bebd86677dd5","_id":"references/60c53a757723bebd86677dd5","_rev":"_cfFli2W---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c53a757723bebd86677dd4"},"refKey":22},
{"_key":"60c53a757723bebd86677dd6","_id":"references/60c53a757723bebd86677dd6","_rev":"_cfFli2i---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\tS0022-2836(05) 80360-2\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c53a757723bebd86677dd4"},"refKey":1},
{"_key":"60c53a977723bebd86677dfb","_id":"references/60c53a977723bebd86677dfb","_rev":"_cfFli2y---","tei":"\n\t\n\t\tMotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tKlimentAVerba\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1038/nmeth.4193\n\t\t28250466\n\t\tPMC5494038\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c53a977723bebd86677dfa"},"refKey":42},
{"_key":"60c53a977723bebd86677dfc","_id":"references/60c53a977723bebd86677dfc","_rev":"_cfFli3----","tei":"\n\t\n\t\tImmunogenicity and structures of a rationally designed prefusion MERS-CoV spike antigen\n\t\t\n\t\t\tJesperPallesen\n\t\t\n\t\t\n\t\t\tNianshuangWang\n\t\t\n\t\t\n\t\t\tKizzmekiaSCorbett\n\t\t\n\t\t\n\t\t\tDanielWrapp\n\t\t\n\t\t\n\t\t\tRobertNKirchdoerfer\n\t\t\n\t\t\n\t\t\tHannahLTurner\n\t\t\n\t\t\n\t\t\tChristopherACottrell\n\t\t\n\t\t\n\t\t\tMichelleMBecker\n\t\t\n\t\t\n\t\t\tLingshuWang\n\t\t\n\t\t\n\t\t\tWeiShi\n\t\t\n\t\t\n\t\t\tWing-PuiKong\n\t\t\n\t\t\n\t\t\tEricaLAndres\n\t\t\n\t\t\n\t\t\tArminjaNKettenbach\n\t\t\n\t\t\n\t\t\tMarkRDenison\n\t\t\n\t\t\n\t\t\tJamesDChappell\n\t\t\n\t\t\n\t\t\tBarneySGraham\n\t\t\n\t\t\n\t\t\tAndrewBWard\n\t\t\n\t\t\n\t\t\tJasonSMclellan\n\t\t\t0000-0003-3991-542X\n\t\t\n\t\t10.1073/pnas.1707304114\n\t\t28807998\n\t\tPMC5584442\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProc Natl Acad Sci USA\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t114\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c53a977723bebd86677dfa"},"refKey":16},
{"_key":"60c53a977723bebd86677dfd","_id":"references/60c53a977723bebd86677dfd","_rev":"_cfFli3K---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c53a977723bebd86677dfa"},"refKey":50},
{"_key":"60c53aa87723bebd86677e06","_id":"references/60c53aa87723bebd86677e06","_rev":"_cfFli3a---","tei":"\n\t\n\t\tmiRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades\n\t\t\n\t\t\tMarcRFriedländer\n\t\t\n\t\t\n\t\t\tSebastianDMackowiak\n\t\t\n\t\t\n\t\t\tNaLi\n\t\t\n\t\t\n\t\t\tWeiChen\n\t\t\n\t\t\n\t\t\tNikolausRajewsky\n\t\t\n\t\t10.1093/nar/gkr688\n\t\t21911355\n\t\tPMC3245920\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c53aa87723bebd86677e05"},"refKey":20},
{"_key":"60c53aa87723bebd86677e07","_id":"references/60c53aa87723bebd86677e07","_rev":"_cfFli3m---","tei":"\n\t\n\t\tMicroRNA targets in Drosophila\n\t\t\n\t\t\tAJEnright\n\t\t\n\t\t\n\t\t\tBJohn\n\t\t\n\t\t\n\t\t\tUGaul\n\t\t\n\t\t\n\t\t\tTTuschl\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\t\n\t\t\tDSMarks\n\t\t\n\t\t10.1186/gb-2003-5-1-r1\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t5\n\t\t\tR1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53aa87723bebd86677e05"},"refKey":18},
{"_key":"60c53aa87723bebd86677e08","_id":"references/60c53aa87723bebd86677e08","_rev":"_cfFli32---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c53aa87723bebd86677e05"},"refKey":36},
{"_key":"60c53aa87723bebd86677e09","_id":"references/60c53aa87723bebd86677e09","_rev":"_cfFli4G---","tei":"\n\t\n\t\tPrediction of both conserved and nonconserved microRNA targets in animals\n\t\t\n\t\t\tXiaoweiWang\n\t\t\n\t\t\n\t\t\tIssamMEl Naqa\n\t\t\n\t\t10.1093/bioinformatics/btm595\n\t\t18048393\n\t\tark:/67375/HXZ-HSVD6FXZ-Z\n\t\tAE51B193EE32C882B54DC5E2A15C61C724E68946\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c53aa87723bebd86677e05"},"refKey":67},
{"_key":"60c53aa87723bebd86677e0a","_id":"references/60c53aa87723bebd86677e0a","_rev":"_cfFli4S---","tei":"\n\t\n\t\tmiRDB: an online resource for microRNA target prediction and functional annotations\n\t\t\n\t\t\tNathanWong\n\t\t\n\t\t\n\t\t\tXiaoweiWang\n\t\t\n\t\t10.1093/nar/gku1104\n\t\t25378301\n\t\tPMC4383922\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c53aa87723bebd86677e05"},"refKey":68},
{"_key":"60c53aa87723bebd86677e0b","_id":"references/60c53aa87723bebd86677e0b","_rev":"_cfFli4i---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53aa87723bebd86677e05"},"refKey":34},
{"_key":"60c53aba7723bebd86677e2c","_id":"references/60c53aba7723bebd86677e2c","_rev":"_cfFli4y---","tei":"\n\t\n\t\tMEGA 6: molecular evolutionary genetics analysis Version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53aba7723bebd86677e2b"},"refKey":30},
{"_key":"60c53ae77723bebd86677e45","_id":"references/60c53ae77723bebd86677e45","_rev":"_cfFli5C---","tei":"\n\t\n\t\tDiCoT modelling: from analysis to design SIGCHI: workshop bridging the gap: moving from contextual analysis to design\n\t\t\n\t\t\tDFurniss\n\t\t\n\t\t\n\t\t\tABlandford\n\t\t\n\t\n\t\n\t\tAtlanta\n\t\t\n\t\t\t\n\t\t\tACM\n\t\t\n\t\n\n","document":{"$oid":"60c53ae77723bebd86677e44"},"refKey":28},
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{"_key":"60c53c587723bebd86677f6c","_id":"references/60c53c587723bebd86677f6c","_rev":"_cfFlj-e---","tei":"\n\t\n\t\tDatabase resources of the National Center for Biotechnology Information\n\t\t\n\t\t\tDLWheeler\n\t\t\n\t\t\n\t\t\tTBarrett\n\t\t\n\t\t\n\t\t\tDABenson\n\t\t\n\t\t\n\t\t\tSHBryant\n\t\t\n\t\t\n\t\t\tKCanese\n\t\t\n\t\t\n\t\t\tVChetvernin\n\t\t\n\t\t\n\t\t\tDMChurch\n\t\t\n\t\t\n\t\t\tMDicuccio\n\t\t\n\t\t\n\t\t\tREdgar\n\t\t\n\t\t\n\t\t\tSFederhen\n\t\t\n\t\t\n\t\t\tMFeolo\n\t\t\n\t\t\n\t\t\tLYGeer\n\t\t\n\t\t\n\t\t\tWHelmberg\n\t\t\n\t\t\n\t\t\tYKapustin\n\t\t\n\t\t\n\t\t\tOKhovayko\n\t\t\n\t\t\n\t\t\tDLandsman\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tDRMaglott\n\t\t\n\t\t\n\t\t\tVMiller\n\t\t\n\t\t\n\t\t\tJOstell\n\t\t\n\t\t\n\t\t\tKDPruitt\n\t\t\n\t\t\n\t\t\tGDSchuler\n\t\t\n\t\t\n\t\t\tMShumway\n\t\t\n\t\t\n\t\t\tESequeira\n\t\t\n\t\t\n\t\t\tSTSherry\n\t\t\n\t\t\n\t\t\tKSirotkin\n\t\t\n\t\t\n\t\t\tASouvorov\n\t\t\n\t\t\n\t\t\tGStarchenko\n\t\t\n\t\t\n\t\t\tRLTatusov\n\t\t\n\t\t\n\t\t\tTATatusova\n\t\t\n\t\t\n\t\t\tLWagner\n\t\t\n\t\t\n\t\t\tEYaschenko\n\t\t\n\t\t10.1093/nar/28.1.10\n\t\t10592169\n\t\tPMC102437\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t28\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tDatabase issue\n\n","document":{"$oid":"60c53c587723bebd86677f66"},"refKey":107},
{"_key":"60c53c7a7723bebd86677f8d","_id":"references/60c53c7a7723bebd86677f8d","_rev":"_cfFlj-q---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSafegraph\n\t\t\n\t\tInternet]. 2020\n\t\t\n\t\t\n\t\n\tcited 2020 Sep 10\n\n","document":{"$oid":"60c53c7a7723bebd86677f8c"},"refKey":19},
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{"_key":"60c53cc37723bebd86677faf","_id":"references/60c53cc37723bebd86677faf","_rev":"_cfFlj_a---","tei":"\n\t\n\t\tBLAT---The BLAST-Like Alignment Tool\n\t\t\n\t\t\tWJKent\n\t\t\n\t\t10.1101/gr.229202\n\t\t11932250\n\t\tPMC187518\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c53cc37723bebd86677fac"},"refKey":78},
{"_key":"60c53cc37723bebd86677fb0","_id":"references/60c53cc37723bebd86677fb0","_rev":"_cfFlj_m---","tei":"\n\t\n\t\tThe human genome browser at UCSC\n\t\t\n\t\t\tWJKent\n\t\t\n\t\t\n\t\t\tCWSugnet\n\t\t\n\t\t\n\t\t\tTSFurey\n\t\t\n\t\t\n\t\t\tKMRoskin\n\t\t\n\t\t\n\t\t\tTHPringle\n\t\t\n\t\t\n\t\t\tAMZahler\n\t\t\n\t\t10.1111/j.1420-9101.2005.00917.x\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53cc37723bebd86677fac"},"refKey":79},
{"_key":"60c53cf17723bebd86677fbf","_id":"references/60c53cf17723bebd86677fbf","_rev":"_cfFlj_u---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKeiichi\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53cf17723bebd86677fbe"},"refKey":44},
{"_key":"60c53cf17723bebd86677fc0","_id":"references/60c53cf17723bebd86677fc0","_rev":"_cfFlj_6---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53cf17723bebd86677fbe"},"refKey":48},
{"_key":"60c53cf17723bebd86677fc1","_id":"references/60c53cf17723bebd86677fc1","_rev":"_cfFljAG---","tei":"\n\t\n\t\tPhylogeny inference based on parsimony and other methods using PAUP\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tJackSullivan\n\t\t\n\t\t10.1017/cbo9780511819049.010\n\t\t\n\t\n\t\n\t\tThe Phylogenetic Handbook\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2002\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53cf17723bebd86677fbe"},"refKey":52},
{"_key":"60c53cf17723bebd86677fc2","_id":"references/60c53cf17723bebd86677fc2","_rev":"_cfFljAS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tVTeh\n\t\t\n\t\t\n\t\t\tQrcode\n\t\t\n\t\n\t\n\t\tQRcode Generator for R. R package\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53cf17723bebd86677fbe"},"refKey":55},
{"_key":"60c53cf17723bebd86677fc3","_id":"references/60c53cf17723bebd86677fc3","_rev":"_cfFljAe---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c53cf17723bebd86677fbe"},"refKey":53},
{"_key":"60c53cf17723bebd86677fc4","_id":"references/60c53cf17723bebd86677fc4","_rev":"_cfFljAq---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53cf17723bebd86677fbe"},"refKey":51},
{"_key":"60c53cf17723bebd86677fc5","_id":"references/60c53cf17723bebd86677fc5","_rev":"_cfFljA2---","tei":"\n\t\n\t\tCoronaviridae Study Group of the International Committee on Taxonomy of Viruses. The species Severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2\n\t\n\t\n\t\tNat. Microbiol\n\t\t\n\t\t\t5\n\t\t\t536\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53cf17723bebd86677fbe"},"refKey":1},
{"_key":"60c53cf17723bebd86677fc6","_id":"references/60c53cf17723bebd86677fc6","_rev":"_cfFljB----","tei":"\n\t\n\t\tCharacterizing geographical and temporal dynamics of novel coronavirus SARS-CoV-2 using informative subtype markers\n\t\t\n\t\t\tZZhao\n\t\t\n\t\t\n\t\t\tBASokhansanj\n\t\t\n\t\t\n\t\t\tGLRosen\n\t\t\n\t\t\n\t\t\t\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53cf17723bebd86677fbe"},"refKey":22},
{"_key":"60c53cf97723bebd8667800a","_id":"references/60c53cf97723bebd8667800a","_rev":"_cfFljBK---","tei":"\n\t\n\t\tThe BigDAWG Polystore System\n\t\t\n\t\t\tJennieDuggan\n\t\t\n\t\t\n\t\t\tStanZdonik\n\t\t\n\t\t\n\t\t\tAaronJElmore\n\t\t\n\t\t\n\t\t\tMichaelStonebraker\n\t\t\n\t\t\n\t\t\tMagdaBalazinska\n\t\t\n\t\t\n\t\t\tBillHowe\n\t\t\n\t\t\n\t\t\tJeremyKepner\n\t\t\n\t\t\n\t\t\tSamMadden\n\t\t\n\t\t\n\t\t\tDavidMaier\n\t\t\n\t\t\n\t\t\tTimMattson\n\t\t\n\t\t10.1145/2814710.2814713\n\t\t\n\t\n\t\n\t\tACM SIGMOD Record\n\t\tSIGMOD Rec.\n\t\t0163-5808\n\t\t\n\t\t\t44\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c53cf97723bebd86678009"},"refKey":4},
{"_key":"60c53cf97723bebd8667800c","_id":"references/60c53cf97723bebd8667800c","_rev":"_cfFljBW---","tei":"\n\t\n\t\tImproving the Accuracy of NMR Structures of RNA by Means of Conformational Database Potentials of Mean Force as Assessed by Complete Dipolar Coupling Cross-Validation\n\t\t\n\t\t\tGMariusClore\n\t\t\n\t\t\n\t\t\tJohnKuszewski\n\t\t\n\t\t10.1021/ja028383j\n\t\t12568611\n\t\t\n\t\n\t\n\t\tJournal of the American Chemical Society\n\t\tJ. Am. Chem. Soc.\n\t\t0002-7863\n\t\t1520-5126\n\t\t\n\t\t\t125\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c53cf97723bebd86678008"},"refKey":59},
{"_key":"60c53cf97723bebd8667800d","_id":"references/60c53cf97723bebd8667800d","_rev":"_cfFljBm---","tei":"\n\t\n\t\tThe Xplor-NIH NMR molecular structure determination package\n\t\t\n\t\t\tCharlesDSchwieters\n\t\t\n\t\t\n\t\t\tJohnJKuszewski\n\t\t\n\t\t\n\t\t\tNicoTjandra\n\t\t\n\t\t\n\t\t\tGMarius Clore\n\t\t\n\t\t10.1016/s1090-7807(02)00014-9\n\t\t12565051\n\t\ts1090-7807(02)00014-9\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Magnetic Resonance\n\t\tJournal of Magnetic Resonance\n\t\t1090-7807\n\t\t\n\t\t\t160\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c53cf97723bebd86678008"},"refKey":60},
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{"_key":"60c53d237723bebd86678048","_id":"references/60c53d237723bebd86678048","_rev":"_cfFljCi---","tei":"\n\t\n\t\tImage Processing\n\t\t\n\t\t\tMichaelAbràmoff\n\t\t\n\t\t\n\t\t\tChristineNKay\n\t\t\n\t\t10.1016/b978-1-4557-0737-9.00006-0\n\t\n\t\n\t\tRetina\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t11\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53d237723bebd86678046"},"refKey":0},
{"_key":"60c53d237723bebd86678049","_id":"references/60c53d237723bebd86678049","_rev":"_cfFljCu---","tei":"\n\t\n\t\tSelection of conserved blocks from multiple alignments for their use in phylogenetic analysis\n\t\t\n\t\t\tJCastresana\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53d237723bebd86678046"},"refKey":12},
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{"_key":"60c53d237723bebd8667804b","_id":"references/60c53d237723bebd8667804b","_rev":"_cfFljDK---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t5\n\t\t\t113\n\t\t\n\t\n\n","document":{"$oid":"60c53d237723bebd86678046"},"refKey":19},
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{"_key":"60c53d657723bebd86678094","_id":"references/60c53d657723bebd86678094","_rev":"_cfFljEC---","tei":"\n\t\n\t\tMAST: a flexible statistical preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data\n\t\t\n\t\t\tGFinak\n\t\t\n\t\t\n\t\t\tAMcdavid\n\t\t\n\t\t\n\t\t\tMYajima\n\t\t\n\t\t\n\t\t\tJYDeng\n\t\t\n\t\t\n\t\t\tVGersuk\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53d657723bebd86678093"},"refKey":23},
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{"_key":"60c53dc77723bebd86678107","_id":"references/60c53dc77723bebd86678107","_rev":"_cfFljEy---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis (Second)\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford Publications\n\t\t\n\t\n\n","document":{"$oid":"60c53dc77723bebd86678106"},"refKey":29},
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{"_key":"60c53ee77723bebd866781cd","_id":"references/60c53ee77723bebd866781cd","_rev":"_cfFljGO---","tei":"\n\t\n\t\tThe sacred infrastructure for computational research\n\t\t\n\t\t\tKGreff\n\t\t\n\t\t\n\t\t\tAKlein\n\t\t\n\t\t\n\t\t\tMChovanec\n\t\t\n\t\t\n\t\t\tFHutter\n\t\t\n\t\t\n\t\t\tJSchmidhuber\n\t\t\n\t\n\t\n\t\tProceedings of the Python in Science Conferences-SciPy Conferences\n\t\t\t\tthe Python in Science Conferences-SciPy Conferences\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53ee77723bebd866781c8"},"refKey":7},
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{"_key":"60c53f1a7723bebd866781f9","_id":"references/60c53f1a7723bebd866781f9","_rev":"_cfFljHG---","tei":"\n\t\n\t\tInteractive Tree of Life (iTOL) v4 : recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/nar/gkz239\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53f1a7723bebd866781f7"},"refKey":50},
{"_key":"60c53f247723bebd86678206","_id":"references/60c53f247723bebd86678206","_rev":"_cfFljHa---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tThomas Lin Pedersen\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tdensityClust [Internet\n\n","document":{"$oid":"60c53f247723bebd86678205"},"refKey":31},
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{"_key":"60c53f4e7723bebd86678223","_id":"references/60c53f4e7723bebd86678223","_rev":"_cfFljH6---","tei":"\n\t\n\t\tScikit-learn: Machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\t\n\t\t\t\t& Others.\n\t\t\t\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\t\n\t\t\t\t& Others.\n\t\t\t\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\t\n\t\t\t\t& Others.\n\t\t\t\n\t\t\n\t\t\n\t\t\tVMichel\n\t\t\t\n\t\t\t\t& Others.\n\t\t\t\n\t\t\n\t\t\n\t\t\tBThirion\n\t\t\t\n\t\t\t\t& Others.\n\t\t\t\n\t\t\n\t\t\n\t\t\tOGrisel\n\t\t\t\n\t\t\t\t& Others.\n\t\t\t\n\t\t\n\t\t\n\t\t\tMBlondel\n\t\t\t\n\t\t\t\t& Others.\n\t\t\t\n\t\t\n\t\t\n\t\t\tPPrettenhofer\n\t\t\t\n\t\t\t\t& Others.\n\t\t\t\n\t\t\n\t\t\n\t\t\tRWeiss\n\t\t\t\n\t\t\t\t& Others.\n\t\t\t\n\t\t\n\t\t\n\t\t\tVDubourg\n\t\t\t\n\t\t\t\t& Others.\n\t\t\t\n\t\t\n\t\n\t\n\t\tThe Journal of Machine Learning Research\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53f4e7723bebd86678221"},"refKey":37},
{"_key":"60c53f4e7723bebd86678224","_id":"references/60c53f4e7723bebd86678224","_rev":"_cfFljIG---","tei":"\n\t\n\t\tMachine learning for neuroimaging with scikit-learn\n\t\t\n\t\t\tAAbraham\n\t\t\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tMEickenberg\n\t\t\n\t\t\n\t\t\tPGervais\n\t\t\n\t\t\n\t\t\tAMueller\n\t\t\n\t\t\n\t\t\tJKossaifi\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tBThirion\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\n\t\n\t\tFrontiers in Neuroinformatics\n\t\t\n\t\t\t8\n\t\t\t14\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53f4e7723bebd86678221"},"refKey":0},
{"_key":"60c53f4e7723bebd86678226","_id":"references/60c53f4e7723bebd86678226","_rev":"_cfFljIS---","tei":"\n\t\n\t\tRobust automated brain extraction\n\t\t\n\t\t\tStephenMSmith\n\t\t\n\t\t10.1016/s1053-8119(00)91555-6\n\t\tS1053-8119(00)91555-6\n\t\tark:/67375/6H6-CCDPWS0Q-F\n\t\t6EB2DEB85EFA4CE28F269F363DF58844C68D4B00\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t11\n\t\t\t5\n\t\t\tS625\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c53f4e7723bebd86678221"},"refKey":45},
{"_key":"60c53f4e7723bebd86678227","_id":"references/60c53f4e7723bebd86678227","_rev":"_cfFljIe---","tei":"\n\t\n\t\tGlobal optimisation for robust affine registration\n\t\t\n\t\t\tMarkJenkinson\n\t\t\n\t\t\n\t\t\tStephenMSmith\n\t\t\n\t\t10.1016/s1053-8119(00)91410-1\n\t\tS1053-8119(00)91410-1\n\t\tark:/67375/6H6-0MV13F42-Q\n\t\t285586411505A50795B37BA888FD60FA5A12FDE1\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t11\n\t\t\t5\n\t\t\tS479\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c53f4e7723bebd86678221"},"refKey":26},
{"_key":"60c53f4e7723bebd86678228","_id":"references/60c53f4e7723bebd86678228","_rev":"_cfFljIq---","tei":"\n\t\n\t\tNon-Linear Registration aka Spatial Normalisation FMRIB\n\t\t\n\t\t\tJL RAndersson\n\t\t\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\t\n\t\t\tMJenkinson\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\t\n\t\t\tJL RAndersson\n\t\t\n\t\t\n\t\t\tJL RAndersson\n\t\t\n\t\t\n\t\t\tPA E SSmith\n\t\t\n\t\t\n\t\t\tJLAndersson\n\t\t\n\t\t\n\t\t\tSWSmith\n\t\t\n\t\tTR07JA2\n\t\t\n\t\t\t\n\t\t\n\t\n\tTechnial Report\n\n","document":{"$oid":"60c53f4e7723bebd86678221"},"refKey":6},
{"_key":"60c53f677723bebd86678246","_id":"references/60c53f677723bebd86678246","_rev":"_cfFljI2---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53f677723bebd86678245"},"refKey":41},
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{"_key":"60c53f827723bebd8667825d","_id":"references/60c53f827723bebd8667825d","_rev":"_cfFljJm---","tei":"\n\t\n\t\tI-TASSER server for protein 3D structure prediction\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1186/1471-2105-9-40\n\t\t18215316\n\t\tPMC2245901\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t40\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c53f827723bebd8667825a"},"refKey":25},
{"_key":"60c53f827723bebd8667825e","_id":"references/60c53f827723bebd8667825e","_rev":"_cfFljJy---","tei":"\n\t\n\t\tDeepBindRG: a deep learning based method for estimating effective protein–ligand affinity\n\t\t\n\t\t\tHaipingZhang\n\t\t\n\t\t\n\t\t\tLinbuLiao\n\t\t\t0000-0002-6103-0700\n\t\t\n\t\t\n\t\t\tKondaManiSaravanan\n\t\t\t0000-0002-5541-234X\n\t\t\n\t\t\n\t\t\tPengYin\n\t\t\n\t\t\n\t\t\tYanjieWei\n\t\t\n\t\t10.7717/peerj.7362\n\t\t31380152\n\t\t\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t7\n\t\t\te7362\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c53f827723bebd8667825a"},"refKey":21},
{"_key":"60c53f827723bebd8667825f","_id":"references/60c53f827723bebd8667825f","_rev":"_cfFljK----","tei":"\n\t\n\t\tGnuplot 4.6. Softw Man\n\t\t\n\t\t\tTWilliams\n\t\t\n\t\t\n\t\t\tCKelley\n\t\t\n\t\t\n\t\t\tJCampbell\n\t\t\n\t\t\n\t\t\tRCunningham\n\t\t\n\t\t\n\t\t\tDDenholm\n\t\t\n\t\t\n\t\t\tGElber\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53f827723bebd8667825a"},"refKey":44},
{"_key":"60c53f867723bebd86678290","_id":"references/60c53f867723bebd86678290","_rev":"_cfFljKK---","tei":"\n\t\n\t\tTreeSAAP: Selection on Amino Acid Properties using phylogenetic trees\n\t\t\n\t\t\tSWoolley\n\t\t\n\t\t\n\t\t\tJJohnson\n\t\t\n\t\t\n\t\t\tMJSmith\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\t\n\t\t\tDAMcclellan\n\t\t\n\t\t10.1093/bioinformatics/btg043\n\t\t12651734\n\t\t1460-2059\n\t\tark:/67375/HXZ-742XPG0B-B\n\t\tBCCF2F4F10F6ECD26030180791339A1406C1669F\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c53f867723bebd8667828f"},"refKey":37},
{"_key":"60c53f867723bebd86678291","_id":"references/60c53f867723bebd86678291","_rev":"_cfFljKW---","tei":"\n\t\n\t\tMauve: Multiple Alignment of Conserved Genomic Sequence With Rearrangements\n\t\t\n\t\t\tAC EDarling\n\t\t\n\t\t\n\t\t\tBMau\n\t\t\n\t\t\n\t\t\tFRBlattner\n\t\t\n\t\t\n\t\t\tNTPerna\n\t\t\n\t\t10.1101/gr.2289704\n\t\t15231754\n\t\tPMC442156\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t14\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c53f867723bebd8667828f"},"refKey":8},
{"_key":"60c53f867723bebd86678292","_id":"references/60c53f867723bebd86678292","_rev":"_cfFljKi---","tei":"\n\t\n\t\tComparative Protein Structure Modeling Using MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1002/cpbi.3\n\t\t27322406\n\t\tPMC5031415\n\t\t\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\t5.6.1-5.6.37\n\n","document":{"$oid":"60c53f867723bebd8667828f"},"refKey":34},
{"_key":"60c53f867723bebd86678293","_id":"references/60c53f867723bebd86678293","_rev":"_cfFljKu---","tei":"\n\t\n\t\tPAML 4: Phylogenetic Analysis by Maximum Likelihood\n\t\t\n\t\t\tZYang\n\t\t\n\t\t10.1093/molbev/msm088\n\t\t17483113\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c53f867723bebd8667828f"},"refKey":40},
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{"_key":"60c53f867723bebd86678296","_id":"references/60c53f867723bebd86678296","_rev":"_cfFljLO---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c53f867723bebd8667828f"},"refKey":12},
{"_key":"60c53f867723bebd86678297","_id":"references/60c53f867723bebd86678297","_rev":"_cfFljLa---","tei":"\n\t\n\t\tETE: a python Environment for Tree Exploration\n\t\t\n\t\t\tJaimeHuerta-Cepas\n\t\t\n\t\t\n\t\t\tJoaquínDopazo\n\t\t\n\t\t\n\t\t\tToniGabaldón\n\t\t\n\t\t10.1186/1471-2105-11-24\n\t\t20070885\n\t\tPMC2820433\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t24\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c53f867723bebd8667828f"},"refKey":16},
{"_key":"60c53f887723bebd866782a9","_id":"references/60c53f887723bebd866782a9","_rev":"_cfFljLm---","tei":"\n\t\n\t\tSYNCRIP, a Member of the Heterogeneous Nuclear Ribonucleoprotein Family, Is Involved in Mouse Hepatitis Virus RNA Synthesis\n\t\t\n\t\t\tKSChoi\n\t\t\n\t\t\n\t\t\tAMizutani\n\t\t\n\t\t\n\t\t\tMM CLai\n\t\t\n\t\t10.1128/jvi.78.23.13153-13162.2004\n\t\t15542667\n\t\tPMC525026\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJournal of Virology\n\t\t0022-538X\n\t\t\n\t\t\t78\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c53f887723bebd866782a8"},"refKey":9},
{"_key":"60c53f9c7723bebd866782b2","_id":"references/60c53f9c7723bebd866782b2","_rev":"_cfFljLy---","tei":"\n\t\n\t\tSystematic Analysis of Helical Protein Interfaces Reveals Targets for Synthetic Inhibitors\n\t\t\n\t\t\tAndreaLJochim\n\t\t\n\t\t\n\t\t\tParamjitSArora\n\t\t\n\t\t10.1021/cb1001747\n\t\t20712375\n\t\tPMC2955827\n\t\t\n\t\n\t\n\t\tACS Chemical Biology\n\t\tACS Chem. Biol.\n\t\t1554-8929\n\t\t1554-8937\n\t\t\n\t\t\t5\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c53f9c7723bebd866782b1"},"refKey":29},
{"_key":"60c53f9c7723bebd866782b3","_id":"references/60c53f9c7723bebd866782b3","_rev":"_cfFljM----","tei":"\n\t\n\t\tComputational design of protein–protein interactions\n\t\t\n\t\t\tTanjaKortemme\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t10.1016/j.cbpa.2003.12.008\n\t\t15036162\n\t\n\t\n\t\tCurrent Opinion in Chemical Biology\n\t\tCurrent Opinion in Chemical Biology\n\t\t1367-5931\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c53f9c7723bebd866782b1"},"refKey":31},
{"_key":"60c53f9c7723bebd866782b4","_id":"references/60c53f9c7723bebd866782b4","_rev":"_cfFljMK---","tei":"\n\t\n\t\tPlucking the high hanging fruit: A systematic approach for targeting protein–protein interactions\n\t\t\n\t\t\tMonikaRaj\n\t\t\n\t\t\n\t\t\tBrookeNBullock\n\t\t\n\t\t\n\t\t\tParamjitSArora\n\t\t\n\t\t10.1016/j.bmc.2012.11.023\n\t\t23267671\n\t\tPMC3622812\n\t\t\n\t\n\t\n\t\tBioorganic & Medicinal Chemistry\n\t\tBioorganic & Medicinal Chemistry\n\t\t0968-0896\n\t\t\n\t\t\t21\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c53f9c7723bebd866782b1"},"refKey":44},
{"_key":"60c53f9f7723bebd866782bc","_id":"references/60c53f9f7723bebd866782bc","_rev":"_cfFljMW---","tei":"\n\t\n\t\tThe MVGC multivariate Granger causality toolbox: A new approach to Granger-causal inference\n\t\t\n\t\t\tLBarnett\n\t\t\n\t\t\n\t\t\tAKSeth\n\t\t\n\t\n\t\n\t\tJ. Neurosci. Methods\n\t\t\n\t\t\t223\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53f9f7723bebd866782bb"},"refKey":94},
{"_key":"60c53fca7723bebd866782cf","_id":"references/60c53fca7723bebd866782cf","_rev":"_cfFljMi---","tei":"\n\t\n\t\tThe Immune Epitope Database (IEDB): 2018 update\n\t\t\n\t\t\tRandiVita\n\t\t\n\t\t\n\t\t\tSwapnilMahajan\n\t\t\t0000-0003-2136-1801\n\t\t\n\t\t\n\t\t\tJamesAOverton\n\t\t\n\t\t\n\t\t\tSandeepKumarDhanda\n\t\t\t0000-0003-1381-7434\n\t\t\n\t\t\n\t\t\tSheridanMartini\n\t\t\n\t\t\n\t\t\tJasonRCantrell\n\t\t\n\t\t\n\t\t\tDanielKWheeler\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t10.1093/nar/gky1006\n\t\t30357391\n\t\tPMC6324067\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c53fca7723bebd866782ce"},"refKey":45},
{"_key":"60c53fd77723bebd866782dc","_id":"references/60c53fd77723bebd866782dc","_rev":"_cfFljMq---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tClojure Team: Clojure\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53fd77723bebd866782db"},"refKey":16},
{"_key":"60c53fd77723bebd866782dd","_id":"references/60c53fd77723bebd866782dd","_rev":"_cfFljM2---","tei":"\n\t\n\t\tThe Clojure programming language\n\t\t\n\t\t\tRichHickey\n\t\t\n\t\t10.1145/1408681.1408682\n\t\n\t\n\t\tProceedings of the 2008 symposium on Dynamic languages - DLS '08\n\t\t\t\tthe 2008 symposium on Dynamic languages - DLS '08\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t1\n\t\t\n\t\n\n","document":{"$oid":"60c53fd77723bebd866782db"},"refKey":25},
{"_key":"60c53fd77723bebd866782de","_id":"references/60c53fd77723bebd866782de","_rev":"_cfFljNC---","tei":"\n\t\n\t\tMonitoring Networks through Multiparty Session Types\n\t\t\n\t\t\tLauraBocchi\n\t\t\n\t\t\n\t\t\tTzu-ChunChen\n\t\t\n\t\t\n\t\t\tRomainDemangeon\n\t\t\n\t\t\n\t\t\tKoheiHonda\n\t\t\n\t\t\n\t\t\tNobukoYoshida\n\t\t\n\t\t10.1007/978-3-642-38592-6_5\n\t\tark:/67375/HCB-20PF1X9H-G\n\t\t1D6209A301704AC1513BF6FD276C0A81D144F472\n\t\t\n\t\n\t\n\t\tFormal Techniques for Distributed Systems\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t669\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c53fd77723bebd866782db"},"refKey":2},
{"_key":"60c53fd77723bebd866782df","_id":"references/60c53fd77723bebd866782df","_rev":"_cfFljNO---","tei":"\n\t\n\t\tBoogie: A modular reusable verifier for object-oriented programs\n\t\t\n\t\t\tMBarnett\n\t\t\n\t\t\n\t\t\tBEChang\n\t\t\n\t\t\n\t\t\tRDeline\n\t\t\n\t\t\n\t\t\tBJacobs\n\t\t\n\t\t\n\t\t\tKR MLeino\n\t\t\n\t\n\t\n\t\tFMCO. Lecture Notes in Computer Science\n\t\t\n\t\t\t4111\n\t\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c53fd77723bebd866782db"},"refKey":1},
{"_key":"60c53ffe7723bebd86678336","_id":"references/60c53ffe7723bebd86678336","_rev":"_cfFljNa---","tei":"\n\t\n\t\tDistance Sampling in R\n\t\t\n\t\t\tDavidLMiller\n\t\t\n\t\t\n\t\t\tEricRexstad\n\t\t\n\t\t\n\t\t\tLenThomas\n\t\t\n\t\t\n\t\t\tLauraMarshall\n\t\t\n\t\t\n\t\t\tJeffreyLLaake\n\t\t\n\t\t10.18637/jss.v089.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t89\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c53ffe7723bebd86678335"},"refKey":43},
{"_key":"60c53ffe7723bebd86678337","_id":"references/60c53ffe7723bebd86678337","_rev":"_cfFljNm---","tei":"\n\t\n\t\tGeneralized additive models: an introduction with R\n\t\t\n\t\t\tSNWood\n\t\t\n\t\t\n\t\t\t\n\t\t\tCRC press\n\t\t\n\t\n\n","document":{"$oid":"60c53ffe7723bebd86678335"},"refKey":65},
{"_key":"60c540307723bebd8667835c","_id":"references/60c540307723bebd8667835c","_rev":"_cfFljNy---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJournal of molecular biology\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c540307723bebd8667835b"},"refKey":58},
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{"_key":"60c540597723bebd86678386","_id":"references/60c540597723bebd86678386","_rev":"_cfFljOS---","tei":"\n\t\n\t\tI-TASSER: a unified platform for automated protein structure and function prediction\n\t\t\n\t\t\tAmbrishRoy\n\t\t\n\t\t\n\t\t\tAlperKucukural\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1038/nprot.2010.5\n\t\t20360767\n\t\tPMC2849174\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t5\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c540597723bebd86678385"},"refKey":51},
{"_key":"60c540597723bebd86678387","_id":"references/60c540597723bebd86678387","_rev":"_cfFljOe---","tei":"\n\t\n\t\tThe I-TASSER Suite: protein structure and function prediction\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tRenxiangYan\n\t\t\n\t\t\n\t\t\tAmbrishRoy\n\t\t\n\t\t\n\t\t\tDongXu\n\t\t\n\t\t\n\t\t\tJonathanPoisson\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1038/nmeth.3213\n\t\t25549265\n\t\tPMC4428668\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c540597723bebd86678385"},"refKey":52},
{"_key":"60c540597723bebd86678388","_id":"references/60c540597723bebd86678388","_rev":"_cfFljOq---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c540597723bebd86678385"},"refKey":131},
{"_key":"60c540597723bebd86678389","_id":"references/60c540597723bebd86678389","_rev":"_cfFljO2---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c540597723bebd86678385"},"refKey":130},
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{"_key":"60c540627723bebd866783a6","_id":"references/60c540627723bebd866783a6","_rev":"_cfFljPa---","tei":"\n\t\n\t\tAdvances in functional and structural MR image analysis and implementation as FSL\n\t\t\n\t\t\tStephenMSmith\n\t\t\n\t\t\n\t\t\tMarkJenkinson\n\t\t\n\t\t\n\t\t\tMarkWWoolrich\n\t\t\n\t\t\n\t\t\tChristianFBeckmann\n\t\t\n\t\t\n\t\t\tTimothyE JBehrens\n\t\t\n\t\t\n\t\t\tHeidiJohansen-Berg\n\t\t\n\t\t\n\t\t\tPeterRBannister\n\t\t\n\t\t\n\t\t\tMarilenaDe Luca\n\t\t\n\t\t\n\t\t\tIvanaDrobnjak\n\t\t\n\t\t\n\t\t\tDavidEFlitney\n\t\t\n\t\t\n\t\t\tRamiKNiazy\n\t\t\n\t\t\n\t\t\tJamesSaunders\n\t\t\n\t\t\n\t\t\tJohnVickers\n\t\t\n\t\t\n\t\t\tYongyueZhang\n\t\t\n\t\t\n\t\t\tNicolaDe Stefano\n\t\t\n\t\t\n\t\t\tJMichaelBrady\n\t\t\n\t\t\n\t\t\tPaulMMatthews\n\t\t\n\t\t10.1016/j.neuroimage.2004.07.051\n\t\t15501092\n\t\t\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c540627723bebd866783a5"},"refKey":64},
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{"_key":"60c540777723bebd866783c9","_id":"references/60c540777723bebd866783c9","_rev":"_cfFljQS---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c540777723bebd866783c4"},"refKey":35},
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{"_key":"60c540d57723bebd86678434","_id":"references/60c540d57723bebd86678434","_rev":"_cfFljRO---","tei":"\n\t\n\t\tA computational procedure for determining energetically favorable binding sites on biologically important macromolecules\n\t\t\n\t\t\tPJGoodford\n\t\t\n\t\t10.1021/jm00145a002\n\t\t3892003\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t28\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c540d57723bebd8667842f"},"refKey":24},
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{"_key":"60c543d67723bebd866786cd","_id":"references/60c543d67723bebd866786cd","_rev":"_cfFljaq---","tei":"\n\t\n\t\tSignalP 5.0 improves signal peptide predictions using deep neural networks\n\t\t\n\t\t\tJJ AArmenteros\n\t\t\n\t\n\t\n\t\tNature biotechnology\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c543d67723bebd866786cb"},"refKey":19},
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{"_key":"60c544007723bebd86678712","_id":"references/60c544007723bebd86678712","_rev":"_cfFljcm---","tei":"\n\t\n\t\tVMD-visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Mol Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c544007723bebd86678710"},"refKey":18},
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{"_key":"60c544007723bebd86678714","_id":"references/60c544007723bebd86678714","_rev":"_cfFljdC---","tei":"\n\t\n\t\tDeviations from Standard Atomic Volumes as a Quality Measure for Protein Crystal Structures\n\t\t\n\t\t\tJoanPontius\n\t\t\n\t\t\n\t\t\tJeanRichelle\n\t\t\n\t\t\n\t\t\tShoshanaJWodak\n\t\t\n\t\t10.1006/jmbi.1996.0628\n\t\t8950272\n\t\tS0022-2836(96)90628-2\n\t\tark:/67375/6H6-VP7KCSTT-0\n\t\t2FAFC82733959FA167F7E701AF0BA09CFD1AE0CD\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t264\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c544007723bebd86678710"},"refKey":30},
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{"_key":"60c544007723bebd86678717","_id":"references/60c544007723bebd86678717","_rev":"_cfFljdi---","tei":"\n\t\n\t\tPROCHECK-a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Appl Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c544007723bebd86678710"},"refKey":25},
{"_key":"60c544007723bebd86678718","_id":"references/60c544007723bebd86678718","_rev":"_cfFljdu---","tei":"\n\t\n\t\tPEPstrMOD: structure prediction of peptides containing natural, non-natural and modified residues\n\t\t\n\t\t\tSandeepSingh\n\t\t\n\t\t\n\t\t\tHarinderSingh\n\t\t\n\t\t\n\t\t\tAbhishekTuknait\n\t\t\n\t\t\n\t\t\tKumardeepChaudhary\n\t\t\n\t\t\n\t\t\tBalvinderSingh\n\t\t\n\t\t\n\t\t\tSKumaran\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1186/s13062-015-0103-4\n\t\t26690490\n\t\tPMC4687368\n\t\t\n\t\n\t\n\t\tBiology Direct\n\t\tBiol Direct\n\t\t1745-6150\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t73\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c544007723bebd86678710"},"refKey":42},
{"_key":"60c544007723bebd86678719","_id":"references/60c544007723bebd86678719","_rev":"_cfFljd6---","tei":"\n\t\n\t\tPEPstr: a de novo method for tertiary structure prediction of small bioactive peptides\n\t\t\n\t\t\tHKaur\n\t\t\n\t\t\n\t\t\tAGarg\n\t\t\n\t\t\n\t\t\tGpsRaghava\n\t\t\n\t\n\t\n\t\tProtein Pept Lett\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c544007723bebd86678710"},"refKey":20},
{"_key":"60c544007723bebd8667871a","_id":"references/60c544007723bebd8667871a","_rev":"_cfFljeG---","tei":"\n\t\n\t\tA study of quality measures for protein threading models\n\t\t\n\t\t\tSCristobal\n\t\t\n\t\t\n\t\t\tAZemla\n\t\t\n\t\t\n\t\t\tDFischer\n\t\t\n\t\t\n\t\t\tLRychlewski\n\t\t\n\t\t\n\t\t\tAElofsson\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c544007723bebd86678710"},"refKey":11},
{"_key":"60c544007723bebd8667871b","_id":"references/60c544007723bebd8667871b","_rev":"_cfFljeS---","tei":"\n\t\n\t\tPredicting linear B‐cell epitopes using string kernels\n\t\t\n\t\t\tYasserEl‐manzalawy\n\t\t\n\t\t\n\t\t\tDrenaDobbs\n\t\t\n\t\t\n\t\t\tVasantHonavar\n\t\t\n\t\t10.1002/jmr.893\n\t\t18496882\n\t\tPMC2683948\n\t\tark:/67375/WNG-WGM67G2V-3\n\t\t6483283356B180D4365629B79073ABBEDE5C41A3\n\t\t\n\t\n\t\n\t\tJournal of Molecular Recognition\n\t\tJ. Mol. Recognit.\n\t\t0952-3499\n\t\t1099-1352\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c544007723bebd86678710"},"refKey":15},
{"_key":"60c544007723bebd8667871c","_id":"references/60c544007723bebd8667871c","_rev":"_cfFljee---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c544007723bebd86678710"},"refKey":1},
{"_key":"60c5440a7723bebd86678750","_id":"references/60c5440a7723bebd86678750","_rev":"_cfFljeq---","tei":"\n\t\n\t\tComparative study of techniques for large-scale feature selection\n\t\t\n\t\t\tFJFerri\n\t\t\n\t\t\n\t\t\tPPudil\n\t\t\n\t\t\n\t\t\tMHatef\n\t\t\n\t\t\n\t\t\tCKittler\n\t\t\n\t\t10.1016/B978-0-444-81892-8.50040-7\n\t\n\t\n\t\tMachine Intelligence and Pattern Recognition\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tFREE Full text\n\n","document":{"$oid":"60c5440a7723bebd8667874f"},"refKey":28},
{"_key":"60c5440a7723bebd86678751","_id":"references/60c5440a7723bebd86678751","_rev":"_cfFlje2---","tei":"\n\t\n\t\tA feature learning approach based on XGBoost for driving assessment and risk prediction\n\t\t\n\t\t\tXiupengShi\n\t\t\n\t\t\n\t\t\tYiikDiewWong\n\t\t\t0000-0001-7419-5777\n\t\t\n\t\t\n\t\t\tMichael Zhi-FengLi\n\t\t\n\t\t\n\t\t\tChandrasekarPalanisamy\n\t\t\n\t\t\n\t\t\tChenChai\n\t\t\t0000-0002-5280-7194\n\t\t\n\t\t10.1016/j.aap.2019.05.005\n\t\n\t\n\t\tAccident Analysis & Prevention\n\t\tAccident Analysis & Prevention\n\t\t0001-4575\n\t\t\n\t\t\t129\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tMedline: 31154284\n\n","document":{"$oid":"60c5440a7723bebd8667874f"},"refKey":30},
{"_key":"60c544247723bebd86678760","_id":"references/60c544247723bebd86678760","_rev":"_cfFljfC---","tei":"\n\t\n\t\tOpenNMT: Open-Source Toolkit for Neural Machine Translation\n\t\t\n\t\t\tGuillaumeKlein\n\t\t\n\t\t\n\t\t\tYoonKim\n\t\t\n\t\t\n\t\t\tYuntianDeng\n\t\t\n\t\t\n\t\t\tJeanSenellart\n\t\t\n\t\t\n\t\t\tAlexanderRush\n\t\t\n\t\t10.18653/v1/p17-4012\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of ACL 2017, System Demonstrations\n\t\t\t\tACL 2017, System Demonstrations\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c544247723bebd8667875f"},"refKey":13},
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{"_key":"60c544c87723bebd86678803","_id":"references/60c544c87723bebd86678803","_rev":"_cfFljf6---","tei":"\n\t\n\t\tFlowSOM: Using self-organizing maps for visualization and interpretation of cytometry data\n\t\t\n\t\t\tSofieVan Gassen\n\t\t\n\t\t\n\t\t\tBrittCallebaut\n\t\t\n\t\t\n\t\t\tMaryJVan Helden\n\t\t\n\t\t\n\t\t\tBartNLambrecht\n\t\t\n\t\t\n\t\t\tPietDemeester\n\t\t\n\t\t\n\t\t\tTomDhaene\n\t\t\n\t\t\n\t\t\tYvanSaeys\n\t\t\n\t\t10.1002/cyto.a.22625\n\t\t25573116\n\t\t\n\t\n\t\n\t\tCytometry Part A\n\t\tCytometry\n\t\t1552-4922\n\t\t\n\t\t\t87\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c544c87723bebd86678802"},"refKey":41},
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{"_key":"60c545517723bebd86678881","_id":"references/60c545517723bebd86678881","_rev":"_cfFljhO---","tei":"\n\t\n\t\tUCHIME improves sensitivity and speed of chimera detection\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t\n\t\t\tBrianJHaas\n\t\t\n\t\t\n\t\t\tJoseCClemente\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tRobKnight\n\t\t\n\t\t10.1093/bioinformatics/btr381\n\t\t21700674\n\t\tPMC3150044\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c545517723bebd8667887f"},"refKey":43},
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{"_key":"60c545867723bebd866788b4","_id":"references/60c545867723bebd866788b4","_rev":"_cfFljie---","tei":"\n\t\n\t\tGROMACS , a message-passing parallel molecular dynamics implementation\n\t\t\n\t\t\tHJBerendsen\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tRVan Drunen\n\t\t\n\t\n\t\n\t\tComput Phys Commun\n\t\t\n\t\t\t91\n\t\t\t1-3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c545867723bebd866788b2"},"refKey":20},
{"_key":"60c545867723bebd866788b5","_id":"references/60c545867723bebd866788b5","_rev":"_cfFljiy---","tei":"\n\t\n\t\tUCSF Chimera-A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c545867723bebd866788b2"},"refKey":18},
{"_key":"60c5459d7723bebd866788c6","_id":"references/60c5459d7723bebd866788c6","_rev":"_cfFljjC---","tei":"\n\t\n\t\tConstruction of evolutionary distance trees with TREECON for Windows: accounting for variation in nucleotide substitution rate among sites\n\t\t\n\t\t\tYvesVan De Peer\n\t\t\n\t\t\n\t\t\tRupertDe Wachter\n\t\t\n\t\t10.1093/bioinformatics/13.3.227\n\t\tark:/67375/HXZ-M50W0RH4-J\n\t\tAC7671DA11DCB1C7C542603099C745714BE890AD\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t13\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5459d7723bebd866788c5"},"refKey":27},
{"_key":"60c5459f7723bebd866788cb","_id":"references/60c5459f7723bebd866788cb","_rev":"_cfFljjO---","tei":"\n\t\n\t\tGeneralized additive models: an introduction with R\n\t\t\n\t\t\tSNWood\n\t\t\n\t\t\n\t\t\t\n\t\t\tCRC Press\n\t\t\tBoca Raton (FL\n\t\t\n\t\n\n","document":{"$oid":"60c5459f7723bebd866788ca"},"refKey":22},
{"_key":"60c545c37723bebd866788e2","_id":"references/60c545c37723bebd866788e2","_rev":"_cfFljje---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c545c37723bebd866788e1"},"refKey":29},
{"_key":"60c545c37723bebd866788e3","_id":"references/60c545c37723bebd866788e3","_rev":"_cfFljjq---","tei":"\n\t\n\t\tUnsupervised HLA Peptidome Deconvolution Improves Ligand Prediction Accuracy and Predicts Cooperative Effects in Peptide–HLA Interactions\n\t\t\n\t\t\tMichalBassani-Sternberg\n\t\t\n\t\t\n\t\t\tDavidGfeller\n\t\t\t0000-0002-3952-0930\n\t\t\n\t\t10.4049/jimmunol.1600808\n\t\t27511729\n\t\t\n\t\n\t\n\t\tThe Journal of Immunology\n\t\tJ.I.\n\t\t0022-1767\n\t\t1550-6606\n\t\t\n\t\t\t197\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tThe American Association of Immunologists\n\t\t\n\t\n\n","document":{"$oid":"60c545c37723bebd866788e1"},"refKey":9},
{"_key":"60c545c37723bebd866788e4","_id":"references/60c545c37723bebd866788e4","_rev":"_cfFljj2---","tei":"\n\t\n\t\tDeciphering HLA-I motifs across HLA peptidomes improves neo-antigen predictions and identifies allostery regulating HLA specificity\n\t\t\n\t\t\tMichalBassani-Sternberg\n\t\t\n\t\t\n\t\t\tChloéChong\n\t\t\n\t\t\n\t\t\tPhilippeGuillaume\n\t\t\n\t\t\n\t\t\tMartheSolleder\n\t\t\n\t\t\n\t\t\tHuisongPak\n\t\t\n\t\t\n\t\t\tPhilippeOGannon\n\t\t\n\t\t\n\t\t\tLanaEKandalaft\n\t\t\n\t\t\n\t\t\tGeorgeCoukos\n\t\t\n\t\t\n\t\t\tDavidGfeller\n\t\t\n\t\t10.1101/098780\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\t\n\t\t\t13\n\t\t\t8\n\t\t\te1005725\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c545c37723bebd866788e1"},"refKey":10},
{"_key":"60c545c37723bebd866788e5","_id":"references/60c545c37723bebd866788e5","_rev":"_cfFljkG---","tei":"\n\t\n\t\tThe length distribution and multiple specificity of naturally presented HLA-I ligands\n\t\t\n\t\t\tDavidGfeller\n\t\t\t0000-0002-3952-0930\n\t\t\n\t\t\n\t\t\tPhilippeGuillaume\n\t\t\n\t\t\n\t\t\tJustineMichaux\n\t\t\n\t\t\n\t\t\tHui-SongPak\n\t\t\n\t\t\n\t\t\tRoyTDaniel\n\t\t\n\t\t\n\t\t\tJulienRacle\n\t\t\t0000-0002-0100-0323\n\t\t\n\t\t\n\t\t\tGeorgeCoukos\n\t\t\t0000-0001-8813-7367\n\t\t\n\t\t\n\t\t\tMichalBassani-Sternberg\n\t\t\t0000-0002-1934-954X\n\t\t\n\t\t10.1101/335661\n\t\t\n\t\n\t\n\t\tThe Journal of Immunology\n\t\t\n\t\t\t201\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c545c37723bebd866788e1"},"refKey":11},
{"_key":"60c545c37723bebd866788e6","_id":"references/60c545c37723bebd866788e6","_rev":"_cfFljkS---","tei":"\n\t\n\t\tNetMHCpan 4.0: Improved peptide-MHC class I interaction predictions integrating eluted ligand and peptide binding affinity data\n\t\t\n\t\t\tVanessaJurtz\n\t\t\t0000-0003-4452-6605\n\t\t\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1101/149518\n\t\t\n\t\n\t\n\t\tThe Journal of Immunology\n\t\t\n\t\t\t199\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c545c37723bebd866788e1"},"refKey":7},
{"_key":"60c545c37723bebd866788e7","_id":"references/60c545c37723bebd866788e7","_rev":"_cfFljke---","tei":"\n\t\n\t\tNetMHCpan-4.1 and NetMHCIIpan-4.0: improved predictions of MHC antigen presentation by concurrent motif deconvolution and integration of MS MHC eluted ligand data\n\t\t\n\t\t\tBReynisson\n\t\t\n\t\t\n\t\t\tBAlvarez\n\t\t\n\t\t\n\t\t\tSPaul\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t48\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c545c37723bebd866788e1"},"refKey":8},
{"_key":"60c545c37723bebd866788e8","_id":"references/60c545c37723bebd866788e8","_rev":"_cfFljkq---","tei":"\n\t\n\t\tGapped sequence alignment using artificial neural networks: application to the MHC class I system\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1093/bioinformatics/btv639\n\t\t26515819\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c545c37723bebd866788e1"},"refKey":6},
{"_key":"60c545c37723bebd866788e9","_id":"references/60c545c37723bebd866788e9","_rev":"_cfFljk2---","tei":"\n\t\n\t\tScikit-Learn: Machine Learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tVMichel\n\t\t\n\t\t\n\t\t\tBThirion\n\t\t\n\t\t\n\t\t\tOGrisel\n\t\t\n\t\n\t\n\t\tJournal of Machine Learning Research\n\t\t\n\t\t\t12\n\t\t\t85\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c545c37723bebd866788e1"},"refKey":38},
{"_key":"60c545c37723bebd866788ea","_id":"references/60c545c37723bebd866788ea","_rev":"_cfFljlC---","tei":"\n\t\n\t\tA Large Peptidome Dataset Improves HLA Class I Epitope Prediction across Most of the Human Population\n\t\t\n\t\t\tSSarkizova\n\t\t\n\t\t\n\t\t\tSKlaeger\n\t\t\n\t\t\n\t\t\tPMLe\n\t\t\n\t\t\n\t\t\tLWLi\n\t\t\n\t\t\n\t\t\tGOliveira\n\t\t\n\t\t\n\t\t\tHKeshishian\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\t\n\t\t\t38\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c545c37723bebd866788e1"},"refKey":5},
{"_key":"60c545e17723bebd8667893f","_id":"references/60c545e17723bebd8667893f","_rev":"_cfFljlO---","tei":"\n\t\n\t\tPractical Aggregate Programming with Protelis\n\t\t\n\t\t\tDaniloPianini\n\t\t\n\t\t\n\t\t\tJacobBeal\n\t\t\n\t\t\n\t\t\tMirkoViroli\n\t\t\n\t\t10.1109/fas-w.2017.186\n\t\t\n\t\n\t\n\t\t2017 IEEE 2nd International Workshops on Foundations and Applications of Self* Systems (FAS*W)\n\t\t\t\tSalamanca, Spain\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c545e17723bebd8667893e"},"refKey":27},
{"_key":"60c545e17723bebd86678940","_id":"references/60c545e17723bebd86678940","_rev":"_cfFljla---","tei":"\n\t\n\t\txarray: N-D labeled Arrays and Datasets in Python\n\t\t\n\t\t\tStephanHoyer\n\t\t\n\t\t\n\t\t\tJosephJHamman\n\t\t\n\t\t10.5334/jors.148\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Open Research Software\n\t\t2049-9647\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t\n\t\t\tUbiquity Press, Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c545e17723bebd8667893e"},"refKey":14},
{"_key":"60c545e17723bebd86678941","_id":"references/60c545e17723bebd86678941","_rev":"_cfFljlm---","tei":"\n\t\n\t\tChemical-oriented simulation of computational systems with ALCHEMIST\n\t\t\n\t\t\tDPianini\n\t\t\n\t\t\n\t\t\tSMontagna\n\t\t\n\t\t\n\t\t\tMViroli\n\t\t\n\t\t10.1057/jos.2012.27\n\t\t\n\t\n\t\n\t\tJournal of Simulation\n\t\tJournal of Simulation\n\t\t1747-7778\n\t\t1747-7786\n\t\t\n\t\t\t7\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c545e17723bebd8667893e"},"refKey":26},
{"_key":"60c545e17723bebd86678942","_id":"references/60c545e17723bebd86678942","_rev":"_cfFljly---","tei":"\n\t\n\t\tMatplotlib: A 2D Graphics Environment\n\t\t\n\t\t\tJohnDHunter\n\t\t\n\t\t10.1109/mcse.2007.55\n\t\t\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\tComput. Sci. Eng.\n\t\t1521-9615\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c545e17723bebd8667893e"},"refKey":15},
{"_key":"60c546037723bebd86678965","_id":"references/60c546037723bebd86678965","_rev":"_cfFljm----","tei":"\n\t\n\t\tThe MR-Base platform supports systematic causal inference across the human phenome\n\t\t\n\t\t\tGibranHemani\n\t\t\t0000-0003-0920-1055\n\t\t\n\t\t\n\t\t\tJieZheng\n\t\t\t0000-0002-6623-6839\n\t\t\n\t\t\n\t\t\tBenjaminElsworth\n\t\t\n\t\t\n\t\t\tKaitlinHWade\n\t\t\t0000-0003-3362-6280\n\t\t\n\t\t\n\t\t\tValeriiaHaberland\n\t\t\n\t\t\n\t\t\tDenisBaird\n\t\t\t0000-0003-4600-6013\n\t\t\n\t\t\n\t\t\tCharlesLaurin\n\t\t\n\t\t\n\t\t\tStephenBurgess\n\t\t\t0000-0001-5365-8760\n\t\t\n\t\t\n\t\t\tJackBowden\n\t\t\n\t\t\n\t\t\tRyanLangdon\n\t\t\n\t\t\n\t\t\tVanessaYTan\n\t\t\t0000-0001-7938-127X\n\t\t\n\t\t\n\t\t\tJamesYarmolinsky\n\t\t\n\t\t\n\t\t\tHashemAShihab\n\t\t\n\t\t\n\t\t\tNicholasJTimpson\n\t\t\n\t\t\n\t\t\tDavidMEvans\n\t\t\n\t\t\n\t\t\tCarolineRelton\n\t\t\t0000-0003-2052-4840\n\t\t\n\t\t\n\t\t\tRichardMMartin\n\t\t\t0000-0002-7992-7719\n\t\t\n\t\t\n\t\t\tGeorgeDavey Smith\n\t\t\t0000-0002-1407-8314\n\t\t\n\t\t\n\t\t\tTomRGaunt\n\t\t\t0000-0003-0924-3247\n\t\t\n\t\t\n\t\t\tPhilipCHaycock\n\t\t\t0000-0001-5001-3350\n\t\t\n\t\t10.7554/elife.34408\n\t\t29846171\n\t\tPMC5976434\n\t\n\t\n\t\teLife\n\t\t2050-084X\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\teLife Sciences Publications, Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c546037723bebd86678964"},"refKey":13},
{"_key":"60c546067723bebd8667896a","_id":"references/60c546067723bebd8667896a","_rev":"_cfFljmK---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\n\t\n\t\tCore Team R\n\t\t\n\t\t\t\n\t\t\n\t\n\t: R foundation for statistical computing\n\n","document":{"$oid":"60c546067723bebd86678969"},"refKey":13},
{"_key":"60c5460a7723bebd8667896d","_id":"references/60c5460a7723bebd8667896d","_rev":"_cfFljmW---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5460a7723bebd8667896c"},"refKey":24},
{"_key":"60c5461d7723bebd86678991","_id":"references/60c5461d7723bebd86678991","_rev":"_cfFljmi---","tei":"\n\t\n\t\tSoftware survey: VOSviewer, a computer program for bibliometric mapping\n\t\t\n\t\t\tNeesJanVan Eck\n\t\t\n\t\t\n\t\t\tLudoWaltman\n\t\t\n\t\t10.1007/s11192-009-0146-3\n\t\t20585380\n\t\tPMC2883932\n\t\tark:/67375/VQC-8X87T0TL-D\n\t\tDC112260644E1E345B37DC3D68B3E9728A97835E\n\t\t\n\t\t\n\t\n\t\n\t\tScientometrics\n\t\tScientometrics\n\t\t0138-9130\n\t\t1588-2861\n\t\t\n\t\t\t84\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5461d7723bebd86678990"},"refKey":42},
{"_key":"60c546447723bebd866789b1","_id":"references/60c546447723bebd866789b1","_rev":"_cfFljmu---","tei":"\n\t\n\t\tLabel-Free Protein Quantification Using LC-Coupled Ion Trap or FT Mass Spectrometry: Reproducibility, Linearity, and Application with Complex Proteomes\n\t\t\n\t\t\tGuanghuiWang\n\t\t\n\t\t\n\t\t\tWellsWWu\n\t\t\n\t\t\n\t\t\tWeihuaZeng\n\t\t\n\t\t\n\t\t\tChung-LinChou\n\t\t\n\t\t\n\t\t\tRong-FongShen\n\t\t\n\t\t10.1021/pr050406g\n\t\t16674111\n\t\n\t\n\t\tJournal of Proteome Research\n\t\tJ. Proteome Res.\n\t\t1535-3893\n\t\t1535-3907\n\t\t\n\t\t\t5\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c546447723bebd866789b0"},"refKey":20},
{"_key":"60c546877723bebd866789ee","_id":"references/60c546877723bebd866789ee","_rev":"_cfFljm2---","tei":"\n\t\n\t\tA New Method to Detect Related Function Among Proteins Independent of Sequence and Fold Homology\n\t\t\n\t\t\tStefanSchmitt\n\t\t\n\t\t\n\t\t\tDanielKuhn\n\t\t\n\t\t\n\t\t\tGerhardKlebe\n\t\t\n\t\t10.1016/s0022-2836(02)00811-2\n\t\t12381328\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t323\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c546877723bebd866789ed"},"refKey":32},
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{"_key":"60c546ef7723bebd86678a79","_id":"references/60c546ef7723bebd86678a79","_rev":"_cfFljoi---","tei":"\n\t\n\t\tClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks\n\t\t\n\t\t\tGabrielaBindea\n\t\t\n\t\t\n\t\t\tBernhardMlecnik\n\t\t\n\t\t\n\t\t\tHubertHackl\n\t\t\n\t\t\n\t\t\tPornpimolCharoentong\n\t\t\n\t\t\n\t\t\tMarieTosolini\n\t\t\n\t\t\n\t\t\tAmosKirilovsky\n\t\t\n\t\t\n\t\t\tWolf-HermanFridman\n\t\t\n\t\t\n\t\t\tFranckPagès\n\t\t\n\t\t\n\t\t\tZlatkoTrajanoski\n\t\t\n\t\t\n\t\t\tJérômeGalon\n\t\t\n\t\t10.1093/bioinformatics/btp101\n\t\t19237447\n\t\tPMC2666812\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c546ef7723bebd86678a78"},"refKey":35},
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{"_key":"60c5477b7723bebd86678af7","_id":"references/60c5477b7723bebd86678af7","_rev":"_cfFljpa---","tei":"\n\t\n\t\tModeling and forecasting trend of COVID-19 epidemic in Iran until May 13, 2020\n\t\t\n\t\t\tAAhmadi\n\t\t\n\t\t\n\t\t\tYFadaei\n\t\t\n\t\t\n\t\t\tMShirani\n\t\t\n\t\t\n\t\t\tFRahmani\n\t\t\n\t\n\t\n\t\tMed J Islam Repub Iran\n\t\t\n\t\t\t34\n\t\t\t27\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5477b7723bebd86678af6"},"refKey":23},
{"_key":"60c547df7723bebd86678b23","_id":"references/60c547df7723bebd86678b23","_rev":"_cfFljpm---","tei":"\n\t\n\t\tVADER: A Parsimonious Rule-Based Model for Sentiment Analysis of Social Media Text\n\t\t\n\t\t\tCJHutto\n\t\t\n\t\t\n\t\t\tEGilbert\n\t\t\n\t\n\t\n\t\tEighth International AAAI Conference on Weblogs and Social Media\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c547df7723bebd86678b22"},"refKey":27},
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{"_key":"60c547df7723bebd86678b25","_id":"references/60c547df7723bebd86678b25","_rev":"_cfFljq----","tei":"\n\t\n\t\tDeveloping a standardized protocol for computational sentiment analysis research using health-related social media data\n\t\t\n\t\t\tLHe\n\t\t\n\t\t\n\t\t\tTYin\n\t\t\n\t\t\n\t\t\tZHu\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tDAHanauer\n\t\t\n\t\t\n\t\t\tKZheng\n\t\t\n\t\t10.1093/jamia/ocaa298\n\t\n\t\n\t\tJournal of the American Medical Informatics Association\n\t\t\n\t\t\t\n\t\t\n\t\n\tocaa298\n\n","document":{"$oid":"60c547df7723bebd86678b22"},"refKey":26},
{"_key":"60c547df7723bebd86678b26","_id":"references/60c547df7723bebd86678b26","_rev":"_cfFljqK---","tei":"\n\t\n\t\tThe Psychological Meaning of Words: LIWC and Computerized Text Analysis Methods\n\t\t\n\t\t\tYlaRTausczik\n\t\t\n\t\t\n\t\t\tJamesWPennebaker\n\t\t\n\t\t10.1177/0261927x09351676\n\t\t\n\t\n\t\n\t\tJournal of Language and Social Psychology\n\t\tJournal of Language and Social Psychology\n\t\t0261-927X\n\t\t1552-6526\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c547df7723bebd86678b22"},"refKey":30},
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{"_key":"60c548867723bebd86678bc1","_id":"references/60c548867723bebd86678bc1","_rev":"_cfFljs----","tei":"\n\t\n\t\tA high-performance computing toolset for relatedness and principal component analysis of SNP data\n\t\t\n\t\t\tXZheng\n\t\t\n\t\t\n\t\t\tDLevine\n\t\t\n\t\t\n\t\t\tJShen\n\t\t\n\t\t\n\t\t\tSMGogarten\n\t\t\n\t\t\n\t\t\tCLaurie\n\t\t\n\t\t\n\t\t\tBSWeir\n\t\t\n\t\t10.1093/bioinformatics/bts606\n\t\t23060615\n\t\tPMC3519454\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c548867723bebd86678bbf"},"refKey":22},
{"_key":"60c548867723bebd86678bc2","_id":"references/60c548867723bebd86678bc2","_rev":"_cfFljsK---","tei":"\n\t\n\t\tExploring Diallelic Genetic Markers: TheHardyWeinbergPackage\n\t\t\n\t\t\tJanGraffelman\n\t\t\n\t\t10.18637/jss.v064.i03\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t64\n\t\t\t3\n\t\t\t64\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c548867723bebd86678bbf"},"refKey":35},
{"_key":"60c548867723bebd86678bc3","_id":"references/60c548867723bebd86678bc3","_rev":"_cfFljsS---","tei":"\n\t\n\t\tControl for Population Structure and Relatedness for Binary Traits in Genetic Association Studies via Logistic Mixed Models\n\t\t\n\t\t\tHanChen\n\t\t\n\t\t\n\t\t\tChaolongWang\n\t\t\n\t\t\n\t\t\tMatthewPConomos\n\t\t\n\t\t\n\t\t\tAdrienneMStilp\n\t\t\n\t\t\n\t\t\tZilinLi\n\t\t\n\t\t\n\t\t\tTamarSofer\n\t\t\n\t\t\n\t\t\tAdamASzpiro\n\t\t\n\t\t\n\t\t\tWeiChen\n\t\t\n\t\t\n\t\t\tJohnMBrehm\n\t\t\n\t\t\n\t\t\tJuanCCeledón\n\t\t\n\t\t\n\t\t\tSusanRedline\n\t\t\n\t\t\n\t\t\tGeorgeJPapanicolaou\n\t\t\n\t\t\n\t\t\tTimothyAThornton\n\t\t\n\t\t\n\t\t\tCathyCLaurie\n\t\t\n\t\t\n\t\t\tKennethRice\n\t\t\n\t\t\n\t\t\tXihongLin\n\t\t\n\t\t10.1016/j.ajhg.2016.02.012\n\t\t27018471\n\t\tPMC4833218\n\t\t\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t98\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c548867723bebd86678bbf"},"refKey":30},
{"_key":"60c548867723bebd86678bc4","_id":"references/60c548867723bebd86678bc4","_rev":"_cfFljse---","tei":"\n\t\n\t\tDisGeNET: a comprehensive platform integrating information on human disease-associated genes and variants\n\t\t\n\t\t\tJanetPiñero\n\t\t\t0000-0003-1244-7654\n\t\t\n\t\t\n\t\t\tÀlexBravo\n\t\t\n\t\t\n\t\t\tNúriaQueralt-Rosinach\n\t\t\n\t\t\n\t\t\tAlbaGutiérrez-Sacristán\n\t\t\n\t\t\n\t\t\tJordiDeu-Pons\n\t\t\n\t\t\n\t\t\tEmilioCenteno\n\t\t\n\t\t\n\t\t\tJavierGarcía-García\n\t\t\n\t\t\n\t\t\tFerranSanz\n\t\t\n\t\t\n\t\t\tLauraIFurlong\n\t\t\n\t\t10.1093/nar/gkw943\n\t\t27924018\n\t\tPMC5210640\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c548867723bebd86678bbf"},"refKey":25},
{"_key":"60c548867723bebd86678bd5","_id":"references/60c548867723bebd86678bd5","_rev":"_cfFljsq---","tei":"\n\t\n\t\tRecent changes to the MOSFLM package for processing film and image plate data\n\t\t\n\t\t\tAgwLeslie\n\t\t\n\t\n\t\n\t\tJoint CCP4 + ESF-EAMCB Newsletter on Protein Crystallography\n\t\t\t\tWarrington\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tDaresbury Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c548867723bebd86678bd4"},"refKey":51},
{"_key":"60c548867723bebd86678bd6","_id":"references/60c548867723bebd86678bd6","_rev":"_cfFljs2---","tei":"\n\t\n\t\tAutomated refinement of protein models\n\t\t\n\t\t\tVSLamzin\n\t\t\n\t\t\n\t\t\tKSWilson\n\t\t\n\t\t10.1107/s0907444992008886\n\t\t15299554\n\t\tark:/67375/WNG-P4FR3FMR-8\n\t\t9ABA96D7021478DE46C709859AF8ED0CF30B6900\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Cryst D\n\t\t0907-4449\n\t\t\n\t\t\t49\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c548867723bebd86678bd4"},"refKey":57},
{"_key":"60c548867723bebd86678bd7","_id":"references/60c548867723bebd86678bd7","_rev":"_cfFljtC---","tei":"\n\t\n\t\tA robust bulk-solvent correction and anisotropic scaling procedure\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1107/s0907444905007894\n\t\t15983406\n\t\tPMC2808320\n\t\tark:/67375/WNG-JG4H2WTP-M\n\t\t812139FFCBA55AEFED1EC8E02827DA30C8A980E6\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Cryst D\n\t\t0907-4449\n\t\t\n\t\t\t61\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c548867723bebd86678bd4"},"refKey":54},
{"_key":"60c548867723bebd86678bd8","_id":"references/60c548867723bebd86678bd8","_rev":"_cfFljtO---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c548867723bebd86678bd4"},"refKey":55},
{"_key":"60c548967723bebd86678be0","_id":"references/60c548967723bebd86678be0","_rev":"_cfFljta---","tei":"\n\t\n\t\tsCool -a mobile flexible learning environment\n\t\t\n\t\t\tAKojic\n\t\t\n\t\t\n\t\t\tMKojic\n\t\t\n\t\t\n\t\t\tJPirker\n\t\t\n\t\t\n\t\t\tCGütl\n\t\t\n\t\t\n\t\t\tMMentzelopoulos\n\t\t\n\t\t\n\t\t\tDEconomou\n\t\t\n\t\n\t\n\t\tOnline Proceedings from\n\t\t\n\t\t\t4\n\t\t\n\t\n\n","document":{"$oid":"60c548967723bebd86678bdf"},"refKey":1},
{"_key":"60c548a57723bebd86678bf9","_id":"references/60c548a57723bebd86678bf9","_rev":"_cfFljtm---","tei":"\n\t\n\t\tA flexible R package for nonnegative matrix factorization\n\t\t\n\t\t\tRGaujoux\n\t\t\n\t\t\n\t\t\tCSeoighe\n\t\t\n\t\n\t\n\t\tBMC Bioinformat\n\t\t\n\t\t\t11\n\t\t\t367\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c548a57723bebd86678bf8"},"refKey":31},
{"_key":"60c548a57723bebd86678bfa","_id":"references/60c548a57723bebd86678bfa","_rev":"_cfFljtu---","tei":"\n\t\n\t\tIntegrated Development for R. RStudio Inc\n\t\t\n\t\t\tRTeam\n\t\t\n\t\t\n\t\t\tRstudio\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c548a57723bebd86678bf8"},"refKey":32},
{"_key":"60c548b07723bebd86678c0f","_id":"references/60c548b07723bebd86678c0f","_rev":"_cfFljt6---","tei":"\n\t\n\t\tReal-space refinement in Phenix for cryo-EM and crystallography\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tBillyKPoon\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tOlegVSobolev\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1101/249607\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Struct Biol\n\t\t\n\t\t\t74\n\t\t\t531\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c548b07723bebd86678c0e"},"refKey":20},
{"_key":"60c548be7723bebd86678c1b","_id":"references/60c548be7723bebd86678c1b","_rev":"_cfFljuG---","tei":"\n\t\n\t\tRELION-3: new tools for automated high-resolution cryo-EM structure determination\n\t\t\n\t\t\tJasenkoZivanov\n\t\t\t0000-0001-8407-0759\n\t\t\n\t\t\n\t\t\tTakanoriNakane\n\t\t\t0000-0003-2697-2767\n\t\t\n\t\t\n\t\t\tBjörnForsberg\n\t\t\t0000-0002-6247-4063\n\t\t\n\t\t\n\t\t\tDariKimanius\n\t\t\t0000-0002-2662-6373\n\t\t\n\t\t\n\t\t\tWimJ HHagen\n\t\t\t0000-0001-6229-2692\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\t0000-0002-2734-2794\n\t\t\n\t\t\n\t\t\tSjorsH WScheres\n\t\t\t0000-0002-0462-6540\n\t\t\n\t\t10.1101/421123\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c548be7723bebd86678c1a"},"refKey":36},
{"_key":"60c548be7723bebd86678c1c","_id":"references/60c548be7723bebd86678c1c","_rev":"_cfFljuS---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c548be7723bebd86678c1a"},"refKey":37},
{"_key":"60c548be7723bebd86678c1d","_id":"references/60c548be7723bebd86678c1d","_rev":"_cfFljue---","tei":"\n\t\n\t\tUCSF ChimeraX: meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c548be7723bebd86678c1a"},"refKey":42},
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{"_key":"60c548d37723bebd86678c33","_id":"references/60c548d37723bebd86678c33","_rev":"_cfFlju2---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c548d37723bebd86678c32"},"refKey":10},
{"_key":"60c548d37723bebd86678c34","_id":"references/60c548d37723bebd86678c34","_rev":"_cfFljvC---","tei":"\n\t\n\t\tBuilding an international community of software partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\n\t\n\t\tJournal of biomedical informatics\n\t\t\n\t\t\t95\n\t\t\t\n\t\t\n\t\n\tJ Biomed Inform\n\n","document":{"$oid":"60c548d37723bebd86678c32"},"refKey":11},
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{"_key":"60c54e617723bebd86679004","_id":"references/60c54e617723bebd86679004","_rev":"_cfFlk-K---","tei":"\n\t\n\t\tCochrane Handbook for Systematic Reviews of Interventions version 6\n\t\t\n\t\t\tJHiggins\n\t\t\n\t\t\n\t\t\tJThomas\n\t\t\n\t\t\n\t\t\tJChandler\n\t\t\n\t\t\n\t\t\tMCumpston\n\t\t\n\t\t\n\t\t\tTLi\n\t\t\n\t\t\n\t\t\tMPage\n\t\t\n\t\t\n\t\t\t\n\t\t\tCochrane\n\t\t\n\t\n\tAvailable at www. training.cochrane.org/handbook. Accessed November 4, 2020\n\n","document":{"$oid":"60c54e617723bebd86679002"},"refKey":10},
{"_key":"60c54e617723bebd86679005","_id":"references/60c54e617723bebd86679005","_rev":"_cfFlk-W---","tei":"\n\t\n\t\tRoB 2: a revised tool for assessing risk of bias in randomised trials\n\t\t\n\t\t\tJASterne\n\t\t\n\t\t\n\t\t\tJSavović\n\t\t\n\t\t\n\t\t\tMJPage\n\t\t\n\t\t\n\t\t\tRGElbers\n\t\t\n\t\t\n\t\t\tNSBlencowe\n\t\t\n\t\t\n\t\t\tIBoutron\n\t\t\n\t\t10.1136/bmj.l4898\n\t\t31462531\n\t\t\n\t\n\t\n\t\tBMJ\n\t\t\n\t\t\t366\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c54e617723bebd86679002"},"refKey":13},
{"_key":"60c54e6b7723bebd86679053","_id":"references/60c54e6b7723bebd86679053","_rev":"_cfFlk-i---","tei":"\n\t\n\t\tPUG-View: programmatic access to chemical annotations integrated in PubChem\n\t\t\n\t\t\tSunghwanKim\n\t\t\t0000-0001-9828-2074\n\t\t\n\t\t\n\t\t\tPaulAThiessen\n\t\t\t0000-0002-1992-2086\n\t\t\n\t\t\n\t\t\tTiejunCheng\n\t\t\t0000-0002-4486-3356\n\t\t\n\t\t\n\t\t\tJianZhang\n\t\t\t0000-0002-6192-4632\n\t\t\n\t\t\n\t\t\tAstaGindulyte\n\t\t\t0000-0001-9600-5305\n\t\t\n\t\t\n\t\t\tEvanEBolton\n\t\t\t0000-0002-5959-6190\n\t\t\n\t\t10.1186/s13321-019-0375-2\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJ Cheminform\n\t\t1758-2946\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t56\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c54e6b7723bebd86679052"},"refKey":24},
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{"_key":"60c54e6b7723bebd86679056","_id":"references/60c54e6b7723bebd86679056","_rev":"_cfFlk_G---","tei":"\n\t\n\t\tAn update on PUG-REST: RESTful interface for programmatic access to PubChem\n\t\t\n\t\t\tSunghwanKim\n\t\t\t0000-0001-9828-2074\n\t\t\n\t\t\n\t\t\tPaulAThiessen\n\t\t\n\t\t\n\t\t\tTiejunCheng\n\t\t\n\t\t\n\t\t\tBoYu\n\t\t\n\t\t\n\t\t\tEvanEBolton\n\t\t\n\t\t10.1093/nar/gky294\n\t\t29718389\n\t\tPMC6030920\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c54e6b7723bebd86679052"},"refKey":23},
{"_key":"60c54e947723bebd8667907a","_id":"references/60c54e947723bebd8667907a","_rev":"_cfFlk_S---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\n\t\n\t\tInterJournal Complex Syst\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c54e947723bebd86679079"},"refKey":16},
{"_key":"60c54ea17723bebd86679089","_id":"references/60c54ea17723bebd86679089","_rev":"_cfFlk_e---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c54ea17723bebd86679088"},"refKey":32},
{"_key":"60c54ea17723bebd8667908a","_id":"references/60c54ea17723bebd8667908a","_rev":"_cfFlk_u---","tei":"\n\t\n\t\tVariant Review with the Integrative Genomics Viewer\n\t\t\n\t\t\tJamesTRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdóttir\n\t\t\n\t\t\n\t\t\tAaronMWenger\n\t\t\n\t\t\n\t\t\tAhmetZehir\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t10.1158/0008-5472.can-17-0337\n\t\t29092934\n\t\tPMC5678989\n\t\t\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t77\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c54ea17723bebd86679088"},"refKey":34},
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{"_key":"60c54ea17723bebd8667908c","_id":"references/60c54ea17723bebd8667908c","_rev":"_cfFlkAG---","tei":"\n\t\n\t\tFastPCR: An in silico tool for fast primer and probe design and advanced sequence analysis\n\t\t\n\t\t\tRuslanKalendar\n\t\t\t0000-0003-3986-2460\n\t\t\n\t\t\n\t\t\tBekbolatKhassenov\n\t\t\n\t\t\n\t\t\tYerlanRamankulov\n\t\t\n\t\t\n\t\t\tOlgaSamuilova\n\t\t\n\t\t\n\t\t\tKonstantinIIvanov\n\t\t\n\t\t10.1016/j.ygeno.2017.05.005\n\t\t28502701\n\t\t\n\t\n\t\n\t\tGenomics\n\t\tGenomics\n\t\t0888-7543\n\t\t\n\t\t\t109\n\t\t\t3-4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c54ea17723bebd86679088"},"refKey":40},
{"_key":"60c54ea17723bebd8667908d","_id":"references/60c54ea17723bebd8667908d","_rev":"_cfFlkAS---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c54ea17723bebd86679088"},"refKey":35},
{"_key":"60c54eb37723bebd866790a2","_id":"references/60c54eb37723bebd866790a2","_rev":"_cfFlkAi---","tei":"\n\t\n\t\tLong-Term Studies on Maternal Immunity for Aujeszky's Disease and Classical Swine Fever in Wild Boar Piglets\n\t\t\n\t\t\tTMuller\n\t\t\n\t\t\n\t\t\tJTeuffert\n\t\t\n\t\t\n\t\t\tCStaubach\n\t\t\n\t\t\n\t\t\tTSelhorst\n\t\t\n\t\t\n\t\t\tKRDepner\n\t\t\n\t\t10.1111/j.1439-0450.2005.00896.x\n\t\t16364018\n\t\tark:/67375/WNG-G10PQW0P-S\n\t\tAC4F9930837CEDD12B34B35F6D4B09117D103AC5\n\t\n\t\n\t\tJournal of Veterinary Medicine Series B\n\t\tJ Vet Med Series B\n\t\t0931-1793\n\t\t1439-0450\n\t\t\n\t\t\t52\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c54eb37723bebd866790a1"},"refKey":43},
{"_key":"60c54eb37723bebd866790a3","_id":"references/60c54eb37723bebd866790a3","_rev":"_cfFlkAu---","tei":"\n\t\n\t\tDuration of serologic response to five viral antigens in dogs\n\t\t\n\t\t\tDouglasEMouzin\n\t\t\n\t\t\n\t\t\tMarianneJLorenzen\n\t\t\n\t\t\n\t\t\tJohnDHaworth\n\t\t\n\t\t\n\t\t\tVickieLKing\n\t\t\n\t\t10.2460/javma.2004.224.55\n\t\t14710876\n\t\n\t\n\t\tJournal of the American Veterinary Medical Association\n\t\tJournal of the American Veterinary Medical Association\n\t\t0003-1488\n\t\t\n\t\t\t224\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Veterinary Medical Association (AVMA)\n\t\t\n\t\n\n","document":{"$oid":"60c54eb37723bebd866790a1"},"refKey":44},
{"_key":"60c54ed07723bebd866790aa","_id":"references/60c54ed07723bebd866790aa","_rev":"_cfFlkA6---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c54ed07723bebd866790a9"},"refKey":1},
{"_key":"60c54ed07723bebd866790ab","_id":"references/60c54ed07723bebd866790ab","_rev":"_cfFlkBG---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c54ed07723bebd866790a9"},"refKey":32},
{"_key":"60c54fbb7723bebd8667911f","_id":"references/60c54fbb7723bebd8667911f","_rev":"_cfFlkBW---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c54fbb7723bebd8667911e"},"refKey":33},
{"_key":"60c54fbb7723bebd86679120","_id":"references/60c54fbb7723bebd86679120","_rev":"_cfFlkBi---","tei":"\n\t\n\t\tThe sva package for removing batch effects and other unwanted variation in high-throughput experiments\n\t\t\n\t\t\tJeffreyTLeek\n\t\t\n\t\t\n\t\t\tWEvanJohnson\n\t\t\n\t\t\n\t\t\tHilarySParker\n\t\t\n\t\t\n\t\t\tAndrewEJaffe\n\t\t\n\t\t\n\t\t\tJohnDStorey\n\t\t\n\t\t10.1093/bioinformatics/bts034\n\t\t22257669\n\t\tPMC3307112\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c54fbb7723bebd8667911e"},"refKey":32},
{"_key":"60c54fcf7723bebd86679132","_id":"references/60c54fcf7723bebd86679132","_rev":"_cfFlkBu---","tei":"\n\t\n\t\tMolDock: A New Technique for High-Accuracy Molecular Docking\n\t\t\n\t\t\tRenéThomsen\n\t\t\n\t\t\n\t\t\tMikaelHChristensen\n\t\t\n\t\t10.1021/jm051197e\n\t\t16722650\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t49\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c54fcf7723bebd86679131"},"refKey":114},
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{"_key":"60c550197723bebd8667916d","_id":"references/60c550197723bebd8667916d","_rev":"_cfFlkCK---","tei":"\n\t\n\t\tUCHIME improves sensitivity and speed of chimera detection\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t\n\t\t\tBJHaas\n\t\t\n\t\t\n\t\t\tJCClemente\n\t\t\n\t\t\n\t\t\tCQuince\n\t\t\n\t\t\n\t\t\tRKnight\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c550197723bebd8667916b"},"refKey":36},
{"_key":"60c550207723bebd86679181","_id":"references/60c550207723bebd86679181","_rev":"_cfFlkCW---","tei":"\n\t\n\t\tThe Essential Blender: Guide to 3D Creation with the Open Source Suite Blender\n\t\t\n\t\t\tRHess\n\t\t\n\t\t\n\t\t\t\n\t\t\tNo Starch Press\n\t\t\tSan Francisco\n\t\t\n\t\n\n","document":{"$oid":"60c550207723bebd86679180"},"refKey":5},
{"_key":"60c550207723bebd86679182","_id":"references/60c550207723bebd86679182","_rev":"_cfFlkCi---","tei":"\n\t\n\t\tBlender Foundations: The Essential Guide to Learning Blender 2.5\n\t\t\n\t\t\tRHess\n\t\t\n\t\t\n\t\t\t\n\t\t\tFocal Press\n\t\t\tWaltham\n\t\t\n\t\n\n","document":{"$oid":"60c550207723bebd86679180"},"refKey":6},
{"_key":"60c550207723bebd86679183","_id":"references/60c550207723bebd86679183","_rev":"_cfFlkCu---","tei":"\n\t\n\t\t3D Video and Its Applications\n\t\t\n\t\t\tTakashiMatsuyama\n\t\t\n\t\t\n\t\t\tShoheiNobuhara\n\t\t\n\t\t\n\t\t\tTakeshiTakai\n\t\t\n\t\t\n\t\t\tTonyTung\n\t\t\n\t\t10.1007/978-1-4471-4120-4\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer London\n\t\t\tLondon\n\t\t\n\t\n\n","document":{"$oid":"60c550207723bebd86679180"},"refKey":17},
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{"_key":"60c5508b7723bebd866791d8","_id":"references/60c5508b7723bebd866791d8","_rev":"_cfFlkFS---","tei":"\n\t\n\t\tClusterProfiler: An R package for comparing biological themes among gene clusters\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tYHan\n\t\t\n\t\t\n\t\t\tQHe\n\t\t\n\t\n\t\n\t\tOMICS\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5508b7723bebd866791d4"},"refKey":60},
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{"_key":"60c550c17723bebd8667920c","_id":"references/60c550c17723bebd8667920c","_rev":"_cfFlkFy---","tei":"\n\t\n\t\tPorcine epidemic diarrhea virus infection: Etiology, epidemiology, pathogenesis and immunoprophylaxis\n\t\t\n\t\t\tKwonilJung\n\t\t\n\t\t\n\t\t\tLindaJSaif\n\t\t\n\t\t10.1016/j.tvjl.2015.02.017\n\t\t25841898\n\t\n\t\n\t\tThe Veterinary Journal\n\t\tThe Veterinary Journal\n\t\t1090-0233\n\t\t\n\t\t\t204\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c550c17723bebd8667920a"},"refKey":2},
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{"_key":"60c550d87723bebd86679228","_id":"references/60c550d87723bebd86679228","_rev":"_cfFlkGS---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tJohnHMorris\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\t0000-0001-6227-0637\n\t\t\n\t\t10.1002/pro.3235\n\t\t28710774\n\t\tPMC5734306\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c550d87723bebd86679227"},"refKey":19},
{"_key":"60c550d87723bebd86679229","_id":"references/60c550d87723bebd86679229","_rev":"_cfFlkGe---","tei":"\n\t\n\t\tI-TASSER: Fully automated protein structure prediction in CASP8\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/prot.22588\n\t\t19768687\n\t\tPMC2782770\n\t\tark:/67375/WNG-3RJJP0P6-5\n\t\t99CD3019D20C1D37C7833A10909B955EA8EE806F\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t77\n\t\t\tS9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c550d87723bebd86679227"},"refKey":16},
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{"_key":"60c550f87723bebd86679252","_id":"references/60c550f87723bebd86679252","_rev":"_cfFlkHC---","tei":"\n\t\n\t\tThe influenza pandemic preparedness planning tool InfluSim\n\t\t\n\t\t\tMartinEichner\n\t\t\n\t\t\n\t\t\tMarkusSchwehm\n\t\t\n\t\t\n\t\t\tHans-PeterDuerr\n\t\t\n\t\t\n\t\t\tStefanOBrockmann\n\t\t\n\t\t10.1186/1471-2334-7-17\n\t\t17355639\n\t\tPMC1832202\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Infectious Diseases\n\t\tBMC Infect Dis\n\t\t1471-2334\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c550f87723bebd86679251"},"refKey":7},
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{"_key":"60c552ac7723bebd86679407","_id":"references/60c552ac7723bebd86679407","_rev":"_cfFlkMW---","tei":"\n\t\n\t\tBetter prediction of protein cellular localization sites with the k nearest neighbors classifier\n\t\t\n\t\t\tPHorton\n\t\t\n\t\t\n\t\t\tKNakai\n\t\t\n\t\n\t\n\t\tProc. Int. Conf. Intell. Syst. Mol. Biol\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c552ac7723bebd86679405"},"refKey":12},
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{"_key":"60c552d37723bebd8667942d","_id":"references/60c552d37723bebd8667942d","_rev":"_cfFlkMu---","tei":"\n\t\n\t\tAn integrated platform connecting registries, biobanks and clinical bioinformatics for rare disease research\n\t\t\n\t\t\tRd-ConnectCordis\n\t\t\n\t\t\n\t\n\t\n\t\tProject Fact Sheet. European Commission\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c552d37723bebd8667942c"},"refKey":52},
{"_key":"60c552f27723bebd86679455","_id":"references/60c552f27723bebd86679455","_rev":"_cfFlkM6---","tei":"\n\t\n\t\tThe Landlab v1.0 OverlandFlow component: a Python tool for computing shallow-water flow across watersheds\n\t\t\n\t\t\tJordanMAdams\n\t\t\n\t\t\n\t\t\tNicoleMGasparini\n\t\t\n\t\t\n\t\t\tDanielE JHobley\n\t\t\t0000-0003-2371-0534\n\t\t\n\t\t\n\t\t\tGregoryETucker\n\t\t\t0000-0003-0364-5800\n\t\t\n\t\t\n\t\t\tEricW HHutton\n\t\t\n\t\t\n\t\t\tSaiSNudurupati\n\t\t\t0000-0002-2090-7561\n\t\t\n\t\t\n\t\t\tErkanIstanbulluoglu\n\t\t\n\t\t10.5194/gmd-10-1645-2017\n\t\t\n\t\n\t\n\t\tGeoscientific Model Development\n\t\tGeosci. Model Dev.\n\t\t1991-9603\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tCopernicus GmbH\n\t\t\n\t\n\n","document":{"$oid":"60c552f27723bebd86679454"},"refKey":1},
{"_key":"60c552f27723bebd86679456","_id":"references/60c552f27723bebd86679456","_rev":"_cfFlkNG---","tei":"\n\t\n\t\tHEC-RAS river analysis system hydraulic userś manual\n\t\t\n\t\t\tGBrunner\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c552f27723bebd86679454"},"refKey":8},
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{"_key":"60c552f67723bebd8667946c","_id":"references/60c552f67723bebd8667946c","_rev":"_cfFlkNa---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c552f67723bebd8667946b"},"refKey":24},
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{"_key":"60c553c07723bebd866794d0","_id":"references/60c553c07723bebd866794d0","_rev":"_cfFlkP----","tei":"\n\t\n\t\tDetermination of Domain Structure of Proteins from X-Ray Solution Scattering\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t\n\t\t\tMaximVPetoukhov\n\t\t\n\t\t\n\t\t\tMichelH JKoch\n\t\t\n\t\t10.1016/s0006-3495(01)76260-1\n\t\t11371467\n\t\tPMC1301478\n\t\tS0006-3495(01)76260-1\n\t\tark:/67375/6H6-JQGZ6SXR-Z\n\t\t99BFE1840BF24A9F6639CC29E8DC695D44987424\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t80\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c553c07723bebd866794c9"},"refKey":47},
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{"_key":"60c553c07723bebd866794d2","_id":"references/60c553c07723bebd866794d2","_rev":"_cfFlkPW---","tei":"\n\t\n\t\tA short history of SHELX\n\t\t\n\t\t\tGMSheldrick\n\t\t\n\t\n\t\n\t\tActa Crystallogr A\n\t\t\n\t\t\t64\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c553c07723bebd866794c9"},"refKey":29},
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{"_key":"60c554107723bebd86679521","_id":"references/60c554107723bebd86679521","_rev":"_cfFlkQi---","tei":"\n\t\n\t\tPqsfinder web: G-quadruplex prediction using optimized pqsfinder algorithm\n\t\t\n\t\t\tDLabudova\n\t\t\n\t\t\n\t\t\tJHon\n\t\t\n\t\t\n\t\t\tMLexa\n\t\t\n\t\t\n\t\t\tMLexa\n\t\t\n\t\t10.1093/bioinformatics/btz928\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t2020\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c554107723bebd8667951f"},"refKey":46},
{"_key":"60c554237723bebd8667953c","_id":"references/60c554237723bebd8667953c","_rev":"_cfFlkQu---","tei":"\n\t\n\t\tBag of tricks for efficient text classification\n\t\t\n\t\t\tAJoulin\n\t\t\n\t\t\n\t\t\tEGrave\n\t\t\n\t\t\n\t\t\tPBojanowski\n\t\t\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\n\t\n\t\tProceedings of the 15th Conference of the European Chapter\n\t\t\t\tthe 15th Conference of the European Chapter\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c554237723bebd8667953b"},"refKey":13},
{"_key":"60c554287723bebd86679544","_id":"references/60c554287723bebd86679544","_rev":"_cfFlkQ6---","tei":"\n\t\n\t\tMplus Statistical Software\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t\n\t\t\t\n\t\t\tMuthén & Muthén\n\t\t\tLos Angeles, CA\n\t\t\n\t\n\n","document":{"$oid":"60c554287723bebd86679543"},"refKey":43},
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{"_key":"60c555227723bebd86679611","_id":"references/60c555227723bebd86679611","_rev":"_cfFlkTW---","tei":"\n\t\n\t\tMOFA+: a probabilistic framework for comprehensive integration of structured single-cell data\n\t\t\n\t\t\tRArgelaguet\n\t\t\n\t\t\n\t\t\tDArnol\n\t\t\n\t\t\n\t\t\tDBredikhin\n\t\t\n\t\t\n\t\t\tYDeloro\n\t\t\n\t\t\n\t\t\tBVelten\n\t\t\n\t\t\n\t\t\tJCMarioni\n\t\t\n\t\t\n\t\t\tOStegle\n\t\t\n\t\t10.1101/837104\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c555227723bebd86679610"},"refKey":2},
{"_key":"60c555227723bebd86679612","_id":"references/60c555227723bebd86679612","_rev":"_cfFlkTe---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. USA\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c555227723bebd86679610"},"refKey":49},
{"_key":"60c555247723bebd86679623","_id":"references/60c555247723bebd86679623","_rev":"_cfFlkTq---","tei":"\n\t\n\t\tA structural model of liminal experience in tourism\n\t\t\n\t\t\tHuiZhang\n\t\t\n\t\t\n\t\t\tHonggangXu\n\t\t\n\t\t10.1016/j.tourman.2018.09.015\n\t\n\t\n\t\tTourism Management\n\t\tTourism Management\n\t\t0261-5177\n\t\t\n\t\t\t71\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c555247723bebd86679622"},"refKey":129},
{"_key":"60c555a97723bebd86679643","_id":"references/60c555a97723bebd86679643","_rev":"_cfFlkT2---","tei":"\n\t\n\t\tHDOCK: a web server for protein–protein and protein–DNA/RNA docking based on a hybrid strategy\n\t\t\n\t\t\tYumengYan\n\t\t\n\t\t\n\t\t\tDiZhang\n\t\t\n\t\t\n\t\t\tPeiZhou\n\t\t\n\t\t\n\t\t\tBotongLi\n\t\t\n\t\t\n\t\t\tSheng-YouHuang\n\t\t\n\t\t10.1093/nar/gkx407\n\t\t28521030\n\t\tPMC5793843\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c555a97723bebd86679642"},"refKey":40},
{"_key":"60c555a97723bebd86679644","_id":"references/60c555a97723bebd86679644","_rev":"_cfFlkUC---","tei":"\n\t\n\t\tAddressing recent docking challenges: A hybrid strategy to integrate template-based and free protein-protein docking\n\t\t\n\t\t\tYumengYan\n\t\t\n\t\t\n\t\t\tZeyuWen\n\t\t\n\t\t\n\t\t\tXinxiangWang\n\t\t\n\t\t\n\t\t\tSheng-YouHuang\n\t\t\t0000-0002-4209-4565\n\t\t\n\t\t10.1002/prot.25234\n\t\t28026062\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t85\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c555a97723bebd86679642"},"refKey":39},
{"_key":"60c555a97723bebd86679645","_id":"references/60c555a97723bebd86679645","_rev":"_cfFlkUO---","tei":"\n\t\n\t\tPushing the accuracy limit of shape complementarity for protein-protein docking\n\t\t\n\t\t\tYYan\n\t\t\n\t\t\n\t\t\tS.-YHuang\n\t\t\n\t\t10.1186/s12859-019-3270-y\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t2019\n\t\t\t696\n\t\t\n\t\n\tSuppl. 25. PubMed\n\n","document":{"$oid":"60c555a97723bebd86679642"},"refKey":41},
{"_key":"60c555a97723bebd86679646","_id":"references/60c555a97723bebd86679646","_rev":"_cfFlkUW---","tei":"\n\t\n\t\tThe HDOCK server for integrated protein-protein docking, Nat\n\t\t\n\t\t\tYYan\n\t\t\n\t\t\n\t\t\tHTao\n\t\t\n\t\t\n\t\t\tJHe\n\t\t\n\t\t\n\t\t\tS.-YHuang\n\t\t\n\t\t10.1038/s41596-020-0312-x\n\t\n\t\n\t\tProc. 2020\n\t\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c555a97723bebd86679642"},"refKey":42},
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{"_key":"60c555c37723bebd86679675","_id":"references/60c555c37723bebd86679675","_rev":"_cfFlkU6---","tei":"\n\t\n\t\tEnrichr: interactive and collaborative HTML5 gene list enrichment analysis tool\n\t\t\n\t\t\tEYChen\n\t\t\n\t\t\n\t\t\tCMTan\n\t\t\n\t\t\n\t\t\tYKou\n\t\t\n\t\t\n\t\t\tQDuan\n\t\t\n\t\t\n\t\t\tZWang\n\t\t\n\t\t\n\t\t\tGVMeirelles\n\t\t\n\t\t\n\t\t\tNRClark\n\t\t\n\t\t\n\t\t\tAMa'ayan\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t14\n\t\t\t128\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c555c37723bebd86679674"},"refKey":42},
{"_key":"60c555c37723bebd86679676","_id":"references/60c555c37723bebd86679676","_rev":"_cfFlkVG---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMVKuleshov\n\t\t\n\t\t\n\t\t\tMRJones\n\t\t\n\t\t\n\t\t\tADRouillard\n\t\t\n\t\t\n\t\t\tNFFernandez\n\t\t\n\t\t\n\t\t\tQDuan\n\t\t\n\t\t\n\t\t\tZWang\n\t\t\n\t\t\n\t\t\tSKoplev\n\t\t\n\t\t\n\t\t\tSLJenkins\n\t\t\n\t\t\n\t\t\tKMJagodnik\n\t\t\n\t\t\n\t\t\tALachmann\n\t\t\n\t\t\n\t\t\tMGMcdermott\n\t\t\n\t\t\n\t\t\tCDMonteiro\n\t\t\n\t\t\n\t\t\tGWGundersen\n\t\t\n\t\t\n\t\t\tAMa'ayan\n\t\t\n\t\n\t\n\t\tNucleic Acid Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c555c37723bebd86679674"},"refKey":43},
{"_key":"60c555f87723bebd86679696","_id":"references/60c555f87723bebd86679696","_rev":"_cfFlkVO---","tei":"\n\t\n\t\tEurope pmc in 2017\n\t\t\n\t\t\tMariaLevchenko\n\t\t\n\t\t\n\t\t\tYuciGou\n\t\t\n\t\t\n\t\t\tFlorianGraef\n\t\t\n\t\t\n\t\t\tAudreyHamelers\n\t\t\n\t\t\n\t\t\tZhanHuang\n\t\t\n\t\t\n\t\t\tMicheleIde-Smith\n\t\t\n\t\t\n\t\t\tAnushaIyer\n\t\t\n\t\t\n\t\t\tOliverKilian\n\t\t\n\t\t\n\t\t\tJyothiKaturi\n\t\t\n\t\t\n\t\t\tJee-HyubKim\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t46\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c555f87723bebd86679695"},"refKey":31},
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{"_key":"60c5560e7723bebd866796b3","_id":"references/60c5560e7723bebd866796b3","_rev":"_cfFlkVm---","tei":"\n\t\n\t\tSTAR: Ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5560e7723bebd866796b1"},"refKey":55},
{"_key":"60c5560e7723bebd866796b4","_id":"references/60c5560e7723bebd866796b4","_rev":"_cfFlkVy---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5560e7723bebd866796b1"},"refKey":48},
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{"_key":"60c5560e7723bebd866796b8","_id":"references/60c5560e7723bebd866796b8","_rev":"_cfFlkWe---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5560e7723bebd866796b1"},"refKey":57},
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{"_key":"60c5564d7723bebd866796f9","_id":"references/60c5564d7723bebd866796f9","_rev":"_cfFlkXC---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tLONeal\n\t\t\n\t\t\n\t\t\tLMcleod\n\t\t\n\t\t\n\t\t\tGDelacqua\n\t\t\n\t\t\n\t\t\tFDelacqua\n\t\t\n\t\t\n\t\t\tSNDuda\n\t\t\n\t\t\n\t\t\tRConsortium\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\t\n\t\n\t\n\t\tJ. Biomed. Inf\n\t\t\n\t\t\t95\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5564d7723bebd866796f7"},"refKey":43},
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{"_key":"60c557a67723bebd866797b3","_id":"references/60c557a67723bebd866797b3","_rev":"_cfFlkX6---","tei":"\n\t\n\t\tMassChroQ: A versatile tool for mass spectrometry quantification\n\t\t\n\t\t\tBenoîtValot\n\t\t\n\t\t\n\t\t\tOlivierLangella\n\t\t\n\t\t\n\t\t\tEdliraNano\n\t\t\n\t\t\n\t\t\tMichelZivy\n\t\t\n\t\t10.1002/pmic.201100120\n\t\t21751374\n\t\tark:/67375/WNG-557MD21Z-Z\n\t\t7E84F7F2736511F157B518D229D592EC80B73966\n\t\t\n\t\t\n\t\n\t\n\t\tPROTEOMICS\n\t\tProteomics\n\t\t1615-9853\n\t\t\n\t\t\t11\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c557a67723bebd866797b1"},"refKey":72},
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{"_key":"60c557ab7723bebd866797c3","_id":"references/60c557ab7723bebd866797c3","_rev":"_cfFlkYa---","tei":"\n\t\n\t\tAutomated docking of flexible ligands: applications of AutoDock\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t10.1002/(SICI)1099-1352(199601)9:1<1::AID-JMR241>/;3.0.CO;2-6\n\t\n\t\n\t\tJ. Mol. Recognit\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\t1<1::AID-JMR241>3.0.CO;2-6\n\n","document":{"$oid":"60c557ab7723bebd866797c0"},"refKey":119},
{"_key":"60c557ab7723bebd866797c4","_id":"references/60c557ab7723bebd866797c4","_rev":"_cfFlkYm---","tei":"\n\t\n\t\tPatchDock and SymmDock: servers for rigid and symmetric docking\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tYInbar\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tHJWolfson\n\t\t\n\t\t10.1093/nar/gki481\n\t\t15980490\n\t\tPMC1160241\n\t\tark:/67375/HXZ-5SHH9NN3-T\n\t\t69025555577394917D43758F4E26C6EAF09BA9A4\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c557ab7723bebd866797c0"},"refKey":126},
{"_key":"60c557ab7723bebd866797c5","_id":"references/60c557ab7723bebd866797c5","_rev":"_cfFlkYy---","tei":"\n\t\n\t\tA Fast Flexible Docking Method using an Incremental Construction Algorithm\n\t\t\n\t\t\tMatthiasRarey\n\t\t\n\t\t\n\t\t\tBerndKramer\n\t\t\n\t\t\n\t\t\tThomasLengauer\n\t\t\n\t\t\n\t\t\tGerhardKlebe\n\t\t\n\t\t10.1006/jmbi.1996.0477\n\t\t8780787\n\t\tS0022-2836(96)90477-5\n\t\tark:/67375/6H6-KZF2QWF4-4\n\t\tF66F5BD4CAA28D99062DF70CF99157C7E2F4FDFD\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t261\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c557ab7723bebd866797c0"},"refKey":120},
{"_key":"60c557ab7723bebd866797c6","_id":"references/60c557ab7723bebd866797c6","_rev":"_cfFlkZ----","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 1. Method and Assessment of Docking Accuracy\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tJayLBanks\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tJasnaJKlicic\n\t\t\n\t\t\n\t\t\tDanielTMainz\n\t\t\n\t\t\n\t\t\tMatthewPRepasky\n\t\t\n\t\t\n\t\t\tEricHKnoll\n\t\t\n\t\t\n\t\t\tMeeShelley\n\t\t\n\t\t\n\t\t\tJasonKPerry\n\t\t\n\t\t\n\t\t\tDavidEShaw\n\t\t\n\t\t\n\t\t\tPerryFrancis\n\t\t\n\t\t\n\t\t\tPeterSShenkin\n\t\t\n\t\t10.1021/jm0306430\n\t\t15027865\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c557ab7723bebd866797c0"},"refKey":121},
{"_key":"60c557ab7723bebd866797c7","_id":"references/60c557ab7723bebd866797c7","_rev":"_cfFlkZK---","tei":"\n\t\n\t\tImproved protein-ligand docking using GOLD\n\t\t\n\t\t\tMarcelLVerdonk\n\t\t\n\t\t\n\t\t\tJasonCCole\n\t\t\n\t\t\n\t\t\tMichaelJHartshorn\n\t\t\n\t\t\n\t\t\tChristopherWMurray\n\t\t\n\t\t\n\t\t\tRichardDTaylor\n\t\t\n\t\t10.1002/prot.10465\n\t\t12910460\n\t\tark:/67375/WNG-D94K499W-7\n\t\t602905DD6AF302ED980866A6C30DAA8C96AD605F\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t52\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c557ab7723bebd866797c0"},"refKey":122},
{"_key":"60c557ab7723bebd866797c8","_id":"references/60c557ab7723bebd866797c8","_rev":"_cfFlkZS---","tei":"\n\t\n\t\tMolecular docking using ArgusLab, an efficient shape-based search algorithm and the AScore scoring function\n\t\t\n\t\t\tMAThompson\n\t\t\t\n\t\t\t\tACS Meet\n\t\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t172\n\t\t\n\t\n\n","document":{"$oid":"60c557ab7723bebd866797c0"},"refKey":123},
{"_key":"60c557ab7723bebd866797c9","_id":"references/60c557ab7723bebd866797c9","_rev":"_cfFlkZe---","tei":"\n\t\n\t\tElucidation of Novel Structural Scaffold in Rohu TLR2 and Its Binding Site Analysis with Peptidoglycan, Lipoteichoic Acid and Zymosan Ligands, and Downstream MyD88 Adaptor Protein\n\t\t\n\t\t\tBikashRanjanSahoo\n\t\t\n\t\t\n\t\t\tMadhubantiBasu\n\t\t\n\t\t\n\t\t\tBanikalyanSwain\n\t\t\n\t\t\n\t\t\tManasRanjanDikhit\n\t\t\n\t\t\n\t\t\tPallipuramJayasankar\n\t\t\n\t\t\n\t\t\tMrinalSamanta\n\t\t\n\t\t10.1155/2013/185282\n\t\t23956969\n\t\tPMC3727187\n\t\t\n\t\t\n\t\n\t\n\t\tBioMed Research International\n\t\tBioMed Research International\n\t\t2314-6133\n\t\t2314-6141\n\t\t\n\t\t\t2013\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c557ab7723bebd866797c0"},"refKey":45},
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{"_key":"60c558857723bebd86679874","_id":"references/60c558857723bebd86679874","_rev":"_cfFlkc2---","tei":"\n\t\n\t\tMining Causal Outliers Using Gaussian Bayesian Networks\n\t\t\n\t\t\tSBabbar\n\t\t\n\t\t\n\t\t\tSChawla\n\t\t\n\t\t10.1109/ictai.2012.22\n\t\n\t\n\t\t2012 IEEE 24th International Conference on Tools with Artificial Intelligence\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c558857723bebd86679873"},"refKey":1},
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{"_key":"60c5591a7723bebd866798f1","_id":"references/60c5591a7723bebd866798f1","_rev":"_cfFlkfy---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5591a7723bebd866798e4"},"refKey":17},
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{"_key":"60c559307723bebd86679945","_id":"references/60c559307723bebd86679945","_rev":"_cfFlkgK---","tei":"\n\t\n\t\tnpcure: Nonparametric estimation in mixture cure models\n\t\t\n\t\t\tILópez-De-Ullibarri\n\t\t\n\t\t\n\t\t\tALópez-Cheda\n\t\t\n\t\t\n\t\t\tMAJácome\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 0.1-4.\n\n","document":{"$oid":"60c559307723bebd86679944"},"refKey":17},
{"_key":"60c559357723bebd86679949","_id":"references/60c559357723bebd86679949","_rev":"_cfFlkga---","tei":"\n\t\n\t\tA Systematic Review and Meta-Analysis on the Prevalence of Dementia in Europe: Estimates from the Highest-Quality Studies Adopting the DSM IV Diagnostic Criteria\n\t\t\n\t\t\tIlariaBacigalupo\n\t\t\n\t\t\n\t\t\tFlaviaMayer\n\t\t\n\t\t\n\t\t\tEleonoraLacorte\n\t\t\n\t\t\n\t\t\tAlessandraDi Pucchio\n\t\t\n\t\t\n\t\t\tFabrizioMarzolini\n\t\t\n\t\t\n\t\t\tMarcoCanevelli\n\t\t\n\t\t\n\t\t\tTeresaDi Fiandra\n\t\t\n\t\t\n\t\t\tNicolaVanacore\n\t\t\n\t\t10.3233/jad-180416\n\t\t30412486\n\t\tPMC6294583\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Alzheimer's Disease\n\t\tJAD\n\t\t1387-2877\n\t\t1875-8908\n\t\t\n\t\t\t66\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tIOS Press\n\t\t\n\t\n\n","document":{"$oid":"60c559357723bebd86679948"},"refKey":87},
{"_key":"60c559357723bebd8667994a","_id":"references/60c559357723bebd8667994a","_rev":"_cfFlkgm---","tei":"\n\t\n\t\tMetaprop: a Stata command to perform meta-analysis of binomial data\n\t\t\n\t\t\tVictoriaNNyaga\n\t\t\n\t\t\n\t\t\tMarcArbyn\n\t\t\n\t\t\n\t\t\tMarcAerts\n\t\t\n\t\t10.1186/2049-3258-72-39\n\t\t25810908\n\t\tPMC4373114\n\t\t\n\t\t\n\t\n\t\n\t\tArchives of Public Health\n\t\tArch Public Health\n\t\t2049-3258\n\t\t\n\t\t\t72\n\t\t\t1\n\t\t\t39\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c559357723bebd86679948"},"refKey":24},
{"_key":"60c559727723bebd8667996f","_id":"references/60c559727723bebd8667996f","_rev":"_cfFlkgy---","tei":"\n\t\n\t\tRecent advances in modeling languages for pathway maps and computable biological networks\n\t\t\n\t\t\tTedSlater\n\t\t\n\t\t10.1016/j.drudis.2013.12.011\n\t\t24444544\n\t\n\t\n\t\tDrug Discovery Today\n\t\tDrug Discovery Today\n\t\t1359-6446\n\t\t\n\t\t\t19\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c559727723bebd8667996e"},"refKey":25},
{"_key":"60c559a37723bebd86679987","_id":"references/60c559a37723bebd86679987","_rev":"_cfFlkh----","tei":"\n\t\n\t\tCollaboration gets the most out of software\n\t\t\n\t\t\tAMorin\n\t\t\n\t\t\n\t\t\tBEisenbraun\n\t\t\n\t\t\n\t\t\tJKey\n\t\t\n\t\t\n\t\t\tPCSanschagrin\n\t\t\n\t\t\n\t\t\tMATimony\n\t\t\n\t\t\n\t\t\tMOttaviano\n\t\t\n\t\t\n\t\t\tPSliz\n\t\t\n\t\t\n\t\t\t\n\t\t\te01456\n\t\t\n\t\n\n","document":{"$oid":"60c559a37723bebd86679986"},"refKey":41},
{"_key":"60c559a37723bebd86679988","_id":"references/60c559a37723bebd86679988","_rev":"_cfFlkhK---","tei":"\n\t\n\t\tiMOSFLM: a new graphical interface for diffraction-image processing with MOSFLM\n\t\t\n\t\t\tTGBattye\n\t\t\n\t\t\n\t\t\tLKontogiannis\n\t\t\n\t\t\n\t\t\tOJohnson\n\t\t\n\t\t\n\t\t\tHRPowell\n\t\t\n\t\t\n\t\t\tAGLeslie\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559a37723bebd86679986"},"refKey":2},
{"_key":"60c559a37723bebd86679989","_id":"references/60c559a37723bebd86679989","_rev":"_cfFlkhW---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559a37723bebd86679986"},"refKey":14},
{"_key":"60c559a37723bebd8667998a","_id":"references/60c559a37723bebd8667998a","_rev":"_cfFlkhi---","tei":"\n\t\n\t\tPHENIX: building new software for automated crystallographic structure determination\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tTRIoerger\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tJCSacchettini\n\t\t\n\t\t\n\t\t\tNKSauter\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t58\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559a37723bebd86679986"},"refKey":0},
{"_key":"60c559a37723bebd8667998b","_id":"references/60c559a37723bebd8667998b","_rev":"_cfFlkhu---","tei":"\n\t\n\t\tISOLDE: a physically realistic environment for model building into low-resolution electron-density maps\n\t\t\n\t\t\tTICroll\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559a37723bebd86679986"},"refKey":7},
{"_key":"60c559a37723bebd8667998c","_id":"references/60c559a37723bebd8667998c","_rev":"_cfFlkh6---","tei":"\n\t\n\t\tCoot: model-building tools for molecular graphics\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t60\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559a37723bebd86679986"},"refKey":13},
{"_key":"60c559c87723bebd866799a3","_id":"references/60c559c87723bebd866799a3","_rev":"_cfFlkiG---","tei":"\n\t\n\t\tNew ways to boost molecular dynamics simulations\n\t\t\n\t\t\tElmarKrieger\n\t\t\n\t\t\n\t\t\tGertVriend\n\t\t\n\t\t10.1002/jcc.23899\n\t\t25824339\n\t\tark:/67375/WNG-VNT0F4VZ-4\n\t\t5390B43351820EEA34F4A839A41D035BD09BBEAD\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t36\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c559c87723bebd866799a2"},"refKey":35},
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{"_key":"60c559c87723bebd866799a5","_id":"references/60c559c87723bebd866799a5","_rev":"_cfFlkie---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c559c87723bebd866799a2"},"refKey":36},
{"_key":"60c559c87723bebd866799a6","_id":"references/60c559c87723bebd866799a6","_rev":"_cfFlkim---","tei":"\n\t\n\t\tYASARA View—molecular graphics for all devices—from smartphones to workstations\n\t\t\n\t\t\tElmarKrieger\n\t\t\n\t\t\n\t\t\tGertVriend\n\t\t\n\t\t10.1093/bioinformatics/btu426\n\t\t24996895\n\t\tPMC4184264\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c559c87723bebd866799a2"},"refKey":34},
{"_key":"60c559ce7723bebd866799c0","_id":"references/60c559ce7723bebd866799c0","_rev":"_cfFlkiy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tClarivate\n\t\t\n\t\t\n\t\t\tEndnote\n\t\t\n\t\t2020-10-01\n\t\t\n\t\t\n\t\n\tWebCite Cache ID https://endnote.com/\n\n","document":{"$oid":"60c559ce7723bebd866799bf"},"refKey":25},
{"_key":"60c559ce7723bebd866799c1","_id":"references/60c559ce7723bebd866799c1","_rev":"_cfFlkj----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tCovidence\n\t\t\n\t\t2020-10-01\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559ce7723bebd866799bf"},"refKey":26},
{"_key":"60c559db7723bebd866799d4","_id":"references/60c559db7723bebd866799d4","_rev":"_cfFlkjK---","tei":"\n\t\n\t\tPsychometric Developments Related to Tests and Selection\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t10.21236/ada280416\n\t\t\n\t\n\t\n\t\tMplus 8.0. Los\n\t\t\t\tAngeles, CA\n\t\t\n\t\t\tDefense Technical Information Center\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559db7723bebd866799d3"},"refKey":26},
{"_key":"60c559f37723bebd866799e0","_id":"references/60c559f37723bebd866799e0","_rev":"_cfFlkjW---","tei":"\n\t\n\t\tPROCHECK: A program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRmmLaskowski\n\t\t\n\t\t\n\t\t\tDMoss\n\t\t\n\t\t\n\t\t\tJThornton\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559f37723bebd866799df"},"refKey":57},
{"_key":"60c559f37723bebd866799e1","_id":"references/60c559f37723bebd866799e1","_rev":"_cfFlkji---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559f37723bebd866799df"},"refKey":56},
{"_key":"60c559f37723bebd866799e2","_id":"references/60c559f37723bebd866799e2","_rev":"_cfFlkjq---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559f37723bebd866799df"},"refKey":35},
{"_key":"60c559f37723bebd866799e3","_id":"references/60c559f37723bebd866799e3","_rev":"_cfFlkj2---","tei":"\n\t\n\t\tUCSF Chimera-A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c559f37723bebd866799df"},"refKey":62},
{"_key":"60c55a0d7723bebd866799fb","_id":"references/60c55a0d7723bebd866799fb","_rev":"_cfFlkkC---","tei":"\n\t\n\t\tBEDTools: the swiss-army tool for genome feature analysis\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Bioinformatics\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c55a0d7723bebd866799fa"},"refKey":86},
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{"_key":"60c55a0d7723bebd866799fd","_id":"references/60c55a0d7723bebd866799fd","_rev":"_cfFlkka---","tei":"\n\t\n\t\tProbabilistic programming in Python using PyMC3\n\t\t\n\t\t\tJohnSalvatier\n\t\t\n\t\t\n\t\t\tThomasVWiecki\n\t\t\n\t\t\n\t\t\tChristopherFonnesbeck\n\t\t\n\t\t10.7287/peerj.preprints.1686\n\t\t\n\t\n\t\n\t\tPeerJ Comput. Sci\n\t\t\n\t\t\t2\n\t\t\te55\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c55a0d7723bebd866799fa"},"refKey":91},
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{"_key":"60c55a517723bebd86679a7d","_id":"references/60c55a517723bebd86679a7d","_rev":"_cfFlkmy---","tei":"\n\t\n\t\tUMAP: Uniform Manifold Approximation and Projection\n\t\t\n\t\t\tLMcinnes\n\t\t\n\t\t\n\t\t\tJHealy\n\t\t\n\t\t\n\t\t\tNSaul\n\t\t\n\t\t\n\t\t\tLGroßberger\n\t\t\n\t\n\t\n\t\tJournal of Open Source Software\n\t\t\n\t\t\t3\n\t\t\t29\n\t\t\t861\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c55a517723bebd86679a75"},"refKey":53},
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{"_key":"60c55ab37723bebd86679b16","_id":"references/60c55ab37723bebd86679b16","_rev":"_cfFlkoe---","tei":"\n\t\n\t\tMiniAgda: Integrating Sized and Dependent Types\n\t\t\n\t\t\tAndreasAbel\n\t\t\n\t\t10.29007/322q\n\t\t\n\t\n\t\n\t\tPartiality and Recursion in Interactive Theorem Provers\n\t\t\t\t\n\t\t\tEasyChair\n\t\t\t2010\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c55ab37723bebd86679b15"},"refKey":5},
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{"_key":"60c55aea7723bebd86679b66","_id":"references/60c55aea7723bebd86679b66","_rev":"_cfFlkoy---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c55aea7723bebd86679b65"},"refKey":38},
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{"_key":"60c55ccb7723bebd86679cca","_id":"references/60c55ccb7723bebd86679cca","_rev":"_cfFlkuC---","tei":"\n\t\n\t\tA protocol for studying structural dynamics of proteins by quantitative crosslinking mass spectrometry and data-independent acquisition\n\t\t\n\t\t\tFMuller\n\t\t\n\t\t\n\t\t\tJRappsilber\n\t\t\n\t\t10.1016/j.jprot.2020.103721\n\t\n\t\n\t\tJ. Proteomics\n\t\t\n\t\t\t218\n\t\t\t103721\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c55ccb7723bebd86679cc8"},"refKey":44},
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{"_key":"60c55f717723bebd86679f10","_id":"references/60c55f717723bebd86679f10","_rev":"_cfFlk3W---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tWangIe\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\n\t\n\t\tFly (Austin)\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c55f717723bebd86679f0a"},"refKey":29},
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{"_key":"60c55f717723bebd86679f12","_id":"references/60c55f717723bebd86679f12","_rev":"_cfFlk3q---","tei":"\n\t\n\t\tThe Sequence Alignment/ Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c55f717723bebd86679f0a"},"refKey":22},
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{"_key":"60c55f717723bebd86679f14","_id":"references/60c55f717723bebd86679f14","_rev":"_cfFlk4C---","tei":"\n\t\n\t\tThe variant call format and VCFtools\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tAAuton\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c55f717723bebd86679f0a"},"refKey":28},
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{"_key":"60c55f827723bebd86679f89","_id":"references/60c55f827723bebd86679f89","_rev":"_cfFlk4i---","tei":"\n\t\n\t\tInvestigation of the freely available easy-to-use software 'EZR' for medical statistics\n\t\t\n\t\t\tYKanda\n\t\t\n\t\n\t\n\t\tBone Marrow Transpl\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c55f827723bebd86679f88"},"refKey":8},
{"_key":"60c55fc37723bebd86679faa","_id":"references/60c55fc37723bebd86679faa","_rev":"_cfFlk4u---","tei":"\n\t\n\t\tA Fast Method that Uses Polygenic Scores to Estimate the Variance Explained by Genome-wide Marker Panels and the Proportion of Variants Affecting a Trait\n\t\t\n\t\t\tLuigiPalla\n\t\t\n\t\t\n\t\t\tFrankDudbridge\n\t\t\n\t\t10.1016/j.ajhg.2015.06.005\n\t\t26189816\n\t\tPMC4573448\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t97\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c55fc37723bebd86679fa9"},"refKey":16},
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{"_key":"60c5603c7723bebd86679fee","_id":"references/60c5603c7723bebd86679fee","_rev":"_cfFlk6----","tei":"\n\t\n\t\tDiffering impacts of global and regional responses on SARS-CoV-2 transmission cluster dynamics\n\t\t\n\t\t\tBRMagalis\n\t\t\n\t\t10.1101/2020.11.06.370999\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5603c7723bebd86679fec"},"refKey":27},
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{"_key":"60c562217723bebd8667a128","_id":"references/60c562217723bebd8667a128","_rev":"_cfFll-q---","tei":"\n\t\n\t\tGROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit\n\t\t\n\t\t\tSanderPronk\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tPerLarsson\n\t\t\n\t\t\n\t\t\tPärBjelkmar\n\t\t\n\t\t\n\t\t\tRossenApostolov\n\t\t\n\t\t\n\t\t\tMichaelRShirts\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tPeterMKasson\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1093/bioinformatics/btt055\n\t\t23407358\n\t\tPMC3605599\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c562217723bebd8667a124"},"refKey":25},
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{"_key":"60c5628b7723bebd8667a195","_id":"references/60c5628b7723bebd8667a195","_rev":"_cfFllBa---","tei":"\n\t\n\t\tPython: A programming language for software integration and development\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\n\t\n\t\tJ Mol Graph\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5628b7723bebd8667a194"},"refKey":53},
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{"_key":"60c562af7723bebd8667a1c3","_id":"references/60c562af7723bebd8667a1c3","_rev":"_cfFllDO---","tei":"\n\t\n\t\tAccurate sequence-based prediction of protein solubility\n\t\t\n\t\t\tIDimitrov\n\t\t\n\t\t\n\t\t\tARandall\n\t\t\n\t\t\n\t\t\tPBaldi\n\t\t\n\t\t\n\t\t\tSolpro\n\t\t\n\t\t10.1186/1471-2105-14-S6-S4\n\t\t1471-2105-14-S6-S4\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c562af7723bebd8667a1c1"},"refKey":58},
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{"_key":"60c562af7723bebd8667a1c5","_id":"references/60c562af7723bebd8667a1c5","_rev":"_cfFllDi---","tei":"\n\t\n\t\tSVMTriP: A Method to Predict Antigenic Epitopes Using Support Vector Machine to Integrate Tri-Peptide Similarity and Propensity\n\t\t\n\t\t\tBoYao\n\t\t\n\t\t\n\t\t\tLinZhang\n\t\t\n\t\t\n\t\t\tShideLiang\n\t\t\n\t\t\n\t\t\tChiZhang\n\t\t\n\t\t10.1371/journal.pone.0045152\n\t\t22984622\n\t\tPMC3440317\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t7\n\t\t\t9\n\t\t\te45152\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c562af7723bebd8667a1c1"},"refKey":39},
{"_key":"60c562af7723bebd8667a1c6","_id":"references/60c562af7723bebd8667a1c6","_rev":"_cfFllDu---","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSudiptoSaha\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1002/prot.21078\n\t\t16894596\n\t\tark:/67375/WNG-PBJLFFDS-Q\n\t\t962AE5C732980F572DE0640D65F024AE7EF06A67\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t65\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c562af7723bebd8667a1c1"},"refKey":40},
{"_key":"60c562af7723bebd8667a1c7","_id":"references/60c562af7723bebd8667a1c7","_rev":"_cfFllD6---","tei":"\n\t\n\t\tPredicting linear B‐cell epitopes using string kernels\n\t\t\n\t\t\tYasserEl‐manzalawy\n\t\t\n\t\t\n\t\t\tDrenaDobbs\n\t\t\n\t\t\n\t\t\tVasantHonavar\n\t\t\n\t\t10.1002/jmr.893\n\t\t18496882\n\t\tPMC2683948\n\t\tark:/67375/WNG-WGM67G2V-3\n\t\t6483283356B180D4365629B79073ABBEDE5C41A3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Recognition\n\t\tJ. Mol. Recognit.\n\t\t0952-3499\n\t\t1099-1352\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c562af7723bebd8667a1c1"},"refKey":41},
{"_key":"60c562af7723bebd8667a1c8","_id":"references/60c562af7723bebd8667a1c8","_rev":"_cfFllEG---","tei":"\n\t\n\t\tJCat: a novel tool to adapt codon usage of a target gene to its potential expression host\n\t\t\n\t\t\tAGrote\n\t\t\n\t\t\n\t\t\tKHiller\n\t\t\n\t\t\n\t\t\tMScheer\n\t\t\n\t\t\n\t\t\tRMunch\n\t\t\n\t\t\n\t\t\tBNortemann\n\t\t\n\t\t\n\t\t\tDCHempel\n\t\t\n\t\t\n\t\t\tDJahn\n\t\t\n\t\t10.1093/nar/gki376\n\t\t15980527\n\t\tPMC1160137\n\t\tark:/67375/HXZ-JH20XSRX-9\n\t\t77BE1D08D154F6A77439823FFED9B1A253306E49\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c562af7723bebd8667a1c1"},"refKey":72},
{"_key":"60c562af7723bebd8667a1c9","_id":"references/60c562af7723bebd8667a1c9","_rev":"_cfFllES---","tei":"\n\t\n\t\tProtein identification and analysis tools on the ExPASy server\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t10.1385/1592598900\n\t\t\n\t\n\t\n\t\tProteomics Protoc. Handb\n\t\t\n\t\t\t98900\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c562af7723bebd8667a1c1"},"refKey":62},
{"_key":"60c562b67723bebd8667a225","_id":"references/60c562b67723bebd8667a225","_rev":"_cfFllEa---","tei":"\n\t\n\t\tNIST Technical Note 1887: CONTAM User Guide and Program Documentation Ver. 3.2. National Institute of Standards and Technology\n\t\t\n\t\t\tWSDols\n\t\t\n\t\t\n\t\t\tBJPolidoro\n\t\t\n\t\t10.6028/NIST.TN.1887\n\t\t\n\t\t\t\n\t\t\tGaithersburg, MD\n\t\t\n\t\n\n","document":{"$oid":"60c562b67723bebd8667a224"},"refKey":7},
{"_key":"60c562e57723bebd8667a24b","_id":"references/60c562e57723bebd8667a24b","_rev":"_cfFllEm---","tei":"\n\t\n\t\tAutomated electron microscope tomography using robust prediction of specimen movements\n\t\t\n\t\t\tDNMastronarde\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t152\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c562e57723bebd8667a24a"},"refKey":46},
{"_key":"60c562e57723bebd8667a24c","_id":"references/60c562e57723bebd8667a24c","_rev":"_cfFllEy---","tei":"\n\t\n\t\tcisTEM: User-friendly software for single-particle image processing\n\t\t\n\t\t\tTimGrant\n\t\t\n\t\t\n\t\t\tAlexisRohou\n\t\t\t0000-0002-3343-9621\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\t0000-0002-1506-909X\n\t\t\n\t\t10.1101/257618\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t7\n\t\t\n\t\n\n","document":{"$oid":"60c562e57723bebd8667a24a"},"refKey":30},
{"_key":"60c562e57723bebd8667a24d","_id":"references/60c562e57723bebd8667a24d","_rev":"_cfFllF----","tei":"\n\t\n\t\tStructural basis for translation termination on the 70S ribosome\n\t\t\n\t\t\tMartinLaurberg\n\t\t\n\t\t\n\t\t\tHaruichiAsahara\n\t\t\n\t\t\n\t\t\tAndreiKorostelev\n\t\t\n\t\t\n\t\t\tJianyuZhu\n\t\t\n\t\t\n\t\t\tSergeiTrakhanov\n\t\t\n\t\t\n\t\t\tHarryFNoller\n\t\t\n\t\t10.1038/nature07115\n\t\t18596689\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t454\n\t\t\t7206\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c562e57723bebd8667a24a"},"refKey":42},
{"_key":"60c562e57723bebd8667a24e","_id":"references/60c562e57723bebd8667a24e","_rev":"_cfFllFK---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c562e57723bebd8667a24a"},"refKey":0},
{"_key":"60c562e57723bebd8667a24f","_id":"references/60c562e57723bebd8667a24f","_rev":"_cfFllFS---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c562e57723bebd8667a24a"},"refKey":74},
{"_key":"60c5633f7723bebd8667a26e","_id":"references/60c5633f7723bebd8667a26e","_rev":"_cfFllFe---","tei":"\n\t\n\t\tVIPER: an advanced software package to support high-throughput LC-MS peptide identification\n\t\t\n\t\t\tMatthewEMonroe\n\t\t\n\t\t\n\t\t\tNikolaTolić\n\t\t\n\t\t\n\t\t\tNavdeepJaitly\n\t\t\n\t\t\n\t\t\tJasonLShaw\n\t\t\n\t\t\n\t\t\tJoshuaNAdkins\n\t\t\n\t\t\n\t\t\tRichardDSmith\n\t\t\n\t\t10.1093/bioinformatics/btm281\n\t\t17545182\n\t\tark:/67375/HXZ-DLKGGS2J-7\n\t\tD7D0AD6922D4B0EC4764C2A22F51F6F8C70CECB8\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5633f7723bebd8667a26d"},"refKey":40},
{"_key":"60c5633f7723bebd8667a26f","_id":"references/60c5633f7723bebd8667a26f","_rev":"_cfFllFq---","tei":"\n\t\n\t\tGene ontology: tool for the unification of biology\n\t\t\n\t\t\tMAshburner\n\t\t\n\t\t\n\t\t\tCABall\n\t\t\n\t\t\n\t\t\tJABlake\n\t\t\n\t\t\n\t\t\tDBotstein\n\t\t\n\t\t\n\t\t\tHButler\n\t\t\n\t\t\n\t\t\tJMCherry\n\t\t\n\t\tdoi: 10.1038/ 75556\n\t\n\t\n\t\tGene Ontol. Consortium. Nat. Genet\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5633f7723bebd8667a26d"},"refKey":3},
{"_key":"60c5633f7723bebd8667a270","_id":"references/60c5633f7723bebd8667a270","_rev":"_cfFllF2---","tei":"\n\t\n\t\tUsing GOstats to test gene lists for GO term association\n\t\t\n\t\t\tSFalcon\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\t10.1093/bioinformatics/btl567\n\t\t17098774\n\t\tark:/67375/HXZ-205QT2XS-S\n\t\tA4650E616182C98379687EB45DAF59F9408FB289\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5633f7723bebd8667a26d"},"refKey":16},
{"_key":"60c563437723bebd8667a27b","_id":"references/60c563437723bebd8667a27b","_rev":"_cfFllGC---","tei":"\n\t\n\t\tSocialmixr: social mixing matrices for infectious disease modelling\n\t\t\n\t\t\tSFunk\n\t\t\n\t\t\n\t\t\n\t\n\tR package version 0.1.6. 2020.\n\n","document":{"$oid":"60c563437723bebd8667a27a"},"refKey":15},
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{"_key":"60c563677723bebd8667a293","_id":"references/60c563677723bebd8667a293","_rev":"_cfFllGW---","tei":"\n\t\n\t\tMixed-Method appraisal methods tools\n\t\t\n\t\t\tSFabregues\n\t\t\n\t\t\n\t\t\tBGillian\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c563677723bebd8667a292"},"refKey":27},
{"_key":"60c5636f7723bebd8667a29a","_id":"references/60c5636f7723bebd8667a29a","_rev":"_cfFllGi---","tei":"\n\t\n\t\tImproved method for predicting linear B-cell epitopes\n\t\t\n\t\t\tJELarsen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunome Res\n\t\t\n\t\t\t2\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5636f7723bebd8667a299"},"refKey":36},
{"_key":"60c5636f7723bebd8667a29b","_id":"references/60c5636f7723bebd8667a29b","_rev":"_cfFllGu---","tei":"\n\t\n\t\tJalview Version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5636f7723bebd8667a299"},"refKey":77},
{"_key":"60c5636f7723bebd8667a29c","_id":"references/60c5636f7723bebd8667a29c","_rev":"_cfFllG6---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\n\t\n\t\tMol. Syst. Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5636f7723bebd8667a299"},"refKey":68},
{"_key":"60c5636f7723bebd8667a29d","_id":"references/60c5636f7723bebd8667a29d","_rev":"_cfFllHC---","tei":"\n\t\n\t\tPredicting linear B‐cell epitopes using string kernels\n\t\t\n\t\t\tYasserEl‐manzalawy\n\t\t\n\t\t\n\t\t\tDrenaDobbs\n\t\t\n\t\t\n\t\t\tVasantHonavar\n\t\t\n\t\t10.1002/jmr.893\n\t\t18496882\n\t\tPMC2683948\n\t\tark:/67375/WNG-WGM67G2V-3\n\t\t6483283356B180D4365629B79073ABBEDE5C41A3\n\t\t\n\t\n\t\n\t\tJournal of Molecular Recognition\n\t\tJ. Mol. Recognit.\n\t\t0952-3499\n\t\t1099-1352\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5636f7723bebd8667a299"},"refKey":17},
{"_key":"60c5636f7723bebd8667a29e","_id":"references/60c5636f7723bebd8667a29e","_rev":"_cfFllHO---","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSSaha\n\t\t\n\t\t\n\t\t\tGPRaghava\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t65\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5636f7723bebd8667a299"},"refKey":63},
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{"_key":"60c5636f7723bebd8667a2a1","_id":"references/60c5636f7723bebd8667a2a1","_rev":"_cfFllHu---","tei":"\n\t\n\t\tPEP-FOLD: an online resource for de novo peptide structure prediction\n\t\t\n\t\t\tJMaupetit\n\t\t\n\t\t\n\t\t\tPDerreumaux\n\t\t\n\t\t\n\t\t\tPTuffery\n\t\t\n\t\t10.1093/nar/gkp323\n\t\t19433514\n\t\tPMC2703897\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c5636f7723bebd8667a299"},"refKey":43},
{"_key":"60c5636f7723bebd8667a2a2","_id":"references/60c5636f7723bebd8667a2a2","_rev":"_cfFllH6---","tei":"\n\t\n\t\tDiscovery Studio Modeling Environment, Release 4.0\n\t\t\n\t\t\tAnon\n\t\t\n\t\t\n\t\t\t\n\t\t\tAccelrys Software Inc\n\t\t\tSan Diego\n\t\t\n\t\n\n","document":{"$oid":"60c5636f7723bebd8667a299"},"refKey":1},
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{"_key":"60c563867723bebd8667a2d9","_id":"references/60c563867723bebd8667a2d9","_rev":"_cfFllIS---","tei":"\n\t\n\t\tIBM SPSS statistics for windows\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t\n\t\t\t\n\t\t\tArmonk\n\t\t\n\t\n\tversion 24.0. IBM Corp.\n\n","document":{"$oid":"60c563867723bebd8667a2d8"},"refKey":20},
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{"_key":"60c5638e7723bebd8667a2e4","_id":"references/60c5638e7723bebd8667a2e4","_rev":"_cfFllIm---","tei":"\n\t\n\t\tA Structure Informed Atlas of Pan-Viral Interactions Reveals Features of Human Infection\n\t\t\n\t\t\tGorkaLasso\n\t\t\n\t\t\n\t\t\tSandraVMayer\n\t\t\n\t\t\n\t\t\tEvandroRWinkelmann\n\t\t\n\t\t\n\t\t\tTimChu\n\t\t\n\t\t\n\t\t\tOliverElliot\n\t\t\n\t\t\n\t\t\tJuanAngelPatino-Galindo\n\t\t\n\t\t\n\t\t\tKernyuPark\n\t\t\n\t\t\n\t\t\tRaulRabadan\n\t\t\n\t\t\n\t\t\tBarryHonig\n\t\t\n\t\t\n\t\t\tSagiShapira\n\t\t\n\t\t10.2139/ssrn.3346979\n\t\n\t\n\t\tSSRN Electronic Journal\n\t\tSSRN Journal\n\t\t1556-5068\n\t\t\n\t\t\t178\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5638e7723bebd8667a2e3"},"refKey":23},
{"_key":"60c563bb7723bebd8667a304","_id":"references/60c563bb7723bebd8667a304","_rev":"_cfFllIy---","tei":"\n\t\n\t\tMeeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c563bb7723bebd8667a303"},"refKey":74},
{"_key":"60c563c37723bebd8667a30a","_id":"references/60c563c37723bebd8667a30a","_rev":"_cfFllJ----","tei":"\n\t\n\t\tGapped blast and PSI-blast: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c563c37723bebd8667a309"},"refKey":45},
{"_key":"60c563c37723bebd8667a30b","_id":"references/60c563c37723bebd8667a30b","_rev":"_cfFllJK---","tei":"\n\t\n\t\tPQS: a protein quaternary structure file server\n\t\t\n\t\t\tKHenrick\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1016/s0968-0004(98)01253-5\n\t\t9787643\n\t\tS0968-0004(98)01253-5\n\t\tark:/67375/6H6-CSQGL2NG-6\n\t\t7D61A81256BD1A16BB88547F73604A603E5ABEDD\n\t\n\t\n\t\tTrends in Biochemical Sciences\n\t\t0968-0004\n\t\t\n\t\t\t23\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c563c37723bebd8667a309"},"refKey":71},
{"_key":"60c563dc7723bebd8667a319","_id":"references/60c563dc7723bebd8667a319","_rev":"_cfFllJS---","tei":"\n\t\n\t\tMetaboAnalystR 3.0: Toward an Optimized Workflow for Global Metabolomics\n\t\t\n\t\t\tZPang\n\t\t\n\t\t\n\t\t\tJChong\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tJXia\n\t\t\n\t\t10.3390/metabo10050186\n\t\t\n\t\t\t\n\t\t\t10\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c563dc7723bebd8667a318"},"refKey":57},
{"_key":"60c563dc7723bebd8667a31a","_id":"references/60c563dc7723bebd8667a31a","_rev":"_cfFllJe---","tei":"\n\t\n\t\tUsing MetaboAnalyst 4.0 for Comprehensive and Integrative Metabolomics Data Analysis\n\t\t\n\t\t\tJasmineChong\n\t\t\n\t\t\n\t\t\tDavidSWishart\n\t\t\n\t\t\n\t\t\tJianguoXia\n\t\t\n\t\t10.1002/cpbi.86\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t1934-340X\n\t\t\n\t\t\t68\n\t\t\t1\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\te86. [CrossRef\n\n","document":{"$oid":"60c563dc7723bebd8667a318"},"refKey":58},
{"_key":"60c563dc7723bebd8667a31b","_id":"references/60c563dc7723bebd8667a31b","_rev":"_cfFllJq---","tei":"\n\t\n\t\tA cross-platform toolkit for mass spectrometry and proteomics\n\t\t\n\t\t\tMatthewCChambers\n\t\t\n\t\t\n\t\t\tBrendanMaclean\n\t\t\n\t\t\n\t\t\tRobertBurke\n\t\t\n\t\t\n\t\t\tDarioAmodei\n\t\t\n\t\t\n\t\t\tDanielLRuderman\n\t\t\n\t\t\n\t\t\tSteffenNeumann\n\t\t\n\t\t\n\t\t\tLaurentGatto\n\t\t\n\t\t\n\t\t\tBerndFischer\n\t\t\n\t\t\n\t\t\tBrianPratt\n\t\t\n\t\t\n\t\t\tJarrettEgertson\n\t\t\n\t\t\n\t\t\tKatherineHoff\n\t\t\n\t\t\n\t\t\tDarrenKessner\n\t\t\n\t\t\n\t\t\tNatalieTasman\n\t\t\n\t\t\n\t\t\tNicholasShulman\n\t\t\n\t\t\n\t\t\tBarbaraFrewen\n\t\t\n\t\t\n\t\t\tTahminaABaker\n\t\t\n\t\t\n\t\t\tMi-YounBrusniak\n\t\t\n\t\t\n\t\t\tChristopherPaulse\n\t\t\n\t\t\n\t\t\tDavidCreasy\n\t\t\n\t\t\n\t\t\tLisaFlashner\n\t\t\n\t\t\n\t\t\tKianKani\n\t\t\n\t\t\n\t\t\tChrisMoulding\n\t\t\n\t\t\n\t\t\tSeanLSeymour\n\t\t\n\t\t\n\t\t\tLydiaMNuwaysir\n\t\t\n\t\t\n\t\t\tBrentLefebvre\n\t\t\n\t\t\n\t\t\tFrankKuhlmann\n\t\t\n\t\t\n\t\t\tJoeRoark\n\t\t\n\t\t\n\t\t\tPaapeRainer\n\t\t\n\t\t\n\t\t\tSuckauDetlev\n\t\t\n\t\t\n\t\t\tTinaHemenway\n\t\t\n\t\t\n\t\t\tAndreasHuhmer\n\t\t\n\t\t\n\t\t\tJamesLangridge\n\t\t\n\t\t\n\t\t\tBrianConnolly\n\t\t\n\t\t\n\t\t\tTreyChadick\n\t\t\n\t\t\n\t\t\tKrisztinaHolly\n\t\t\n\t\t\n\t\t\tJoshEckels\n\t\t\n\t\t\n\t\t\tEricWDeutsch\n\t\t\n\t\t\n\t\t\tRobertLMoritz\n\t\t\n\t\t\n\t\t\tJonathanEKatz\n\t\t\n\t\t\n\t\t\tDavidBAgus\n\t\t\n\t\t\n\t\t\tMichaelMaccoss\n\t\t\n\t\t\n\t\t\tDavidLTabb\n\t\t\n\t\t\n\t\t\tParagMallick\n\t\t\n\t\t10.1038/nbt.2377\n\t\t23051804\n\t\tPMC3471674\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t30\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c563dc7723bebd8667a318"},"refKey":56},
{"_key":"60c564007723bebd8667a33c","_id":"references/60c564007723bebd8667a33c","_rev":"_cfFllJ2---","tei":"\n\t\n\t\tCHARMM-GUI: A Web-Based Graphical User Interface for CHARMM\n\t\t\n\t\t\tSJo\n\t\t\n\t\t\n\t\t\tTKim\n\t\t\n\t\t\n\t\t\tVGIyer\n\t\t\n\t\t\n\t\t\tWIm\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c564007723bebd8667a33b"},"refKey":59},
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{"_key":"60c564007723bebd8667a340","_id":"references/60c564007723bebd8667a340","_rev":"_cfFllKi---","tei":"\n\t\n\t\tCHARMM General Force Field: A Force Field for Drug-like Molecules Compatible with the CHARMM All-Atom Additive Biological Force Fields\n\t\t\n\t\t\tKVanommeslaeghe\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c564007723bebd8667a33b"},"refKey":58},
{"_key":"60c5647f7723bebd8667a383","_id":"references/60c5647f7723bebd8667a383","_rev":"_cfFllKu---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5647f7723bebd8667a382"},"refKey":8},
{"_key":"60c5647f7723bebd8667a384","_id":"references/60c5647f7723bebd8667a384","_rev":"_cfFllK2---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5647f7723bebd8667a382"},"refKey":9},
{"_key":"60c564997723bebd8667a3a4","_id":"references/60c564997723bebd8667a3a4","_rev":"_cfFllLC---","tei":"\n\t\n\t\tVienna RNA secondary structure server\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t10.1093/nar/gkg599\n\t\t12824340\n\t\tPMC169005\n\t\tark:/67375/HXZ-HNC9HZWP-J\n\t\t8DDA80BB66A3C49E8D06B97FD478DF6F1B338419\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c564997723bebd8667a3a3"},"refKey":23},
{"_key":"60c564be7723bebd8667a3c2","_id":"references/60c564be7723bebd8667a3c2","_rev":"_cfFllLO---","tei":"\n\t\n\t\tSecurity for the Robot Operating System\n\t\t\n\t\t\tBDieber\n\t\t\n\t\t\n\t\t\tBBreiling\n\t\t\n\t\t\n\t\t\tSTaurer\n\t\t\n\t\t\n\t\t\tSKacianka\n\t\t\n\t\t\n\t\t\tSRass\n\t\t\n\t\t\n\t\t\tPSchartner\n\t\t\n\t\n\t\n\t\tRobotics and Autonomous Systems\n\t\t\n\t\t\t98\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c564be7723bebd8667a3c1"},"refKey":24},
{"_key":"60c564be7723bebd8667a3c3","_id":"references/60c564be7723bebd8667a3c3","_rev":"_cfFllLa---","tei":"\n\t\n\t\tA preliminary cyber-physical security assessment of the Robot Operating System (ROS)\n\t\t\n\t\t\tJarrodMcclean\n\t\t\n\t\t\n\t\t\tChristopherStull\n\t\t\n\t\t\n\t\t\tCharlesFarrar\n\t\t\n\t\t\n\t\t\tDavidMascareñas\n\t\t\n\t\t10.1117/12.2016189\n\t\n\t\n\t\tUnmanned Systems Technology XV\n\t\t\t\t\n\t\t\tSPIE\n\t\t\t\n\t\t\t8741\n\t\t\n\t\n\tUnmanned Systems Technology XV\n\n","document":{"$oid":"60c564be7723bebd8667a3c1"},"refKey":50},
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{"_key":"60c564be7723bebd8667a3c5","_id":"references/60c564be7723bebd8667a3c5","_rev":"_cfFllLu---","tei":"\n\t\n\t\tAppArmor-an effective and easy-to-use Linux application security system\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c564be7723bebd8667a3c1"},"refKey":2},
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{"_key":"60c564be7723bebd8667a3c7","_id":"references/60c564be7723bebd8667a3c7","_rev":"_cfFllMG---","tei":"\n\t\n\t\tThe most complete DDS by eprosima, the middleware experts\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c564be7723bebd8667a3c1"},"refKey":30},
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{"_key":"60c564be7723bebd8667a3ca","_id":"references/60c564be7723bebd8667a3ca","_rev":"_cfFllMm---","tei":"\n\t\n\t\tMaxoid: Transparently confining mobile applications with custom views of state\n\t\t\n\t\t\tYXu\n\t\t\n\t\t\n\t\t\tEWitchel\n\t\t\n\t\n\t\n\t\tEuropean Conference on Computer Systems\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c564be7723bebd8667a3c1"},"refKey":91},
{"_key":"60c564be7723bebd8667a3cb","_id":"references/60c564be7723bebd8667a3cb","_rev":"_cfFllMy---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tArdupilot Autopilot Software\n\t\t\n\t\n\n","document":{"$oid":"60c564be7723bebd8667a3c1"},"refKey":3},
{"_key":"60c564be7723bebd8667a3cc","_id":"references/60c564be7723bebd8667a3cc","_rev":"_cfFllN----","tei":"\n\t\n\t\t\n\t\tPX4 Autopilot Software\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c564be7723bebd8667a3c1"},"refKey":64},
{"_key":"60c564be7723bebd8667a3cd","_id":"references/60c564be7723bebd8667a3cd","_rev":"_cfFllNK---","tei":"\n\t\n\t\tApplication-level security for ROS-based applications\n\t\t\n\t\t\tBernhardDieber\n\t\t\n\t\t\n\t\t\tSeverinKacianka\n\t\t\n\t\t\n\t\t\tStefanRass\n\t\t\n\t\t\n\t\t\tPeterSchartner\n\t\t\n\t\t10.1109/iros.2016.7759659\n\t\n\t\n\t\t2016 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c564be7723bebd8667a3c1"},"refKey":25},
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{"_key":"60c565117723bebd8667a44a","_id":"references/60c565117723bebd8667a44a","_rev":"_cfFllNe---","tei":"\n\t\n\t\tIQ-TREE: A fast and effective stochastic algorithm for estimating maximum likelihood phylogenies\n\t\t\n\t\t\tL.-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tMinhB Q\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c565117723bebd8667a449"},"refKey":12},
{"_key":"60c565117723bebd8667a44b","_id":"references/60c565117723bebd8667a44b","_rev":"_cfFllNq---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c565117723bebd8667a449"},"refKey":8},
{"_key":"60c565117723bebd8667a44c","_id":"references/60c565117723bebd8667a44c","_rev":"_cfFllN2---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c565117723bebd8667a449"},"refKey":10},
{"_key":"60c5652a7723bebd8667a465","_id":"references/60c5652a7723bebd8667a465","_rev":"_cfFllOC---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5652a7723bebd8667a464"},"refKey":52},
{"_key":"60c565307723bebd8667a46f","_id":"references/60c565307723bebd8667a46f","_rev":"_cfFllOK---","tei":"\n\t\n\t\tPredicting amino acid changes that affect protein function\n\t\t\n\t\t\tPCNg\n\t\t\n\t\t\n\t\t\tSHenikoff\n\t\t\n\t\t\n\t\t\tSift\n\t\t\n\t\n\t\n\t\tNucleic acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c565307723bebd8667a46e"},"refKey":23},
{"_key":"60c565307723bebd8667a470","_id":"references/60c565307723bebd8667a470","_rev":"_cfFllOW---","tei":"\n\t\n\t\tPredicting functional effect of human missense mutations using PolyPhen-2\n\t\t\n\t\t\tIAdzhubei\n\t\t\n\t\t\n\t\t\tDMJordan\n\t\t\n\t\t\n\t\t\tSRSunyaev\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Hum. Genet\n\t\t\n\t\t\t76\n\t\t\t41\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c565307723bebd8667a46e"},"refKey":10},
{"_key":"60c565307723bebd8667a471","_id":"references/60c565307723bebd8667a471","_rev":"_cfFllOi---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c565307723bebd8667a46e"},"refKey":66},
{"_key":"60c565c87723bebd8667a4b1","_id":"references/60c565c87723bebd8667a4b1","_rev":"_cfFllOu---","tei":"\n\t\n\t\tTeam R: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tRCore\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c565c87723bebd8667a4b0"},"refKey":24},
{"_key":"60c566a67723bebd8667a4d5","_id":"references/60c566a67723bebd8667a4d5","_rev":"_cfFllO2---","tei":"\n\t\n\t\tMetagenomic analysis of the viral flora of pine marten and European badger feces\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tJMVan Den Brand\n\t\t\n\t\t\n\t\t\tMVan Leeuwen\n\t\t\n\t\t\n\t\t\tCMSchapendonk\n\t\t\n\t\t\n\t\t\tJHSimon\n\t\t\n\t\t\n\t\t\tBLHaagmans\n\t\t\n\t\t\n\t\t\tADOsterhaus\n\t\t\n\t\t\n\t\t\tSLSmits\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tJ. Virol.\n\n","document":{"$oid":"60c566a67723bebd8667a4d4"},"refKey":37},
{"_key":"60c566b17723bebd8667a4e6","_id":"references/60c566b17723bebd8667a4e6","_rev":"_cfFllPC---","tei":"\n\t\n\t\tThe CLUSTAL _ X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c566b17723bebd8667a4e5"},"refKey":40},
{"_key":"60c567557723bebd8667a528","_id":"references/60c567557723bebd8667a528","_rev":"_cfFllPO---","tei":"\n\t\n\t\tPaul Wilmott Introduces Quantitative Finance, Second Edition\n\t\t\n\t\t\tPWilmott\n\t\t\n\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c567557723bebd8667a527"},"refKey":36},
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{"_key":"60c567807723bebd8667a541","_id":"references/60c567807723bebd8667a541","_rev":"_cfFllPu---","tei":"\n\t\n\t\tAortopulmonary Collaterals After Bidirectional Cavopulmonary Connection or Fontan Completion\n\t\t\n\t\t\tLarsGrosse-Wortmann\n\t\t\n\t\t\n\t\t\tAbdulmajeedAl-Otay\n\t\t\n\t\t\n\t\t\tShi-JoonYoo\n\t\t\n\t\t10.1161/circimaging.108.834192\n\t\t19808596\n\t\t\n\t\n\t\n\t\tCirculation: Cardiovascular Imaging\n\t\tCirc Cardiovasc Imaging\n\t\t1941-9651\n\t\t1942-0080\n\t\t\n\t\t\t2\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOvid Technologies (Wolters Kluwer Health)\n\t\t\n\t\n\n","document":{"$oid":"60c567807723bebd8667a540"},"refKey":10},
{"_key":"60c567807723bebd8667a542","_id":"references/60c567807723bebd8667a542","_rev":"_cfFllP6---","tei":"\n\t\n\t\tDesign and validation of segment -freely available software for cardiovascular image analysis\n\t\t\n\t\t\tEHeiberg\n\t\t\n\t\t\n\t\t\tJSj€ Ogren\n\t\t\n\t\t\n\t\t\tMUgander\n\t\t\n\t\n\t\n\t\tBMC Med Imaging\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c567807723bebd8667a540"},"refKey":14},
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{"_key":"60c567b07723bebd8667a563","_id":"references/60c567b07723bebd8667a563","_rev":"_cfFllQS---","tei":"\n\t\n\t\tFast Gapped-Read Alignment with Bowtie 2'\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c567b07723bebd8667a562"},"refKey":48},
{"_key":"60c567b07723bebd8667a564","_id":"references/60c567b07723bebd8667a564","_rev":"_cfFllQa---","tei":"\n\t\n\t\tFull-Length Transcriptome Assembly from RNA-Seq Data without a Reference Genome\n\t\t\n\t\t\tMGGrabherr\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c567b07723bebd8667a562"},"refKey":29},
{"_key":"60c567b07723bebd8667a565","_id":"references/60c567b07723bebd8667a565","_rev":"_cfFllQm---","tei":"\n\t\n\t\tThe Sequence Alignment/Map Format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c567b07723bebd8667a562"},"refKey":50},
{"_key":"60c567b07723bebd8667a566","_id":"references/60c567b07723bebd8667a566","_rev":"_cfFllQy---","tei":"\n\t\n\t\tTrimmomatic: A Flexible Trimmer for Illumina Sequence Data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c567b07723bebd8667a562"},"refKey":6},
{"_key":"60c567b07723bebd8667a567","_id":"references/60c567b07723bebd8667a567","_rev":"_cfFllR----","tei":"\n\t\n\t\tFast, Scalable Generation of High-Quality Protein Multiple Sequence Alignments Using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\n\t\n\t\tMolecular Systems Biology\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c567b07723bebd8667a562"},"refKey":77},
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{"_key":"60c567b47723bebd8667a57a","_id":"references/60c567b47723bebd8667a57a","_rev":"_cfFllRS---","tei":"\n\t\n\t\tRxivist.org: Sorting biology preprints using social media and readership metrics\n\t\t\n\t\t\tRichardJAbdill\n\t\t\t0000-0001-9565-5832\n\t\t\n\t\t\n\t\t\tRanBlekhman\n\t\t\n\t\t10.1371/journal.pbio.3000269\n\t\t\n\t\n\t\n\t\tPLOS Biology\n\t\tPLoS Biol\n\t\t1545-7885\n\t\t\n\t\t\t17\n\t\t\t5\n\t\t\te3000269\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c567b47723bebd8667a579"},"refKey":3},
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{"_key":"60c5682c7723bebd8667a5bf","_id":"references/60c5682c7723bebd8667a5bf","_rev":"_cfFllS----","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGSteche\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5682c7723bebd8667a5be"},"refKey":15},
{"_key":"60c568347723bebd8667a5c7","_id":"references/60c568347723bebd8667a5c7","_rev":"_cfFllSK---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. Vienna: R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c568347723bebd8667a5c6"},"refKey":25},
{"_key":"60c568357723bebd8667a5c9","_id":"references/60c568357723bebd8667a5c9","_rev":"_cfFllSW---","tei":"\n\t\n\t\t\n\t\tThe R Project for Statistical Computing\n\t\t\t\t\n\t\n\tcited 2020 May 26\n\n","document":{"$oid":"60c568357723bebd8667a5c8"},"refKey":16},
{"_key":"60c568427723bebd8667a5cf","_id":"references/60c568427723bebd8667a5cf","_rev":"_cfFllSi---","tei":"\n\t\n\t\tANNOVAR: functional annotation of genetic variants from high-throughput sequencing data\n\t\t\n\t\t\tKWang\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tHHakonarson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t16\n\t\t\te164\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c568427723bebd8667a5ce"},"refKey":8},
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{"_key":"60c5685b7723bebd8667a5e0","_id":"references/60c5685b7723bebd8667a5e0","_rev":"_cfFllS2---","tei":"\n\t\n\t\tBioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tDaWeiHuang\n\t\t\n\t\t\n\t\t\tBradTSherman\n\t\t\n\t\t\n\t\t\tRichardALempicki\n\t\t\n\t\t10.1093/nar/gkn923\n\t\t19033363\n\t\tPMC2615629\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5685b7723bebd8667a5de"},"refKey":69},
{"_key":"60c568707723bebd8667a601","_id":"references/60c568707723bebd8667a601","_rev":"_cfFllTC---","tei":"\n\t\n\t\tModelTest-NG: a new and scalable tool for the selection of DNA and protein evolutionary models\n\t\t\n\t\t\tDiegoDarriba\n\t\t\n\t\t\n\t\t\tDavid.Posada\n\t\t\n\t\t\n\t\t\tAlexeyMKozlov\n\t\t\t0000-0001-7394-2718\n\t\t\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t\n\t\t\tBenoitMorel\n\t\t\n\t\t\n\t\t\tTomasFlouri\n\t\t\n\t\t10.1101/612903\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t2020\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c568707723bebd8667a600"},"refKey":29},
{"_key":"60c568707723bebd8667a602","_id":"references/60c568707723bebd8667a602","_rev":"_cfFllTO---","tei":"\n\t\n\t\tClustal Omega\n\t\t\n\t\t\tFabianSievers\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t10.1002/0471250953.bi0313s48\n\t\t25501942\n\t\n\t\n\t\tCurr. Protoc. Bioinform\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c568707723bebd8667a600"},"refKey":26},
{"_key":"60c568707723bebd8667a603","_id":"references/60c568707723bebd8667a603","_rev":"_cfFllTa---","tei":"\n\t\n\t\tClustal Omega, accurate alignment of very large numbers of sequences\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1002/0471250953.bi0313s48\n\t\t105-116._6\n\t\n\t\n\t\tMethods Mol. Biol\n\t\t\n\t\t\t1079\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c568707723bebd8667a600"},"refKey":27},
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{"_key":"60c568b77723bebd8667a63a","_id":"references/60c568b77723bebd8667a63a","_rev":"_cfFllUG---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tASivachenko\n\t\t\n\t\t\n\t\t\tKCibulskis\n\t\t\n\t\t\n\t\t\tAKernytsky\n\t\t\n\t\t\n\t\t\tKGarimella\n\t\t\n\t\t\n\t\t\tDAltshuler\n\t\t\n\t\t\n\t\t\tSGabriel\n\t\t\n\t\t\n\t\t\tMDaly\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t10.1101/gr.107524.110\n\t\t20644199\n\t\tPMC2928508\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t20\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c568b77723bebd8667a637"},"refKey":33},
{"_key":"60c568b77723bebd8667a63b","_id":"references/60c568b77723bebd8667a63b","_rev":"_cfFllUS---","tei":"\n\t\n\t\tFrom FastQ Data to High-Confidence Variant Calls: The Genome Analysis Toolkit Best Practices Pipeline\n\t\t\n\t\t\tGeraldineAVan Der Auwera\n\t\t\n\t\t\n\t\t\tMauricioOCarneiro\n\t\t\n\t\t\n\t\t\tChristopherHartl\n\t\t\n\t\t\n\t\t\tRyanPoplin\n\t\t\n\t\t\n\t\t\tGuillermoDel Angel\n\t\t\n\t\t\n\t\t\tAmiLevy-Moonshine\n\t\t\n\t\t\n\t\t\tTadeuszJordan\n\t\t\n\t\t\n\t\t\tKhalidShakir\n\t\t\n\t\t\n\t\t\tDavidRoazen\n\t\t\n\t\t\n\t\t\tJoelThibault\n\t\t\n\t\t\n\t\t\tEricBanks\n\t\t\n\t\t\n\t\t\tKiranVGarimella\n\t\t\n\t\t\n\t\t\tDavidAltshuler\n\t\t\n\t\t\n\t\t\tStaceyGabriel\n\t\t\n\t\t\n\t\t\tMarkADepristo\n\t\t\n\t\t10.1002/0471250953.bi1110s43\n\t\t25431634\n\t\tPMC4243306\n\t\t11.10.11-11.10.33\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Bioinform\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c568b77723bebd8667a637"},"refKey":34},
{"_key":"60c568b77723bebd8667a63c","_id":"references/60c568b77723bebd8667a63c","_rev":"_cfFllUe---","tei":"\n\t\n\t\tVariant Review with the Integrative Genomics Viewer\n\t\t\n\t\t\tJamesTRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdóttir\n\t\t\n\t\t\n\t\t\tAaronMWenger\n\t\t\n\t\t\n\t\t\tAhmetZehir\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t10.1158/0008-5472.can-17-0337\n\t\t29092934\n\t\tPMC5678989\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t77\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c568b77723bebd8667a637"},"refKey":35},
{"_key":"60c568b77723bebd8667a63d","_id":"references/60c568b77723bebd8667a63d","_rev":"_cfFllUm---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c568b77723bebd8667a637"},"refKey":32},
{"_key":"60c568d47723bebd8667a650","_id":"references/60c568d47723bebd8667a650","_rev":"_cfFllUy---","tei":"\n\t\n\t\tVENTANA systems.inc\n\t\t\n\t\t\tVensim\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c568d47723bebd8667a64f"},"refKey":53},
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{"_key":"60c569057723bebd8667a671","_id":"references/60c569057723bebd8667a671","_rev":"_cfFllVe---","tei":"\n\t\n\t\tPRODRG: A tool for high-throughput crystallography of protein-ligand complexes\n\t\t\n\t\t\tAWSchuttelkopf\n\t\t\n\t\t\n\t\t\tDM FVan Aalten\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D: Biological Crystallography\n\t\t\n\t\t\t60\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c569057723bebd8667a66d"},"refKey":81},
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{"_key":"60c5690f7723bebd8667a696","_id":"references/60c5690f7723bebd8667a696","_rev":"_cfFllV2---","tei":"\n\t\n\t\tClosing the gap between methodologists and end-users: R as a computational back-end\n\t\t\n\t\t\tBCWallace\n\t\t\n\t\t\n\t\t\tIJDahabreh\n\t\t\n\t\t\n\t\t\tTATrikalinos\n\t\t\n\t\t\n\t\t\tJLau\n\t\t\n\t\t\n\t\t\tPTrow\n\t\t\n\t\t\n\t\t\tCHSchmid\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t49\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5690f7723bebd8667a695"},"refKey":6},
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{"_key":"60c56da07723bebd8667aa47","_id":"references/60c56da07723bebd8667aa47","_rev":"_cfFllge---","tei":"\n\t\n\t\tOn easy implementation of a variant of the replica exchange with solute tempering in GROMACS\n\t\t\n\t\t\tTsuyoshiTerakawa\n\t\t\n\t\t\n\t\t\tTomoshiKameda\n\t\t\n\t\t\n\t\t\tShojiTakada\n\t\t\n\t\t10.1002/jcc.21703\n\t\t21425280\n\t\tark:/67375/WNG-8ZR7G27Z-S\n\t\t4DEA4AF34BE4647EEA5908C59CDC44A73EF99C3D\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t32\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c56da07723bebd8667aa45"},"refKey":113},
{"_key":"60c56da07723bebd8667aa48","_id":"references/60c56da07723bebd8667aa48","_rev":"_cfFllgm---","tei":"\n\t\n\t\tHamiltonian replica exchange in GROMACS: a flexible implementation\n\t\t\n\t\t\tGiovanniBussi\n\t\t\n\t\t10.1080/00268976.2013.824126\n\t\t\n\t\n\t\n\t\tMolecular Physics\n\t\tMolecular Physics\n\t\t0026-8976\n\t\t1362-3028\n\t\t\n\t\t\t112\n\t\t\t3-4\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c56da07723bebd8667aa45"},"refKey":114},
{"_key":"60c56da07723bebd8667aa49","_id":"references/60c56da07723bebd8667aa49","_rev":"_cfFllgy---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMarkJamesAbraham\n\t\t\t0000-0001-6363-2521\n\t\t\n\t\t\n\t\t\tTeemuMurtola\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1016/j.softx.2015.06.001\n\t\n\t\n\t\tSoftwareX\n\t\tSoftwareX\n\t\t2352-7110\n\t\t\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c56da07723bebd8667aa45"},"refKey":80},
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{"_key":"60c56e957723bebd8667ab74","_id":"references/60c56e957723bebd8667ab74","_rev":"_cfFllkq---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c56e957723bebd8667ab71"},"refKey":58},
{"_key":"60c56e9c7723bebd8667ab88","_id":"references/60c56e9c7723bebd8667ab88","_rev":"_cfFllky---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tBjörnLarsson\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1006/jmbi.2000.4315\n\t\t11152613\n\t\tS0022-2836(00)94315-8\n\t\tark:/67375/6H6-ZB6KWVJ7-M\n\t\t172A90B8F942FA711EF8E2CF5DB2DE13B7F2D351\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c56e9c7723bebd8667ab87"},"refKey":21},
{"_key":"60c56e9c7723bebd8667ab89","_id":"references/60c56e9c7723bebd8667ab89","_rev":"_cfFlll----","tei":"\n\t\n\t\tThe HHpred interactive server for protein homology detection and structure prediction\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\t10.1093/nar/gki408\n\t\t15980461\n\t\tPMC1160169\n\t\tark:/67375/HXZ-VQ80LLMR-1\n\t\t661899669D797C6691F2952A9CF1677A1BB8E9C3\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c56e9c7723bebd8667ab87"},"refKey":48},
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{"_key":"60c56e9c7723bebd8667ab91","_id":"references/60c56e9c7723bebd8667ab91","_rev":"_cfFllma---","tei":"\n\t\n\t\tTerrace Aware Data Structure for Phylogenomic Inference from Supermatrices\n\t\t\n\t\t\tOlgaChernomor\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/sysbio/syw037\n\t\t27121966\n\t\tPMC5066062\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\tSyst Biol\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t65\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c56e9c7723bebd8667ab87"},"refKey":7},
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{"_key":"60c56e9c7723bebd8667ab94","_id":"references/60c56e9c7723bebd8667ab94","_rev":"_cfFllm6---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tSubgroup, 1000 Genome Project Data Processing\n\n","document":{"$oid":"60c56e9c7723bebd8667ab87"},"refKey":25},
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{"_key":"60c56eb57723bebd8667abbe","_id":"references/60c56eb57723bebd8667abbe","_rev":"_cfFllnS---","tei":"\n\t\n\t\tGene Ontology: tool for the unification of biology\n\t\t\n\t\t\tMichaelAshburner\n\t\t\n\t\t\n\t\t\tCatherineABall\n\t\t\n\t\t\n\t\t\tJudithABlake\n\t\t\n\t\t\n\t\t\tDavidBotstein\n\t\t\n\t\t\n\t\t\tHeatherButler\n\t\t\n\t\t\n\t\t\tJMichaelCherry\n\t\t\n\t\t\n\t\t\tAllanPDavis\n\t\t\n\t\t\n\t\t\tKaraDolinski\n\t\t\n\t\t\n\t\t\tSelinaSDwight\n\t\t\n\t\t\n\t\t\tJananTEppig\n\t\t\n\t\t\n\t\t\tMidoriAHarris\n\t\t\n\t\t\n\t\t\tDavidPHill\n\t\t\n\t\t\n\t\t\tLaurieIssel-Tarver\n\t\t\n\t\t\n\t\t\tAndrewKasarskis\n\t\t\n\t\t\n\t\t\tSuzannaLewis\n\t\t\n\t\t\n\t\t\tJohnCMatese\n\t\t\n\t\t\n\t\t\tJoelERichardson\n\t\t\n\t\t\n\t\t\tMartinRingwald\n\t\t\n\t\t\n\t\t\tGeraldMRubin\n\t\t\n\t\t\n\t\t\tGavinSherlock\n\t\t\n\t\t10.1038/75556\n\t\t10802651\n\t\tPMC3037419\n\t\t\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t\n\t\t\t25\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tThe Gene Ontology Consortium\n\n","document":{"$oid":"60c56eb57723bebd8667abbc"},"refKey":0},
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{"_key":"60c56eb57723bebd8667abc0","_id":"references/60c56eb57723bebd8667abc0","_rev":"_cfFllnm---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tAlexanderDobin\n\t\t\n\t\t\n\t\t\tCarrieADavis\n\t\t\n\t\t\n\t\t\tFelixSchlesinger\n\t\t\n\t\t\n\t\t\tJorgDrenkow\n\t\t\n\t\t\n\t\t\tChrisZaleski\n\t\t\n\t\t\n\t\t\tSonaliJha\n\t\t\n\t\t\n\t\t\tPhilippeBatut\n\t\t\n\t\t\n\t\t\tMarkChaisson\n\t\t\n\t\t\n\t\t\tThomasRGingeras\n\t\t\n\t\t10.1093/bioinformatics/bts635\n\t\t23104886\n\t\tPMC3530905\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c56eb57723bebd8667abbc"},"refKey":12},
{"_key":"60c56eb57723bebd8667abc1","_id":"references/60c56eb57723bebd8667abc1","_rev":"_cfFllny---","tei":"\n\t\n\t\tPANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements\n\t\t\n\t\t\tHuaiyuMi\n\t\t\n\t\t\n\t\t\tXiaosongHuang\n\t\t\n\t\t\n\t\t\tAnushyaMuruganujan\n\t\t\n\t\t\n\t\t\tHaimingTang\n\t\t\n\t\t\n\t\t\tCaitlinMills\n\t\t\n\t\t\n\t\t\tDianeKang\n\t\t\n\t\t\n\t\t\tPaulDThomas\n\t\t\n\t\t10.1093/nar/gkw1138\n\t\t27899595\n\t\tPMC5210595\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c56eb57723bebd8667abbc"},"refKey":35},
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{"_key":"60c56ebe7723bebd8667abe8","_id":"references/60c56ebe7723bebd8667abe8","_rev":"_cfFlloS---","tei":"\n\t\n\t\tCoronavirus disease (COVID-19) advice for the public\n\t\t\n\t\t\tSTanaka\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tWorld Health Organization\n\n","document":{"$oid":"60c56ebe7723bebd8667abe7"},"refKey":9},
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{"_key":"60c56eda7723bebd8667ac11","_id":"references/60c56eda7723bebd8667ac11","_rev":"_cfFllo2---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2009-10-3-r25\n\t\t19261174\n\t\tPMC2690996\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\tR25\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tR25. [CrossRef\n\n","document":{"$oid":"60c56eda7723bebd8667ac10"},"refKey":27},
{"_key":"60c56eda7723bebd8667ac12","_id":"references/60c56eda7723bebd8667ac12","_rev":"_cfFllp----","tei":"\n\t\n\t\tDiscovery of functional genomic motifs in viruses with ViReMa–a Virus Recombination Mapper–for analysis of next-generation sequencing data\n\t\t\n\t\t\tAndrewRouth\n\t\t\n\t\t\n\t\t\tJohnEJohnson\n\t\t\n\t\t10.1093/nar/gkt916\n\t\t24137010\n\t\tPMC3902915\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c56eda7723bebd8667ac10"},"refKey":28},
{"_key":"60c56f417723bebd8667ac56","_id":"references/60c56f417723bebd8667ac56","_rev":"_cfFllpK---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLLWang\n\t\t\n\t\t\n\t\t\tMCoon\n\t\t\n\t\t\n\t\t\tTNguyen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tSJLand\n\t\t\n\t\t\n\t\t\tXLu\n\t\t\n\t\t\n\t\t\tDMRuden\n\t\t\n\t\n\t\n\t\tFly\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c56f417723bebd8667ac55"},"refKey":24},
{"_key":"60c56f417723bebd8667ac57","_id":"references/60c56f417723bebd8667ac57","_rev":"_cfFllpW---","tei":"\n\t\n\t\tThe Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes\n\t\t\n\t\t\tToddJTreangen\n\t\t\n\t\t\n\t\t\tBrianDOndov\n\t\t\n\t\t\n\t\t\tSergeyKoren\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\n\t\t10.1186/preaccept-2573980311437212\n\t\t25410596\n\t\tPMC4262987\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t15\n\t\t\t11\n\t\t\t524\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c56f417723bebd8667ac55"},"refKey":26},
{"_key":"60c56f417723bebd8667ac58","_id":"references/60c56f417723bebd8667ac58","_rev":"_cfFllpi---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c56f417723bebd8667ac55"},"refKey":45},
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{"_key":"60c56fed7723bebd8667ad41","_id":"references/60c56fed7723bebd8667ad41","_rev":"_cfFllsW---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 15. College Station: TX: StataCorp LLC\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c56fed7723bebd8667ad40"},"refKey":45},
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{"_key":"60c56ff57723bebd8667ad48","_id":"references/60c56ff57723bebd8667ad48","_rev":"_cfFllsu---","tei":"\n\t\n\t\tImmune epitope database analysis resource (IEDB-AR)\n\t\t\n\t\t\tQZhang\n\t\t\n\t\t\n\t\t\tPWang\n\t\t\n\t\t\n\t\t\tYKim\n\t\t\n\t\t\n\t\t\tPHaste-Andersen\n\t\t\n\t\t\n\t\t\tJBeaver\n\t\t\n\t\t\n\t\t\tPEBourne\n\t\t\n\t\t\n\t\t\tH-HBui\n\t\t\n\t\t\n\t\t\tSBuus\n\t\t\n\t\t\n\t\t\tSFrankild\n\t\t\n\t\t\n\t\t\tJGreenbaum\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tCLundegaard\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t\n\t\t\tJPonomarenko\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\t\n\t\t\tZZhu\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t10.1093/nar/gkn254\n\t\t18515843\n\t\tPMC2447801\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c56ff57723bebd8667ad46"},"refKey":33},
{"_key":"60c56ff57723bebd8667ad49","_id":"references/60c56ff57723bebd8667ad49","_rev":"_cfFlls6---","tei":"\n\t\n\t\tElliPro: a new structure-based tool for the prediction of antibody epitopes\n\t\t\n\t\t\tJuliaPonomarenko\n\t\t\n\t\t\n\t\t\tHuynh-HoaBui\n\t\t\n\t\t\n\t\t\tWeiLi\n\t\t\n\t\t\n\t\t\tNicholasFusseder\n\t\t\n\t\t\n\t\t\tPhilipEBourne\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t10.1186/1471-2105-9-514\n\t\t19055730\n\t\tPMC2607291\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t514\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c56ff57723bebd8667ad46"},"refKey":40},
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{"_key":"60c56ff57723bebd8667ad4c","_id":"references/60c56ff57723bebd8667ad4c","_rev":"_cfFllta---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMarkJamesAbraham\n\t\t\t0000-0001-6363-2521\n\t\t\n\t\t\n\t\t\tTeemuMurtola\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1016/j.softx.2015.06.001\n\t\n\t\n\t\tSoftwareX\n\t\tSoftwareX\n\t\t2352-7110\n\t\t\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c56ff57723bebd8667ad46"},"refKey":69},
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{"_key":"60c56ff57723bebd8667ad50","_id":"references/60c56ff57723bebd8667ad50","_rev":"_cfFlluG---","tei":"\n\t\n\t\tComputational Immunology Meets Bioinformatics: The Use of Prediction Tools for Molecular Binding in the Simulation of the Immune System\n\t\t\n\t\t\tNicolasRapin\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMassimoBernaschi\n\t\t\n\t\t\n\t\t\tFilippoCastiglione\n\t\t\n\t\t10.1371/journal.pone.0009862\n\t\t20419125\n\t\tPMC2855701\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t5\n\t\t\t4\n\t\t\te9862\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c56ff57723bebd8667ad46"},"refKey":78},
{"_key":"60c56ff57723bebd8667ad51","_id":"references/60c56ff57723bebd8667ad51","_rev":"_cfFlluS---","tei":"\n\t\n\t\tProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMWiederstein\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\t10.1093/nar/gkm290\n\t\t17517781\n\t\tPMC1933241\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c56ff57723bebd8667ad46"},"refKey":62},
{"_key":"60c56ff57723bebd8667ad52","_id":"references/60c56ff57723bebd8667ad52","_rev":"_cfFllue---","tei":"\n\t\n\t\tIn Silico Approach for Predicting Toxicity of Peptides and Proteins\n\t\t\n\t\t\tSudheerGupta\n\t\t\n\t\t\n\t\t\tPallaviKapoor\n\t\t\n\t\t\n\t\t\tKumardeepChaudhary\n\t\t\n\t\t\n\t\t\tAnkurGautam\n\t\t\n\t\t\n\t\t\tRahulKumar\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1371/journal.pone.0073957\n\t\t24058508\n\t\tPMC3772798\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t9\n\t\t\te73957\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c56ff57723bebd8667ad46"},"refKey":37},
{"_key":"60c56ff57723bebd8667ad53","_id":"references/60c56ff57723bebd8667ad53","_rev":"_cfFlluq---","tei":"\n\t\n\t\tImproved prediction of MHC II antigen presentation through integration and motif deconvolution of mass spectrometry MHC eluted ligand data\n\t\t\n\t\t\tBReynisson\n\t\t\n\t\t\n\t\t\tCBarra\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t10.1021/acs.jproteome.9b00874\n\t\n\t\n\t\tBioRxiv\n\t\t\n\t\t\t799882\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c56ff57723bebd8667ad46"},"refKey":34},
{"_key":"60c56ff57723bebd8667ad54","_id":"references/60c56ff57723bebd8667ad54","_rev":"_cfFlluy---","tei":"\n\t\n\t\tPredicting population coverage of T-cell epitope-based diagnostics and vaccines\n\t\t\n\t\t\tH.-HBui\n\t\t\n\t\t\n\t\t\tJSidney\n\t\t\n\t\t\n\t\t\tKDinh\n\t\t\n\t\t\n\t\t\tSSouthwood\n\t\t\n\t\t\n\t\t\tMJNewman\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\t10.1186/1471-2105-7-153\n\t\t\n\t\n\tBMC Bioinform. 2006, 7, 153. [CrossRef\n\n","document":{"$oid":"60c56ff57723bebd8667ad46"},"refKey":41},
{"_key":"60c56ff57723bebd8667ad55","_id":"references/60c56ff57723bebd8667ad55","_rev":"_cfFllv----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSCLovell\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\n\tIII\n\n","document":{"$oid":"60c56ff57723bebd8667ad46"},"refKey":60},
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{"_key":"60c570167723bebd8667add6","_id":"references/60c570167723bebd8667add6","_rev":"_cfFllvW---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c570167723bebd8667add5"},"refKey":40},
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{"_key":"60c5702b7723bebd8667addb","_id":"references/60c5702b7723bebd8667addb","_rev":"_cfFllvq---","tei":"\n\t\n\t\tPhylogenetic Analysis Using Parsimony (*and other methods)\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\t\n\t\t\tPaup*\n\t\t\n\t\t\n\t\t\t\n\t\t\tSinauer\n\t\t\tSunderland (MA\n\t\t\n\t\n\n","document":{"$oid":"60c5702b7723bebd8667adda"},"refKey":25},
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{"_key":"60c5723b7723bebd8667af44","_id":"references/60c5723b7723bebd8667af44","_rev":"_cfFll0O---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t17846036\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5723b7723bebd8667af40"},"refKey":27},
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{"_key":"60c573497723bebd8667b082","_id":"references/60c573497723bebd8667b082","_rev":"_cfFll5W---","tei":"\n\t\n\t\tComprehensive integration of single cell data\n\t\t\n\t\t\tTimStuart\n\t\t\t0000-0002-3044-0897\n\t\t\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\t0000-0002-7693-8957\n\t\t\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\t0000-0001-5898-694X\n\t\t\n\t\t\n\t\t\tWilliamMMauck\n\t\t\n\t\t\n\t\t\tMarlonStoeckius\n\t\t\t0000-0002-5658-029X\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\t0000-0003-0772-1647\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/460147\n\t\t\n\t\n\t\n\t\tComprehensive Integration of Single-Cell Data. Cell\n\t\t\n\t\t\t177\n\t\t\t7\n\t\t\te21\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c573497723bebd8667b081"},"refKey":8},
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{"_key":"60c575537723bebd8667b220","_id":"references/60c575537723bebd8667b220","_rev":"_cfFll8e---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1073/pnas.0506580102\n\t\t16199517\n\t\tPMC1239896\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t102\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c575537723bebd8667b21e"},"refKey":98},
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{"_key":"60c5764e7723bebd8667b2f2","_id":"references/60c5764e7723bebd8667b2f2","_rev":"_cfFlm-6---","tei":"\n\t\n\t\tReduced surface: An efficient way to compute molecular surfaces\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t\n\t\t\tJean‐claudeSpehner\n\t\t\n\t\t10.1002/(sici)1097-0282(199603)38:3<305::aid-bip4>3.3.co;2-8\n\t\t8906967\n\t\n\t\n\t\tBiopolymers\n\t\tBiopolymers\n\t\t0006-3525\n\t\t1097-0282\n\t\t\n\t\t\t38\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5764e7723bebd8667b2f0"},"refKey":78},
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{"_key":"60c577277723bebd8667b379","_id":"references/60c577277723bebd8667b379","_rev":"_cfFlmAK---","tei":"\n\t\n\t\tSimple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data\n\t\t\n\t\t\tNicoleMDavis\n\t\t\n\t\t\n\t\t\tDianaMProctor\n\t\t\n\t\t\n\t\t\tSusanPHolmes\n\t\t\n\t\t\n\t\t\tDavidARelman\n\t\t\n\t\t\n\t\t\tBenjaminJCallahan\n\t\t\t0000-0002-8752-117X\n\t\t\n\t\t10.1186/s40168-018-0605-2\n\t\t30558668\n\t\tPMC6298009\n\t\t\n\t\t\n\t\n\t\n\t\tMicrobiome\n\t\tMicrobiome\n\t\t2049-2618\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t226\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c577277723bebd8667b378"},"refKey":17},
{"_key":"60c577427723bebd8667b399","_id":"references/60c577427723bebd8667b399","_rev":"_cfFlmAS---","tei":"\n\t\n\t\tVaccine development against SARS-CoV-2: From virology to vaccine clinical trials\n\t\t\n\t\t\tKKardani\n\t\t\n\t\t\n\t\t\tABolhassani\n\t\t\n\t\n\t\n\t\tCoronaviruses\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c577427723bebd8667b398"},"refKey":27},
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{"_key":"60c577827723bebd8667b41e","_id":"references/60c577827723bebd8667b41e","_rev":"_cfFlmAq---","tei":"\n\t\n\t\tViennarna package 2.0. Algorithms for molecular biology\n\t\t\n\t\t\tRonnyLorenz\n\t\t\n\t\t\n\t\t\tHStephan\n\t\t\n\t\t\n\t\t\tChristianBernhart\n\t\t\n\t\t\n\t\t\tHakimHöner Zu Siederdissen\n\t\t\n\t\t\n\t\t\tChristophTafer\n\t\t\n\t\t\n\t\t\tFlamm\n\t\t\n\t\t\n\t\t\tFPeter\n\t\t\n\t\t\n\t\t\tStadler\n\t\t\n\t\t\n\t\t\tLIvo\n\t\t\n\t\t\n\t\t\tHofacker\n\t\t\n\t\t\n\t\t\t\n\t\t\t6\n\t\t\t26\n\t\t\n\t\n\n","document":{"$oid":"60c577827723bebd8667b41d"},"refKey":17},
{"_key":"60c577827723bebd8667b41f","_id":"references/60c577827723bebd8667b41f","_rev":"_cfFlmA2---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with bwa-mem\n\t\t\n\t\t\tHengLi\n\t\t\n\t\tarXiv:1303.3997\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c577827723bebd8667b41d"},"refKey":16},
{"_key":"60c577f47723bebd8667b469","_id":"references/60c577f47723bebd8667b469","_rev":"_cfFlmBC---","tei":"\n\t\n\t\tFormal verification of piece-wise linear feed-forward neural networks\n\t\t\n\t\t\tREhlers\n\t\t\n\t\n\t\n\t\tATVA. Lecture Notes in Computer Science\n\t\t\n\t\t\t10482\n\t\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c577f47723bebd8667b468"},"refKey":7},
{"_key":"60c577f57723bebd8667b46e","_id":"references/60c577f57723bebd8667b46e","_rev":"_cfFlmBK---","tei":"\n\t\n\t\tDoG Picker and TiltPicker: software tools to facilitate particle selection in single particle electron microscopy\n\t\t\n\t\t\tNRVoss\n\t\t\n\t\t\n\t\t\tCKYoshioka\n\t\t\n\t\t\n\t\t\tMRadermacher\n\t\t\n\t\t\n\t\t\tCSPotter\n\t\t\n\t\t\n\t\t\tBCarragher\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t166\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c577f57723bebd8667b46d"},"refKey":51},
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{"_key":"60c577f57723bebd8667b470","_id":"references/60c577f57723bebd8667b470","_rev":"_cfFlmBi---","tei":"\n\t\n\t\tXMIPP: a new generation of an open-source image processing package for electron microscopy\n\t\t\n\t\t\tCOSorzano\n\t\t\n\t\t\n\t\t\tRMarabini\n\t\t\n\t\t\n\t\t\tJVela ´zquez-Muriel\n\t\t\n\t\t\n\t\t\tJRBilbao-Castro\n\t\t\n\t\t\n\t\t\tSHScheres\n\t\t\n\t\t\n\t\t\tJMCarazo\n\t\t\n\t\t\n\t\t\tAMontano\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t148\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c577f57723bebd8667b46d"},"refKey":46},
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{"_key":"60c578057723bebd8667b480","_id":"references/60c578057723bebd8667b480","_rev":"_cfFlmB2---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c578057723bebd8667b47f"},"refKey":26},
{"_key":"60c578057723bebd8667b481","_id":"references/60c578057723bebd8667b481","_rev":"_cfFlmCC---","tei":"\n\t\n\t\tZCURVE_CoV: a new system to recognize protein coding genes in coronavirus genomes, and its applications in analyzing SARS-CoV genomes\n\t\t\n\t\t\tLing-LingChen\n\t\t\n\t\t\n\t\t\tHong-YuOu\n\t\t\n\t\t\n\t\t\tRenZhang\n\t\t\n\t\t\n\t\t\tChun-TingZhang\n\t\t\n\t\t10.1016/s0006-291x(03)01192-6\n\t\t12859968\n\t\n\t\n\t\tBiochemical and Biophysical Research Communications\n\t\tBiochemical and Biophysical Research Communications\n\t\t0006-291X\n\t\t\n\t\t\t307\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c578057723bebd8667b47f"},"refKey":24},
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{"_key":"60c578bb7723bebd8667b4bb","_id":"references/60c578bb7723bebd8667b4bb","_rev":"_cfFlmCu---","tei":"\n\t\n\t\tFunctional organization of the hippocampal longitudinal axis\n\t\t\n\t\t\tBAStrange\n\t\t\n\t\t\n\t\t\tMPWitter\n\t\t\n\t\t\n\t\t\tESLein\n\t\t\n\t\t\n\t\t\tEIMoser\n\t\t\n\t\n\t\n\t\tNat Rev Neurosci\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c578bb7723bebd8667b4ba"},"refKey":65},
{"_key":"60c578bb7723bebd8667b4bc","_id":"references/60c578bb7723bebd8667b4bc","_rev":"_cfFlmC6---","tei":"\n\t\n\t\tA three-dimensional statistical analysis for CBF activation studies in human brain\n\t\t\n\t\t\tKJWorsley\n\t\t\n\t\t\n\t\t\tACEvans\n\t\t\n\t\t\n\t\t\tSMarrett\n\t\t\n\t\t\n\t\t\tPNeelin\n\t\t\n\t\n\t\n\t\tJ Cereb Blood Flow Metab\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c578bb7723bebd8667b4ba"},"refKey":69},
{"_key":"60c578bb7723bebd8667b4bd","_id":"references/60c578bb7723bebd8667b4bd","_rev":"_cfFlmDG---","tei":"\n\t\n\t\tCortical surface-based analysis: I. Segmentation and surface reconstruction\n\t\t\n\t\t\tAMDale\n\t\t\n\t\t\n\t\t\tBFischl\n\t\t\n\t\t\n\t\t\tMISereno\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c578bb7723bebd8667b4ba"},"refKey":18},
{"_key":"60c578bb7723bebd8667b4be","_id":"references/60c578bb7723bebd8667b4be","_rev":"_cfFlmDO---","tei":"\n\t\n\t\tCortical surface-based analysis: II. Inflation, flattening, and a surface-based coordinate system\n\t\t\n\t\t\tBFischl\n\t\t\n\t\t\n\t\t\tMISereno\n\t\t\n\t\t\n\t\t\tAMDale\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c578bb7723bebd8667b4ba"},"refKey":22},
{"_key":"60c578bb7723bebd8667b4bf","_id":"references/60c578bb7723bebd8667b4bf","_rev":"_cfFlmDa---","tei":"\n\t\n\t\tWhole brain segmentation: automated labeling of neuroanatomical structures in the human brain\n\t\t\n\t\t\tBFischl\n\t\t\n\t\t\n\t\t\tDHSalat\n\t\t\n\t\t\n\t\t\tEBusa\n\t\t\n\t\t\n\t\t\tMAlbert\n\t\t\n\t\t\n\t\t\tMDieterich\n\t\t\n\t\t\n\t\t\tCHaselgrove\n\t\t\n\t\t\n\t\t\tAVan Der Kouwe\n\t\t\n\t\t\n\t\t\tRKilliany\n\t\t\n\t\t\n\t\t\tDKennedy\n\t\t\n\t\t\n\t\t\tSKlaveness\n\t\t\n\t\t\n\t\t\tAMontillo\n\t\t\n\t\t\n\t\t\tNMakris\n\t\t\n\t\t\n\t\t\tBRosen\n\t\t\n\t\t\n\t\t\tAMDale\n\t\t\n\t\n\t\n\t\tNeuron\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c578bb7723bebd8667b4ba"},"refKey":24},
{"_key":"60c578bb7723bebd8667b4c0","_id":"references/60c578bb7723bebd8667b4c0","_rev":"_cfFlmDm---","tei":"\n\t\n\t\tCortical folding patterns and predicting cytoarchitecture\n\t\t\n\t\t\tBFischl\n\t\t\n\t\t\n\t\t\tNRajendran\n\t\t\n\t\t\n\t\t\tEBusa\n\t\t\n\t\t\n\t\t\tJAugustinack\n\t\t\n\t\t\n\t\t\tOHinds\n\t\t\n\t\t\n\t\t\tBTYeo\n\t\t\n\t\t\n\t\t\tHMohlberg\n\t\t\n\t\t\n\t\t\tKAmunts\n\t\t\n\t\t\n\t\t\tKZilles\n\t\t\n\t\n\t\n\t\tCereb Cortex\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c578bb7723bebd8667b4ba"},"refKey":25},
{"_key":"60c578bb7723bebd8667b4c1","_id":"references/60c578bb7723bebd8667b4c1","_rev":"_cfFlmDy---","tei":"\n\t\n\t\tA genetic algorithm for the topology correction of cortical surfaces\n\t\t\n\t\t\tFSegonne\n\t\t\n\t\t\n\t\t\tEGrimson\n\t\t\n\t\t\n\t\t\tBFischl\n\t\t\n\t\n\t\n\t\tInf Process Med Imaging\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c578bb7723bebd8667b4ba"},"refKey":61},
{"_key":"60c578bb7723bebd8667b4c2","_id":"references/60c578bb7723bebd8667b4c2","_rev":"_cfFlmE----","tei":"\n\t\n\t\tAn automated labeling system for subdividing the human cerebral cortex on MRI scans into gyral based regions of interest\n\t\t\n\t\t\tRSDesikan\n\t\t\n\t\t\n\t\t\tFSegonne\n\t\t\n\t\t\n\t\t\tBFischl\n\t\t\n\t\t\n\t\t\tBTQuinn\n\t\t\n\t\t\n\t\t\tBCDickerson\n\t\t\n\t\t\n\t\t\tDBlacker\n\t\t\n\t\t\n\t\t\tRLBuckner\n\t\t\n\t\t\n\t\t\tAMDale\n\t\t\n\t\t\n\t\t\tRPMaguire\n\t\t\n\t\t\n\t\t\tBTHyman\n\t\t\n\t\t\n\t\t\tMSAlbert\n\t\t\n\t\t\n\t\t\tRJKilliany\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c578bb7723bebd8667b4ba"},"refKey":19},
{"_key":"60c578c87723bebd8667b4d4","_id":"references/60c578c87723bebd8667b4d4","_rev":"_cfFlmEG---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\t: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c578c87723bebd8667b4d3"},"refKey":31},
{"_key":"60c578c87723bebd8667b4d5","_id":"references/60c578c87723bebd8667b4d5","_rev":"_cfFlmES---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tQgis Development Team\n\t\t\n\t\t\n\t\n\t\n\t\tQGIS Geographic Information System. Open Source Geospatial Foundation\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c578c87723bebd8667b4d3"},"refKey":32},
{"_key":"60c579107723bebd8667b502","_id":"references/60c579107723bebd8667b502","_rev":"_cfFlmEe---","tei":"\n\t\n\t\tQuantitative online prediction of peptide binding to the major histocompatibility complex\n\t\t\n\t\t\tChannaKHattotuwagama\n\t\t\n\t\t\n\t\t\tPingpingGuan\n\t\t\n\t\t\n\t\t\tIriniADoytchinova\n\t\t\n\t\t\n\t\t\tChristiannaZygouri\n\t\t\n\t\t\n\t\t\tDarrenRFlower\n\t\t\n\t\t10.1016/s1093-3263(03)00160-8\n\t\t14629978\n\t\n\t\n\t\tJournal of Molecular Graphics and Modelling\n\t\tJournal of Molecular Graphics and Modelling\n\t\t1093-3263\n\t\t\n\t\t\t22\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":24},
{"_key":"60c579107723bebd8667b503","_id":"references/60c579107723bebd8667b503","_rev":"_cfFlmEq---","tei":"\n\t\n\t\tMHC Ligands and Peptide Motifs\n\t\t\n\t\t\tHans-GeorgRammensee\n\t\t\n\t\t\n\t\t\tJuttaBachmann\n\t\t\n\t\t\n\t\t\tStefanStevanović\n\t\t\n\t\t10.1007/978-3-662-22162-4\n\t\n\t\n\t\tImmunogenetics\n\t\t1431-0414\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":25},
{"_key":"60c579107723bebd8667b504","_id":"references/60c579107723bebd8667b504","_rev":"_cfFlmEy---","tei":"\n\t\n\t\tGapped sequence alignment using artificial neural networks: application to the MHC class I system\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1093/bioinformatics/btv639\n\t\t26515819\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":30},
{"_key":"60c579107723bebd8667b505","_id":"references/60c579107723bebd8667b505","_rev":"_cfFlmF----","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":13},
{"_key":"60c579107723bebd8667b506","_id":"references/60c579107723bebd8667b506","_rev":"_cfFlmFK---","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSSaha\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":14},
{"_key":"60c579107723bebd8667b507","_id":"references/60c579107723bebd8667b507","_rev":"_cfFlmFW---","tei":"\n\t\n\t\tLarge-scale validation of methods for cytotoxic T-lymphocyte epitope prediction\n\t\t\n\t\t\tMetteVLarsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tSorenBuus\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1186/1471-2105-8-424\n\t\t17973982\n\t\tPMC2194739\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t424\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":32},
{"_key":"60c579107723bebd8667b508","_id":"references/60c579107723bebd8667b508","_rev":"_cfFlmFi---","tei":"\n\t\n\t\tBcePred: prediction of continuous B-cell epitopes in antigenic sequences using physico-chemical properties\n\t\t\n\t\t\tSSaha\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\n\t\n\t\tInternational Conference on Artificial Immune Systems\n\t\t\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":15},
{"_key":"60c579107723bebd8667b509","_id":"references/60c579107723bebd8667b509","_rev":"_cfFlmFq---","tei":"\n\t\n\t\tElliPro: a new structure-based tool for the prediction of antibody epitopes\n\t\t\n\t\t\tJPonomarenko\n\t\t\n\t\t\n\t\t\tH.-HBui\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tNFusseder\n\t\t\n\t\t\n\t\t\tPEBourne\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\n\t\n\t\tBMC bioinformatics\n\t\t\n\t\t\t9\n\t\t\t514\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":22},
{"_key":"60c579107723bebd8667b50a","_id":"references/60c579107723bebd8667b50a","_rev":"_cfFlmF2---","tei":"\n\t\n\t\tReliable B Cell Epitope Predictions: Impacts of Method Development and Improved Benchmarking\n\t\t\n\t\t\tJensVindahlKringelum\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1371/journal.pcbi.1002829\n\t\t23300419\n\t\tPMC3531324\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t8\n\t\t\t12\n\t\t\te1002829\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":23},
{"_key":"60c579107723bebd8667b50b","_id":"references/60c579107723bebd8667b50b","_rev":"_cfFlmGC---","tei":"\n\t\n\t\tMHC-NP: Predicting peptides naturally processed by the MHC\n\t\t\n\t\t\tSébastienGiguère\n\t\t\n\t\t\n\t\t\tAlexandreDrouin\n\t\t\n\t\t\n\t\t\tAlexandreLacoste\n\t\t\n\t\t\n\t\t\tMarioMarchand\n\t\t\n\t\t\n\t\t\tJacquesCorbeil\n\t\t\n\t\t\n\t\t\tFrançoisLaviolette\n\t\t\n\t\t10.1016/j.jim.2013.10.003\n\t\t24144535\n\t\n\t\n\t\tJournal of Immunological Methods\n\t\tJournal of Immunological Methods\n\t\t0022-1759\n\t\t\n\t\t\t400-401\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":31},
{"_key":"60c579107723bebd8667b50c","_id":"references/60c579107723bebd8667b50c","_rev":"_cfFlmGK---","tei":"\n\t\n\t\tPatchDock and SymmDock: servers for rigid and symmetric docking\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tYInbar\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tHJWolfson\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c579107723bebd8667b501"},"refKey":71},
{"_key":"60c579337723bebd8667b53d","_id":"references/60c579337723bebd8667b53d","_rev":"_cfFlmGW---","tei":"\n\t\n\t\tOOPS! (OntOlogy Pitfall Scanner!): an on-line tool for ontology evaluation\n\t\t\n\t\t\tMPoveda-Villalón\n\t\t\n\t\t\n\t\t\tAGómez-Pérez\n\t\t\n\t\t\n\t\t\tMCSuárez-Figueroa\n\t\t\n\t\n\t\n\t\tIJSWIS\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c579337723bebd8667b53c"},"refKey":16},
{"_key":"60c579337723bebd8667b53e","_id":"references/60c579337723bebd8667b53e","_rev":"_cfFlmGi---","tei":"\n\t\n\t\tOntobee: A linked ontology data server to support ontology term dereferencing, linkage, query and integration\n\t\t\n\t\t\tEdisonOng\n\t\t\n\t\t\n\t\t\tZuoshuangXiang\n\t\t\n\t\t\n\t\t\tBinZhao\n\t\t\n\t\t\n\t\t\tYueLiu\n\t\t\n\t\t\n\t\t\tYuLin\n\t\t\n\t\t\n\t\t\tJieZheng\n\t\t\n\t\t\n\t\t\tChrisMungall\n\t\t\n\t\t\n\t\t\tMélanieCourtot\n\t\t\n\t\t\n\t\t\tAlanRuttenberg\n\t\t\n\t\t\n\t\t\tYongqunHe\n\t\t\n\t\t10.1093/nar/gkw918\n\t\t27733503\n\t\tPMC5210626\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c579337723bebd8667b53c"},"refKey":11},
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{"_key":"60c579337723bebd8667b541","_id":"references/60c579337723bebd8667b541","_rev":"_cfFlmHC---","tei":"\n\t\n\t\tThe Live OWL Documentation Environment: A Tool for the Automatic Generation of Ontology Documentation\n\t\t\n\t\t\tSilvioPeroni\n\t\t\n\t\t\n\t\t\tDavidShotton\n\t\t\n\t\t\n\t\t\tFabioVitali\n\t\t\n\t\t10.1007/978-3-642-33876-2_35\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tATeije\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t7603\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c579337723bebd8667b53c"},"refKey":14},
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{"_key":"60c579977723bebd8667b625","_id":"references/60c579977723bebd8667b625","_rev":"_cfFlmJK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c579977723bebd8667b624"},"refKey":2},
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{"_key":"60c579977723bebd8667b628","_id":"references/60c579977723bebd8667b628","_rev":"_cfFlmJq---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\t\n\t\t\tAVPyshkin\n\t\t\n\t\t\n\t\t\tAVSirotkin\n\t\t\n\t\t\n\t\t\tNVyahhi\n\t\t\n\t\t\n\t\t\tGTesler\n\t\t\n\t\t\n\t\t\tMAAlekseyev\n\t\t\n\t\t\n\t\t\tPAPevzner\n\t\t\n\t\n\t\n\t\tJ. Comput. Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c579977723bebd8667b624"},"refKey":4},
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{"_key":"60c57af87723bebd8667b738","_id":"references/60c57af87723bebd8667b738","_rev":"_cfFlmN2---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c57af87723bebd8667b737"},"refKey":13},
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{"_key":"60c57c267723bebd8667b844","_id":"references/60c57c267723bebd8667b844","_rev":"_cfFlmPu---","tei":"\n\t\n\t\tFast mapping of short sequences with mismatches, insertions and deletions using index structures\n\t\t\n\t\t\tSHoffmann\n\t\t\n\t\t\n\t\t\tCOtto\n\t\t\n\t\t\n\t\t\tSKurtz\n\t\t\n\t\t\n\t\t\tCMSharma\n\t\t\n\t\t\n\t\t\tPKhaitovich\n\t\t\n\t\t\n\t\t\tJVogel\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t5\n\t\t\te1000502\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57c267723bebd8667b83f"},"refKey":22},
{"_key":"60c57c267723bebd8667b845","_id":"references/60c57c267723bebd8667b845","_rev":"_cfFlmP6---","tei":"\n\t\n\t\tLacking alignments? The next-generation sequencing mapper segemehl revisited\n\t\t\n\t\t\tChristianOtto\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t\n\t\t\tSteveHoffmann\n\t\t\n\t\t10.1093/bioinformatics/btu146\n\t\t24626854\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c57c267723bebd8667b83f"},"refKey":23},
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{"_key":"60c57c357723bebd8667b85e","_id":"references/60c57c357723bebd8667b85e","_rev":"_cfFlmRK---","tei":"\n\t\n\t\tContext-aware mobile health monitoring: Evaluation of different pattern recognition methods for classification of physical activity\n\t\t\n\t\t\tLucianaCJatoba\n\t\t\n\t\t\n\t\t\tUlrichGrossmann\n\t\t\n\t\t\n\t\t\tChistopheKunze\n\t\t\n\t\t\n\t\t\tJorgOttenbacher\n\t\t\n\t\t\n\t\t\tWilhelmStork\n\t\t\n\t\t10.1109/iembs.2008.4650398\n\t\t19163901\n\t\tIEMBS'08\n\t\n\t\n\t\t2008 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57c357723bebd8667b858"},"refKey":19},
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{"_key":"60c57c357723bebd8667b860","_id":"references/60c57c357723bebd8667b860","_rev":"_cfFlmRe---","tei":"\n\t\n\t\tA context-aware monitoring architecture for supporting system adaptation and reconfiguration\n\t\t\n\t\t\tOCabrera\n\t\t\n\t\t10.5281/zenodo.4482144\n\t\t\n\t\n\t\n\t\tSoftw Code Ontol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57c357723bebd8667b858"},"refKey":7},
{"_key":"60c57c357723bebd8667b861","_id":"references/60c57c357723bebd8667b861","_rev":"_cfFlmRq---","tei":"\n\t\n\t\tA survey on context-aware systems\n\t\t\n\t\t\tMatthiasBaldauf\n\t\t\n\t\t\n\t\t\tSchahramDustdar\n\t\t\n\t\t\n\t\t\tFlorianRosenberg\n\t\t\n\t\t10.1504/ijahuc.2007.014070\n\t\t\n\t\n\t\n\t\tInternational Journal of Ad Hoc and Ubiquitous Computing\n\t\tIJAHUC\n\t\t1743-8225\n\t\t1743-8233\n\t\t\n\t\t\t2\n\t\t\t4\n\t\t\t263\n\t\t\t\n\t\t\tInderscience Publishers\n\t\t\n\t\n\n","document":{"$oid":"60c57c357723bebd8667b858"},"refKey":3},
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{"_key":"60c57e567723bebd8667ba60","_id":"references/60c57e567723bebd8667ba60","_rev":"_cfFlmXu---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57e567723bebd8667ba5f"},"refKey":8},
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{"_key":"60c57e567723bebd8667ba63","_id":"references/60c57e567723bebd8667ba63","_rev":"_cfFlmYW---","tei":"\n\t\n\t\tMetascape provides a biologist-oriented resource for the analysis of systems-level datasets\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tLPache\n\t\t\n\t\t\n\t\t\tMChang\n\t\t\n\t\t\n\t\t\tAHKhodabakhshi\n\t\t\n\t\t\n\t\t\tOTanaseichuk\n\t\t\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t1523\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57e567723bebd8667ba5f"},"refKey":14},
{"_key":"60c57e567723bebd8667ba64","_id":"references/60c57e567723bebd8667ba64","_rev":"_cfFlmYi---","tei":"\n\t\n\t\tSTRING v9.1: protein-protein interaction networks, with increased coverage and integration\n\t\t\n\t\t\tAFranceschini\n\t\t\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\t\n\t\t\tSFrankild\n\t\t\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\t\n\t\t\tMSimonovic\n\t\t\n\t\t\n\t\t\tARoth\n\t\t\n\t\t\n\t\t\tJLin\n\t\t\n\t\t\n\t\t\tPMinguez\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t\n\t\t\tCVon Mering\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57e567723bebd8667ba5f"},"refKey":11},
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{"_key":"60c57eaf7723bebd8667bb37","_id":"references/60c57eaf7723bebd8667bb37","_rev":"_cfFlmZK---","tei":"\n\t\n\t\tReporting guidelines for simulation-based research in social sciences\n\t\t\n\t\t\tHRahmandada\n\t\t\n\t\t\n\t\t\tJDSterman\n\t\t\n\t\t10.1002/sdr\n\t\tdoi: 10.1002/ sdr\n\t\n\t\n\t\tSystem Dynamics Review\n\t\t\n\t\t\t28\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57eaf7723bebd8667bb35"},"refKey":18},
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{"_key":"60c57f007723bebd8667bb64","_id":"references/60c57f007723bebd8667bb64","_rev":"_cfFlmZe---","tei":"\n\t\n\t\tA short history of SHELX\n\t\t\n\t\t\tGMSheldrick\n\t\t\n\t\n\t\n\t\tActa Crystallogr. A\n\t\t\n\t\t\t64\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57f007723bebd8667bb63"},"refKey":45},
{"_key":"60c57f007723bebd8667bb65","_id":"references/60c57f007723bebd8667bb65","_rev":"_cfFlmZq---","tei":"\n\t\n\t\tA graphical user interface to theCCP4 program suite\n\t\t\n\t\t\tElizabethPotterton\n\t\t\n\t\t\n\t\t\tPeterBriggs\n\t\t\n\t\t\n\t\t\tMariaTurkenburg\n\t\t\n\t\t\n\t\t\tEleanorDodson\n\t\t\n\t\t10.1107/s0907444903008126\n\t\t12832755\n\t\tark:/67375/WNG-CM2L4985-P\n\t\tFB14E7ADEA511DA4BE211DEE404EE3AB48937269\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t59\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c57f007723bebd8667bb63"},"refKey":47},
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{"_key":"60c57f407723bebd8667bbc0","_id":"references/60c57f407723bebd8667bbc0","_rev":"_cfFlmaC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tStataMpte\n\t\t\n\t\t16.0\n\t\t\n\t\t\t\n\t\t\tStataCorp\n\t\t\tCollege Station, TX\n\t\t\n\t\n\n","document":{"$oid":"60c57f407723bebd8667bbbf"},"refKey":34},
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{"_key":"60c57f957723bebd8667bbea","_id":"references/60c57f957723bebd8667bbea","_rev":"_cfFlmaW---","tei":"\n\t\n\t\tMaximum entropy modeling of species geographic distributions\n\t\t\n\t\t\tSJPhillips\n\t\t\n\t\t\n\t\t\tRPAnderson\n\t\t\n\t\t\n\t\t\tRESchapire\n\t\t\n\t\n\t\n\t\tEcol Modell\n\t\t\n\t\t\t190\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57f957723bebd8667bbe9"},"refKey":28},
{"_key":"60c57f957723bebd8667bbeb","_id":"references/60c57f957723bebd8667bbeb","_rev":"_cfFlmai---","tei":"\n\t\n\t\tENM eval: an R package for conducting spatially independent evaluations and estimating optimal model complexity for Maxent ecological niche models\n\t\t\n\t\t\tRMuscarella\n\t\t\n\t\t\n\t\t\tPJGalante\n\t\t\n\t\t\n\t\t\tMSoley-Guardia\n\t\t\n\t\t\n\t\t\tRABoria\n\t\t\n\t\t\n\t\t\tJMKass\n\t\t\n\t\t\n\t\t\tMUriarte\n\t\t\n\t\t\n\t\t\tRPAnderson\n\t\t\n\t\n\t\n\t\tMethods Ecol Evol\n\t\t\n\t\t\t5\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57f957723bebd8667bbe9"},"refKey":25},
{"_key":"60c57fd07723bebd8667bc15","_id":"references/60c57fd07723bebd8667bc15","_rev":"_cfFlmau---","tei":"\n\t\n\t\tClinGen Pathogenicity Calculator: a configurable system for assessing pathogenicity of genetic variants\n\t\t\n\t\t\tRonakYPatel\n\t\t\n\t\t\n\t\t\tNeethuShah\n\t\t\n\t\t\n\t\t\tAndrewRJackson\n\t\t\n\t\t\n\t\t\tRajarshiGhosh\n\t\t\n\t\t\n\t\t\tPiotrPawliczek\n\t\t\n\t\t\n\t\t\tSameerPaithankar\n\t\t\n\t\t\n\t\t\tAaronBaker\n\t\t\n\t\t\n\t\t\tKevinRiehle\n\t\t\n\t\t\n\t\t\tHailinChen\n\t\t\n\t\t\n\t\t\tSofiaMilosavljevic\n\t\t\n\t\t\n\t\t\tChrisBizon\n\t\t\n\t\t\n\t\t\tShawnRynearson\n\t\t\n\t\t\n\t\t\tTristanNelson\n\t\t\n\t\t\n\t\t\tGailPJarvik\n\t\t\n\t\t\n\t\t\tHeidiLRehm\n\t\t\n\t\t\n\t\t\tStevenMHarrison\n\t\t\n\t\t\n\t\t\tDanielleAzzariti\n\t\t\n\t\t\n\t\t\tBradfordPowell\n\t\t\n\t\t\n\t\t\tLarryBabb\n\t\t\n\t\t\n\t\t\tSharonEPlon\n\t\t\n\t\t\n\t\t\tAleksandarMilosavljevic\n\t\t\n\t\t10.1186/s13073-016-0391-z\n\t\t28081714\n\t\tPMC5228115\n\t\n\t\n\t\tGenome Medicine\n\t\tGenome Med\n\t\t1756-994X\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c57fd07723bebd8667bc14"},"refKey":101},
{"_key":"60c57feb7723bebd8667bc30","_id":"references/60c57feb7723bebd8667bc30","_rev":"_cfFlma6---","tei":"\n\t\n\t\tSize-Distribution Analysis of Macromolecules by Sedimentation Velocity Ultracentrifugation and Lamm Equation Modeling\n\t\t\n\t\t\tPSchuck\n\t\t\n\t\n\t\n\t\tBiophys. J\n\t\t\n\t\t\t78\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 10692345\n\n","document":{"$oid":"60c57feb7723bebd8667bc2f"},"refKey":29},
{"_key":"60c57feb7723bebd8667bc31","_id":"references/60c57feb7723bebd8667bc31","_rev":"_cfFlmbG---","tei":"\n\t\n\t\tSedimentation equilibrium analysis of protein interactions with global implicit mass conservation constraints and systematic noise decomposition\n\t\t\n\t\t\tJenniferVistica\n\t\t\n\t\t\n\t\t\tJulieDam\n\t\t\n\t\t\n\t\t\tAndreaBalbo\n\t\t\n\t\t\n\t\t\tEmineYikilmaz\n\t\t\n\t\t\n\t\t\tRoyAMariuzza\n\t\t\n\t\t\n\t\t\tTraceyARouault\n\t\t\n\t\t\n\t\t\tPeterSchuck\n\t\t\n\t\t10.1016/j.ab.2003.12.014\n\t\t15003564\n\t\t\n\t\n\t\n\t\tAnalytical Biochemistry\n\t\tAnalytical Biochemistry\n\t\t0003-2697\n\t\t\n\t\t\t326\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed: 15003564\n\n","document":{"$oid":"60c57feb7723bebd8667bc2f"},"refKey":31},
{"_key":"60c57feb7723bebd8667bc32","_id":"references/60c57feb7723bebd8667bc32","_rev":"_cfFlmbO---","tei":"\n\t\n\t\tPROCHECK: a program to check the sterochemical quality of protein structures\n\t\t\n\t\t\tRLaskowski\n\t\t\n\t\t\n\t\t\tMMacarthur\n\t\t\n\t\t\n\t\t\tDMoss\n\t\t\n\t\t\n\t\t\tJThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c57feb7723bebd8667bc2f"},"refKey":37},
{"_key":"60c57feb7723bebd8667bc33","_id":"references/60c57feb7723bebd8667bc33","_rev":"_cfFlmba---","tei":"\n\t\n\t\tThe CCP4 Suite: Programs for Protein Crystallography\n\t\n\t\n\t\tActa Crystallographica D\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tCCP4\n\t\t\n\t\n\n","document":{"$oid":"60c57feb7723bebd8667bc2f"},"refKey":34},
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{"_key":"60c5811c7723bebd8667bd8e","_id":"references/60c5811c7723bebd8667bd8e","_rev":"_cfFlmhG---","tei":"\n\t\n\t\tjModelTest: phylogenetic model averaging\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5811c7723bebd8667bd8d"},"refKey":32},
{"_key":"60c5811c7723bebd8667bd8f","_id":"references/60c5811c7723bebd8667bd8f","_rev":"_cfFlmhW---","tei":"\n\t\n\t\tMEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5811c7723bebd8667bd8d"},"refKey":36},
{"_key":"60c581447723bebd8667bda0","_id":"references/60c581447723bebd8667bda0","_rev":"_cfFlmhi---","tei":"\n\t\n\t\tRDKit: Open-Source Cheminformatics\n\t\t\n\t\t\tGLandrum\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c581447723bebd8667bd9f"},"refKey":38},
{"_key":"60c581447723bebd8667bda1","_id":"references/60c581447723bebd8667bda1","_rev":"_cfFlmhy---","tei":"\n\t\n\t\t\n\t\t\tIWallach\n\t\t\n\t\t\n\t\t\tMDzamba\n\t\t\n\t\t\n\t\t\tAHeifets\n\t\t\n\t\t\n\t\t\tAtomnet\n\t\t\n\t\tarXiv:1510.02855\n\t\tA Deep Convolutional Neural Network for Bioactivity Prediction in Structurebased Drug Discovery. arXiv 2015\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c581447723bebd8667bd9f"},"refKey":34},
{"_key":"60c581447723bebd8667bda2","_id":"references/60c581447723bebd8667bda2","_rev":"_cfFlmi----","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c581447723bebd8667bd9f"},"refKey":37},
{"_key":"60c581827723bebd8667bdfd","_id":"references/60c581827723bebd8667bdfd","_rev":"_cfFlmiK---","tei":"\n\t\n\t\tnCoV-2019 novel coronavirus RAMPART runtime instructions\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c581827723bebd8667bdfc"},"refKey":19},
{"_key":"60c581907723bebd8667be0f","_id":"references/60c581907723bebd8667be0f","_rev":"_cfFlmiW---","tei":"\n\t\n\t\tIBM SPSS statistics for windows, Version 26.0. Armonk, NY: IBM Corp\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c581907723bebd8667be0e"},"refKey":28},
{"_key":"60c581ac7723bebd8667be1a","_id":"references/60c581ac7723bebd8667be1a","_rev":"_cfFlmim---","tei":"\n\t\n\t\tNetMHCpan-4.0: improved peptideÀ MHC class I interaction predictions integrating eluted ligand and peptide binding affinity data\n\t\t\n\t\t\tJVanessa\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tJ. Immunol\n\t\t\n\t\t\t199\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c581ac7723bebd8667be19"},"refKey":47},
{"_key":"60c581bf7723bebd8667be25","_id":"references/60c581bf7723bebd8667be25","_rev":"_cfFlmiy---","tei":"\n\t\n\t\tBioinformatics Resources and Tools for Conformational B-Cell Epitope Prediction\n\t\t\n\t\t\tPingpingSun\n\t\t\n\t\t\n\t\t\tHaixuJu\n\t\t\n\t\t\n\t\t\tZhenbangLiu\n\t\t\n\t\t\n\t\t\tQiaoNing\n\t\t\n\t\t\n\t\t\tJianZhang\n\t\t\n\t\t\n\t\t\tXiaoweiZhao\n\t\t\n\t\t\n\t\t\tYanxinHuang\n\t\t\n\t\t\n\t\t\tZhiqiangMa\n\t\t\n\t\t\n\t\t\tYuxinLi\n\t\t\n\t\t10.1155/2013/943636\n\t\t23970944\n\t\tPMC3736542\n\t\t\n\t\t\n\t\n\t\n\t\tComputational and Mathematical Methods in Medicine\n\t\tComputational and Mathematical Methods in Medicine\n\t\t1748-670X\n\t\t1748-6718\n\t\t\n\t\t\t2013\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c581bf7723bebd8667be24"},"refKey":31},
{"_key":"60c581c07723bebd8667be26","_id":"references/60c581c07723bebd8667be26","_rev":"_cfFlmj----","tei":"\n\t\n\t\tAllergenFP: allergenicity prediction by descriptor fingerprints\n\t\t\n\t\t\tIDimitrov\n\t\t\n\t\t\n\t\t\tLNaneva\n\t\t\n\t\t\n\t\t\tIDoytchinova\n\t\t\n\t\t\n\t\t\tIBangov\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c581bf7723bebd8667be24"},"refKey":36},
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{"_key":"60c581c07723bebd8667be28","_id":"references/60c581c07723bebd8667be28","_rev":"_cfFlmjW---","tei":"\n\t\n\t\tVaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines\n\t\t\n\t\t\tIADoytchinova\n\t\t\n\t\t\n\t\t\tDRFlower\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c581bf7723bebd8667be24"},"refKey":22},
{"_key":"60c581c07723bebd8667be29","_id":"references/60c581c07723bebd8667be29","_rev":"_cfFlmji---","tei":"\n\t\n\t\tAllerTOP - a server for in silico prediction of allergens\n\t\t\n\t\t\tIvanDimitrov\n\t\t\n\t\t\n\t\t\tDarrenRFlower\n\t\t\n\t\t\n\t\t\tIriniDoytchinova\n\t\t\n\t\t10.1186/1471-2105-14-s6-s4\n\t\t23735058\n\t\tPMC3633022\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t14\n\t\t\tSuppl 6\n\t\t\tS4\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c581bf7723bebd8667be24"},"refKey":23},
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{"_key":"60c581c07723bebd8667be2b","_id":"references/60c581c07723bebd8667be2b","_rev":"_cfFlmj2---","tei":"\n\t\n\t\tScalable web services for the PSIPRED Protein Analysis Workbench\n\t\t\n\t\t\tDWBuchan\n\t\t\n\t\t\n\t\t\tFMinneci\n\t\t\n\t\t\n\t\t\tTCNugent\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c581bf7723bebd8667be24"},"refKey":20},
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{"_key":"60c581c07723bebd8667be2d","_id":"references/60c581c07723bebd8667be2d","_rev":"_cfFlmkO---","tei":"\n\t\n\t\tPredicting linear B‐cell epitopes using string kernels\n\t\t\n\t\t\tYasserEl‐manzalawy\n\t\t\n\t\t\n\t\t\tDrenaDobbs\n\t\t\n\t\t\n\t\t\tVasantHonavar\n\t\t\n\t\t10.1002/jmr.893\n\t\t18496882\n\t\tPMC2683948\n\t\tark:/67375/WNG-WGM67G2V-3\n\t\t6483283356B180D4365629B79073ABBEDE5C41A3\n\t\t\n\t\n\t\n\t\tJournal of Molecular Recognition\n\t\tJ. Mol. Recognit.\n\t\t0952-3499\n\t\t1099-1352\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c581bf7723bebd8667be24"},"refKey":25},
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{"_key":"60c5825a7723bebd8667bf08","_id":"references/60c5825a7723bebd8667bf08","_rev":"_cfFlmpS---","tei":"\n\t\n\t\tThe Nordic Cochrane Centre\n\t\t\n\t\t\t)Revman\n\t\t\n\t\t\n\t\t\tRM\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe Cochrane Collaboration\n\t\t\tCopenhagen\n\t\t\n\t\n\n","document":{"$oid":"60c5825a7723bebd8667bf06"},"refKey":65},
{"_key":"60c582957723bebd8667bf39","_id":"references/60c582957723bebd8667bf39","_rev":"_cfFlmpa---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c582957723bebd8667bf38"},"refKey":55},
{"_key":"60c582957723bebd8667bf3a","_id":"references/60c582957723bebd8667bf3a","_rev":"_cfFlmpm---","tei":"\n\t\n\t\tfeatureCounts: an efficient general purpose program for assigning sequence reads to genomic features\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\t10.1093/bioinformatics/btt656\n\t\t24227677\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c582957723bebd8667bf38"},"refKey":47},
{"_key":"60c582957723bebd8667bf3b","_id":"references/60c582957723bebd8667bf3b","_rev":"_cfFlmpy---","tei":"\n\t\n\t\tm6aViewer: software for the detection, analysis, and visualization of N6-methyladenosine peaks from m6A-seq/ME-RIP sequencing data\n\t\t\n\t\t\tAgneAntanaviciute\n\t\t\n\t\t\n\t\t\tBelindaBaquero-Perez\n\t\t\n\t\t\n\t\t\tChristopherMWatson\n\t\t\n\t\t\n\t\t\tSallyMHarrison\n\t\t\n\t\t\n\t\t\tCarolinaLascelles\n\t\t\n\t\t\n\t\t\tLauraCrinnion\n\t\t\n\t\t\n\t\t\tAlexanderFMarkham\n\t\t\n\t\t\n\t\t\tDavidTBonthron\n\t\t\n\t\t\n\t\t\tAdrianWhitehouse\n\t\t\n\t\t\n\t\t\tIanMCarr\n\t\t\n\t\t10.1261/rna.058206.116\n\t\t28724534\n\t\tPMC5602108\n\t\t\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t1469-9001\n\t\t\n\t\t\t23\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c582957723bebd8667bf38"},"refKey":5},
{"_key":"60c582957723bebd8667bf3c","_id":"references/60c582957723bebd8667bf3c","_rev":"_cfFlmq----","tei":"\n\t\n\t\tCASH: a constructing comprehensive splice site method for detecting alternative splicing events\n\t\t\n\t\t\tWWu\n\t\t\n\t\t28387786\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c582957723bebd8667bf38"},"refKey":81},
{"_key":"60c582957723bebd8667bf3d","_id":"references/60c582957723bebd8667bf3d","_rev":"_cfFlmqK---","tei":"\n\t\n\t\tIntegrative genomics viewer\n\t\t\n\t\t\tJamesTRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdóttir\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMitchellGuttman\n\t\t\n\t\t\n\t\t\tEricSLander\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t10.1038/nbt.1754\n\t\t21221095\n\t\tPMC3346182\n\t\t\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c582957723bebd8667bf38"},"refKey":70},
{"_key":"60c582957723bebd8667bf3e","_id":"references/60c582957723bebd8667bf3e","_rev":"_cfFlmqS---","tei":"\n\t\n\t\tclusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tLi-GenWang\n\t\t\n\t\t\n\t\t\tYanyanHan\n\t\t\n\t\t\n\t\t\tQing-YuHe\n\t\t\n\t\t10.1089/omi.2011.0118\n\t\t22455463\n\t\tPMC3339379\n\t\t\n\t\t\n\t\n\t\n\t\tOMICS: A Journal of Integrative Biology\n\t\tOMICS: A Journal of Integrative Biology\n\t\t1536-2310\n\t\t1557-8100\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c582957723bebd8667bf38"},"refKey":88},
{"_key":"60c582957723bebd8667bf3f","_id":"references/60c582957723bebd8667bf3f","_rev":"_cfFlmqe---","tei":"\n\t\n\t\tThe UCSC Table Browser data retrieval tool\n\t\t\n\t\t\tDKarolchik\n\t\t\n\t\t10.1093/nar/gkh103\n\t\t14681465\n\t\tPMC308837\n\t\tark:/67375/HXZ-3PZHD6T2-3\n\t\t6F638BE7D847AC0844CCB22146FA13ADAAB83AA8\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t90001\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c582957723bebd8667bf38"},"refKey":39},
{"_key":"60c582957723bebd8667bf40","_id":"references/60c582957723bebd8667bf40","_rev":"_cfFlmqq---","tei":"\n\t\n\t\tThe Human Genome Browser at UCSC\n\t\t\n\t\t\tWJKent\n\t\t\n\t\t\n\t\t\tCWSugnet\n\t\t\n\t\t\n\t\t\tTSFurey\n\t\t\n\t\t\n\t\t\tKMRoskin\n\t\t\n\t\t\n\t\t\tTHPringle\n\t\t\n\t\t\n\t\t\tAMZahler\n\t\t\n\t\t\n\t\t\tADHaussler\n\t\t\n\t\t10.1101/gr.229102\n\t\t12045153\n\t\tPMC186604\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c582957723bebd8667bf38"},"refKey":41},
{"_key":"60c582957723bebd8667bf41","_id":"references/60c582957723bebd8667bf41","_rev":"_cfFlmq2---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\t1000 Genome Project Data Processing Subgroup\n\n","document":{"$oid":"60c582957723bebd8667bf38"},"refKey":45},
{"_key":"60c582957723bebd8667bf42","_id":"references/60c582957723bebd8667bf42","_rev":"_cfFlmrC---","tei":"\n\t\n\t\tDetecting differential usage of exons from RNA-seq data\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t\n\t\t\tAReyes\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t10.1101/gr.133744.111\n\t\t22722343\n\t\tPMC3460195\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t22\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c582957723bebd8667bf38"},"refKey":3},
{"_key":"60c582c77723bebd8667bf7e","_id":"references/60c582c77723bebd8667bf7e","_rev":"_cfFlmrK---","tei":"\n\t\n\t\tMetaboAnalystR 3.0: toward an optimized workflow for global metabolomics\n\t\t\n\t\t\tZPang\n\t\t\n\t\t\n\t\t\tJChong\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tJXia\n\t\t\n\t\t10.3390/metabo10050186\n\t\t\n\t\n\t\n\t\tMetabolites\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c582c77723bebd8667bf7d"},"refKey":31},
{"_key":"60c582ed7723bebd8667bf9b","_id":"references/60c582ed7723bebd8667bf9b","_rev":"_cfFlmrW---","tei":"\n\t\n\t\tAVCpred: an integrated web server for prediction and design of antiviral compounds\n\t\t\n\t\t\tAbidQureshi\n\t\t\n\t\t\n\t\t\tGazaldeepKaur\n\t\t\n\t\t\n\t\t\tManojKumar\n\t\t\n\t\t10.1111/cbdd.12834\n\t\t27490990\n\t\n\t\n\t\tChemical Biology & Drug Design\n\t\tChem Biol Drug Des\n\t\t1747-0277\n\t\t\n\t\t\t89\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c582ed7723bebd8667bf9a"},"refKey":52},
{"_key":"60c582ed7723bebd8667bf9c","_id":"references/60c582ed7723bebd8667bf9c","_rev":"_cfFlmri---","tei":"\n\t\n\t\tAVPpred: collection and prediction of highly effective antiviral peptides\n\t\t\n\t\t\tNishantThakur\n\t\t\n\t\t\n\t\t\tAbidQureshi\n\t\t\n\t\t\n\t\t\tManojKumar\n\t\t\n\t\t10.1093/nar/gks450\n\t\t22638580\n\t\tPMC3394244\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c582ed7723bebd8667bf9a"},"refKey":54},
{"_key":"60c582ed7723bebd8667bf9d","_id":"references/60c582ed7723bebd8667bf9d","_rev":"_cfFlmru---","tei":"\n\t\n\t\t\n\t\t\tSCleemput\n\t\t\n\t\t\n\t\t\tWDumon\n\t\t\n\t\t\n\t\t\tVFonseca\n\t\t\n\t\t\n\t\t\tWKarim\n\t\t\n\t\t\n\t\t\tMGiovanetti\n\t\t\n\t\t\n\t\t\tLCAlcantara\n\t\t\n\t\n\t\n\t\tGenome Detective Coronavirus Typing Tool for rapid identification and characterization of novel coronavirus genomes\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c582ed7723bebd8667bf9a"},"refKey":45},
{"_key":"60c582ed7723bebd8667bf9e","_id":"references/60c582ed7723bebd8667bf9e","_rev":"_cfFlmr6---","tei":"\n\t\n\t\tVADR: validation and annotation of virus sequence submissions to GenBank\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\t\n\t\t\tEHatcher\n\t\t\n\t\t\n\t\t\tLYankie\n\t\t\n\t\t\n\t\t\tLShonkwiler\n\t\t\n\t\t\n\t\t\tJRBrister\n\t\t\n\t\t\n\t\t\tIKarsch-Mizrachi\n\t\t\n\t\t10.1101/852657\n\t\t\n\t\n\t\n\t\tBioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c582ed7723bebd8667bf9a"},"refKey":49},
{"_key":"60c582ed7723bebd8667bf9f","_id":"references/60c582ed7723bebd8667bf9f","_rev":"_cfFlmsC---","tei":"\n\t\n\t\tAntiVPP 1.0: a portable tool for prediction of antiviral peptides\n\t\t\n\t\t\tJFLissabet\n\t\t\n\t\t\n\t\t\tLHBelén\n\t\t\n\t\t\n\t\t\tJGFarias\n\t\t\n\t\n\t\n\t\tComput. Biol. Med\n\t\t\n\t\t\t107\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c582ed7723bebd8667bf9a"},"refKey":55},
{"_key":"60c582ed7723bebd8667bfa0","_id":"references/60c582ed7723bebd8667bfa0","_rev":"_cfFlmsO---","tei":"\n\t\n\t\tThe GLEaMviz computational tool, a publicly available software to explore realistic epidemic spreading scenarios at the global scale\n\t\t\n\t\t\tWVan Den Broeck\n\t\t\n\t\t\n\t\t\tCGioannini\n\t\t\n\t\t\n\t\t\tBGonçalves\n\t\t\n\t\t\n\t\t\tMQuaggiotto\n\t\t\n\t\t\n\t\t\tVColizza\n\t\t\n\t\t\n\t\t\tAVespignani\n\t\t\n\t\n\t\n\t\tBMC Infect. Dis\n\t\t\n\t\t\t11\n\t\t\t37\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c582ed7723bebd8667bf9a"},"refKey":61},
{"_key":"60c582ed7723bebd8667bfa1","_id":"references/60c582ed7723bebd8667bfa1","_rev":"_cfFlmsa---","tei":"\n\t\n\t\tD3Pockets: A Method and Web Server for Systematic Analysis of Protein Pocket Dynamics\n\t\t\n\t\t\tZhaoqiangChen\n\t\t\n\t\t\n\t\t\tXinbenZhang\n\t\t\n\t\t\n\t\t\tChengPeng\n\t\t\n\t\t\n\t\t\tJinanWang\n\t\t\n\t\t\n\t\t\tZhijianXu\n\t\t\t0000-0002-3063-8473\n\t\t\n\t\t\n\t\t\tKaixianChen\n\t\t\n\t\t\n\t\t\tJiyeShi\n\t\t\n\t\t\n\t\t\tWeiliangZhu\n\t\t\t0000-0001-6699-5299\n\t\t\n\t\t10.1021/acs.jcim.9b00332\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t59\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c582ed7723bebd8667bf9a"},"refKey":92},
{"_key":"60c582ed7723bebd8667bfa2","_id":"references/60c582ed7723bebd8667bfa2","_rev":"_cfFlmsm---","tei":"\n\t\n\t\tOpen Babel: an open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\t\n\t\t\tCMorley\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\n\t\n\t\tJ. Cheminf\n\t\t\n\t\t\t3\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c582ed7723bebd8667bf9a"},"refKey":94},
{"_key":"60c582f77723bebd8667bfd7","_id":"references/60c582f77723bebd8667bfd7","_rev":"_cfFlmsy---","tei":"\n\t\n\t\tR: a language for data analysis and graphics\n\t\t\n\t\t\tRIhaka\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\n\t\n\t\tJournal of Computational and Graphical Statistics\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c582f77723bebd8667bfd6"},"refKey":13},
{"_key":"60c582fe7723bebd8667bfda","_id":"references/60c582fe7723bebd8667bfda","_rev":"_cfFlms6---","tei":"\n\t\n\t\tGISAID: Global initiative on sharing all influenza data – from vision to reality\n\t\t\n\t\t\tYuelongShu\n\t\t\n\t\t\n\t\t\tJohnMccauley\n\t\t\n\t\t10.2807/1560-7917.es.2017.22.13.30494\n\t\t28382917\n\t\tPMC5388101\n\t\t\n\t\n\t\n\t\tEurosurveillance\n\t\tEuro Surveill.\n\t\t1025-496X\n\t\t1560-7917\n\t\t\n\t\t\t22\n\t\t\t13\n\t\t\t\n\t\t\tEuropean Centre for Disease Control and Prevention (ECDC)\n\t\t\n\t\n\n","document":{"$oid":"60c582fe7723bebd8667bfd9"},"refKey":38},
{"_key":"60c583047723bebd8667bfee","_id":"references/60c583047723bebd8667bfee","_rev":"_cfFlmtG---","tei":"\n\t\n\t\tImproved Algorithmic Complexity for the 3SEQ Recombination Detection Algorithm\n\t\t\n\t\t\tHMLam\n\t\t\n\t\t\n\t\t\tORatmann\n\t\t\n\t\t\n\t\t\tMFBoni\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c583047723bebd8667bfed"},"refKey":22},
{"_key":"60c583047723bebd8667bfef","_id":"references/60c583047723bebd8667bfef","_rev":"_cfFlmtS---","tei":"\n\t\n\t\tModBase, a database of annotated comparative protein structure models and associated resources\n\t\t\n\t\t\tUrsulaPieper\n\t\t\n\t\t\n\t\t\tBenjaminMWebb\n\t\t\n\t\t\n\t\t\tGuangQiangDong\n\t\t\n\t\t\n\t\t\tDinaSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tHaoFan\n\t\t\n\t\t\n\t\t\tSeungJoongKim\n\t\t\n\t\t\n\t\t\tNataliaKhuri\n\t\t\n\t\t\n\t\t\tYannickGSpill\n\t\t\n\t\t\n\t\t\tPatrickWeinkam\n\t\t\n\t\t\n\t\t\tMichalHammel\n\t\t\n\t\t\n\t\t\tJohnATainer\n\t\t\n\t\t\n\t\t\tMichaelNilges\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1093/nar/gkt1144\n\t\t24271400\n\t\tPMC3965011\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl. Acids Res.\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c583047723bebd8667bfed"},"refKey":43},
{"_key":"60c583047723bebd8667bff0","_id":"references/60c583047723bebd8667bff0","_rev":"_cfFlmte---","tei":"\n\t\n\t\tMEGAHIT v1.0: A Fast and Scalable Metagenome Assembler Driven by Advanced Methodologies and Community Practices\n\t\t\n\t\t\tDLi\n\t\t\n\t\n\t\n\t\tMethods\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c583047723bebd8667bfed"},"refKey":32},
{"_key":"60c583047723bebd8667bff1","_id":"references/60c583047723bebd8667bff1","_rev":"_cfFlmtq---","tei":"\n\t\n\t\tUCSF Chimera -A Visualization System for Exploratory Research and Analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c583047723bebd8667bfed"},"refKey":42},
{"_key":"60c5831a7723bebd8667c005","_id":"references/60c5831a7723bebd8667c005","_rev":"_cfFlmty---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tDanielPeterson\n\t\t\n\t\t\n\t\t\tAlanFilipski\n\t\t\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t10.1093/molbev/mst197\n\t\t24132122\n\t\tPMC3840312\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5831a7723bebd8667c004"},"refKey":41},
{"_key":"60c583ef7723bebd8667c043","_id":"references/60c583ef7723bebd8667c043","_rev":"_cfFlmu----","tei":"\n\t\n\t\tSeqMap: mapping massive amount of oligonucleotides to the genome\n\t\t\n\t\t\tHJiang\n\t\t\n\t\t\n\t\t\tWHWong\n\t\t\n\t\t10.1093/bioinformatics/btn429\n\t\t18697769\n\t\tPMC2562015\n\t\tark:/67375/HXZ-5ZWG1FLG-M\n\t\t2BFE2DD746B8DD8EDEF05769994E2EF7219C36C7\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tNo reuse allowed without permission\n\n","document":{"$oid":"60c583ef7723bebd8667c042"},"refKey":82},
{"_key":"60c583ef7723bebd8667c044","_id":"references/60c583ef7723bebd8667c044","_rev":"_cfFlmuK---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c583ef7723bebd8667c042"},"refKey":80},
{"_key":"60c583ef7723bebd8667c045","_id":"references/60c583ef7723bebd8667c045","_rev":"_cfFlmuW---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c583ef7723bebd8667c042"},"refKey":81},
{"_key":"60c583fd7723bebd8667c05b","_id":"references/60c583fd7723bebd8667c05b","_rev":"_cfFlmue---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tEllSonnhammer\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tJGlasgow\n\t\t\n\t\t\n\t\t\tTLittlejohn\n\t\t\n\t\t\n\t\t\tFMajor\n\t\t\n\t\n\t\n\t\tGenome\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c583fd7723bebd8667c05a"},"refKey":37},
{"_key":"60c583fd7723bebd8667c05c","_id":"references/60c583fd7723bebd8667c05c","_rev":"_cfFlmuq---","tei":"\n\t\n\t\tA Neural Network Method for Identification of Prokaryotic and Eukaryotic Signal Peptides and Prediction of their Cleavage Sites\n\t\t\n\t\t\tHenrikNielsen\n\t\t\n\t\t\n\t\t\tJacobEngelbrecht\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tGunnarVonHeijne\n\t\t\n\t\t10.1142/s0129065797000537\n\t\t\n\t\n\t\n\t\tInternational Journal of Neural Systems\n\t\tInt. J. Neur. Syst.\n\t\t0129-0657\n\t\t1793-6462\n\t\t\n\t\t\t08\n\t\t\t05n06\n\t\t\t\n\t\t\t\n\t\t\tWorld Scientific Pub Co Pte Lt\n\t\t\n\t\n\n","document":{"$oid":"60c583fd7723bebd8667c05a"},"refKey":27},
{"_key":"60c583fd7723bebd8667c05d","_id":"references/60c583fd7723bebd8667c05d","_rev":"_cfFlmu2---","tei":"\n\t\n\t\tTMbase -A database of membrane spanning protein segments\n\t\t\n\t\t\tKHofmann\n\t\t\n\t\t\n\t\t\tWStoffel\n\t\t\n\t\n\t\n\t\tBiol Chem Hoppe-Seyler\n\t\t\n\t\t\t374\n\t\t\t166\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c583fd7723bebd8667c05a"},"refKey":19},
{"_key":"60c5840d7723bebd8667c06a","_id":"references/60c5840d7723bebd8667c06a","_rev":"_cfFlmvC---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5840d7723bebd8667c069"},"refKey":5},
{"_key":"60c5840d7723bebd8667c06b","_id":"references/60c5840d7723bebd8667c06b","_rev":"_cfFlmvO---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tL.-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAHaeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5840d7723bebd8667c069"},"refKey":13},
{"_key":"60c5841b7723bebd8667c088","_id":"references/60c5841b7723bebd8667c088","_rev":"_cfFlmvW---","tei":"\n\t\n\t\tAdvanced Heat Map and Clustering Analysis Using Heatmap3\n\t\t\n\t\t\tShilinZhao\n\t\t\t0000-0002-3787-8111\n\t\t\n\t\t\n\t\t\tYanGuo\n\t\t\t0000-0001-5252-3960\n\t\t\n\t\t\n\t\t\tQuanhuSheng\n\t\t\t0000-0001-8951-9295\n\t\t\n\t\t\n\t\t\tYuShyr\n\t\t\t0000-0003-2086-9670\n\t\t\n\t\t10.1155/2014/986048\n\t\t25143956\n\t\tPMC4124803\n\t\t\n\t\n\t\n\t\tBioMed Research International\n\t\tBioMed Research International\n\t\t2314-6133\n\t\t2314-6141\n\t\t\n\t\t\t2014\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c5841b7723bebd8667c087"},"refKey":74},
{"_key":"60c5841b7723bebd8667c089","_id":"references/60c5841b7723bebd8667c089","_rev":"_cfFlmvi---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\n\t\n\t\tBioinforma. Oxf. Engl\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5841b7723bebd8667c087"},"refKey":66},
{"_key":"60c5841b7723bebd8667c08a","_id":"references/60c5841b7723bebd8667c08a","_rev":"_cfFlmvu---","tei":"\n\t\n\t\tlimma powers differential expression analyses for RNA-sequencing and microarray studies\n\t\t\n\t\t\tMERitchie\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\te47\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5841b7723bebd8667c087"},"refKey":71},
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{"_key":"60c5841b7723bebd8667c08c","_id":"references/60c5841b7723bebd8667c08c","_rev":"_cfFlmwC---","tei":"\n\t\n\t\tGAGE: generally applicable gene set enrichment for pathway analysis\n\t\t\n\t\t\tWeijunLuo\n\t\t\n\t\t\n\t\t\tMichaelSFriedman\n\t\t\n\t\t\n\t\t\tKerbyShedden\n\t\t\n\t\t\n\t\t\tKurtDHankenson\n\t\t\n\t\t\n\t\t\tPeterJWoolf\n\t\t\n\t\t10.1186/1471-2105-10-161\n\t\t19473525\n\t\tPMC2696452\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t161\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5841b7723bebd8667c087"},"refKey":73},
{"_key":"60c5841b7723bebd8667c08d","_id":"references/60c5841b7723bebd8667c08d","_rev":"_cfFlmwO---","tei":"\n\t\n\t\tWGCNA: an R package for weighted correlation network analysis\n\t\t\n\t\t\tPLangfelder\n\t\t\n\t\t\n\t\t\tSHorvath\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t9\n\t\t\t559\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5841b7723bebd8667c087"},"refKey":76},
{"_key":"60c584347723bebd8667c0ab","_id":"references/60c584347723bebd8667c0ab","_rev":"_cfFlmwa---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c584347723bebd8667c0aa"},"refKey":9},
{"_key":"60c5843a7723bebd8667c103","_id":"references/60c5843a7723bebd8667c103","_rev":"_cfFlmwm---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5843a7723bebd8667c102"},"refKey":26},
{"_key":"60c5843a7723bebd8667c104","_id":"references/60c5843a7723bebd8667c104","_rev":"_cfFlmwy---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5843a7723bebd8667c102"},"refKey":20},
{"_key":"60c5843a7723bebd8667c105","_id":"references/60c5843a7723bebd8667c105","_rev":"_cfFlmx----","tei":"\n\t\n\t\tMetascape provides a biologistoriented resource for the analysis of systems-level datasets\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tLPache\n\t\t\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t1523\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5843a7723bebd8667c102"},"refKey":25},
{"_key":"60c5843a7723bebd8667c106","_id":"references/60c5843a7723bebd8667c106","_rev":"_cfFlmxG---","tei":"\n\t\n\t\tGraph-based genome alignment and genotyping with HISAT2 and HISAT-genotype\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tJMPaggi\n\t\t\n\t\t\n\t\t\tCPark\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t37\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5843a7723bebd8667c102"},"refKey":19},
{"_key":"60c584627723bebd8667c171","_id":"references/60c584627723bebd8667c171","_rev":"_cfFlmxS---","tei":"\n\t\n\t\tEfficient coalescent simulation and genealogical analysis for large sample sizes\n\t\t\n\t\t\tJeromeKelleher\n\t\t\t0000-0002-7894-5253\n\t\t\n\t\t\n\t\t\tAlisonMEtheridge\n\t\t\n\t\t\n\t\t\tGilMcvean\n\t\t\n\t\t10.1101/033118\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t12\n\t\t\te1004842\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c584627723bebd8667c170"},"refKey":31},
{"_key":"60c584627723bebd8667c172","_id":"references/60c584627723bebd8667c172","_rev":"_cfFlmxe---","tei":"\n\t\n\t\tRobust demographic inference from genomic and SNP data\n\t\t\n\t\t\tLExcoffier\n\t\t\n\t\t\n\t\t\tIDupanloup\n\t\t\n\t\t\n\t\t\tEHuerta-Sánchez\n\t\t\n\t\t\n\t\t\tVCSousa\n\t\t\n\t\t\n\t\t\tMFoll\n\t\t\n\t\n\t\n\t\tPLoS Genet\n\t\t\n\t\t\t9\n\t\t\te1003905\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c584627723bebd8667c170"},"refKey":32},
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{"_key":"60c5859e7723bebd8667c276","_id":"references/60c5859e7723bebd8667c276","_rev":"_cfFlm1K---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5859e7723bebd8667c274"},"refKey":40},
{"_key":"60c5859e7723bebd8667c277","_id":"references/60c5859e7723bebd8667c277","_rev":"_cfFlm1W---","tei":"\n\t\n\t\tThe Gromacs development team\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\n\t\n\t\tGROMACS User Manual Version\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5859e7723bebd8667c274"},"refKey":1},
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{"_key":"60c585f17723bebd8667c2d9","_id":"references/60c585f17723bebd8667c2d9","_rev":"_cfFlm3K---","tei":"\n\t\n\t\tSynthesising Interprocedural Bit-Precise Termination Proofs (T)\n\t\t\n\t\t\tHong-YiChen\n\t\t\n\t\t\n\t\t\tCristinaDavid\n\t\t\n\t\t\n\t\t\tDanielKroening\n\t\t\n\t\t\n\t\t\tPeterSchrammel\n\t\t\n\t\t\n\t\t\tBjornWachter\n\t\t\n\t\t10.1109/ase.2015.10\n\t\t\n\t\t\n\t\n\t\n\t\t2015 30th IEEE/ACM International Conference on Automated Software Engineering (ASE)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c585f17723bebd8667c2d7"},"refKey":7},
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{"_key":"60c5863b7723bebd8667c320","_id":"references/60c5863b7723bebd8667c320","_rev":"_cfFlm4O---","tei":"\n\t\n\t\tRDP2: recombination detection and analysis from sequence alignments\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tCWilliamson\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bth490\n\t\t15377507\n\t\tark:/67375/HXZ-1CJ571R5-H\n\t\tFBF994AF07DCF440DBE2361DA623551B56A99871\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5863b7723bebd8667c31c"},"refKey":39},
{"_key":"60c5863b7723bebd8667c321","_id":"references/60c5863b7723bebd8667c321","_rev":"_cfFlm4W---","tei":"\n\t\n\t\tAnalyzing the mosaic structure of genes\n\t\t\n\t\t\tJohnmaynardMSmith\n\t\t\n\t\t10.1007/bf00182389\n\t\tark:/67375/1BB-PF2DNF4W-7\n\t\t50F7696424BCDB18C0ED882500777A849443F2AC\n\t\n\t\n\t\tJournal of Molecular Evolution\n\t\tJ Mol Evol\n\t\t0022-2844\n\t\t1432-1432\n\t\t\n\t\t\t34\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5863b7723bebd8667c31c"},"refKey":73},
{"_key":"60c5863b7723bebd8667c322","_id":"references/60c5863b7723bebd8667c322","_rev":"_cfFlm4i---","tei":"\n\t\n\t\tEvaluation of methods for detecting recombination from DNA sequences: Computer simulations\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\t10.1073/pnas.241370698\n\t\t11717435\n\t\tPMC61114\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c5863b7723bebd8667c31c"},"refKey":74},
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{"_key":"60c5863b7723bebd8667c324","_id":"references/60c5863b7723bebd8667c324","_rev":"_cfFlm46---","tei":"\n\t\n\t\tAn Exact Nonparametric Method for Inferring Mosaic Structure in Sequence Triplets\n\t\t\n\t\t\tMaciejFBoni\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t\n\t\t\tMarcusWFeldman\n\t\t\n\t\t10.1534/genetics.106.068874\n\t\t17409078\n\t\tPMC1894573\n\t\t\n\t\n\t\n\t\tGenetics\n\t\tGenetics\n\t\t0016-6731\n\t\t1943-2631\n\t\t\n\t\t\t176\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tGenetics Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c5863b7723bebd8667c31c"},"refKey":76},
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{"_key":"60c5864b7723bebd8667c362","_id":"references/60c5864b7723bebd8667c362","_rev":"_cfFlm6S---","tei":"\n\t\n\t\tOnline synonymous codon usage analyses with the ade4 and seqinR packages\n\t\t\n\t\t\tDCharif\n\t\t\n\t\t\n\t\t\tJThioulouse\n\t\t\n\t\t\n\t\t\tJRLobry\n\t\t\n\t\t\n\t\t\tGPerri re\n\t\t\n\t\t10.1093/bioinformatics/bti037\n\t\t15374859\n\t\tark:/67375/HXZ-C71ZD1TW-5\n\t\tE2C15AD2236392542F51BA6D3A6EB82ABD2849EC\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5864b7723bebd8667c360"},"refKey":6},
{"_key":"60c586567723bebd8667c373","_id":"references/60c586567723bebd8667c373","_rev":"_cfFlm6a---","tei":"\n\t\n\t\tClosing the gap between methodologists and end-users: R as a computational back-end\n\t\t\n\t\t\tBCWallace\n\t\t\n\t\t\n\t\t\tIJDahabreh\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t49\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c586567723bebd8667c372"},"refKey":16},
{"_key":"60c586827723bebd8667c389","_id":"references/60c586827723bebd8667c389","_rev":"_cfFlm6m---","tei":"\n\t\n\t\tFireDock: Fast interaction refinement in molecular docking\n\t\t\n\t\t\tNellyAndrusier\n\t\t\n\t\t\n\t\t\tRuthNussinov\n\t\t\n\t\t\n\t\t\tHaimJWolfson\n\t\t\n\t\t10.1002/prot.21495\n\t\t17598144\n\t\tark:/67375/WNG-7DZTM4QJ-W\n\t\t1292F6CFB843022D8262EE758ED92B5BAA8A92C2\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t69\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c586827723bebd8667c388"},"refKey":35},
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{"_key":"60c586827723bebd8667c38c","_id":"references/60c586827723bebd8667c38c","_rev":"_cfFlm7K---","tei":"\n\t\n\t\tFireDock: a web server for fast interaction refinement in molecular docking\n\t\t\n\t\t\tEMashiach\n\t\t\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tNAndrusier\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tHJWolfson\n\t\t\n\t\t10.1093/nar/gkn186\n\t\t18424796\n\t\tPMC2447790\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c586827723bebd8667c388"},"refKey":36},
{"_key":"60c586827723bebd8667c38d","_id":"references/60c586827723bebd8667c38d","_rev":"_cfFlm7S---","tei":"\n\t\n\t\tSignalP 5.0 improves signal peptide predictions using deep neural networks\n\t\t\n\t\t\tJJAlmagro Armenteros\n\t\t\n\t\t10.1038/s41587-019-0036-z\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c586827723bebd8667c388"},"refKey":65},
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{"_key":"60c586827723bebd8667c38f","_id":"references/60c586827723bebd8667c38f","_rev":"_cfFlm7q---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJamesCPhillips\n\t\t\n\t\t\n\t\t\tRosemaryBraun\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tJamesGumbart\n\t\t\n\t\t\n\t\t\tEmadTajkhorshid\n\t\t\n\t\t\n\t\t\tElizabethVilla\n\t\t\n\t\t\n\t\t\tChristopheChipot\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tLaxmikantKalé\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1002/jcc.20289\n\t\t16222654\n\t\tPMC2486339\n\t\tark:/67375/WNG-4VV0NHGH-L\n\t\t9CA05D9586DF2A6CDED3A7F227C6C9CF046796F7\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c586827723bebd8667c388"},"refKey":41},
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{"_key":"60c586827723bebd8667c391","_id":"references/60c586827723bebd8667c391","_rev":"_cfFlm8C---","tei":"\n\t\n\t\tThe SWISS-MODEL Repository and associated resources\n\t\t\n\t\t\tFKiefer\n\t\t\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tMKunzli\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\t10.1093/nar/gkn750\n\t\t18931379\n\t\tPMC2686475\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c586827723bebd8667c388"},"refKey":63},
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{"_key":"60c586d37723bebd8667c3e5","_id":"references/60c586d37723bebd8667c3e5","_rev":"_cfFlm8m---","tei":"\n\t\n\t\tFastQC: a quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\n\t\n\t\tBahraham Bioinformaticz\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c586d37723bebd8667c3e3"},"refKey":0},
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{"_key":"60c586d37723bebd8667c3e8","_id":"references/60c586d37723bebd8667c3e8","_rev":"_cfFlm9K---","tei":"\n\t\n\t\tMapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt\n\t\t\n\t\t\tSteffenDurinck\n\t\t\n\t\t\n\t\t\tPaulTSpellman\n\t\t\n\t\t\n\t\t\tEwanBirney\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t10.1038/nprot.2009.97\n\t\t19617889\n\t\tPMC3159387\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t4\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c586d37723bebd8667c3e3"},"refKey":18},
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{"_key":"60c587497723bebd8667c420","_id":"references/60c587497723bebd8667c420","_rev":"_cfFlm96---","tei":"\n\t\n\t\tBioWBI: an Integrated Tool for building and executing Bioinformatic Analysis Workflows\n\t\t\n\t\t\tPLeo\n\t\t\n\t\t\n\t\t\tCMarinelli\n\t\t\n\t\t\n\t\t\t`gPappada\n\t\t\n\t\t\n\t\t\tGScioscia\n\t\t\n\t\t\n\t\t\tLZanchetta\n\t\t\n\t\n\t\n\t\tBioinformatics Italian Society Meeting (BITS 2004)\n\t\t\t\tPadova\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":8},
{"_key":"60c587497723bebd8667c421","_id":"references/60c587497723bebd8667c421","_rev":"_cfFln-C---","tei":"\n\t\n\t\tBiopipe: A Flexible Framework for Protocol-Based Bioinformatics Analysis\n\t\t\n\t\t\tSHoon\n\t\t\n\t\t\n\t\t\tKRatnapu\n\t\t\n\t\t\n\t\t\tJChia\n\t\t\n\t\t\n\t\t\tBKumarasamy\n\t\t\n\t\t\n\t\t\tXJuguang\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t10.1101/gr.1363103\n\t\t12869579\n\t\tPMC403782\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":7},
{"_key":"60c587497723bebd8667c422","_id":"references/60c587497723bebd8667c422","_rev":"_cfFln-S---","tei":"\n\t\n\t\tWildfire: distributed, Grid-enabled workflow construction and execution\n\t\t\n\t\t\tFTang\n\t\t\n\t\t\n\t\t\tCChua\n\t\t\n\t\t\n\t\t\tLHo\n\t\t\n\t\t\n\t\t\tYLim\n\t\t\n\t\t\n\t\t\tPIssac\n\t\t\n\t\t\n\t\t\tAKrishnan\n\t\t\n\t\n\t\n\t\tBMC Bioinformat\n\t\t\n\t\t\t6\n\t\t\t69\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":10},
{"_key":"60c587497723bebd8667c423","_id":"references/60c587497723bebd8667c423","_rev":"_cfFln-a---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":22},
{"_key":"60c587497723bebd8667c424","_id":"references/60c587497723bebd8667c424","_rev":"_cfFln-m---","tei":"\n\t\n\t\tEMBOSS: the European molecular biology open software suite\n\t\t\n\t\t\tPRice\n\t\t\n\t\t\n\t\t\tILongden\n\t\t\n\t\t\n\t\t\tABleasby\n\t\t\n\t\n\t\n\t\tTrends Genet\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":12},
{"_key":"60c587497723bebd8667c425","_id":"references/60c587497723bebd8667c425","_rev":"_cfFln-y---","tei":"\n\t\n\t\tTaverna: a tool for the composition and enactment of bioinformatics workflows\n\t\t\n\t\t\tTOinn\n\t\t\n\t\t\n\t\t\tMAddis\n\t\t\n\t\t\n\t\t\tJFerris\n\t\t\n\t\t\n\t\t\tDMarvin\n\t\t\n\t\t\n\t\t\tMGreenwood\n\t\t\n\t\t\n\t\t\tTCarver\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":9},
{"_key":"60c587497723bebd8667c426","_id":"references/60c587497723bebd8667c426","_rev":"_cfFln_----","tei":"\n\t\n\t\tRapid similarity searches of nucleic acid and protein data banks.\n\t\t\n\t\t\tWJWilbur\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t10.1073/pnas.80.3.726\n\t\t6572363\n\t\tPMC393452\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t80\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":23},
{"_key":"60c587497723bebd8667c427","_id":"references/60c587497723bebd8667c427","_rev":"_cfFln_K---","tei":"\n\t\n\t\tA Computer Program for Aligning a cDNA Sequence with a Genomic DNA Sequence\n\t\t\n\t\t\tLilianaFlorea\n\t\t\n\t\t\n\t\t\tGeorgeHartzell\n\t\t\n\t\t\n\t\t\tZhengZhang\n\t\t\n\t\t\n\t\t\tGeraldMRubin\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t10.1101/gr.8.9.967\n\t\t9750195\n\t\tPMC310774\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t8\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":24},
{"_key":"60c587497723bebd8667c428","_id":"references/60c587497723bebd8667c428","_rev":"_cfFln_W---","tei":"\n\t\n\t\tAlignment of whole genomes\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tSKasif\n\t\t\n\t\t\n\t\t\tRDFleischmann\n\t\t\n\t\t\n\t\t\tJPeterson\n\t\t\n\t\t\n\t\t\tOWhite\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t10.1093/nar/27.11.2369\n\t\t10325427\n\t\tPMC148804\n\t\tark:/67375/HXZ-TXRMSG75-Z\n\t\t5295EEA0E2FB400C2BB14A7B78BAE024FD8623BD\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t27\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":25},
{"_key":"60c587497723bebd8667c429","_id":"references/60c587497723bebd8667c429","_rev":"_cfFln_i---","tei":"\n\t\n\t\tBiojava: open source components for bioinformatics\n\t\t\n\t\t\tMPecock\n\t\t\n\t\t\n\t\t\tTDown\n\t\t\n\t\t\n\t\t\tTHubbard\n\t\t\n\t\n\t\n\t\tACM SIGBIO Newlett\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":11},
{"_key":"60c587497723bebd8667c42a","_id":"references/60c587497723bebd8667c42a","_rev":"_cfFln_q---","tei":"\n\t\n\t\tInterpolated Markov Models for Eukaryotic Gene Finding\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t\n\t\t\tMihaelaPertea\n\t\t\n\t\t\n\t\t\tArthurLDelcher\n\t\t\n\t\t\n\t\t\tMalcolmJGardner\n\t\t\n\t\t\n\t\t\tHervéTettelin\n\t\t\n\t\t10.1006/geno.1999.5854\n\t\t10395796\n\t\tS0888-7543(99)95854-8\n\t\tark:/67375/6H6-08TSNPP3-1\n\t\tDEEE938795A10E2823BC89CC8F82CCF5CDEBE732\n\t\t\n\t\n\t\n\t\tGenomics\n\t\tGenomics\n\t\t0888-7543\n\t\t\n\t\t\t59\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":20},
{"_key":"60c587497723bebd8667c42b","_id":"references/60c587497723bebd8667c42b","_rev":"_cfFln_2---","tei":"\n\t\n\t\tA dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t\n\t\t\tRichardDurbin\n\t\t\n\t\t10.1016/0378-1119(95)00714-8\n\t\t8566757\n\t\t0378-1119(95)00714-8\n\t\tark:/67375/6H6-L1814LBX-5\n\t\tE56FA4E9E56845C248DD4F2349F8336ADA27891E\n\t\t\n\t\n\t\n\t\tGene\n\t\tGene\n\t\t0378-1119\n\t\t\n\t\t\t167\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":26},
{"_key":"60c587497723bebd8667c42c","_id":"references/60c587497723bebd8667c42c","_rev":"_cfFlnAC---","tei":"\n\t\n\t\tEMBOSS: the european molecular biology open software suite\n\t\t\n\t\t\tPRice\n\t\t\n\t\t\n\t\t\tILongden\n\t\t\n\t\t\n\t\t\tABleasby\n\t\t\n\t\n\t\n\t\tTrends Genet\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":4},
{"_key":"60c587497723bebd8667c42d","_id":"references/60c587497723bebd8667c42d","_rev":"_cfFlnAO---","tei":"\n\t\n\t\tPHYLIP: phylogeny inference package (Version 3.2)\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\n\t\n\t\tCladistics\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":5},
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{"_key":"60c587497723bebd8667c430","_id":"references/60c587497723bebd8667c430","_rev":"_cfFlnAu---","tei":"\n\t\n\t\tFast folding and comparison of RNA secondary structures\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tWFontana\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t\n\t\t\tLSBonhoeffer\n\t\t\n\t\t\n\t\t\tMTacker\n\t\t\n\t\t\n\t\t\tPSchuster\n\t\t\n\t\t10.1007/bf00818163\n\t\tark:/67375/1BB-N6DHN825-D\n\t\tF149ECB8797ECA4546DA33D196F06F51CFB3E2DB\n\t\n\t\n\t\tMonatshefte f�r Chemie Chemical Monthly\n\t\tMonatsh Chem\n\t\t0026-9247\n\t\t1434-4475\n\t\t\n\t\t\t125\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c587497723bebd8667c41f"},"refKey":13},
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{"_key":"60c587627723bebd8667c492","_id":"references/60c587627723bebd8667c492","_rev":"_cfFlnBG---","tei":"\n\t\n\t\tA U-turn motif-containing stem-loop in the coronavirus 5' untranslated region plays a functional role in replication\n\t\t\n\t\t\tPLiu\n\t\t\n\t\t\n\t\t\tLLi\n\t\t\n\t\t\n\t\t\tJJMillership\n\t\t\n\t\t\n\t\t\tHKang\n\t\t\n\t\t\n\t\t\tJLLeibowitz\n\t\t\n\t\t\n\t\t\tDPGiedroc\n\t\t\n\t\t10.1261/rna.261807\n\t\t17353353\n\t\tPMC1852815\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t13\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c587627723bebd8667c490"},"refKey":80},
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{"_key":"60c587917723bebd8667c4c2","_id":"references/60c587917723bebd8667c4c2","_rev":"_cfFlnBy---","tei":"\n\t\n\t\tDUET: a server for predicting effects of mutations on protein stability using an integrated computational approach\n\t\t\n\t\t\tDE VPires\n\t\t\n\t\t\n\t\t\tDBAscher\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1093/nar/gku411\n\t\t24829462\n\t\tPMC4086143\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c587917723bebd8667c4c0"},"refKey":30},
{"_key":"60c587917723bebd8667c4c3","_id":"references/60c587917723bebd8667c4c3","_rev":"_cfFlnCC---","tei":"\n\t\n\t\tCd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1093/bioinformatics/btl158\n\t\t16731699\n\t\tark:/67375/HXZ-PG1KG21Q-C\n\t\t56FF6C45E6D69E965E2CABA99308A8C60A33307A\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c587917723bebd8667c4c0"},"refKey":24},
{"_key":"60c587917723bebd8667c4c4","_id":"references/60c587917723bebd8667c4c4","_rev":"_cfFlnCO---","tei":"\n\t\n\t\tWebLogo: A Sequence Logo Generator\n\t\t\n\t\t\tGECrooks\n\t\t\n\t\t\n\t\t\tGHon\n\t\t\n\t\t\n\t\t\tJ.-MChandonia\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\t10.1101/gr.849004\n\t\t15173120\n\t\tPMC419797\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c587917723bebd8667c4c0"},"refKey":31},
{"_key":"60c587917723bebd8667c4c5","_id":"references/60c587917723bebd8667c4c5","_rev":"_cfFlnCa---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDM AMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btp033\n\t\t19151095\n\t\tPMC2672624\n\t\tark:/67375/HXZ-5L762ZQS-N\n\t\t984BAD740626CEADBD2E31F4094D8E18B07D49EA\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c587917723bebd8667c4c0"},"refKey":27},
{"_key":"60c587917723bebd8667c4c6","_id":"references/60c587917723bebd8667c4c6","_rev":"_cfFlnCq---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c587917723bebd8667c4c0"},"refKey":25},
{"_key":"60c587b57723bebd8667c4e5","_id":"references/60c587b57723bebd8667c4e5","_rev":"_cfFlnC2---","tei":"\n\t\n\t\tBerechnung von Effektstärken [Calculation of Effect Sizes\n\t\t\n\t\t\tWLenhard\n\t\t\n\t\t\n\t\t\tALenhard\n\t\t\n\t\t\n\t\n\t\n\t\tDettelbach: Psychometrica. Available\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587b57723bebd8667c4e4"},"refKey":71},
{"_key":"60c587bf7723bebd8667c4eb","_id":"references/60c587bf7723bebd8667c4eb","_rev":"_cfFlnDC---","tei":"\n\t\n\t\tWarpPLS 6.0 user manual\n\t\t\n\t\t\tNKock\n\t\t\n\t\n\t\n\t\tScriptWarp Systems\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587bf7723bebd8667c4ea"},"refKey":21},
{"_key":"60c587e97723bebd8667c503","_id":"references/60c587e97723bebd8667c503","_rev":"_cfFlnDS---","tei":"\n\t\n\t\tPLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses\n\t\t\n\t\t\tShaunPurcell\n\t\t\n\t\t\n\t\t\tBenjaminNeale\n\t\t\n\t\t\n\t\t\tKatheTodd-Brown\n\t\t\n\t\t\n\t\t\tLoriThomas\n\t\t\n\t\t\n\t\t\tManuelA RFerreira\n\t\t\n\t\t\n\t\t\tDavidBender\n\t\t\n\t\t\n\t\t\tJulianMaller\n\t\t\n\t\t\n\t\t\tPamelaSklar\n\t\t\n\t\t\n\t\t\tPaulI WDe Bakker\n\t\t\n\t\t\n\t\t\tMarkJDaly\n\t\t\n\t\t\n\t\t\tPakCSham\n\t\t\n\t\t10.1086/519795\n\t\t17701901\n\t\tPMC1950838\n\t\t\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c587e97723bebd8667c502"},"refKey":52},
{"_key":"60c587e97723bebd8667c504","_id":"references/60c587e97723bebd8667c504","_rev":"_cfFlnDe---","tei":"\n\t\n\t\tGenABEL: An R library for genome-wide association analysis\n\t\t\n\t\t\tYSAulchenko\n\t\t\n\t\t\n\t\t\tSRipke\n\t\t\n\t\t\n\t\t\tAIsaacs\n\t\t\n\t\t\n\t\t\tCMVan Duijn\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587e97723bebd8667c502"},"refKey":1},
{"_key":"60c587e97723bebd8667c505","_id":"references/60c587e97723bebd8667c505","_rev":"_cfFlnDu---","tei":"\n\t\n\t\tMultivariate discovery and replication of five novel loci associated with Immunoglobulin G N-glycosylation\n\t\t\n\t\t\tXiaShen\n\t\t\t0000-0003-4390-1979\n\t\t\n\t\t\n\t\t\tLucijaKlarić\n\t\t\t0000-0003-3105-8929\n\t\t\n\t\t\n\t\t\tSodboSharapov\n\t\t\n\t\t\n\t\t\tMassimoMangino\n\t\t\t0000-0002-2167-7470\n\t\t\n\t\t\n\t\t\tZhengNing\n\t\t\n\t\t\n\t\t\tDiWu\n\t\t\n\t\t\n\t\t\tIrenaTrbojević-Akmačić\n\t\t\n\t\t\n\t\t\tMajaPučić-Baković\n\t\t\n\t\t\n\t\t\tIgorRudan\n\t\t\n\t\t\n\t\t\tOzrenPolašek\n\t\t\n\t\t\n\t\t\tCarolineHayward\n\t\t\t0000-0002-9405-9550\n\t\t\n\t\t\n\t\t\tTimothyDSpector\n\t\t\n\t\t\n\t\t\tJamesFWilson\n\t\t\t0000-0001-5751-9178\n\t\t\n\t\t\n\t\t\tGordanLauc\n\t\t\n\t\t\n\t\t\tYuriiSAulchenko\n\t\t\t0000-0002-7899-1575\n\t\t\n\t\t10.1038/s41467-017-00453-3\n\t\t28878392\n\t\tPMC5587582\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c587e97723bebd8667c502"},"refKey":59},
{"_key":"60c587e97723bebd8667c506","_id":"references/60c587e97723bebd8667c506","_rev":"_cfFlnE----","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c587e97723bebd8667c502"},"refKey":45},
{"_key":"60c587e97723bebd8667c507","_id":"references/60c587e97723bebd8667c507","_rev":"_cfFlnEO---","tei":"\n\t\n\t\tContrasting patterns of divergence at the regulatory and sequence level in European Daphnia galeata natural populations\n\t\t\n\t\t\tSudaParimalaRavindran\n\t\t\n\t\t\n\t\t\tMaikeHerrmann\n\t\t\n\t\t\n\t\t\tMathildeCordellier\n\t\t\t0000-0001-7376-4560\n\t\t\n\t\t10.1101/374991\n\t\t\n\t\n\t\n\t\tEcology and Evolution\n\t\t\n\t\t\t9\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c587e97723bebd8667c502"},"refKey":53},
{"_key":"60c587e97723bebd8667c508","_id":"references/60c587e97723bebd8667c508","_rev":"_cfFlnEa---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c587e97723bebd8667c502"},"refKey":44},
{"_key":"60c587ec7723bebd8667c520","_id":"references/60c587ec7723bebd8667c520","_rev":"_cfFlnEq---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587ec7723bebd8667c51f"},"refKey":33},
{"_key":"60c587ec7723bebd8667c521","_id":"references/60c587ec7723bebd8667c521","_rev":"_cfFlnE6---","tei":"\n\t\n\t\tFastTree 2-approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c587ec7723bebd8667c51f"},"refKey":32},
{"_key":"60c587ec7723bebd8667c522","_id":"references/60c587ec7723bebd8667c522","_rev":"_cfFlnFG---","tei":"\n\t\n\t\tMETAGENassist: a comprehensive web server for comparative metagenomics\n\t\t\n\t\t\tDArndt\n\t\t\n\t\t\n\t\t\tJXia\n\t\t\n\t\t\n\t\t\tYLiu\n\t\t\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tACGuo\n\t\t\n\t\t\n\t\t\tJACruz\n\t\t\n\t\t\n\t\t\tISinelnikov\n\t\t\n\t\t\n\t\t\tKBudwill\n\t\t\n\t\t\n\t\t\tCLNesbo\n\t\t\n\t\t\n\t\t\tDSWishart\n\t\t\n\t\t10.1093/nar/gks497\n\t\t22645318\n\t\tPMC3394294\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c587ec7723bebd8667c51f"},"refKey":36},
{"_key":"60c588087723bebd8667c53c","_id":"references/60c588087723bebd8667c53c","_rev":"_cfFlnFW---","tei":"\n\t\n\t\tMaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification\n\t\t\n\t\t\tJCox\n\t\t\n\t\t\n\t\t\tMMann\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c588087723bebd8667c53b"},"refKey":50},
{"_key":"60c588087723bebd8667c53d","_id":"references/60c588087723bebd8667c53d","_rev":"_cfFlnFi---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c588087723bebd8667c53b"},"refKey":53},
{"_key":"60c588087723bebd8667c53e","_id":"references/60c588087723bebd8667c53e","_rev":"_cfFlnFu---","tei":"\n\t\n\t\tBioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c588087723bebd8667c53b"},"refKey":54},
{"_key":"60c5881a7723bebd8667c54a","_id":"references/60c5881a7723bebd8667c54a","_rev":"_cfFlnF6---","tei":"\n\t\n\t\tAdministrative Subdivisions of Countries\n\t\t\n\t\t\tStatoids\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5881a7723bebd8667c549"},"refKey":25},
{"_key":"60c588277723bebd8667c571","_id":"references/60c588277723bebd8667c571","_rev":"_cfFlnGG---","tei":"\n\t\n\t\tOpt4J-a modular framework for meta-heuristic optimization\n\t\t\n\t\t\tMLukasiewycz\n\t\t\n\t\t\n\t\t\tMGlaß\n\t\t\n\t\t\n\t\t\tFReimann\n\t\t\n\t\t\n\t\t\tJTeich\n\t\t\n\t\t\n\t\t\t\n\t\t\tGECCO\n\t\t\n\t\n\n","document":{"$oid":"60c588277723bebd8667c570"},"refKey":10},
{"_key":"60c588327723bebd8667c584","_id":"references/60c588327723bebd8667c584","_rev":"_cfFlnGS---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMaximVKuleshov\n\t\t\n\t\t\n\t\t\tMatthewRJones\n\t\t\n\t\t\n\t\t\tAndrewDRouillard\n\t\t\n\t\t\n\t\t\tNicolasFFernandez\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tSimonKoplev\n\t\t\n\t\t\n\t\t\tSherryLJenkins\n\t\t\n\t\t\n\t\t\tKathleenMJagodnik\n\t\t\n\t\t\n\t\t\tAlexanderLachmann\n\t\t\n\t\t\n\t\t\tMichaelGMcdermott\n\t\t\n\t\t\n\t\t\tCarolineDMonteiro\n\t\t\n\t\t\n\t\t\tGregoryWGundersen\n\t\t\n\t\t\n\t\t\tAviMa'ayan\n\t\t\n\t\t10.1093/nar/gkw377\n\t\t27141961\n\t\tPMC4987924\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c588327723bebd8667c583"},"refKey":17},
{"_key":"60c588437723bebd8667c58b","_id":"references/60c588437723bebd8667c58b","_rev":"_cfFlnGe---","tei":"\n\t\n\t\tFast Program for Clustering and Comparing Large Sets of Protein or Nucleotide Sequences\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1007/978-1-4899-7478-5_221\n\t\n\t\n\t\tEncyclopedia of Metagenomics\n\t\t\t\t\n\t\t\tSpringer US\n\t\t\t\n\t\t\t22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c588437723bebd8667c58a"},"refKey":25},
{"_key":"60c5889f7723bebd8667c5ed","_id":"references/60c5889f7723bebd8667c5ed","_rev":"_cfFlnGq---","tei":"\n\t\n\t\tComparative protein modeling by satisfaction of spatial restraints\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1107/s0108767396095578\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t52\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c5889f7723bebd8667c5ec"},"refKey":32},
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{"_key":"60c5899e7723bebd8667c688","_id":"references/60c5899e7723bebd8667c688","_rev":"_cfFlnHa---","tei":"\n\t\n\t\tWhat is the value added by human intervention in protein structure prediction?\n\t\t\n\t\t\tKevinKarplus\n\t\t\n\t\t\n\t\t\tRachelKarchin\n\t\t\n\t\t\n\t\t\tChristianBarrett\n\t\t\n\t\t\n\t\t\tSpencerTu\n\t\t\n\t\t\n\t\t\tMelissaCline\n\t\t\n\t\t\n\t\t\tMarkDiekhans\n\t\t\n\t\t\n\t\t\tLeslieGrate\n\t\t\n\t\t\n\t\t\tJonathanCasper\n\t\t\n\t\t\n\t\t\tRichardHughey\n\t\t\n\t\t10.1002/prot.10021\n\t\t11835485\n\t\tark:/67375/WNG-44FJWG6C-B\n\t\tE222CB45EDB4BE025501E2786FE6D8CB9E661296\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t45\n\t\t\tS5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c5899e7723bebd8667c685"},"refKey":30},
{"_key":"60c5899e7723bebd8667c689","_id":"references/60c5899e7723bebd8667c689","_rev":"_cfFlnHm---","tei":"\n\t\n\t\tGenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t10.1006/jmbi.1999.2583\n\t\t10191147\n\t\tS0022-2836(99)92583-4\n\t\tark:/67375/6H6-CR6RP73D-N\n\t\t6E53BA1E161754F0CC67AF6D5B68EB7BA3E136AC\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t287\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5899e7723bebd8667c685"},"refKey":32},
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{"_key":"60c5899e7723bebd8667c68c","_id":"references/60c5899e7723bebd8667c68c","_rev":"_cfFlnIG---","tei":"\n\t\n\t\tFUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties11Edited by B. Honig\n\t\t\n\t\t\tJiyeShi\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t\n\t\t\tKenjiMizuguchi\n\t\t\n\t\t10.1006/jmbi.2001.4762\n\t\t11419950\n\t\tS0022-2836(01)94762-X\n\t\tark:/67375/6H6-8P356814-H\n\t\tF56625DED4F33A6F114081248CD68318108FB080\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t310\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5899e7723bebd8667c685"},"refKey":34},
{"_key":"60c5899e7723bebd8667c68d","_id":"references/60c5899e7723bebd8667c68d","_rev":"_cfFlnIS---","tei":"\n\t\n\t\tEnhanced genome annotation using structural profiles in the program 3D-PSSM 1 1Edited by J. Thornton\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\n\t\t\n\t\t\tRobertMMaccallum\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1006/jmbi.2000.3741\n\t\t10860755\n\t\tS0022-2836(00)93741-0\n\t\tark:/67375/6H6-8C85NF0G-7\n\t\t863E87373652E5CCB981F3BC92DECFEE467C24A8\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t299\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5899e7723bebd8667c685"},"refKey":35},
{"_key":"60c589bc7723bebd8667c6c7","_id":"references/60c589bc7723bebd8667c6c7","_rev":"_cfFlnIe---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\tR Development Core Team, R\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c589bc7723bebd8667c6c6"},"refKey":24},
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{"_key":"60c58a297723bebd8667c6ec","_id":"references/60c58a297723bebd8667c6ec","_rev":"_cfFlnJW---","tei":"\n\t\n\t\tProtocol for rapid unsupervised cryo-EM structure determination using cryoSPARC software\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tJohnRubinstein\n\t\t\n\t\t\n\t\t\tDavidFleet\n\t\t\n\t\t\n\t\t\tMarcusBrubaker\n\t\t\n\t\t10.1038/protex.2017.009\n\t\n\t\n\t\tProtocol Exchange\n\t\tProtocol Exchange\n\t\t2043-0116\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c58a297723bebd8667c6e9"},"refKey":14},
{"_key":"60c58a4b7723bebd8667c6fc","_id":"references/60c58a4b7723bebd8667c6fc","_rev":"_cfFlnJi---","tei":"\n\t\n\t\tContact-Based Model for Epidemic Spreading on Temporal Networks\n\t\t\n\t\t\tAndreasKoher\n\t\t\t0000-0001-7049-9538\n\t\t\n\t\t\n\t\t\tHartmutH KLentz\n\t\t\n\t\t\n\t\t\tJamesPGleeson\n\t\t\n\t\t\n\t\t\tPhilippHövel\n\t\t\n\t\t10.1103/physrevx.9.031017\n\t\t\n\t\t\n\t\n\t\n\t\tPhysical Review X\n\t\tPhys. Rev. X\n\t\t2160-3308\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\tAmerican Physical Society (APS)\n\t\t\n\t\n\n","document":{"$oid":"60c58a4b7723bebd8667c6fb"},"refKey":56},
{"_key":"60c58a8e7723bebd8667c71c","_id":"references/60c58a8e7723bebd8667c71c","_rev":"_cfFlnJq---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58a8e7723bebd8667c71b"},"refKey":17},
{"_key":"60c58a937723bebd8667c736","_id":"references/60c58a937723bebd8667c736","_rev":"_cfFlnJ2---","tei":"\n\t\n\t\tLess Is More: An Adaptive Branch-Site Random Effects Model for Efficient Detection of Episodic Diversifying Selection\n\t\t\n\t\t\tMartinDSmith\n\t\t\n\t\t\n\t\t\tJoelOWertheim\n\t\t\n\t\t\n\t\t\tStevenWeaver\n\t\t\n\t\t\n\t\t\tBenMurrell\n\t\t\n\t\t\n\t\t\tKonradScheffler\n\t\t\n\t\t\n\t\t\tSergeiLKosakovsky Pond\n\t\t\n\t\t10.1093/molbev/msv022\n\t\t25697341\n\t\tPMC4408413\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c58a937723bebd8667c735"},"refKey":21},
{"_key":"60c58aa47723bebd8667c740","_id":"references/60c58aa47723bebd8667c740","_rev":"_cfFlnKC---","tei":"\n\t\n\t\t\n\t\t\tPGoloboff\n\t\t\n\t\t\n\t\t\tSFarris\n\t\t\n\t\t\n\t\t\tKNixon\n\t\t\n\t\t\n\t\tTNT: Tree Analysis Using New Technologies. Software package distributed by the authors and available at\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58aa47723bebd8667c73f"},"refKey":14},
{"_key":"60c58aa67723bebd8667c74f","_id":"references/60c58aa67723bebd8667c74f","_rev":"_cfFlnKO---","tei":"\n\t\n\t\tA New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tNeilMFerguson\n\t\t\n\t\t\n\t\t\tChristopheFraser\n\t\t\n\t\t\n\t\t\tSimonCauchemez\n\t\t\n\t\t10.1093/aje/kwt133\n\t\t24043437\n\t\tPMC3816335\n\t\t\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t1476-6256\n\t\t\n\t\t\t178\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c58aa67723bebd8667c74e"},"refKey":54},
{"_key":"60c58ab57723bebd8667c75d","_id":"references/60c58ab57723bebd8667c75d","_rev":"_cfFlnKW---","tei":"\n\t\n\t\tImproved protein-ligand docking using GOLD\n\t\t\n\t\t\tMarcelLVerdonk\n\t\t\n\t\t\n\t\t\tJasonCCole\n\t\t\n\t\t\n\t\t\tMichaelJHartshorn\n\t\t\n\t\t\n\t\t\tChristopherWMurray\n\t\t\n\t\t\n\t\t\tRichardDTaylor\n\t\t\n\t\t10.1002/prot.10465\n\t\t12910460\n\t\tark:/67375/WNG-D94K499W-7\n\t\t602905DD6AF302ED980866A6C30DAA8C96AD605F\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t52\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c58ab57723bebd8667c75c"},"refKey":21},
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{"_key":"60c58b177723bebd8667c7a7","_id":"references/60c58b177723bebd8667c7a7","_rev":"_cfFlnLO---","tei":"\n\t\n\t\tCalypso: a user-friendly web-server for mining and visualizing microbiome–environment interactions\n\t\t\n\t\t\tMarthaZakrzewski\n\t\t\n\t\t\n\t\t\tCarlaProietti\n\t\t\n\t\t\n\t\t\tJonathanJEllis\n\t\t\n\t\t\n\t\t\tShihabHasan\n\t\t\n\t\t\n\t\t\tMarie-JoBrion\n\t\t\n\t\t\n\t\t\tBernardBerger\n\t\t\n\t\t\n\t\t\tLutzKrause\n\t\t\n\t\t10.1093/bioinformatics/btw725\n\t\t28025202\n\t\tPMC5408814\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t5\n\t\t\tbtw725\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c58b177723bebd8667c7a4"},"refKey":45},
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{"_key":"60c58b257723bebd8667c7b0","_id":"references/60c58b257723bebd8667c7b0","_rev":"_cfFlnLm---","tei":"\n\t\n\t\tMiXCR: software for comprehensive adaptive immunity profiling\n\t\t\n\t\t\tDmitriyABolotin\n\t\t\n\t\t\n\t\t\tStanislavPoslavsky\n\t\t\n\t\t\n\t\t\tIgorMitrophanov\n\t\t\t0000-0002-5370-2706\n\t\t\n\t\t\n\t\t\tMikhailShugay\n\t\t\t0000-0001-7826-7942\n\t\t\n\t\t\n\t\t\tIlgarZMamedov\n\t\t\n\t\t\n\t\t\tEkaterinaVPutintseva\n\t\t\n\t\t\n\t\t\tDmitriyMChudakov\n\t\t\t0000-0003-0430-790X\n\t\t\n\t\t10.1038/nmeth.3364\n\t\t25924071\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c58b257723bebd8667c7ae"},"refKey":3},
{"_key":"60c58b4f7723bebd8667c7c9","_id":"references/60c58b4f7723bebd8667c7c9","_rev":"_cfFlnLy---","tei":"\n\t\n\t\tBioEdit: A User-Friendly Biological Sequence Alignment Editor and Analysis Program for Windows 95/98/ NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids: Symposium Series\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58b4f7723bebd8667c7c8"},"refKey":22},
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{"_key":"60c58b4f7723bebd8667c7cd","_id":"references/60c58b4f7723bebd8667c7cd","_rev":"_cfFlnMe---","tei":"\n\t\n\t\tRDP: detection of recombination amongst aligned sequences\n\t\t\n\t\t\tDMartin\n\t\t\n\t\t\n\t\t\tERybicki\n\t\t\n\t\t10.1093/bioinformatics/16.6.562\n\t\t10980155\n\t\t1460-2059\n\t\tark:/67375/HXZ-HFGKCW1P-T\n\t\t23BD6F406EB9238187A4D94959477721DBE8EFE2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c58b4f7723bebd8667c7c8"},"refKey":40},
{"_key":"60c58b4f7723bebd8667c7ce","_id":"references/60c58b4f7723bebd8667c7ce","_rev":"_cfFlnMm---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58b4f7723bebd8667c7c8"},"refKey":31},
{"_key":"60c58b767723bebd8667c7ed","_id":"references/60c58b767723bebd8667c7ed","_rev":"_cfFlnMy---","tei":"\n\t\n\t\tLearning to Rank from Medical Imaging Data\n\t\t\n\t\t\tFabianPedregosa\n\t\t\n\t\t\n\t\t\tElodieCauvet\n\t\t\n\t\t\n\t\t\tGaëlVaroquaux\n\t\t\n\t\t\n\t\t\tChristophePallier\n\t\t\n\t\t\n\t\t\tBertrandThirion\n\t\t\n\t\t\n\t\t\tAlexandreGramfort\n\t\t\n\t\t10.1007/978-3-642-35428-1_29\n\t\t\n\t\n\t\n\t\tMachine Learning in Medical Imaging\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58b767723bebd8667c7ec"},"refKey":65},
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{"_key":"60c58b867723bebd8667c7f9","_id":"references/60c58b867723bebd8667c7f9","_rev":"_cfFlnNK---","tei":"\n\t\n\t\tDeciphering key features in protein structures with the new ENDscript server\n\t\t\n\t\t\tXRobert\n\t\t\n\t\t\n\t\t\tPGouet\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c58b867723bebd8667c7f7"},"refKey":18},
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{"_key":"60c58bbd7723bebd8667c81c","_id":"references/60c58bbd7723bebd8667c81c","_rev":"_cfFlnNe---","tei":"\n\t\n\t\tHydrophobic cluster analysis: An efficient new way to compare and analyse amino acid sequences\n\t\t\n\t\t\tCGaboriaud\n\t\t\n\t\t\n\t\t\tVBissery\n\t\t\n\t\t\n\t\t\tTBenchetrit\n\t\t\n\t\t\n\t\t\tJPMornon\n\t\t\n\t\t10.1016/0014-5793(87)80439-8\n\t\t3678489\n\t\n\t\n\t\tFEBS Letters\n\t\t0014-5793\n\t\t\n\t\t\t224\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c58bbd7723bebd8667c81b"},"refKey":19},
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{"_key":"60c58c377723bebd8667c865","_id":"references/60c58c377723bebd8667c865","_rev":"_cfFlnOC---","tei":"\n\t\n\t\tThe RISKSUR EVA Tool (Survtool): a tool for the integrated evaluation of animal health surveillance systems\n\t\t\n\t\t\tMarisaPeyre\n\t\t\n\t\t\n\t\t\tLindaHoinville\n\t\t\n\t\t\n\t\t\tJamesNjoroge\n\t\t\n\t\t\n\t\t\tAngusCameron\n\t\t\n\t\t\n\t\t\tDanielTraon\n\t\t\n\t\t\n\t\t\tFlavieGoutard\n\t\t\t0000-0002-8618-4132\n\t\t\n\t\t\n\t\t\tClémentineCalba\n\t\t\n\t\t\n\t\t\tVladimirGrosbois\n\t\t\n\t\t\n\t\t\tAlexisDelabouglise\n\t\t\t0000-0001-5837-7052\n\t\t\n\t\t\n\t\t\tViktorVarant\n\t\t\n\t\t\n\t\t\tJulianDrewe\n\t\t\n\t\t\n\t\t\tDirkPfeiffer\n\t\t\t0000-0001-7000-0530\n\t\t\n\t\t\n\t\t\tBarbaraHäsler\n\t\t\n\t\t10.1016/j.prevetmed.2019.104777\n\t\n\t\n\t\tPreventive Veterinary Medicine\n\t\tPreventive Veterinary Medicine\n\t\t0167-5877\n\t\t\n\t\t\t104777\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c58c377723bebd8667c864"},"refKey":6},
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{"_key":"60c58c547723bebd8667c870","_id":"references/60c58c547723bebd8667c870","_rev":"_cfFlnOu---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c58c547723bebd8667c86c"},"refKey":29},
{"_key":"60c58c547723bebd8667c871","_id":"references/60c58c547723bebd8667c871","_rev":"_cfFlnO6---","tei":"\n\t\n\t\tMolecular evolutionary genetics analysis (MEGA) for macOS\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58c547723bebd8667c86c"},"refKey":30},
{"_key":"60c58c547723bebd8667c872","_id":"references/60c58c547723bebd8667c872","_rev":"_cfFlnPC---","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58c547723bebd8667c86c"},"refKey":36},
{"_key":"60c58c547723bebd8667c873","_id":"references/60c58c547723bebd8667c873","_rev":"_cfFlnPO---","tei":"\n\t\n\t\tTools for integrated sequence-structure analysis with UCSF chimera\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t7\n\t\t\t339\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58c547723bebd8667c86c"},"refKey":37},
{"_key":"60c58c697723bebd8667c88d","_id":"references/60c58c697723bebd8667c88d","_rev":"_cfFlnPa---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58c697723bebd8667c88c"},"refKey":54},
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{"_key":"60c58c757723bebd8667c89c","_id":"references/60c58c757723bebd8667c89c","_rev":"_cfFlnPu---","tei":"\n\t\n\t\tSocialmixr: social mixing matrices for infectious disease modelling\n\t\t\n\t\t\tSFunk\n\t\t\n\t\t\n\t\t\n\t\n\tR package version 0.1.6. 2020.\n\n","document":{"$oid":"60c58c757723bebd8667c89b"},"refKey":15},
{"_key":"60c58c757723bebd8667c89d","_id":"references/60c58c757723bebd8667c89d","_rev":"_cfFlnP6---","tei":"\n\t\n\t\tShiny: web application framework for R. R package version 1.2.0\n\t\t\n\t\t\tWChang\n\t\t\n\t\t\n\t\t\tJCheng\n\t\t\n\t\t\n\t\t\tJJAllaire\n\t\t\n\t\t\n\t\t\tYXie\n\t\t\n\t\t\n\t\t\tJMcpherson\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58c757723bebd8667c89b"},"refKey":14},
{"_key":"60c58ca37723bebd8667c8ba","_id":"references/60c58ca37723bebd8667c8ba","_rev":"_cfFlnQG---","tei":"\n\t\n\t\tMEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tSinaBeier\n\t\t\n\t\t\n\t\t\tIsabellFlade\n\t\t\n\t\t\n\t\t\tAnnaGórska\n\t\t\t0000-0003-3305-8711\n\t\t\n\t\t\n\t\t\tMohamedEl-Hadidi\n\t\t\t0000-0002-0360-3654\n\t\t\n\t\t\n\t\t\tSuparnaMitra\n\t\t\t0000-0002-9378-1496\n\t\t\n\t\t\n\t\t\tHans-JoachimRuscheweyh\n\t\t\n\t\t\n\t\t\tRewatiTappu\n\t\t\n\t\t10.1371/journal.pcbi.1004957\n\t\t27327495\n\t\tPMC4915700\n\t\tdoi: 10.1371/ journal.pcbi.1004957\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\te1004957\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c58ca37723bebd8667c8b9"},"refKey":16},
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{"_key":"60c58d2f7723bebd8667c8ec","_id":"references/60c58d2f7723bebd8667c8ec","_rev":"_cfFlnQa---","tei":"\n\t\n\t\tMarginal Loss for Deep Face Recognition\n\t\t\n\t\t\tJiankangDeng\n\t\t\n\t\t\n\t\t\tYuxiangZhou\n\t\t\n\t\t\n\t\t\tStefanosZafeiriou\n\t\t\n\t\t10.1109/cvprw.2017.251\n\t\t\n\t\n\t\n\t\t2017 IEEE Conference on Computer Vision and Pattern Recognition Workshops (CVPRW)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58d2f7723bebd8667c8ea"},"refKey":3},
{"_key":"60c58d2f7723bebd8667c8ed","_id":"references/60c58d2f7723bebd8667c8ed","_rev":"_cfFlnQm---","tei":"\n\t\n\t\tCosface: Large margin cosine loss for deep face recognition\n\t\t\n\t\t\tHWang\n\t\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tZZhou\n\t\t\n\t\t\n\t\t\tJiXGong\n\t\t\n\t\t\n\t\t\tDZhou\n\t\t\n\t\t\n\t\t\tJLi\n\t\t\n\t\t\n\t\t\tZLiu\n\t\t\n\t\t\n\t\t\tW\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58d2f7723bebd8667c8ea"},"refKey":4},
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{"_key":"60c58deb7723bebd8667c951","_id":"references/60c58deb7723bebd8667c951","_rev":"_cfFlnRS---","tei":"\n\t\n\t\tHighly efficient DSB-free base editing for streptomycetes with CRISPR-BEST\n\t\t\n\t\t\tYaojunTong\n\t\t\t0000-0003-4042-2462\n\t\t\n\t\t\n\t\t\tChristopherMWhitford\n\t\t\n\t\t\n\t\t\tHeleneLRobertsen\n\t\t\n\t\t\n\t\t\tKaiBlin\n\t\t\n\t\t\n\t\t\tTueSJørgensen\n\t\t\n\t\t\n\t\t\tAndreasKKlitgaard\n\t\t\n\t\t\n\t\t\tTetianaGren\n\t\t\n\t\t\n\t\t\tXinglinJiang\n\t\t\n\t\t\n\t\t\tTilmannWeber\n\t\t\t0000-0002-8260-5120\n\t\t\n\t\t\n\t\t\tSangYupLee\n\t\t\t0000-0003-0599-3091\n\t\t\n\t\t10.1073/pnas.1913493116\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProc Natl Acad Sci USA\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t201913493\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c58deb7723bebd8667c950"},"refKey":14},
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{"_key":"60c58eb17723bebd8667ca48","_id":"references/60c58eb17723bebd8667ca48","_rev":"_cfFlnWG---","tei":"\n\t\n\t\tGenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t10.1006/jmbi.1999.2583\n\t\t10191147\n\t\tS0022-2836(99)92583-4\n\t\tark:/67375/6H6-CR6RP73D-N\n\t\t6E53BA1E161754F0CC67AF6D5B68EB7BA3E136AC\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t287\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c58eb17723bebd8667ca47"},"refKey":15},
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{"_key":"60c58eb17723bebd8667ca4a","_id":"references/60c58eb17723bebd8667ca4a","_rev":"_cfFlnWe---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58eb17723bebd8667ca47"},"refKey":13},
{"_key":"60c58eb17723bebd8667ca4b","_id":"references/60c58eb17723bebd8667ca4b","_rev":"_cfFlnWq---","tei":"\n\t\n\t\tProtein secondary structure prediction based on position-specific scoring matrices\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t292\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58eb17723bebd8667ca47"},"refKey":14},
{"_key":"60c58ec17723bebd8667ca5d","_id":"references/60c58ec17723bebd8667ca5d","_rev":"_cfFlnWy---","tei":"\n\t\n\t\tFastQC: a quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58ec17723bebd8667ca5c"},"refKey":3},
{"_key":"60c58ec17723bebd8667ca5e","_id":"references/60c58ec17723bebd8667ca5e","_rev":"_cfFlnX----","tei":"\n\t\n\t\tDifferential Expression of Viral Transcripts From Single-Cell RNA Sequencing of Moderate and Severe COVID-19 Patients and Its Implications for Case Severity\n\t\t\n\t\t\tTLiu\n\t\t\n\t\t\n\t\t\tPJia\n\t\t\n\t\t\n\t\t\tBFang\n\t\t\n\t\t\n\t\t\tZZhao\n\t\t\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t\n\t\t\tRJMason\n\t\t\n\t\n\t\n\t\tFrontiers in Microbiology\n\t\t\n\t\t\t11\n\t\t\t55\n\t\t\t\n\t\t\n\t\n\tEur Respir J\n\n","document":{"$oid":"60c58ec17723bebd8667ca5c"},"refKey":46},
{"_key":"60c58ec17723bebd8667ca5f","_id":"references/60c58ec17723bebd8667ca5f","_rev":"_cfFlnXK---","tei":"\n\t\n\t\tOrchestrating high-throughput genomic analysis with Bioconductor\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tVJCarey\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t\n\t\t\tMCarlson\n\t\t\n\t\t\n\t\t\tBSCarvalho\n\t\t\n\t\t\n\t\t\tHCBravo\n\t\t\n\t\t\n\t\t\tSDavis\n\t\t\n\t\t\n\t\t\tLGatto\n\t\t\n\t\t\n\t\t\tTGirke\n\t\t\n\t\t\n\t\t\tRGottardo\n\t\t\n\t\t\n\t\t\tFHahne\n\t\t\n\t\t\n\t\t\tKDHansen\n\t\t\n\t\t\n\t\t\tRAIrizarry\n\t\t\n\t\t\n\t\t\tMLawrence\n\t\t\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tJMacdonald\n\t\t\n\t\t\n\t\t\tVObenchain\n\t\t\n\t\t\n\t\t\tAKOles\n\t\t\n\t\t\n\t\t\tHPages\n\t\t\n\t\t\n\t\t\tAReyes\n\t\t\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tDTenenbaum\n\t\t\n\t\t\n\t\t\tLWaldron\n\t\t\n\t\t\n\t\t\tMMorgan\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58ec17723bebd8667ca5c"},"refKey":35},
{"_key":"60c58ec17723bebd8667ca60","_id":"references/60c58ec17723bebd8667ca60","_rev":"_cfFlnXW---","tei":"\n\t\n\t\tfeatureCounts: an efficient general purpose program for assigning sequence reads to genomic features\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58ec17723bebd8667ca5c"},"refKey":44},
{"_key":"60c58ee07723bebd8667ca83","_id":"references/60c58ee07723bebd8667ca83","_rev":"_cfFlnXi---","tei":"\n\t\n\t\tNetMHCcons: a consensus method for the major histocompatibility complex class I predictions\n\t\t\n\t\t\tEditaKarosiene\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1007/s00251-011-0579-8\n\t\t22009319\n\t\tark:/67375/VQC-3D9KTCPT-S\n\t\t8A18E39B733AEED7D996E5852127763615645F4C\n\t\t14.5.1-.5.2\n\t\n\t\n\t\tImmunogenetics\n\t\tImmunogenetics\n\t\t0093-7711\n\t\t1432-1211\n\t\t\n\t\t\t64\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\tImmunogenetics\n\n","document":{"$oid":"60c58ee07723bebd8667ca82"},"refKey":22},
{"_key":"60c58f047723bebd8667caa0","_id":"references/60c58f047723bebd8667caa0","_rev":"_cfFlnXu---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\n\t\n\t\tJoint CCP4 and ESF-EACBM Newsletter on Protein Crystallography\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58f047723bebd8667ca9f"},"refKey":2},
{"_key":"60c58f047723bebd8667caa1","_id":"references/60c58f047723bebd8667caa1","_rev":"_cfFlnX2---","tei":"\n\t\n\t\tCrystallography and NMR system: a new software suite for macromolecular structure determination\n\t\t\n\t\t\tATBrunger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tGMClore\n\t\t\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tPGros\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tJSJiang\n\t\t\n\t\t\n\t\t\tJKuszewski\n\t\t\n\t\t\n\t\t\tMNilges\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58f047723bebd8667ca9f"},"refKey":1},
{"_key":"60c58f047723bebd8667caa2","_id":"references/60c58f047723bebd8667caa2","_rev":"_cfFlnYC---","tei":"\n\t\n\t\t\n\t\t\tYJones\n\t\t\n\t\t\n\t\t\tDStuart\n\t\t\n\t\tProceedings of CCP4 Study Weekend on Isomorphous Replacement And Anomalous Scattering\n\t\t\t\tCCP4 Study Weekend on Isomorphous Replacement And Anomalous Scattering\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58f047723bebd8667ca9f"},"refKey":7},
{"_key":"60c58f047723bebd8667caa3","_id":"references/60c58f047723bebd8667caa3","_rev":"_cfFlnYO---","tei":"\n\t\n\t\tSoftware for handling macromolecular envelopes\n\t\t\n\t\t\tGJacobKleywegt\n\t\t\n\t\t\n\t\t\tThomasAJones\n\t\t\n\t\t10.1107/s0907444999001031\n\t\t10089342\n\t\tark:/67375/WNG-3ZNDF9CD-Z\n\t\t61C5DDA0A00B30FC98CED9519B8F3B4736B71B79\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t55\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c58f047723bebd8667ca9f"},"refKey":8},
{"_key":"60c58f047723bebd8667caa4","_id":"references/60c58f047723bebd8667caa4","_rev":"_cfFlnYa---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58f047723bebd8667ca9f"},"refKey":12},
{"_key":"60c58f047723bebd8667caa5","_id":"references/60c58f047723bebd8667caa5","_rev":"_cfFlnYi---","tei":"\n\t\n\t\tThe CCP4 Suite-programs for protein crystallography\n\t\t\n\t\t\tSBailey\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58f047723bebd8667ca9f"},"refKey":0},
{"_key":"60c58f077723bebd8667cab5","_id":"references/60c58f077723bebd8667cab5","_rev":"_cfFlnYu---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c58f077723bebd8667cab3"},"refKey":13},
{"_key":"60c58f077723bebd8667cab7","_id":"references/60c58f077723bebd8667cab7","_rev":"_cfFlnY6---","tei":"\n\t\n\t\tRobust relationship inference in genome-wide association studies\n\t\t\n\t\t\tAManichaikul\n\t\t\n\t\t\n\t\t\tJCMychaleckyj\n\t\t\n\t\t\n\t\t\tSSRich\n\t\t\n\t\t\n\t\t\tKDaly\n\t\t\n\t\t\n\t\t\tMSale\n\t\t\n\t\t\n\t\t\tWMChen\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58f077723bebd8667cab4"},"refKey":43},
{"_key":"60c58f077723bebd8667cab8","_id":"references/60c58f077723bebd8667cab8","_rev":"_cfFlnZG---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tR Foundation for Statistical Computing\n\t\t\n\t\n\n","document":{"$oid":"60c58f077723bebd8667cab4"},"refKey":60},
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{"_key":"60c58f077723bebd8667caba","_id":"references/60c58f077723bebd8667caba","_rev":"_cfFlnZa---","tei":"\n\t\n\t\tPolygenic scores via penalized regression on summary statistics\n\t\t\n\t\t\tTimothyShin HengMak\n\t\t\t0000-0002-2151-2406\n\t\t\n\t\t\n\t\t\tRobertMilanPorsch\n\t\t\n\t\t\n\t\t\tShingWanChoi\n\t\t\n\t\t\n\t\t\tXueyaZhou\n\t\t\n\t\t\n\t\t\tPakChungSham\n\t\t\n\t\t10.1002/gepi.22050\n\t\t28480976\n\t\t\n\t\n\t\n\t\tGenetic Epidemiology\n\t\tGenet. Epidemiol.\n\t\t0741-0395\n\t\t\n\t\t\t41\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c58f077723bebd8667cab4"},"refKey":28},
{"_key":"60c58f127723bebd8667caf7","_id":"references/60c58f127723bebd8667caf7","_rev":"_cfFlnZm---","tei":"\n\t\n\t\tApplication of a post-docking procedure based on MM-PBSA and MM-GBSA on single and multiple protein conformations\n\t\t\n\t\t\tMiriamSgobba\n\t\t\n\t\t\n\t\t\tFabianaCaporuscio\n\t\t\n\t\t\n\t\t\tAndrewAnighoro\n\t\t\n\t\t\n\t\t\tCorinnePortioli\n\t\t\n\t\t\n\t\t\tGiulioRastelli\n\t\t\n\t\t10.1016/j.ejmech.2012.10.024\n\t\t23153814\n\t\n\t\n\t\tEuropean Journal of Medicinal Chemistry\n\t\tEuropean Journal of Medicinal Chemistry\n\t\t0223-5234\n\t\t\n\t\t\t58\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c58f127723bebd8667caf6"},"refKey":29},
{"_key":"60c58f127723bebd8667caf8","_id":"references/60c58f127723bebd8667caf8","_rev":"_cfFlnZy---","tei":"\n\t\n\t\tAssessing the performance of mm/pbsa and mm/gbsa methods. 5. improved docking performance using high solute dielectric constant mm/gbsa and mm/pbsa rescoring\n\t\t\n\t\t\tHSun\n\t\t\n\t\n\t\n\t\tPhys. Chem. Chem. Phys\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58f127723bebd8667caf6"},"refKey":59},
{"_key":"60c58f2c7723bebd8667cb17","_id":"references/60c58f2c7723bebd8667cb17","_rev":"_cfFlna----","tei":"\n\t\n\t\tParameter-free Probabilistic API Mining across GitHub\n\t\t\n\t\t\tJFowkes\n\t\t\n\t\t\n\t\t\tCSutton\n\t\t\n\t\n\t\n\t\tProceedings of the 2016 24th ACM SIGSOFT International Symposium on Foundations of Software Engineering\n\t\t\t\tthe 2016 24th ACM SIGSOFT International Symposium on Foundations of Software EngineeringNew York, NY, USA\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58f2c7723bebd8667cb16"},"refKey":8},
{"_key":"60c58f2c7723bebd8667cb18","_id":"references/60c58f2c7723bebd8667cb18","_rev":"_cfFlnaG---","tei":"\n\t\n\t\tSeahawk: Stack Overflow in the IDE\n\t\t\n\t\t\tLPonzanelli\n\t\t\n\t\t\n\t\t\tABacchelli\n\t\t\n\t\t\n\t\t\tMLanza\n\t\t\n\t\n\t\n\t\tProceedings of the 2013 International Conference on Software Engineering\n\t\t\t\tthe 2013 International Conference on Software EngineeringPiscataway, NJ, USA\n\t\t\n\t\t\tIEEE Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tICSE '13\n\n","document":{"$oid":"60c58f2c7723bebd8667cb16"},"refKey":20},
{"_key":"60c58f2c7723bebd8667cb19","_id":"references/60c58f2c7723bebd8667cb19","_rev":"_cfFlnaS---","tei":"\n\t\n\t\tDeep API Learning\n\t\t\n\t\t\tXGu\n\t\t\n\t\t\n\t\t\tHZhang\n\t\t\n\t\t\n\t\t\tDZhang\n\t\t\n\t\t\n\t\t\tSKim\n\t\t\n\t\n\t\n\t\tProceedings of the 2016 24th ACM SIGSOFT International Symposium on Foundations of Software Engineering\n\t\t\t\tthe 2016 24th ACM SIGSOFT International Symposium on Foundations of Software EngineeringNew York, NY, USA\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58f2c7723bebd8667cb16"},"refKey":9},
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{"_key":"60c58f2c7723bebd8667cb25","_id":"references/60c58f2c7723bebd8667cb25","_rev":"_cfFlncq---","tei":"\n\t\n\t\tTowards an Intelligent Code Search Engine\n\t\t\n\t\t\tJKim\n\t\t\n\t\t\n\t\t\tSLee\n\t\t\n\t\t\n\t\t\tSWHwang\n\t\t\n\t\t\n\t\t\tSKim\n\t\t\n\t\n\t\n\t\tProceedings of the 24th AAAI Conference on Artificial Intelligence\n\t\t\t\tthe 24th AAAI Conference on Artificial IntelligencePalo Alto, CA, USA\n\t\t\n\t\t\tAAAI Press\n\t\t\t\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58f2c7723bebd8667cb16"},"refKey":13},
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{"_key":"60c58fbc7723bebd8667cbf0","_id":"references/60c58fbc7723bebd8667cbf0","_rev":"_cfFlnea---","tei":"\n\t\n\t\tA Feasible Estimator for Linear Models with Multi-Way Fixed Effects\n\t\t\n\t\t\tSCorreia\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c58fbc7723bebd8667cbef"},"refKey":8},
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{"_key":"60c58ff67723bebd8667cc11","_id":"references/60c58ff67723bebd8667cc11","_rev":"_cfFlney---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tDeLano Scientific\n\t\t\tSan Carlos, CA\n\t\t\n\t\n\n","document":{"$oid":"60c58ff67723bebd8667cc10"},"refKey":9},
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{"_key":"60c590f47723bebd8667cce3","_id":"references/60c590f47723bebd8667cce3","_rev":"_cfFlnhy---","tei":"\n\t\n\t\tAutomated production of small-molecule dictionaries for use in crystallographic refinements\n\t\t\n\t\t\tRichardBGreaves\n\t\t\n\t\t\n\t\t\tAlexeiAVagin\n\t\t\n\t\t\n\t\t\tEleanorJDodson\n\t\t\n\t\t10.1107/s0907444999006204\n\t\t10393300\n\t\tark:/67375/WNG-CL97ZR1K-S\n\t\tFF902691B42C4A98AE28EA7FCD3649EC27A95400\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t55\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c590f47723bebd8667ccdd"},"refKey":11},
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{"_key":"60c590f47723bebd8667cce5","_id":"references/60c590f47723bebd8667cce5","_rev":"_cfFlniG---","tei":"\n\t\n\t\tDatabases in Protein Crystallography\n\t\t\n\t\t\tGerardJKleywegt\n\t\t\n\t\t\n\t\t\tTAlwynJones\n\t\t\n\t\t10.1107/s0907444998007100\n\t\t10089488\n\t\tark:/67375/WNG-3ZML49Z9-H\n\t\t2E248D0037C2664B62D516406A5FBB57D106CDC7\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t54\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c590f47723bebd8667ccdd"},"refKey":14},
{"_key":"60c590f47723bebd8667cce6","_id":"references/60c590f47723bebd8667cce6","_rev":"_cfFlniS---","tei":"\n\t\n\t\tAutomated ligand placement and refinement with a combined force field and shape potential\n\t\t\n\t\t\tSWlodek\n\t\t\n\t\t\n\t\t\tAGSkillman\n\t\t\n\t\t\n\t\t\tANicholls\n\t\t\n\t\t10.1107/s0907444906016076\n\t\t16790930\n\t\tark:/67375/WNG-0VQWPWS0-R\n\t\t55A7F3E612B0347F5BAFF5AAB186D65A886E0E3F\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t62\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c590f47723bebd8667ccdd"},"refKey":28},
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{"_key":"60c592de7723bebd8667ced5","_id":"references/60c592de7723bebd8667ced5","_rev":"_cfFlnpG---","tei":"\n\t\n\t\tBreaking and fixing VoLTE: exploiting hidden data channels and mis-implementations\n\t\t\n\t\t\tHKim\n\t\t\n\t\n\t\n\t\tProceedings of ACM CCS\n\t\t\t\tACM CCS\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":4},
{"_key":"60c592de7723bebd8667ced6","_id":"references/60c592de7723bebd8667ced6","_rev":"_cfFlnpS---","tei":"\n\t\n\t\tAppIntent: analyzing sensitive data transmission in Android for privacy leakage detection\n\t\t\n\t\t\tZYang\n\t\t\n\t\t\n\t\t\tMYang\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tGGu\n\t\t\n\t\t\n\t\t\tPNing\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\n\t\n\t\tProceedings of the ACM CCS\n\t\t\t\tthe ACM CCS\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":41},
{"_key":"60c592de7723bebd8667ced7","_id":"references/60c592de7723bebd8667ced7","_rev":"_cfFlnpa---","tei":"\n\t\n\t\tAutoFuzz: automated network protocol fuzzing framework\n\t\t\n\t\t\tSGorbunov\n\t\t\n\t\t\n\t\t\tARosenbloom\n\t\t\n\t\n\t\n\t\tJ. Comput. Sci. Network Secur\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":33},
{"_key":"60c592de7723bebd8667ced8","_id":"references/60c592de7723bebd8667ced8","_rev":"_cfFlnpm---","tei":"\n\t\n\t\tProtocol state fuzzing of TLS implementations\n\t\t\n\t\t\tJRuiter\n\t\t\n\t\t\n\t\t\tEPoll\n\t\t\n\t\n\t\n\t\tProceedings of the USENIX Security\n\t\t\t\tthe USENIX Security\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":35},
{"_key":"60c592de7723bebd8667ced9","_id":"references/60c592de7723bebd8667ced9","_rev":"_cfFlnpy---","tei":"\n\t\n\t\tSystematic Fuzzing and Testing of TLS Libraries\n\t\t\n\t\t\tJurajSomorovsky\n\t\t\n\t\t10.1145/2976749.2978411\n\t\n\t\n\t\tProceedings of the 2016 ACM SIGSAC Conference on Computer and Communications Security - CCS'16\n\t\t\t\tthe 2016 ACM SIGSAC Conference on Computer and Communications Security - CCS'16\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":36},
{"_key":"60c592de7723bebd8667ceda","_id":"references/60c592de7723bebd8667ceda","_rev":"_cfFlnq----","tei":"\n\t\n\t\tSMV-Hunter: Large scale, automated detection of SSL/TLS man-in-the-middle vulnerabilities in Android apps\n\t\t\n\t\t\tDSounthiraraj\n\t\t\n\t\t\n\t\t\tJSahs\n\t\t\n\t\t\n\t\t\tGGreenwood\n\t\t\n\t\t\n\t\t\tZLin\n\t\t\n\t\t\n\t\t\tLKhan\n\t\t\n\t\n\t\n\t\tProceedings of the ISOC NDSS\n\t\t\t\tthe ISOC NDSS\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":39},
{"_key":"60c592de7723bebd8667cedb","_id":"references/60c592de7723bebd8667cedb","_rev":"_cfFlnqG---","tei":"\n\t\n\t\tTowards Analyzing the Input Validation Vulnerabilities associated with Android System Services\n\t\t\n\t\t\tChenCao\n\t\t\n\t\t\n\t\t\tNengGao\n\t\t\n\t\t\n\t\t\tPengLiu\n\t\t\n\t\t\n\t\t\tJiXiang\n\t\t\n\t\t10.1145/2818000.2818033\n\t\n\t\n\t\tProceedings of the 31st Annual Computer Security Applications Conference on - ACSAC 2015\n\t\t\t\tthe 31st Annual Computer Security Applications Conference on - ACSAC 2015\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":45},
{"_key":"60c592de7723bebd8667cedc","_id":"references/60c592de7723bebd8667cedc","_rev":"_cfFlnqS---","tei":"\n\t\n\t\tTowards Dynamically Monitoring Android Applications on Non-rooted Devices in the Wild\n\t\t\n\t\t\tXiaoxiaoTang\n\t\t\n\t\t\n\t\t\tYanLin\n\t\t\n\t\t\n\t\t\tDaoyuanWu\n\t\t\n\t\t\n\t\t\tDebinGao\n\t\t\n\t\t10.1145/3212480.3212504\n\t\n\t\n\t\tProceedings of the 11th ACM Conference on Security & Privacy in Wireless and Mobile Networks - WiSec '18\n\t\t\t\tthe 11th ACM Conference on Security & Privacy in Wireless and Mobile Networks - WiSec '18\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":42},
{"_key":"60c592de7723bebd8667cedd","_id":"references/60c592de7723bebd8667cedd","_rev":"_cfFlnqe---","tei":"\n\t\n\t\tAnalyzing Android Browser Apps for file:// Vulnerabilities\n\t\t\n\t\t\tDaoyuanWu\n\t\t\n\t\t\n\t\t\tRockyK CChang\n\t\t\n\t\t10.1007/978-3-319-13257-0_20\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":40},
{"_key":"60c592de7723bebd8667cede","_id":"references/60c592de7723bebd8667cede","_rev":"_cfFlnqq---","tei":"\n\t\n\t\tUnderstanding Open Ports in Android Applications: Discovery, Diagnosis, and Security Assessment\n\t\t\n\t\t\tDaoyuanWu\n\t\t\n\t\t\n\t\t\tDebinGao\n\t\t\n\t\t\n\t\t\tRockyK CChang\n\t\t\n\t\t\n\t\t\tEnHe\n\t\t\n\t\t\n\t\t\tEricK TCheng\n\t\t\n\t\t\n\t\t\tRobertHDeng\n\t\t\n\t\t10.14722/ndss.2019.23171\n\t\t\n\t\n\t\n\t\tProceedings 2019 Network and Distributed System Security Symposium\n\t\t\t\t2019 Network and Distributed System Security Symposium\n\t\t\n\t\t\tInternet Society\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":43},
{"_key":"60c592de7723bebd8667cedf","_id":"references/60c592de7723bebd8667cedf","_rev":"_cfFlnq2---","tei":"\n\t\n\t\tSNOOZE: Toward a Stateful NetwOrk prOtocol fuzZEr\n\t\t\n\t\t\tGregBanks\n\t\t\n\t\t\n\t\t\tMarcoCova\n\t\t\n\t\t\n\t\t\tViktoriaFelmetsger\n\t\t\n\t\t\n\t\t\tKevinAlmeroth\n\t\t\n\t\t\n\t\t\tRichardKemmerer\n\t\t\n\t\t\n\t\t\tGiovanniVigna\n\t\t\n\t\t10.1007/11836810_25\n\t\tark:/67375/HCB-TNRCC22Z-4\n\t\t95FFBCD0061AF1EC43034060C6C4453760F209DD\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":31},
{"_key":"60c592de7723bebd8667cee0","_id":"references/60c592de7723bebd8667cee0","_rev":"_cfFlnr----","tei":"\n\t\n\t\tProspex: Protocol Specification Extraction\n\t\t\n\t\t\tPaoloMilaniComparetti\n\t\t\n\t\t\n\t\t\tGilbertWondracek\n\t\t\n\t\t\n\t\t\tChristopherKruegel\n\t\t\n\t\t\n\t\t\tEnginKirda\n\t\t\n\t\t10.1109/sp.2009.14\n\t\n\t\n\t\t2009 30th IEEE Symposium on Security and Privacy\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":32},
{"_key":"60c592de7723bebd8667cee1","_id":"references/60c592de7723bebd8667cee1","_rev":"_cfFlnrK---","tei":"\n\t\n\t\tIntentFuzzer: detecting capability leaks of Android applications\n\t\t\n\t\t\tKYang\n\t\t\n\t\t\n\t\t\tLZhou\n\t\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tJZhuge\n\t\t\n\t\t\n\t\t\tHDuan\n\t\t\n\t\n\t\n\t\tProceedings of the ACM AsiaCCS\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c592de7723bebd8667ced4"},"refKey":44},
{"_key":"60c592df7723bebd8667cf24","_id":"references/60c592df7723bebd8667cf24","_rev":"_cfFlnrW---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tGet\n\t\t\n\t\n\tTweet timelines; 2020 [cite 2020 June 17\n\n","document":{"$oid":"60c592df7723bebd8667cf23"},"refKey":9},
{"_key":"60c5931a7723bebd8667cf42","_id":"references/60c5931a7723bebd8667cf42","_rev":"_cfFlnri---","tei":"\n\t\n\t\tWinBUGS: a Bayesian modelling framework: concepts, structure, and extensibility\n\t\t\n\t\t\tDJLunn\n\t\t\n\t\t\n\t\t\tAThomas\n\t\t\n\t\t\n\t\t\tNBest\n\t\t\n\t\t\n\t\t\tDSpiegelhalter\n\t\t\n\t\n\t\n\t\tStatistics and Computing\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5931a7723bebd8667cf41"},"refKey":28},
{"_key":"60c5931b7723bebd8667cf46","_id":"references/60c5931b7723bebd8667cf46","_rev":"_cfFlnru---","tei":"\n\t\n\t\tMaximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach\n\t\t\n\t\t\tPBeerli\n\t\t\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\t10.1073/pnas.081068098\n\t\t11287657\n\t\tPMC31874\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c5931b7723bebd8667cf45"},"refKey":2},
{"_key":"60c5931b7723bebd8667cf47","_id":"references/60c5931b7723bebd8667cf47","_rev":"_cfFlnr2---","tei":"\n\t\n\t\tComparison of Bayesian and maximum-likelihood inference of population genetic parameters\n\t\t\n\t\t\tPBeerli\n\t\t\n\t\t10.1093/bioinformatics/bti803\n\t\t16317072\n\t\tark:/67375/HXZ-7L254HSH-K\n\t\tB51BD52E833D43B4CC4FECA6E044E95A3111222F\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5931b7723bebd8667cf45"},"refKey":1},
{"_key":"60c5931b7723bebd8667cf48","_id":"references/60c5931b7723bebd8667cf48","_rev":"_cfFlnsC---","tei":"\n\t\n\t\tPAUP*: phylogenetic analysis using parsimony\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\t\n\t\t\t\n\t\t\tSinauer Associates\n\t\t\tSunderland, MA\n\t\t\n\t\n\n","document":{"$oid":"60c5931b7723bebd8667cf45"},"refKey":57},
{"_key":"60c5931b7723bebd8667cf49","_id":"references/60c5931b7723bebd8667cf49","_rev":"_cfFlnsO---","tei":"\n\t\n\t\tArlequin (Version 3.01): an integrated software package for population genetics data analysis. Computation and Molecular Population Genetics Lab (GMPG)\n\t\t\n\t\t\tLExcoffier\n\t\t\n\t\t\n\t\t\tGLaval\n\t\t\n\t\t\n\t\t\tSSchneider\n\t\t\n\t\t\n\t\t\t\n\t\t\tBerne, Switzerland\n\t\t\n\t\t\n\t\t\tInstitute of Zoology University of Berne\n\t\t\n\t\n\n","document":{"$oid":"60c5931b7723bebd8667cf45"},"refKey":22},
{"_key":"60c5931b7723bebd8667cf4a","_id":"references/60c5931b7723bebd8667cf4a","_rev":"_cfFlnsa---","tei":"\n\t\n\t\tApplication of phylogenetic networks in evolutionary studies\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tDBryant\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5931b7723bebd8667cf45"},"refKey":37},
{"_key":"60c5931b7723bebd8667cf4b","_id":"references/60c5931b7723bebd8667cf4b","_rev":"_cfFlnsm---","tei":"\n\t\n\t\tFast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle\n\t\t\n\t\t\tRichardDesper\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1007/3-540-45784-4_27\n\t\tark:/67375/HCB-T82SRHFK-0\n\t\t1CBB86707BCC751BD95E7FFD693A603C96885369\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5931b7723bebd8667cf45"},"refKey":12},
{"_key":"60c593377723bebd8667cf65","_id":"references/60c593377723bebd8667cf65","_rev":"_cfFlnsu---","tei":"\n\t\n\t\tThe crosstalk between bone metabolism, lncRNAs, microRNAs and mRNAs in coronary artery calcification\n\t\t\n\t\t\tZWicik\n\t\t\n\t\t\n\t\t\tLH JNeto\n\t\t\n\t\t\n\t\t\tLEGuzman\n\t\t\n\t\t\n\t\t\tRPavão\n\t\t\n\t\t\n\t\t\tLTakayama\n\t\t\n\t\t\n\t\t\tVCaparbo\n\t\t\n\t\t\n\t\t\tNLopes\n\t\t\n\t\t\n\t\t\tACPereira\n\t\t\n\t\t\n\t\t\tRMPereira\n\t\t\n\t\t10.1016/j.ygeno.2020.09.041\n\t\n\t\n\t\tGenomics\n\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c593377723bebd8667cf64"},"refKey":24},
{"_key":"60c593627723bebd8667cf84","_id":"references/60c593627723bebd8667cf84","_rev":"_cfFlns6---","tei":"\n\t\n\t\tPISCES: a protein sequence culling server\n\t\t\n\t\t\tGWang\n\t\t\n\t\t\n\t\t\tRLDunbrack\n\t\t\n\t\t10.1093/bioinformatics/btg224\n\t\t12912846\n\t\t1460-2059\n\t\tark:/67375/HXZ-T1M4V7F6-M\n\t\tA2F7746A10A46BC6815F6FE3BFD07FF60BC31BC9\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c593627723bebd8667cf83"},"refKey":40},
{"_key":"60c593627723bebd8667cf85","_id":"references/60c593627723bebd8667cf85","_rev":"_cfFlntG---","tei":"\n\t\n\t\tMyPMFs: a simple tool for creating statistical potentials to assess protein structural models\n\t\t\n\t\t\tGuillaumePostic\n\t\t\n\t\t\n\t\t\tThomasHamelryck\n\t\t\n\t\t\n\t\t\tJacquesChomilier\n\t\t\n\t\t\n\t\t\tDirkStratmann\n\t\t\n\t\t10.1016/j.biochi.2018.05.013\n\t\t29857183\n\t\t\n\t\n\t\n\t\tBiochimie\n\t\tBiochimie\n\t\t0300-9084\n\t\t\n\t\t\t151\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c593627723bebd8667cf83"},"refKey":39},
{"_key":"60c5936d7723bebd8667cf8e","_id":"references/60c5936d7723bebd8667cf8e","_rev":"_cfFlntS---","tei":"\n\t\n\t\tErratum: SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tBinghangLiu\n\t\t\n\t\t\n\t\t\tYinlongXie\n\t\t\n\t\t\n\t\t\tZhenyuLi\n\t\t\n\t\t\n\t\t\tWeihuaHuang\n\t\t\n\t\t\n\t\t\tJianyingYuan\n\t\t\n\t\t\n\t\t\tGuangzhuHe\n\t\t\n\t\t\n\t\t\tYanxiangChen\n\t\t\n\t\t\n\t\t\tQiPan\n\t\t\n\t\t\n\t\t\tYunjieLiu\n\t\t\n\t\t\n\t\t\tJingboTang\n\t\t\n\t\t\n\t\t\tGengxiongWu\n\t\t\n\t\t\n\t\t\tHaoZhang\n\t\t\n\t\t\n\t\t\tYujianShi\n\t\t\n\t\t\n\t\t\tYongLiu\n\t\t\n\t\t\n\t\t\tChangYu\n\t\t\n\t\t\n\t\t\tBoWang\n\t\t\n\t\t\n\t\t\tYaoLu\n\t\t\n\t\t\n\t\t\tChangleiHan\n\t\t\n\t\t\n\t\t\tDavidWCheung\n\t\t\n\t\t\n\t\t\tSiu-MingYiu\n\t\t\n\t\t\n\t\t\tShaoliangPeng\n\t\t\n\t\t\n\t\t\tZhuXiaoqian\n\t\t\n\t\t\n\t\t\tGuangmingLiu\n\t\t\n\t\t\n\t\t\tXiangkeLiao\n\t\t\n\t\t\n\t\t\tYingruiLi\n\t\t\n\t\t\n\t\t\tHuanmingYang\n\t\t\n\t\t\n\t\t\tJianWang\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t\n\t\t\tJunWang\n\t\t\n\t\t10.1186/s13742-015-0069-2\n\t\t26161257\n\t\tPMC4496933\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\tGigaSci\n\t\t2047-217X\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t18\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tread de novo assembler. GigaScience 1\n\n","document":{"$oid":"60c5936d7723bebd8667cf8d"},"refKey":23},
{"_key":"60c5936d7723bebd8667cf8f","_id":"references/60c5936d7723bebd8667cf8f","_rev":"_cfFlnte---","tei":"\n\t\n\t\tABySS: a parallel assembler for short read sequence data\n\t\t\n\t\t\tJTSimpson\n\t\t\n\t\t\n\t\t\tKWong\n\t\t\n\t\t\n\t\t\tSDJackman\n\t\t\n\t\t\n\t\t\tJESchein\n\t\t\n\t\t\n\t\t\tSJJones\n\t\t\n\t\t\n\t\t\tIBirol\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5936d7723bebd8667cf8d"},"refKey":35},
{"_key":"60c5936d7723bebd8667cf90","_id":"references/60c5936d7723bebd8667cf90","_rev":"_cfFlntq---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5936d7723bebd8667cf8d"},"refKey":16},
{"_key":"60c593877723bebd8667cf9e","_id":"references/60c593877723bebd8667cf9e","_rev":"_cfFlnty---","tei":"\n\t\n\t\tEfficient Bayesian mixed-model analysis increases association power in large cohorts\n\t\t\n\t\t\tPo-RuLoh\n\t\t\n\t\t\n\t\t\tGeorgeTucker\n\t\t\n\t\t\n\t\t\tBrendanKBulik-Sullivan\n\t\t\n\t\t\n\t\t\tBjarniJVilhjálmsson\n\t\t\n\t\t\n\t\t\tHilaryKFinucane\n\t\t\n\t\t\n\t\t\tRanyMSalem\n\t\t\n\t\t\n\t\t\tDanielIChasman\n\t\t\n\t\t\n\t\t\tPaulMRidker\n\t\t\n\t\t\n\t\t\tBenjaminMNeale\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t\n\t\t\tNickPatterson\n\t\t\n\t\t\n\t\t\tAlkesLPrice\n\t\t\n\t\t10.1038/ng.3190\n\t\t25642633\n\t\tPMC4342297\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t47\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c593877723bebd8667cf9d"},"refKey":116},
{"_key":"60c593877723bebd8667cf9f","_id":"references/60c593877723bebd8667cf9f","_rev":"_cfFlnu----","tei":"\n\t\n\t\tGreen Algorithms: Quantifying the carbon emissions of computation\n\t\t\n\t\t\tLLannelongue\n\t\t\n\t\t\n\t\t\tJGrealey\n\t\t\n\t\t\n\t\t\tMInouye\n\t\t\n\t\tarXiv:2007.07610\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c593877723bebd8667cf9d"},"refKey":135},
{"_key":"60c593877723bebd8667cfa0","_id":"references/60c593877723bebd8667cfa0","_rev":"_cfFlnuK---","tei":"\n\t\n\t\tReference-based phasing using the Haplotype Reference Consortium panel\n\t\t\n\t\t\tPo-RuLoh\n\t\t\n\t\t\n\t\t\tPetrDanecek\n\t\t\n\t\t\n\t\t\tPierFrancescoPalamara\n\t\t\n\t\t\n\t\t\tChristianFuchsberger\n\t\t\n\t\t\n\t\t\tYakirA Reshef\n\t\t\n\t\t\n\t\t\tHilaryK Finucane\n\t\t\n\t\t\n\t\t\tSebastianSchoenherr\n\t\t\n\t\t\n\t\t\tLukasForer\n\t\t\n\t\t\n\t\t\tShaneMccarthy\n\t\t\t0000-0002-2715-4187\n\t\t\n\t\t\n\t\t\tGoncaloRAbecasis\n\t\t\n\t\t\n\t\t\tRichardDurbin\n\t\t\t0000-0002-9130-1006\n\t\t\n\t\t\n\t\t\tAlkesL Price\n\t\t\n\t\t10.1038/ng.3679\n\t\t27694958\n\t\tPMC5096458\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t48\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c593877723bebd8667cf9d"},"refKey":105},
{"_key":"60c593877723bebd8667cfa1","_id":"references/60c593877723bebd8667cfa1","_rev":"_cfFlnuW---","tei":"\n\t\n\t\tSecond-generation PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tCCChang\n\t\t\n\t\n\t\n\t\tGigaSci\n\t\t\n\t\t\t4\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c593877723bebd8667cf9d"},"refKey":107},
{"_key":"60c593877723bebd8667cfa2","_id":"references/60c593877723bebd8667cfa2","_rev":"_cfFlnui---","tei":"\n\t\n\t\tAdjusting multiple testing in multilocus analyses using the eigenvalues of a correlation matrix\n\t\t\n\t\t\tJLi\n\t\t\n\t\t\n\t\t\tLJi\n\t\t\n\t\t10.1038/sj.hdy.6800717\n\t\t16077740\n\t\t\n\t\n\t\n\t\tHeredity\n\t\tHeredity\n\t\t0018-067X\n\t\t1365-2540\n\t\t\n\t\t\t95\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c593877723bebd8667cf9d"},"refKey":119},
{"_key":"60c593877723bebd8667cfa3","_id":"references/60c593877723bebd8667cfa3","_rev":"_cfFlnuq---","tei":"\n\t\n\t\tA Simple Correction for Multiple Testing for Single-Nucleotide Polymorphisms in Linkage Disequilibrium with Each Other\n\t\t\n\t\t\tDRNyholt\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c593877723bebd8667cf9d"},"refKey":120},
{"_key":"60c593997723bebd8667cfb8","_id":"references/60c593997723bebd8667cfb8","_rev":"_cfFlnu2---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c593997723bebd8667cfb7"},"refKey":26},
{"_key":"60c593997723bebd8667cfb9","_id":"references/60c593997723bebd8667cfb9","_rev":"_cfFlnvC---","tei":"\n\t\n\t\tR2jags: using R to run\n\t\t\n\t\t\tYSSu\n\t\t\n\t\t\n\t\t\tMYajima\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c593997723bebd8667cfb7"},"refKey":24},
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{"_key":"60c593c87723bebd8667d016","_id":"references/60c593c87723bebd8667d016","_rev":"_cfFlnva---","tei":"\n\t\n\t\tZINCPharmer: pharmacophore search of the ZINC database\n\t\t\n\t\t\tDRKoes\n\t\t\n\t\t\n\t\t\tCJCamacho\n\t\t\n\t\t10.1093/nar/gks378\n\t\t22553363\n\t\tPMC3394271\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c593c87723bebd8667d015"},"refKey":23},
{"_key":"60c594007723bebd8667d041","_id":"references/60c594007723bebd8667d041","_rev":"_cfFlnvm---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\n\t\n\t\tJ. Cheminformatics\n\t\t\n\t\t\t3\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c594007723bebd8667d040"},"refKey":42},
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{"_key":"60c594037723bebd8667d04b","_id":"references/60c594037723bebd8667d04b","_rev":"_cfFlnv6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMJTurner\n\t\t\n\t\t\n\t\t\tJJMckinnon\n\t\t\n\t\t\n\t\t\tSKWolff\n\t\t\n\t\t\n\t\t\tDJGrimwood\n\t\t\n\t\t\n\t\t\tPRSpackman\n\t\t\n\t\t\n\t\t\tDJayatilaka\n\t\t\n\t\t\n\t\t\tMASpackman\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c594037723bebd8667d049"},"refKey":23},
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{"_key":"60c59aa77723bebd8667d5e9","_id":"references/60c59aa77723bebd8667d5e9","_rev":"_cfFloCi---","tei":"\n\t\n\t\tCiteSpace II: Detecting and visualizing emerging trends and transient patterns in scientific literature\n\t\t\n\t\t\tChaomeiChen\n\t\t\n\t\t\n\t\t\tCitespace\n\t\t\n\t\t\n\t\t\tIi\n\t\t\n\t\t10.1002/asi.20317\n\t\tark:/67375/WNG-HZWS38FL-B\n\t\tD19F00272F44EDAD473EB8D22CCAFBCDBE35F8A4\n\t\t\n\t\n\t\n\t\tJournal of the American Society for Information Science and Technology\n\t\tJ. Am. Soc. Inf. Sci.\n\t\t1532-2882\n\t\t1532-2890\n\t\t\n\t\t\t57\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c59aa77723bebd8667d5e8"},"refKey":17},
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{"_key":"60c59afd7723bebd8667d651","_id":"references/60c59afd7723bebd8667d651","_rev":"_cfFloDO---","tei":"\n\t\n\t\tA recombinant pseudotyped lentivirus expressing the envelope glycoprotein of Hantaan virus induced protective immunity in mice\n\t\t\n\t\t\tLanYu\n\t\t\n\t\t\n\t\t\tWentaoBai\n\t\t\n\t\t\n\t\t\tXinganWu\n\t\t\n\t\t\n\t\t\tLiangZhang\n\t\t\n\t\t\n\t\t\tLeiZhang\n\t\t\n\t\t\n\t\t\tPuyuanLi\n\t\t\n\t\t\n\t\t\tFangWang\n\t\t\n\t\t\n\t\t\tZiyuLiu\n\t\t\n\t\t\n\t\t\tFanglinZhang\n\t\t\n\t\t\n\t\t\tZhikaiXu\n\t\t\n\t\t10.1186/1743-422x-10-301\n\t\t24093752\n\t\tPMC3851560\n\t\tdoi:10.1186/ 1743-422x-10-301\n\t\t\n\t\n\t\n\t\tVirology Journal\n\t\tVirology Journal\n\t\t1743-422X\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t301\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c59afd7723bebd8667d650"},"refKey":15},
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{"_key":"60c59b1c7723bebd8667d660","_id":"references/60c59b1c7723bebd8667d660","_rev":"_cfFloDy---","tei":"\n\t\n\t\tIntermingled Ensembles in Visual Association Cortex Encode Stimulus Identity or Predicted Outcome\n\t\t\n\t\t\tRohanNRamesh\n\t\t\n\t\t\n\t\t\tChristianRBurgess\n\t\t\n\t\t\n\t\t\tArthurUSugden\n\t\t\n\t\t\n\t\t\tMichaelGyetvan\n\t\t\n\t\t\n\t\t\tMarkLAndermann\n\t\t\n\t\t10.1016/j.neuron.2018.09.024\n\t\t30318413\n\t\t\n\t\n\t\n\t\tNeuron\n\t\tNeuron\n\t\t0896-6273\n\t\t\n\t\t\t100\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed: 30318413\n\n","document":{"$oid":"60c59b1c7723bebd8667d65e"},"refKey":20},
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{"_key":"60c59b3f7723bebd8667d78a","_id":"references/60c59b3f7723bebd8667d78a","_rev":"_cfFloFG---","tei":"\n\t\n\t\tStructure-based screening and molecular dynamics simulation studies for the identification of potential acetylcholinesterase inhibitors\n\t\t\n\t\t\tAGaneshpurkar\n\t\t\n\t\t\n\t\t\tRSingh\n\t\t\n\t\t\n\t\t\tPGGore\n\t\t\n\t\t\n\t\t\tDKumar\n\t\t\n\t\t\n\t\t\tGGutti\n\t\t\n\t\t\n\t\t\tAKumar\n\t\t\n\t\t\n\t\t\tSKSingh\n\t\t\n\t\t10.1080/08927022.2019.1682572\n\t\t\n\t\n\t\n\t\tMolecular Simulation\n\t\t\n\t\t\t46\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59b3f7723bebd8667d788"},"refKey":17},
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{"_key":"60c59c097723bebd8667d862","_id":"references/60c59c097723bebd8667d862","_rev":"_cfFloHq---","tei":"\n\t\n\t\tProtein NMR structure determination with automated NOE-identification in the NOESY spectra using the new software ATNOS\n\t\t\n\t\t\tTHerrmann\n\t\t\n\t\t\n\t\t\tPGu\n\t\t\n\t\t\n\t\t\tKWu\n\t\t\n\t\n\t\n\t\tJ. Biomol. NMR\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59c097723bebd8667d860"},"refKey":17},
{"_key":"60c59c097723bebd8667d863","_id":"references/60c59c097723bebd8667d863","_rev":"_cfFloHy---","tei":"\n\t\n\t\tOptimizing the process of NMR spectrum analysis and computer aided resonance assignment. Thesis. ETH Zu ¨rich no. 15947\n\t\t\n\t\t\tRL JKeller\n\t\t\n\t\t\n\t\t\t\n\t\t\tSwitzerland\n\t\t\n\t\t\n\t\t\tSwiss Federal Institute of Technology Zu ¨rich, Zu ¨rich\n\t\t\n\t\n\n","document":{"$oid":"60c59c097723bebd8667d860"},"refKey":22},
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{"_key":"60c59d3f7723bebd8667d93f","_id":"references/60c59d3f7723bebd8667d93f","_rev":"_cfFloKu---","tei":"\n\t\n\t\tStructural bioinformatics ZDOCK server: interactive docking prediction of proteinprotein complexes and symmetric multimers\n\t\t\n\t\t\tBGPierce\n\t\t\n\t\t\n\t\t\tKWiehe\n\t\t\n\t\t\n\t\t\tHHwang\n\t\t\n\t\t\n\t\t\tB-HKim\n\t\t\n\t\t\n\t\t\tTVreven\n\t\t\n\t\t\n\t\t\tZWeng\n\t\t\n\t\tdoi: 10.1093/ bioinformatics/btu097\n\t\t\n\t\t\t\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59d3f7723bebd8667d93e"},"refKey":14},
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{"_key":"60c59d3f7723bebd8667d941","_id":"references/60c59d3f7723bebd8667d941","_rev":"_cfFloLG---","tei":"\n\t\n\t\tThe ClusPro web server for protein–protein docking\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tKathrynAPorter\n\t\t\n\t\t\n\t\t\tDzmitryPadhorny\n\t\t\n\t\t\n\t\t\tChristineYueh\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t10.1038/nprot.2016.169\n\t\t28079879\n\t\tPMC5540229\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c59d3f7723bebd8667d93e"},"refKey":16},
{"_key":"60c59d3f7723bebd8667d942","_id":"references/60c59d3f7723bebd8667d942","_rev":"_cfFloLS---","tei":"\n\t\n\t\tNew additions to the ClusPro server motivated by CAPRI\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t\n\t\t\tChristineYueh\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tTanggisBohnuud\n\t\t\n\t\t\n\t\t\tScottEMottarella\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t10.1002/prot.25219\n\t\t27936493\n\t\tPMC5313348\n\t\t\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t85\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c59d3f7723bebd8667d93e"},"refKey":17},
{"_key":"60c59d4f7723bebd8667d960","_id":"references/60c59d4f7723bebd8667d960","_rev":"_cfFloLe---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59d4f7723bebd8667d95f"},"refKey":29},
{"_key":"60c59d4f7723bebd8667d961","_id":"references/60c59d4f7723bebd8667d961","_rev":"_cfFloLq---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59d4f7723bebd8667d95f"},"refKey":28},
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{"_key":"60c59d937723bebd8667d982","_id":"references/60c59d937723bebd8667d982","_rev":"_cfFloMK---","tei":"\n\t\n\t\t). (which was not certified by peer review) is the author/funder. All rights reserved\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t58\n\t\t\t\n\t\t\n\t\n\tPHENIX: building new software for automated crystallographic structure determination. No reuse allowed without permission\n\n","document":{"$oid":"60c59d937723bebd8667d981"},"refKey":34},
{"_key":"60c59e507723bebd8667d9a9","_id":"references/60c59e507723bebd8667d9a9","_rev":"_cfFloMW---","tei":"\n\t\n\t\tNMRPipe: a multidimensional spectral processing system based on UNIX pipes\n\t\t\n\t\t\tFDelaglio\n\t\t\n\t\t\n\t\t\tSGrzesiek\n\t\t\n\t\t\n\t\t\tGWVuister\n\t\t\n\t\t\n\t\t\tGZhu\n\t\t\n\t\t\n\t\t\tJPfeifer\n\t\t\n\t\t\n\t\t\tABax\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t6\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59e507723bebd8667d9a8"},"refKey":1},
{"_key":"60c59e507723bebd8667d9aa","_id":"references/60c59e507723bebd8667d9aa","_rev":"_cfFloMi---","tei":"\n\t\n\t\tNMR view: a computer program for the visualization and analysis of NMR data\n\t\t\n\t\t\tBAJohnson\n\t\t\n\t\t\n\t\t\tRABlevins\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t4\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59e507723bebd8667d9a8"},"refKey":3},
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{"_key":"60c59eaa7723bebd8667d9ee","_id":"references/60c59eaa7723bebd8667d9ee","_rev":"_cfFloNS---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c59eaa7723bebd8667d9ec"},"refKey":21},
{"_key":"60c59ed37723bebd8667d9fd","_id":"references/60c59ed37723bebd8667d9fd","_rev":"_cfFloNe---","tei":"\n\t\n\t\tCochrane handbook for systematic reviews of interventions, version 5.1.0\n\t\t\n\t\t\tJptHiggins\n\t\t\n\t\t\n\t\t\tSGreen\n\t\t\n\t\t\n\t\t\t\n\t\t\tCochrane Collaboration\n\t\t\tOxford (UK\n\t\t\n\t\n\n","document":{"$oid":"60c59ed37723bebd8667d9fc"},"refKey":25},
{"_key":"60c59eec7723bebd8667da0d","_id":"references/60c59eec7723bebd8667da0d","_rev":"_cfFloNm---","tei":"\n\t\n\t\tPath-BLAST: a tool for alignment of protein interaction networks\n\t\t\n\t\t\tPKelley Brian\n\t\t\n\t\t\n\t\t\tYuanBingbing\n\t\t\n\t\t\n\t\t\tLewitterFran\n\t\t\n\t\t\n\t\t\tSharanRoded\n\t\t\n\t\t\n\t\t\tStockwellBrent\n\t\t\n\t\t\n\t\t\tR\n\t\t\n\t\t\n\t\t\tIdekerTrey\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c59eec7723bebd8667da0c"},"refKey":10},
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{"_key":"60c59f257723bebd8667da37","_id":"references/60c59f257723bebd8667da37","_rev":"_cfFloOK---","tei":"\n\t\n\t\tPAST: Paleontological Statistics Software Package for Education data analysis\n\t\t\n\t\t\tØHammer\n\t\t\n\t\t\n\t\t\tDHarper\n\t\t\n\t\t\n\t\t\tPRyan\n\t\t\n\t\n\t\n\t\tPalaeontologia Electronica\n\t\t\n\t\t\t4\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59f257723bebd8667da36"},"refKey":20},
{"_key":"60c59f257723bebd8667da38","_id":"references/60c59f257723bebd8667da38","_rev":"_cfFloOW---","tei":"\n\t\n\t\tThe RDP-II (Ribosomal Database Project)\n\t\t\n\t\t\tBLMaidak\n\t\t\n\t\t\n\t\t\tJCole\n\t\t\n\t\t\n\t\t\tTLilburn\n\t\t\n\t\t10.1093/nar/29.1.173\n\t\t11125082\n\t\tPMC29785\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c59f257723bebd8667da36"},"refKey":41},
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{"_key":"60c59f267723bebd8667da40","_id":"references/60c59f267723bebd8667da40","_rev":"_cfFloO6---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59f267723bebd8667da3d"},"refKey":51},
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{"_key":"60c59f267723bebd8667da42","_id":"references/60c59f267723bebd8667da42","_rev":"_cfFloPO---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59f267723bebd8667da3d"},"refKey":53},
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{"_key":"60c59f267723bebd8667da44","_id":"references/60c59f267723bebd8667da44","_rev":"_cfFloPm---","tei":"\n\t\n\t\tFastQC: a quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59f267723bebd8667da3d"},"refKey":50},
{"_key":"60c59f267723bebd8667da45","_id":"references/60c59f267723bebd8667da45","_rev":"_cfFloPy---","tei":"\n\t\n\t\tImproved annotation of the domestic pig genome through integration of Iso-Seq and RNA-seq data\n\t\t\n\t\t\tHABeiki\n\t\t\n\t\t\n\t\t\tHLiu\n\t\t\n\t\t\n\t\t\tJHuang\n\t\t\n\t\t\n\t\t\tNManchanda\n\t\t\n\t\t\n\t\t\tDNonneman\n\t\t\n\t\t\n\t\t\tTplP LSmith\n\t\t\n\t\t\n\t\t\tJmtcMReecy\n\t\t\n\t\t\n\t\t\tCKTuggle\n\t\t\n\t\t10.1186/s12864-019-5709-y\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t344\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c59f267723bebd8667da3d"},"refKey":25},
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{"_key":"60c59fff7723bebd8667daed","_id":"references/60c59fff7723bebd8667daed","_rev":"_cfFloRy---","tei":"\n\t\n\t\tA Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c59fff7723bebd8667daeb"},"refKey":14},
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{"_key":"60c5a0567723bebd8667db3c","_id":"references/60c5a0567723bebd8667db3c","_rev":"_cfFloTO---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5a0567723bebd8667db3a"},"refKey":22},
{"_key":"60c5a0567723bebd8667db3d","_id":"references/60c5a0567723bebd8667db3d","_rev":"_cfFloTa---","tei":"\n\t\n\t\tSPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing\n\t\t\n\t\t\tAntonBankevich\n\t\t\n\t\t\n\t\t\tSergeyNurk\n\t\t\n\t\t\n\t\t\tDmitryAntipov\n\t\t\n\t\t\n\t\t\tAlexeyAGurevich\n\t\t\n\t\t\n\t\t\tMikhailDvorkin\n\t\t\n\t\t\n\t\t\tAlexanderSKulikov\n\t\t\n\t\t\n\t\t\tValeryMLesin\n\t\t\n\t\t\n\t\t\tSergeyINikolenko\n\t\t\n\t\t\n\t\t\tSonPham\n\t\t\n\t\t\n\t\t\tAndreyDPrjibelski\n\t\t\n\t\t\n\t\t\tAlexeyVPyshkin\n\t\t\n\t\t\n\t\t\tAlexanderVSirotkin\n\t\t\n\t\t\n\t\t\tNikolayVyahhi\n\t\t\n\t\t\n\t\t\tGlennTesler\n\t\t\n\t\t\n\t\t\tMaxAAlekseyev\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1089/cmb.2012.0021\n\t\t22506599\n\t\tPMC3342519\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c5a0567723bebd8667db3a"},"refKey":21},
{"_key":"60c5a0697723bebd8667db48","_id":"references/60c5a0697723bebd8667db48","_rev":"_cfFloTm---","tei":"\n\t\n\t\tParDOCK: An All Atom Energy Based Monte Carlo Docking Protocol for Protein-Ligand Complexes\n\t\t\n\t\t\tA. Gupta\n\t\t\n\t\t\n\t\t\tP. Sharma\n\t\t\n\t\t\n\t\t\tB. Jayaram\n\t\t\n\t\t10.2174/092986607781483831\n\t\t17897088\n\t\t\n\t\n\t\n\t\tProtein & Peptide Letters\n\t\tPPL\n\t\t0929-8665\n\t\t\n\t\t\t14\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tBentham Science Publishers Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c5a0697723bebd8667db47"},"refKey":30},
{"_key":"60c5a0697723bebd8667db49","_id":"references/60c5a0697723bebd8667db49","_rev":"_cfFloTu---","tei":"\n\t\n\t\tSanjeevini: a freely accessible web-server for target directed lead molecule discovery\n\t\t\n\t\t\tBJayaram\n\t\t\n\t\t\n\t\t\tTanyaSingh\n\t\t\n\t\t\n\t\t\tGoutamMukherjee\n\t\t\n\t\t\n\t\t\tAbhinavMathur\n\t\t\n\t\t\n\t\t\tShashankShekhar\n\t\t\n\t\t\n\t\t\tVandanaShekhar\n\t\t\n\t\t10.1186/1471-2105-13-s17-s7\n\t\t23282245\n\t\tPMC3521208\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\tS17\n\t\t\tS7\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5a0697723bebd8667db47"},"refKey":31},
{"_key":"60c5a0697723bebd8667db4a","_id":"references/60c5a0697723bebd8667db4a","_rev":"_cfFloT6---","tei":"\n\t\n\t\tDevelopment and testing of a general amber force field\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tRMWolf\n\t\t\n\t\t\n\t\t\tJWCaldwell\n\t\t\n\t\t\n\t\t\tPa &Kollman\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a0697723bebd8667db47"},"refKey":56},
{"_key":"60c5a0697723bebd8667db4b","_id":"references/60c5a0697723bebd8667db4b","_rev":"_cfFloUG---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a0697723bebd8667db47"},"refKey":68},
{"_key":"60c5a0697723bebd8667db4c","_id":"references/60c5a0697723bebd8667db4c","_rev":"_cfFloUS---","tei":"\n\t\n\t\tSwissDock, a protein-small molecule docking web service based on EADock DSS\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a0697723bebd8667db47"},"refKey":69},
{"_key":"60c5a06d7723bebd8667db75","_id":"references/60c5a06d7723bebd8667db75","_rev":"_cfFloUe---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a06d7723bebd8667db74"},"refKey":27},
{"_key":"60c5a06d7723bebd8667db76","_id":"references/60c5a06d7723bebd8667db76","_rev":"_cfFloUq---","tei":"\n\t\n\t\tSNPGenie: estimating evolutionary parameters to detect natural selection using pooled next-generation sequencing data: Table 1.\n\t\t\n\t\t\tChaseWNelson\n\t\t\n\t\t\n\t\t\tLouiseHMoncla\n\t\t\n\t\t\n\t\t\tAustinLHughes\n\t\t\n\t\t10.1093/bioinformatics/btv449\n\t\t26227143\n\t\tPMC4757956\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\tbtv449\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5a06d7723bebd8667db74"},"refKey":29},
{"_key":"60c5a06e7723bebd8667db7f","_id":"references/60c5a06e7723bebd8667db7f","_rev":"_cfFloU2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tTSmith\n\t\t\n\t\t\n\t\t\tGFKilleen\n\t\t\n\t\t\n\t\t\tNMaire\n\t\t\n\t\t\n\t\t\tARoss\n\t\t\n\t\t\n\t\t\tLMolineaux\n\t\t\n\t\t\n\t\t\tFTediosi\n\t\t\n\t\t\n\t\t\tGHutton\n\t\t\n\t\t\n\t\t\tJ\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a06e7723bebd8667db7e"},"refKey":39},
{"_key":"60c5a06e7723bebd8667db80","_id":"references/60c5a06e7723bebd8667db80","_rev":"_cfFloVC---","tei":"\n\t\n\t\tEnsemble Modeling of the Likely Public Health Impact of a Pre-Erythrocytic Malaria Vaccine\n\t\t\n\t\t\tThomasSmith\n\t\t\n\t\t\n\t\t\tAmandaRoss\n\t\t\n\t\t\n\t\t\tNicolasMaire\n\t\t\n\t\t\n\t\t\tNakulChitnis\n\t\t\n\t\t\n\t\t\tAlainStuder\n\t\t\n\t\t\n\t\t\tDiggoryHardy\n\t\t\n\t\t\n\t\t\tAlanBrooks\n\t\t\n\t\t\n\t\t\tMelissaPenny\n\t\t\n\t\t\n\t\t\tMarcelTanner\n\t\t\n\t\t10.1371/journal.pmed.1001157\n\t\t22272189\n\t\tPMC3260300\n\t\t\n\t\n\t\n\t\tPLoS Medicine\n\t\tPLoS Med\n\t\t1549-1676\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\te1001157\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c5a06e7723bebd8667db7e"},"refKey":57},
{"_key":"60c5a06e7723bebd8667db81","_id":"references/60c5a06e7723bebd8667db81","_rev":"_cfFloVO---","tei":"\n\t\n\t\tPractical Heteroscedastic Gaussian Process Modeling for Large Simulation Experiments\n\t\t\n\t\t\tMickaëlBinois\n\t\t\t0000-0002-7225-1680\n\t\t\n\t\t\n\t\t\tRobertBGramacy\n\t\t\n\t\t\n\t\t\tMikeLudkovski\n\t\t\n\t\t10.1080/10618600.2018.1458625\n\t\t\n\t\n\t\n\t\tJournal of Computational and Graphical Statistics\n\t\tJournal of Computational and Graphical Statistics\n\t\t1061-8600\n\t\t1537-2715\n\t\t\n\t\t\t27\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c5a06e7723bebd8667db7e"},"refKey":81},
{"_key":"60c5a06e7723bebd8667db82","_id":"references/60c5a06e7723bebd8667db82","_rev":"_cfFloVa---","tei":"\n\t\n\t\tHeteroskedastic Gaussian Process Modeling and Design under Replication. R package version 1\n\t\t\n\t\t\tMBinois\n\t\t\n\t\t\n\t\t\tRGramacy\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a06e7723bebd8667db7e"},"refKey":82},
{"_key":"60c5a06e7723bebd8667db83","_id":"references/60c5a06e7723bebd8667db83","_rev":"_cfFloVm---","tei":"\n\t\n\t\tRsolnp: general non-linear optimization using augmented Lagrange multiplier method. R package version 1\n\t\t\n\t\t\tAGhalanos\n\t\t\n\t\t\n\t\t\tSTheussl\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a06e7723bebd8667db7e"},"refKey":93},
{"_key":"60c5a0997723bebd8667dba1","_id":"references/60c5a0997723bebd8667dba1","_rev":"_cfFloVy---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a0997723bebd8667dba0"},"refKey":7},
{"_key":"60c5a0997723bebd8667dba2","_id":"references/60c5a0997723bebd8667dba2","_rev":"_cfFloW----","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. USA\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a0997723bebd8667dba0"},"refKey":42},
{"_key":"60c5a0997723bebd8667dba3","_id":"references/60c5a0997723bebd8667dba3","_rev":"_cfFloWK---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a0997723bebd8667dba0"},"refKey":27},
{"_key":"60c5a0997723bebd8667dba4","_id":"references/60c5a0997723bebd8667dba4","_rev":"_cfFloWW---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a0997723bebd8667dba0"},"refKey":12},
{"_key":"60c5a0997723bebd8667dba5","_id":"references/60c5a0997723bebd8667dba5","_rev":"_cfFloWi---","tei":"\n\t\n\t\tHTSeq - A Python framework to work with high-throughput sequencing data\n\t\t\n\t\t\tSimonAnders\n\t\t\t0000-0003-4868-1805\n\t\t\n\t\t\n\t\t\tPaulTheodorPyl\n\t\t\t0000-0002-7651-883X\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\t0000-0002-0474-2218\n\t\t\n\t\t10.1101/002824\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5a0997723bebd8667dba0"},"refKey":1},
{"_key":"60c5a0997723bebd8667dba6","_id":"references/60c5a0997723bebd8667dba6","_rev":"_cfFloWu---","tei":"\n\t\n\t\tclusterProfiler: an R package for comparing biological themes among gene clusters\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tLGWang\n\t\t\n\t\t\n\t\t\tYHan\n\t\t\n\t\t\n\t\t\tQYHe\n\t\t\n\t\n\t\n\t\tOMICS\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a0997723bebd8667dba0"},"refKey":53},
{"_key":"60c5a0997723bebd8667dba7","_id":"references/60c5a0997723bebd8667dba7","_rev":"_cfFloW6---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a0997723bebd8667dba0"},"refKey":23},
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{"_key":"60c5a09d7723bebd8667dbc0","_id":"references/60c5a09d7723bebd8667dbc0","_rev":"_cfFloXe---","tei":"\n\t\n\t\tMatplotlib: A 2D graphics environment\n\t\t\n\t\t\tJDHunter\n\t\t\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a09d7723bebd8667dbbe"},"refKey":17},
{"_key":"60c5a09d7723bebd8667dbc1","_id":"references/60c5a09d7723bebd8667dbc1","_rev":"_cfFloXq---","tei":"\n\t\n\t\tpandas: a foundational Python library for data analysis and statistics. Python for High Performance and Scientific Computing\n\t\t\n\t\t\tWMckinney\n\t\t\n\t\t\n\t\t\t\n\t\t\t14\n\t\t\n\t\n\n","document":{"$oid":"60c5a09d7723bebd8667dbbe"},"refKey":15},
{"_key":"60c5a09d7723bebd8667dbc2","_id":"references/60c5a09d7723bebd8667dbc2","_rev":"_cfFloX2---","tei":"\n\t\n\t\tThe NumPy Array: A Structure for Efficient Numerical Computation\n\t\t\n\t\t\tWaltSVan Der\n\t\t\n\t\t\n\t\t\tSCColbert\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\n\t\n\t\tComputing in Science Engineering\n\t\t\n\t\t\t13\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a09d7723bebd8667dbbe"},"refKey":16},
{"_key":"60c5a0bd7723bebd8667dbe4","_id":"references/60c5a0bd7723bebd8667dbe4","_rev":"_cfFloYC---","tei":"\n\t\n\t\tData quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package\n\t\t\n\t\t\tSoniaTarazona\n\t\t\n\t\t\n\t\t\tPedroFurió-Tarí\n\t\t\n\t\t\n\t\t\tDavidTurrà\n\t\t\n\t\t\n\t\t\tAntonioDiPietro\n\t\t\n\t\t\n\t\t\tMaríaJoséNueda\n\t\t\n\t\t\n\t\t\tAlbertoFerrer\n\t\t\n\t\t\n\t\t\tAnaConesa\n\t\t\n\t\t10.1093/nar/gkv711\n\t\t26184878\n\t\tPMC4666377\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tgkv711\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5a0bd7723bebd8667dbe3"},"refKey":31},
{"_key":"60c5a0bd7723bebd8667dbe5","_id":"references/60c5a0bd7723bebd8667dbe5","_rev":"_cfFloYO---","tei":"\n\t\n\t\tCytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\t10.1101/gr.1239303\n\t\t14597658\n\t\tPMC403769\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5a0bd7723bebd8667dbe3"},"refKey":34},
{"_key":"60c5a0bd7723bebd8667dbe6","_id":"references/60c5a0bd7723bebd8667dbe6","_rev":"_cfFloYa---","tei":"\n\t\n\t\tCytoscape 2.8: new features for data integration and network visualization\n\t\t\n\t\t\tMESmoot\n\t\t\n\t\t\n\t\t\tKOno\n\t\t\n\t\t\n\t\t\tJRuscheinski\n\t\t\n\t\t\n\t\t\tP-LWang\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\t10.1093/bioinformatics/btq675\n\t\t21149340\n\t\tPMC3031041\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5a0bd7723bebd8667dbe3"},"refKey":35},
{"_key":"60c5a0bd7723bebd8667dbe7","_id":"references/60c5a0bd7723bebd8667dbe7","_rev":"_cfFloYm---","tei":"\n\t\n\t\tClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks\n\t\t\n\t\t\tGabrielaBindea\n\t\t\n\t\t\n\t\t\tBernhardMlecnik\n\t\t\n\t\t\n\t\t\tHubertHackl\n\t\t\n\t\t\n\t\t\tPornpimolCharoentong\n\t\t\n\t\t\n\t\t\tMarieTosolini\n\t\t\n\t\t\n\t\t\tAmosKirilovsky\n\t\t\n\t\t\n\t\t\tWolf-HermanFridman\n\t\t\n\t\t\n\t\t\tFranckPagès\n\t\t\n\t\t\n\t\t\tZlatkoTrajanoski\n\t\t\n\t\t\n\t\t\tJérômeGalon\n\t\t\n\t\t10.1093/bioinformatics/btp101\n\t\t19237447\n\t\tPMC2666812\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c5a0bd7723bebd8667dbe3"},"refKey":33},
{"_key":"60c5a0bd7723bebd8667dbe8","_id":"references/60c5a0bd7723bebd8667dbe8","_rev":"_cfFloYy---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5a0bd7723bebd8667dbe3"},"refKey":29},
{"_key":"60c5a0d27723bebd8667dbfd","_id":"references/60c5a0d27723bebd8667dbfd","_rev":"_cfFloZC---","tei":"\n\t\n\t\tSignalP 4.0: discriminating signal peptides from transmembrane regions\n\t\t\n\t\t\tTNPetersen\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t8\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a0d27723bebd8667dbfc"},"refKey":15},
{"_key":"60c5a0ea7723bebd8667dc1d","_id":"references/60c5a0ea7723bebd8667dc1d","_rev":"_cfFloZO---","tei":"\n\t\n\t\t\n\t\t\tGPythonVan Rossum\n\t\t\n\t\t\n\t\t\tTutorial\n\t\t\n\t\tCS-R9526\n\t\tCentrum Voor Wiskunde En Informatica (CWI)\n\t\t\t\tAmsterdam, The Netherlands\n\t\t\n\t\t\t\n\t\t\n\t\n\tTechnical Report\n\t1st ed.\n\n","document":{"$oid":"60c5a0ea7723bebd8667dc1c"},"refKey":18},
{"_key":"60c5a0f57723bebd8667dc22","_id":"references/60c5a0f57723bebd8667dc22","_rev":"_cfFloZe---","tei":"\n\t\n\t\tThe Cochrane Collaboration\n\t\n\t\n\t\tReview Manager (RevMan)\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\t\n\t\t\tThe Nordic Cochrane Centre\n\t\t\n\t\n\tcomputer program\n\n","document":{"$oid":"60c5a0f57723bebd8667dc21"},"refKey":34},
{"_key":"60c5a1177723bebd8667dc2f","_id":"references/60c5a1177723bebd8667dc2f","_rev":"_cfFloZq---","tei":"\n\t\n\t\tClustal Omega for making accurate alignments of many protein sequences\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1177723bebd8667dc2e"},"refKey":17},
{"_key":"60c5a11c7723bebd8667dc34","_id":"references/60c5a11c7723bebd8667dc34","_rev":"_cfFloZ6---","tei":"\n\t\n\t\tA Continuous-Flow Polymerase Chain Reaction Microchip With Regional Velocity Control\n\t\t\n\t\t\tSFLi\n\t\t\n\t\t\n\t\t\tDYFozdar\n\t\t\n\t\t\n\t\t\tMFAli\n\t\t\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tDBShao\n\t\t\n\t\t\n\t\t\tDMVykoukal\n\t\t\n\t\t\n\t\t\tJVykoukal\n\t\t\n\t\t\n\t\t\tPNFloriano\n\t\t\n\t\t\n\t\t\tMOlsen\n\t\t\n\t\t\n\t\t\tJTMcdevitt\n\t\t\n\t\t\n\t\t\tPR CGascoyne\n\t\t\n\t\t\n\t\t\tSChen\n\t\t\n\t\t10.1109/jmems.2005.859083\n\t\t19829760\n\t\tPMC2761040\n\t\t\n\t\n\t\n\t\tJournal of Microelectromechanical Systems\n\t\tJ. Microelectromech. Syst.\n\t\t1057-7157\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c5a11c7723bebd8667dc33"},"refKey":29},
{"_key":"60c5a11c7723bebd8667dc35","_id":"references/60c5a11c7723bebd8667dc35","_rev":"_cfFloaK---","tei":"\n\t\n\t\tCost-effective thermal isolation techniques for use on microfabricated DNA amplification and analysis devices\n\t\t\n\t\t\tMingYang\n\t\t\n\t\t\n\t\t\tRohitPal\n\t\t\n\t\t\n\t\t\tMarkABurns\n\t\t\n\t\t10.1088/0960-1317/15/1/031\n\t\tS0960-1317(05)82162-8\n\t\tark:/67375/0T8-6CTTDWZ0-M\n\t\t6623D36993DDE0C1A2C75238BBD322480DC6CC7B\n\t\t\n\t\n\t\n\t\tJournal of Micromechanics and Microengineering\n\t\tJ. Micromech. Microeng.\n\t\t0960-1317\n\t\t1361-6439\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tIOP Publishing\n\t\t\n\t\n\n","document":{"$oid":"60c5a11c7723bebd8667dc33"},"refKey":35},
{"_key":"60c5a11c7723bebd8667dc36","_id":"references/60c5a11c7723bebd8667dc36","_rev":"_cfFloaa---","tei":"\n\t\n\t\tA Rotary Polydimethylsiloxane‐Based Device for Polymerase Chain Reaction\n\t\t\n\t\t\tXiaoyuJia\n\t\t\n\t\t\n\t\t\tZhiqiangNiu\n\t\t\n\t\t\n\t\t\tWenyuanChen\n\t\t\n\t\t10.1080/00032710500260787\n\t\n\t\n\t\tAnalytical Letters\n\t\tAnalytical Letters\n\t\t0003-2719\n\t\t1532-236X\n\t\t\n\t\t\t38\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c5a11c7723bebd8667dc33"},"refKey":40},
{"_key":"60c5a11c7723bebd8667dc37","_id":"references/60c5a11c7723bebd8667dc37","_rev":"_cfFloaq---","tei":"\n\t\n\t\tPolydimethylsiloxane (PDMS)-based spiral channel PCR chip\n\t\t\n\t\t\tXYJia\n\t\t\n\t\t\n\t\t\tZQNiu\n\t\t\n\t\t\n\t\t\tWYChen\n\t\t\n\t\t\n\t\t\tWPZhang\n\t\t\n\t\n\t\n\t\tElectron. Lett\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a11c7723bebd8667dc33"},"refKey":41},
{"_key":"60c5a11c7723bebd8667dc38","_id":"references/60c5a11c7723bebd8667dc38","_rev":"_cfFloa2---","tei":"\n\t\n\t\tSU-8 based continuous-flow RT-PCR bio-chips under high-precision temperature control\n\t\t\n\t\t\tNan-ChyuanTsai\n\t\t\n\t\t\n\t\t\tChung-YangSue\n\t\t\n\t\t10.1016/j.bios.2005.12.023\n\t\t16464569\n\t\n\t\n\t\tBiosensors and Bioelectronics\n\t\tBiosensors and Bioelectronics\n\t\t0956-5663\n\t\t\n\t\t\t22\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5a11c7723bebd8667dc33"},"refKey":65},
{"_key":"60c5a11c7723bebd8667dc39","_id":"references/60c5a11c7723bebd8667dc39","_rev":"_cfFlobG---","tei":"\n\t\n\t\tA microchip-based PCR device using flexible printed circuit technology\n\t\t\n\t\t\tKYShen\n\t\t\n\t\t\n\t\t\tXFChen\n\t\t\n\t\t\n\t\t\tMGuo\n\t\t\n\t\t\n\t\t\tJCheng\n\t\t\n\t\t10.1016/s0925-4005(04)00432-0\n\t\n\t\n\t\tSensors and Actuators B: Chemical\n\t\tSensors and Actuators B: Chemical\n\t\t0925-4005\n\t\t\n\t\t\t105\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5a11c7723bebd8667dc33"},"refKey":69},
{"_key":"60c5a11c7723bebd8667dc3a","_id":"references/60c5a11c7723bebd8667dc3a","_rev":"_cfFlobS---","tei":"\n\t\n\t\tDisposable real-time microPCR device: lab-on-a-chip at a low cost\n\t\t\n\t\t\tPavelNeuzil\n\t\t\n\t\t\n\t\t\tJuergenPipper\n\t\t\n\t\t\n\t\t\tTsengMingHsieh\n\t\t\n\t\t10.1039/b605957k\n\t\t16880947\n\t\tark:/67375/QHD-RGB7WRZL-D\n\t\tA1CA3BA61E487A53E629EC886B75080FB5049C7C\n\t\n\t\n\t\tMolecular BioSystems\n\t\tMol. BioSyst.\n\t\t1742-206X\n\t\t1742-2051\n\t\t\n\t\t\t2\n\t\t\t6-7\n\t\t\t292\n\t\t\t\n\t\t\tRoyal Society of Chemistry (RSC)\n\t\t\n\t\n\n","document":{"$oid":"60c5a11c7723bebd8667dc33"},"refKey":78},
{"_key":"60c5a11c7723bebd8667dc3b","_id":"references/60c5a11c7723bebd8667dc3b","_rev":"_cfFlobi---","tei":"\n\t\n\t\tDNA amplification on a PDMS–glass hybrid microchip\n\t\t\n\t\t\tZhiQiangNiu\n\t\t\n\t\t\n\t\t\tWenYuanChen\n\t\t\n\t\t\n\t\t\tShiYiShao\n\t\t\n\t\t\n\t\t\tXiaoYuJia\n\t\t\n\t\t\n\t\t\tWeiPingZhang\n\t\t\n\t\t10.1088/0960-1317/16/2/029\n\t\tS0960-1317(06)07532-2\n\t\tark:/67375/0T8-V0R4VF9F-9\n\t\t1439F620A31F8D87C5136F2CD15CE100B03DDB35\n\t\n\t\n\t\tJournal of Micromechanics and Microengineering\n\t\tJ. Micromech. Microeng.\n\t\t0960-1317\n\t\t1361-6439\n\t\t\n\t\t\t16\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tIOP Publishing\n\t\t\n\t\n\n","document":{"$oid":"60c5a11c7723bebd8667dc33"},"refKey":50},
{"_key":"60c5a1377723bebd8667dc45","_id":"references/60c5a1377723bebd8667dc45","_rev":"_cfFlobu---","tei":"\n\t\n\t\tScispaCy: Fast and Robust Models for Biomedical Natural Language Processing\n\t\t\n\t\t\tMarkNeumann\n\t\t\n\t\t\n\t\t\tDanielKing\n\t\t\n\t\t\n\t\t\tIzBeltagy\n\t\t\n\t\t\n\t\t\tWaleedAmmar\n\t\t\n\t\t10.18653/v1/w19-5034\n\t\t\n\t\n\t\n\t\tProceedings of the 18th BioNLP Workshop and Shared Task\n\t\t\t\tthe 18th BioNLP Workshop and Shared Task\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1377723bebd8667dc44"},"refKey":6},
{"_key":"60c5a1377723bebd8667dc46","_id":"references/60c5a1377723bebd8667dc46","_rev":"_cfFlob6---","tei":"\n\t\n\t\tTaggerOne: joint named entity recognition and normalization with semi-Markov Models\n\t\t\n\t\t\tRobertLeaman\n\t\t\n\t\t\n\t\t\tZhiyongLu\n\t\t\n\t\t10.1093/bioinformatics/btw343\n\t\t27283952\n\t\tPMC5018376\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5a1377723bebd8667dc44"},"refKey":7},
{"_key":"60c5a1667723bebd8667dc66","_id":"references/60c5a1667723bebd8667dc66","_rev":"_cfFlocG---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1667723bebd8667dc65"},"refKey":47},
{"_key":"60c5a1667723bebd8667dc67","_id":"references/60c5a1667723bebd8667dc67","_rev":"_cfFlocW---","tei":"\n\t\n\t\tHMMER web server: 2018 update\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tALuciani\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tYPark\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1667723bebd8667dc65"},"refKey":62},
{"_key":"60c5a1677723bebd8667dc85","_id":"references/60c5a1677723bebd8667dc85","_rev":"_cfFloci---","tei":"\n\t\n\t\tDenmark: health system review\n\t\t\n\t\t\tMOlejaz\n\t\t\n\t\t\n\t\t\tJuulNielsen\n\t\t\n\t\t\n\t\t\tARudkjøbing\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\t\n\t\t\tOkkelsBirk\n\t\t\n\t\t\n\t\t\tHKrasnik\n\t\t\n\t\t\n\t\t\tAHernández-Quevedo\n\t\t\n\t\t\n\t\t\tC\n\t\t\n\t\n\t\n\t\tHealth Syst Trans\n\t\t\n\t\t\t14\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1677723bebd8667dc84"},"refKey":24},
{"_key":"60c5a1677723bebd8667dc86","_id":"references/60c5a1677723bebd8667dc86","_rev":"_cfFlocu---","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tLMcleod\n\t\t\n\t\t\n\t\t\tLDelacqua\n\t\t\n\t\t\n\t\t\tGDelacqua\n\t\t\n\t\t\n\t\t\tFKirby\n\t\t\n\t\t\n\t\t\tJ\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1677723bebd8667dc84"},"refKey":30},
{"_key":"60c5a1677723bebd8667dc87","_id":"references/60c5a1677723bebd8667dc87","_rev":"_cfFloc6---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5a1677723bebd8667dc84"},"refKey":31},
{"_key":"60c5a18b7723bebd8667dcb7","_id":"references/60c5a18b7723bebd8667dcb7","_rev":"_cfFlodG---","tei":"\n\t\n\t\tSpatial dynamics of pandemic influenza in a massive artificial society\n\t\t\n\t\t\tPDStroud\n\t\t\n\t\t\n\t\t\tDelValle\n\t\t\n\t\t\n\t\t\tSYSydoriak\n\t\t\n\t\t\n\t\t\tSJRiese\n\t\t\n\t\t\n\t\t\tJMMniszewski\n\t\t\n\t\t\n\t\t\tSM\n\t\t\n\t\t\n\t\n\t\n\t\tJASSS\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a18b7723bebd8667dcb6"},"refKey":15},
{"_key":"60c5a1987723bebd8667dcce","_id":"references/60c5a1987723bebd8667dcce","_rev":"_cfFlodS---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1987723bebd8667dccd"},"refKey":61},
{"_key":"60c5a1987723bebd8667dccf","_id":"references/60c5a1987723bebd8667dccf","_rev":"_cfFlode---","tei":"\n\t\n\t\tRELION: implementation of a Bayesian approach to cryo-EM structure determination\n\t\t\n\t\t\tSHScheres\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t180\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1987723bebd8667dccd"},"refKey":56},
{"_key":"60c5a1987723bebd8667dcd0","_id":"references/60c5a1987723bebd8667dcd0","_rev":"_cfFlodq---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJ. Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1987723bebd8667dccd"},"refKey":59},
{"_key":"60c5a1987723bebd8667dcd1","_id":"references/60c5a1987723bebd8667dcd1","_rev":"_cfFlod2---","tei":"\n\t\n\t\tQuantifying the local resolution of cryo-EM density maps\n\t\t\n\t\t\tAKucukelbir\n\t\t\n\t\t\n\t\t\tFJSigworth\n\t\t\n\t\t\n\t\t\tHDTagare\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1987723bebd8667dccd"},"refKey":57},
{"_key":"60c5a1987723bebd8667dcd2","_id":"references/60c5a1987723bebd8667dcd2","_rev":"_cfFloeC---","tei":"\n\t\n\t\tCTFFIND4: Fast and accurate defocus estimation from electron micrographs\n\t\t\n\t\t\tAlexisRohou\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\n\t\t10.1101/020917\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t192\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5a1987723bebd8667dccd"},"refKey":55},
{"_key":"60c5a1a07723bebd8667dcfe","_id":"references/60c5a1a07723bebd8667dcfe","_rev":"_cfFloeO---","tei":"\n\t\n\t\tPaternal History of Asthma and Airway Responsiveness in Children with Asthma\n\t\t\n\t\t\tBenjaminARaby\n\t\t\n\t\t\n\t\t\tKristelVan Steen\n\t\t\n\t\t\n\t\t\tJuanCCeledón\n\t\t\n\t\t\n\t\t\tAugustoALitonjua\n\t\t\n\t\t\n\t\t\tChristophLange\n\t\t\n\t\t\n\t\t\tScottTWeiss\n\t\t\n\t\t10.1164/rccm.200501-010oc\n\t\t15937295\n\t\tPMC2718530\n\t\t\n\t\n\t\n\t\tAmerican Journal of Respiratory and Critical Care Medicine\n\t\tAm J Respir Crit Care Med\n\t\t1073-449X\n\t\t1535-4970\n\t\t\n\t\t\t172\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Thoracic Society\n\t\t\n\t\n\n","document":{"$oid":"60c5a1a07723bebd8667dcfd"},"refKey":5},
{"_key":"60c5a1d97723bebd8667dd2f","_id":"references/60c5a1d97723bebd8667dd2f","_rev":"_cfFloea---","tei":"\n\t\n\t\tThe Haddock web server for data-driven biomolecular docking\n\t\t\n\t\t\tSJDe Vries\n\t\t\n\t\t\n\t\t\tMVan Dijk\n\t\t\n\t\t\n\t\t\tAMBonvin\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t5\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1d97723bebd8667dd2e"},"refKey":31},
{"_key":"60c5a1d97723bebd8667dd30","_id":"references/60c5a1d97723bebd8667dd30","_rev":"_cfFloem---","tei":"\n\t\n\t\tHADDOCK versus HADDOCK: New features and performance of HADDOCK2.0 on the CAPRI targets\n\t\t\n\t\t\tSjoerdJDe Vries\n\t\t\n\t\t\n\t\t\tAaltD JVan Dijk\n\t\t\n\t\t\n\t\t\tMickaëlKrzeminski\n\t\t\n\t\t\n\t\t\tMarkVan Dijk\n\t\t\n\t\t\n\t\t\tAurelienThureau\n\t\t\n\t\t\n\t\t\tVictorHsu\n\t\t\n\t\t\n\t\t\tTsjerkWassenaar\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\n\t\t10.1002/prot.21723\n\t\t17803234\n\t\tark:/67375/WNG-60DWFW9W-N\n\t\tE2F6863FCBFB3AFB516106538B32B23842E3F690\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t69\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5a1d97723bebd8667dd2e"},"refKey":32},
{"_key":"60c5a1d97723bebd8667dd31","_id":"references/60c5a1d97723bebd8667dd31","_rev":"_cfFloey---","tei":"\n\t\n\t\tData-driven docking: HADDOCK's adventures in CAPRI\n\t\t\n\t\t\tAD JVan Dijk\n\t\t\n\t\t\n\t\t\tSJDe Vries\n\t\t\n\t\t\n\t\t\tCDominguez\n\t\t\n\t\t\n\t\t\tHChen\n\t\t\n\t\t\n\t\t\tH-XZhou\n\t\t\n\t\t\n\t\t\tAM J JBonvin\n\t\t\n\t\t10.1002/prot.20563\n\t\t15981252\n\t\tark:/67375/WNG-49206PMB-P\n\t\t748A76F1C3D25F04DD86D81AC86D7428C3D32653\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t60\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5a1d97723bebd8667dd2e"},"refKey":33},
{"_key":"60c5a1d97723bebd8667dd32","_id":"references/60c5a1d97723bebd8667dd32","_rev":"_cfFlof----","tei":"\n\t\n\t\tHADDOCK: a protein − protein docking approach based on biochemical or biophysical information\n\t\t\n\t\t\tCDominguez\n\t\t\n\t\t\n\t\t\tRBoelens\n\t\t\n\t\t\n\t\t\tAMBonvin\n\t\t\n\t\n\t\n\t\tJ Am Chem Soc\n\t\t\n\t\t\t125\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1d97723bebd8667dd2e"},"refKey":34},
{"_key":"60c5a1e97723bebd8667dd4c","_id":"references/60c5a1e97723bebd8667dd4c","_rev":"_cfFlofG---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tCKnyaz\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMega X\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1e97723bebd8667dd4b"},"refKey":14},
{"_key":"60c5a1e97723bebd8667dd4d","_id":"references/60c5a1e97723bebd8667dd4d","_rev":"_cfFlofS---","tei":"\n\t\n\t\tSequencing quality assessment tools to enable data-driven informatics for high throughput genomics\n\t\t\n\t\t\tRichardMLeggett\n\t\t\n\t\t\n\t\t\tRicardoHRamirez-Gonzalez\n\t\t\n\t\t\n\t\t\tBernardoJClavijo\n\t\t\n\t\t\n\t\t\tDarrenWaite\n\t\t\n\t\t\n\t\t\tRobertPDavey\n\t\t\n\t\t10.3389/fgene.2013.00288\n\t\t24381581\n\t\tPMC3865868\n\t\t\n\t\n\t\n\t\tFrontiers in Genetics\n\t\tFront. Genet.\n\t\t1664-8021\n\t\t\n\t\t\t4\n\t\t\t288\n\t\t\t4\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c5a1e97723bebd8667dd4b"},"refKey":6},
{"_key":"60c5a1e97723bebd8667dd4e","_id":"references/60c5a1e97723bebd8667dd4e","_rev":"_cfFlofe---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\t\n\t\t\t\n\t\t\t17\n\t\t\t3\n\t\t\n\t\n\n","document":{"$oid":"60c5a1e97723bebd8667dd4b"},"refKey":7},
{"_key":"60c5a1ed7723bebd8667dd64","_id":"references/60c5a1ed7723bebd8667dd64","_rev":"_cfFlofq---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1ed7723bebd8667dd63"},"refKey":24},
{"_key":"60c5a1ed7723bebd8667dd65","_id":"references/60c5a1ed7723bebd8667dd65","_rev":"_cfFlof2---","tei":"\n\t\n\t\tLigPlot+: multiple ligand-protein interaction diagrams for drug discovery\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMBSwindells\n\t\t\n\t\n\t\n\t\tJ Chem Inf Model\n\t\t\n\t\t\t51\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a1ed7723bebd8667dd63"},"refKey":25},
{"_key":"60c5a2057723bebd8667dd79","_id":"references/60c5a2057723bebd8667dd79","_rev":"_cfFlogC---","tei":"\n\t\n\t\tDevelopment and testing of a general amber force field\n\t\t\n\t\t\tJMWang\n\t\t\n\t\t\n\t\t\tRMWolf\n\t\t\n\t\t\n\t\t\tJWCaldwell\n\t\t\n\t\t\n\t\t\tPAKollman\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a2057723bebd8667dd78"},"refKey":28},
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{"_key":"60c5a2057723bebd8667dd7b","_id":"references/60c5a2057723bebd8667dd7b","_rev":"_cfFloga---","tei":"\n\t\n\t\tff14SB: Improving the Accuracy of Protein Side Chain and Backbone Parameters from ff99SB\n\t\t\n\t\t\tJAMaier\n\t\t\n\t\t\n\t\t\tCMartinez\n\t\t\n\t\t\n\t\t\tKKasavajhala\n\t\t\n\t\t\n\t\t\tLWickstrom\n\t\t\n\t\t\n\t\t\tKEHauser\n\t\t\n\t\t\n\t\t\tCSimmerling\n\t\t\n\t\n\t\n\t\tJ Chem Theory Comput\n\t\t\n\t\t\t11\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a2057723bebd8667dd78"},"refKey":29},
{"_key":"60c5a2057723bebd8667dd7c","_id":"references/60c5a2057723bebd8667dd7c","_rev":"_cfFlogm---","tei":"\n\t\n\t\tA well-behaved electrostatic potential based method using charge restraints for deriving atomic charges-the RESP model\n\t\t\n\t\t\tCIBayly\n\t\t\n\t\t\n\t\t\tPCieplak\n\t\t\n\t\t\n\t\t\tWDCornell\n\t\t\n\t\t\n\t\t\tPAKollman\n\t\t\n\t\n\t\n\t\tJ Phys Chem\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a2057723bebd8667dd78"},"refKey":26},
{"_key":"60c5a2237723bebd8667dd8d","_id":"references/60c5a2237723bebd8667dd8d","_rev":"_cfFlogu---","tei":"\n\t\n\t\tBreeze: An integrated quality control and data analysis application for high-throughput drug screening\n\t\t\n\t\t\tSPotdar\n\t\t\n\t\t\n\t\t\tAIanevski\n\t\t\n\t\t\n\t\t\tJPMpindi\n\t\t\n\t\t\n\t\t\tDBychkov\n\t\t\n\t\t\n\t\t\tCFiere\n\t\t\n\t\t\n\t\t\tPIanevski\n\t\t\n\t\t\n\t\t\tBYadav\n\t\t\n\t\t\n\t\t\tKWennerberg\n\t\t\n\t\t\n\t\t\tTAittokallio\n\t\t\n\t\t\n\t\t\tOKallioniemi\n\t\t\n\t\t10.1093/bioinformatics/btaa138\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a2237723bebd8667dd8c"},"refKey":16},
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{"_key":"60c5a2237723bebd8667dd90","_id":"references/60c5a2237723bebd8667dd90","_rev":"_cfFlohS---","tei":"\n\t\n\t\tlimma powers differential expression analyses for RNA-sequencing and microarray studies\n\t\t\n\t\t\tMatthewERitchie\n\t\t\n\t\t\n\t\t\tBelindaPhipson\n\t\t\n\t\t\n\t\t\tDiWu\n\t\t\n\t\t\n\t\t\tYifangHu\n\t\t\n\t\t\n\t\t\tCharityWLaw\n\t\t\n\t\t\n\t\t\tWeiShi\n\t\t\n\t\t\n\t\t\tGordonKSmyth\n\t\t\n\t\t10.1093/nar/gkv007\n\t\t25605792\n\t\tPMC4402510\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5a2237723bebd8667dd8c"},"refKey":15},
{"_key":"60c5a2277723bebd8667dda3","_id":"references/60c5a2277723bebd8667dda3","_rev":"_cfFlohe---","tei":"\n\t\n\t\tProtein Structure Modeling with MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1007/978-1-4939-0366-5_1\n\t\t24573470\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t86\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a2277723bebd8667dda2"},"refKey":8},
{"_key":"60c5a24c7723bebd8667ddb7","_id":"references/60c5a24c7723bebd8667ddb7","_rev":"_cfFlohq---","tei":"\n\t\n\t\tAligning sequence reads\n\t\t\n\t\t\tLHeng\n\t\t\n\t\n\t\n\t\tclone sequences and assembly contigs with BWA-MEM. arXiv preprint arXiv\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a24c7723bebd8667ddb6"},"refKey":52},
{"_key":"60c5a24c7723bebd8667ddb8","_id":"references/60c5a24c7723bebd8667ddb8","_rev":"_cfFloh2---","tei":"\n\t\n\t\tA quality control tool for high throughput sequence data\n\t\t\n\t\t\tSA\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a24c7723bebd8667ddb6"},"refKey":54},
{"_key":"60c5a24c7723bebd8667ddb9","_id":"references/60c5a24c7723bebd8667ddb9","_rev":"_cfFloi----","tei":"\n\t\n\t\tFactoMineR: An R Package for Multivariate Analysis\n\t\t\n\t\t\tJJSébastien Lê\n\t\t\n\t\t\n\t\t\tFrançoisHusson\n\t\t\n\t\n\t\n\t\tJournal of statistical software\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a24c7723bebd8667ddb6"},"refKey":29},
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{"_key":"60c5a27c7723bebd8667dddf","_id":"references/60c5a27c7723bebd8667dddf","_rev":"_cfFloi6---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\n\t\n\t\tAm. J. Hum. Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a27c7723bebd8667ddde"},"refKey":54},
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{"_key":"60c5a29f7723bebd8667ddfb","_id":"references/60c5a29f7723bebd8667ddfb","_rev":"_cfFlojO---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a29f7723bebd8667ddfa"},"refKey":44},
{"_key":"60c5a2ac7723bebd8667de0b","_id":"references/60c5a2ac7723bebd8667de0b","_rev":"_cfFloja---","tei":"\n\t\n\t\tProtein Structure Modeling with MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1007/978-1-4939-7231-9_4\n\t\t28986782\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1654\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a2ac7723bebd8667de0a"},"refKey":36},
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{"_key":"60c5a2bc7723bebd8667de1b","_id":"references/60c5a2bc7723bebd8667de1b","_rev":"_cfFlojy---","tei":"\n\t\n\t\tComprehensive integration of single cell data\n\t\t\n\t\t\tTimStuart\n\t\t\t0000-0002-3044-0897\n\t\t\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\t0000-0002-7693-8957\n\t\t\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\t0000-0001-5898-694X\n\t\t\n\t\t\n\t\t\tWilliamMMauck\n\t\t\n\t\t\n\t\t\tMarlonStoeckius\n\t\t\t0000-0002-5658-029X\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\t0000-0003-0772-1647\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/460147\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t177\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5a2bc7723bebd8667de1a"},"refKey":18},
{"_key":"60c5a2d07723bebd8667de35","_id":"references/60c5a2d07723bebd8667de35","_rev":"_cfFlok----","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a2d07723bebd8667de34"},"refKey":19},
{"_key":"60c5a2d07723bebd8667de36","_id":"references/60c5a2d07723bebd8667de36","_rev":"_cfFlokK---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a2d07723bebd8667de34"},"refKey":18},
{"_key":"60c5a2d07723bebd8667de37","_id":"references/60c5a2d07723bebd8667de37","_rev":"_cfFlokW---","tei":"\n\t\n\t\tElectrostatics of nanosystems: application to microtubules and the ribosome\n\t\t\n\t\t\tNABaker\n\t\t\n\t\t\n\t\t\tDSept\n\t\t\n\t\t\n\t\t\tSJoseph\n\t\t\n\t\t\n\t\t\tMJHolst\n\t\t\n\t\t\n\t\t\tJAMccammon\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. Unit. States Am\n\t\t\n\t\t\t98\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a2d07723bebd8667de34"},"refKey":24},
{"_key":"60c5a3097723bebd8667de60","_id":"references/60c5a3097723bebd8667de60","_rev":"_cfFloke---","tei":"\n\t\n\t\tSmall-molecule library screening by docking with PyRx\n\t\t\n\t\t\tSDallakyan\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tMethods Mol. Biol\n\t\t\n\t\t\t263\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3097723bebd8667de5f"},"refKey":11},
{"_key":"60c5a3097723bebd8667de61","_id":"references/60c5a3097723bebd8667de61","_rev":"_cfFlokq---","tei":"\n\t\n\t\tTools for comparative protein structure modeling and analysis\n\t\t\n\t\t\tNEswar\n\t\t\n\t\t\n\t\t\tBJohn\n\t\t\n\t\t\n\t\t\tNMirkovic\n\t\t\n\t\t10.1093/nar/gkg543\n\t\t12824331\n\t\tPMC168950\n\t\tark:/67375/HXZ-1VF4H4B7-F\n\t\t65302D2B545E04BAFD3DE7DF06454141EB626FB2\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5a3097723bebd8667de5f"},"refKey":14},
{"_key":"60c5a3097723bebd8667de62","_id":"references/60c5a3097723bebd8667de62","_rev":"_cfFlok2---","tei":"\n\t\n\t\tGROMACS: fast, flexible, and free\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tGGroenhof\n\t\t\n\t\t\n\t\t\tAEMark\n\t\t\n\t\t\n\t\t\tHJBerendsen\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3097723bebd8667de5f"},"refKey":64},
{"_key":"60c5a3097723bebd8667de63","_id":"references/60c5a3097723bebd8667de63","_rev":"_cfFlolC---","tei":"\n\t\n\t\tiGEMDOCK: a graphical environment of enhancing GEMDOCK using pharmacological interactions and post-screening analysis\n\t\t\n\t\t\tKai-ChengHsu\n\t\t\n\t\t\n\t\t\tYen-FuChen\n\t\t\n\t\t\n\t\t\tShen-RongLin\n\t\t\n\t\t\n\t\t\tJinn-MoonYang\n\t\t\n\t\t10.1186/1471-2105-12-s1-s33\n\t\t21342564\n\t\tPMC3044289\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\tSuppl 1\n\t\t\tS33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSuppl 1\n\n","document":{"$oid":"60c5a3097723bebd8667de5f"},"refKey":22},
{"_key":"60c5a3097723bebd8667de64","_id":"references/60c5a3097723bebd8667de64","_rev":"_cfFlolO---","tei":"\n\t\n\t\tVerification of protein structures: patterns of nonbonded atomic interactions\n\t\t\n\t\t\tCColovos\n\t\t\n\t\t\n\t\t\tTOYeates\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t2\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3097723bebd8667de5f"},"refKey":9},
{"_key":"60c5a3097723bebd8667de65","_id":"references/60c5a3097723bebd8667de65","_rev":"_cfFlola---","tei":"\n\t\n\t\tVERIFY3D: assessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\t\n\t\t\tRLüthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\n\t\n\t\tMacromolecular Crystallography Part B\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3097723bebd8667de5f"},"refKey":13},
{"_key":"60c5a3097723bebd8667de66","_id":"references/60c5a3097723bebd8667de66","_rev":"_cfFlolm---","tei":"\n\t\n\t\tProSA-web: interactive web service for the recognition of errors in three dimensional structures of proteins\n\t\t\n\t\t\tMWiederstein\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c5a3097723bebd8667de5f"},"refKey":70},
{"_key":"60c5a3097723bebd8667de67","_id":"references/60c5a3097723bebd8667de67","_rev":"_cfFloly---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereo chemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3097723bebd8667de5f"},"refKey":35},
{"_key":"60c5a3097723bebd8667de68","_id":"references/60c5a3097723bebd8667de68","_rev":"_cfFlom----","tei":"\n\t\n\t\tLIGPLOT: a program to generate schematic diagrams of protein-ligand interactions\n\t\t\n\t\t\tACWallace\n\t\t\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tProtein Eng. Des. Sel\n\t\t\n\t\t\t8\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3097723bebd8667de5f"},"refKey":65},
{"_key":"60c5a3097723bebd8667de69","_id":"references/60c5a3097723bebd8667de69","_rev":"_cfFlomG---","tei":"\n\t\n\t\tComputer-aided drug design platform using PyMOL\n\t\t\n\t\t\tMALill\n\t\t\n\t\t\n\t\t\tMLDanielson\n\t\t\n\t\n\t\n\t\tJ. Comput. Aided Mol. Des\n\t\t\n\t\t\t25\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3097723bebd8667de5f"},"refKey":40},
{"_key":"60c5a3327723bebd8667deb2","_id":"references/60c5a3327723bebd8667deb2","_rev":"_cfFlomS---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Mol Graph\n\t\t\n\t\t\t14\n\t\t\t27\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3327723bebd8667deb1"},"refKey":23},
{"_key":"60c5a3587723bebd8667dee3","_id":"references/60c5a3587723bebd8667dee3","_rev":"_cfFlome---","tei":"\n\t\n\t\tThe impact of frequency on summarization\n\t\t\n\t\t\tANenkova\n\t\t\n\t\t\n\t\t\tLVanderwende\n\t\t\n\t\tMSR-TR-2005-101\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3587723bebd8667dee2"},"refKey":14},
{"_key":"60c5a3587723bebd8667dee4","_id":"references/60c5a3587723bebd8667dee4","_rev":"_cfFlomq---","tei":"\n\t\n\t\tWordNet: An electronic lexical database\n\t\t\n\t\t\tCFellbaum\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe MIT Press\n\t\t\n\t\n\n","document":{"$oid":"60c5a3587723bebd8667dee2"},"refKey":7},
{"_key":"60c5a36e7723bebd8667deef","_id":"references/60c5a36e7723bebd8667deef","_rev":"_cfFlom2---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\t/ (R Foundation for Statistical Computing\n\n","document":{"$oid":"60c5a36e7723bebd8667deee"},"refKey":19},
{"_key":"60c5a36e7723bebd8667def0","_id":"references/60c5a36e7723bebd8667def0","_rev":"_cfFlonC---","tei":"\n\t\n\t\tepicontacts: Handling, visualisation and analysis of epidemiological contacts\n\t\t\n\t\t\tVPNagraj\n\t\t\t0000-0003-0060-566X\n\t\t\n\t\t\n\t\t\tNistaraRandhawa\n\t\t\n\t\t\n\t\t\tFinlayCampbell\n\t\t\t0000-0002-1849-1886\n\t\t\n\t\t\n\t\t\tThomasCrellen\n\t\t\t0000-0003-2934-1063\n\t\t\n\t\t\n\t\t\tBertrandSudre\n\t\t\n\t\t\n\t\t\tThibautJombart\n\t\t\t0000-0003-2226-8692\n\t\t\n\t\t10.12688/f1000research.14492.2\n\t\t\n\t\n\t\n\t\tF1000Research\n\t\tF1000Res\n\t\t2046-1402\n\t\t\n\t\t\t7\n\t\t\t566\n\t\t\t\n\t\t\tF1000 ( Faculty of 1000 Ltd)\n\t\t\n\t\n\n","document":{"$oid":"60c5a36e7723bebd8667deee"},"refKey":20},
{"_key":"60c5a37d7723bebd8667defc","_id":"references/60c5a37d7723bebd8667defc","_rev":"_cfFlonO---","tei":"\n\t\n\t\tThe OpenCV Library. Dr Dobb's Journal of Software Tools\n\t\t\n\t\t\tGBradski\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a37d7723bebd8667defb"},"refKey":42},
{"_key":"60c5a37d7723bebd8667defd","_id":"references/60c5a37d7723bebd8667defd","_rev":"_cfFlona---","tei":"\n\t\n\t\tShopFloorIQ (previously MTConnect4Visio)\n\t\t\n\t\n\t\n\t\tInternational TechneGroup Incorporated (ITI)\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a37d7723bebd8667defb"},"refKey":33},
{"_key":"60c5a3877723bebd8667df23","_id":"references/60c5a3877723bebd8667df23","_rev":"_cfFloni---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDRZerbino\n\t\t\n\t\t\n\t\t\tPAchuthan\n\t\t\n\t\t\n\t\t\tWAkanni\n\t\t\n\t\t\n\t\t\tMRAmode\n\t\t\n\t\t\n\t\t\tDBarrell\n\t\t\n\t\t\n\t\t\tJBhai\n\t\t\n\t\t\n\t\t\tKBillis\n\t\t\n\t\t\n\t\t\tCCummins\n\t\t\n\t\t\n\t\t\tAGall\n\t\t\n\t\t\n\t\t\tCGGirón\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3877723bebd8667df22"},"refKey":28},
{"_key":"60c5a3877723bebd8667df24","_id":"references/60c5a3877723bebd8667df24","_rev":"_cfFlonu---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3877723bebd8667df22"},"refKey":105},
{"_key":"60c5a3877723bebd8667df25","_id":"references/60c5a3877723bebd8667df25","_rev":"_cfFlon6---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\n\t\n\t\tEMBnetjournal\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3877723bebd8667df22"},"refKey":101},
{"_key":"60c5a3877723bebd8667df26","_id":"references/60c5a3877723bebd8667df26","_rev":"_cfFlooG---","tei":"\n\t\n\t\tTranscript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown\n\t\t\n\t\t\tMPertea\n\t\t\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tGMPertea\n\t\t\n\t\t\n\t\t\tJTLeek\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\t\n\t\t\t11\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3877723bebd8667df22"},"refKey":102},
{"_key":"60c5a3967723bebd8667df44","_id":"references/60c5a3967723bebd8667df44","_rev":"_cfFlooS---","tei":"\n\t\n\t\tSchrödinger Release 2018-4: Schrödinger Suite 2018-2 Induced Fit Docking Protocol\n\t\t\n\t\t\tLlcSchrödinger\n\t\t\n\t\t\n\t\t\tGlide\n\t\t\n\t\n\n","document":{"$oid":"60c5a3967723bebd8667df43"},"refKey":36},
{"_key":"60c5a3c07723bebd8667df59","_id":"references/60c5a3c07723bebd8667df59","_rev":"_cfFlooe---","tei":"\n\t\n\t\tMplus User's Guide\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\n\t\n\t\tMuthén & Muthén: Los\n\t\t\t\tAngeles, CA, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\t8th ed.\n\n","document":{"$oid":"60c5a3c07723bebd8667df58"},"refKey":19},
{"_key":"60c5a3f17723bebd8667df70","_id":"references/60c5a3f17723bebd8667df70","_rev":"_cfFlooq---","tei":"\n\t\n\t\tThe SWISS-MODEL workspace: a web-based environment for protein structure homology modelling\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a3f17723bebd8667df6f"},"refKey":0},
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{"_key":"60c5a7d87723bebd8667e32f","_id":"references/60c5a7d87723bebd8667e32f","_rev":"_cfFloxW---","tei":"\n\t\n\t\tFastQC a quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\n\t\n\t\tFastQC Qual control tool high throughput Seq\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":40},
{"_key":"60c5a7d87723bebd8667e330","_id":"references/60c5a7d87723bebd8667e330","_rev":"_cfFloxi---","tei":"\n\t\n\t\tBinning metagenomic contigs by coverage and composition\n\t\t\n\t\t\tJohannesAlneberg\n\t\t\n\t\t\n\t\t\tBrynjarSmáriBjarnason\n\t\t\n\t\t\n\t\t\tInoDe Bruijn\n\t\t\n\t\t\n\t\t\tMelanieSchirmer\n\t\t\n\t\t\n\t\t\tJoshuaQuick\n\t\t\n\t\t\n\t\t\tUmerZIjaz\n\t\t\n\t\t\n\t\t\tLeoLahti\n\t\t\t0000-0001-5537-637X\n\t\t\n\t\t\n\t\t\tNicholasJLoman\n\t\t\n\t\t\n\t\t\tAndersFAndersson\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t10.1038/nmeth.3103\n\t\t25218180\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t11\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":44},
{"_key":"60c5a7d87723bebd8667e331","_id":"references/60c5a7d87723bebd8667e331","_rev":"_cfFloxu---","tei":"\n\t\n\t\tAccurate binning of metagenomic contigs via automated clustering sequences using information of genomic signatures and marker genes\n\t\t\n\t\t\tHsin-HungLin\n\t\t\n\t\t\n\t\t\tYu-ChiehLiao\n\t\t\n\t\t10.1038/srep24175\n\t\t27067514\n\t\tPMC4828714\n\t\t\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t24175\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":45},
{"_key":"60c5a7d87723bebd8667e332","_id":"references/60c5a7d87723bebd8667e332","_rev":"_cfFlox6---","tei":"\n\t\n\t\tPredictive functional profiling of microbial communities using 16S rRNA marker gene sequences\n\t\t\n\t\t\tMorganG ILangille\n\t\t\n\t\t\n\t\t\tJesseZaneveld\n\t\t\n\t\t\n\t\t\tJGregoryCaporaso\n\t\t\n\t\t\n\t\t\tDanielMcdonald\n\t\t\n\t\t\n\t\t\tDanKnights\n\t\t\n\t\t\n\t\t\tJoshuaAReyes\n\t\t\n\t\t\n\t\t\tJoseCClemente\n\t\t\n\t\t\n\t\t\tDeronEBurkepile\n\t\t\n\t\t\n\t\t\tRebeccaLVega Thurber\n\t\t\n\t\t\n\t\t\tRobKnight\n\t\t\n\t\t\n\t\t\tRobertGBeiko\n\t\t\n\t\t\n\t\t\tCurtisHuttenhower\n\t\t\n\t\t10.1038/nbt.2676\n\t\t23975157\n\t\tPMC3819121\n\t\t\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t31\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":145},
{"_key":"60c5a7d87723bebd8667e333","_id":"references/60c5a7d87723bebd8667e333","_rev":"_cfFloyG---","tei":"\n\t\n\t\tMetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities\n\t\t\n\t\t\tDongwanDKang\n\t\t\n\t\t\n\t\t\tJeffFroula\n\t\t\n\t\t\n\t\t\tRobEgan\n\t\t\n\t\t\n\t\t\tZhongWang\n\t\t\n\t\t10.7717/peerj.1165\n\t\t26336640\n\t\tPMC4556158\n\t\t\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t3\n\t\t\te1165\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":46},
{"_key":"60c5a7d87723bebd8667e334","_id":"references/60c5a7d87723bebd8667e334","_rev":"_cfFloyS---","tei":"\n\t\n\t\tKraken: ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDerrickEWood\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2014-15-3-r46\n\t\t24580807\n\t\tPMC4053813\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t15\n\t\t\t3\n\t\t\tR46\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":47},
{"_key":"60c5a7d87723bebd8667e335","_id":"references/60c5a7d87723bebd8667e335","_rev":"_cfFloye---","tei":"\n\t\n\t\tCLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers\n\t\t\n\t\t\tRachidOunit\n\t\t\n\t\t\n\t\t\tSteveWanamaker\n\t\t\n\t\t\n\t\t\tTimothyJClose\n\t\t\n\t\t\n\t\t\tStefanoLonardi\n\t\t\n\t\t10.1186/s12864-015-1419-2\n\t\t25879410\n\t\tPMC4428112\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":48},
{"_key":"60c5a7d87723bebd8667e336","_id":"references/60c5a7d87723bebd8667e336","_rev":"_cfFloym---","tei":"\n\t\n\t\tTaxonomer: an interactive metagenomics analysis portal for universal pathogen detection and host mRNA expression profiling\n\t\t\n\t\t\tStevenFlygare\n\t\t\n\t\t\n\t\t\tKeithSimmon\n\t\t\n\t\t\n\t\t\tChaseMiller\n\t\t\n\t\t\n\t\t\tYiQiao\n\t\t\n\t\t\n\t\t\tBrettKennedy\n\t\t\n\t\t\n\t\t\tTonyaDi Sera\n\t\t\n\t\t\n\t\t\tErinHGraf\n\t\t\n\t\t\n\t\t\tKeithDTardif\n\t\t\n\t\t\n\t\t\tAurélieKapusta\n\t\t\n\t\t\n\t\t\tShawnRynearson\n\t\t\n\t\t\n\t\t\tChrisStockmann\n\t\t\n\t\t\n\t\t\tKristaQueen\n\t\t\n\t\t\n\t\t\tSuxiangTong\n\t\t\n\t\t\n\t\t\tKarlVVoelkerding\n\t\t\n\t\t\n\t\t\tAnneBlaschke\n\t\t\n\t\t\n\t\t\tCarrieLByington\n\t\t\n\t\t\n\t\t\tSeemaJain\n\t\t\n\t\t\n\t\t\tAndrewPavia\n\t\t\n\t\t\n\t\t\tKrowAmpofo\n\t\t\n\t\t\n\t\t\tKarenEilbeck\n\t\t\n\t\t\n\t\t\tGaborMarth\n\t\t\n\t\t\n\t\t\tMarkYandell\n\t\t\n\t\t\n\t\t\tRobertSchlaberg\n\t\t\n\t\t10.1186/s13059-016-0969-1\n\t\t27224977\n\t\tPMC4880956\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t111\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":49},
{"_key":"60c5a7d87723bebd8667e337","_id":"references/60c5a7d87723bebd8667e337","_rev":"_cfFloyy---","tei":"\n\t\n\t\tmetaSPAdes: a new versatile metagenomic assembler\n\t\t\n\t\t\tSergeyNurk\n\t\t\n\t\t\n\t\t\tDmitryMeleshko\n\t\t\n\t\t\n\t\t\tAntonKorobeynikov\n\t\t\t0000-0002-2937-9259\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1101/gr.213959.116\n\t\t28298430\n\t\tPMC5411777\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t27\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":42},
{"_key":"60c5a7d87723bebd8667e338","_id":"references/60c5a7d87723bebd8667e338","_rev":"_cfFloz----","tei":"\n\t\n\t\tMetaPhlAn2 for enhanced metagenomic taxonomic profiling\n\t\t\n\t\t\tDuyTinTruong\n\t\t\n\t\t\n\t\t\tEricAFranzosa\n\t\t\n\t\t\n\t\t\tTimothyLTickle\n\t\t\n\t\t\n\t\t\tMatthiasScholz\n\t\t\n\t\t\n\t\t\tGeorgeWeingart\n\t\t\n\t\t\n\t\t\tEdoardoPasolli\n\t\t\n\t\t\n\t\t\tAdrianTett\n\t\t\n\t\t\n\t\t\tCurtisHuttenhower\n\t\t\n\t\t\n\t\t\tNicolaSegata\n\t\t\n\t\t10.1038/nmeth.3589\n\t\t26418763\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":50},
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{"_key":"60c5a7d87723bebd8667e33a","_id":"references/60c5a7d87723bebd8667e33a","_rev":"_cfFlozW---","tei":"\n\t\n\t\tNanoOK: multi-reference alignment analysis of nanopore sequencing data, quality and error profiles\n\t\t\n\t\t\tRichardMLeggett\n\t\t\n\t\t\n\t\t\tDarrenHeavens\n\t\t\n\t\t\n\t\t\tMarioCaccamo\n\t\t\n\t\t\n\t\t\tMatthewDClark\n\t\t\n\t\t\n\t\t\tRobertPDavey\n\t\t\n\t\t10.1093/bioinformatics/btv540\n\t\t26382197\n\t\tPMC4681994\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\tbtv540\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5a7d87723bebd8667e32d"},"refKey":129},
{"_key":"60c5a89e7723bebd8667e350","_id":"references/60c5a89e7723bebd8667e350","_rev":"_cfFlozi---","tei":"\n\t\n\t\tComparison of in vitro tests for evaluation of passive transfer of immunoglobulins in giraffe (Giraffa camelopardalis)\n\t\t\n\t\t\tSLivingston\n\t\t\n\t\t\n\t\t\tKSullivan\n\t\t\n\t\t\n\t\t\tKKerr\n\t\t\n\t\t\n\t\t\tE ;Valdez\n\t\t\n\t\t\n\t\t\tMMiller\n\t\t\n\t\t\n\t\t\tBCoville\n\t\t\n\t\t\n\t\t\tNAbou-Madi\n\t\t\n\t\t\n\t\t\tJ ; MOlsen\n\t\t\n\t\t\n\t\t\tMWeber\n\t\t\n\t\t\n\t\t\tDNeiffer\n\t\t\n\t\t\n\t\t\tBMangold\n\t\t\n\t\t\n\t\t\tMStetter\n\t\t\n\t\t\n\t\t\tDFontenot\n\t\t\n\t\t\n\t\t\tPKRobbins\n\t\t\n\t\n\t\n\t\tBirth weights and growth rates of giraffe and okapi at Disney's Animal Kingdom\n\t\t\t\t\n\t\t\tDGKleiman\n\t\t\tKVThompson\n\t\t\tCKBaer\n\t\t\n\t\tPortland (OR; Chicago (IL)\n\t\t\n\t\t\tUniversity of Chicago Press\n\t\t\t\n\t\t\t26\n\t\t\t\n\t\t\n\t\n\tProc Am Assoc Zoo Vet\n\n","document":{"$oid":"60c5a89e7723bebd8667e34f"},"refKey":22},
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{"_key":"60c5a8e67723bebd8667e381","_id":"references/60c5a8e67723bebd8667e381","_rev":"_cfFlo0S---","tei":"\n\t\n\t\tMCMC methods for multi-response generalized linear mixed models: the MCMCglmm R package\n\t\t\n\t\t\tJDHadfield\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t33\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5a8e67723bebd8667e380"},"refKey":38},
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DeRuiter\n\t\t\n\t\t\n\t\t\tDaveBouvier\n\t\t\n\t\t\n\t\t\tSimonGladman\n\t\t\n\t\t\n\t\t\tSaketChoudhary\n\t\t\n\t\t\n\t\t\tNicholasHarding\n\t\t\n\t\t\n\t\t\tFlorianEggenhofer\n\t\t\n\t\t\n\t\t\tArneKratz\n\t\t\n\t\t\n\t\t\tZhuoqingFang\n\t\t\n\t\t\n\t\t\tRobertKleinkauf\n\t\t\n\t\t\n\t\t\tHenningTimm\n\t\t\n\t\t\n\t\t\tPeterJ 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Methods\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5a93a7723bebd8667e3b2"},"refKey":84},
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{"_key":"60c5ac387723bebd8667e78b","_id":"references/60c5ac387723bebd8667e78b","_rev":"_cfFlp_W---","tei":"\n\t\n\t\tMEGA4: Molecular evolutionary genetics analysis software-version 4.0\n\t\t\n\t\t\tKDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ac387723bebd8667e78a"},"refKey":5},
{"_key":"60c5ac7d7723bebd8667e7aa","_id":"references/60c5ac7d7723bebd8667e7aa","_rev":"_cfFlp_i---","tei":"\n\t\n\t\tMelbourne: Veritas Health Innovation\n\t\t\n\t\n\t\n\t\tCovidence Systematic Review Software\n\t\t\n\t\t\t\n\t\t\n\t\n\taccessed 2019-07-05\n\n","document":{"$oid":"60c5ac7d7723bebd8667e7a9"},"refKey":35},
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{"_key":"60c5acce7723bebd8667e7fa","_id":"references/60c5acce7723bebd8667e7fa","_rev":"_cfFlp_6---","tei":"\n\t\n\t\tHigh throughput estimation of functional cell activities reveals disease mechanisms and predicts relevant clinical outcomes\n\t\t\n\t\t\tMartaRHidalgo\n\t\t\n\t\t\n\t\t\tCankutCubuk\n\t\t\n\t\t\n\t\t\tAliciaAmadoz\n\t\t\n\t\t\n\t\t\tFranciscoSalavert\n\t\t\n\t\t\n\t\t\tJoséCarbonell-Caballero\n\t\t\n\t\t\n\t\t\tJoaquinDopazo\n\t\t\n\t\t10.18632/oncotarget.14107\n\t\t28042959\n\t\tPMC5354899\n\t\t\n\t\n\t\n\t\tOncotarget\n\t\tOncotarget\n\t\t1949-2553\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tImpact Journals, LLC\n\t\t\n\t\n\n","document":{"$oid":"60c5acce7723bebd8667e7f9"},"refKey":6},
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{"_key":"60c5ad647723bebd8667e858","_id":"references/60c5ad647723bebd8667e858","_rev":"_cfFlpAe---","tei":"\n\t\n\t\tMAFFT online service: multiple sequence alignment, interactive sequence choice and visualization\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\t0000-0003-4133-8393\n\t\t\n\t\t\n\t\t\tJohnRozewicki\n\t\t\n\t\t\n\t\t\tKazunoriDYamada\n\t\t\n\t\t10.1093/bib/bbx108\n\t\t28968734\n\t\t\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5ad647723bebd8667e855"},"refKey":10},
{"_key":"60c5ad6c7723bebd8667e862","_id":"references/60c5ad6c7723bebd8667e862","_rev":"_cfFlpAq---","tei":"\n\t\n\t\tmiRBase: annotating high confidence microRNAs using deep sequencing data\n\t\t\n\t\t\tAnaKozomara\n\t\t\n\t\t\n\t\t\tSamGriffiths-Jones\n\t\t\n\t\t10.1093/nar/gkt1181\n\t\t24275495\n\t\tPMC3965103\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl. Acids Res.\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5ad6c7723bebd8667e861"},"refKey":24},
{"_key":"60c5ad6c7723bebd8667e863","_id":"references/60c5ad6c7723bebd8667e863","_rev":"_cfFlpA2---","tei":"\n\t\n\t\tfrom microRNA sequences to function\n\t\t\n\t\t\tAKozomara\n\t\t\n\t\t\n\t\t\tMBirgaoanu\n\t\t\n\t\t\n\t\t\tSGriffiths-Jones\n\t\t\n\t\t\n\t\t\tMirbase\n\t\t\n\t\t10.1093/nar/gky1141\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ad6c7723bebd8667e861"},"refKey":25},
{"_key":"60c5ad6c7723bebd8667e864","_id":"references/60c5ad6c7723bebd8667e864","_rev":"_cfFlpBC---","tei":"\n\t\n\t\tThe microRNA.org resource: targets and expression\n\t\t\n\t\t\tDBetel\n\t\t\n\t\t\n\t\t\tMWilson\n\t\t\n\t\t\n\t\t\tAGabow\n\t\t\n\t\t\n\t\t\tDSMarks\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\t10.1093/nar/gkm995\n\t\t18158296\n\t\tPMC2238905\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5ad6c7723bebd8667e861"},"refKey":17},
{"_key":"60c5ad6c7723bebd8667e865","_id":"references/60c5ad6c7723bebd8667e865","_rev":"_cfFlpBO---","tei":"\n\t\n\t\tPredicting effective microRNA target sites in mammalian mRNAs\n\t\t\n\t\t\tVikramAgarwal\n\t\t\n\t\t\n\t\t\tGeorgeWBell\n\t\t\n\t\t\n\t\t\tJin-WuNam\n\t\t\n\t\t\n\t\t\tDavidPBartel\n\t\t\n\t\t10.7554/elife.05005\n\t\t26267216\n\t\tPMC4532895\n\t\tdoi: 10.7554/ eLife.05005\n\t\n\t\n\t\teLife\n\t\t2050-084X\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\teLife Sciences Publications, Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c5ad6c7723bebd8667e861"},"refKey":18},
{"_key":"60c5ad6c7723bebd8667e866","_id":"references/60c5ad6c7723bebd8667e866","_rev":"_cfFlpBW---","tei":"\n\t\n\t\tmiRDB: an online database for prediction of functional microRNA targets\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\t10.1093/nar/gkz757\n\t\tdoi: 10.1093/ nar/gkz757\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t48\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ad6c7723bebd8667e861"},"refKey":19},
{"_key":"60c5ad6c7723bebd8667e867","_id":"references/60c5ad6c7723bebd8667e867","_rev":"_cfFlpBi---","tei":"\n\t\n\t\tmiRWalk: An online resource for prediction of microRNA binding sites\n\t\t\n\t\t\tCSticht\n\t\t\n\t\t\n\t\t\tCDe La Torre\n\t\t\n\t\t\n\t\t\tAParveen\n\t\t\n\t\t\n\t\t\tNGretz\n\t\t\n\t\t10.1371/journal.pone.0206239\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t13\n\t\t\t10\n\t\t\te0206239\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ad6c7723bebd8667e861"},"refKey":21},
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{"_key":"60c5ad6c7723bebd8667e869","_id":"references/60c5ad6c7723bebd8667e869","_rev":"_cfFlpB6---","tei":"\n\t\n\t\tDIANA-microT web server v5.0: service integration into miRNA functional analysis workflows\n\t\t\n\t\t\tMariaDParaskevopoulou\n\t\t\n\t\t\n\t\t\tGeorgiosGeorgakilas\n\t\t\n\t\t\n\t\t\tNikosKostoulas\n\t\t\n\t\t\n\t\t\tIoannisSVlachos\n\t\t\n\t\t\n\t\t\tThanasisVergoulis\n\t\t\n\t\t\n\t\t\tMartinReczko\n\t\t\n\t\t\n\t\t\tChristosFilippidis\n\t\t\n\t\t\n\t\t\tTheodoreDalamagas\n\t\t\n\t\t\n\t\t\tAGHatzigeorgiou\n\t\t\n\t\t10.1093/nar/gkt393\n\t\t23680784\n\t\tPMC3692048\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5ad6c7723bebd8667e861"},"refKey":23},
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{"_key":"60c5ad977723bebd8667e899","_id":"references/60c5ad977723bebd8667e899","_rev":"_cfFlpDK---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5ad977723bebd8667e892"},"refKey":37},
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{"_key":"60c5af147723bebd8667ea10","_id":"references/60c5af147723bebd8667ea10","_rev":"_cfFlpGy---","tei":"\n\t\n\t\tTheme Detection in Social Media\n\t\t\n\t\t\tDanielAngus\n\t\t\n\t\t10.4135/9781473983847.n31\n\t\n\t\n\t\tThe SAGE Handbook of Social Media Research Methods\n\t\t\t\t\n\t\t\tLSloan\n\t\t\t&AQuan-Haase\n\t\t\n\t\tSage; London\n\t\t\n\t\t\tSAGE Publications Ltd\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5af147723bebd8667ea0f"},"refKey":5},
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{"_key":"60c5afdf7723bebd8667ea98","_id":"references/60c5afdf7723bebd8667ea98","_rev":"_cfFlpHW---","tei":"\n\t\n\t\tImproved pairwise alignment of genomic DNA\n\t\t\n\t\t\tRSHarris\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tPennsylvania State University\n\t\t\n\t\n\tPh.D. Thesis.\n\n","document":{"$oid":"60c5afdf7723bebd8667ea97"},"refKey":32},
{"_key":"60c5afdf7723bebd8667ea99","_id":"references/60c5afdf7723bebd8667ea99","_rev":"_cfFlpHi---","tei":"\n\t\n\t\tMSAViewer: interactive JavaScript visualization of multiple sequence alignments\n\t\t\n\t\t\tGuyYachdav\n\t\t\n\t\t\n\t\t\tSebastianWilzbach\n\t\t\n\t\t\n\t\t\tBenediktRauscher\n\t\t\n\t\t\n\t\t\tRobertSheridan\n\t\t\n\t\t\n\t\t\tIanSillitoe\n\t\t\n\t\t\n\t\t\tJamesProcter\n\t\t\n\t\t\n\t\t\tSuzannaELewis\n\t\t\n\t\t\n\t\t\tBurkhardRost\n\t\t\n\t\t\n\t\t\tTatyanaGoldberg\n\t\t\n\t\t10.1093/bioinformatics/btw474\n\t\t27412096\n\t\tPMC5181560\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\tbtw474\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5afdf7723bebd8667ea97"},"refKey":44},
{"_key":"60c5afdf7723bebd8667ea9a","_id":"references/60c5afdf7723bebd8667ea9a","_rev":"_cfFlpHu---","tei":"\n\t\n\t\tNCBI BLAST: a better web interface\n\t\t\n\t\t\tMJohnson\n\t\t\n\t\t\n\t\t\tIZaretskaya\n\t\t\n\t\t\n\t\t\tYRaytselis\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5afdf7723bebd8667ea97"},"refKey":48},
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{"_key":"60c5b08d7723bebd8667eb58","_id":"references/60c5b08d7723bebd8667eb58","_rev":"_cfFlpKm---","tei":"\n\t\n\t\tPharmMapper server: a web server for potential drug target identification using pharmacophore mapping approach\n\t\t\n\t\t\tXiaofengLiu\n\t\t\n\t\t\n\t\t\tSishengOuyang\n\t\t\n\t\t\n\t\t\tBiaoYu\n\t\t\n\t\t\n\t\t\tYaboLiu\n\t\t\n\t\t\n\t\t\tKaiHuang\n\t\t\n\t\t\n\t\t\tJiayuGong\n\t\t\n\t\t\n\t\t\tSiyuanZheng\n\t\t\n\t\t\n\t\t\tZhihuaLi\n\t\t\n\t\t\n\t\t\tHonglinLi\n\t\t\n\t\t\n\t\t\tHualiangJiang\n\t\t\n\t\t10.1093/nar/gkq300\n\t\t20430828\n\t\tPMC2896160\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5b08d7723bebd8667eb57"},"refKey":23},
{"_key":"60c5b08d7723bebd8667eb59","_id":"references/60c5b08d7723bebd8667eb59","_rev":"_cfFlpKy---","tei":"\n\t\n\t\tDRAR-CPI: a server for identifying drug repositioning potential and adverse drug reactions via the chemical–protein interactome\n\t\t\n\t\t\tHengLuo\n\t\t\n\t\t\n\t\t\tJianChen\n\t\t\n\t\t\n\t\t\tLemingShi\n\t\t\n\t\t\n\t\t\tMikeMikailov\n\t\t\n\t\t\n\t\t\tHuangZhu\n\t\t\n\t\t\n\t\t\tKejianWang\n\t\t\n\t\t\n\t\t\tLinHe\n\t\t\n\t\t\n\t\t\tLunYang\n\t\t\n\t\t10.1093/nar/gkr299\n\t\t21558322\n\t\tPMC3125745\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t39\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5b08d7723bebd8667eb57"},"refKey":24},
{"_key":"60c5b08d7723bebd8667eb5a","_id":"references/60c5b08d7723bebd8667eb5a","_rev":"_cfFlpL----","tei":"\n\t\n\t\tComputational evaluation of major components from plant essential oils as potent inhibitors of SARS-CoV-2 spike protein\n\t\t\n\t\t\tSAKulkarni\n\t\t\n\t\n\t\n\t\tJ. Mol. Struct\n\t\t\n\t\t\t1221\n\t\t\t128823\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b08d7723bebd8667eb57"},"refKey":58},
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{"_key":"60c5b08d7723bebd8667eb5c","_id":"references/60c5b08d7723bebd8667eb5c","_rev":"_cfFlpLW---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t4\n\t\t\t44\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b08d7723bebd8667eb57"},"refKey":34},
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{"_key":"60c5b0b97723bebd8667ebb5","_id":"references/60c5b0b97723bebd8667ebb5","_rev":"_cfFlpLq---","tei":"\n\t\n\t\tPaup -a computer-program for phylogenetic inference using maximum parsimony\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\n\t\n\t\tJ. Gen. Physiol\n\t\t\n\t\t\t102\n\t\t\t6\n\t\t\tA9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b0b97723bebd8667ebb4"},"refKey":71},
{"_key":"60c5b0b97723bebd8667ebb6","_id":"references/60c5b0b97723bebd8667ebb6","_rev":"_cfFlpL2---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b0b97723bebd8667ebb4"},"refKey":72},
{"_key":"60c5b0da7723bebd8667ebbb","_id":"references/60c5b0da7723bebd8667ebbb","_rev":"_cfFlpMC---","tei":"\n\t\n\t\t\n\t\t\tAAktay\n\t\t\n\t\t\n\t\t\tSBavadekar\n\t\t\n\t\t\n\t\t\tGCossoul\n\t\t\n\t\t\n\t\t\tJDavis\n\t\t\n\t\t\n\t\t\tDDesfontaines\n\t\t\n\t\t\n\t\t\tAFabrikant\n\t\t\n\t\t\n\t\t\tEGabrilovich\n\t\t\n\t\t\n\t\t\tKGadepalli\n\t\t\n\t\t\n\t\t\tBGipson\n\t\t\n\t\t\n\t\t\tMGuevara\n\t\t\n\t\tarXiv:2004.04145\n\t\tGoogle covid-19 community mobility reports: Anonymization process description (version 1.0)\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c5b0da7723bebd8667ebba"},"refKey":10},
{"_key":"60c5b0f87723bebd8667ebc9","_id":"references/60c5b0f87723bebd8667ebc9","_rev":"_cfFlpMO---","tei":"\n\t\n\t\tInf-Net: Automatic COVID-19 Lung Infection Segmentation From CT Images\n\t\t\n\t\t\tDPFan\n\t\t\n\t\t\n\t\t\tTZhou\n\t\t\n\t\t\n\t\t\tGPJi\n\t\t\n\t\n\t\n\t\tIEEE Trans Med Imaging\n\t\t\n\t\t\t39\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b0f87723bebd8667ebc8"},"refKey":29},
{"_key":"60c5b1257723bebd8667ebd9","_id":"references/60c5b1257723bebd8667ebd9","_rev":"_cfFlpMa---","tei":"\n\t\n\t\tDevelopment and assessment of oligonucleotide microarrays for Atlantic salmon (Salmo salar L.)\n\t\t\n\t\t\tAlekseiKrasnov\n\t\t\n\t\t\n\t\t\tGerritTimmerhaus\n\t\t\n\t\t\n\t\t\tSergeyAfanasyev\n\t\t\n\t\t\n\t\t\tSvenMartinJørgensen\n\t\t\n\t\t10.1016/j.cbd.2010.04.006\n\t\t20605756\n\t\n\t\n\t\tComparative Biochemistry and Physiology Part D: Genomics and Proteomics\n\t\tComparative Biochemistry and Physiology Part D: Genomics and Proteomics\n\t\t1744-117X\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5b1257723bebd8667ebd8"},"refKey":20},
{"_key":"60c5b13c7723bebd8667ebf6","_id":"references/60c5b13c7723bebd8667ebf6","_rev":"_cfFlpMm---","tei":"\n\t\n\t\tIQ-TREE 2: new models and efficient methods for phylogenetic inference in the genomic era\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tOChernomor\n\t\t\n\t\t\n\t\t\tDSchrempf\n\t\t\n\t\t\n\t\t\tMDWoodhams\n\t\t\n\t\t\n\t\t\tAVHaeseler\n\t\t\n\t\t\n\t\t\tRLanfear\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b13c7723bebd8667ebf5"},"refKey":3},
{"_key":"60c5b13c7723bebd8667ebf7","_id":"references/60c5b13c7723bebd8667ebf7","_rev":"_cfFlpMy---","tei":"\n\t\n\t\tUFBoot2: Improving the Ultrafast Bootstrap Approximation\n\t\t\n\t\t\tDiepThiHoang\n\t\t\n\t\t\n\t\t\tOlgaChernomor\n\t\t\n\t\t\n\t\t\tArndtVonHaeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t\n\t\t\tLeSyVinh\n\t\t\n\t\t10.1101/153916\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5b13c7723bebd8667ebf5"},"refKey":0},
{"_key":"60c5b13c7723bebd8667ebf8","_id":"references/60c5b13c7723bebd8667ebf8","_rev":"_cfFlpN----","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b13c7723bebd8667ebf5"},"refKey":1},
{"_key":"60c5b13c7723bebd8667ebf9","_id":"references/60c5b13c7723bebd8667ebf9","_rev":"_cfFlpNK---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b13c7723bebd8667ebf5"},"refKey":7},
{"_key":"60c5b1a97723bebd8667ec70","_id":"references/60c5b1a97723bebd8667ec70","_rev":"_cfFlpNW---","tei":"\n\t\n\t\tStabilization of protein structure by interaction of α-helix dipole with a charged side chain\n\t\t\n\t\t\tDas̆aS˘ali\n\t\t\n\t\t\n\t\t\tMarkBycroft\n\t\t\n\t\t\n\t\t\tAlanRFersht\n\t\t\n\t\t10.1038/335740a0\n\t\t3173493\n\t\tark:/67375/GT4-9R96SL77-J\n\t\t195E50E2268E6BD93E380A3F6D584C87C747CB53\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t335\n\t\t\t6192\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5b1a97723bebd8667ec6f"},"refKey":186},
{"_key":"60c5b1a97723bebd8667ec71","_id":"references/60c5b1a97723bebd8667ec71","_rev":"_cfFlpNe---","tei":"\n\t\n\t\tComparative Modeling of Drug Target Proteins\n\t\t\n\t\t\tNEswar\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\t10.1016/b0-08-045044-x/00251-0\n\t\n\t\n\t\tComprehensive Medicinal Chemistry II\n\t\t\t\t\n\t\t\tJBTaylor\n\t\t\tDJTriggle\n\t\t\n\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b1a97723bebd8667ec6f"},"refKey":187},
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{"_key":"60c5b1ca7723bebd8667ec97","_id":"references/60c5b1ca7723bebd8667ec97","_rev":"_cfFlpN2---","tei":"\n\t\n\t\tGenome structure and transcriptional regulation of human coronavirus NL63\n\t\t\n\t\t\tKPyrc\n\t\t\n\t\t\n\t\t\tMFJebbink\n\t\t\n\t\t\n\t\t\tBBerkhout\n\t\t\n\t\t\n\t\t\tLVan Der Hoek\n\t\t\n\t\n\t\n\t\tVirol. J\n\t\t\n\t\t\t1\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b1ca7723bebd8667ec96"},"refKey":36},
{"_key":"60c5b1ca7723bebd8667ec98","_id":"references/60c5b1ca7723bebd8667ec98","_rev":"_cfFlpOC---","tei":"\n\t\n\t\tReverse genetics with a full-length infectious cDNA of severe acute respiratory syndrome coronavirus\n\t\t\n\t\t\tBYount\n\t\t\n\t\t\n\t\t\tKMCurtis\n\t\t\n\t\t\n\t\t\tEAFritz\n\t\t\n\t\t\n\t\t\tLEHensley\n\t\t\n\t\t\n\t\t\tPBJahrling\n\t\t\n\t\t\n\t\t\tEPrentice\n\t\t\n\t\t\n\t\t\tMRDenison\n\t\t\n\t\t\n\t\t\tTWGeisbert\n\t\t\n\t\t\n\t\t\tRSBaric\n\t\t\n\t\t10.1073/pnas.1735582100\n\t\t14569023\n\t\tPMC240733\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t100\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c5b1ca7723bebd8667ec96"},"refKey":60},
{"_key":"60c5b1ca7723bebd8667ec99","_id":"references/60c5b1ca7723bebd8667ec99","_rev":"_cfFlpOO---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b1ca7723bebd8667ec96"},"refKey":26},
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{"_key":"60c5b21f7723bebd8667ecd3","_id":"references/60c5b21f7723bebd8667ecd3","_rev":"_cfFlpOy---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\n\t\n\t\tCore Team R\n\t\t\n\t\t\t2020\n\t\t\n\t\n\t: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c5b21f7723bebd8667ecd0"},"refKey":18},
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{"_key":"60c5b2437723bebd8667ecf5","_id":"references/60c5b2437723bebd8667ecf5","_rev":"_cfFlpPK---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tTGur\n\t\t\n\t\t\n\t\t\tNMadhusoodanan\n\t\t\n\t\t\n\t\t\tPBasutkar\n\t\t\n\t\t\n\t\t\tArnTivey\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t10.1093/nar/gkz268\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b2437723bebd8667ecf3"},"refKey":14},
{"_key":"60c5b2617723bebd8667ed14","_id":"references/60c5b2617723bebd8667ed14","_rev":"_cfFlpPW---","tei":"\n\t\n\t\tA Modified Bootscan Algorithm for Automated Identification of Recombinant Sequences and Recombination Breakpoints\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\t\n\t\t\tCWilliamson\n\t\t\n\t\t10.1089/aid.2005.21.98\n\t\t15665649\n\t\t\n\t\n\t\n\t\tAIDS Research and Human Retroviruses\n\t\tAIDS Research and Human Retroviruses\n\t\t0889-2229\n\t\t1931-8405\n\t\t\n\t\t\t21\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c5b2617723bebd8667ed13"},"refKey":39},
{"_key":"60c5b2617723bebd8667ed15","_id":"references/60c5b2617723bebd8667ed15","_rev":"_cfFlpPe---","tei":"\n\t\n\t\tPossible emergence of new geminiviruses by frequent recombination\n\t\t\n\t\t\tMPadidam\n\t\t\n\t\t\n\t\t\tSSawyer\n\t\t\n\t\t\n\t\t\tCMFauquet\n\t\t\n\t\n\t\n\t\tVirology\n\t\t\n\t\t\t265\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b2617723bebd8667ed13"},"refKey":40},
{"_key":"60c5b2617723bebd8667ed16","_id":"references/60c5b2617723bebd8667ed16","_rev":"_cfFlpPq---","tei":"\n\t\n\t\tAnalyzing the mosaic structure of genes\n\t\t\n\t\t\tJohnmaynardMSmith\n\t\t\n\t\t10.1007/bf00182389\n\t\tark:/67375/1BB-PF2DNF4W-7\n\t\t50F7696424BCDB18C0ED882500777A849443F2AC\n\t\n\t\n\t\tJournal of Molecular Evolution\n\t\tJ Mol Evol\n\t\t0022-2844\n\t\t1432-1432\n\t\t\n\t\t\t34\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5b2617723bebd8667ed13"},"refKey":41},
{"_key":"60c5b2617723bebd8667ed17","_id":"references/60c5b2617723bebd8667ed17","_rev":"_cfFlpP2---","tei":"\n\t\n\t\tSister-Scanning: a Monte Carlo procedure for assessing signals in recombinant sequences\n\t\t\n\t\t\tMJGibbs\n\t\t\n\t\t\n\t\t\tJSArmstrong\n\t\t\n\t\t\n\t\t\tAJGibbs\n\t\t\n\t\t10.1093/bioinformatics/16.7.573\n\t\t11038328\n\t\t1460-2059\n\t\tark:/67375/HXZ-X701PMR7-B\n\t\t5B7C3FBD54922AB388E298F8752F66174629CBB2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5b2617723bebd8667ed13"},"refKey":43},
{"_key":"60c5b2617723bebd8667ed18","_id":"references/60c5b2617723bebd8667ed18","_rev":"_cfFlpQC---","tei":"\n\t\n\t\tAn Exact Nonparametric Method for Inferring Mosaic Structure in Sequence Triplets\n\t\t\n\t\t\tMaciejFBoni\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t\n\t\t\tMarcusWFeldman\n\t\t\n\t\t10.1534/genetics.106.068874\n\t\t17409078\n\t\tPMC1894573\n\t\t\n\t\n\t\n\t\tGenetics\n\t\tGenetics\n\t\t0016-6731\n\t\t1943-2631\n\t\t\n\t\t\t176\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tGenetics Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c5b2617723bebd8667ed13"},"refKey":44},
{"_key":"60c5b2617723bebd8667ed19","_id":"references/60c5b2617723bebd8667ed19","_rev":"_cfFlpQO---","tei":"\n\t\n\t\tMolecular evolutionary genetics analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tMega4\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b2617723bebd8667ed13"},"refKey":16},
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{"_key":"60c5b2b07723bebd8667ed5f","_id":"references/60c5b2b07723bebd8667ed5f","_rev":"_cfFlpQm---","tei":"\n\t\n\t\tTowards customizing multi-tenant cloud applications using non-intrusive microservices\n\t\t\n\t\t\tPHNguyen\n\t\t\n\t\t\n\t\t\tHSong\n\t\t\n\t\t\n\t\t\tFChauvel\n\t\t\n\t\t\n\t\t\tELevin\n\t\t\n\t\n\t\n\t\tThe 2nd International Conference on Microservices\n\t\t\t\tDortmund\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b2b07723bebd8667ed5e"},"refKey":6},
{"_key":"60c5b2b07723bebd8667ed60","_id":"references/60c5b2b07723bebd8667ed60","_rev":"_cfFlpQy---","tei":"\n\t\n\t\tUsing microservices for non-intrusive customization of multi-tenant SaaS\n\t\t\n\t\t\tPhuHNguyen\n\t\t\n\t\t\n\t\t\tHuiSong\n\t\t\n\t\t\n\t\t\tFranckChauvel\n\t\t\n\t\t\n\t\t\tRoyMuller\n\t\t\n\t\t\n\t\t\tSerefBoyar\n\t\t\n\t\t\n\t\t\tErikLevin\n\t\t\n\t\t10.1145/3338906.3340452\n\t\t\n\t\n\t\n\t\tProceedings of the 2019 27th ACM Joint Meeting on European Software Engineering Conference and Symposium on the Foundations of Software Engineering - ESEC/FSE 2019\n\t\t\t\tthe 2019 27th ACM Joint Meeting on European Software Engineering Conference and Symposium on the Foundations of Software Engineering - ESEC/FSE 2019New York\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b2b07723bebd8667ed5e"},"refKey":7},
{"_key":"60c5b2b07723bebd8667ed61","_id":"references/60c5b2b07723bebd8667ed61","_rev":"_cfFlpR----","tei":"\n\t\n\t\tUsing microservices to customize multitenant SaaS: from intrusive to non-intrusive\n\t\t\n\t\t\tHSong\n\t\t\n\t\t\n\t\t\tPHNguyen\n\t\t\n\t\t\n\t\t\tFChauvel\n\t\t\n\t\t\n\t\t\tLCruz-Filipe\n\t\t\n\t\t\n\t\t\tSGiallorenzo\n\t\t\n\t\t\n\t\t\tFMontesi\n\t\t\n\t\t\n\t\t\tMPeressotti\n\t\t\n\t\t\n\t\t\tFRademacher\n\t\t\n\t\t10.4230/OASIcs.Microservices.2017-2019.1\n\t\t\n\t\n\t\n\t\tJoint Postproceedings of the First and Second International Conference on Microservices\n\t\t\t\t\n\t\t\tSSachweh\n\t\t\n\t\tGermany\n\t\t\n\t\t\t\n\t\t\t78\n\t\t\t\n\t\t\n\t\n\t18. Schloss Dagstuhl-Leibniz-Zentrum fuer Informatik\n\n","document":{"$oid":"60c5b2b07723bebd8667ed5e"},"refKey":10},
{"_key":"60c5b2d37723bebd8667ed7b","_id":"references/60c5b2d37723bebd8667ed7b","_rev":"_cfFlpRK---","tei":"\n\t\n\t\tEpiEstim: Estimate Time Varying Reproduction Numbers from Epidemic Curves\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2.2-1\n\n","document":{"$oid":"60c5b2d37723bebd8667ed7a"},"refKey":7},
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{"_key":"60c5b2fc7723bebd8667edad","_id":"references/60c5b2fc7723bebd8667edad","_rev":"_cfFlpRe---","tei":"\n\t\n\t\tImproved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software\n\t\t\n\t\t\tLKamentsky\n\t\t\n\t\t\n\t\t\tTRJones\n\t\t\n\t\t\n\t\t\tAFraser\n\t\t\n\t\t\n\t\t\tM-ABray\n\t\t\n\t\t\n\t\t\tDJLogan\n\t\t\n\t\t\n\t\t\tKLMadden\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b2fc7723bebd8667edac"},"refKey":91},
{"_key":"60c5b3107723bebd8667edc0","_id":"references/60c5b3107723bebd8667edc0","_rev":"_cfFlpRq---","tei":"\n\t\n\t\tPlantdoc: a dataset for visual plant disease detection\n\t\t\n\t\t\tDSingh\n\t\t\n\t\t\n\t\t\tNJain\n\t\t\n\t\t\n\t\t\tPJain\n\t\t\n\t\t\n\t\t\tPKayal\n\t\t\n\t\t\n\t\t\tSKumawat\n\t\t\n\t\t\n\t\t\tNBatra\n\t\t\n\t\n\t\n\t\tProceedings of the 7th ACM IKDD CoDS and 25th COMAD\n\t\t\t\tthe 7th ACM IKDD CoDS and 25th COMAD\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b3107723bebd8667edbf"},"refKey":15},
{"_key":"60c5b3107723bebd8667edc1","_id":"references/60c5b3107723bebd8667edc1","_rev":"_cfFlpR2---","tei":"\n\t\n\t\tMobilenetv 2: inverted residuals and linear bottlenecks\n\t\t\n\t\t\tMSandler\n\t\t\n\t\t\n\t\t\tAHoward\n\t\t\n\t\t\n\t\t\tMZhu\n\t\t\n\t\t\n\t\t\tAZhmoginov\n\t\t\n\t\t\n\t\t\tLCChen\n\t\t\n\t\n\t\n\t\tProceedings of the IEEE Conference on Computer Vision and Pattern Recognition\n\t\t\t\tthe IEEE Conference on Computer Vision and Pattern Recognition\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b3107723bebd8667edbf"},"refKey":11},
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{"_key":"60c5b3c17723bebd8667ee50","_id":"references/60c5b3c17723bebd8667ee50","_rev":"_cfFlpSy---","tei":"\n\t\n\t\tAnyLogic 6 in three days: a quick course in simulation modeling\n\t\t\n\t\t\tIGrigoryev\n\t\t\n\t\t\n\t\t\t\n\t\t\tHampton, NJ; AnyLogic North America\n\t\t\n\t\n\n","document":{"$oid":"60c5b3c17723bebd8667ee4f"},"refKey":23},
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{"_key":"60c5b3c17723bebd8667ee54","_id":"references/60c5b3c17723bebd8667ee54","_rev":"_cfFlpTi---","tei":"\n\t\n\t\tThe repast simphony runtime system\n\t\t\n\t\t\tMJNorth\n\t\t\n\t\t\n\t\t\tTRHowe\n\t\t\n\t\t\n\t\t\tNTCollier\n\t\t\n\t\t\n\t\t\tJRVos\n\t\t\n\t\n\t\n\t\tProceedings of the agent 2005 conference on generative social processes, models, and mechanisms. Citeseer; 2005\n\t\t\t\tthe agent 2005 conference on generative social processes, models, and mechanisms. Citeseer; 2005\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b3c17723bebd8667ee4f"},"refKey":27},
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{"_key":"60c5b7db7723bebd8667f1e0","_id":"references/60c5b7db7723bebd8667f1e0","_rev":"_cfFlph2---","tei":"\n\t\n\t\tSuper deduper, fast PCR duplicate detection in fastq files\n\t\t\n\t\t\tKristenRPetersen\n\t\t\n\t\t\n\t\t\tDavidAStreett\n\t\t\n\t\t\n\t\t\tAlidaTGerritsen\n\t\t\n\t\t\n\t\t\tSamuelSHunter\n\t\t\n\t\t\n\t\t\tMatthewLSettles\n\t\t\n\t\t10.1145/2808719.2811568\n\t\n\t\n\t\tProceedings of the 6th ACM Conference on Bioinformatics, Computational Biology and Health Informatics - BCB '15\n\t\t\t\tthe 6th ACM Conference on Bioinformatics, Computational Biology and Health Informatics - BCB '15Atlanta, Georgia\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b7db7723bebd8667f1dd"},"refKey":28},
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{"_key":"60c5b7ef7723bebd8667f1f9","_id":"references/60c5b7ef7723bebd8667f1f9","_rev":"_cfFlpiO---","tei":"\n\t\n\t\tMetagenomic species profiling using universal phylogenetic marker genes\n\t\t\n\t\t\tSSunagawa\n\t\t\n\t\t\n\t\t\tDRMende\n\t\t\n\t\t\n\t\t\tGZeller\n\t\t\n\t\t\n\t\t\tFIzquierdo-Carrasco\n\t\t\n\t\t\n\t\t\tSABerger\n\t\t\n\t\t\n\t\t\tJRKultima\n\t\t\n\t\t\n\t\t\tLPCoelho\n\t\t\n\t\t\n\t\t\tMArumugam\n\t\t\n\t\t\n\t\t\tJTap\n\t\t\n\t\t\n\t\t\tHBNielsen\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b7ef7723bebd8667f1f7"},"refKey":79},
{"_key":"60c5b80a7723bebd8667f213","_id":"references/60c5b80a7723bebd8667f213","_rev":"_cfFlpia---","tei":"\n\t\n\t\tEfficient Unbound Docking of Rigid Molecules\n\t\t\n\t\t\tDinaDuhovny\n\t\t\n\t\t\n\t\t\tRuthNussinov\n\t\t\n\t\t\n\t\t\tHaimJWolfson\n\t\t\n\t\t10.1007/3-540-45784-4_14\n\t\tark:/67375/HCB-DPW8P5RB-X\n\t\tB42AA2FD910E15D56126FD367B4DDF0E35E41BC4\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\tBerlin, Heidelberg; Berlin Heidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b80a7723bebd8667f212"},"refKey":19},
{"_key":"60c5b80a7723bebd8667f214","_id":"references/60c5b80a7723bebd8667f214","_rev":"_cfFlpim---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b80a7723bebd8667f212"},"refKey":18},
{"_key":"60c5b80a7723bebd8667f215","_id":"references/60c5b80a7723bebd8667f215","_rev":"_cfFlpiu---","tei":"\n\t\n\t\tFrom Modeling to Medicinal Chemistry: Automatic Generation of Two-Dimensional Complex Diagrams\n\t\t\n\t\t\tKatrinStierand\n\t\t\n\t\t\n\t\t\tMatthiasRarey\n\t\t\n\t\t10.1002/cmdc.200700010\n\t\t17436259\n\t\tark:/67375/WNG-VZTRBVZ8-L\n\t\t94B0EBADE4CF7935EACDB2200DCCD6F2C28B6939\n\t\n\t\n\t\tChemMedChem\n\t\tChemMedChem\n\t\t1860-7179\n\t\t1860-7187\n\t\t\n\t\t\t2\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5b80a7723bebd8667f212"},"refKey":16},
{"_key":"60c5b80a7723bebd8667f216","_id":"references/60c5b80a7723bebd8667f216","_rev":"_cfFlpi6---","tei":"\n\t\n\t\tGROMACS: high performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\n\t\n\t\tSoftware\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b80a7723bebd8667f212"},"refKey":35},
{"_key":"60c5b80a7723bebd8667f217","_id":"references/60c5b80a7723bebd8667f217","_rev":"_cfFlpjG---","tei":"\n\t\n\t\t\n\t\t\tAbrahamLindahl\n\t\t\n\t\t\n\t\t\tHess\n\t\t\n\t\t\n\t\t\tVan Der Spoel\n\t\t\n\t\t10.5281/zenodo.3773799\n\t\t\n\t\tGROMACS 2020.2 manual (version 2020.2). Zenodo\n\t\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b80a7723bebd8667f212"},"refKey":36},
{"_key":"60c5b80a7723bebd8667f218","_id":"references/60c5b80a7723bebd8667f218","_rev":"_cfFlpjS---","tei":"\n\t\n\t\tHighly flexible ligand docking: benchmarking of the DockThor program on the LEADS-PEP protein-peptide data set\n\t\t\n\t\t\tKBSantos\n\t\t\n\t\t\n\t\t\tIAGuedes\n\t\t\n\t\t\n\t\t\tAlmKarl\n\t\t\n\t\t\n\t\t\tLEDardenne\n\t\t\n\t\n\t\n\t\tJ Chem Inf Model\n\t\t\n\t\t\t60\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b80a7723bebd8667f212"},"refKey":17},
{"_key":"60c5b8107723bebd8667f232","_id":"references/60c5b8107723bebd8667f232","_rev":"_cfFlpje---","tei":"\n\t\n\t\tPAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods). Version 4. Sinauer Associates\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\t\n\t\t\t\n\t\t\tSunderland, Massachusetts\n\t\t\n\t\n\n","document":{"$oid":"60c5b8107723bebd8667f231"},"refKey":55},
{"_key":"60c5b8107723bebd8667f233","_id":"references/60c5b8107723bebd8667f233","_rev":"_cfFlpjq---","tei":"\n\t\n\t\tMODELTEST: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b8107723bebd8667f231"},"refKey":48},
{"_key":"60c5b8337723bebd8667f247","_id":"references/60c5b8337723bebd8667f247","_rev":"_cfFlpj2---","tei":"\n\t\n\t\t\n\t\t\tHWickham\n\t\t\n\t\tggplot2: Elegant Graphics for Data Analysis\n\t\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b8337723bebd8667f246"},"refKey":46},
{"_key":"60c5b8637723bebd8667f26b","_id":"references/60c5b8637723bebd8667f26b","_rev":"_cfFlpkC---","tei":"\n\t\n\t\tThe implementation of the Cilk-5 multithreaded language\n\t\t\n\t\t\tMatteoFrigo\n\t\t\n\t\t\n\t\t\tCharlesELeiserson\n\t\t\n\t\t\n\t\t\tKeithHRandall\n\t\t\n\t\t10.1145/277650.277725\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the ACM SIGPLAN 1998 conference on Programming language design and implementation - PLDI '98\n\t\t\t\t\n\t\t\tQuebecMontreal\n\t\t\tCanada\n\t\t\n\t\tthe ACM SIGPLAN 1998 conference on Programming language design and implementation - PLDI '98\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b8637723bebd8667f26a"},"refKey":4},
{"_key":"60c5b8637723bebd8667f26c","_id":"references/60c5b8637723bebd8667f26c","_rev":"_cfFlpkO---","tei":"\n\t\n\t\tEmbedded multicore building blocks -parallel programming made easy\n\t\t\n\t\t\tTSchuele\n\t\t\n\t\n\t\n\t\tEmbedded World\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b8637723bebd8667f26a"},"refKey":12},
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{"_key":"60c5b9467723bebd8667f2fb","_id":"references/60c5b9467723bebd8667f2fb","_rev":"_cfFlpku---","tei":"\n\t\n\t\tPermutation tests for joinpoint regression with applications to cancer rates\n\t\t\n\t\t\tHyune‐juKim\n\t\t\n\t\t\n\t\t\tMichaelPFay\n\t\t\n\t\t\n\t\t\tEricJFeuer\n\t\t\n\t\t\n\t\t\tDouglasNMidthune\n\t\t\n\t\t10.1002/(sici)1097-0258(20000215)19:3<335::aid-sim336>3.3.co;2-q\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t1097-0258\n\t\t\n\t\t\t19\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5b9467723bebd8667f2fa"},"refKey":17},
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{"_key":"60c5b9567723bebd8667f301","_id":"references/60c5b9567723bebd8667f301","_rev":"_cfFlplG---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5b9567723bebd8667f2ff"},"refKey":19},
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{"_key":"60c5b9847723bebd8667f336","_id":"references/60c5b9847723bebd8667f336","_rev":"_cfFlpma---","tei":"\n\t\n\t\tTREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tKStrimmer\n\t\t\n\t\t\n\t\t\tMVingron\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t10.1093/bioinformatics/18.3.502\n\t\t11934758\n\t\t1460-2059\n\t\tark:/67375/HXZ-5378SRLV-8\n\t\tA8FA9298006C807BBE496DD1AA0604DBBD83E8E5\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t18\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5b9847723bebd8667f333"},"refKey":25},
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{"_key":"60c5b9c27723bebd8667f3d9","_id":"references/60c5b9c27723bebd8667f3d9","_rev":"_cfFlpoi---","tei":"\n\t\n\t\tThe CCP4 software suite - current status and future developments\n\t\t\n\t\t\tMartynWinn\n\t\t\n\t\t\n\t\t\tCharlesBallard\n\t\t\n\t\t\n\t\t\tRonanKeegan\n\t\t\n\t\t\n\t\t\tGeorgiosPelios\n\t\t\n\t\t\n\t\t\tNatalieZhao\n\t\t\n\t\t\n\t\t\tEugeneKrissinel\n\t\t\n\t\t10.1107/s0108767310097229\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t66\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tOverview of the CCP4 suite and current developments\n\n","document":{"$oid":"60c5b9c27723bebd8667f3d7"},"refKey":21},
{"_key":"60c5ba057723bebd8667f3f9","_id":"references/60c5ba057723bebd8667f3f9","_rev":"_cfFlpou---","tei":"\n\t\n\t\tChanaes and Enhancements, Release 6.07\n\t\t\n\t\t\tS M S T A V Software\n\t\t\n\t\tk229. 1992\n\t\t\n\t\t\tSAS Inst., Inc\n\t\t\tCary, NC\n\t\t\n\t\n\tSASQ Technical Report\n\n","document":{"$oid":"60c5ba057723bebd8667f3f8"},"refKey":15},
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{"_key":"60c5ba2e7723bebd8667f411","_id":"references/60c5ba2e7723bebd8667f411","_rev":"_cfFlppG---","tei":"\n\t\n\t\tHead and neck cancer risk calculator (HaNC-RC)-V.2. Adjustments and addition of symptoms and social history factors\n\t\t\n\t\t\tTTikka\n\t\t\n\t\t\n\t\t\tKKavanagh\n\t\t\n\t\t\n\t\t\tALowit\n\t\t\n\t\t\n\t\t\tPJiafeng\n\t\t\n\t\t\n\t\t\tHBurns\n\t\t\n\t\t\n\t\t\tIJNixon\n\t\t\n\t\n\t\n\t\tClin Otolaryngol\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ba2e7723bebd8667f410"},"refKey":4},
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{"_key":"60c5bab27723bebd8667f453","_id":"references/60c5bab27723bebd8667f453","_rev":"_cfFlppm---","tei":"\n\t\n\t\tEnrichr: interactive and collaborative HTML5 gene list enrichment analysis tool\n\t\t\n\t\t\tEdwardYChen\n\t\t\n\t\t\n\t\t\tChristopherMTan\n\t\t\n\t\t\n\t\t\tYanKou\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tGabrielaMeirelles\n\t\t\n\t\t\n\t\t\tNeilRClark\n\t\t\n\t\t\n\t\t\tAviMa’ayan\n\t\t\n\t\t10.1186/1471-2105-14-128\n\t\t23586463\n\t\tPMC3637064\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t128\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5bab27723bebd8667f452"},"refKey":50},
{"_key":"60c5bab27723bebd8667f454","_id":"references/60c5bab27723bebd8667f454","_rev":"_cfFlppy---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMaximVKuleshov\n\t\t\n\t\t\n\t\t\tMatthewRJones\n\t\t\n\t\t\n\t\t\tAndrewDRouillard\n\t\t\n\t\t\n\t\t\tNicolasFFernandez\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tSimonKoplev\n\t\t\n\t\t\n\t\t\tSherryLJenkins\n\t\t\n\t\t\n\t\t\tKathleenMJagodnik\n\t\t\n\t\t\n\t\t\tAlexanderLachmann\n\t\t\n\t\t\n\t\t\tMichaelGMcdermott\n\t\t\n\t\t\n\t\t\tCarolineDMonteiro\n\t\t\n\t\t\n\t\t\tGregoryWGundersen\n\t\t\n\t\t\n\t\t\tAviMa'ayan\n\t\t\n\t\t10.1093/nar/gkw377\n\t\t27141961\n\t\tPMC4987924\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5bab27723bebd8667f452"},"refKey":51},
{"_key":"60c5bab27723bebd8667f455","_id":"references/60c5bab27723bebd8667f455","_rev":"_cfFlpq----","tei":"\n\t\n\t\tFASTQC. A quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bab27723bebd8667f452"},"refKey":33},
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{"_key":"60c5bab67723bebd8667f46d","_id":"references/60c5bab67723bebd8667f46d","_rev":"_cfFlpqu---","tei":"\n\t\n\t\tImproving SAT Solvers by Exploiting Empirical Characteristics of CDCL\n\t\t\n\t\t\tCOh\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tNew York University\n\t\t\n\t\n\tPh.D. thesis\n\n","document":{"$oid":"60c5bab67723bebd8667f46c"},"refKey":27},
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{"_key":"60c5bbc87723bebd8667f5b0","_id":"references/60c5bbc87723bebd8667f5b0","_rev":"_cfFlpvC---","tei":"\n\t\n\t\tAllergenFP: allergenicity prediction by descriptor fingerprints\n\t\t\n\t\t\tIDimitrov\n\t\t\n\t\t\n\t\t\tLNaneva\n\t\t\n\t\t\n\t\t\tIDoytchinova\n\t\t\n\t\t\n\t\t\tIBangov\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bbc87723bebd8667f5a8"},"refKey":10},
{"_key":"60c5bbe07723bebd8667f5c6","_id":"references/60c5bbe07723bebd8667f5c6","_rev":"_cfFlpvO---","tei":"\n\t\n\t\tDADA2: High resolution sample inference from amplicon data\n\t\t\n\t\t\tBenjaminJCallahan\n\t\t\n\t\t\n\t\t\tPaulJMcmurdie\n\t\t\n\t\t\n\t\t\tMichaelJRosen\n\t\t\n\t\t\n\t\t\tAndrewWHan\n\t\t\n\t\t\n\t\t\tAmyJJohnson\n\t\t\n\t\t\n\t\t\tSusanPHolmes\n\t\t\n\t\t10.1101/024034\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5bbe07723bebd8667f5c5"},"refKey":1},
{"_key":"60c5bbe77723bebd8667f5ca","_id":"references/60c5bbe77723bebd8667f5ca","_rev":"_cfFlpva---","tei":"\n\t\n\t\tggtree: an r package for visualization and annotation of phylogenetic trees with their covariates and other associated data\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tDKSmith\n\t\t\n\t\t\n\t\t\tHZhu\n\t\t\n\t\t\n\t\t\tYGuan\n\t\t\n\t\t\n\t\t\tTtyLam\n\t\t\n\t\n\t\n\t\tMethods Ecol Evol\n\t\t\n\t\t\t\n\t\t\n\t\n\t(which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission\n\n","document":{"$oid":"60c5bbe77723bebd8667f5c9"},"refKey":27},
{"_key":"60c5bbe77723bebd8667f5cb","_id":"references/60c5bbe77723bebd8667f5cb","_rev":"_cfFlpvm---","tei":"\n\t\n\t\tPosterior summarization in Bayesian phylogenetics using Tracer 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bbe77723bebd8667f5c9"},"refKey":24},
{"_key":"60c5bbe87723bebd8667f5e0","_id":"references/60c5bbe87723bebd8667f5e0","_rev":"_cfFlpvy---","tei":"\n\t\n\t\tVIGOR, an annotation program for small viral genomes\n\t\t\n\t\t\tShiliangWang\n\t\t\n\t\t\n\t\t\tJaideepPSundaram\n\t\t\n\t\t\n\t\t\tDavidSpiro\n\t\t\n\t\t10.1186/1471-2105-11-451\n\t\t20822531\n\t\tPMC2942859\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t451\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c5bbe87723bebd8667f5df"},"refKey":48},
{"_key":"60c5bbe87723bebd8667f5e1","_id":"references/60c5bbe87723bebd8667f5e1","_rev":"_cfFlpw----","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bbe87723bebd8667f5df"},"refKey":19},
{"_key":"60c5bbe87723bebd8667f5e2","_id":"references/60c5bbe87723bebd8667f5e2","_rev":"_cfFlpwK---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bbe87723bebd8667f5df"},"refKey":45},
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{"_key":"60c5bbf47723bebd8667f5f6","_id":"references/60c5bbf47723bebd8667f5f6","_rev":"_cfFlpwi---","tei":"\n\t\n\t\tDistributed representations of words and phrases and their compositionality\n\t\t\n\t\t\tTomasMikolov\n\t\t\n\t\t\n\t\t\tIlyaSutskever\n\t\t\n\t\t\n\t\t\tKaiChen\n\t\t\n\t\t\n\t\t\tGregSCorrado\n\t\t\n\t\t\n\t\t\tJeffDean\n\t\t\n\t\n\t\n\t\tAdvances in neural information processing systems\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bbf47723bebd8667f5f4"},"refKey":21},
{"_key":"60c5bc067723bebd8667f607","_id":"references/60c5bc067723bebd8667f607","_rev":"_cfFlpwu---","tei":"\n\t\n\t\tSWISS-MODEL: An automated protein homology-modeling server\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tNGuex\n\t\t\n\t\t\n\t\t\tMCPeitsch\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bc067723bebd8667f606"},"refKey":6},
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{"_key":"60c5bc067723bebd8667f609","_id":"references/60c5bc067723bebd8667f609","_rev":"_cfFlpxG---","tei":"\n\t\n\t\tClusPro: a fully automated algorithm for protein-protein docking\n\t\t\n\t\t\tSRComeau\n\t\t\n\t\t\n\t\t\tDWGatchell\n\t\t\n\t\t\n\t\t\tSVajda\n\t\t\n\t\t\n\t\t\tCJCamacho\n\t\t\n\t\t10.1093/nar/gkh354\n\t\t15215358\n\t\tPMC441492\n\t\tark:/67375/HXZ-S4DC0L6R-0\n\t\tD3279D8EA4B1F84733A63A2E40502CCDF49164F0\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5bc067723bebd8667f606"},"refKey":10},
{"_key":"60c5bc067723bebd8667f60a","_id":"references/60c5bc067723bebd8667f60a","_rev":"_cfFlpxS---","tei":"\n\t\n\t\tClusPro: an automated docking and discrimination method for the prediction of protein complexes\n\t\t\n\t\t\tSRComeau\n\t\t\n\t\t\n\t\t\tDWGatchell\n\t\t\n\t\t\n\t\t\tSVajda\n\t\t\n\t\t\n\t\t\tCJCamacho\n\t\t\n\t\t\n\t\t\t28\n\t\t\n\t\n\n","document":{"$oid":"60c5bc067723bebd8667f606"},"refKey":11},
{"_key":"60c5bc067723bebd8667f60b","_id":"references/60c5bc067723bebd8667f60b","_rev":"_cfFlpxe---","tei":"\n\t\n\t\tPIPER: an FFT-based protein docking program with pairwise potentials\n\t\t\n\t\t\tDKozakov\n\t\t\n\t\t\n\t\t\tRBrenke\n\t\t\n\t\t\n\t\t\tSRComeau\n\t\t\n\t\t\n\t\t\tSVajda\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bc067723bebd8667f606"},"refKey":13},
{"_key":"60c5bc067723bebd8667f60c","_id":"references/60c5bc067723bebd8667f60c","_rev":"_cfFlpxm---","tei":"\n\t\n\t\tThe ClusPro web server for protein-protein docking\n\t\t\n\t\t\tDKozakov\n\t\t\n\t\t\n\t\t\tDRHall\n\t\t\n\t\t\n\t\t\tBXia\n\t\t\n\t\t\n\t\t\tKAPorter\n\t\t\n\t\t\n\t\t\tDPadhorny\n\t\t\n\t\t\n\t\t\tCYueh\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bc067723bebd8667f606"},"refKey":14},
{"_key":"60c5bc067723bebd8667f60d","_id":"references/60c5bc067723bebd8667f60d","_rev":"_cfFlpxy---","tei":"\n\t\n\t\tHow good is automated protein docking?\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tTanggisBohnuud\n\t\t\n\t\t\n\t\t\tScottEMottarella\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t10.1002/prot.24403\n\t\t23996272\n\t\tPMC3934018\n\t\tark:/67375/WNG-FDSHRCZT-5\n\t\t8266CF175F9732485E8F4D85140443E3A90ED083\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t81\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5bc067723bebd8667f606"},"refKey":15},
{"_key":"60c5bc097723bebd8667f617","_id":"references/60c5bc097723bebd8667f617","_rev":"_cfFlpy----","tei":"\n\t\n\t\tPLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses\n\t\t\n\t\t\tShaunPurcell\n\t\t\n\t\t\n\t\t\tBenjaminNeale\n\t\t\n\t\t\n\t\t\tKatheTodd-Brown\n\t\t\n\t\t\n\t\t\tLoriThomas\n\t\t\n\t\t\n\t\t\tManuelA RFerreira\n\t\t\n\t\t\n\t\t\tDavidBender\n\t\t\n\t\t\n\t\t\tJulianMaller\n\t\t\n\t\t\n\t\t\tPamelaSklar\n\t\t\n\t\t\n\t\t\tPaulI WDe Bakker\n\t\t\n\t\t\n\t\t\tMarkJDaly\n\t\t\n\t\t\n\t\t\tPakCSham\n\t\t\n\t\t10.1086/519795\n\t\t17701901\n\t\tPMC1950838\n\t\t\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5bc097723bebd8667f616"},"refKey":26},
{"_key":"60c5bc097723bebd8667f618","_id":"references/60c5bc097723bebd8667f618","_rev":"_cfFlpyK---","tei":"\n\t\n\t\tHaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants\n\t\t\n\t\t\tLDWard\n\t\t\n\t\t\n\t\t\tMKellis\n\t\t\n\t\t10.1093/nar/gkr917\n\t\t22064851\n\t\tPMC3245002\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5bc097723bebd8667f616"},"refKey":32},
{"_key":"60c5bc097723bebd8667f619","_id":"references/60c5bc097723bebd8667f619","_rev":"_cfFlpya---","tei":"\n\t\n\t\tPrincipal components analysis corrects for stratification in genome-wide association studies\n\t\t\n\t\t\tAlkesLPrice\n\t\t\n\t\t\n\t\t\tNickJPatterson\n\t\t\n\t\t\n\t\t\tRobertMPlenge\n\t\t\n\t\t\n\t\t\tMichaelEWeinblatt\n\t\t\n\t\t\n\t\t\tNancyAShadick\n\t\t\n\t\t\n\t\t\tDavidReich\n\t\t\n\t\t10.1038/ng1847\n\t\t16862161\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t38\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5bc097723bebd8667f616"},"refKey":27},
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{"_key":"60c5bf527723bebd8667f9d8","_id":"references/60c5bf527723bebd8667f9d8","_rev":"_cfFlqBu---","tei":"\n\t\n\t\tIQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tOChernomor\n\t\t\n\t\t\n\t\t\tDSchrempf\n\t\t\n\t\t\n\t\t\tMDWoodhams\n\t\t\n\t\t\n\t\t\tVonHaeseler\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t37\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bf527723bebd8667f9d3"},"refKey":42},
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{"_key":"60c5bf527723bebd8667f9da","_id":"references/60c5bf527723bebd8667f9da","_rev":"_cfFlqCG---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c5bf527723bebd8667f9d3"},"refKey":37},
{"_key":"60c5bf527723bebd8667f9db","_id":"references/60c5bf527723bebd8667f9db","_rev":"_cfFlqCS---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5bf527723bebd8667f9d3"},"refKey":33},
{"_key":"60c5bf637723bebd8667f9f3","_id":"references/60c5bf637723bebd8667f9f3","_rev":"_cfFlqCe---","tei":"\n\t\n\t\tUsing MUMmer to Identify Similar Regions in Large Sequence Sets\n\t\t\n\t\t\tArthurLDelcher\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\n\t\t10.1002/0471250953.bi1003s00\n\t\t18428693\n\t\t1:10.3.1-10.3.18\n\t\t\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t\n\t\t\t00\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5bf637723bebd8667f9f2"},"refKey":18},
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{"_key":"60c5bf657723bebd8667f9fc","_id":"references/60c5bf657723bebd8667f9fc","_rev":"_cfFlqCy---","tei":"\n\t\n\t\tEvaluation of a generalizable approach to clinical information retrieval using the automated retrieval console (ARC)\n\t\t\n\t\t\tLWD'avolio\n\t\t\n\t\t\n\t\t\tTMNguyen\n\t\t\n\t\t\n\t\t\tWRFarwell\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tFFitzmeyer\n\t\t\n\t\t\n\t\t\tOMHarris\n\t\t\n\t\t\n\t\t\tLDFiore\n\t\t\n\t\t10.1136/jamia.2009.001412\n\t\t20595303\n\t\tPMC2995644\n\t\t\n\t\n\t\n\t\tJournal of the American Medical Informatics Association\n\t\tJournal of the American Medical Informatics Association\n\t\t1067-5027\n\t\t1527-974X\n\t\t\n\t\t\t17\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5bf657723bebd8667f9fa"},"refKey":12},
{"_key":"60c5bf657723bebd8667f9fd","_id":"references/60c5bf657723bebd8667f9fd","_rev":"_cfFlqD----","tei":"\n\t\n\t\tAutomated concept-level information extraction to reduce the need for custom software and rules development\n\t\t\n\t\t\tLeonardWD'avolio\n\t\t\n\t\t\n\t\t\tThienMNguyen\n\t\t\n\t\t\n\t\t\tSergeyGoryachev\n\t\t\n\t\t\n\t\t\tLouisDFiore\n\t\t\n\t\t10.1136/amiajnl-2011-000183\n\t\t21697292\n\t\tPMC3168318\n\t\t\n\t\n\t\n\t\tJournal of the American Medical Informatics Association\n\t\tJ Am Med Inform Assoc\n\t\t1067-5027\n\t\t1527-974X\n\t\t\n\t\t\t18\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5bf657723bebd8667f9fa"},"refKey":13},
{"_key":"60c5bf697723bebd8667fa02","_id":"references/60c5bf697723bebd8667fa02","_rev":"_cfFlqDK---","tei":"\n\t\n\t\tHaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants\n\t\t\n\t\t\tLDWard\n\t\t\n\t\t\n\t\t\tMKellis\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t40\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bf697723bebd8667fa01"},"refKey":62},
{"_key":"60c5bf697723bebd8667fa03","_id":"references/60c5bf697723bebd8667fa03","_rev":"_cfFlqDW---","tei":"\n\t\n\t\tlimma powers differential expression analyses for RNA-sequencing and microarray studies\n\t\t\n\t\t\tMERitchie\n\t\t\n\t\t\n\t\t\tBPhipson\n\t\t\n\t\t\n\t\t\tDWu\n\t\t\n\t\t\n\t\t\tYHu\n\t\t\n\t\t\n\t\t\tCWLaw\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\t7\n\t\t\te47\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bf697723bebd8667fa01"},"refKey":54},
{"_key":"60c5bf697723bebd8667fa04","_id":"references/60c5bf697723bebd8667fa04","_rev":"_cfFlqDi---","tei":"\n\t\n\t\tAn Epigenome-Wide Association Study of Obesity-Related Traits\n\t\t\n\t\t\tKlodianDhana\n\t\t\n\t\t\n\t\t\tKimV EBraun\n\t\t\n\t\t\n\t\t\tJanaNano\n\t\t\n\t\t\n\t\t\tTrudyVoortman\n\t\t\t0000-0003-2830-6813\n\t\t\n\t\t\n\t\t\tEllenWDemerath\n\t\t\n\t\t\n\t\t\tWeihuaGuan\n\t\t\n\t\t\n\t\t\tMyriamFornage\n\t\t\n\t\t\n\t\t\tJoyceB JVan Meurs\n\t\t\n\t\t\n\t\t\tAndreGUitterlinden\n\t\t\n\t\t\n\t\t\tAlbertHofman\n\t\t\n\t\t\n\t\t\tOscarHFranco\n\t\t\n\t\t\n\t\t\tAbbasDehghan\n\t\t\n\t\t10.1093/aje/kwy025\n\t\t29762635\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t1476-6256\n\t\t\n\t\t\t187\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5bf697723bebd8667fa01"},"refKey":44},
{"_key":"60c5bf697723bebd8667fa05","_id":"references/60c5bf697723bebd8667fa05","_rev":"_cfFlqDu---","tei":"\n\t\n\t\tmediation:RPackage for Causal Mediation Analysis\n\t\t\n\t\t\tDustinTingley\n\t\t\n\t\t\n\t\t\tTeppeiYamamoto\n\t\t\n\t\t\n\t\t\tKentaroHirose\n\t\t\n\t\t\n\t\t\tLukeKeele\n\t\t\n\t\t\n\t\t\tKosukeImai\n\t\t\n\t\t10.18637/jss.v059.i05\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t59\n\t\t\t5\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c5bf697723bebd8667fa01"},"refKey":64},
{"_key":"60c5bf707723bebd8667fa11","_id":"references/60c5bf707723bebd8667fa11","_rev":"_cfFlqD6---","tei":"\n\t\n\t\t\n\t\t\tDMüller\n\t\t\n\t\t\n\t\t\tFKramer\n\t\t\n\t\t\n\t\t\tMiscnn\n\t\t\n\t\tarXiv:eess.IV/1910.09308\n\t\tA Framework for Medical Image Segmentation with Convolutional Neural Networks and Deep Learning. arXiv 2019\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c5bf707723bebd8667fa10"},"refKey":26},
{"_key":"60c5bf8a7723bebd8667fa20","_id":"references/60c5bf8a7723bebd8667fa20","_rev":"_cfFlqEG---","tei":"\n\t\n\t\tStatistical power analyses using G*Power 3.1: Tests for correlation and regression analyses\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t10.3758/brm.41.4.1149\n\t\t19897823\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5bf8a7723bebd8667fa1f"},"refKey":24},
{"_key":"60c5bf987723bebd8667fa28","_id":"references/60c5bf987723bebd8667fa28","_rev":"_cfFlqES---","tei":"\n\t\n\t\t\n\t\n\t\n\t\tJASP Team. JASP\n\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c5bf987723bebd8667fa27"},"refKey":40},
{"_key":"60c5bfc67723bebd8667fa42","_id":"references/60c5bfc67723bebd8667fa42","_rev":"_cfFlqEa---","tei":"\n\t\n\t\tPython Software Foundation. Python Language Reference\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5bfc67723bebd8667fa41"},"refKey":23},
{"_key":"60c5c03c7723bebd8667fa5b","_id":"references/60c5c03c7723bebd8667fa5b","_rev":"_cfFlqEm---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5c03c7723bebd8667fa5a"},"refKey":9},
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{"_key":"60c5c2007723bebd8667fc56","_id":"references/60c5c2007723bebd8667fc56","_rev":"_cfFlqKq---","tei":"\n\t\n\t\tAdvances in functional and structural MR image analysis and implementation as FSL\n\t\t\n\t\t\tStephenMSmith\n\t\t\n\t\t\n\t\t\tMarkJenkinson\n\t\t\n\t\t\n\t\t\tMarkWWoolrich\n\t\t\n\t\t\n\t\t\tChristianFBeckmann\n\t\t\n\t\t\n\t\t\tTimothyE JBehrens\n\t\t\n\t\t\n\t\t\tHeidiJohansen-Berg\n\t\t\n\t\t\n\t\t\tPeterRBannister\n\t\t\n\t\t\n\t\t\tMarilenaDe Luca\n\t\t\n\t\t\n\t\t\tIvanaDrobnjak\n\t\t\n\t\t\n\t\t\tDavidEFlitney\n\t\t\n\t\t\n\t\t\tRamiKNiazy\n\t\t\n\t\t\n\t\t\tJamesSaunders\n\t\t\n\t\t\n\t\t\tJohnVickers\n\t\t\n\t\t\n\t\t\tYongyueZhang\n\t\t\n\t\t\n\t\t\tNicolaDe Stefano\n\t\t\n\t\t\n\t\t\tJMichaelBrady\n\t\t\n\t\t\n\t\t\tPaulMMatthews\n\t\t\n\t\t10.1016/j.neuroimage.2004.07.051\n\t\t15501092\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tSuppl. 1\n\n","document":{"$oid":"60c5c2007723bebd8667fc51"},"refKey":113},
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{"_key":"60c5c4257723bebd8667fd7a","_id":"references/60c5c4257723bebd8667fd7a","_rev":"_cfFlqNC---","tei":"\n\t\n\t\tOPENSMILE: open-source media interpretation by large feature-space extraction\n\t\t\n\t\t\tFEyben\n\t\t\n\t\t\n\t\t\tMWöllmer\n\t\t\n\t\t\n\t\t\tBBSchuller\n\t\t\n\t\t10.1145/1873951.1874246\n\t\t\n\t\n\t\n\t\tMM 2010 -Proceedings of ACM Multimedia 2010 International Conference\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c4257723bebd8667fd79"},"refKey":9},
{"_key":"60c5c4257723bebd8667fd7b","_id":"references/60c5c4257723bebd8667fd7b","_rev":"_cfFlqNO---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c5c4257723bebd8667fd79"},"refKey":1},
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{"_key":"60c5c4807723bebd8667fded","_id":"references/60c5c4807723bebd8667fded","_rev":"_cfFlqPC---","tei":"\n\t\n\t\tSplitsTree: analyzing and visualizing evolutionary data\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c4807723bebd8667fdec"},"refKey":27},
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{"_key":"60c5c4977723bebd8667fe08","_id":"references/60c5c4977723bebd8667fe08","_rev":"_cfFlqP6---","tei":"\n\t\n\t\tThe Scala Programming Language\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c4977723bebd8667fe07"},"refKey":28},
{"_key":"60c5c4977723bebd8667fe09","_id":"references/60c5c4977723bebd8667fe09","_rev":"_cfFlqQG---","tei":"\n\t\n\t\tHyper tableaux\n\t\t\n\t\t\tPeterBaumgartner\n\t\t\n\t\t\n\t\t\tUlrichFurbach\n\t\t\n\t\t\n\t\t\tIlkkaNiemelä\n\t\t\n\t\t10.1007/3-540-61630-6_1\n\t\tark:/67375/HCB-SJ58N8V0-X\n\t\tC4DB2203FE1E54B3936A474F6DC566167C5263C1\n\t\t\n\t\n\t\n\t\tLogics in Artificial Intelligence\n\t\t\t\t\n\t\t\tJJAlferes\n\t\t\tLMPereira\n\t\t\tEOrlowska\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t1126\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c4977723bebd8667fe07"},"refKey":3},
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{"_key":"60c5c54f7723bebd8667fec5","_id":"references/60c5c54f7723bebd8667fec5","_rev":"_cfFlqSy---","tei":"\n\t\n\t\tMeta-iAVP: A Sequence-Based Meta-Predictor for Improving the Prediction of Antiviral Peptides Using Effective Feature Representation\n\t\t\n\t\t\tNSchaduangrat\n\t\t\n\t\t\n\t\t\tCNantasenamat\n\t\t\n\t\t\n\t\t\tVPrachayasittikul\n\t\t\n\t\t\n\t\t\tWShoombuatong\n\t\t\n\t\n\t\n\t\tInt J Mol Sci\n\t\t\n\t\t\t22\n\t\t\t20\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c54f7723bebd8667fec2"},"refKey":29},
{"_key":"60c5c54f7723bebd8667fec6","_id":"references/60c5c54f7723bebd8667fec6","_rev":"_cfFlqT----","tei":"\n\t\n\t\tBiopython: freely available Python tools for computational molecular biology and bioinformatics\n\t\t\n\t\t\tPJ ACock\n\t\t\n\t\t\n\t\t\tTAntao\n\t\t\n\t\t\n\t\t\tJTChang\n\t\t\n\t\t\n\t\t\tBAChapman\n\t\t\n\t\t\n\t\t\tCJCox\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tIFriedberg\n\t\t\n\t\t\n\t\t\tTHamelryck\n\t\t\n\t\t\n\t\t\tFKauff\n\t\t\n\t\t\n\t\t\tBWilczynski\n\t\t\n\t\t\n\t\t\tMJ LDe Hoon\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c54f7723bebd8667fec2"},"refKey":8},
{"_key":"60c5c5577723bebd8667fed8","_id":"references/60c5c5577723bebd8667fed8","_rev":"_cfFlqTK---","tei":"\n\t\n\t\tExploring network structure, dynamics, and function using NetworkX\n\t\t\n\t\t\tAAHagberg\n\t\t\n\t\t\n\t\t\tDASchult\n\t\t\n\t\t\n\t\t\tPJSwart\n\t\t\n\t\n\t\n\t\tProceedings of the 7th Python in Science Conference (SciPy2008)\n\t\t\t\t\n\t\t\tGVaroquaux\n\t\t\tTVaught\n\t\t\tJMillman\n\t\t\n\t\tthe 7th Python in Science Conference (SciPy2008)Pasadena\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c5577723bebd8667fed7"},"refKey":114},
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{"_key":"60c5c6627723bebd8667ff3c","_id":"references/60c5c6627723bebd8667ff3c","_rev":"_cfFlqTu---","tei":"\n\t\n\t\tI-TASSER server for protein 3D structure prediction\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1186/1471-2105-9-40\n\t\t18215316\n\t\tPMC2245901\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t40\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5c6627723bebd8667ff3a"},"refKey":27},
{"_key":"60c5c6627723bebd8667ff3d","_id":"references/60c5c6627723bebd8667ff3d","_rev":"_cfFlqT6---","tei":"\n\t\n\t\tComparing SARS-CoV-2 with SARS-CoV and influenza pandemics\n\t\t\n\t\t\tEPetersen\n\t\t\n\t\t\n\t\t\tMKoopmans\n\t\t\n\t\t\n\t\t\tUGo\n\t\t\n\t\t\n\t\t\tDHHamer\n\t\t\n\t\t\n\t\t\tNPetrosillo\n\t\t\n\t\t\n\t\t\tFCastelli\n\t\t\n\t\t10.1016/S1473-3099%2820%2930484-9\n\t\t32628905\n\t\t\n\t\n\t\n\t\tLancet Infect Dis\n\t\t\n\t\t\t3099\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c6627723bebd8667ff3a"},"refKey":11},
{"_key":"60c5c6627723bebd8667ff3e","_id":"references/60c5c6627723bebd8667ff3e","_rev":"_cfFlqUG---","tei":"\n\t\n\t\tCoronavirus disease (COVID-19): A scoping review\n\t\t\n\t\t\tMLv\n\t\t\n\t\t\n\t\t\tXLuo\n\t\t\n\t\t\n\t\t\tJEstill\n\t\t\n\t\t\n\t\t\tYLiu\n\t\t\n\t\t\n\t\t\tMRen\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t10.2807/1560-7917.ES.2020.25.15.2000125\n\t\t32317050\n\t\t\n\t\n\t\n\t\tEurosurveillance\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c6627723bebd8667ff3a"},"refKey":12},
{"_key":"60c5c6627723bebd8667ff3f","_id":"references/60c5c6627723bebd8667ff3f","_rev":"_cfFlqUS---","tei":"\n\t\n\t\tNew additions to the ClusPro server motivated by CAPRI\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t\n\t\t\tChristineYueh\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tTanggisBohnuud\n\t\t\n\t\t\n\t\t\tScottEMottarella\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t10.1002/prot.25219\n\t\t27936493\n\t\tPMC5313348\n\t\t\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t85\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5c6627723bebd8667ff3a"},"refKey":32},
{"_key":"60c5c6627723bebd8667ff40","_id":"references/60c5c6627723bebd8667ff40","_rev":"_cfFlqUe---","tei":"\n\t\n\t\tThe HDOCK server for integrated protein-protein docking\n\t\t\n\t\t\tYYan\n\t\t\n\t\t\n\t\t\tHTao\n\t\t\n\t\t\n\t\t\tJHe\n\t\t\n\t\t\n\t\t\tSYHuang\n\t\t\n\t\t10.1038/s41596-020-0312-x\n\t\t32269383\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c6627723bebd8667ff3a"},"refKey":30},
{"_key":"60c5c6627723bebd8667ff41","_id":"references/60c5c6627723bebd8667ff41","_rev":"_cfFlqUq---","tei":"\n\t\n\t\tProtein-ensemble–RNA docking by efficient consideration of protein flexibility through homology models\n\t\t\n\t\t\tJiahuaHe\n\t\t\n\t\t\n\t\t\tHuanyuTao\n\t\t\n\t\t\n\t\t\tSheng-YouHuang\n\t\t\n\t\t10.1093/bioinformatics/btz388\n\t\t31086984\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5c6627723bebd8667ff3a"},"refKey":31},
{"_key":"60c5c6627723bebd8667ff42","_id":"references/60c5c6627723bebd8667ff42","_rev":"_cfFlqU2---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1093/bioinformatics/btu033\n\t\t24451623\n\t\tPMC3998144\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5c6627723bebd8667ff3a"},"refKey":19},
{"_key":"60c5c6627723bebd8667ff43","_id":"references/60c5c6627723bebd8667ff43","_rev":"_cfFlqVC---","tei":"\n\t\n\t\tSARS: epidemiology CUMULATIVE NUMBER OF CASES AND DEATHS IN VARIOUS COUNTRIES IN\n\t\t\n\t\t\tMChan-Yeung\n\t\t\n\t\t\n\t\t\tRXu\n\t\t\n\t\t10.1046/j.1440-1843.2003.00518.x\n\t\t15018127\n\t\t\n\t\n\t\n\t\tRespirology\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c6627723bebd8667ff3a"},"refKey":15},
{"_key":"60c5c6627723bebd8667ff44","_id":"references/60c5c6627723bebd8667ff44","_rev":"_cfFlqVO---","tei":"\n\t\n\t\tCOVID-19, SARS and MERS: are they closely related? Clinical Microbiology and Infection\n\t\t\n\t\t\tNPetrosillo\n\t\t\n\t\t\n\t\t\tGViceconte\n\t\t\n\t\t\n\t\t\tOErgonul\n\t\t\n\t\t\n\t\t\tGIppolito\n\t\t\n\t\t\n\t\t\tEPetersen\n\t\t\n\t\t10.1016/j.cmi.2020.03.026\n\t\t32234451\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c6627723bebd8667ff3a"},"refKey":16},
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{"_key":"60c5c6897723bebd8667ffbe","_id":"references/60c5c6897723bebd8667ffbe","_rev":"_cfFlqVm---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c6897723bebd8667ffbc"},"refKey":27},
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{"_key":"60c5c6a87723bebd8667ffce","_id":"references/60c5c6a87723bebd8667ffce","_rev":"_cfFlqV6---","tei":"\n\t\n\t\tRecco: recombination analysis using cost optimization\n\t\t\n\t\t\tJochenMaydt\n\t\t\n\t\t\n\t\t\tThomasLengauer\n\t\t\n\t\t10.1093/bioinformatics/btl057\n\t\t16488909\n\t\tark:/67375/HXZ-68S6F5L9-F\n\t\t095A2C9B1E2BC29FC0986BA617183F504B16A741\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5c6a87723bebd8667ffcc"},"refKey":23},
{"_key":"60c5c6a87723bebd8667ffcf","_id":"references/60c5c6a87723bebd8667ffcf","_rev":"_cfFlqWG---","tei":"\n\t\n\t\tEMBOSS: the European Molecular Biology Open Software Suite\n\t\t\n\t\t\tPRice\n\t\t\n\t\t\n\t\t\tILongden\n\t\t\n\t\t\n\t\t\tABleasby\n\t\t\n\t\n\t\n\t\tTrends Genet\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c6a87723bebd8667ffcc"},"refKey":32},
{"_key":"60c5c6a87723bebd8667ffd0","_id":"references/60c5c6a87723bebd8667ffd0","_rev":"_cfFlqWS---","tei":"\n\t\n\t\tCorrelating viral phenotypes with phylogeny: Accounting for phylogenetic uncertainty\n\t\t\n\t\t\tJoeParker\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t10.1016/j.meegid.2007.08.001\n\t\t17921073\n\t\n\t\n\t\tInfection, Genetics and Evolution\n\t\tInfection, Genetics and Evolution\n\t\t1567-1348\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5c6a87723bebd8667ffcc"},"refKey":25},
{"_key":"60c5c6a87723bebd8667ffd1","_id":"references/60c5c6a87723bebd8667ffd1","_rev":"_cfFlqWe---","tei":"\n\t\n\t\tViral population analysis and minority-variant detection using short read next-generation sequencing\n\t\t\n\t\t\tSJWatson\n\t\t\n\t\t\n\t\t\tMR AWelkers\n\t\t\n\t\t\n\t\t\tDPDepledge\n\t\t\n\t\t\n\t\t\tECoulter\n\t\t\n\t\t\n\t\t\tJMBreuer\n\t\t\n\t\t\n\t\t\tMDDe Jong\n\t\t\n\t\t\n\t\t\tPKellam\n\t\t\n\t\n\t\n\t\tPhilos Trans R Soc Lond B Biol Sci\n\t\t\n\t\t\t368\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c6a87723bebd8667ffcc"},"refKey":50},
{"_key":"60c5c6a87723bebd8667ffd2","_id":"references/60c5c6a87723bebd8667ffd2","_rev":"_cfFlqWq---","tei":"\n\t\n\t\tDendroPy: a Python library for phylogenetic computing\n\t\t\n\t\t\tJSukumaran\n\t\t\n\t\t\n\t\t\tMTHolder\n\t\t\n\t\t10.1093/bioinformatics/btq228\n\t\t20421198\n\t\tark:/67375/HXZ-XQT6MD7V-H\n\t\tC5CBBC05D57205CEB8D510F0F41A3C867BBC3A01\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5c6a87723bebd8667ffcc"},"refKey":41},
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{"_key":"60c5c6c57723bebd8668000f","_id":"references/60c5c6c57723bebd8668000f","_rev":"_cfFlqXS---","tei":"\n\t\n\t\tDifferential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tARoberts\n\t\t\n\t\t\n\t\t\tLGoff\n\t\t\n\t\t\n\t\t\tGPertea\n\t\t\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tDRKelley\n\t\t\n\t\t\n\t\t\tHPimentel\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\t\tJLRinn\n\t\t\n\t\t\n\t\t\tLPachter\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c6c57723bebd8668000c"},"refKey":47},
{"_key":"60c5c6d57723bebd8668002c","_id":"references/60c5c6d57723bebd8668002c","_rev":"_cfFlqXe---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5c6d57723bebd8668002b"},"refKey":45},
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{"_key":"60c5c7777723bebd86680078","_id":"references/60c5c7777723bebd86680078","_rev":"_cfFlqX2---","tei":"\n\t\n\t\tSilva SSU Taxonomic Training Data Formatted for DADA2\n\t\t\n\t\t\tMRMclaren\n\t\t\n\t\t10.5281/zenodo.3731176\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c7777723bebd86680077"},"refKey":70},
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{"_key":"60c5c7777723bebd8668007c","_id":"references/60c5c7777723bebd8668007c","_rev":"_cfFlqYm---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMarcelMartin\n\t\t\n\t\t10.14806/ej.17.1.200\n\t\t\n\t\n\t\n\t\tEMBnet.journal\n\t\tEMBnet j.\n\t\t2226-6089\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t10\n\t\t\t\n\t\t\tEMBnet Stichting\n\t\t\n\t\n\n","document":{"$oid":"60c5c7777723bebd86680077"},"refKey":65},
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{"_key":"60c5c7777723bebd86680083","_id":"references/60c5c7777723bebd86680083","_rev":"_cfFlqZ6---","tei":"\n\t\n\t\tSTAG: Species Tree Inference from All Genes\n\t\t\n\t\t\tDMEmms\n\t\t\t0000-0002-9065-8978\n\t\t\n\t\t\n\t\t\tSKelly\n\t\t\t0000-0001-8583-5362\n\t\t\n\t\t10.1101/267914\n\t\t\n\t\t\n\t\n\t\n\t\tBioRxiv -The Preprint Server for Biology\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5c7777723bebd86680077"},"refKey":27},
{"_key":"60c5c7777723bebd86680084","_id":"references/60c5c7777723bebd86680084","_rev":"_cfFlqaG---","tei":"\n\t\n\t\tOrthoFinder: phylogenetic orthology inference for comparative genomics\n\t\t\n\t\t\tDavidMEmms\n\t\t\t0000-0002-9065-8978\n\t\t\n\t\t\n\t\t\tStevenKelly\n\t\t\t0000-0001-8583-5362\n\t\t\n\t\t10.1101/466201\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t238\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5c7777723bebd86680077"},"refKey":28},
{"_key":"60c5c7777723bebd86680085","_id":"references/60c5c7777723bebd86680085","_rev":"_cfFlqaS---","tei":"\n\t\n\t\tMetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities\n\t\t\n\t\t\tDW DKang\n\t\t\n\t\t\n\t\t\tJFroula\n\t\t\n\t\t\n\t\t\tREgan\n\t\t\n\t\t\n\t\t\tWang\n\t\t\n\t\t\n\t\t\tZ\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t\n\t\t\t3\n\t\t\te1165\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5c7777723bebd86680077"},"refKey":48},
{"_key":"60c5c7777723bebd86680086","_id":"references/60c5c7777723bebd86680086","_rev":"_cfFlqae---","tei":"\n\t\n\t\tCheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes\n\t\t\n\t\t\tDonovanHParks\n\t\t\n\t\t\n\t\t\tMichaelImelfort\n\t\t\n\t\t\n\t\t\tConnorTSkennerton\n\t\t\n\t\t\n\t\t\tPhilipHugenholtz\n\t\t\n\t\t\n\t\t\tGeneWTyson\n\t\t\n\t\t10.7287/peerj.preprints.554v2\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c5c7777723bebd86680077"},"refKey":81},
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{"_key":"60c5c7d87723bebd866800c4","_id":"references/60c5c7d87723bebd866800c4","_rev":"_cfFlqay---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1093/bioinformatics/btu033\n\t\t24451623\n\t\tPMC3998144\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5c7d87723bebd866800c3"},"refKey":66},
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{"_key":"60c5c7d87723bebd866800c6","_id":"references/60c5c7d87723bebd866800c6","_rev":"_cfFlqbK---","tei":"\n\t\n\t\tPosterior Summarization in Bayesian Phylogenetics Using Tracer 1.7\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syy032\n\t\t29718447\n\t\tPMC6101584\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t67\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5c7d87723bebd866800c3"},"refKey":65},
{"_key":"60c5c7d87723bebd866800c7","_id":"references/60c5c7d87723bebd866800c7","_rev":"_cfFlqbW---","tei":"\n\t\n\t\tBayesian phylogenetic and phylodynamic data integration using BEAST 1.10\n\t\t\n\t\t\tMarcASuchard\n\t\t\t0000-0001-9818-479X\n\t\t\n\t\t\n\t\t\tPhilippeLemey\n\t\t\t0000-0003-2826-5353\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tDanielLAyres\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\t0000-0003-4337-3707\n\t\t\n\t\t10.1093/ve/vey016\n\t\t29942656\n\t\tPMC6007674\n\t\t\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5c7d87723bebd866800c3"},"refKey":59},
{"_key":"60c5c7e47723bebd866800de","_id":"references/60c5c7e47723bebd866800de","_rev":"_cfFlqbq---","tei":"\n\t\n\t\tIdentification of GPI anchor attachment signals by a Kohonen self-organizing map\n\t\t\n\t\t\tNFankhauser\n\t\t\n\t\t\n\t\t\tPMaser\n\t\t\n\t\t10.1093/bioinformatics/bti299\n\t\t15691858\n\t\tark:/67375/HXZ-21N6ZMJW-H\n\t\tF04A781ED1252B962F51BDA7F968E1E3A2E9F017\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5c7e47723bebd866800dd"},"refKey":18},
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{"_key":"60c5cacd7723bebd866803d6","_id":"references/60c5cacd7723bebd866803d6","_rev":"_cfFlqnO---","tei":"\n\t\n\t\tThe use of position-specific rotamers in model building by homology\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tFCunningham\n\t\t\n\t\t\n\t\t\tDRios\n\t\t\n\t\t\n\t\t\tWMMclaren\n\t\t\n\t\t\n\t\t\tJSmith\n\t\t\n\t\t\n\t\t\tBPritchard\n\t\t\n\t\t\n\t\t\tGMSpudich\n\t\t\n\t\t\n\t\t\tSBrent\n\t\t\n\t\t\n\t\t\tEKulesha\n\t\t\n\t\t\n\t\t\tPMarin-Garcia\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tProteins\n\n","document":{"$oid":"60c5cacd7723bebd866803d0"},"refKey":10},
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{"_key":"60c5cb4f7723bebd8668047f","_id":"references/60c5cb4f7723bebd8668047f","_rev":"_cfFlqqe---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\n\t\n\t\tEMBnet journal\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb4f7723bebd8668047d"},"refKey":15},
{"_key":"60c5cb4f7723bebd86680480","_id":"references/60c5cb4f7723bebd86680480","_rev":"_cfFlqqq---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb4f7723bebd8668047d"},"refKey":2},
{"_key":"60c5cb527723bebd86680487","_id":"references/60c5cb527723bebd86680487","_rev":"_cfFlqq2---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb527723bebd86680486"},"refKey":26},
{"_key":"60c5cb527723bebd86680488","_id":"references/60c5cb527723bebd86680488","_rev":"_cfFlqrC---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb527723bebd86680486"},"refKey":21},
{"_key":"60c5cb527723bebd86680489","_id":"references/60c5cb527723bebd86680489","_rev":"_cfFlqrO---","tei":"\n\t\n\t\tTCGA-Assembler: open-source software for retrieving and processing TCGA data\n\t\t\n\t\t\tYitanZhu\n\t\t\n\t\t\n\t\t\tPengQiu\n\t\t\n\t\t\n\t\t\tYuanJi\n\t\t\n\t\t10.1038/nmeth.2956\n\t\t24874569\n\t\tPMC4387197\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t11\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5cb527723bebd86680486"},"refKey":15},
{"_key":"60c5cb527723bebd8668048a","_id":"references/60c5cb527723bebd8668048a","_rev":"_cfFlqra---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb527723bebd86680486"},"refKey":23},
{"_key":"60c5cb5b7723bebd866804a7","_id":"references/60c5cb5b7723bebd866804a7","_rev":"_cfFlqrm---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna\n\t\t\n\t\n\n","document":{"$oid":"60c5cb5b7723bebd866804a6"},"refKey":17},
{"_key":"60c5cb6d7723bebd866804af","_id":"references/60c5cb6d7723bebd866804af","_rev":"_cfFlqry---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb6d7723bebd866804ae"},"refKey":14},
{"_key":"60c5cb6d7723bebd866804b0","_id":"references/60c5cb6d7723bebd866804b0","_rev":"_cfFlqs----","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb6d7723bebd866804ae"},"refKey":10},
{"_key":"60c5cb6d7723bebd866804b1","_id":"references/60c5cb6d7723bebd866804b1","_rev":"_cfFlqsK---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb6d7723bebd866804ae"},"refKey":6},
{"_key":"60c5cb6d7723bebd866804b2","_id":"references/60c5cb6d7723bebd866804b2","_rev":"_cfFlqsW---","tei":"\n\t\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tGenome Project Data Processing Subgroup\n\t\tThe Sequence Alignment/Map format and SAMtools. Bioinformatics\n\t\t\n\t\t\t\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb6d7723bebd866804ae"},"refKey":17},
{"_key":"60c5cb6d7723bebd866804b3","_id":"references/60c5cb6d7723bebd866804b3","_rev":"_cfFlqsi---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from highthroughput sequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\n\t\n\t\tEMBnet. J\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb6d7723bebd866804ae"},"refKey":19},
{"_key":"60c5cb6d7723bebd866804b4","_id":"references/60c5cb6d7723bebd866804b4","_rev":"_cfFlqsu---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cb6d7723bebd866804ae"},"refKey":24},
{"_key":"60c5cb787723bebd866804c3","_id":"references/60c5cb787723bebd866804c3","_rev":"_cfFlqs6---","tei":"\n\t\n\t\tImproved inference of time-varying reproduction numbers during infectious disease outbreaks\n\t\t\n\t\t\tRNThompson\n\t\t\n\t\t\n\t\t\tJEStockwin\n\t\t\n\t\t\n\t\t\tRDVan Gaalen\n\t\t\n\t\t\n\t\t\tJAPolonsky\n\t\t\n\t\t\n\t\t\tZNKamvar\n\t\t\n\t\t\n\t\t\tPADemarsh\n\t\t\n\t\t\n\t\t\tEDahlqwist\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tEMiguel\n\t\t\n\t\t\n\t\t\tTJombart\n\t\t\n\t\t\n\t\t\tJLessler\n\t\t\n\t\t\n\t\t\tSCauchemez\n\t\t\n\t\t\n\t\t\tACori\n\t\t\n\t\t10.1016/j.epidem.2019.100356\n\t\tdoi: 10.1016/ j.epidem.2019.100356\n\t\n\t\n\t\tEpidemics\n\t\tEpidemics\n\t\t1755-4365\n\t\t\n\t\t\t29\n\t\t\t100356\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5cb787723bebd866804c2"},"refKey":10},
{"_key":"60c5cb787723bebd866804c4","_id":"references/60c5cb787723bebd866804c4","_rev":"_cfFlqtG---","tei":"\n\t\n\t\tA New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tNeilMFerguson\n\t\t\n\t\t\n\t\t\tChristopheFraser\n\t\t\n\t\t\n\t\t\tSimonCauchemez\n\t\t\n\t\t10.1093/aje/kwt133\n\t\t24043437\n\t\tPMC3816335\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t1476-6256\n\t\t\n\t\t\t178\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5cb787723bebd866804c2"},"refKey":11},
{"_key":"60c5cbb67723bebd866804e8","_id":"references/60c5cbb67723bebd866804e8","_rev":"_cfFlqtS---","tei":"\n\t\n\t\tThe sequence alignment/map format and samtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cbb67723bebd866804e7"},"refKey":13},
{"_key":"60c5cbb67723bebd866804e9","_id":"references/60c5cbb67723bebd866804e9","_rev":"_cfFlqte---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tbioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cbb67723bebd866804e7"},"refKey":12},
{"_key":"60c5cbc77723bebd86680510","_id":"references/60c5cbc77723bebd86680510","_rev":"_cfFlqtq---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5cbc77723bebd8668050f"},"refKey":43},
{"_key":"60c5cbf77723bebd86680539","_id":"references/60c5cbf77723bebd86680539","_rev":"_cfFlqt2---","tei":"\n\t\n\t\tPrimer-BLAST: a tool to design target-specific primers for polymerase chain reaction\n\t\t\n\t\t\tJYe\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tIZaretskaya\n\t\t\n\t\t\n\t\t\tICutcutache\n\t\t\n\t\t\n\t\t\tSRozen\n\t\t\n\t\t\n\t\t\tTMadden\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t13\n\t\t\t134\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cbf77723bebd86680538"},"refKey":23},
{"_key":"60c5cc007723bebd8668053d","_id":"references/60c5cc007723bebd8668053d","_rev":"_cfFlquC---","tei":"\n\t\n\t\tAssessing the content and quality of information on the treatment of postmenopausal osteoporosis on the World Wide Web\n\t\t\n\t\t\tFaustinoRPérez-López\n\t\t\n\t\t\n\t\t\tGonzaloRPérez Roncero\n\t\t\n\t\t10.1080/09513590601012603\n\t\t17162708\n\t\t\n\t\n\t\n\t\tGynecological Endocrinology\n\t\tGynecological Endocrinology\n\t\t0951-3590\n\t\t1473-0766\n\t\t\n\t\t\t22\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c5cc007723bebd8668053c"},"refKey":23},
{"_key":"60c5cc0c7723bebd86680545","_id":"references/60c5cc0c7723bebd86680545","_rev":"_cfFlquO---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cc0c7723bebd86680544"},"refKey":19},
{"_key":"60c5cc207723bebd86680551","_id":"references/60c5cc207723bebd86680551","_rev":"_cfFlqua---","tei":"\n\t\n\t\tR: A Language for Data Analysis and Graphics\n\t\t\n\t\t\tRossIhaka\n\t\t\n\t\t\n\t\t\tRobertGentleman\n\t\t\n\t\t10.1080/10618600.1996.10474713\n\t\n\t\n\t\tJournal of Computational and Graphical Statistics\n\t\tJournal of Computational and Graphical Statistics\n\t\t1061-8600\n\t\t1537-2715\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c5cc207723bebd86680550"},"refKey":9},
{"_key":"60c5cc417723bebd8668055e","_id":"references/60c5cc417723bebd8668055e","_rev":"_cfFlqum---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with BWA-MEM\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tReference Source\n\n","document":{"$oid":"60c5cc417723bebd8668055d"},"refKey":23},
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{"_key":"60c5cc417723bebd86680560","_id":"references/60c5cc417723bebd86680560","_rev":"_cfFlqvC---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cc417723bebd8668055d"},"refKey":21},
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{"_key":"60c5cdfe7723bebd866806c0","_id":"references/60c5cdfe7723bebd866806c0","_rev":"_cfFlqzy---","tei":"\n\t\n\t\tCell Detection with Star-Convex Polygons\n\t\t\n\t\t\tUweSchmidt\n\t\t\n\t\t\n\t\t\tMartinWeigert\n\t\t\n\t\t\n\t\t\tColemanBroaddus\n\t\t\n\t\t\n\t\t\tGeneMyers\n\t\t\n\t\t10.1007/978-3-030-00934-2_30\n\t\t\n\t\n\t\n\t\tMedical Image Computing and Computer Assisted Intervention – MICCAI 2018\n\t\tLecture Notes in Computer Science\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cdfe7723bebd866806bf"},"refKey":22},
{"_key":"60c5ce047723bebd866806cc","_id":"references/60c5ce047723bebd866806cc","_rev":"_cfFlq0----","tei":"\n\t\n\t\tPhysiCell: An open source physics-based cell simulator for 3-D multicellular systems\n\t\t\n\t\t\tAhmadrezaGhaffarizadeh\n\t\t\n\t\t\n\t\t\tRandyHeiland\n\t\t\t0000-0002-7440-2905\n\t\t\n\t\t\n\t\t\tSamuelHFriedman\n\t\t\t0000-0001-8003-6860\n\t\t\n\t\t\n\t\t\tShannonMMumenthaler\n\t\t\n\t\t\n\t\t\tPaulMacklin\n\t\t\t0000-0002-9925-0151\n\t\t\n\t\t10.1371/journal.pcbi.1005991\n\t\t29474446\n\t\tPMC5841829\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t14\n\t\t\t2\n\t\t\te1005991\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c5ce047723bebd866806cb"},"refKey":60},
{"_key":"60c5ce077723bebd866806db","_id":"references/60c5ce077723bebd866806db","_rev":"_cfFlq0K---","tei":"\n\t\n\t\tAutomated quality assessment of autonomously acquired microscopic images of fluorescently stained bacteria\n\t\t\n\t\t\tMZeder\n\t\t\n\t\t\n\t\t\tEKohler\n\t\t\n\t\t\n\t\t\tJPernthaler\n\t\t\n\t\t10.1002/cyto.a.20810\n\t\t19821518\n\t\t\n\t\n\t\n\t\tCytometry Part A\n\t\tCytometry\n\t\t1552-4922\n\t\t1552-4930\n\t\t\n\t\t\t9999A\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5ce077723bebd866806da"},"refKey":77},
{"_key":"60c5ce077723bebd866806dc","_id":"references/60c5ce077723bebd866806dc","_rev":"_cfFlq0W---","tei":"\n\t\n\t\tVegan: Community Ecology Package\n\t\t\n\t\t\tJOksanen\n\t\t\n\t\t\n\t\t\tFGBlanchet\n\t\t\n\t\t\n\t\t\tRKindt\n\t\t\n\t\t\n\t\t\tPLegendre\n\t\t\n\t\t\n\t\t\tPRMinchin\n\t\t\n\t\t\n\t\t\tRBO'hara\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2.2-1. Available at\n\n","document":{"$oid":"60c5ce077723bebd866806da"},"refKey":56},
{"_key":"60c5ce077723bebd866806dd","_id":"references/60c5ce077723bebd866806dd","_rev":"_cfFlq0i---","tei":"\n\t\n\t\tdendextend: an R package for visualizing, adjusting and comparing trees of hierarchical clustering\n\t\t\n\t\t\tTalGalili\n\t\t\n\t\t10.1093/bioinformatics/btv428\n\t\t26209431\n\t\tPMC4817050\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5ce077723bebd866806da"},"refKey":27},
{"_key":"60c5ce637723bebd86680713","_id":"references/60c5ce637723bebd86680713","_rev":"_cfFlq0u---","tei":"\n\t\n\t\tCOVID-Net: A tailored deep convolutional neural network design for detection of COVID-19 cases from chest radiography images\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tAWong\n\t\t\n\t\tarXiv:2003.09871\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c5ce637723bebd86680712"},"refKey":32},
{"_key":"60c5ceaf7723bebd86680752","_id":"references/60c5ceaf7723bebd86680752","_rev":"_cfFlq02---","tei":"\n\t\n\t\tAgent-based model for modelling the Covid-19 epidemic\n\t\t\n\t\t\tOpenabm-Covid19\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ceaf7723bebd86680751"},"refKey":32},
{"_key":"60c5cebe7723bebd86680757","_id":"references/60c5cebe7723bebd86680757","_rev":"_cfFlq1C---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nmeth.3317\n\t\t25751142\n\t\tPMC4655817\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5cebe7723bebd86680756"},"refKey":22},
{"_key":"60c5cebe7723bebd86680758","_id":"references/60c5cebe7723bebd86680758","_rev":"_cfFlq1O---","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBoLi\n\t\t\n\t\t\n\t\t\tColinNDewey\n\t\t\n\t\t10.1186/1471-2105-12-323\n\t\t21816040\n\t\tPMC3163565\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t323\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5cebe7723bebd86680756"},"refKey":25},
{"_key":"60c5cebe7723bebd86680759","_id":"references/60c5cebe7723bebd86680759","_rev":"_cfFlq1a---","tei":"\n\t\n\t\tAnalysis Tool Web Services from the EMBL-EBI\n\t\t\n\t\t\tHamishMcwilliam\n\t\t\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t\n\t\t\tMahmutUludag\n\t\t\n\t\t\n\t\t\tSilvanoSquizzato\n\t\t\n\t\t\n\t\t\tYoungMiPark\n\t\t\n\t\t\n\t\t\tNicolaBuso\n\t\t\n\t\t\n\t\t\tAndrewPeterCowley\n\t\t\n\t\t\n\t\t\tRodrigoLopez\n\t\t\n\t\t10.1093/nar/gkt376\n\t\t23671338\n\t\tPMC3692137\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5cebe7723bebd86680756"},"refKey":24},
{"_key":"60c5cec47723bebd86680767","_id":"references/60c5cec47723bebd86680767","_rev":"_cfFlq1m---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with BWA-MEM\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tPreprint at\n\n","document":{"$oid":"60c5cec47723bebd86680766"},"refKey":49},
{"_key":"60c5cec47723bebd86680768","_id":"references/60c5cec47723bebd86680768","_rev":"_cfFlq1y---","tei":"\n\t\n\t\tFast and SNP-tolerant detection of complex variants and splicing in short reads\n\t\t\n\t\t\tTDWu\n\t\t\n\t\t\n\t\t\tSNacu\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cec47723bebd86680766"},"refKey":53},
{"_key":"60c5cec47723bebd86680769","_id":"references/60c5cec47723bebd86680769","_rev":"_cfFlq2----","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cec47723bebd86680766"},"refKey":81},
{"_key":"60c5cec47723bebd8668076a","_id":"references/60c5cec47723bebd8668076a","_rev":"_cfFlq2K---","tei":"\n\t\n\t\tRandom-Effects Model Aimed at Discovering Associations in Meta-Analysis of Genome-wide Association Studies\n\t\t\n\t\t\tBuhmHan\n\t\t\n\t\t\n\t\t\tEleazarEskin\n\t\t\n\t\t10.1016/j.ajhg.2011.04.014\n\t\t21565292\n\t\tPMC3146723\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t88\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5cec47723bebd86680766"},"refKey":73},
{"_key":"60c5cec87723bebd8668078d","_id":"references/60c5cec87723bebd8668078d","_rev":"_cfFlq2W---","tei":"\n\t\n\t\tResearch Electronic Data Capture (REDCap) -A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010.Research\n\t\n\t\n\t\tJ Biomed Inf\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cec87723bebd8668078c"},"refKey":15},
{"_key":"60c5cec87723bebd8668078e","_id":"references/60c5cec87723bebd8668078e","_rev":"_cfFlq2i---","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cec87723bebd8668078c"},"refKey":16},
{"_key":"60c5cedb7723bebd86680798","_id":"references/60c5cedb7723bebd86680798","_rev":"_cfFlq2u---","tei":"\n\t\n\t\tSemantics-directed hardware generation of hybrid systems\n\t\t\n\t\t\tNAllen\n\t\t\n\t\t\n\t\t\tPRoop\n\t\t\n\t\t10.1109/ICCPS48487.2020.00037\n\t\t\n\t\n\t\n\t\t2020 ACM/IEEE 11th International Conference on Cyber-Physical Systems (ICCPS)\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cedb7723bebd86680797"},"refKey":26},
{"_key":"60c5cedb7723bebd86680799","_id":"references/60c5cedb7723bebd86680799","_rev":"_cfFlq26---","tei":"\n\t\n\t\tModelling the potential health impact of the covid-19 pandemic on a hypothetical European country\n\t\t\n\t\t\tNWilson\n\t\t\n\t\t10.1101/2020.03.20.20039776\n\t\t\n\t\t\t\n\t\t\t776\n\t\t\n\t\n\n","document":{"$oid":"60c5cedb7723bebd86680797"},"refKey":8},
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{"_key":"60c5ceec7723bebd86680803","_id":"references/60c5ceec7723bebd86680803","_rev":"_cfFlq3W---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ceec7723bebd86680802"},"refKey":14},
{"_key":"60c5ceec7723bebd86680804","_id":"references/60c5ceec7723bebd86680804","_rev":"_cfFlq3i---","tei":"\n\t\n\t\tDifferential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tARoberts\n\t\t\n\t\t\n\t\t\tLGoff\n\t\t\n\t\t\n\t\t\tGPertea\n\t\t\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tDRKelley\n\t\t\n\t\t\n\t\t\tHPimentel\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\t\tJLRinn\n\t\t\n\t\t\n\t\t\tLPachter\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ceec7723bebd86680802"},"refKey":38},
{"_key":"60c5cf0c7723bebd8668080f","_id":"references/60c5cf0c7723bebd8668080f","_rev":"_cfFlq3u---","tei":"\n\t\n\t\tComputing wide range of protein/peptide features from their sequence and structure\n\t\t\n\t\t\tAksharaPande\n\t\t\n\t\t\n\t\t\tSumeetPatiyal\n\t\t\n\t\t\n\t\t\tAnjaliLathwal\n\t\t\n\t\t\n\t\t\tChakitArora\n\t\t\n\t\t\n\t\t\tDilrajKaur\n\t\t\n\t\t\n\t\t\tAnjaliDhall\n\t\t\n\t\t\n\t\t\tGauravMishra\n\t\t\n\t\t\n\t\t\tHarpreetKaur\n\t\t\n\t\t\n\t\t\tNeelamSharma\n\t\t\n\t\t\n\t\t\tShipraJain\n\t\t\n\t\t\n\t\t\tSalmanSadullahUsmani\n\t\t\n\t\t\n\t\t\tPiyushAgrawal\n\t\t\n\t\t\n\t\t\tRajeshKumar\n\t\t\n\t\t\n\t\t\tVinodKumar\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1101/599126\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t599126\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5cf0c7723bebd8668080e"},"refKey":29},
{"_key":"60c5cf0c7723bebd86680810","_id":"references/60c5cf0c7723bebd86680810","_rev":"_cfFlq36---","tei":"\n\t\n\t\tMFPPI – Multi FASTA ProtParam Interface\n\t\t\n\t\t\tVijayKumarGarg\n\t\t\n\t\t\n\t\t\tHimanshuAvashthi\n\t\t\n\t\t\n\t\t\tApoorvTiwari\n\t\t\n\t\t\n\t\t\tPrashantAnkurJain\n\t\t\n\t\t\n\t\t\tPramodWasudev RamketeRamkete\n\t\t\n\t\t\n\t\t\tArvindMohanKayastha\n\t\t\n\t\t\n\t\t\tVinayKumarSingh\n\t\t\n\t\t10.6026/97320630012074\n\t\t28104964\n\t\tPMC5237651\n\t\t\n\t\n\t\n\t\tBioinformation\n\t\tBioinformation\n\t\t0973-8894\n\t\t0973-2063\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tBiomedical Informatics\n\t\t\n\t\n\n","document":{"$oid":"60c5cf0c7723bebd8668080e"},"refKey":30},
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{"_key":"60c5cf237723bebd86680823","_id":"references/60c5cf237723bebd86680823","_rev":"_cfFlq4S---","tei":"\n\t\n\t\tModelling transmission and control of the COVID-19 pandemic in Australia\n\t\t\n\t\t\tSLChang\n\t\t\n\t\t\n\t\t\tNHarding\n\t\t\n\t\t\n\t\t\tCZachreson\n\t\t\n\t\t\n\t\t\tOMCliff\n\t\t\n\t\t\n\t\t\tMProkopenko\n\t\t\n\t\tarXiv:2003.10218\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c5cf237723bebd86680822"},"refKey":13},
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{"_key":"60c5cf517723bebd86680845","_id":"references/60c5cf517723bebd86680845","_rev":"_cfFlq4y---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tOGPybus\n\t\t\n\t\t10.1093/molbev/mss075\n\t\n\t\n\t\tBayesian phylogenetics with BEAUti and the BEAST 1.7. Mol. Biol. Evol\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cf517723bebd86680844"},"refKey":41},
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{"_key":"60c5cf627723bebd86680871","_id":"references/60c5cf627723bebd86680871","_rev":"_cfFlq5u---","tei":"\n\t\n\t\tProFound: An Expert System for Protein Identification Using Mass Spectrometric Peptide Mapping Information\n\t\t\n\t\t\tWenzhuZhang\n\t\t\n\t\t\n\t\t\tBrianTChait\n\t\t\n\t\t10.1021/ac991363o\n\t\t10857624\n\t\n\t\n\t\tAnalytical Chemistry\n\t\tAnal. Chem.\n\t\t0003-2700\n\t\t1520-6882\n\t\t\n\t\t\t72\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c5cf627723bebd86680870"},"refKey":3},
{"_key":"60c5cf7d7723bebd86680883","_id":"references/60c5cf7d7723bebd86680883","_rev":"_cfFlq56---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cf7d7723bebd86680882"},"refKey":91},
{"_key":"60c5cf7d7723bebd86680884","_id":"references/60c5cf7d7723bebd86680884","_rev":"_cfFlq6G---","tei":"\n\t\n\t\tW-IQ-TREE: a fast online phylogenetic tool for maximum likelihood analysis\n\t\t\n\t\t\tJTrifinopoulos\n\t\t\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cf7d7723bebd86680882"},"refKey":90},
{"_key":"60c5cfa57723bebd86680959","_id":"references/60c5cfa57723bebd86680959","_rev":"_cfFlq6S---","tei":"\n\t\n\t\tVariant Review with the Integrative Genomics Viewer\n\t\t\n\t\t\tJamesTRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdóttir\n\t\t\n\t\t\n\t\t\tAaronMWenger\n\t\t\n\t\t\n\t\t\tAhmetZehir\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t10.1158/0008-5472.can-17-0337\n\t\t29092934\n\t\tPMC5678989\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t77\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c5cfa57723bebd86680958"},"refKey":18},
{"_key":"60c5cfa57723bebd8668095a","_id":"references/60c5cfa57723bebd8668095a","_rev":"_cfFlq6e---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5cfa57723bebd86680958"},"refKey":17},
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{"_key":"60c5cfa57723bebd8668095c","_id":"references/60c5cfa57723bebd8668095c","_rev":"_cfFlq62---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5cfa57723bebd86680958"},"refKey":20},
{"_key":"60c5cfa57723bebd8668095d","_id":"references/60c5cfa57723bebd8668095d","_rev":"_cfFlq7C---","tei":"\n\t\n\t\tSPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing\n\t\t\n\t\t\tAntonBankevich\n\t\t\n\t\t\n\t\t\tSergeyNurk\n\t\t\n\t\t\n\t\t\tDmitryAntipov\n\t\t\n\t\t\n\t\t\tAlexeyAGurevich\n\t\t\n\t\t\n\t\t\tMikhailDvorkin\n\t\t\n\t\t\n\t\t\tAlexanderSKulikov\n\t\t\n\t\t\n\t\t\tValeryMLesin\n\t\t\n\t\t\n\t\t\tSergeyINikolenko\n\t\t\n\t\t\n\t\t\tSonPham\n\t\t\n\t\t\n\t\t\tAndreyDPrjibelski\n\t\t\n\t\t\n\t\t\tAlexeyVPyshkin\n\t\t\n\t\t\n\t\t\tAlexanderVSirotkin\n\t\t\n\t\t\n\t\t\tNikolayVyahhi\n\t\t\n\t\t\n\t\t\tGlennTesler\n\t\t\n\t\t\n\t\t\tMaxAAlekseyev\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1089/cmb.2012.0021\n\t\t22506599\n\t\tPMC3342519\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c5cfa57723bebd86680958"},"refKey":25},
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{"_key":"60c5cfa57723bebd8668095f","_id":"references/60c5cfa57723bebd8668095f","_rev":"_cfFlq7W---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5cfa57723bebd86680958"},"refKey":27},
{"_key":"60c5cfac7723bebd8668096a","_id":"references/60c5cfac7723bebd8668096a","_rev":"_cfFlq7i---","tei":"\n\t\n\t\tVariability of the Sheep Lung Microbiota\n\t\t\n\t\t\tLauraGlendinning\n\t\t\t0000-0003-4789-6644\n\t\t\n\t\t\n\t\t\tStevenWright\n\t\t\n\t\t\n\t\t\tJolindaPollock\n\t\t\n\t\t\n\t\t\tPeterTennant\n\t\t\n\t\t\n\t\t\tDavidCollie\n\t\t\n\t\t\n\t\t\tGerryMclachlan\n\t\t\n\t\t10.1128/aem.00540-16\n\t\t26994083\n\t\tPMC4959240\n\t\t\n\t\n\t\n\t\tApplied and Environmental Microbiology\n\t\tAppl. Environ. Microbiol.\n\t\t0099-2240\n\t\t1098-5336\n\t\t\n\t\t\t82\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c5cfac7723bebd86680969"},"refKey":41},
{"_key":"60c5cfac7723bebd8668096b","_id":"references/60c5cfac7723bebd8668096b","_rev":"_cfFlq7u---","tei":"\n\t\n\t\tA greedy algorithm for aligning DNA sequences\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tSSchwartz\n\t\t\n\t\t\n\t\t\tLWagner\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cfac7723bebd86680969"},"refKey":44},
{"_key":"60c5cfac7723bebd8668096c","_id":"references/60c5cfac7723bebd8668096c","_rev":"_cfFlq76---","tei":"\n\t\n\t\tDatabase indexing for production MegaBLAST searches\n\t\t\n\t\t\tAMorgulis\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tYRaytselis\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tRAgarwala\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t10.1093/bioinformatics/btn554\n\t\tPMC2764503\n\t\tark:/67375/HXZ-TXCC841X-1\n\t\tE5B086A5EC8D037FA1BDE1F555A1BA0E81B8C178\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5cfac7723bebd86680969"},"refKey":45},
{"_key":"60c5cfac7723bebd8668096d","_id":"references/60c5cfac7723bebd8668096d","_rev":"_cfFlq8G---","tei":"\n\t\n\t\tQIIME allows analysis of high-throughput community sequencing data\n\t\t\n\t\t\tJGCaporaso\n\t\t\n\t\t\n\t\t\tJKuczynski\n\t\t\n\t\t\n\t\t\tJStombaugh\n\t\t\n\t\t\n\t\t\tKBittinger\n\t\t\n\t\t\n\t\t\tFDBushman\n\t\t\n\t\t\n\t\t\tEKCostello\n\t\t\n\t\t\n\t\t\tNFierer\n\t\t\n\t\t\n\t\t\tAGPena\n\t\t\n\t\t\n\t\t\tJKGoodrich\n\t\t\n\t\t\n\t\t\tJIGordon\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5cfac7723bebd86680969"},"refKey":39},
{"_key":"60c5cfc37723bebd86680986","_id":"references/60c5cfc37723bebd86680986","_rev":"_cfFlq8S---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5cfc37723bebd86680985"},"refKey":14},
{"_key":"60c5cfc37723bebd86680987","_id":"references/60c5cfc37723bebd86680987","_rev":"_cfFlq8e---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5cfc37723bebd86680985"},"refKey":2},
{"_key":"60c5d06e7723bebd866809b2","_id":"references/60c5d06e7723bebd866809b2","_rev":"_cfFlq8q---","tei":"\n\t\n\t\tOpen-source analytics tools for studying the COVID-19 coronavirus outbreak. medRxiv\n\t\t\n\t\t\tTWu\n\t\t\n\t\t\n\t\t\tXGe\n\t\t\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tEHu\n\t\t\n\t\t10.1101/2020.02.25.20027433\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d06e7723bebd866809b1"},"refKey":28},
{"_key":"60c5d09b7723bebd866809d8","_id":"references/60c5d09b7723bebd866809d8","_rev":"_cfFlq8y---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d09b7723bebd866809d7"},"refKey":44},
{"_key":"60c5d09b7723bebd866809d9","_id":"references/60c5d09b7723bebd866809d9","_rev":"_cfFlq9----","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d09b7723bebd866809d7"},"refKey":45},
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{"_key":"60c5d0ee7723bebd86680a1c","_id":"references/60c5d0ee7723bebd86680a1c","_rev":"_cfFlq9W---","tei":"\n\t\n\t\tOn the Role of the Crystal Environment in Determining Protein Side-chain Conformations\n\t\t\n\t\t\tMatthewPJacobson\n\t\t\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tZhexinXiang\n\t\t\n\t\t\n\t\t\tBarryHonig\n\t\t\n\t\t10.1016/s0022-2836(02)00470-9\n\t\t12096912\n\t\tS0022-2836(02)00470-9\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t320\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5d0ee7723bebd86680a1a"},"refKey":105},
{"_key":"60c5d0ee7723bebd86680a1d","_id":"references/60c5d0ee7723bebd86680a1d","_rev":"_cfFlq9i---","tei":"\n\t\n\t\tMicroreact: visualizing and sharing data for genomic epidemiology and phylogeography\n\t\t\n\t\t\tSilviaArgimón\n\t\t\n\t\t\n\t\t\tKhalilAbudahab\n\t\t\n\t\t\n\t\t\tRichardJ EGoater\n\t\t\n\t\t\n\t\t\tArtemijFedosejev\n\t\t\n\t\t\n\t\t\tJyothishBhai\n\t\t\n\t\t\n\t\t\tCorinnaGlasner\n\t\t\n\t\t\n\t\t\tEdwardJFeil\n\t\t\n\t\t\n\t\t\tMatthewT GHolden\n\t\t\n\t\t\n\t\t\tCorinAYeats\n\t\t\n\t\t\n\t\t\tHajoGrundmann\n\t\t\n\t\t\n\t\t\tBrianGSpratt\n\t\t\n\t\t\n\t\t\tDavidMAanensen\n\t\t\n\t\t10.1099/mgen.0.000093\n\t\t28348833\n\t\tPMC5320705\n\t\t\n\t\t\n\t\n\t\n\t\tMicrobial Genomics\n\t\t2057-5858\n\t\t\n\t\t\t2\n\t\t\t11\n\t\t\t\n\t\t\tMicrobiology Society\n\t\t\n\t\n\n","document":{"$oid":"60c5d0ee7723bebd86680a1a"},"refKey":85},
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{"_key":"60c5d1117723bebd86680a40","_id":"references/60c5d1117723bebd86680a40","_rev":"_cfFlq96---","tei":"\n\t\n\t\tA Smartphone App Reveals Erratic Diurnal Eating Patterns in Humans that Can Be Modulated for Health Benefits\n\t\t\n\t\t\tShubhrozGill\n\t\t\n\t\t\n\t\t\tSatchidanandaPanda\n\t\t\n\t\t10.1016/j.cmet.2015.09.005\n\t\t26411343\n\t\tPMC4635036\n\t\t\n\t\n\t\n\t\tCell Metabolism\n\t\tCell Metabolism\n\t\t1550-4131\n\t\t\n\t\t\t22\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5d1117723bebd86680a3f"},"refKey":9},
{"_key":"60c5d12a7723bebd86680a59","_id":"references/60c5d12a7723bebd86680a59","_rev":"_cfFlr-G---","tei":"\n\t\n\t\tSpatial reconstruction of single-cell gene expression data\n\t\t\n\t\t\tRSatija\n\t\t\n\t\t\n\t\t\tJAFarrell\n\t\t\n\t\t\n\t\t\tDGennert\n\t\t\n\t\t\n\t\t\tAFSchier\n\t\t\n\t\t\n\t\t\tARegev\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d12a7723bebd86680a58"},"refKey":12},
{"_key":"60c5d14f7723bebd86680a75","_id":"references/60c5d14f7723bebd86680a75","_rev":"_cfFlr-S---","tei":"\n\t\n\t\tIntegrating genome-wide association study with regulatory SNP annotation information identified candidate genes and pathways for schizophrenia\n\t\t\n\t\t\tXiaoLiang\n\t\t\n\t\t\n\t\t\tSenWang\n\t\t\n\t\t\n\t\t\tLiLiu\n\t\t\n\t\t\n\t\t\tYananDu\n\t\t\n\t\t\n\t\t\tBolunCheng\n\t\t\n\t\t\n\t\t\tYanWen\n\t\t\n\t\t\n\t\t\tYanZhao\n\t\t\n\t\t\n\t\t\tMiaoDing\n\t\t\n\t\t\n\t\t\tShiqiangCheng\n\t\t\n\t\t\n\t\t\tMeiMa\n\t\t\n\t\t\n\t\t\tLuZhang\n\t\t\n\t\t\n\t\t\tXinQi\n\t\t\n\t\t\n\t\t\tPingLi\n\t\t\n\t\t\n\t\t\tXiongGuo\n\t\t\n\t\t\n\t\t\tFengZhang\n\t\t\n\t\t10.18632/aging.102008\n\t\t\n\t\n\t\n\t\tAging\n\t\taging\n\t\t1945-4589\n\t\t\n\t\t\t11\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tImpact Journals, LLC\n\t\t\n\t\n\n","document":{"$oid":"60c5d14f7723bebd86680a74"},"refKey":8},
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{"_key":"60c5d5f17723bebd86680e10","_id":"references/60c5d5f17723bebd86680e10","_rev":"_cfFlrIC---","tei":"\n\t\n\t\tGeneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMeintjes\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\t10.1093/bioinformatics/bts199\n\t\t22543367\n\t\tPMC3371832\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5d5f17723bebd86680e0f"},"refKey":30},
{"_key":"60c5d60a7723bebd86680e23","_id":"references/60c5d60a7723bebd86680e23","_rev":"_cfFlrIO---","tei":"\n\t\n\t\tAssociation between brain imaging signs, early and late outcomes, and response to intravenous alteplase after acute ischaemic stroke in the third International Stroke Trial (IST-3): secondary analysis of a randomised controlled trial\n\t\t10.1016/s1474-4422(15)00012-5\n\t\t25819484\n\t\tPMC4513190\n\t\n\t\n\t\tThe Lancet Neurology\n\t\tThe Lancet Neurology\n\t\t1474-4422\n\t\t\n\t\t\t14\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\t\n\t\t\tIST-3 Collaborative Group\n\t\t\n\t\n\n","document":{"$oid":"60c5d60a7723bebd86680e22"},"refKey":20},
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{"_key":"60c5d6407723bebd86680e49","_id":"references/60c5d6407723bebd86680e49","_rev":"_cfFlrIm---","tei":"\n\t\n\t\tGeneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMeintjes\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d6407723bebd86680e47"},"refKey":23},
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{"_key":"60c5d6887723bebd86680e8f","_id":"references/60c5d6887723bebd86680e8f","_rev":"_cfFlrJe---","tei":"\n\t\n\t\tCyberProbe: Towards Internet-Scale Active Detection of Malicious Servers\n\t\t\n\t\t\tAntonioNappa\n\t\t\n\t\t\n\t\t\tZhaoyanXu\n\t\t\n\t\t\n\t\t\tMZubairRafique\n\t\t\n\t\t\n\t\t\tJuanCaballero\n\t\t\n\t\t\n\t\t\tGuofeiGu\n\t\t\n\t\t10.14722/ndss.2014.23218\n\t\t\n\t\n\t\n\t\tProceedings 2014 Network and Distributed System Security Symposium\n\t\t\t\t2014 Network and Distributed System Security Symposium\n\t\t\n\t\t\tInternet Society\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d6887723bebd86680e8e"},"refKey":9},
{"_key":"60c5d6887723bebd86680e90","_id":"references/60c5d6887723bebd86680e90","_rev":"_cfFlrJq---","tei":"\n\t\n\t\tAn Intelligent Improvement of Internet-Wide Scan Engine for Fast Discovery of Vulnerable IoT Devices\n\t\t\n\t\t\tHwankukKim\n\t\t\t0000-0002-4449-5821\n\t\t\n\t\t\n\t\t\tTaeunKim\n\t\t\n\t\t\n\t\t\tDaeilJang\n\t\t\n\t\t10.3390/sym10050151\n\t\t\n\t\n\t\n\t\tSymmetry\n\t\tSymmetry\n\t\t2073-8994\n\t\t\n\t\t\t10\n\t\t\t5\n\t\t\t151\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c5d6887723bebd86680e8e"},"refKey":10},
{"_key":"60c5d6887723bebd86680e91","_id":"references/60c5d6887723bebd86680e91","_rev":"_cfFlrJ2---","tei":"\n\t\n\t\tYou've got vulnerability: exploring effective vulnerability notifications\n\t\t\n\t\t\tFLi\n\t\t\n\t\n\t\n\t\t25th USENIX Security Symposium (USENIX Security 16\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d6887723bebd86680e8e"},"refKey":11},
{"_key":"60c5d6a77723bebd86680ea4","_id":"references/60c5d6a77723bebd86680ea4","_rev":"_cfFlrKC---","tei":"\n\t\n\t\tDevelopment of an interactive web-based tool to conduct and interrogate meta-analysis of diagnostic test accuracy studies: MetaDTA\n\t\t\n\t\t\tSuzanneCFreeman\n\t\t\t0000-0001-8045-4405\n\t\t\n\t\t\n\t\t\tClareeceRKerby\n\t\t\n\t\t\n\t\t\tAmitPatel\n\t\t\n\t\t\n\t\t\tNicolaJCooper\n\t\t\n\t\t\n\t\t\tTerryQuinn\n\t\t\n\t\t\n\t\t\tAlexJSutton\n\t\t\n\t\t10.1186/s12874-019-0724-x\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Medical Research Methodology\n\t\tBMC Med Res Methodol\n\t\t1471-2288\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t81\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5d6a77723bebd86680ea3"},"refKey":47},
{"_key":"60c5d6c07723bebd86680ebb","_id":"references/60c5d6c07723bebd86680ebb","_rev":"_cfFlrKO---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d6c07723bebd86680eba"},"refKey":34},
{"_key":"60c5d6c07723bebd86680ebc","_id":"references/60c5d6c07723bebd86680ebc","_rev":"_cfFlrKa---","tei":"\n\t\n\t\tThe CCP4 Suite: Programs for Protein Crystallography\n\t\n\t\n\t\tCollaborative Computational Project\n\t\t\n\t\t\t50\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tActa Cryst.\n\n","document":{"$oid":"60c5d6c07723bebd86680eba"},"refKey":31},
{"_key":"60c5d6c07723bebd86680ebd","_id":"references/60c5d6c07723bebd86680ebd","_rev":"_cfFlrKm---","tei":"\n\t\n\t\tCoot: model-building tools for molecular graphics\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t60\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 15572765\n\n","document":{"$oid":"60c5d6c07723bebd86680eba"},"refKey":33},
{"_key":"60c5d6d77723bebd86680ed1","_id":"references/60c5d6d77723bebd86680ed1","_rev":"_cfFlrKy---","tei":"\n\t\n\t\tConstructing Realistic Neural Simulations with GENESIS\n\t\t\n\t\t\tJamesMBower\n\t\t\n\t\t\n\t\t\tDavidBeeman\n\t\t\n\t\t10.1007/978-1-59745-520-6_7\n\t\t18368363\n\t\n\t\n\t\tMethods in Molecular Biology™\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t401\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d6d77723bebd86680ed0"},"refKey":11},
{"_key":"60c5d7557723bebd86680ef1","_id":"references/60c5d7557723bebd86680ef1","_rev":"_cfFlrK6---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis (MEGA) for macOS\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d7557723bebd86680ef0"},"refKey":22},
{"_key":"60c5d7557723bebd86680ef2","_id":"references/60c5d7557723bebd86680ef2","_rev":"_cfFlrLG---","tei":"\n\t\n\t\tPhylogenetic Analysis Using Parsimony (*and Other Methods). Version 4. Sinauer Associates\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\t\n\t\t\tPaup*\n\t\t\n\t\t\n\t\t\t\n\t\t\tSunderland, Massachusetts\n\t\t\n\t\n\n","document":{"$oid":"60c5d7557723bebd86680ef0"},"refKey":25},
{"_key":"60c5d7557723bebd86680ef3","_id":"references/60c5d7557723bebd86680ef3","_rev":"_cfFlrLS---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d7557723bebd86680ef0"},"refKey":21},
{"_key":"60c5d7697723bebd86680f04","_id":"references/60c5d7697723bebd86680f04","_rev":"_cfFlrLe---","tei":"\n\t\n\t\tThe Sentiment Analysis of Tweets as a New Tool to Measure Public Perception of Male Erectile and Ejaculatory Dysfunctions\n\t\t\n\t\t\tAndreaSansone\n\t\t\n\t\t\n\t\t\tAngeloCignarelli\n\t\t\n\t\t\n\t\t\tGiacomoCiocca\n\t\t\n\t\t\n\t\t\tCarlottaPozza\n\t\t\n\t\t\n\t\t\tFrancescoGiorgino\n\t\t\n\t\t\n\t\t\tFrancescoRomanelli\n\t\t\n\t\t\n\t\t\tEmmanueleAJannini\n\t\t\n\t\t10.1016/j.esxm.2019.07.001\n\t\t\n\t\n\t\n\t\tSexual Medicine\n\t\tSexual Medicine\n\t\t2050-1161\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5d7697723bebd86680f03"},"refKey":3},
{"_key":"60c5d7707723bebd86680f10","_id":"references/60c5d7707723bebd86680f10","_rev":"_cfFlrLq---","tei":"\n\t\n\t\tResearch Electronic Data Capture (REDCap)da metadatadriven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d7707723bebd86680f0f"},"refKey":14},
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{"_key":"60c5d9d07723bebd866810c2","_id":"references/60c5d9d07723bebd866810c2","_rev":"_cfFlrQC---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5d9d07723bebd866810c1"},"refKey":28},
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{"_key":"60c5da407723bebd86681102","_id":"references/60c5da407723bebd86681102","_rev":"_cfFlrQa---","tei":"\n\t\n\t\tVEGA – An open platform to develop chemo-bio-informatics applications, using plug-in architecture and script programming\n\t\t\n\t\t\tAlessandroPedretti\n\t\t\n\t\t\n\t\t\tLuigiVilla\n\t\t\n\t\t\n\t\t\tGiulioVistoli\n\t\t\n\t\t10.1023/b:jcam.0000035186.90683.f2\n\t\t15368917\n\t\tark:/67375/VQC-5HV7H16W-6\n\t\t0F71F6FF8B07404A28C44415FDA5746587F4700F\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t\n\t\t\t18\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5da407723bebd86681101"},"refKey":35},
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{"_key":"60c5da5f7723bebd86681132","_id":"references/60c5da5f7723bebd86681132","_rev":"_cfFlrQy---","tei":"\n\t\n\t\tEvaluation of QUADAS, a tool for the quality assessment of diagnostic accuracy studies\n\t\t\n\t\t\tPennyFWhiting\n\t\t\n\t\t\n\t\t\tMarieEWeswood\n\t\t\n\t\t\n\t\t\tAnneWsRutjes\n\t\t\n\t\t\n\t\t\tJohannesBReitsma\n\t\t\n\t\t\n\t\t\tPatrickNmBossuyt\n\t\t\n\t\t\n\t\t\tJosKleijnen\n\t\t\n\t\t10.1186/1471-2288-6-9\n\t\t16519814\n\t\tPMC1421422\n\t\t\n\t\n\t\n\t\tBMC Medical Research Methodology\n\t\tBMC Med Res Methodol\n\t\t1471-2288\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5da5f7723bebd86681131"},"refKey":23},
{"_key":"60c5da5f7723bebd86681133","_id":"references/60c5da5f7723bebd86681133","_rev":"_cfFlrR----","tei":"\n\t\n\t\tEvaluation of QUADAS, a tool for the quality assessment of diagnostic accuracy studies\n\t\t\n\t\t\tPennyFWhiting\n\t\t\n\t\t\n\t\t\tMarieEWeswood\n\t\t\n\t\t\n\t\t\tAnneWsRutjes\n\t\t\n\t\t\n\t\t\tJohannesBReitsma\n\t\t\n\t\t\n\t\t\tPatrickNmBossuyt\n\t\t\n\t\t\n\t\t\tJosKleijnen\n\t\t\n\t\t10.1186/1471-2288-6-9\n\t\t16519814\n\t\tPMC1421422\n\t\t\n\t\n\t\n\t\tBMC Medical Research Methodology\n\t\tBMC Med Res Methodol\n\t\t1471-2288\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5da5f7723bebd86681131"},"refKey":24},
{"_key":"60c5da9f7723bebd86681172","_id":"references/60c5da9f7723bebd86681172","_rev":"_cfFlrRK---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5da9f7723bebd86681171"},"refKey":64},
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{"_key":"60c5da9f7723bebd86681175","_id":"references/60c5da9f7723bebd86681175","_rev":"_cfFlrRy---","tei":"\n\t\n\t\tProbCons: Probabilistic consistency-based multiple sequence alignment\n\t\t\n\t\t\tCBDo\n\t\t\n\t\t\n\t\t\tMSMahabhashyam\n\t\t\n\t\t\n\t\t\tMBrudno\n\t\t\n\t\t\n\t\t\tSBatzoglou\n\t\t\n\t\t10.1101/gr.2821705\n\t\t15687296\n\t\tPMC546535\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t15\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5da9f7723bebd86681171"},"refKey":23},
{"_key":"60c5dabe7723bebd86681195","_id":"references/60c5dabe7723bebd86681195","_rev":"_cfFlrS----","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tLO'neal\n\t\t\n\t\t\n\t\t\tLMcleod\n\t\t\n\t\t\n\t\t\tGDelacqua\n\t\t\n\t\t\n\t\t\tFDelacqua\n\t\t\n\t\t\n\t\t\tJKirby\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\n\t\n\t\tJ. Biomed. Inform\n\t\t\n\t\t\t95\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c5dabe7723bebd86681194"},"refKey":21},
{"_key":"60c5dabe7723bebd86681196","_id":"references/60c5dabe7723bebd86681196","_rev":"_cfFlrSK---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5dabe7723bebd86681194"},"refKey":22},
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{"_key":"60c5dad97723bebd866811b1","_id":"references/60c5dad97723bebd866811b1","_rev":"_cfFlrSu---","tei":"\n\t\n\t\tVIGOR, an annotation program for small viral genomes\n\t\t\n\t\t\tShiliangWang\n\t\t\n\t\t\n\t\t\tJaideepPSundaram\n\t\t\n\t\t\n\t\t\tDavidSpiro\n\t\t\n\t\t10.1186/1471-2105-11-451\n\t\t20822531\n\t\tPMC2942859\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t451\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c5dad97723bebd866811af"},"refKey":77},
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{"_key":"60c5db107723bebd866811dd","_id":"references/60c5db107723bebd866811dd","_rev":"_cfFlrTG---","tei":"\n\t\n\t\tmgcv: Mixed GAM Computation Vehicle with automatic smoothness estimation\n\t\t\n\t\t\tSWood\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 1.8-31\n\n","document":{"$oid":"60c5db107723bebd866811dc"},"refKey":44},
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{"_key":"60c5db3b7723bebd866811f0","_id":"references/60c5db3b7723bebd866811f0","_rev":"_cfFlrTe---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5db3b7723bebd866811ef"},"refKey":31},
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{"_key":"60c5db3b7723bebd866811f2","_id":"references/60c5db3b7723bebd866811f2","_rev":"_cfFlrT2---","tei":"\n\t\n\t\tBETAWRAP: Successful prediction of parallel -helices from primary sequence reveals an association with many microbial pathogens\n\t\t\n\t\t\tPBradley\n\t\t\n\t\t\n\t\t\tLCowen\n\t\t\n\t\t\n\t\t\tMMenke\n\t\t\n\t\t\n\t\t\tJKing\n\t\t\n\t\t\n\t\t\tBBerger\n\t\t\n\t\t10.1073/pnas.251267298\n\t\t11752429\n\t\tPMC64942\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c5db3b7723bebd866811ef"},"refKey":4},
{"_key":"60c5db6d7723bebd86681226","_id":"references/60c5db6d7723bebd86681226","_rev":"_cfFlrUC---","tei":"\n\t\n\t\tGeneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5db6d7723bebd86681225"},"refKey":19},
{"_key":"60c5db717723bebd86681238","_id":"references/60c5db717723bebd86681238","_rev":"_cfFlrUO---","tei":"\n\t\n\t\t\n\t\tThe R Project for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5db717723bebd86681237"},"refKey":15},
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{"_key":"60c5db797723bebd8668123d","_id":"references/60c5db797723bebd8668123d","_rev":"_cfFlrUm---","tei":"\n\t\n\t\tClosing the gap between methodologists and end-users: R as a computational back-end\n\t\t\n\t\t\tBCWallace\n\t\t\n\t\t\n\t\t\tIJDahabreh\n\t\t\n\t\t\n\t\t\tTATrikalinos\n\t\t\n\t\t\n\t\t\tJLau\n\t\t\n\t\t\n\t\t\tPTrow\n\t\t\n\t\t\n\t\t\tCHSchmid\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t49\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5db797723bebd8668123c"},"refKey":36},
{"_key":"60c5db7b7723bebd86681243","_id":"references/60c5db7b7723bebd86681243","_rev":"_cfFlrUy---","tei":"\n\t\n\t\tSmall molecule library screening by docking with PyRx\n\t\t\n\t\t\tAJDallakyan\n\t\t\n\t\t\n\t\t\tSOlson\n\t\t\n\t\tH.C. Hempel, J. Williams\n\t\t\n\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c5db7b7723bebd86681242"},"refKey":29},
{"_key":"60c5db7b7723bebd86681244","_id":"references/60c5db7b7723bebd86681244","_rev":"_cfFlrV----","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tAJTrott\n\t\t\n\t\t\n\t\t\tOOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5db7b7723bebd86681242"},"refKey":33},
{"_key":"60c5dba47723bebd8668126b","_id":"references/60c5dba47723bebd8668126b","_rev":"_cfFlrVK---","tei":"\n\t\n\t\tAntagonizing cytokine-mediated JAK-STAT signaling by porcine reproductive and respiratory syndrome virus\n\t\t\n\t\t\tLipingYang\n\t\t\n\t\t\n\t\t\tYan-JinZhang\n\t\t\n\t\t10.1016/j.vetmic.2016.12.036\n\t\t28069291\n\t\n\t\n\t\tVeterinary Microbiology\n\t\tVeterinary Microbiology\n\t\t0378-1135\n\t\t\n\t\t\t209\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5dba47723bebd8668126a"},"refKey":2},
{"_key":"60c5dba47723bebd8668126c","_id":"references/60c5dba47723bebd8668126c","_rev":"_cfFlrVW---","tei":"\n\t\n\t\tRNAplex: a fast tool for RNA–RNA interaction search\n\t\t\n\t\t\tHakimTafer\n\t\t\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t10.1093/bioinformatics/btn193\n\t\t18434344\n\t\tark:/67375/HXZ-FFD32NKT-V\n\t\t3EE55A8B3748189EFD56C2511A4037A1F2A3B734\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5dba47723bebd8668126a"},"refKey":43},
{"_key":"60c5dbc07723bebd8668128b","_id":"references/60c5dbc07723bebd8668128b","_rev":"_cfFlrVi---","tei":"\n\t\n\t\tMolecular Docking: A Powerful Approach for Structure-Based Drug Discovery\n\t\t\n\t\t\tXuan-YuMeng\n\t\t\n\t\t\n\t\t\tHong-XingZhang\n\t\t\n\t\t\n\t\t\tMihalyMezei\n\t\t\n\t\t\n\t\t\tMengCui\n\t\t\n\t\t10.2174/157340911795677602\n\t\t21534921\n\t\tPMC3151162\n\t\t\n\t\n\t\n\t\tCurrent Computer Aided-Drug Design\n\t\tCAD\n\t\t1573-4099\n\t\t\n\t\t\t7\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tBentham Science Publishers Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c5dbc07723bebd8668128a"},"refKey":48},
{"_key":"60c5dbc07723bebd8668128c","_id":"references/60c5dbc07723bebd8668128c","_rev":"_cfFlrVu---","tei":"\n\t\n\t\tMolecular Docking Simulation with Special Reference to Flexible Docking Approach\n\t\t\n\t\t\tTKhan\n\t\t\n\t\t\n\t\t\tAJLawrence\n\t\t\n\t\t\n\t\t\tIAzad\n\t\t\n\t\t\n\t\t\tSRaza\n\t\t\n\t\t\n\t\t\tARKhan\n\t\t\n\t\n\t\n\t\tJSM Chemistry\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dbc07723bebd8668128a"},"refKey":49},
{"_key":"60c5dbc07723bebd8668128d","_id":"references/60c5dbc07723bebd8668128d","_rev":"_cfFlrV6---","tei":"\n\t\n\t\tMolecular Docking and Structure-Based Drug Design Strategies\n\t\t\n\t\t\tLeonardoFerreira\n\t\t\n\t\t\n\t\t\tRicardoDos Santos\n\t\t\n\t\t\n\t\t\tGlauciusOliva\n\t\t\n\t\t\n\t\t\tAdrianoAndricopulo\n\t\t\n\t\t10.3390/molecules200713384\n\t\t26205061\n\t\tPMC6332083\n\t\t\n\t\n\t\n\t\tMolecules\n\t\tMolecules\n\t\t1420-3049\n\t\t\n\t\t\t20\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c5dbc07723bebd8668128a"},"refKey":50},
{"_key":"60c5dbc87723bebd8668129e","_id":"references/60c5dbc87723bebd8668129e","_rev":"_cfFlrWG---","tei":"\n\t\n\t\tExtra precision glide: docking and scoring incorporating a model of hydrophobic enclosure for ProteinÀLigand complexes\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tMPRepasky\n\t\t\n\t\t\n\t\t\tLLFrye\n\t\t\n\t\t\n\t\t\tJRGreenwood\n\t\t\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\n\t\n\t\tJ Med Chem\n\t\t\n\t\t\t49\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dbc87723bebd8668129d"},"refKey":75},
{"_key":"60c5dbc87723bebd8668129f","_id":"references/60c5dbc87723bebd8668129f","_rev":"_cfFlrWS---","tei":"\n\t\n\t\tpyDock: Electrostatics and desolvation for effective scoring of rigid-body protein-protein docking\n\t\t\n\t\t\tTammy Man-KuangCheng\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t\n\t\t\tJuanFernandez-Recio\n\t\t\n\t\t10.1002/prot.21419\n\t\t17444519\n\t\tark:/67375/WNG-1SC216HC-8\n\t\t85186C8B6F3390B3083E5C516C8C10319B92EEB7\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t68\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5dbc87723bebd8668129d"},"refKey":52},
{"_key":"60c5dbc87723bebd866812a0","_id":"references/60c5dbc87723bebd866812a0","_rev":"_cfFlrWe---","tei":"\n\t\n\t\tFpocket: an open source platform for ligand pocket detection\n\t\t\n\t\t\tLeGuilloux\n\t\t\n\t\t\n\t\t\tVSchmidtke\n\t\t\n\t\t\n\t\t\tPTuffery\n\t\t\n\t\t\n\t\t\tP\n\t\t\n\t\n\t\n\t\tBMC Bioinf\n\t\t\n\t\t\t10\n\t\t\t168\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dbc87723bebd8668129d"},"refKey":72},
{"_key":"60c5dbc87723bebd866812a1","_id":"references/60c5dbc87723bebd866812a1","_rev":"_cfFlrWu---","tei":"\n\t\n\t\trDock: a fast, versatile and open source program for docking ligands to proteins and nucleic acids\n\t\t\n\t\t\tSRuiz-Carmona\n\t\t\n\t\t\n\t\t\tDAlvarez-Garcia\n\t\t\n\t\t\n\t\t\tNFoloppe\n\t\t\n\t\t\n\t\t\tABGarmendia-Doval\n\t\t\n\t\t\n\t\t\tSJuhos\n\t\t\n\t\t\n\t\t\tPSchmidtke\n\t\t\n\t\n\t\n\t\tPLOS Comp Biol\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\te1003571\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dbc87723bebd8668129d"},"refKey":76},
{"_key":"60c5dbc87723bebd866812a2","_id":"references/60c5dbc87723bebd866812a2","_rev":"_cfFlrW6---","tei":"\n\t\n\t\tA novel shape complementarity scoring function for protein-protein docking\n\t\t\n\t\t\tRongChen\n\t\t\n\t\t\n\t\t\tZhipingWeng\n\t\t\n\t\t10.1002/prot.10334\n\t\t12696051\n\t\tark:/67375/WNG-ZXQ9HCLJ-D\n\t\t0C60BB86559DDFACEBFE9E4E711481EDB7A3DFA4\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t51\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5dbc87723bebd8668129d"},"refKey":74},
{"_key":"60c5dbc87723bebd866812a3","_id":"references/60c5dbc87723bebd866812a3","_rev":"_cfFlrXG---","tei":"\n\t\n\t\t2P2Idb: a structural database dedicated to orthosteric modulation of protein–protein interactions\n\t\t\n\t\t\tMarieJeanneBasse\n\t\t\n\t\t\n\t\t\tStéphaneBetzi\n\t\t\n\t\t\n\t\t\tRaphaëlBourgeas\n\t\t\n\t\t\n\t\t\tSofiaBouzidi\n\t\t\n\t\t\n\t\t\tBernardChetrit\n\t\t\n\t\t\n\t\t\tVéroniqueHamon\n\t\t\n\t\t\n\t\t\tXavierMorelli\n\t\t\n\t\t\n\t\t\tPhilippeRoche\n\t\t\n\t\t10.1093/nar/gks1002\n\t\t23203891\n\t\tPMC3531195\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5dbc87723bebd8668129d"},"refKey":59},
{"_key":"60c5dc1a7723bebd8668131d","_id":"references/60c5dc1a7723bebd8668131d","_rev":"_cfFlrXS---","tei":"\n\t\n\t\tCamera: a competitive gene set test accounting for inter-gene correlation\n\t\t\n\t\t\tDWu\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t17\n\t\t\te133\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc1a7723bebd8668131c"},"refKey":28},
{"_key":"60c5dc1a7723bebd8668131e","_id":"references/60c5dc1a7723bebd8668131e","_rev":"_cfFlrXe---","tei":"\n\t\n\t\tGSVA: gene set variation analysis for microarray and RNA-seq data\n\t\t\n\t\t\tSHänzelmann\n\t\t\n\t\t\n\t\t\tRCastelo\n\t\t\n\t\t\n\t\t\tJGuinney\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t14\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc1a7723bebd8668131c"},"refKey":29},
{"_key":"60c5dc1a7723bebd8668131f","_id":"references/60c5dc1a7723bebd8668131f","_rev":"_cfFlrXq---","tei":"\n\t\n\t\tFast gene set enrichment analysis\n\t\t\n\t\t\tGKorotkevich\n\t\t\n\t\t\n\t\t\tVSukhov\n\t\t\n\t\t\n\t\t\tASergushichev\n\t\t\n\t\t10.1101/060012\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc1a7723bebd8668131c"},"refKey":30},
{"_key":"60c5dc387723bebd8668132e","_id":"references/60c5dc387723bebd8668132e","_rev":"_cfFlrX2---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBBuchfink\n\t\t\n\t\t\n\t\t\tCXie\n\t\t\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc387723bebd8668132d"},"refKey":9},
{"_key":"60c5dc4b7723bebd8668133f","_id":"references/60c5dc4b7723bebd8668133f","_rev":"_cfFlrYC---","tei":"\n\t\n\t\tProdigal: prokaryotic gene recognition and translation initiation site identification\n\t\t\n\t\t\tDHyatt\n\t\t\n\t\t\n\t\t\tG-LChen\n\t\t\n\t\t\n\t\t\tPFLocascio\n\t\t\n\t\t\n\t\t\tMLLand\n\t\t\n\t\t\n\t\t\tFWLarimer\n\t\t\n\t\t\n\t\t\tLJHauser\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinforma\n\t\t\n\t\t\t11\n\t\t\t119\n\t\t\t\n\t\t\n\t\n\tcited 2010 Mar 8\n\n","document":{"$oid":"60c5dc4b7723bebd8668133e"},"refKey":54},
{"_key":"60c5dc4b7723bebd86681340","_id":"references/60c5dc4b7723bebd86681340","_rev":"_cfFlrYO---","tei":"\n\t\n\t\tPHASTER: a better, faster version of the PHAST phage search tool\n\t\t\n\t\t\tDArndt\n\t\t\n\t\t\n\t\t\tJRGrant\n\t\t\n\t\t\n\t\t\tAMarcu\n\t\t\n\t\t\n\t\t\tTSajed\n\t\t\n\t\t\n\t\t\tAPon\n\t\t\n\t\t\n\t\t\tYLiang\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic acids Res\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tcited\n\n","document":{"$oid":"60c5dc4b7723bebd8668133e"},"refKey":46},
{"_key":"60c5dc4b7723bebd86681341","_id":"references/60c5dc4b7723bebd86681341","_rev":"_cfFlrYa---","tei":"\n\t\n\t\tVirSorter: mining viral signal from microbial genomic data\n\t\t\n\t\t\tMBSullivan\n\t\t\n\t\t\n\t\t\tBLHurwitz\n\t\t\n\t\t\n\t\t\tSRoux\n\t\t\n\t\t\n\t\t\tFEnault\n\t\t\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc4b7723bebd8668133e"},"refKey":47},
{"_key":"60c5dc4b7723bebd86681342","_id":"references/60c5dc4b7723bebd86681342","_rev":"_cfFlrYm---","tei":"\n\t\n\t\tRAWGraphs: A Visualisation Platform to Create Open Outputs\n\t\t\n\t\t\tMMauri\n\t\t\n\t\t\n\t\t\tTElli\n\t\t\n\t\t\n\t\t\tGCaviglia\n\t\t\n\t\t\n\t\t\tGUboldi\n\t\t\n\t\t\n\t\t\tMAzzi\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the 12th Biannual Conference on Italian SIGCHI Chapter\n\t\t\t\tthe 12th Biannual Conference on Italian SIGCHI Chapter\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t17\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc4b7723bebd8668133e"},"refKey":55},
{"_key":"60c5dc4b7723bebd86681343","_id":"references/60c5dc4b7723bebd86681343","_rev":"_cfFlrYy---","tei":"\n\t\n\t\tProkka: rapid prokaryotic genome annotation\n\t\t\n\t\t\tTSeemann\n\t\t\n\t\t\n\t\n\t\n\t\tBioinforma\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc4b7723bebd8668133e"},"refKey":56},
{"_key":"60c5dc4b7723bebd86681344","_id":"references/60c5dc4b7723bebd86681344","_rev":"_cfFlrZ----","tei":"\n\t\n\t\tVSEARCH: a versatile open source tool for metagenomics\n\t\t\n\t\t\tTorbjørnRognes\n\t\t\n\t\t\n\t\t\tTomášFlouri\n\t\t\n\t\t\n\t\t\tBenNichols\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tFrédéricMahé\n\t\t\n\t\t10.7287/peerj.preprints.2409\n\t\t\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c5dc4b7723bebd8668133e"},"refKey":49},
{"_key":"60c5dc4b7723bebd86681345","_id":"references/60c5dc4b7723bebd86681345","_rev":"_cfFlrZK---","tei":"\n\t\n\t\tData Structures for Statistical Computing in Python\n\t\t\n\t\t\tWMckinney\n\t\t\n\t\n\t\n\t\tProc 9th Python Sci Conf\n\t\t\t\t9th Python Sci Conf\n\t\t\n\t\t\t\n\t\t\t1697900\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc4b7723bebd8668133e"},"refKey":60},
{"_key":"60c5dc4b7723bebd86681346","_id":"references/60c5dc4b7723bebd86681346","_rev":"_cfFlrZW---","tei":"\n\t\n\t\tMatplotlib: A 2D Graphics Environment\n\t\t\n\t\t\tJohnDHunter\n\t\t\n\t\t10.1109/mcse.2007.55\n\t\t\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\tComput. Sci. Eng.\n\t\t1521-9615\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c5dc4b7723bebd8668133e"},"refKey":61},
{"_key":"60c5dc4b7723bebd86681347","_id":"references/60c5dc4b7723bebd86681347","_rev":"_cfFlrZi---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\n\t\n\t\tBioinforma\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc4b7723bebd8668133e"},"refKey":39},
{"_key":"60c5dc527723bebd86681371","_id":"references/60c5dc527723bebd86681371","_rev":"_cfFlrZu---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAAScha ¨ffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc527723bebd86681370"},"refKey":0},
{"_key":"60c5dc527723bebd86681372","_id":"references/60c5dc527723bebd86681372","_rev":"_cfFlrZ2---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc527723bebd86681370"},"refKey":6},
{"_key":"60c5dc527723bebd86681373","_id":"references/60c5dc527723bebd86681373","_rev":"_cfFlraC---","tei":"\n\t\n\t\tPHYLIP-phylogeny inference package\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\n\t\n\t\tCla-Distics\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc527723bebd86681370"},"refKey":8},
{"_key":"60c5dc527723bebd86681374","_id":"references/60c5dc527723bebd86681374","_rev":"_cfFlraO---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignments through sequence weighting, position specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc527723bebd86681370"},"refKey":38},
{"_key":"60c5dc527723bebd86681375","_id":"references/60c5dc527723bebd86681375","_rev":"_cfFlraa---","tei":"\n\t\n\t\tT-Coffee: a novel method for fast and accurate multiple sequence alignment\n\t\t\n\t\t\tCNotredame\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJHeringa\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t302\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc527723bebd86681370"},"refKey":32},
{"_key":"60c5dc527723bebd86681376","_id":"references/60c5dc527723bebd86681376","_rev":"_cfFlram---","tei":"\n\t\n\t\tThe rapid generation of mutation data matrices from protein sequences\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t\n\t\t\tWRTaylor\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tComput. Appl. Biosci\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dc527723bebd86681370"},"refKey":17},
{"_key":"60c5dc527723bebd86681377","_id":"references/60c5dc527723bebd86681377","_rev":"_cfFlray---","tei":"\n\t\n\t\tA Transition Probability Model for Amino Acid Substitutions from Blocks\n\t\t\n\t\t\tShaliniVeerassamy\n\t\t\n\t\t\n\t\t\tAndrewSmith\n\t\t\n\t\t\n\t\t\tElisabethR MTillier\n\t\t\n\t\t10.1089/106652703322756195\n\t\t14980022\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c5dc527723bebd86681370"},"refKey":42},
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{"_key":"60c5dc747723bebd86681396","_id":"references/60c5dc747723bebd86681396","_rev":"_cfFlrbK---","tei":"\n\t\n\t\tResearch Electronic Data Capture (REDCap)\n\t\t\n\t\t\tPaul Harris, REDCap, Vander\n\t\t\n\t\t\n\t\t\tbilt University Medical Center\n\t\t\n\t\n\n","document":{"$oid":"60c5dc747723bebd86681395"},"refKey":3},
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{"_key":"60c5de417723bebd86681462","_id":"references/60c5de417723bebd86681462","_rev":"_cfFlrfG---","tei":"\n\t\n\t\tSingle Particle Cryo-electron Microscopy and 3-D Reconstruction of Viruses\n\t\t\n\t\t\tFeiGuo\n\t\t\n\t\t\n\t\t\tWenJiang\n\t\t\n\t\t10.1007/978-1-62703-776-1_19\n\t\t24357374\n\t\tPMC4020923\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t1117\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5de417723bebd8668145c"},"refKey":45},
{"_key":"60c5de467723bebd86681470","_id":"references/60c5de467723bebd86681470","_rev":"_cfFlrfW---","tei":"\n\t\n\t\tSeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation\n\t\t\n\t\t\tWeiShen\n\t\t\t0000-0002-8099-8258\n\t\t\n\t\t\n\t\t\tShuaiLe\n\t\t\n\t\t\n\t\t\tYanLi\n\t\t\n\t\t\n\t\t\tFuquanHu\n\t\t\n\t\t10.1371/journal.pone.0163962\n\t\t27706213\n\t\tPMC5051824\n\t\t\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t11\n\t\t\t10\n\t\t\te0163962\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c5de467723bebd8668146f"},"refKey":62},
{"_key":"60c5de467723bebd86681471","_id":"references/60c5de467723bebd86681471","_rev":"_cfFlrfi---","tei":"\n\t\n\t\tXTandem Parser: An open-source library to parse and analyse X!Tandem MS/MS search results\n\t\t\n\t\t\tThiloMuth\n\t\t\n\t\t\n\t\t\tMarcVaudel\n\t\t\n\t\t\n\t\t\tHaraldBarsnes\n\t\t\n\t\t\n\t\t\tLennartMartens\n\t\t\n\t\t\n\t\t\tAlbertSickmann\n\t\t\n\t\t10.1002/pmic.200900759\n\t\t20140905\n\t\tark:/67375/WNG-95TW131S-0\n\t\tB2ED73606721D20C678D7E8C4A6EB9DE214075E6\n\t\t\n\t\n\t\n\t\tPROTEOMICS\n\t\tProteomics\n\t\t1615-9853\n\t\t\n\t\t\t10\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5de467723bebd8668146f"},"refKey":55},
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{"_key":"60c5de467723bebd86681473","_id":"references/60c5de467723bebd86681473","_rev":"_cfFlrg----","tei":"\n\t\n\t\tMS-GF+ makes progress towards a universal database search tool for proteomics\n\t\t\n\t\t\tSangtaeKim\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1038/ncomms6277\n\t\t25358478\n\t\tPMC5036525\n\t\t\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t5277\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5de467723bebd8668146f"},"refKey":56},
{"_key":"60c5de4b7723bebd8668149b","_id":"references/60c5de4b7723bebd8668149b","_rev":"_cfFlrgK---","tei":"\n\t\n\t\tThe Hartung-Knapp-Sidik-Jonkman method for random effects meta-analysis is straightforward and considerably outperforms the standard DerSimonian-Laird method\n\t\t\n\t\t\tJoannaInthout\n\t\t\n\t\t\n\t\t\tJohnPaIoannidis\n\t\t\n\t\t\n\t\t\tGeorgeFBorm\n\t\t\n\t\t10.1186/1471-2288-14-25\n\t\t24548571\n\t\tPMC4015721\n\t\t\n\t\n\t\n\t\tBMC Medical Research Methodology\n\t\tBMC Med Res Methodol\n\t\t1471-2288\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t25\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5de4b7723bebd8668149a"},"refKey":23},
{"_key":"60c5de797723bebd866814b6","_id":"references/60c5de797723bebd866814b6","_rev":"_cfFlrgW---","tei":"\n\t\n\t\tOn the role of the crystal environment in determining protein side-chain conformations\n\t\t\n\t\t\tMPJacobson\n\t\t\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tZXiang\n\t\t\n\t\t\n\t\t\tBHonig\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t320\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5de797723bebd866814b5"},"refKey":39},
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{"_key":"60c5de9a7723bebd866814e1","_id":"references/60c5de9a7723bebd866814e1","_rev":"_cfFlrh----","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5de9a7723bebd866814e0"},"refKey":45},
{"_key":"60c5dea97723bebd866814eb","_id":"references/60c5dea97723bebd866814eb","_rev":"_cfFlrhK---","tei":"\n\t\n\t\tOptimising Enabling Tests and Unfoldings of Algebraic System Nets\n\t\t\n\t\t\tMarkoMäkelä\n\t\t\n\t\t10.1007/3-540-45740-2_17\n\t\tark:/67375/HCB-9KRPW1NP-J\n\t\tA8E76E89C00ABE4B9205EC4E79F7A15ECA923C78\n\t\n\t\n\t\tApplications and Theory of Petri Nets 2001\n\t\t\t\t\n\t\t\tJ.-MColom\n\t\t\tMKoutny\n\t\t\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t2075\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dea97723bebd866814ea"},"refKey":15},
{"_key":"60c5dea97723bebd866814ec","_id":"references/60c5dea97723bebd866814ec","_rev":"_cfFlrhW---","tei":"\n\t\n\t\tMARCIE – Model Checking and Reachability Analysis Done Efficiently\n\t\t\n\t\t\tMonikaHeiner\n\t\t\n\t\t\n\t\t\tChristianRohr\n\t\t\n\t\t\n\t\t\tMartinSchwarick\n\t\t\n\t\t10.1007/978-3-642-38697-8_21\n\t\tark:/67375/HCB-94Z2MSFZ-T\n\t\t17AE7804AB4ABC7C34E05ED60078795197E77C96\n\t\t\n\t\n\t\n\t\tApplication and Theory of Petri Nets and Concurrency\n\t\t\t\t\n\t\t\tJ.-MColom\n\t\t\tJDesel\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t7927\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dea97723bebd866814ea"},"refKey":9},
{"_key":"60c5dea97723bebd866814ed","_id":"references/60c5dea97723bebd866814ed","_rev":"_cfFlrhi---","tei":"\n\t\n\t\tAn efficient method for unfolding colored Petri nets\n\t\t\n\t\t\tFeiLiu\n\t\t\n\t\t\n\t\t\tMonikaHeiner\n\t\t\n\t\t\n\t\t\tMingYang\n\t\t\n\t\t10.1109/wsc.2012.6465203\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings Title: Proceedings of the 2012 Winter Simulation Conference (WSC)\n\t\t\t\tTitle: of the 2012 Winter Simulation Conference (WSC)\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5dea97723bebd866814ea"},"refKey":14},
{"_key":"60c5deaa7723bebd8668151c","_id":"references/60c5deaa7723bebd8668151c","_rev":"_cfFlrhu---","tei":"\n\t\n\t\tThe neighbor-joining method: a new method for reconstructing phylogenetic trees\n\t\t\n\t\t\tNMSaituo\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5deaa7723bebd8668151b"},"refKey":29},
{"_key":"60c5deaa7723bebd8668151d","_id":"references/60c5deaa7723bebd8668151d","_rev":"_cfFlrh6---","tei":"\n\t\n\t\tRelative efficiencies of the maximum parsimony and distancematrix methods in obtaining the correct phylogenetic tree\n\t\t\n\t\t\tJSourdis\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5deaa7723bebd8668151b"},"refKey":34},
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{"_key":"60c5dec27723bebd8668152c","_id":"references/60c5dec27723bebd8668152c","_rev":"_cfFlriS---","tei":"\n\t\n\t\tG*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t10.3758/bf03193146\n\t\t17695343\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5dec27723bebd8668152b"},"refKey":11},
{"_key":"60c5dec47723bebd86681534","_id":"references/60c5dec47723bebd86681534","_rev":"_cfFlrie---","tei":"\n\t\n\t\tHuman Splicing Finder: an online bioinformatics tool to predict splicing signals\n\t\t\n\t\t\tFrançois-OlivierDesmet\n\t\t\n\t\t\n\t\t\tDalilHamroun\n\t\t\n\t\t\n\t\t\tMarineLalande\n\t\t\n\t\t\n\t\t\tGwenaëlleCollod-Béroud\n\t\t\n\t\t\n\t\t\tMireilleClaustres\n\t\t\n\t\t\n\t\t\tChristopheBéroud\n\t\t\n\t\t10.1093/nar/gkp215\n\t\t19339519\n\t\tPMC2685110\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5dec47723bebd86681533"},"refKey":26},
{"_key":"60c5dec47723bebd86681535","_id":"references/60c5dec47723bebd86681535","_rev":"_cfFlriq---","tei":"\n\t\n\t\tImproved Splice Site Detection in Genie\n\t\t\n\t\t\tMartinGReese\n\t\t\n\t\t\n\t\t\tFrankHEeckman\n\t\t\n\t\t\n\t\t\tDavidKulp\n\t\t\n\t\t\n\t\t\tDavidHaussler\n\t\t\n\t\t10.1089/cmb.1997.4.311\n\t\t9278062\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c5dec47723bebd86681533"},"refKey":27},
{"_key":"60c5ded07723bebd86681542","_id":"references/60c5ded07723bebd86681542","_rev":"_cfFlri2---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5ded07723bebd86681541"},"refKey":19},
{"_key":"60c5ded07723bebd86681543","_id":"references/60c5ded07723bebd86681543","_rev":"_cfFlrjC---","tei":"\n\t\n\t\tCTFFIND4: Fast and accurate defocus estimation from electron micrographs\n\t\t\n\t\t\tAlexisRohou\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\n\t\t10.1101/020917\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t192\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5ded07723bebd86681541"},"refKey":20},
{"_key":"60c5ded07723bebd86681544","_id":"references/60c5ded07723bebd86681544","_rev":"_cfFlrjO---","tei":"\n\t\n\t\tRELION-3: new tools for automated high-resolution cryo-EM structure determination\n\t\t\n\t\t\tJasenkoZivanov\n\t\t\t0000-0001-8407-0759\n\t\t\n\t\t\n\t\t\tTakanoriNakane\n\t\t\t0000-0003-2697-2767\n\t\t\n\t\t\n\t\t\tBjörnForsberg\n\t\t\t0000-0002-6247-4063\n\t\t\n\t\t\n\t\t\tDariKimanius\n\t\t\t0000-0002-2662-6373\n\t\t\n\t\t\n\t\t\tWimJ HHagen\n\t\t\t0000-0001-6229-2692\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\t0000-0002-2734-2794\n\t\t\n\t\t\n\t\t\tSjorsH WScheres\n\t\t\t0000-0002-0462-6540\n\t\t\n\t\t10.1101/421123\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tdetermination in RELION-3. Elife 7\n\n","document":{"$oid":"60c5ded07723bebd86681541"},"refKey":21},
{"_key":"60c5ded17723bebd8668154d","_id":"references/60c5ded17723bebd8668154d","_rev":"_cfFlrja---","tei":"\n\t\n\t\tPyMOL: An open-source molecular graphics tool\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\n\t\n\t\tCCP4 Newsletter on Protein Crystallography\n\t\t\t\t\n\t\t\t\n\t\t\t40\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ded07723bebd8668154c"},"refKey":111},
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{"_key":"60c5ded57723bebd86681561","_id":"references/60c5ded57723bebd86681561","_rev":"_cfFlrkS---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1.2r3pre, Schrödinger, LLC\n\t\t\n\t\n\n","document":{"$oid":"60c5ded57723bebd8668155c"},"refKey":16},
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{"_key":"60c5e0d67723bebd86681708","_id":"references/60c5e0d67723bebd86681708","_rev":"_cfFlroq---","tei":"\n\t\n\t\tEnrichr: a comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMaximVKuleshov\n\t\t\n\t\t\n\t\t\tMatthewRJones\n\t\t\n\t\t\n\t\t\tAndrewDRouillard\n\t\t\n\t\t\n\t\t\tNicolasFFernandez\n\t\t\n\t\t\n\t\t\tQiaonanDuan\n\t\t\n\t\t\n\t\t\tZichenWang\n\t\t\n\t\t\n\t\t\tSimonKoplev\n\t\t\n\t\t\n\t\t\tSherryLJenkins\n\t\t\n\t\t\n\t\t\tKathleenMJagodnik\n\t\t\n\t\t\n\t\t\tAlexanderLachmann\n\t\t\n\t\t\n\t\t\tMichaelGMcdermott\n\t\t\n\t\t\n\t\t\tCarolineDMonteiro\n\t\t\n\t\t\n\t\t\tGregoryWGundersen\n\t\t\n\t\t\n\t\t\tAviMa'ayan\n\t\t\n\t\t10.1093/nar/gkw377\n\t\t27141961\n\t\tPMC4987924\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5e0d67723bebd86681707"},"refKey":34},
{"_key":"60c5e0d67723bebd86681709","_id":"references/60c5e0d67723bebd86681709","_rev":"_cfFlro2---","tei":"\n\t\n\t\tPharmMapper server: a web server for potential drug target identification using pharmacophore mapping approach\n\t\t\n\t\t\tXiaofengLiu\n\t\t\n\t\t\n\t\t\tSishengOuyang\n\t\t\n\t\t\n\t\t\tBiaoYu\n\t\t\n\t\t\n\t\t\tYaboLiu\n\t\t\n\t\t\n\t\t\tKaiHuang\n\t\t\n\t\t\n\t\t\tJiayuGong\n\t\t\n\t\t\n\t\t\tSiyuanZheng\n\t\t\n\t\t\n\t\t\tZhihuaLi\n\t\t\n\t\t\n\t\t\tHonglinLi\n\t\t\n\t\t\n\t\t\tHualiangJiang\n\t\t\n\t\t10.1093/nar/gkq300\n\t\t20430828\n\t\tPMC2896160\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5e0d67723bebd86681707"},"refKey":37},
{"_key":"60c5e0d67723bebd8668170a","_id":"references/60c5e0d67723bebd8668170a","_rev":"_cfFlrpC---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5e0d67723bebd86681707"},"refKey":29},
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{"_key":"60c5e1367723bebd86681753","_id":"references/60c5e1367723bebd86681753","_rev":"_cfFlrqW---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tAlexanderDobin\n\t\t\n\t\t\n\t\t\tCarrieADavis\n\t\t\n\t\t\n\t\t\tFelixSchlesinger\n\t\t\n\t\t\n\t\t\tJorgDrenkow\n\t\t\n\t\t\n\t\t\tChrisZaleski\n\t\t\n\t\t\n\t\t\tSonaliJha\n\t\t\n\t\t\n\t\t\tPhilippeBatut\n\t\t\n\t\t\n\t\t\tMarkChaisson\n\t\t\n\t\t\n\t\t\tThomasRGingeras\n\t\t\n\t\t10.1093/bioinformatics/bts635\n\t\t23104886\n\t\tPMC3530905\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5e1367723bebd86681751"},"refKey":39},
{"_key":"60c5e1367723bebd86681754","_id":"references/60c5e1367723bebd86681754","_rev":"_cfFlrqi---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5e1367723bebd86681751"},"refKey":73},
{"_key":"60c5e1377723bebd86681772","_id":"references/60c5e1377723bebd86681772","_rev":"_cfFlrqu---","tei":"\n\t\n\t\tThe ePNK: a generic PNML tool -users' and developers' guide for version 1.0.0\n\t\t\n\t\t\tEKindler\n\t\t\n\t\tIMM-Technical Report-2012-14\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tDTU Informatics\n\t\t\n\t\n\tTechnical Report\n\n","document":{"$oid":"60c5e1377723bebd86681771"},"refKey":5},
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{"_key":"60c5e1ba7723bebd866817d7","_id":"references/60c5e1ba7723bebd866817d7","_rev":"_cfFlrrq---","tei":"\n\t\n\t\tAutomated docking using a Lamarckian genetic algorithm and an empirical binding free energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tRSHalliday\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWEHart\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t10.1002/(SICI)1096-987X(19981115)19:14<1612::AID-JCC7>3.0.CO;2-M\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\t0.CO;2-B\n\n","document":{"$oid":"60c5e1ba7723bebd866817d6"},"refKey":39},
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{"_key":"60c5e6347723bebd86681b05","_id":"references/60c5e6347723bebd86681b05","_rev":"_cfFlr1K---","tei":"\n\t\n\t\tTransformation and model choice for RNA-seq co-expression analysis\n\t\t\n\t\t\tAndreaRau\n\t\t\t0000-0001-6469-488X\n\t\t\n\t\t\n\t\t\tCathyMaugis-Rabusseau\n\t\t\n\t\t10.1101/065607\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t19\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5e6347723bebd86681b03"},"refKey":21},
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{"_key":"60c5e6387723bebd86681b10","_id":"references/60c5e6387723bebd86681b10","_rev":"_cfFlr1i---","tei":"\n\t\n\t\tEstimating the Number of Infections and the Impact of Non-Pharmaceutical Interventions on COVID-19 in 11 European Countries. Imperial College London, MRC Centre for Global Infectious Disease Analysis\n\t\t\n\t\t\tSFlaxman\n\t\t\n\t\t\n\t\t\tSMishra\n\t\t\n\t\t\n\t\t\tAGandy\n\t\t\n\t\t\n\t\t\tHJ TUnwin\n\t\t\n\t\t\n\t\t\tHCoupland\n\t\t\n\t\t\n\t\t\tTMellan\n\t\t\n\t\t\n\t\t\tHZhu\n\t\t\n\t\t\n\t\t\tTBerah\n\t\t\n\t\t\n\t\t\tJEaton\n\t\t\n\t\t\n\t\t\tPPerez Guzman\n\t\t\n\t\t\n\t\n\t\n\t\tReport\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5e6387723bebd86681b0f"},"refKey":3},
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{"_key":"60c5e6627723bebd86681b33","_id":"references/60c5e6627723bebd86681b33","_rev":"_cfFlr16---","tei":"\n\t\n\t\tDali server update\n\t\t\n\t\t\tLHolm\n\t\t\n\t\t\n\t\t\tLMLaakso\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5e6627723bebd86681b32"},"refKey":33},
{"_key":"60c5e6627723bebd86681b34","_id":"references/60c5e6627723bebd86681b34","_rev":"_cfFlr2G---","tei":"\n\t\n\t\tDali server: Conservation mapping in 3D\n\t\t\n\t\t\tLHolm\n\t\t\n\t\t\n\t\t\tPRosenstrom\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c5e6627723bebd86681b32"},"refKey":105},
{"_key":"60c5e6627723bebd86681b35","_id":"references/60c5e6627723bebd86681b35","_rev":"_cfFlr2S---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5e6627723bebd86681b32"},"refKey":109},
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{"_key":"60c5e6a47723bebd86681b69","_id":"references/60c5e6a47723bebd86681b69","_rev":"_cfFlr3C---","tei":"\n\t\n\t\tBatch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors\n\t\t\n\t\t\tLalehHaghverdi\n\t\t\n\t\t\n\t\t\tAaronT LLun\n\t\t\t0000-0002-3564-4813\n\t\t\n\t\t\n\t\t\tMichaelDMorgan\n\t\t\t0000-0003-0757-0711\n\t\t\n\t\t\n\t\t\tJohnCMarioni\n\t\t\n\t\t10.1038/nbt.4091\n\t\t29608177\n\t\tPMC6152897\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t36\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5e6a47723bebd86681b68"},"refKey":5},
{"_key":"60c5e6a47723bebd86681b6a","_id":"references/60c5e6a47723bebd86681b6a","_rev":"_cfFlr3O---","tei":"\n\t\n\t\tScanpy for analysis of large-scale single-cell gene expression data\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tPhilippAngerer\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/174029\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5e6a47723bebd86681b68"},"refKey":6},
{"_key":"60c5e6a97723bebd86681b87","_id":"references/60c5e6a97723bebd86681b87","_rev":"_cfFlr3a---","tei":"\n\t\n\t\tALINE: a WYSIWYG protein-sequence alignment editor for publication-quality alignments\n\t\t\n\t\t\tCharlesSimonBond\n\t\t\n\t\t\n\t\t\tAlexanderWolfgangSchüttelkopf\n\t\t\n\t\t10.1107/s0907444909007835\n\t\t19390156\n\t\tark:/67375/WNG-9GRJD35Q-K\n\t\t629B13A6C9BA5822953892AE766380E59678206F\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t65\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c5e6a97723bebd86681b86"},"refKey":46},
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{"_key":"60c5e6a97723bebd86681b8c","_id":"references/60c5e6a97723bebd86681b8c","_rev":"_cfFlr4S---","tei":"\n\t\n\t\tA short history of SHELX\n\t\t\n\t\t\tGMSheldrick\n\t\t\n\t\n\t\n\t\tActa Crystallogr. A\n\t\t\n\t\t\t64\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5e6a97723bebd86681b86"},"refKey":33},
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{"_key":"60c5e7137723bebd86681c2f","_id":"references/60c5e7137723bebd86681c2f","_rev":"_cfFlr6G---","tei":"\n\t\n\t\tFeasibility study of a 10-week community-based program using the WalkWithMe application on physical activity, walking, fatigue and cognition in persons with Multiple Sclerosis\n\t\t\n\t\t\tFVan Geel\n\t\t\n\t\t\n\t\t\tEGeurts\n\t\t\n\t\t\n\t\t\tZAbasıyanık\n\t\t\n\t\t\n\t\t\tKConinx\n\t\t\n\t\t\n\t\t\tPFeys\n\t\t\n\t\t10.1016/j.msard.2020.102067\n\t\n\t\n\t\tMult. Scler. Relat. Disord\n\t\t\n\t\t\t2020\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c5e7137723bebd86681c2e"},"refKey":45},
{"_key":"60c5e7137723bebd86681c30","_id":"references/60c5e7137723bebd86681c30","_rev":"_cfFlr6S---","tei":"\n\t\n\t\tA Telerehabilitation Program Improves Postural Control in Multiple Sclerosis Patients: A Spanish Preliminary Study\n\t\t\n\t\t\tRosaOrtiz-Gutiérrez\n\t\t\n\t\t\n\t\t\tRobertoCano-De-La-Cuerda\n\t\t\n\t\t\n\t\t\tFernandoGalán-Del-Río\n\t\t\n\t\t\n\t\t\tIsabelAlguacil-Diego\n\t\t\n\t\t\n\t\t\tDomingoPalacios-Ceña\n\t\t\n\t\t\n\t\t\tJuanMiangolarra-Page\n\t\t\n\t\t10.3390/ijerph10115697\n\t\t24185843\n\t\tPMC3863866\n\t\t\n\t\n\t\n\t\tInternational Journal of Environmental Research and Public Health\n\t\tIJERPH\n\t\t1660-4601\n\t\t\n\t\t\t10\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c5e7137723bebd86681c2e"},"refKey":66},
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{"_key":"60c5e7937723bebd86681c7a","_id":"references/60c5e7937723bebd86681c7a","_rev":"_cfFlr7W---","tei":"\n\t\n\t\tIndustrial-strength natural language processing in Python: spaCy. Version 2.3.0 [software\n\t\t\n\t\t\tExplosionaiGmbh\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5e7937723bebd86681c79"},"refKey":18},
{"_key":"60c5e7a07723bebd86681c88","_id":"references/60c5e7a07723bebd86681c88","_rev":"_cfFlr7e---","tei":"\n\t\n\t\tUnlocking the Mysteries of Virus-Host Interactions\n\t\t\n\t\t\tMarcusJKorth\n\t\t\n\t\t\n\t\t\tMichaelGKatze\n\t\t\n\t\t10.1111/j.1749-6632.2002.tb05949.x\n\t\t12538162\n\t\tark:/67375/WNG-ZQ9B3QZT-8\n\t\t9DCCA4C619EF6D40645DDED6FB2840E82B930EDB\n\t\n\t\n\t\tAnnals of the New York Academy of Sciences\n\t\t0077-8923\n\t\t1749-6632\n\t\t\n\t\t\t975\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5e7a07723bebd86681c87"},"refKey":6},
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{"_key":"60c5e80f7723bebd86681cc0","_id":"references/60c5e80f7723bebd86681cc0","_rev":"_cfFlr72---","tei":"\n\t\n\t\tAvogadro: an advanced semantic chemical editor, visualization, and analysis platform\n\t\t\n\t\t\tDHMarcus\n\t\t\n\t\t\n\t\t\tECDonald\n\t\t\n\t\t\n\t\t\tCLDavid\n\t\t\n\t\t\n\t\t\tEZTim\n\t\t\n\t\t\n\t\t\tGrhVandermeersch\n\t\t\n\t\n\t\n\t\tJ Cheminform\n\t\t\n\t\t\t4\n\t\t\t17\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5e80f7723bebd86681cbe"},"refKey":31},
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{"_key":"60c5e80f7723bebd86681cc4","_id":"references/60c5e80f7723bebd86681cc4","_rev":"_cfFlr8i---","tei":"\n\t\n\t\t“Scaffold-Hopping” by Topological Pharmacophore Search: A Contribution to Virtual Screening\n\t\t\n\t\t\tGisbertSchneider\n\t\t\n\t\t\n\t\t\tWernerNeidhart\n\t\t\n\t\t\n\t\t\tThomasGiller\n\t\t\n\t\t\n\t\t\tGerardSchmid\n\t\t\n\t\t10.1002/(sici)1521-3773(19991004)38:19<2894::aid-anie2894>3.0.co;2-f\n\t\t10540384\n\t\tark:/67375/WNG-RZ2C4V8R-C\n\t\t90C36934E9093B29A639E4E079543403C65865D8\n\t\n\t\n\t\tAngewandte Chemie International Edition\n\t\tAngew. Chem. Int. Ed.\n\t\t1433-7851\n\t\t1521-3773\n\t\t\n\t\t\t38\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5e80f7723bebd86681cbe"},"refKey":62},
{"_key":"60c5e80f7723bebd86681cc5","_id":"references/60c5e80f7723bebd86681cc5","_rev":"_cfFlr8u---","tei":"\n\t\n\t\tPerkinElmer Informatics\n\t\t\n\t\t\tChemdraw\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5e80f7723bebd86681cbe"},"refKey":29},
{"_key":"60c5e80f7723bebd86681cc6","_id":"references/60c5e80f7723bebd86681cc6","_rev":"_cfFlr86---","tei":"\n\t\n\t\tMercury 40: from visualization to analysis, design and prediction\n\t\t\n\t\t\tCFMacrae\n\t\t\n\t\t\n\t\t\tISovago\n\t\t\n\t\t\n\t\t\tSJCottrell\n\t\t\n\t\t\n\t\t\tPtaGalek\n\t\t\n\t\t\n\t\t\tPMccabe\n\t\t\n\t\t\n\t\t\tEPidcock\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPt 1\n\n","document":{"$oid":"60c5e80f7723bebd86681cbe"},"refKey":30},
{"_key":"60c5e80f7723bebd86681cc7","_id":"references/60c5e80f7723bebd86681cc7","_rev":"_cfFlr9G---","tei":"\n\t\n\t\tWURCS: The Web3 Unique Representation of Carbohydrate Structures\n\t\t\n\t\t\tKenichiTanaka\n\t\t\n\t\t\n\t\t\tKiyokoFAoki-Kinoshita\n\t\t\n\t\t\n\t\t\tMasaakiKotera\n\t\t\n\t\t\n\t\t\tHiromichiSawaki\n\t\t\n\t\t\n\t\t\tShinichiroTsuchiya\n\t\t\n\t\t\n\t\t\tNoriakiFujita\n\t\t\n\t\t\n\t\t\tToshihideShikanai\n\t\t\n\t\t\n\t\t\tMasakiKato\n\t\t\n\t\t\n\t\t\tShinKawano\n\t\t\n\t\t\n\t\t\tIssakuYamada\n\t\t\n\t\t\n\t\t\tHisashiNarimatsu\n\t\t\n\t\t10.1021/ci400571e\n\t\t24897372\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t54\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c5e80f7723bebd86681cbe"},"refKey":14},
{"_key":"60c5e80f7723bebd86681cc8","_id":"references/60c5e80f7723bebd86681cc8","_rev":"_cfFlr9O---","tei":"\n\t\n\t\t\n\t\tOASA\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5e80f7723bebd86681cbe"},"refKey":107},
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{"_key":"60c5e8717723bebd86681d23","_id":"references/60c5e8717723bebd86681d23","_rev":"_cfFlr9y---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5e8717723bebd86681d21"},"refKey":0},
{"_key":"60c5e8717723bebd86681d24","_id":"references/60c5e8717723bebd86681d24","_rev":"_cfFlr96---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5e8717723bebd86681d21"},"refKey":45},
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{"_key":"60c5eb037723bebd86681ff1","_id":"references/60c5eb037723bebd86681ff1","_rev":"_cfFlsKm---","tei":"\n\t\n\t\tProtein family review: the 70 family of sigma factors\n\t\t\n\t\t\tMPaget\n\t\t\n\t\t\n\t\t\tJHelmann\n\t\t\n\t\t10.1186/gb-2003-4-1-203\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t4\n\t\t\t203\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5eb037723bebd86681fef"},"refKey":1},
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{"_key":"60c5ec167723bebd86682121","_id":"references/60c5ec167723bebd86682121","_rev":"_cfFlsNS---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5ec167723bebd8668211d"},"refKey":58},
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{"_key":"60c5eca37723bebd86682184","_id":"references/60c5eca37723bebd86682184","_rev":"_cfFlsO2---","tei":"\n\t\n\t\tMultiple Comparisons Using R\n\t\t\n\t\t\tFBretz\n\t\t\n\t\t\n\t\t\tTHothorn\n\t\t\n\t\t\n\t\t\tPWestfall\n\t\t\n\t\t\n\t\t\t\n\t\t\tCRC Press\n\t\t\tBoca Raton, FL\n\t\t\n\t\n\n","document":{"$oid":"60c5eca37723bebd86682183"},"refKey":6},
{"_key":"60c5eca37723bebd86682185","_id":"references/60c5eca37723bebd86682185","_rev":"_cfFlsPC---","tei":"\n\t\n\t\tlavaan: AnRPackage for Structural Equation Modeling\n\t\t\n\t\t\tYvesRosseel\n\t\t\n\t\t10.18637/jss.v048.i02\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t48\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c5eca37723bebd86682183"},"refKey":45},
{"_key":"60c5eca97723bebd86682192","_id":"references/60c5eca97723bebd86682192","_rev":"_cfFlsPO---","tei":"\n\t\n\t\tStochastic Simulation of Graph Transformation Systems\n\t\t\n\t\t\tPaoloTorrini\n\t\t\n\t\t\n\t\t\tReikoHeckel\n\t\t\n\t\t\n\t\t\tIstvánRáth\n\t\t\n\t\t10.1007/978-3-642-12029-9_11\n\t\tark:/67375/HCB-946WBVWT-9\n\t\t549D7897BC4B0823C041964A614307B9F720005F\n\t\t\n\t\t\n\t\n\t\n\t\tFundamental Approaches to Software Engineering\n\t\t\t\t\n\t\t\tDSRosenblum\n\t\t\tGTaentzer\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t6013\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5eca97723bebd86682191"},"refKey":13},
{"_key":"60c5eca97723bebd86682193","_id":"references/60c5eca97723bebd86682193","_rev":"_cfFlsPa---","tei":"\n\t\n\t\tSimSG: Rule-based Simulation using Stochastic Graph Transformation.\n\t\t\n\t\t\tSebastianEhmes\n\t\t\n\t\t\n\t\t\tLarsFritsche\n\t\t\n\t\t\n\t\t\tAndySchürr\n\t\t\n\t\t10.5381/jot.2019.18.3.a1\n\t\t\n\t\n\t\n\t\tThe Journal of Object Technology\n\t\tJOT\n\t\t1660-1769\n\t\t\n\t\t\t18\n\t\t\t3\n\t\t\t1:1\n\t\t\t\n\t\t\tAITO - Association Internationale pour les Technologies Objets\n\t\t\n\t\n\n","document":{"$oid":"60c5eca97723bebd86682191"},"refKey":3},
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{"_key":"60c5ecdc7723bebd866821c5","_id":"references/60c5ecdc7723bebd866821c5","_rev":"_cfFlsQ2---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliot\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tLMcleod\n\t\t\n\t\t\n\t\t\tLDelacqua\n\t\t\n\t\t\n\t\t\tGDelacqua\n\t\t\n\t\t\n\t\t\tFKirby\n\t\t\n\t\t\n\t\t\tJDuda\n\t\t\n\t\t\n\t\t\tSN\n\t\t\n\t\t\n\t\t\tRedcapConsortium\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\t\n\t\n\t\n\t\tJ. Biomed Inform\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ecdc7723bebd866821c4"},"refKey":6},
{"_key":"60c5ecdc7723bebd866821c6","_id":"references/60c5ecdc7723bebd866821c6","_rev":"_cfFlsRC---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ecdc7723bebd866821c4"},"refKey":7},
{"_key":"60c5ecee7723bebd866821d2","_id":"references/60c5ecee7723bebd866821d2","_rev":"_cfFlsRO---","tei":"\n\t\n\t\tUsing heteroskedasticity-consistent standard error estimators in OLS regression: An introduction and software implementation\n\t\t\n\t\t\tAndrewFHayes\n\t\t\n\t\t\n\t\t\tLiCai\n\t\t\n\t\t10.3758/bf03192961\n\t\t18183883\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t39\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c5ecee7723bebd866821d1"},"refKey":13},
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{"_key":"60c5ed087723bebd866821e7","_id":"references/60c5ed087723bebd866821e7","_rev":"_cfFlsRi---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis: a regression-based approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford Press\n\t\t\t14\n\t\t\n\t\n\n","document":{"$oid":"60c5ed087723bebd866821e6"},"refKey":23},
{"_key":"60c5ed127723bebd866821ec","_id":"references/60c5ed127723bebd866821ec","_rev":"_cfFlsRu---","tei":"\n\t\n\t\tDesirable BUGS in models of infectious diseases\n\t\t\n\t\t\tMAuzenbergs\n\t\t\n\t\t\n\t\t\tCCorreia-Gomes\n\t\t\n\t\t\n\t\t\tTEconomou\n\t\t\n\t\t\n\t\t\tRLowe\n\t\t\n\t\t\n\t\t\tKMO'reilly\n\t\t\n\t\t10.1016/j.epidem.2019.100361\n\t\t\n\t\n\t\n\t\tEpidemics\n\t\t\n\t\t\t29\n\t\t\t100361\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ed127723bebd866821eb"},"refKey":3},
{"_key":"60c5ed127723bebd866821ed","_id":"references/60c5ed127723bebd866821ed","_rev":"_cfFlsR6---","tei":"\n\t\n\t\tContemporary statistical inference for infectious disease models using Stan\n\t\t\n\t\t\tAChatzilena\n\t\t\n\t\t\n\t\t\tEVan Leeuwen\n\t\t\n\t\t\n\t\t\tORatmann\n\t\t\n\t\t\n\t\t\tMBaguelin\n\t\t\n\t\t\n\t\t\tNDemiris\n\t\t\n\t\t10.1016/j.epidem.2019.100367\n\t\t\n\t\n\t\n\t\tEpidemics\n\t\t\n\t\t\t29\n\t\t\t100367\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ed127723bebd866821eb"},"refKey":6},
{"_key":"60c5ed127723bebd866821ee","_id":"references/60c5ed127723bebd866821ee","_rev":"_cfFlsSG---","tei":"\n\t\n\t\tChoices and trade-offs in inference with infectious disease models\n\t\t\n\t\t\tSFunk\n\t\t\n\t\t\n\t\t\tAAKing\n\t\t\n\t\t10.1016/j.epidem.2019.100383\n\t\t\n\t\n\t\n\t\tEpidemics\n\t\t\n\t\t\t30\n\t\t\t100383\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ed127723bebd866821eb"},"refKey":14},
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{"_key":"60c5ed137723bebd866821f9","_id":"references/60c5ed137723bebd866821f9","_rev":"_cfFlsSa---","tei":"\n\t\n\t\tChange-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data: Table 1.\n\t\t\n\t\t\tNamitaTGupta\n\t\t\n\t\t\n\t\t\tJasonAVander Heiden\n\t\t\n\t\t\n\t\t\tMohamedUduman\n\t\t\n\t\t\n\t\t\tDanielGadala-Maria\n\t\t\n\t\t\n\t\t\tGurYaari\n\t\t\n\t\t\n\t\t\tStevenHKleinstein\n\t\t\n\t\t10.1093/bioinformatics/btv359\n\t\t26069265\n\t\tPMC4793929\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5ed137723bebd866821f7"},"refKey":45},
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{"_key":"60c5ed307723bebd86682202","_id":"references/60c5ed307723bebd86682202","_rev":"_cfFlsSy---","tei":"\n\t\n\t\tSvdnet for pedestrian retrieval\n\t\t\n\t\t\tYSun\n\t\t\n\t\t\n\t\t\tLZheng\n\t\t\n\t\t\n\t\t\tWDeng\n\t\t\n\t\t\n\t\t\tWang\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tProceedings of the IEEE International Conference on Computer Vision\n\t\t\t\tthe IEEE International Conference on Computer Vision\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ed307723bebd86682201"},"refKey":37},
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{"_key":"60c5edb17723bebd86682234","_id":"references/60c5edb17723bebd86682234","_rev":"_cfFlsTe---","tei":"\n\t\n\t\tGephi: an open source software for exploring and manipulating networks\n\t\t\n\t\t\tMBastian\n\t\t\n\t\t\n\t\t\tSHeymann\n\t\t\n\t\t\n\t\t\tMJacomy\n\t\t\n\t\n\t\n\t\tInternational AAAI Conference on Weblogs and Social Media\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5edb17723bebd86682233"},"refKey":59},
{"_key":"60c5ede87723bebd86682281","_id":"references/60c5ede87723bebd86682281","_rev":"_cfFlsTq---","tei":"\n\t\n\t\tStructure validation by Calpha geometry: phi,psi and Cbeta deviation\n\t\t\n\t\t\tSCLovell\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t50\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5ede87723bebd86682280"},"refKey":19},
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{"_key":"60c5ede87723bebd86682283","_id":"references/60c5ede87723bebd86682283","_rev":"_cfFlsUG---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5ede87723bebd86682280"},"refKey":12},
{"_key":"60c5edfb7723bebd86682290","_id":"references/60c5edfb7723bebd86682290","_rev":"_cfFlsUS---","tei":"\n\t\n\t\t\n\t\n\t\n\t\tDassault Systèmes\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tDassault Systèmes BIOVIADiscovery Studio Modelling Environment\n\t\t\n\t\n\n","document":{"$oid":"60c5edfb7723bebd8668228f"},"refKey":32},
{"_key":"60c5edfb7723bebd86682291","_id":"references/60c5edfb7723bebd86682291","_rev":"_cfFlsUe---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5edfb7723bebd8668228f"},"refKey":31},
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{"_key":"60c5efe37723bebd866823a1","_id":"references/60c5efe37723bebd866823a1","_rev":"_cfFlsXu---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tBBibeault\n\t\t\n\t\t\n\t\t\tYKats\n\t\t\n\t\n\t\n\t\tJquery In Action\n\t\t\n\t\t\t\n\t\t\tDreamtech Press\n\t\t\n\t\n\n","document":{"$oid":"60c5efe37723bebd8668239d"},"refKey":36},
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{"_key":"60c5eff97723bebd866823d5","_id":"references/60c5eff97723bebd866823d5","_rev":"_cfFlsYa---","tei":"\n\t\n\t\tAutomated Classifier of Texts on Scientific Studies (ATCER)\n\t\t\n\t\t\n\t\n\tAvailable at\n\n","document":{"$oid":"60c5eff97723bebd866823d4"},"refKey":28},
{"_key":"60c5eff97723bebd866823d6","_id":"references/60c5eff97723bebd866823d6","_rev":"_cfFlsYm---","tei":"\n\t\n\t\tDiscriminating between empirical studies and nonempirical works using automated text classification\n\t\t\n\t\t\tAlexisLanglois\n\t\t\t0000-0002-9280-2320\n\t\t\n\t\t\n\t\t\tJian-YunNie\n\t\t\n\t\t\n\t\t\tJamesThomas\n\t\t\n\t\t\n\t\t\tQuanNhaHong\n\t\t\n\t\t\n\t\t\tPierrePluye\n\t\t\n\t\t10.1002/jrsm.1317\n\t\t30103261\n\t\t\n\t\n\t\n\t\tResearch Synthesis Methods\n\t\tRes Syn Meth\n\t\t1759-2879\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5eff97723bebd866823d4"},"refKey":29},
{"_key":"60c5f0827723bebd86682403","_id":"references/60c5f0827723bebd86682403","_rev":"_cfFlsYy---","tei":"\n\t\n\t\t\n\t\t\tDMeyer\n\t\t\n\t\t\n\t\t\tEDimitriadou\n\t\t\n\t\t\n\t\t\tKHornik\n\t\t\n\t\t\n\t\t\tAWeingessel\n\t\t\n\t\t\n\t\t\tF;Leisch\n\t\t\n\t\t\n\t\t\tTu Wien\n\t\t\n\t\t\n\t\te1071: Misc functions of the Department of Statistics, Probability Theory Group (formerly: E1071)\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f0827723bebd86682402"},"refKey":51},
{"_key":"60c5f0827723bebd86682404","_id":"references/60c5f0827723bebd86682404","_rev":"_cfFlsZ----","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c5f0827723bebd86682402"},"refKey":3},
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{"_key":"60c5f0827723bebd8668240c","_id":"references/60c5f0827723bebd8668240c","_rev":"_cfFlsaW---","tei":"\n\t\n\t\tbayestestR: Describing effects and their uncertainty, existence and significance within the Bayesian framework\n\t\t\n\t\t\tDMakowski\n\t\t\n\t\t\n\t\t\tMSBen-Shachar\n\t\t\n\t\t\n\t\t\tDLüdecke\n\t\t\n\t\t10.21105/joss.01541\n\t\t\n\t\n\t\n\t\tJournal of Open Source Software\n\t\t\n\t\t\t4\n\t\t\t40\n\t\t\t1541\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f0827723bebd86682402"},"refKey":48},
{"_key":"60c5f0987723bebd86682426","_id":"references/60c5f0987723bebd86682426","_rev":"_cfFlsai---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tGenome Project Data Processing Subgroup\n\t\t\t\t\n\t\t\t\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f0987723bebd86682425"},"refKey":45},
{"_key":"60c5f0987723bebd86682427","_id":"references/60c5f0987723bebd86682427","_rev":"_cfFlsau---","tei":"\n\t\n\t\tEnhancedVolcano: publicationready volcano plots with enhanced colouring and labeling\n\t\t\n\t\t\tKBlighe\n\t\t\n\t\t\n\t\t\tSRana\n\t\t\n\t\t\n\t\t\tLewis\n\t\t\n\t\t\n\t\t\tM\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f0987723bebd86682425"},"refKey":8},
{"_key":"60c5f0987723bebd86682428","_id":"references/60c5f0987723bebd86682428","_rev":"_cfFlsa2---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f0987723bebd86682425"},"refKey":46},
{"_key":"60c5f0987723bebd86682429","_id":"references/60c5f0987723bebd86682429","_rev":"_cfFlsbC---","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-seq data with or without a reference genome\n\t\t\n\t\t\tBLi\n\t\t\n\t\t\n\t\t\tCNDewey\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t12\n\t\t\t323\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f0987723bebd86682425"},"refKey":44},
{"_key":"60c5f0987723bebd8668242a","_id":"references/60c5f0987723bebd8668242a","_rev":"_cfFlsbO---","tei":"\n\t\n\t\tStrelka: accurate somatic small-variant calling from sequenced tumor-normal sample pairs\n\t\t\n\t\t\tCTSaunders\n\t\t\n\t\t\n\t\t\tWSWong\n\t\t\n\t\t\n\t\t\tSSwamy\n\t\t\n\t\t\n\t\t\tJBecq\n\t\t\n\t\t\n\t\t\tLJMurray\n\t\t\n\t\t\n\t\t\tRKCheetham\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f0987723bebd86682425"},"refKey":63},
{"_key":"60c5f0987723bebd8668242b","_id":"references/60c5f0987723bebd8668242b","_rev":"_cfFlsba---","tei":"\n\t\n\t\tVarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing\n\t\t\n\t\t\tDCKoboldt\n\t\t\n\t\t\n\t\t\tQZhang\n\t\t\n\t\t\n\t\t\tDELarson\n\t\t\n\t\t\n\t\t\tDShen\n\t\t\n\t\t\n\t\t\tMDMclellan\n\t\t\n\t\t\n\t\t\tLLin\n\t\t\n\t\t\n\t\t\tCAMiller\n\t\t\n\t\t\n\t\t\tERMardis\n\t\t\n\t\t\n\t\t\tLDing\n\t\t\n\t\t\n\t\t\tRKWilson\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f0987723bebd86682425"},"refKey":38},
{"_key":"60c5f0987723bebd8668242c","_id":"references/60c5f0987723bebd8668242c","_rev":"_cfFlsbm---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f0987723bebd86682425"},"refKey":60},
{"_key":"60c5f1bf7723bebd86682504","_id":"references/60c5f1bf7723bebd86682504","_rev":"_cfFlsbu---","tei":"\n\t\n\t\tSurveillance, epidemiology, and end results program. 04/16/2012. Cause of death recode 1969þ. Bethesda, MD: National Cancer Institute\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tNational Cancer Institute\n\t\t\n\t\n\tAccessed 26 May 2020. Accessed\n\n","document":{"$oid":"60c5f1bf7723bebd86682503"},"refKey":32},
{"_key":"60c5f1f57723bebd8668252e","_id":"references/60c5f1f57723bebd8668252e","_rev":"_cfFlsb6---","tei":"\n\t\n\t\tWAR: Webserver for aligning structural RNAs\n\t\t\n\t\t\tETorarinsson\n\t\t\n\t\t\n\t\t\tSLindgreen\n\t\t\n\t\t10.1093/nar/gkn275\n\t\t18492721\n\t\tPMC2447782\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f1f57723bebd8668252d"},"refKey":12},
{"_key":"60c5f2007723bebd86682540","_id":"references/60c5f2007723bebd86682540","_rev":"_cfFlscG---","tei":"\n\t\n\t\tThe MIGCLIM R package - seamless integration of dispersal constraints into projections of species distribution models\n\t\t\n\t\t\tRobinEngler\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tAntoineGuisan\n\t\t\n\t\t10.1111/j.1600-0587.2012.07608.x\n\t\tark:/67375/WNG-BH5MXDPL-S\n\t\t0168693B80BFC20B21E1C411BFBFFBBE7ABBB563\n\t\n\t\n\t\tEcography\n\t\tEcography\n\t\t0906-7590\n\t\t\n\t\t\t35\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5f2007723bebd8668253f"},"refKey":26},
{"_key":"60c5f26e7723bebd8668254d","_id":"references/60c5f26e7723bebd8668254d","_rev":"_cfFlscS---","tei":"\n\t\n\t\tSelection of conserved blocks from multiple alignments for their use in phylogenetic analysis\n\t\t\n\t\t\tJCastresana\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f26e7723bebd8668254a"},"refKey":10},
{"_key":"60c5f26e7723bebd86682551","_id":"references/60c5f26e7723bebd86682551","_rev":"_cfFlsce---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f26e7723bebd8668254a"},"refKey":29},
{"_key":"60c5f26e7723bebd86682553","_id":"references/60c5f26e7723bebd86682553","_rev":"_cfFlscm---","tei":"\n\t\n\t\tRAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f26e7723bebd8668254a"},"refKey":53},
{"_key":"60c5f2c87723bebd86682588","_id":"references/60c5f2c87723bebd86682588","_rev":"_cfFlscy---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t14597658\n\t\tPMC403769\n\t\n\t\n\t\tGenome research\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f2c87723bebd86682587"},"refKey":25},
{"_key":"60c5f2d17723bebd866825a0","_id":"references/60c5f2d17723bebd866825a0","_rev":"_cfFlsd----","tei":"\n\t\n\t\tScalable molecular dynamics with namd\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tRBraun\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tJGumbart\n\t\t\n\t\t\n\t\t\tETajkhorshid\n\t\t\n\t\t\n\t\t\tEVilla\n\t\t\n\t\t\n\t\t\tCChipot\n\t\t\n\t\t\n\t\t\tRDSkeel\n\t\t\n\t\t\n\t\t\tLKale\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f2d17723bebd8668259f"},"refKey":24},
{"_key":"60c5f2d17723bebd866825a1","_id":"references/60c5f2d17723bebd866825a1","_rev":"_cfFlsdK---","tei":"\n\t\n\t\tThe embl-ebi search and sequence analysis tools apis in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tTGur\n\t\t\n\t\t\n\t\t\tNMadhusoodanan\n\t\t\n\t\t\n\t\t\tPBasutkar\n\t\t\n\t\t\n\t\t\tARTivey\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f2d17723bebd8668259f"},"refKey":31},
{"_key":"60c5f2fe7723bebd866825b0","_id":"references/60c5f2fe7723bebd866825b0","_rev":"_cfFlsdW---","tei":"\n\t\n\t\tThe SWISS-MODEL workspace: a webbased environment for protein structure homology modelling\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f2fe7723bebd866825af"},"refKey":1},
{"_key":"60c5f2fe7723bebd866825b1","_id":"references/60c5f2fe7723bebd866825b1","_rev":"_cfFlsde---","tei":"\n\t\n\t\tAQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJacRullmann\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f2fe7723bebd866825af"},"refKey":42},
{"_key":"60c5f2fe7723bebd866825b2","_id":"references/60c5f2fe7723bebd866825b2","_rev":"_cfFlsdq---","tei":"\n\t\n\t\tPrediction of CTL epitopes using QM, SVM and ANN techniques\n\t\t\n\t\t\tManojBhasin\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1016/j.vaccine.2004.02.005\n\t\t15297074\n\t\n\t\n\t\tVaccine\n\t\tVaccine\n\t\t0264-410X\n\t\t\n\t\t\t22\n\t\t\t23-24\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5f2fe7723bebd866825af"},"refKey":5},
{"_key":"60c5f2fe7723bebd866825b3","_id":"references/60c5f2fe7723bebd866825b3","_rev":"_cfFlsd2---","tei":"\n\t\n\t\tThe DISOPRED server for the prediction of protein disorder\n\t\t\n\t\t\tJJWard\n\t\t\n\t\t\n\t\t\tLJMcguffin\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tBFBuxton\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t10.1093/bioinformatics/bth195\n\t\t15044227\n\t\tark:/67375/HXZ-GVWBHFNL-X\n\t\t32E9ED8D648683DCAF4E3A63F0568DC1696D8FBF\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f2fe7723bebd866825af"},"refKey":77},
{"_key":"60c5f2fe7723bebd866825b4","_id":"references/60c5f2fe7723bebd866825b4","_rev":"_cfFlseC---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f2fe7723bebd866825af"},"refKey":28},
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{"_key":"60c5f31e7723bebd866825e4","_id":"references/60c5f31e7723bebd866825e4","_rev":"_cfFlseW---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMarkJamesAbraham\n\t\t\t0000-0001-6363-2521\n\t\t\n\t\t\n\t\t\tTeemuMurtola\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1016/j.softx.2015.06.001\n\t\t\n\t\n\t\n\t\tSoftwareX\n\t\tSoftwareX\n\t\t2352-7110\n\t\t\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5f31e7723bebd866825e3"},"refKey":26},
{"_key":"60c5f3387723bebd866825ed","_id":"references/60c5f3387723bebd866825ed","_rev":"_cfFlsei---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f3387723bebd866825ec"},"refKey":16},
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{"_key":"60c5f33a7723bebd866825fb","_id":"references/60c5f33a7723bebd866825fb","_rev":"_cfFlsfG---","tei":"\n\t\n\t\tMining and summarizing customer reviews\n\t\t\n\t\t\tMHu\n\t\t\n\t\t\n\t\t\tBLiu\n\t\t\n\t\n\t\n\t\tProceedings of the 2004 ACM SIGKDD International Conference on Knowledge Discovery and Data Mining-KDD'04\n\t\t\t\tthe 2004 ACM SIGKDD International Conference on Knowledge Discovery and Data Mining-KDD'04Seattle, WA, USA\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t168\n\t\t\n\t\n\n","document":{"$oid":"60c5f33a7723bebd866825fa"},"refKey":23},
{"_key":"60c5f36f7723bebd86682618","_id":"references/60c5f36f7723bebd86682618","_rev":"_cfFlsfO---","tei":"\n\t\n\t\tIntroduction to Mediation, Moderation, and Conditional Process Analysis: a Regression-based Approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe Guilford Press\n\t\t\tNew York\n\t\t\n\t\n\tsecond ed\n\n","document":{"$oid":"60c5f36f7723bebd86682617"},"refKey":17},
{"_key":"60c5f3747723bebd8668261c","_id":"references/60c5f3747723bebd8668261c","_rev":"_cfFlsfa---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f3747723bebd8668261b"},"refKey":29},
{"_key":"60c5f3747723bebd8668261d","_id":"references/60c5f3747723bebd8668261d","_rev":"_cfFlsfm---","tei":"\n\t\n\t\tPROMALS: towards accurate multiple sequence alignments of distantly related proteins\n\t\t\n\t\t\tJiminPei\n\t\t\n\t\t\n\t\t\tNickVGrishin\n\t\t\n\t\t10.1093/bioinformatics/btm017\n\t\t17267437\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f3747723bebd8668261b"},"refKey":30},
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{"_key":"60c5f3bb7723bebd86682665","_id":"references/60c5f3bb7723bebd86682665","_rev":"_cfFlsf6---","tei":"\n\t\n\t\tcertified by peer review) is the author/funder. All rights reserved\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tFast gapped-read alignment with Bowtie 2. No reuse allowed without permission\n\n","document":{"$oid":"60c5f3bb7723bebd86682664"},"refKey":30},
{"_key":"60c5f3bb7723bebd86682666","_id":"references/60c5f3bb7723bebd86682666","_rev":"_cfFlsgG---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f3bb7723bebd86682664"},"refKey":29},
{"_key":"60c5f3cc7723bebd86682677","_id":"references/60c5f3cc7723bebd86682677","_rev":"_cfFlsgS---","tei":"\n\t\n\t\tInterProScan 5: genome-scale protein function classification\n\t\t\n\t\t\tPJones\n\t\t\n\t\t\n\t\t\tDBinns\n\t\t\n\t\t\n\t\t\tH-YChang\n\t\t\n\t\t\n\t\t\tMFraser\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tCMcanulla\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tJMaslen\n\t\t\n\t\t\n\t\t\tAMitchell\n\t\t\n\t\t\n\t\t\tGNuka\n\t\t\n\t\t\n\t\t\tSPesseat\n\t\t\n\t\t\n\t\t\tAFQuinn\n\t\t\n\t\t\n\t\t\tASangrador-Vegas\n\t\t\n\t\t\n\t\t\tMScheremetjew\n\t\t\n\t\t\n\t\t\tS-YYong\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tSHunter\n\t\t\n\t\t10.1093/bioinformatics/btu031\n\t\t24451626\n\t\tPMC3998142\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f3cc7723bebd86682676"},"refKey":57},
{"_key":"60c5f3cc7723bebd86682678","_id":"references/60c5f3cc7723bebd86682678","_rev":"_cfFlsge---","tei":"\n\t\n\t\tThe carbohydrate-active enzymes database (CAZy) in 2013\n\t\t\n\t\t\tVincentLombard\n\t\t\n\t\t\n\t\t\tHemalathaGolaconda Ramulu\n\t\t\n\t\t\n\t\t\tElodieDrula\n\t\t\n\t\t\n\t\t\tPedroMCoutinho\n\t\t\n\t\t\n\t\t\tBernardHenrissat\n\t\t\n\t\t10.1093/nar/gkt1178\n\t\t24270786\n\t\tPMC3965031\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl. Acids Res.\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f3cc7723bebd86682676"},"refKey":58},
{"_key":"60c5f3d27723bebd86682687","_id":"references/60c5f3d27723bebd86682687","_rev":"_cfFlsgq---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f3d27723bebd86682686"},"refKey":55},
{"_key":"60c5f3d27723bebd86682688","_id":"references/60c5f3d27723bebd86682688","_rev":"_cfFlsgy---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5f3d27723bebd86682686"},"refKey":56},
{"_key":"60c5f3d27723bebd86682689","_id":"references/60c5f3d27723bebd86682689","_rev":"_cfFlsh----","tei":"\n\t\n\t\tMosdepth: quick coverage calculation for genomes and exomes\n\t\t\n\t\t\tBrentSPedersen\n\t\t\n\t\t\n\t\t\tAaronRQuinlan\n\t\t\n\t\t10.1093/bioinformatics/btx699\n\t\t29096012\n\t\tPMC6030888\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f3d27723bebd86682686"},"refKey":57},
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{"_key":"60c5f4397723bebd866826f4","_id":"references/60c5f4397723bebd866826f4","_rev":"_cfFlshi---","tei":"\n\t\n\t\tSoftware for systematics and evolution software for systematics and evolution posterior summarization in Bayesian phylogenetics using tracer 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f4397723bebd866826f3"},"refKey":30},
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{"_key":"60c5f6267723bebd86682838","_id":"references/60c5f6267723bebd86682838","_rev":"_cfFlsmi---","tei":"\n\t\n\t\tA data-driven CHC solver\n\t\t\n\t\t\tHeZhu\n\t\t\n\t\t\n\t\t\tStephenMagill\n\t\t\n\t\t\n\t\t\tSureshJagannathan\n\t\t\n\t\t10.1145/3192366.3192416\n\t\n\t\n\t\tProceedings of the 39th ACM SIGPLAN Conference on Programming Language Design and Implementation - PLDI 2018\n\t\t\t\tthe 39th ACM SIGPLAN Conference on Programming Language Design and Implementation - PLDI 2018Philadelphia, PA, USA\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f6267723bebd86682837"},"refKey":29},
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{"_key":"60c5f63a7723bebd86682850","_id":"references/60c5f63a7723bebd86682850","_rev":"_cfFlsnq---","tei":"\n\t\n\t\tSimSeq: a nonparametric approach to simulation of RNA-sequence datasets\n\t\t\n\t\t\tSamBenidt\n\t\t\n\t\t\n\t\t\tDanNettleton\n\t\t\n\t\t10.1093/bioinformatics/btv124\n\t\t25725090\n\t\tPMC4481850\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f63a7723bebd8668284a"},"refKey":8},
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{"_key":"60c5f6ef7723bebd86682922","_id":"references/60c5f6ef7723bebd86682922","_rev":"_cfFlsre---","tei":"\n\t\n\t\tThe Human Genome Browser at UCSC\n\t\t\n\t\t\tWJKent\n\t\t\n\t\t\n\t\t\tCWSugnet\n\t\t\n\t\t\n\t\t\tTSFurey\n\t\t\n\t\t\n\t\t\tKMRoskin\n\t\t\n\t\t\n\t\t\tTHPringle\n\t\t\n\t\t\n\t\t\tAMZahler\n\t\t\n\t\t\n\t\t\tADHaussler\n\t\t\n\t\t10.1101/gr.229102\n\t\t12045153\n\t\tPMC186604\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c5f6ef7723bebd8668291d"},"refKey":23},
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{"_key":"60c5f7e07723bebd866829dd","_id":"references/60c5f7e07723bebd866829dd","_rev":"_cfFlsxC---","tei":"\n\t\n\t\tMCPB_Glycam_merge: GitHub\n\t\t\n\t\t\tABernardi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f7e07723bebd866829da"},"refKey":43},
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{"_key":"60c5f8757723bebd86682a43","_id":"references/60c5f8757723bebd86682a43","_rev":"_cfFlsyK---","tei":"\n\t\n\t\tBindsNET: A Machine Learning-Oriented Spiking Neural Networks Library in Python\n\t\t\n\t\t\tHananelHazan\n\t\t\n\t\t\n\t\t\tDanielJSaunders\n\t\t\n\t\t\n\t\t\tHassaanKhan\n\t\t\n\t\t\n\t\t\tDevdharPatel\n\t\t\n\t\t\n\t\t\tDarpanTSanghavi\n\t\t\n\t\t\n\t\t\tHavaTSiegelmann\n\t\t\n\t\t\n\t\t\tRobertKozma\n\t\t\n\t\t10.3389/fninf.2018.00089\n\t\t30631269\n\t\tPMC6315182\n\t\t\n\t\n\t\n\t\tFrontiers in Neuroinformatics\n\t\tFront. Neuroinform.\n\t\t1662-5196\n\t\t\n\t\t\t12\n\t\t\t89\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c5f8757723bebd86682a42"},"refKey":48},
{"_key":"60c5f8987723bebd86682a8b","_id":"references/60c5f8987723bebd86682a8b","_rev":"_cfFlsyS---","tei":"\n\t\n\t\tReal Statistics Using Excel\n\t\t\n\t\t\tCZaiontz\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f8987723bebd86682a8a"},"refKey":27},
{"_key":"60c5f89b7723bebd86682a90","_id":"references/60c5f89b7723bebd86682a90","_rev":"_cfFlsye---","tei":"\n\t\n\t\tXtalView/Xfit—A Versatile Program for Manipulating Atomic Coordinates and Electron Density\n\t\t\n\t\t\tDuncanEMcree\n\t\t\n\t\t10.1006/jsbi.1999.4094\n\t\t10222271\n\t\tS1047-8477(99)94094-7\n\t\tark:/67375/6H6-KWNLQ0D0-6\n\t\tF984D1F7FF1C928BEEF1E5866174F4E7075482A0\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t125\n\t\t\t2-3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c5f89b7723bebd86682a8f"},"refKey":37},
{"_key":"60c5f89b7723bebd86682a91","_id":"references/60c5f89b7723bebd86682a91","_rev":"_cfFlsyq---","tei":"\n\t\n\t\tHKL2MAP: a graphical user interface for macromolecular phasing withSHELXprograms\n\t\t\n\t\t\tThomasPape\n\t\t\n\t\t\n\t\t\tThomasRSchneider\n\t\t\n\t\t10.1107/s0021889804018047\n\t\tark:/67375/WNG-4C93X4RN-2\n\t\t27CF5B6E66F9D7CBEA158E134AE9F02D2A153F06\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t37\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c5f89b7723bebd86682a8f"},"refKey":41},
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{"_key":"60c5f89b7723bebd86682a94","_id":"references/60c5f89b7723bebd86682a94","_rev":"_cfFlszO---","tei":"\n\t\n\t\tProtein structure comparison by alignment of distance matrices\n\t\t\n\t\t\tLHolm\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t233\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f89b7723bebd86682a8f"},"refKey":22},
{"_key":"60c5f89b7723bebd86682a95","_id":"references/60c5f89b7723bebd86682a95","_rev":"_cfFlsza---","tei":"\n\t\n\t\tCrystallography & NMR system: a new software suite for macromolecular structure determination\n\t\t\n\t\t\tATBru ¨nger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tGMClore\n\t\t\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tPNGros\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tJ.-SJiang\n\t\t\n\t\t\n\t\t\tJKuszewski\n\t\t\n\t\t\n\t\t\tMNilges\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f89b7723bebd86682a8f"},"refKey":1},
{"_key":"60c5f89b7723bebd86682a96","_id":"references/60c5f89b7723bebd86682a96","_rev":"_cfFlszm---","tei":"\n\t\n\t\tSecondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions\n\t\t\n\t\t\tEKrissinel\n\t\t\n\t\t\n\t\t\tKHenrick\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t60\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f89b7723bebd86682a8f"},"refKey":29},
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{"_key":"60c5f89b7723bebd86682a99","_id":"references/60c5f89b7723bebd86682a99","_rev":"_cfFls0K---","tei":"\n\t\n\t\tGeneral quadratic functions in real and reciprocal space and their application to likelihood phasing\n\t\t\n\t\t\tKevinCowtan\n\t\t\n\t\t10.1107/s0907444900013263\n\t\t11092927\n\t\tark:/67375/WNG-2K9RDM6F-9\n\t\tB9DC6D7FD0C582571B5EC90E38FCC8A77CE59281\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t56\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c5f89b7723bebd86682a8f"},"refKey":8},
{"_key":"60c5f9237723bebd86682ad6","_id":"references/60c5f9237723bebd86682ad6","_rev":"_cfFls0S---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tATBru ¨nger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tGMClore\n\t\t\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tPGros\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tJSJiang\n\t\t\n\t\t\n\t\t\tJKuszewski\n\t\t\n\t\t\n\t\t\tMNilges\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tLMRice\n\t\t\n\t\t\n\t\t\tTSimonson\n\t\t\n\t\t\n\t\t\tGLWarren\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f9237723bebd86682ad5"},"refKey":29},
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{"_key":"60c5f9327723bebd86682af3","_id":"references/60c5f9327723bebd86682af3","_rev":"_cfFls0q---","tei":"\n\t\n\t\tApplication of network smoothing to glycan LC-MS profiling\n\t\t\n\t\t\tJoshuaKlein\n\t\t\t0000-0003-1279-6838\n\t\t\n\t\t\n\t\t\tLuisCarvalho\n\t\t\n\t\t\n\t\t\tJosephZaia\n\t\t\n\t\t10.1093/bioinformatics/bty397\n\t\t29790907\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5f9327723bebd86682af2"},"refKey":35},
{"_key":"60c5f9327723bebd86682af4","_id":"references/60c5f9327723bebd86682af4","_rev":"_cfFls02---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDKessner\n\t\t\n\t\t\n\t\t\tMChambers\n\t\t\n\t\t\n\t\t\tRBurke\n\t\t\n\t\t\n\t\t\tDAgus\n\t\t\n\t\t\n\t\t\tPMallick\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t24\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f9327723bebd86682af2"},"refKey":85},
{"_key":"60c5f9447723bebd86682b11","_id":"references/60c5f9447723bebd86682b11","_rev":"_cfFls1C---","tei":"\n\t\n\t\tMultivariate Random-effects meta-regression: updates to Mvmeta\n\t\t\n\t\t\tIRWhite\n\t\t\n\t\t10.1177/1536867X1101100206\n\t\n\t\n\t\tStata J\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5f9447723bebd86682b10"},"refKey":25},
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{"_key":"60c5fbcc7723bebd86682be8","_id":"references/60c5fbcc7723bebd86682be8","_rev":"_cfFls1a---","tei":"\n\t\n\t\tImproving the usefulness of a tool for appraising the quality of qualitative, quantitative and mixed methods studies, the Mixed Methods Appraisal Tool (MMAT)\n\t\t\n\t\t\tQuanNhaHong\n\t\t\t0000-0002-2576-5750\n\t\t\n\t\t\n\t\t\tAraceliGonzalez-Reyes\n\t\t\n\t\t\n\t\t\tPierrePluye\n\t\t\n\t\t10.1111/jep.12884\n\t\t29464873\n\t\t\n\t\n\t\n\t\tJournal of Evaluation in Clinical Practice\n\t\tJ Eval Clin Pract\n\t\t1356-1294\n\t\t\n\t\t\t24\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tMedline: 29464873\n\n","document":{"$oid":"60c5fbcc7723bebd86682be7"},"refKey":33},
{"_key":"60c5fbcc7723bebd86682be9","_id":"references/60c5fbcc7723bebd86682be9","_rev":"_cfFls1m---","tei":"\n\t\n\t\tImproving the content validity of the mixed methods appraisal tool: a modified e-Delphi study\n\t\t\n\t\t\tQuanNhaHong\n\t\t\t0000-0002-2576-5750\n\t\t\n\t\t\n\t\t\tPierrePluye\n\t\t\n\t\t\n\t\t\tSergiFàbregues\n\t\t\n\t\t\n\t\t\tGillianBartlett\n\t\t\t0000-0001-6297-9240\n\t\t\n\t\t\n\t\t\tFelicityBoardman\n\t\t\t0000-0002-3268-6276\n\t\t\n\t\t\n\t\t\tMargaretCargo\n\t\t\n\t\t\n\t\t\tPierreDagenais\n\t\t\n\t\t\n\t\t\tMarie-PierreGagnon\n\t\t\t0000-0002-0782-5457\n\t\t\n\t\t\n\t\t\tFrancesGriffiths\n\t\t\t0000-0002-4173-1438\n\t\t\n\t\t\n\t\t\tBelindaNicolau\n\t\t\n\t\t\n\t\t\tAliciaO’cathain\n\t\t\n\t\t\n\t\t\tMarie-ClaudeRousseau\n\t\t\n\t\t\n\t\t\tIsabelleVedel\n\t\t\n\t\t10.1016/j.jclinepi.2019.03.008\n\t\t\n\t\n\t\n\t\tJournal of Clinical Epidemiology\n\t\tJournal of Clinical Epidemiology\n\t\t0895-4356\n\t\t\n\t\t\t111\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\te1 [FREE Full text. Medline: 30905698\n\n","document":{"$oid":"60c5fbcc7723bebd86682be7"},"refKey":34},
{"_key":"60c5fbcc7723bebd86682bea","_id":"references/60c5fbcc7723bebd86682bea","_rev":"_cfFls1y---","tei":"\n\t\n\t\tTesting the reliability and efficiency of the pilot Mixed Methods Appraisal Tool (MMAT) for systematic mixed studies review\n\t\t\n\t\t\tRominaPace\n\t\t\n\t\t\n\t\t\tPierrePluye\n\t\t\n\t\t\n\t\t\tGillianBartlett\n\t\t\n\t\t\n\t\t\tAnnCMacaulay\n\t\t\n\t\t\n\t\t\tJonSalsberg\n\t\t\n\t\t\n\t\t\tJustinJagosh\n\t\t\n\t\t\n\t\t\tRobbynSeller\n\t\t\n\t\t10.1016/j.ijnurstu.2011.07.002\n\t\t21835406\n\t\n\t\n\t\tInternational Journal of Nursing Studies\n\t\tInternational Journal of Nursing Studies\n\t\t0020-7489\n\t\t\n\t\t\t49\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tMedline: 21835406\n\n","document":{"$oid":"60c5fbcc7723bebd86682be7"},"refKey":35},
{"_key":"60c5fbd27723bebd86682bf3","_id":"references/60c5fbd27723bebd86682bf3","_rev":"_cfFls16---","tei":"\n\t\n\t\tUCSF Chimera -a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fbd27723bebd86682bf2"},"refKey":70},
{"_key":"60c5fbd27723bebd86682bf4","_id":"references/60c5fbd27723bebd86682bf4","_rev":"_cfFls2G---","tei":"\n\t\n\t\tThree-dimensional hydrogen-bond geometry and probability information from a crystal survey\n\t\t\n\t\t\tJejE JMills\n\t\t\n\t\t\n\t\t\tPMDean\n\t\t\n\t\t10.1007/bf00134183\n\t\t9007693\n\t\tark:/67375/1BB-Q57D5F2L-D\n\t\tAD07B97F5B580DEB5289C15DBE99A187A8B230FD\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Computer-Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5fbd27723bebd86682bf2"},"refKey":72},
{"_key":"60c5fbd27723bebd86682bf5","_id":"references/60c5fbd27723bebd86682bf5","_rev":"_cfFls2S---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fbd27723bebd86682bf2"},"refKey":65},
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{"_key":"60c5fbd27723bebd86682bf7","_id":"references/60c5fbd27723bebd86682bf7","_rev":"_cfFls2q---","tei":"\n\t\n\t\tPRO-CHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fbd27723bebd86682bf2"},"refKey":68},
{"_key":"60c5fbd27723bebd86682bf8","_id":"references/60c5fbd27723bebd86682bf8","_rev":"_cfFls2y---","tei":"\n\t\n\t\tTools for integrated sequence-structure analysis with UCSF Chimera\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tBMC Bioinforma\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fbd27723bebd86682bf2"},"refKey":69},
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{"_key":"60c5fbf87723bebd86682c20","_id":"references/60c5fbf87723bebd86682c20","_rev":"_cfFls3e---","tei":"\n\t\n\t\tStatistical Inference for Partially Observed Markov Processes via theRPackagepomp\n\t\t\n\t\t\tAaronAKing\n\t\t\n\t\t\n\t\t\tDaoNguyen\n\t\t\n\t\t\n\t\t\tEdwardLIonides\n\t\t\n\t\t10.18637/jss.v069.i12\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t69\n\t\t\t12\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\tR package version 1.4.1.1. See\n\n","document":{"$oid":"60c5fbf87723bebd86682c1e"},"refKey":31},
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{"_key":"60c5fc6c7723bebd86682c8a","_id":"references/60c5fc6c7723bebd86682c8a","_rev":"_cfFls4i---","tei":"\n\t\n\t\tlimma powers differential expression analyses for RNA-sequencing and microarray studies\n\t\t\n\t\t\tMERitchie\n\t\t\n\t\t\n\t\t\tBPhipson\n\t\t\n\t\t\n\t\t\tDWu\n\t\t\n\t\t\n\t\t\tYHu\n\t\t\n\t\t\n\t\t\tCWLaw\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\n\n","document":{"$oid":"60c5fc6c7723bebd86682c88"},"refKey":94},
{"_key":"60c5fc6c7723bebd86682c8b","_id":"references/60c5fc6c7723bebd86682c8b","_rev":"_cfFls4u---","tei":"\n\t\n\t\tElegant Graphics for Data Analysis -ggplot2\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tNew York: New York\n\t\t\n\t\n\n","document":{"$oid":"60c5fc6c7723bebd86682c88"},"refKey":92},
{"_key":"60c5fc6c7723bebd86682c8c","_id":"references/60c5fc6c7723bebd86682c8c","_rev":"_cfFls46---","tei":"\n\t\n\t\tUMAP: uniform manifold approximation and projection\n\t\t\n\t\t\tMLeland\n\t\t\n\t\t\n\t\t\tHJohn\n\t\t\n\t\t\n\t\t\tSNathaniel\n\t\t\n\t\t\n\t\t\tGLukas\n\t\t\n\t\n\t\n\t\tJournal of Open Source Software\n\t\t\n\t\t\t3\n\t\t\t861\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fc6c7723bebd86682c88"},"refKey":91},
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{"_key":"60c5fc7f7723bebd86682ca5","_id":"references/60c5fc7f7723bebd86682ca5","_rev":"_cfFls5O---","tei":"\n\t\n\t\tThe SWISS-PROT protein sequence data bank\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t\n\t\t\tBBoeckmann\n\t\t\n\t\t10.1093/nar/19.suppl.2247\n\t\t2041811\n\t\tPMC331359\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t19\n\t\t\tsuppl\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5fc7f7723bebd86682ca3"},"refKey":11},
{"_key":"60c5fc7f7723bebd86682ca6","_id":"references/60c5fc7f7723bebd86682ca6","_rev":"_cfFls5a---","tei":"\n\t\n\t\tProbability-based protein identification by searching sequence databases using mass spectrometry data\n\t\t\n\t\t\tDavidNPerkins\n\t\t\n\t\t\n\t\t\tDarrylJ CPappin\n\t\t\n\t\t\n\t\t\tDavidMCreasy\n\t\t\n\t\t\n\t\t\tJohnSCottrell\n\t\t\n\t\t10.1002/(sici)1522-2683(19991201)20:18<3551::aid-elps3551>3.0.co;2-2\n\t\t10612281\n\t\tark:/67375/WNG-T7LBBPFZ-2\n\t\t339B0EEDCD1F78AA3AF3CC681EC66D0A895B01CD\n\t\n\t\n\t\tElectrophoresis\n\t\tElectrophoresis\n\t\t0173-0835\n\t\t1522-2683\n\t\t\n\t\t\t20\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c5fc7f7723bebd86682ca3"},"refKey":129},
{"_key":"60c5fc7f7723bebd86682ca7","_id":"references/60c5fc7f7723bebd86682ca7","_rev":"_cfFls5m---","tei":"\n\t\n\t\tMetaboAnalyst 4.0: towards more transparent and integrative metabolomics analysis\n\t\t\n\t\t\tJasmineChong\n\t\t\n\t\t\n\t\t\tOthmanSoufan\n\t\t\n\t\t\n\t\t\tCarinLi\n\t\t\n\t\t\n\t\t\tIurieCaraus\n\t\t\n\t\t\n\t\t\tShuzhaoLi\n\t\t\n\t\t\n\t\t\tGuillaumeBourque\n\t\t\n\t\t\n\t\t\tDavidSWishart\n\t\t\n\t\t\n\t\t\tJianguoXia\n\t\t\t0000-0003-2040-2624\n\t\t\n\t\t10.1093/nar/gky310\n\t\t29762782\n\t\tPMC6030889\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c5fc7f7723bebd86682ca3"},"refKey":32},
{"_key":"60c5fc7f7723bebd86682ca8","_id":"references/60c5fc7f7723bebd86682ca8","_rev":"_cfFls5u---","tei":"\n\t\n\t\tSECIMTools: a suite of metabolomics data analysis tools\n\t\t\n\t\t\tAlexanderSKirpich\n\t\t\n\t\t\n\t\t\tMiguelIbarra\n\t\t\n\t\t\n\t\t\tOleksandrMoskalenko\n\t\t\n\t\t\n\t\t\tJustinMFear\n\t\t\n\t\t\n\t\t\tJosephGerken\n\t\t\n\t\t\n\t\t\tXinleiMi\n\t\t\n\t\t\n\t\t\tAliAshrafi\n\t\t\n\t\t\n\t\t\tAlisonMMorse\n\t\t\n\t\t\n\t\t\tLaurenMMcintyre\n\t\t\n\t\t10.1186/s12859-018-2134-1\n\t\t29678131\n\t\tPMC5910624\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t151\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5fc7f7723bebd86682ca3"},"refKey":84},
{"_key":"60c5fc7f7723bebd86682ca9","_id":"references/60c5fc7f7723bebd86682ca9","_rev":"_cfFls56---","tei":"\n\t\n\t\tSWPepNovo: An Efficient De Novo Peptide Sequencing Tool for Large-scale MS/MS Spectra Analysis\n\t\t\n\t\t\tChuangLi\n\t\t\n\t\t\n\t\t\tKenliLi\n\t\t\n\t\t\n\t\t\tKeqinLi\n\t\t\n\t\t\n\t\t\tXianghuiXie\n\t\t\n\t\t\n\t\t\tFengLin\n\t\t\n\t\t10.7150/ijbs.32142\n\t\t\n\t\n\t\n\t\tInternational Journal of Biological Sciences\n\t\tInt. J. Biol. Sci.\n\t\t1449-2288\n\t\t\n\t\t\t15\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tIvyspring International Publisher\n\t\t\n\t\n\n","document":{"$oid":"60c5fc7f7723bebd86682ca3"},"refKey":99},
{"_key":"60c5fc8b7723bebd86682cb7","_id":"references/60c5fc8b7723bebd86682cb7","_rev":"_cfFls6G---","tei":"\n\t\n\t\tMeta-Analyst: software for meta-analysis of binary, continuous and diagnostic data\n\t\t\n\t\t\tByronCWallace\n\t\t\n\t\t\n\t\t\tChristopherHSchmid\n\t\t\n\t\t\n\t\t\tJosephLau\n\t\t\n\t\t\n\t\t\tThomasATrikalinos\n\t\t\n\t\t10.1186/1471-2288-9-80\n\t\t19961608\n\t\tPMC2795760\n\t\t\n\t\n\t\n\t\tBMC Medical Research Methodology\n\t\tBMC Med Res Methodol\n\t\t1471-2288\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t80\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c5fc8b7723bebd86682cb6"},"refKey":12},
{"_key":"60c5fcba7723bebd86682cc6","_id":"references/60c5fcba7723bebd86682cc6","_rev":"_cfFls6S---","tei":"\n\t\n\t\tAssignment of functional activations to probabilistic cytoarchitectonic areas revisited\n\t\t\n\t\t\tSBEickhoff\n\t\t\n\t\t\n\t\t\tTPaus\n\t\t\n\t\t\n\t\t\tSCaspers\n\t\t\n\t\t\n\t\t\tMHGrosbras\n\t\t\n\t\t\n\t\t\tACEvans\n\t\t\n\t\t\n\t\t\tKZilles\n\t\t\n\t\t\n\t\t\tKAmunts\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\t\n\t\t\t36\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fcba7723bebd86682cc5"},"refKey":25},
{"_key":"60c5fcba7723bebd86682cc7","_id":"references/60c5fcba7723bebd86682cc7","_rev":"_cfFls6a---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis: A regression-based approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford Publications\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c5fcba7723bebd86682cc5"},"refKey":33},
{"_key":"60c5fcba7723bebd86682cc8","_id":"references/60c5fcba7723bebd86682cc8","_rev":"_cfFls6m---","tei":"\n\t\n\t\tRegion of interest analysis using an SPM toolbox\n\t\t\n\t\t\tMatthewBrett\n\t\t\n\t\t\n\t\t\tJean-LucAnton\n\t\t\n\t\t\n\t\t\tRomainValabregue\n\t\t\n\t\t\n\t\t\tJ.-BP\n\t\t\n\t\t10.1007/978-3-540-75387-2_17\n\t\t\n\t\n\t\n\t\t8th International Conferance on Functional Mapping of the Human Brain\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fcba7723bebd86682cc5"},"refKey":55},
{"_key":"60c5fcba7723bebd86682ce8","_id":"references/60c5fcba7723bebd86682ce8","_rev":"_cfFls6y---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tBasic Local Alignment Search Tool -BLAST\n\t\t\n\t\n\n","document":{"$oid":"60c5fcba7723bebd86682ce7"},"refKey":54},
{"_key":"60c5fcba7723bebd86682ce9","_id":"references/60c5fcba7723bebd86682ce9","_rev":"_cfFls7----","tei":"\n\t\n\t\t\n\t\tClustalW\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c5fcba7723bebd86682ce7"},"refKey":55},
{"_key":"60c5fce97723bebd86682d07","_id":"references/60c5fce97723bebd86682d07","_rev":"_cfFls7G---","tei":"\n\t\n\t\tStudying the accumulation velocity of altmetric data tracked by Altmetric.com\n\t\t\n\t\t\tZFang\n\t\t\n\t\t\n\t\t\tRCostas\n\t\t\n\t\t10.1007/s11192-020-03405-9\n\t\n\t\n\t\tScientometrics\n\t\t\n\t\t\t123\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fce97723bebd86682d06"},"refKey":50},
{"_key":"60c5fce97723bebd86682d08","_id":"references/60c5fce97723bebd86682d08","_rev":"_cfFls7S---","tei":"\n\t\n\t\tWhen is an article actually published? An analysis of online availability, publication, and indexation dates\n\t\t\n\t\t\tSHaustein\n\t\t\n\t\t\n\t\t\tTDBowman\n\t\t\n\t\t\n\t\t\tRCostas\n\t\t\n\t\t\n\t\t\t\n\t\t\t22\n\t\t\n\t\n\n","document":{"$oid":"60c5fce97723bebd86682d06"},"refKey":51},
{"_key":"60c5fce97723bebd86682d09","_id":"references/60c5fce97723bebd86682d09","_rev":"_cfFls7e---","tei":"\n\t\n\t\trvest: Easily Harvest (Scrape) Web Pages\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tRstudio\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fce97723bebd86682d06"},"refKey":47},
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{"_key":"60c5fce97723bebd86682d0b","_id":"references/60c5fce97723bebd86682d0b","_rev":"_cfFls7y---","tei":"\n\t\n\t\tCollecting and analyzing Twitter data\n\t\t\n\t\t\tMKearney\n\t\t\n\t\t\n\t\t\tRtweet\n\t\t\n\t\t10.21105/joss.01829\n\t\n\t\n\t\tJ Open Source Softw\n\t\t\n\t\t\t4\n\t\t\t1829\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fce97723bebd86682d06"},"refKey":54},
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{"_key":"60c5fd347723bebd86682d58","_id":"references/60c5fd347723bebd86682d58","_rev":"_cfFls8W---","tei":"\n\t\n\t\tCHARMM-GUI: A web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tTaehoonKim\n\t\t\n\t\t\n\t\t\tVidyashankaraGIyer\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.20945\n\t\t18351591\n\t\tark:/67375/WNG-B51MBQFN-X\n\t\t3C9C30FE6273AB7B8632EBBA4EF6F91FEFB8F531\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c5fd347723bebd86682d57"},"refKey":61},
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{"_key":"60c5fd347723bebd86682d5c","_id":"references/60c5fd347723bebd86682d5c","_rev":"_cfFls9C---","tei":"\n\t\n\t\tPython: A programming language for software integration and development\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph. Model\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fd347723bebd86682d57"},"refKey":56},
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{"_key":"60c5fd797723bebd86682d74","_id":"references/60c5fd797723bebd86682d74","_rev":"_cfFls9a---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tBBraun\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tJGumbart\n\t\t\n\t\t\n\t\t\tETakjkhorshid\n\t\t\n\t\t\n\t\t\tEVilla\n\t\t\n\t\t\n\t\t\tCChipot\n\t\t\n\t\t\n\t\t\tRDSkeel\n\t\t\n\t\t\n\t\t\tLKale\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fd797723bebd86682d72"},"refKey":53},
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{"_key":"60c5fd797723bebd86682d76","_id":"references/60c5fd797723bebd86682d76","_rev":"_cfFls9u---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tLWeizhong\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSöding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tMol Syst Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fd797723bebd86682d72"},"refKey":62},
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{"_key":"60c5fde17723bebd86682dcd","_id":"references/60c5fde17723bebd86682dcd","_rev":"_cfFlt-m---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c5fde17723bebd86682dcc"},"refKey":64},
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{"_key":"60c601a07723bebd86683020","_id":"references/60c601a07723bebd86683020","_rev":"_cfFltHi---","tei":"\n\t\n\t\tComparison of 10 TTP and Tmax Estimation Techniques for MR Perfusion-Diffusion Mismatch Quantification in Acute Stroke\n\t\t\n\t\t\tNDForkert\n\t\t\n\t\t\n\t\t\tPKaesemann\n\t\t\n\t\t\n\t\t\tATreszl\n\t\t\n\t\t\n\t\t\tSSiemonsen\n\t\t\n\t\t\n\t\t\tBCheng\n\t\t\n\t\t\n\t\t\tHHandels\n\t\t\n\t\t\n\t\t\tJFiehler\n\t\t\n\t\t\n\t\t\tGThomalla\n\t\t\n\t\t10.3174/ajnr.a3460\n\t\t23538410\n\t\t\n\t\n\t\n\t\tAmerican Journal of Neuroradiology\n\t\tAJNR Am J Neuroradiol\n\t\t0195-6108\n\t\t1936-959X\n\t\t\n\t\t\t34\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society of Neuroradiology (ASNR)\n\t\t\n\t\n\n","document":{"$oid":"60c601a07723bebd8668301c"},"refKey":21},
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{"_key":"60c6030b7723bebd866830cc","_id":"references/60c6030b7723bebd866830cc","_rev":"_cfFltI6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPauliVirtanen\n\t\t\n\t\t\n\t\t\tRalfGommers\n\t\t\n\t\t\n\t\t\tTravisEOliphant\n\t\t\n\t\t\n\t\t\tMattHaberland\n\t\t\n\t\t\n\t\t\tTylerReddy\n\t\t\n\t\t\n\t\t\tDavidCournapeau\n\t\t\n\t\t\n\t\t\tEvgeniBurovski\n\t\t\n\t\t\n\t\t\tPearuPeterson\n\t\t\n\t\t\n\t\t\tWarrenWeckesser\n\t\t\n\t\t\n\t\t\tJonathanBright\n\t\t\n\t\t\n\t\t\tJStéfan\n\t\t\n\t\t\n\t\t\tMatthewVan Der Walt\n\t\t\n\t\t\n\t\t\tJoshuaBrett\n\t\t\n\t\t\n\t\t\tKJarrodWilson\n\t\t\n\t\t\n\t\t\tNikolayMillman\n\t\t\n\t\t\n\t\t\tMayorov\n\t\t\n\t\t\n\t\t\tRJAndrew\n\t\t\n\t\t\n\t\t\tEricNelson\n\t\t\n\t\t\n\t\t\tRobertJones\n\t\t\n\t\t\n\t\t\tEricKern\n\t\t\n\t\t\n\t\t\tC JLarson\n\t\t\n\t\t\n\t\t\tİlhanCarey\n\t\t\n\t\t\n\t\t\tYuPolat\n\t\t\n\t\t\n\t\t\tEricWFeng\n\t\t\n\t\t\n\t\t\tJakeMoore\n\t\t\n\t\t\n\t\t\tDenisVanderplas\n\t\t\n\t\t\n\t\t\tJosefLaxalde\n\t\t\n\t\t\n\t\t\tRobertPerktold\n\t\t\n\t\t\n\t\t\tIanCimrman\n\t\t\n\t\t\n\t\t\tEAHenriksen\n\t\t\n\t\t\n\t\t\tCharlesRQuintero\n\t\t\n\t\t\n\t\t\tAnneMHarris\n\t\t\n\t\t\n\t\t\tAntônioHArchibald\n\t\t\n\t\t\n\t\t\tFabianRibeiro\n\t\t\n\t\t\n\t\t\tPedregosa\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tPaul van Mulbregt\n\t\t\n\t\n\tand SciPy 1.0 Contributors. SciPy 1.0: Fundamental Algorithms for Scientific Computing in Python\n\n","document":{"$oid":"60c6030b7723bebd866830cb"},"refKey":38},
{"_key":"60c6030d7723bebd866830d1","_id":"references/60c6030d7723bebd866830d1","_rev":"_cfFltJG---","tei":"\n\t\n\t\tSPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields\n\t\t\n\t\t\tJFrank\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t116\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6030d7723bebd866830d0"},"refKey":38},
{"_key":"60c6030d7723bebd866830d2","_id":"references/60c6030d7723bebd866830d2","_rev":"_cfFltJS---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6030d7723bebd866830d0"},"refKey":40},
{"_key":"60c6030d7723bebd866830d3","_id":"references/60c6030d7723bebd866830d3","_rev":"_cfFltJe---","tei":"\n\t\n\t\tEMAN: semiautomated software for high-resolution single-particle reconstructions\n\t\t\n\t\t\tSJLudtke\n\t\t\n\t\t\n\t\t\tPRBaldwin\n\t\t\n\t\t\n\t\t\tWChiu\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t128\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6030d7723bebd866830d0"},"refKey":37},
{"_key":"60c6036b7723bebd8668310b","_id":"references/60c6036b7723bebd8668310b","_rev":"_cfFltJq---","tei":"\n\t\n\t\tLTSmin: High-Performance Language-Independent Model Checking\n\t\t\n\t\t\tGijsKant\n\t\t\n\t\t\n\t\t\tAlfonsLaarman\n\t\t\n\t\t\n\t\t\tJeroenMeijer\n\t\t\n\t\t\n\t\t\tJacoVan De Pol\n\t\t\n\t\t\n\t\t\tStefanBlom\n\t\t\n\t\t\n\t\t\tTomVan Dijk\n\t\t\n\t\t10.1007/978-3-662-46681-0_61\n\t\t\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\t\n\t\t\tCBaier\n\t\t\tCTinelli\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t9035\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6036b7723bebd8668310a"},"refKey":19},
{"_key":"60c6036b7723bebd8668310c","_id":"references/60c6036b7723bebd8668310c","_rev":"_cfFltJy---","tei":"\n\t\n\t\tSpot 2.0 — A Framework for LTL and $$\\omega $$ -Automata Manipulation\n\t\t\n\t\t\tAlexandreDuret-Lutz\n\t\t\n\t\t\n\t\t\tAlexandreLewkowicz\n\t\t\n\t\t\n\t\t\tAmauryFauchille\n\t\t\n\t\t\n\t\t\tThibaudMichaud\n\t\t\n\t\t\n\t\t\tÉtienneRenault\n\t\t\n\t\t\n\t\t\tLaurentXu\n\t\t\n\t\t10.1007/978-3-319-46520-3_8\n\t\t\n\t\n\t\n\t\tAutomated Technology for Verification and Analysis\n\t\t\t\t\n\t\t\tCArtho\n\t\t\tALegay\n\t\t\tDPeled\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t9938\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6036b7723bebd8668310a"},"refKey":15},
{"_key":"60c603c67723bebd8668315d","_id":"references/60c603c67723bebd8668315d","_rev":"_cfFltK----","tei":"\n\t\n\t\tDEoptim: An R package for global optimization by differential evolution\n\t\t\n\t\t\tKMMullen\n\t\t\n\t\t\n\t\t\tDArdia\n\t\t\n\t\t\n\t\t\tDLGil\n\t\t\n\t\t\n\t\t\tDWindover\n\t\t\n\t\t\n\t\t\tJCline\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c603c67723bebd8668315c"},"refKey":61},
{"_key":"60c603d47723bebd86683167","_id":"references/60c603d47723bebd86683167","_rev":"_cfFltKK---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDmaM AMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btp033\n\t\t19151095\n\t\tPMC2672624\n\t\tark:/67375/HXZ-5L762ZQS-N\n\t\t984BAD740626CEADBD2E31F4094D8E18B07D49EA\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c603d47723bebd86683166"},"refKey":28},
{"_key":"60c603d47723bebd86683168","_id":"references/60c603d47723bebd86683168","_rev":"_cfFltKW---","tei":"\n\t\n\t\tFiji: an open-source platform for biological-image analysis\n\t\t\n\t\t\tJohannesSchindelin\n\t\t\n\t\t\n\t\t\tIgnacioArganda-Carreras\n\t\t\n\t\t\n\t\t\tErwinFrise\n\t\t\n\t\t\n\t\t\tVerenaKaynig\n\t\t\n\t\t\n\t\t\tMarkLongair\n\t\t\n\t\t\n\t\t\tTobiasPietzsch\n\t\t\n\t\t\n\t\t\tStephanPreibisch\n\t\t\n\t\t\n\t\t\tCurtisRueden\n\t\t\n\t\t\n\t\t\tStephanSaalfeld\n\t\t\n\t\t\n\t\t\tBenjaminSchmid\n\t\t\n\t\t\n\t\t\tJean-YvesTinevez\n\t\t\n\t\t\n\t\t\tDanielJamesWhite\n\t\t\n\t\t\n\t\t\tVolkerHartenstein\n\t\t\n\t\t\n\t\t\tKevinEliceiri\n\t\t\n\t\t\n\t\t\tPavelTomancak\n\t\t\n\t\t\n\t\t\tAlbertCardona\n\t\t\n\t\t10.1038/nmeth.2019\n\t\t22743772\n\t\tPMC3855844\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c603d47723bebd86683166"},"refKey":30},
{"_key":"60c603e47723bebd86683179","_id":"references/60c603e47723bebd86683179","_rev":"_cfFltKi---","tei":"\n\t\n\t\tAutomated electron microscope tomography using robust prediction of specimen movements\n\t\t\n\t\t\tDavidNMastronarde\n\t\t\n\t\t10.1016/j.jsb.2005.07.007\n\t\t16182563\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t152\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c603e47723bebd86683178"},"refKey":45},
{"_key":"60c604197723bebd8668319c","_id":"references/60c604197723bebd8668319c","_rev":"_cfFltKu---","tei":"\n\t\n\t\tSuperPCA: A Superpixelwise PCA Approach for Unsupervised Feature Extraction of Hyperspectral Imagery\n\t\t\n\t\t\tJunjunJiang\n\t\t\t0000-0002-5694-505X\n\t\t\n\t\t\n\t\t\tJiayiMa\n\t\t\t0000-0003-3264-3265\n\t\t\n\t\t\n\t\t\tChenChen\n\t\t\t0000-0003-3957-7061\n\t\t\n\t\t\n\t\t\tZhongyuanWang\n\t\t\n\t\t\n\t\t\tZhihuaCai\n\t\t\n\t\t\n\t\t\tLizheWang\n\t\t\t0000-0003-2766-0845\n\t\t\n\t\t10.1109/tgrs.2018.2828029\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Geoscience and Remote Sensing\n\t\tIEEE Trans. Geosci. Remote Sensing\n\t\t0196-2892\n\t\t1558-0644\n\t\t\n\t\t\t56\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c604197723bebd8668319b"},"refKey":11},
{"_key":"60c604287723bebd866831b6","_id":"references/60c604287723bebd866831b6","_rev":"_cfFltK6---","tei":"\n\t\n\t\tComputing communities in large networks using random walks\n\t\t\n\t\t\tPPons\n\t\t\n\t\t\n\t\t\tMLatapy\n\t\t\n\t\tYolum, I., Güngör, T., Gürgen, F., Özturan, C.\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c604287723bebd866831b5"},"refKey":9},
{"_key":"60c6048e7723bebd866831cf","_id":"references/60c6048e7723bebd866831cf","_rev":"_cfFltLC---","tei":"\n\t\n\t\tJava Treeview-extensible visualization of microarray data\n\t\t\n\t\t\tAJSaldanha\n\t\t\n\t\t15180930\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6048e7723bebd866831ce"},"refKey":42},
{"_key":"60c604e27723bebd866831f8","_id":"references/60c604e27723bebd866831f8","_rev":"_cfFltLO---","tei":"\n\t\n\t\tmice: Multivariate Imputation by Chained Equations inR\n\t\t\n\t\t\tStefVanBuuren\n\t\t\n\t\t\n\t\t\tKarinGroothuis-Oudshoorn\n\t\t\n\t\t10.18637/jss.v045.i03\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t45\n\t\t\t3\n\t\t\t45\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c604e27723bebd866831f7"},"refKey":25},
{"_key":"60c605037723bebd86683207","_id":"references/60c605037723bebd86683207","_rev":"_cfFltLa---","tei":"\n\t\n\t\tAcute strength training increases responses to stimulation of corticospinal axons\n\t\t\n\t\t\tJNewell\n\t\t\n\t\t\n\t\t\tTAitchison\n\t\t\n\t\t\n\t\t\tSGrant\n\t\t\n\t\t\n\t\t\tJLNuzzo\n\t\t\n\t\t\n\t\t\tBKBarry\n\t\t\n\t\t\n\t\t\tSCGandevia\n\t\t\n\t\t\n\t\t\tJLTaylor\n\t\t\n\t\n\t\n\t\tMed Sci Sports Exerc\n\t\t\n\t\t\t\n\t\t\n\t\n\tStatistics for sports and exercise science: a practical approach\n\n","document":{"$oid":"60c605037723bebd86683206"},"refKey":25},
{"_key":"60c605207723bebd86683220","_id":"references/60c605207723bebd86683220","_rev":"_cfFltLm---","tei":"\n\t\n\t\tThe CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c605207723bebd8668321f"},"refKey":37},
{"_key":"60c605207723bebd86683221","_id":"references/60c605207723bebd86683221","_rev":"_cfFltLy---","tei":"\n\t\n\t\tMEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c605207723bebd8668321f"},"refKey":38},
{"_key":"60c6052a7723bebd8668322c","_id":"references/60c6052a7723bebd8668322c","_rev":"_cfFltL6---","tei":"\n\t\n\t\tThe neighbor-joining method: a new method for reconstructing phylogenetic trees\n\t\t\n\t\t\tNSaitou\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6052a7723bebd8668322b"},"refKey":38},
{"_key":"60c605417723bebd86683237","_id":"references/60c605417723bebd86683237","_rev":"_cfFltMG---","tei":"\n\t\n\t\tphylodyn : an R package for phylodynamic simulation and inference\n\t\t\n\t\t\tMichaelDKarcher\n\t\t\n\t\t\n\t\t\tJuliaAPalacios\n\t\t\n\t\t\n\t\t\tShiweiLan\n\t\t\n\t\t\n\t\t\tVladimirNMinin\n\t\t\n\t\t10.1111/1755-0998.12630\n\t\t27801980\n\t\tPMC5466693\n\t\t\n\t\n\t\n\t\tMolecular Ecology Resources\n\t\tMol Ecol Resour\n\t\t1755-098X\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c605417723bebd86683236"},"refKey":13},
{"_key":"60c605417723bebd86683238","_id":"references/60c605417723bebd86683238","_rev":"_cfFltMS---","tei":"\n\t\n\t\tBayesian phylogenetic and phylodynamic data integration using BEAST 1.10\n\t\t\n\t\t\tMSuchard\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tDAyres\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c605417723bebd86683236"},"refKey":38},
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{"_key":"60c6054c7723bebd86683242","_id":"references/60c6054c7723bebd86683242","_rev":"_cfFltMq---","tei":"\n\t\n\t\tNormalization of real-time quantitative reverse transcription-PCR data: a model-based variance estimation approach to identify genes suited for normalization, applied to bladder and colon cancer data sets\n\t\t\n\t\t\tCLAndersen\n\t\t\n\t\t\n\t\t\tJLJensen\n\t\t\n\t\t\n\t\t\tTFOrntoft\n\t\t\n\t\n\t\n\t\tCancer Res\n\t\t\n\t\t\t64\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6054c7723bebd86683240"},"refKey":67},
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{"_key":"60c606127723bebd866832e7","_id":"references/60c606127723bebd866832e7","_rev":"_cfFltOa---","tei":"\n\t\n\t\tMatWare : Constructing and Exploiting Domain Specific Warehouses by Aggregating Semantic Data\n\t\t\n\t\t\tYannisTzitzikas\n\t\t\n\t\t\n\t\t\tNikosMinadakis\n\t\t\n\t\t\n\t\t\tYannisMarketakis\n\t\t\n\t\t\n\t\t\tPavlosFafalios\n\t\t\n\t\t\n\t\t\tCarloAllocca\n\t\t\n\t\t\n\t\t\tMichalisMountantonakis\n\t\t\n\t\t\n\t\t\tIoannaZidianaki\n\t\t\n\t\t10.1007/978-3-319-07443-6_48\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tATordai\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t8465\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c606127723bebd866832e4"},"refKey":15},
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{"_key":"60c6067b7723bebd86683308","_id":"references/60c6067b7723bebd86683308","_rev":"_cfFltOy---","tei":"\n\t\n\t\thMRI – A toolbox for quantitative MRI in neuroscience and clinical research\n\t\t\n\t\t\tKarstenTabelow\n\t\t\n\t\t\n\t\t\tEvelyneBalteau\n\t\t\n\t\t\n\t\t\tJohnAshburner\n\t\t\n\t\t\n\t\t\tMartinaFCallaghan\n\t\t\n\t\t\n\t\t\tBogdanDraganski\n\t\t\n\t\t\n\t\t\tGuntherHelms\n\t\t\n\t\t\n\t\t\tFerathKherif\n\t\t\n\t\t\n\t\t\tTobiasLeutritz\n\t\t\n\t\t\n\t\t\tAntoineLutti\n\t\t\n\t\t\n\t\t\tChristophePhillips\n\t\t\n\t\t\n\t\t\tEnricoReimer\n\t\t\n\t\t\n\t\t\tLarsRuthotto\n\t\t\n\t\t\n\t\t\tMaryamSeif\n\t\t\n\t\t\n\t\t\tNikolausWeiskopf\n\t\t\n\t\t\n\t\t\tGabrielZiegler\n\t\t\n\t\t\n\t\t\tSiawooshMohammadi\n\t\t\n\t\t10.1016/j.neuroimage.2019.01.029\n\t\t30677501\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t194\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6067b7723bebd86683306"},"refKey":38},
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{"_key":"60c6067b7723bebd8668330a","_id":"references/60c6067b7723bebd8668330a","_rev":"_cfFltPK---","tei":"\n\t\n\t\tUnified segmentation based correction of R1 brain maps for RF transmit field inhomogeneities (UNICORT)\n\t\t\n\t\t\tNikolausWeiskopf\n\t\t\n\t\t\n\t\t\tAntoineLutti\n\t\t\n\t\t\n\t\t\tGuntherHelms\n\t\t\n\t\t\n\t\t\tMarianneNovak\n\t\t\n\t\t\n\t\t\tJohnAshburner\n\t\t\n\t\t\n\t\t\tChloeHutton\n\t\t\n\t\t10.1016/j.neuroimage.2010.10.023\n\t\t20965260\n\t\tPMC3018573\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t54\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6067b7723bebd86683306"},"refKey":44},
{"_key":"60c606947723bebd8668332d","_id":"references/60c606947723bebd8668332d","_rev":"_cfFltPW---","tei":"\n\t\n\t\tUCHIME improves sensitivity and speed of chimera detection\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t\n\t\t\tBrianJHaas\n\t\t\n\t\t\n\t\t\tJoseCClemente\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tRobKnight\n\t\t\n\t\t10.1093/bioinformatics/btr381\n\t\t21700674\n\t\tPMC3150044\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c606947723bebd8668332c"},"refKey":13},
{"_key":"60c606a87723bebd86683342","_id":"references/60c606a87723bebd86683342","_rev":"_cfFltPi---","tei":"\n\t\n\t\t\n\t\n\t\n\t\tANSYS. Fluent\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\tFluent Inc\n\t\t\n\t\n\n","document":{"$oid":"60c606a87723bebd86683341"},"refKey":27},
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{"_key":"60c606c87723bebd86683355","_id":"references/60c606c87723bebd86683355","_rev":"_cfFltP6---","tei":"\n\t\n\t\tSCRATCH: a protein structure and structural feature prediction server\n\t\t\n\t\t\tJCheng\n\t\t\n\t\t\n\t\t\tAZRandall\n\t\t\n\t\t\n\t\t\tMJSweredoski\n\t\t\n\t\t\n\t\t\tPBaldi\n\t\t\n\t\t10.1093/nar/gki396\n\t\t15980571\n\t\tPMC1160157\n\t\tark:/67375/HXZ-KZRTTT4R-Z\n\t\tBFBA3F8571EFCE5B52C20A696C8A632832586D31\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c606c87723bebd86683354"},"refKey":50},
{"_key":"60c606c87723bebd86683356","_id":"references/60c606c87723bebd86683356","_rev":"_cfFltQG---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t10.1093/nar/gkz268\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t47\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c606c87723bebd86683354"},"refKey":70},
{"_key":"60c606c87723bebd86683357","_id":"references/60c606c87723bebd86683357","_rev":"_cfFltQS---","tei":"\n\t\n\t\tHigh-performance signal peptide prediction based on sequence alignment techniques\n\t\t\n\t\t\tKFrank\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\t10.1093/bioinformatics/btn422\n\t\t18697773\n\t\tark:/67375/HXZ-C1X6LX5B-0\n\t\t39B35A1AABD3FCA7BAA1E93171B49C63AD84EDB4\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c606c87723bebd86683354"},"refKey":56},
{"_key":"60c606c87723bebd86683358","_id":"references/60c606c87723bebd86683358","_rev":"_cfFltQe---","tei":"\n\t\n\t\tThe ClusPro web server for protein–protein docking\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tKathrynAPorter\n\t\t\n\t\t\n\t\t\tDzmitryPadhorny\n\t\t\n\t\t\n\t\t\tChristineYueh\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t10.1038/nprot.2016.169\n\t\t28079879\n\t\tPMC5540229\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c606c87723bebd86683354"},"refKey":67},
{"_key":"60c606c87723bebd86683359","_id":"references/60c606c87723bebd86683359","_rev":"_cfFltQm---","tei":"\n\t\n\t\tVirus-mPLoc: A Fusion Classifier for Viral Protein Subcellular Location Prediction by Incorporating Multiple Sites\n\t\t\n\t\t\tHong-BinShen\n\t\t\n\t\t\n\t\t\tKuo-ChenChou\n\t\t\n\t\t10.1080/07391102.2010.10507351\n\t\t20645651\n\t\t\n\t\n\t\n\t\tJournal of Biomolecular Structure and Dynamics\n\t\tJournal of Biomolecular Structure and Dynamics\n\t\t0739-1102\n\t\t1538-0254\n\t\t\n\t\t\t28\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c606c87723bebd86683354"},"refKey":53},
{"_key":"60c606c87723bebd8668335a","_id":"references/60c606c87723bebd8668335a","_rev":"_cfFltQy---","tei":"\n\t\n\t\tDeciphering key features in protein structures with the new ENDscript server\n\t\t\n\t\t\tXavierRobert\n\t\t\n\t\t\n\t\t\tPatriceGouet\n\t\t\n\t\t10.1093/nar/gku316\n\t\t24753421\n\t\tPMC4086106\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c606c87723bebd86683354"},"refKey":71},
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{"_key":"60c606f67723bebd86683382","_id":"references/60c606f67723bebd86683382","_rev":"_cfFltRK---","tei":"\n\t\n\t\tTIGR Gene Indices clustering tools (TGICL): a software system for fast clustering of large EST datasets\n\t\t\n\t\t\tGPertea\n\t\t\n\t\t\n\t\t\tXHuang\n\t\t\n\t\t\n\t\t\tFLiang\n\t\t\n\t\t\n\t\t\tVAntonescu\n\t\t\n\t\t\n\t\t\tRSultana\n\t\t\n\t\t\n\t\t\tSKaramycheva\n\t\t\n\t\t\n\t\t\tYLee\n\t\t\n\t\t\n\t\t\tJWhite\n\t\t\n\t\t\n\t\t\tFCheung\n\t\t\n\t\t\n\t\t\tBParvizi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c606f67723bebd86683381"},"refKey":18},
{"_key":"60c606f67723bebd86683383","_id":"references/60c606f67723bebd86683383","_rev":"_cfFltRW---","tei":"\n\t\n\t\tThe TIGR Gene Indices: clustering and assembling EST and known genes and integration with eukaryotic genomes\n\t\t\n\t\t\tYLee\n\t\t\n\t\t\n\t\t\tJTsai\n\t\t\n\t\t\n\t\t\tSSunkara\n\t\t\n\t\t\n\t\t\tSKaramycheva\n\t\t\n\t\t\n\t\t\tGPertea\n\t\t\n\t\t\n\t\t\tRSultana\n\t\t\n\t\t\n\t\t\tVAntonescu\n\t\t\n\t\t\n\t\t\tAChan\n\t\t\n\t\t\n\t\t\tFCheung\n\t\t\n\t\t\n\t\t\tJQuackenbush\n\t\t\n\t\t10.1093/nar/gki064\n\t\t15608288\n\t\tPMC540018\n\t\tark:/67375/HXZ-S7KW8WC4-8\n\t\t4CC41A4F6D352999497FC312CD87A152D4FE29F9\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tDatabase issue\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c606f67723bebd86683381"},"refKey":19},
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{"_key":"60c6074b7723bebd866833b0","_id":"references/60c6074b7723bebd866833b0","_rev":"_cfFltRq---","tei":"\n\t\n\t\tTranscriptome assembly from long-read RNA-seq alignments with StringTie2\n\t\t\n\t\t\tSamKovaka\n\t\t\n\t\t\n\t\t\tAlekseyVZimin\n\t\t\n\t\t\n\t\t\tGeoMPertea\n\t\t\n\t\t\n\t\t\tRohamRazaghi\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t\n\t\t\tMihaelaPertea\n\t\t\n\t\t10.1101/694554\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6074b7723bebd866833ae"},"refKey":20},
{"_key":"60c607577723bebd866833bb","_id":"references/60c607577723bebd866833bb","_rev":"_cfFltR2---","tei":"\n\t\n\t\tA simple method for displaying the hydropathic character of a protein\n\t\t\n\t\t\tJKyte\n\t\t\n\t\t\n\t\t\tRFDoolittle\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t157\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c607577723bebd866833ba"},"refKey":36},
{"_key":"60c607a97723bebd86683409","_id":"references/60c607a97723bebd86683409","_rev":"_cfFltSC---","tei":"\n\t\n\t\tImproving physical realism, stereochemistry, and side-chain accuracy in homology modeling: Four approaches that performed well in CASP8\n\t\t\n\t\t\tElmarKrieger\n\t\t\n\t\t\n\t\t\tKeehyoungJoo\n\t\t\n\t\t\n\t\t\tJinwooLee\n\t\t\n\t\t\n\t\t\tJooyoungLee\n\t\t\n\t\t\n\t\t\tSrivatsanRaman\n\t\t\n\t\t\n\t\t\tJamesThompson\n\t\t\n\t\t\n\t\t\tMikeTyka\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t\n\t\t\tKevinKarplus\n\t\t\n\t\t10.1002/prot.22570\n\t\t19768677\n\t\tPMC2922016\n\t\tark:/67375/WNG-0N7FWH3R-F\n\t\tCF1A39E796BEFF4969B0D21684FC34F5A4C1CACD\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t77\n\t\t\tS9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tSuppl. Suppl 9\n\n","document":{"$oid":"60c607a97723bebd86683408"},"refKey":33},
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{"_key":"60c608407723bebd86683461","_id":"references/60c608407723bebd86683461","_rev":"_cfFltSy---","tei":"\n\t\n\t\tForecast: Forecasting functions for time series and linear models\n\t\t\n\t\t\tRHyndman\n\t\t\n\t\t\n\t\t\tGAthanasopoulos\n\t\t\n\t\t\n\t\t\tCBergmeir\n\t\t\n\t\t\n\t\t\tGCaceres\n\t\t\n\t\t\n\t\t\tLChhay\n\t\t\n\t\t\n\t\t\tMO'hara-Wild\n\t\t\n\t\t\n\t\t\tFPetropoulos\n\t\t\n\t\t\n\t\t\tSRazbash\n\t\t\n\t\t\n\t\t\tEWang\n\t\t\n\t\t\n\t\t\tFYasmeen\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 8.12\n\n","document":{"$oid":"60c608407723bebd86683460"},"refKey":22},
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{"_key":"60c608967723bebd86683492","_id":"references/60c608967723bebd86683492","_rev":"_cfFltTO---","tei":"\n\t\n\t\tMicrosoft Office Access\n\t\t\n\t\t\t\n\t\t\tMicrosoft Corporation\n\t\t\tRedmond, WA\n\t\t\n\t\n\n","document":{"$oid":"60c608967723bebd86683491"},"refKey":16},
{"_key":"60c608967723bebd86683493","_id":"references/60c608967723bebd86683493","_rev":"_cfFltTa---","tei":"\n\t\n\t\tSAS Institute Inc. What's new in SAS 9.0, 9.1, 9.1.2, and 9.1.3. Cary, NC: SAS Institute\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c608967723bebd86683491"},"refKey":17},
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{"_key":"60c608aa7723bebd866834b2","_id":"references/60c608aa7723bebd866834b2","_rev":"_cfFltUK---","tei":"\n\t\n\t\tImprovement of Phylogenies after Removing Divergent and Ambiguously Aligned Blocks from Protein Sequence Alignments\n\t\t\n\t\t\tGerardTalavera\n\t\t\n\t\t\n\t\t\tJoseCastresana\n\t\t\n\t\t10.1080/10635150701472164\n\t\t17654362\n\t\tark:/67375/HXZ-BPXFB4NP-V\n\t\t7F66247F6AFD2D644E2E779ED931A9CAA1AC8D80\n\t\tdoi:10.1080/ 10635150701472164\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t56\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c608aa7723bebd866834af"},"refKey":83},
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{"_key":"60c608f87723bebd866834f8","_id":"references/60c608f87723bebd866834f8","_rev":"_cfFltVG---","tei":"\n\t\n\t\tThe R project for statistical computing\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c608f87723bebd866834f6"},"refKey":45},
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{"_key":"60c609307723bebd86683514","_id":"references/60c609307723bebd86683514","_rev":"_cfFltVe---","tei":"\n\t\n\t\tFast Program for Clustering and Comparing Large Sets of Protein or Nucleotide Sequences\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1007/978-1-4899-7478-5_221\n\t\n\t\n\t\tEncyclopedia of Metagenomics\n\t\t\t\t\n\t\t\tSpringer US\n\t\t\t\n\t\t\t22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c609307723bebd86683513"},"refKey":26},
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{"_key":"60c611447723bebd86683a35","_id":"references/60c611447723bebd86683a35","_rev":"_cfFltmS---","tei":"\n\t\n\t\tNetMHCstab- predicting stability of peptide-MHC-I complexes; impacts for cytotoxic T lymphocyte epitope discovery\n\t\t\n\t\t\tKasperWJørgensen\n\t\t\n\t\t\n\t\t\tMichaelRasmussen\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1111/imm.12160\n\t\t23927693\n\t\t\n\t\n\t\n\t\tImmunology\n\t\tImmunology\n\t\t0019-2805\n\t\t\n\t\t\t141\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c611447723bebd86683a2f"},"refKey":39},
{"_key":"60c611447723bebd86683a36","_id":"references/60c611447723bebd86683a36","_rev":"_cfFltma---","tei":"\n\t\n\t\tNetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8–11\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tMikkelHarndahl\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1093/nar/gkn202\n\t\t18463140\n\t\tPMC2447772\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c611447723bebd86683a2f"},"refKey":32},
{"_key":"60c611447723bebd86683a37","_id":"references/60c611447723bebd86683a37","_rev":"_cfFltmm---","tei":"\n\t\n\t\tAccurate approximation method for prediction of class I MHC affinities for peptides of length 8, 10 and 11 using prediction tools trained on 9mers\n\t\t\n\t\t\tCLundegaard\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t10.1093/bioinformatics/btn128\n\t\t18413329\n\t\tark:/67375/HXZ-RXBLRQ9D-7\n\t\tB263DA0CEBC6477E12D13C830543CA364C972420\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c611447723bebd86683a2f"},"refKey":33},
{"_key":"60c611447723bebd86683a38","_id":"references/60c611447723bebd86683a38","_rev":"_cfFltmy---","tei":"\n\t\n\t\tWebLogo: A Sequence Logo Generator\n\t\t\n\t\t\tGECrooks\n\t\t\n\t\t\n\t\t\tGHon\n\t\t\n\t\t\n\t\t\tJMChandonia\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\t10.1101/gr.849004\n\t\t15173120\n\t\tPMC419797\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c611447723bebd86683a2f"},"refKey":41},
{"_key":"60c611797723bebd86683a9f","_id":"references/60c611797723bebd86683a9f","_rev":"_cfFltn----","tei":"\n\t\n\t\tA knowledge-based approach to user interface adaptation from preferences and for special needs\n\t\t\n\t\t\tClaudiaLoitsch\n\t\t\n\t\t\n\t\t\tGerhardWeber\n\t\t\n\t\t\n\t\t\tNikolaosKaklanis\n\t\t\n\t\t\n\t\t\tKonstantinosVotis\n\t\t\n\t\t\n\t\t\tDimitriosTzovaras\n\t\t\n\t\t10.1007/s11257-017-9196-z\n\t\t\n\t\n\t\n\t\tUser Modeling and User-Adapted Interaction\n\t\tUser Model User-Adap Inter\n\t\t0924-1868\n\t\t1573-1391\n\t\t\n\t\t\t27\n\t\t\t3-5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tUser Model. User-Adap. Inter\n\n","document":{"$oid":"60c611797723bebd86683a9e"},"refKey":6},
{"_key":"60c611797723bebd86683aa0","_id":"references/60c611797723bebd86683aa0","_rev":"_cfFltnK---","tei":"\n\t\n\t\tMyUI: generating accessible user interfaces from multimodal design patterns\n\t\t\n\t\t\tMPeissner\n\t\t\n\t\t\n\t\t\tDHäbe\n\t\t\n\t\t\n\t\t\tDJanssen\n\t\t\n\t\t\n\t\t\tTSellner\n\t\t\n\t\t10.1145/2305484.2305500\n\t\t\n\t\n\t\n\t\tProceedings of the 2012 ACM SIGCHI Symposium on Engineering Interactive Computing Systems\n\t\t\t\tthe 2012 ACM SIGCHI Symposium on Engineering Interactive Computing Systems\n\t\t\n\t\t\t\n\t\t\n\t\n\tEICS 2012\n\n","document":{"$oid":"60c611797723bebd86683a9e"},"refKey":7},
{"_key":"60c611817723bebd86683ab4","_id":"references/60c611817723bebd86683ab4","_rev":"_cfFltnS---","tei":"\n\t\n\t\tHaplotype-based variant detection from short-read sequencing\n\t\t\n\t\t\tEGarrison\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\tarXiv:1207.3907\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tq-bio\n\n","document":{"$oid":"60c611817723bebd86683ab3"},"refKey":22},
{"_key":"60c611817723bebd86683ab5","_id":"references/60c611817723bebd86683ab5","_rev":"_cfFltne---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c611817723bebd86683ab3"},"refKey":47},
{"_key":"60c611877723bebd86683b14","_id":"references/60c611877723bebd86683b14","_rev":"_cfFltnq---","tei":"\n\t\n\t\tRandom Forest SRC: random forests for survival, regression and classification\n\t\t\n\t\t\tHIshwaran\n\t\t\n\t\t\n\t\t\tUKogalur\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c611877723bebd86683b13"},"refKey":31},
{"_key":"60c611fa7723bebd86683b69","_id":"references/60c611fa7723bebd86683b69","_rev":"_cfFltn2---","tei":"\n\t\n\t\tEpidemiological and clinical characteristics of 99 cases of 2019 novel coronavirus pneumonia in Wuhan, China: a descriptive study\n\t\t\n\t\t\tNChen\n\t\t\n\t\n\t\n\t\tLancet\n\t\t\n\t\t\t6736\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c611fa7723bebd86683b68"},"refKey":7},
{"_key":"60c611fa7723bebd86683b6a","_id":"references/60c611fa7723bebd86683b6a","_rev":"_cfFltoC---","tei":"\n\t\n\t\tFeature Hashing for Large Scale Multitask Learning\n\t\t\n\t\t\tKWeinberger\n\t\t\n\t\t\n\t\t\tADasgupta\n\t\t\n\t\t\n\t\t\tJAttenberg\n\t\t\n\t\t\n\t\t\tJLangford\n\t\t\n\t\t\n\t\t\tASmola\n\t\t\n\t\n\t\n\t\tProc. 26th Int. Conf. Mach. Learn. ICML\n\t\t\t\t26th Int. Conf. Mach. Learn. ICML\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c611fa7723bebd86683b68"},"refKey":8},
{"_key":"60c612097723bebd86683b7f","_id":"references/60c612097723bebd86683b7f","_rev":"_cfFltoO---","tei":"\n\t\n\t\tProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMWiederstein\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t35\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c612097723bebd86683b7e"},"refKey":22},
{"_key":"60c612097723bebd86683b80","_id":"references/60c612097723bebd86683b80","_rev":"_cfFltoW---","tei":"\n\t\n\t\tVERIFY3D: assessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\t\n\t\t\tRLu ¨thy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\n\t\n\t\tMethods in enzymology\n\t\tAbelson J, Simon M, Verdine G, Pyle A\n\t\t\n\t\t\t277\n\t\t\t\n\t\t\t\n\t\t\tAcademic Press\n\t\t\n\t\n\n","document":{"$oid":"60c612097723bebd86683b7e"},"refKey":5},
{"_key":"60c612097723bebd86683b81","_id":"references/60c612097723bebd86683b81","_rev":"_cfFltoi---","tei":"\n\t\n\t\tDefining and searching for structural motifs using DeepView/Swiss-PdbViewer\n\t\t\n\t\t\tMUJohansson\n\t\t\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\t\n\t\t\tNGuex\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t13\n\t\t\t173\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c612097723bebd86683b7e"},"refKey":9},
{"_key":"60c612097723bebd86683b82","_id":"references/60c612097723bebd86683b82","_rev":"_cfFltou---","tei":"\n\t\n\t\tRemdesivir and chloroquine effectively inhibit the recently emerged novel coronavirus (2019-nCoV) in vitro\n\t\t\n\t\t\tMWang\n\t\t\n\t\t\n\t\t\tRCao\n\t\t\n\t\t\n\t\t\tLZhang\n\t\t\n\t\t\n\t\t\tXYang\n\t\t\n\t\t\n\t\t\tJLiu\n\t\t\n\t\t\n\t\t\tMXu\n\t\t\n\t\t\n\t\t\tZShi\n\t\t\n\t\t\n\t\t\tZHu\n\t\t\n\t\t\n\t\t\tWZhong\n\t\t\n\t\t\n\t\t\tGXiao\n\t\t\n\t\n\t\n\t\tCell Res\n\t\t\n\t\t\t30\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c612097723bebd86683b7e"},"refKey":20},
{"_key":"60c612097723bebd86683b83","_id":"references/60c612097723bebd86683b83","_rev":"_cfFlto6---","tei":"\n\t\n\t\tPRO-CHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c612097723bebd86683b7e"},"refKey":11},
{"_key":"60c612097723bebd86683b84","_id":"references/60c612097723bebd86683b84","_rev":"_cfFltpG---","tei":"\n\t\n\t\tAutomated docking of substrates to proteins by simulated annealing\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/prot.340080302\n\t\t2281083\n\t\tark:/67375/WNG-CTQVVR74-8\n\t\t94B8E799D94832DF9F28BA01A09B45A677C34765\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c612097723bebd86683b7e"},"refKey":6},
{"_key":"60c612097723bebd86683b85","_id":"references/60c612097723bebd86683b85","_rev":"_cfFltpO---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using clustal omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSo ¨ding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\n\t\n\t\tMol Syst Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c612097723bebd86683b7e"},"refKey":18},
{"_key":"60c6120e7723bebd86683ba1","_id":"references/60c6120e7723bebd86683ba1","_rev":"_cfFltpa---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tDeLano Scientific\n\t\t\tPalo Alto, CA\n\t\t\n\t\n\n","document":{"$oid":"60c6120e7723bebd86683ba0"},"refKey":22},
{"_key":"60c6120e7723bebd86683ba2","_id":"references/60c6120e7723bebd86683ba2","_rev":"_cfFltpm---","tei":"\n\t\n\t\tUCSF Chimera: a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6120e7723bebd86683ba0"},"refKey":23},
{"_key":"60c612487723bebd86683bc3","_id":"references/60c612487723bebd86683bc3","_rev":"_cfFltpy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tHSugawara\n\t\t\n\t\t\n\t\t\tTKoike\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t3497\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c612487723bebd86683bc2"},"refKey":13},
{"_key":"60c612b17723bebd86683bee","_id":"references/60c612b17723bebd86683bee","_rev":"_cfFltq----","tei":"\n\t\n\t\t\n\t\tThe R Project for Statistical Computing\n\t\t\t\t\n\t\n\tcited 9 Oct 2020\n\n","document":{"$oid":"60c612b17723bebd86683bed"},"refKey":8},
{"_key":"60c612b17723bebd86683bef","_id":"references/60c612b17723bebd86683bef","_rev":"_cfFltqK---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tShiny\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c612b17723bebd86683bed"},"refKey":6},
{"_key":"60c612b17723bebd86683bf0","_id":"references/60c612b17723bebd86683bf0","_rev":"_cfFltqS---","tei":"\n\t\n\t\tStreamlined Plot Theme and Plot Annotations for "ggplot2\n\t\t\n\t\t\tCOWilke\n\t\t\n\t\t\n\t\t\n\t\t\t2020\n\t\t\n\t\n\tR package cowplot version 1.1.0. cited 9 Oct 2020\n\n","document":{"$oid":"60c612b17723bebd86683bed"},"refKey":10},
{"_key":"60c612cb7723bebd86683c0b","_id":"references/60c612cb7723bebd86683c0b","_rev":"_cfFltqe---","tei":"\n\t\n\t\t2014 National Emissions Inventory Report." 30. Census Regions and Divisions of the United States\n\t\t\n\t\t\tJTAbatzoglou\n\t\t\n\t\t\n\t\n\t\n\t\tInt. J. Climatol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tDevelopment of gridded surface meteorological data for ecological applications and modelling\n\n","document":{"$oid":"60c612cb7723bebd86683c0a"},"refKey":27},
{"_key":"60c613387723bebd86683c27","_id":"references/60c613387723bebd86683c27","_rev":"_cfFltqq---","tei":"\n\t\n\t\tQuick-and-clean article figures with FigureJ\n\t\t\n\t\t\tJMutterer\n\t\t\n\t\t\n\t\t\tEZinck\n\t\t\n\t\t10.1111/jmi.12069\n\t\t23906423\n\t\n\t\n\t\tJournal of Microscopy\n\t\tJournal of Microscopy\n\t\t0022-2720\n\t\t\n\t\t\t252\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c613387723bebd86683c26"},"refKey":22},
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{"_key":"60c6133a7723bebd86683c39","_id":"references/60c6133a7723bebd86683c39","_rev":"_cfFltr----","tei":"\n\t\n\t\tExtracting biological meaning from large gene lists with DAVID\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tXZheng\n\t\t\n\t\t\n\t\t\tJYang\n\t\t\n\t\t\n\t\t\tTImamichi\n\t\t\n\t\t\n\t\t\tRStephens\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\t13.11\n\t\n\t\n\t\tCurr. Protoc. Bioinformatics Chapter\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6133a7723bebd86683c37"},"refKey":35},
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{"_key":"60c616287723bebd86683da3","_id":"references/60c616287723bebd86683da3","_rev":"_cfFltvy---","tei":"\n\t\n\t\tUltrafast and memoryefficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t10\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c616287723bebd86683da1"},"refKey":43},
{"_key":"60c616287723bebd86683da4","_id":"references/60c616287723bebd86683da4","_rev":"_cfFltw----","tei":"\n\t\n\t\tMEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c616287723bebd86683da1"},"refKey":45},
{"_key":"60c6162d7723bebd86683daf","_id":"references/60c6162d7723bebd86683daf","_rev":"_cfFltwK---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t10.1093/nar/gkg595\n\t\t12824337\n\t\tPMC169194\n\t\tark:/67375/HXZ-CTS3N10R-1\n\t\tF1A174A592D046D94F933F3C8A3EC56E88054798\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6162d7723bebd86683dae"},"refKey":106},
{"_key":"60c6162d7723bebd86683db0","_id":"references/60c6162d7723bebd86683db0","_rev":"_cfFltwW---","tei":"\n\t\n\t\tCMfinder--a covariance model based RNA motif finding algorithm\n\t\t\n\t\t\tZYao\n\t\t\n\t\t\n\t\t\tZWeinberg\n\t\t\n\t\t\n\t\t\tWLRuzzo\n\t\t\n\t\t10.1093/bioinformatics/btk008\n\t\t16357030\n\t\tark:/67375/HXZ-WHVQBMRM-8\n\t\tC0D2DF2CAA7B8880DF760E0D2721417AFCB9172A\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6162d7723bebd86683dae"},"refKey":108},
{"_key":"60c6162d7723bebd86683db1","_id":"references/60c6162d7723bebd86683db1","_rev":"_cfFltwe---","tei":"\n\t\n\t\tVienna RNA secondary structure server\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t10.1093/nar/gkg599\n\t\t12824340\n\t\tPMC169005\n\t\tark:/67375/HXZ-HNC9HZWP-J\n\t\t8DDA80BB66A3C49E8D06B97FD478DF6F1B338419\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6162d7723bebd86683dae"},"refKey":107},
{"_key":"60c6162d7723bebd86683db2","_id":"references/60c6162d7723bebd86683db2","_rev":"_cfFltwq---","tei":"\n\t\n\t\tTranscript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tBrianAWilliams\n\t\t\n\t\t\n\t\t\tGeoPertea\n\t\t\n\t\t\n\t\t\tAliMortazavi\n\t\t\n\t\t\n\t\t\tGordonKwan\n\t\t\n\t\t\n\t\t\tMarijkeJVan Baren\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t\n\t\t\tBarbaraJWold\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nbt.1621\n\t\t20436464\n\t\tPMC3146043\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t28\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6162d7723bebd86683dae"},"refKey":66},
{"_key":"60c6162d7723bebd86683db3","_id":"references/60c6162d7723bebd86683db3","_rev":"_cfFltw2---","tei":"\n\t\n\t\tFull-length transcriptome assembly from RNA-Seq data without a reference genome\n\t\t\n\t\t\tManfredGGrabherr\n\t\t\n\t\t\n\t\t\tBrianJHaas\n\t\t\n\t\t\n\t\t\tMoranYassour\n\t\t\n\t\t\n\t\t\tJoshuaZLevin\n\t\t\n\t\t\n\t\t\tDawnAThompson\n\t\t\n\t\t\n\t\t\tIdoAmit\n\t\t\n\t\t\n\t\t\tXianAdiconis\n\t\t\n\t\t\n\t\t\tLinFan\n\t\t\n\t\t\n\t\t\tRaktimaRaychowdhury\n\t\t\n\t\t\n\t\t\tQiandongZeng\n\t\t\n\t\t\n\t\t\tZehuaChen\n\t\t\n\t\t\n\t\t\tEvanMauceli\n\t\t\n\t\t\n\t\t\tNirHacohen\n\t\t\n\t\t\n\t\t\tAndreasGnirke\n\t\t\n\t\t\n\t\t\tNicholasRhind\n\t\t\n\t\t\n\t\t\tFedericaDi Palma\n\t\t\n\t\t\n\t\t\tBruceWBirren\n\t\t\n\t\t\n\t\t\tChadNusbaum\n\t\t\n\t\t\n\t\t\tKerstinLindblad-Toh\n\t\t\n\t\t\n\t\t\tNirFriedman\n\t\t\n\t\t\n\t\t\tAvivRegev\n\t\t\n\t\t10.1038/nbt.1883\n\t\t21572440\n\t\tPMC3571712\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6162d7723bebd86683dae"},"refKey":69},
{"_key":"60c6162d7723bebd86683db4","_id":"references/60c6162d7723bebd86683db4","_rev":"_cfFltxC---","tei":"\n\t\n\t\tDe novo assembly and analysis of RNA-seq data\n\t\t\n\t\t\tGordonRobertson\n\t\t\n\t\t\n\t\t\tJacquelineSchein\n\t\t\n\t\t\n\t\t\tReadmanChiu\n\t\t\n\t\t\n\t\t\tRichardCorbett\n\t\t\n\t\t\n\t\t\tMatthewField\n\t\t\n\t\t\n\t\t\tShaunDJackman\n\t\t\n\t\t\n\t\t\tKarenMungall\n\t\t\n\t\t\n\t\t\tSamLee\n\t\t\n\t\t\n\t\t\tHisanagaMarkOkada\n\t\t\n\t\t\n\t\t\tJennyQQian\n\t\t\n\t\t\n\t\t\tMalachiGriffith\n\t\t\n\t\t\n\t\t\tAnthonyRaymond\n\t\t\n\t\t\n\t\t\tNinaThiessen\n\t\t\n\t\t\n\t\t\tTimotheeCezard\n\t\t\n\t\t\n\t\t\tYaronSButterfield\n\t\t\n\t\t\n\t\t\tRichardNewsome\n\t\t\n\t\t\n\t\t\tSimonKChan\n\t\t\n\t\t\n\t\t\tRongShe\n\t\t\n\t\t\n\t\t\tRichardVarhol\n\t\t\n\t\t\n\t\t\tBaljitKamoh\n\t\t\n\t\t\n\t\t\tAnna-LiisaPrabhu\n\t\t\n\t\t\n\t\t\tAngelaTam\n\t\t\n\t\t\n\t\t\tYongjunZhao\n\t\t\n\t\t\n\t\t\tRichardAMoore\n\t\t\n\t\t\n\t\t\tMartinHirst\n\t\t\n\t\t\n\t\t\tMarcoAMarra\n\t\t\n\t\t\n\t\t\tStevenJ MJones\n\t\t\n\t\t\n\t\t\tPamelaAHoodless\n\t\t\n\t\t\n\t\t\tInancBirol\n\t\t\n\t\t10.1038/nmeth.1517\n\t\t20935650\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t7\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6162d7723bebd86683dae"},"refKey":77},
{"_key":"60c6162d7723bebd86683db5","_id":"references/60c6162d7723bebd86683db5","_rev":"_cfFltxO---","tei":"\n\t\n\t\tGenome-Wide Identification of Long Noncoding RNAs in Human Intervertebral Disc Degeneration by RNA Sequencing\n\t\t\n\t\t\tBoZhao\n\t\t\n\t\t\n\t\t\tMinjuanLu\n\t\t\n\t\t\n\t\t\tDongWang\n\t\t\n\t\t\n\t\t\tHaopengLi\n\t\t\n\t\t\n\t\t\tXijingHe\n\t\t\t0000-0002-4237-6925\n\t\t\n\t\t10.1155/2016/3684875\n\t\t28097131\n\t\tPMC5206422\n\t\t\n\t\n\t\n\t\tBioMed Research International\n\t\tBioMed Research International\n\t\t2314-6133\n\t\t2314-6141\n\t\t\n\t\t\t2016\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6162d7723bebd86683dae"},"refKey":70},
{"_key":"60c6162d7723bebd86683db6","_id":"references/60c6162d7723bebd86683db6","_rev":"_cfFltxW---","tei":"\n\t\n\t\tLncRNApred: Classification of Long Non-Coding RNAs and Protein-Coding Transcripts by the Ensemble Algorithm with a New Hybrid Feature\n\t\t\n\t\t\tCongPian\n\t\t\n\t\t\n\t\t\tGuangleZhang\n\t\t\n\t\t\n\t\t\tZhiChen\n\t\t\n\t\t\n\t\t\tYuanyuanChen\n\t\t\n\t\t\n\t\t\tJinZhang\n\t\t\n\t\t\n\t\t\tTaoYang\n\t\t\n\t\t\n\t\t\tLiangyunZhang\n\t\t\n\t\t10.1371/journal.pone.0154567\n\t\t27228152\n\t\tPMC4882039\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t11\n\t\t\t5\n\t\t\te0154567\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6162d7723bebd86683dae"},"refKey":74},
{"_key":"60c6162d7723bebd86683db7","_id":"references/60c6162d7723bebd86683db7","_rev":"_cfFltxi---","tei":"\n\t\n\t\tDiscovery and functional characterization of cardiovascular long noncoding RNAs\n\t\t\n\t\t\tSamirOunzain\n\t\t\n\t\t\n\t\t\tFrédéricBurdet\n\t\t\n\t\t\n\t\t\tMarkIbberson\n\t\t\t0000-0003-3152-5670\n\t\t\n\t\t\n\t\t\tThierryPedrazzini\n\t\t\n\t\t10.1016/j.yjmcc.2015.09.013\n\t\t26408097\n\t\n\t\n\t\tJournal of Molecular and Cellular Cardiology\n\t\tJournal of Molecular and Cellular Cardiology\n\t\t0022-2828\n\t\t\n\t\t\t89\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6162d7723bebd86683dae"},"refKey":75},
{"_key":"60c6162d7723bebd86683db8","_id":"references/60c6162d7723bebd86683db8","_rev":"_cfFltxu---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1073/pnas.0506580102\n\t\t16199517\n\t\tPMC1239896\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t102\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6162d7723bebd86683dae"},"refKey":90},
{"_key":"60c6162e7723bebd86683dce","_id":"references/60c6162e7723bebd86683dce","_rev":"_cfFltx6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tANBarbeira\n\t\t\n\t\t\n\t\t\tSPDickinson\n\t\t\n\t\t\n\t\t\tRBonazzola\n\t\t\n\t\t\n\t\t\tJZheng\n\t\t\n\t\t\n\t\t\tHEWheeler\n\t\t\n\t\t\n\t\t\tJMTorres\n\t\t\n\t\t\n\t\t\tESTorstenson\n\t\t\n\t\t\n\t\t\tKPShah\n\t\t\n\t\t\n\t\t\tT\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6162e7723bebd86683dcd"},"refKey":80},
{"_key":"60c6162e7723bebd86683dcf","_id":"references/60c6162e7723bebd86683dcf","_rev":"_cfFltyG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRJPruim\n\t\t\n\t\t\n\t\t\tRPWelch\n\t\t\n\t\t\n\t\t\tSSanna\n\t\t\n\t\t\n\t\t\tTMTeslovich\n\t\t\n\t\t\n\t\t\tPSChines\n\t\t\n\t\t\n\t\t\tTPGliedt\n\t\t\n\t\t\n\t\t\tMBoehnke\n\t\t\n\t\t\n\t\t\tGRAbecasis\n\t\t\n\t\t\n\t\t\tCJWiller\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t2336\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6162e7723bebd86683dcd"},"refKey":73},
{"_key":"60c6162e7723bebd86683dd0","_id":"references/60c6162e7723bebd86683dd0","_rev":"_cfFltyS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tCJWiller\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tGRAbecasis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t2190\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6162e7723bebd86683dcd"},"refKey":72},
{"_key":"60c616497723bebd86683de8","_id":"references/60c616497723bebd86683de8","_rev":"_cfFltya---","tei":"\n\t\n\t\tGraph-based genome alignment and genotyping with HISAT2 and HISAT-genotype\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tJMPaggi\n\t\t\n\t\t\n\t\t\tCPark\n\t\t\n\t\t\n\t\t\tCBennett\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t10.1038/s41587-019-0201-4\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t37\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":37},
{"_key":"60c616497723bebd86683de9","_id":"references/60c616497723bebd86683de9","_rev":"_cfFltym---","tei":"\n\t\n\t\trDock: A Fast, Versatile and Open Source Program for Docking Ligands to Proteins and Nucleic Acids\n\t\t\n\t\t\tSergioRuiz-Carmona\n\t\t\n\t\t\n\t\t\tDanielAlvarez-Garcia\n\t\t\n\t\t\n\t\t\tNicolasFoloppe\n\t\t\n\t\t\n\t\t\tABeatrizGarmendia-Doval\n\t\t\n\t\t\n\t\t\tSzilveszterJuhos\n\t\t\n\t\t\n\t\t\tPeterSchmidtke\n\t\t\n\t\t\n\t\t\tXavierBarril\n\t\t\n\t\t\n\t\t\tRoderickEHubbard\n\t\t\n\t\t\n\t\t\tSDavidMorley\n\t\t\n\t\t10.1371/journal.pcbi.1003571\n\t\t24722481\n\t\tPMC3983074\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\te1003571\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":59},
{"_key":"60c616497723bebd86683dea","_id":"references/60c616497723bebd86683dea","_rev":"_cfFltyy---","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 1. Method and Assessment of Docking Accuracy\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tJayLBanks\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tJasnaJKlicic\n\t\t\n\t\t\n\t\t\tDanielTMainz\n\t\t\n\t\t\n\t\t\tMatthewPRepasky\n\t\t\n\t\t\n\t\t\tEricHKnoll\n\t\t\n\t\t\n\t\t\tMeeShelley\n\t\t\n\t\t\n\t\t\tJasonKPerry\n\t\t\n\t\t\n\t\t\tDavidEShaw\n\t\t\n\t\t\n\t\t\tPerryFrancis\n\t\t\n\t\t\n\t\t\tPeterSShenkin\n\t\t\n\t\t10.1021/jm0306430\n\t\t15027865\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":61},
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{"_key":"60c616497723bebd86683dec","_id":"references/60c616497723bebd86683dec","_rev":"_cfFltzK---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tAlexanderDobin\n\t\t\n\t\t\n\t\t\tCarrieADavis\n\t\t\n\t\t\n\t\t\tFelixSchlesinger\n\t\t\n\t\t\n\t\t\tJorgDrenkow\n\t\t\n\t\t\n\t\t\tChrisZaleski\n\t\t\n\t\t\n\t\t\tSonaliJha\n\t\t\n\t\t\n\t\t\tPhilippeBatut\n\t\t\n\t\t\n\t\t\tMarkChaisson\n\t\t\n\t\t\n\t\t\tThomasRGingeras\n\t\t\n\t\t10.1093/bioinformatics/bts635\n\t\t23104886\n\t\tPMC3530905\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":36},
{"_key":"60c616497723bebd86683ded","_id":"references/60c616497723bebd86683ded","_rev":"_cfFltzW---","tei":"\n\t\n\t\tEfficient de novo assembly of large genomes using compressed data structures\n\t\t\n\t\t\tJTSimpson\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1101/gr.126953.111\n\t\t22156294\n\t\tPMC3290790\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t22\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":16},
{"_key":"60c616497723bebd86683dee","_id":"references/60c616497723bebd86683dee","_rev":"_cfFltzi---","tei":"\n\t\n\t\tMEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices\n\t\t\n\t\t\tDinghuaLi\n\t\t\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tChi-ManLiu\n\t\t\n\t\t\n\t\t\tChi-MingLeung\n\t\t\n\t\t\n\t\t\tHing-FungTing\n\t\t\n\t\t\n\t\t\tKunihikoSadakane\n\t\t\n\t\t\n\t\t\tHiroshiYamashita\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t10.1016/j.ymeth.2016.02.020\n\t\t27012178\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":22},
{"_key":"60c616497723bebd86683def","_id":"references/60c616497723bebd86683def","_rev":"_cfFltzy---","tei":"\n\t\n\t\tSOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tBinghangLiu\n\t\t\n\t\t\n\t\t\tYinlongXie\n\t\t\n\t\t\n\t\t\tZhenyuLi\n\t\t\n\t\t\n\t\t\tWeihuaHuang\n\t\t\n\t\t\n\t\t\tJianyingYuan\n\t\t\n\t\t\n\t\t\tGuangzhuHe\n\t\t\n\t\t\n\t\t\tYanxiangChen\n\t\t\n\t\t\n\t\t\tQiPan\n\t\t\n\t\t\n\t\t\tYunjieLiu\n\t\t\n\t\t\n\t\t\tJingboTang\n\t\t\n\t\t\n\t\t\tGengxiongWu\n\t\t\n\t\t\n\t\t\tHaoZhang\n\t\t\n\t\t\n\t\t\tYujianShi\n\t\t\n\t\t\n\t\t\tYongLiu\n\t\t\n\t\t\n\t\t\tChangYu\n\t\t\n\t\t\n\t\t\tBoWang\n\t\t\n\t\t\n\t\t\tYaoLu\n\t\t\n\t\t\n\t\t\tChangleiHan\n\t\t\n\t\t\n\t\t\tDavidWCheung\n\t\t\n\t\t\n\t\t\tSiu-MingYiu\n\t\t\n\t\t\n\t\t\tShaoliangPeng\n\t\t\n\t\t\n\t\t\tZhuXiaoqian\n\t\t\n\t\t\n\t\t\tGuangmingLiu\n\t\t\n\t\t\n\t\t\tXiangkeLiao\n\t\t\n\t\t\n\t\t\tYingruiLi\n\t\t\n\t\t\n\t\t\tHuanmingYang\n\t\t\n\t\t\n\t\t\tJianWang\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t\n\t\t\tJunWang\n\t\t\n\t\t10.1186/2047-217x-1-18\n\t\t23587118\n\t\tPMC3626529\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\tGigaSci\n\t\t2047-217X\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":17},
{"_key":"60c616497723bebd86683df0","_id":"references/60c616497723bebd86683df0","_rev":"_cfFlt0----","tei":"\n\t\n\t\tABySS 2.0: resource-efficient assembly of large genomes using a Bloom filter\n\t\t\n\t\t\tShaunDJackman\n\t\t\n\t\t\n\t\t\tBenjaminPVandervalk\n\t\t\n\t\t\n\t\t\tHamidMohamadi\n\t\t\n\t\t\n\t\t\tJustinChu\n\t\t\n\t\t\n\t\t\tSarahYeo\n\t\t\n\t\t\n\t\t\tSAustinHammond\n\t\t\n\t\t\n\t\t\tGolnazJahesh\n\t\t\n\t\t\n\t\t\tHamzaKhan\n\t\t\n\t\t\n\t\t\tLaurenCoombe\n\t\t\n\t\t\n\t\t\tReneLWarren\n\t\t\n\t\t\n\t\t\tInancBirol\n\t\t\n\t\t10.1101/gr.214346.116\n\t\t28232478\n\t\tPMC5411771\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t27\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":21},
{"_key":"60c616497723bebd86683df1","_id":"references/60c616497723bebd86683df1","_rev":"_cfFlt0K---","tei":"\n\t\n\t\tMicrosoft's Cloud Infrastructure, Datacenters and Network Fact Sheet\n\t\t\n\t\t\tMicrosoft\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tMicrosoft Corporation\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":64},
{"_key":"60c616497723bebd86683df2","_id":"references/60c616497723bebd86683df2","_rev":"_cfFlt0a---","tei":"\n\t\n\t\tBEAGLE: An Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics\n\t\t\n\t\t\tDanielLAyres\n\t\t\n\t\t\n\t\t\tAaronDarling\n\t\t\n\t\t\n\t\t\tDerrickJZwickl\n\t\t\n\t\t\n\t\t\tPeterBeerli\n\t\t\n\t\t\n\t\t\tMarkTHolder\n\t\t\n\t\t\n\t\t\tPaulOLewis\n\t\t\n\t\t\n\t\t\tJohnPHuelsenbeck\n\t\t\n\t\t\n\t\t\tFredrikRonquist\n\t\t\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tMichaelPCummings\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syr100\n\t\t21963610\n\t\tPMC3243739\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t61\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":33},
{"_key":"60c616497723bebd86683df3","_id":"references/60c616497723bebd86683df3","_rev":"_cfFlt0m---","tei":"\n\t\n\t\tTopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tGeoPertea\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tRyanKelley\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2013-14-4-r36\n\t\t23618408\n\t\tPMC4053844\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\tR36\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":38},
{"_key":"60c616497723bebd86683df4","_id":"references/60c616497723bebd86683df4","_rev":"_cfFlt02---","tei":"\n\t\n\t\tMixed-model association for biobank-scale datasets\n\t\t\n\t\t\tPo-RuLoh\n\t\t\t0000-0001-5542-9064\n\t\t\n\t\t\n\t\t\tGlebKichaev\n\t\t\n\t\t\n\t\t\tStevenGazal\n\t\t\t0000-0003-4510-5730\n\t\t\n\t\t\n\t\t\tArminPSchoech\n\t\t\n\t\t\n\t\t\tAlkesLPrice\n\t\t\t0000-0002-2971-7975\n\t\t\n\t\t10.1038/s41588-018-0144-6\n\t\t29892013\n\t\tPMC6309610\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t50\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":49},
{"_key":"60c616497723bebd86683df5","_id":"references/60c616497723bebd86683df5","_rev":"_cfFlt1C---","tei":"\n\t\n\t\tThe Amber biomolecular simulation programs\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tThomasECheatham\n\t\t\n\t\t\n\t\t\tTomDarden\n\t\t\n\t\t\n\t\t\tHolgerGohlke\n\t\t\n\t\t\n\t\t\tRayLuo\n\t\t\n\t\t\n\t\t\tKennethMMerz\n\t\t\n\t\t\n\t\t\tAlexeyOnufriev\n\t\t\n\t\t\n\t\t\tCarlosSimmerling\n\t\t\n\t\t\n\t\t\tBingWang\n\t\t\n\t\t\n\t\t\tRobertJWoods\n\t\t\n\t\t10.1002/jcc.20290\n\t\t16200636\n\t\tPMC1989667\n\t\tark:/67375/WNG-SM7M10M5-T\n\t\t96193A43CE477101A1574AF2E58893F449F4F999\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c616497723bebd86683de7"},"refKey":57},
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{"_key":"60c616c07723bebd86683e87","_id":"references/60c616c07723bebd86683e87","_rev":"_cfFlt2W---","tei":"\n\t\n\t\tTimeTree: A Resource for Timelines, Timetrees, and Divergence Times\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelSuleski\n\t\t\n\t\t\n\t\t\tSBlairHedges\n\t\t\n\t\t10.1093/molbev/msx116\n\t\t28387841\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t34\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c616c07723bebd86683e85"},"refKey":27},
{"_key":"60c617117723bebd86683eb8","_id":"references/60c617117723bebd86683eb8","_rev":"_cfFlt2i---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c617117723bebd86683eb7"},"refKey":46},
{"_key":"60c617117723bebd86683eb9","_id":"references/60c617117723bebd86683eb9","_rev":"_cfFlt2u---","tei":"\n\t\n\t\tFastUniq: A Fast De Novo Duplicates Removal Tool for Paired Short Reads\n\t\t\n\t\t\tHaibinXu\n\t\t\n\t\t\n\t\t\tXiangLuo\n\t\t\n\t\t\n\t\t\tJunQian\n\t\t\n\t\t\n\t\t\tXiaohuiPang\n\t\t\n\t\t\n\t\t\tJingyuanSong\n\t\t\n\t\t\n\t\t\tGuangruiQian\n\t\t\n\t\t\n\t\t\tJinhuiChen\n\t\t\n\t\t\n\t\t\tShilinChen\n\t\t\n\t\t10.1371/journal.pone.0052249\n\t\t23284954\n\t\tPMC3527383\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t7\n\t\t\t12\n\t\t\te52249\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c617117723bebd86683eb7"},"refKey":43},
{"_key":"60c617117723bebd86683eba","_id":"references/60c617117723bebd86683eba","_rev":"_cfFlt26---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c617117723bebd86683eb7"},"refKey":44},
{"_key":"60c617117723bebd86683ebb","_id":"references/60c617117723bebd86683ebb","_rev":"_cfFlt3G---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c617117723bebd86683eb7"},"refKey":45},
{"_key":"60c617167723bebd86683ec2","_id":"references/60c617167723bebd86683ec2","_rev":"_cfFlt3S---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617167723bebd86683ec1"},"refKey":6},
{"_key":"60c617167723bebd86683ec3","_id":"references/60c617167723bebd86683ec3","_rev":"_cfFlt3e---","tei":"\n\t\n\t\tBiopython: freely available Python tools for computational molecular biology and bioinformatics\n\t\t\n\t\t\tMBalaban\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPLoS One\n\n","document":{"$oid":"60c617167723bebd86683ec1"},"refKey":0},
{"_key":"60c617167723bebd86683ec4","_id":"references/60c617167723bebd86683ec4","_rev":"_cfFlt3q---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004. 2012\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\tNat. Methods\n\n","document":{"$oid":"60c617167723bebd86683ec1"},"refKey":2},
{"_key":"60c617167723bebd86683ec5","_id":"references/60c617167723bebd86683ec5","_rev":"_cfFlt32---","tei":"\n\t\n\t\tClustal Omega, accurate alignment of very large numbers of sequences\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tMethods Mol. Biol\n\t\t\n\t\t\t1079\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617167723bebd86683ec1"},"refKey":11},
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{"_key":"60c6171d7723bebd86683ef7","_id":"references/60c6171d7723bebd86683ef7","_rev":"_cfFlt4K---","tei":"\n\t\n\t\tRegularization paths for generalized linear models via coordinate descent\n\t\t\n\t\t\tJFriedman\n\t\t\n\t\t\n\t\t\tTHastie\n\t\t\n\t\t\n\t\t\tRTibshirani\n\t\t\n\t\t20808728\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6171d7723bebd86683ef5"},"refKey":18},
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{"_key":"60c617297723bebd86683f05","_id":"references/60c617297723bebd86683f05","_rev":"_cfFlt4i---","tei":"\n\t\n\t\tMultiple sequence alignment with the Clustal series of programs\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tHSugawara\n\t\t\n\t\t\n\t\t\tTKoike\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617297723bebd86683f04"},"refKey":5},
{"_key":"60c617297723bebd86683f06","_id":"references/60c617297723bebd86683f06","_rev":"_cfFlt4u---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617297723bebd86683f04"},"refKey":27},
{"_key":"60c617297723bebd86683f07","_id":"references/60c617297723bebd86683f07","_rev":"_cfFlt46---","tei":"\n\t\n\t\tMODELTEST: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617297723bebd86683f04"},"refKey":40},
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{"_key":"60c617517723bebd86683f17","_id":"references/60c617517723bebd86683f17","_rev":"_cfFlt5O---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t\n\t\t\tCLundegaard\n\t\t\n\t\t\n\t\t\tPWorning\n\t\t\n\t\t\n\t\t\tSLLauemøller\n\t\t\n\t\t\n\t\t\tKLamberth\n\t\t\n\t\t\n\t\t\tSBuus\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t12\n\t\t\t1007\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617517723bebd86683f15"},"refKey":79},
{"_key":"60c617517723bebd86683f18","_id":"references/60c617517723bebd86683f18","_rev":"_cfFlt5a---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tTNPetersen\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGHeijne\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t8\n\t\t\t785\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617517723bebd86683f15"},"refKey":76},
{"_key":"60c617627723bebd86683f25","_id":"references/60c617627723bebd86683f25","_rev":"_cfFlt5m---","tei":"\n\t\n\t\tLinear mixed effects models using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMächler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617627723bebd86683f24"},"refKey":1},
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{"_key":"60c6177f7723bebd86683f40","_id":"references/60c6177f7723bebd86683f40","_rev":"_cfFlt56---","tei":"\n\t\n\t\tQvalue: Q-Value Estimation for False Discovery Rate Control\n\t\t\n\t\t\tJDStorey\n\t\t\n\t\t\n\t\t\tAJBass\n\t\t\n\t\t\n\t\t\tADabney\n\t\t\n\t\t\n\t\t\tRDavid\n\t\t\n\t\t\n\t\t\n\t\n\tR Package Version 2.20.0.; 2020.\n\n","document":{"$oid":"60c6177f7723bebd86683f3f"},"refKey":14},
{"_key":"60c6177f7723bebd86683f41","_id":"references/60c6177f7723bebd86683f41","_rev":"_cfFlt6G---","tei":"\n\t\n\t\tGAGE: generally applicable gene set enrichment for pathway analysis\n\t\t\n\t\t\tWeijunLuo\n\t\t\n\t\t\n\t\t\tMichaelSFriedman\n\t\t\n\t\t\n\t\t\tKerbyShedden\n\t\t\n\t\t\n\t\t\tKurtDHankenson\n\t\t\n\t\t\n\t\t\tPeterJWoolf\n\t\t\n\t\t10.1186/1471-2105-10-161\n\t\t19473525\n\t\tPMC2696452\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t161\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6177f7723bebd86683f3f"},"refKey":15},
{"_key":"60c6177f7723bebd86683f42","_id":"references/60c6177f7723bebd86683f42","_rev":"_cfFlt6S---","tei":"\n\t\n\t\tTCGAutils: TCGA Utility Functions for Data Management\n\t\t\n\t\t\tMRamos\n\t\t\n\t\t\n\t\t\tLSchiffer\n\t\t\n\t\t\n\t\t\tLWaldron\n\t\t\n\t\t\n\t\n\tR Package Version 1.8.0.; 2020.\n\n","document":{"$oid":"60c6177f7723bebd86683f3f"},"refKey":12},
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{"_key":"60c6179b7723bebd86683f64","_id":"references/60c6179b7723bebd86683f64","_rev":"_cfFlt7----","tei":"\n\t\n\t\tMetascape provides a biologist-oriented resource for the analysis of systems-level datasets\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tLPache\n\t\t\n\t\t\n\t\t\tMChang\n\t\t\n\t\t\n\t\t\tAHKhodabakhshi\n\t\t\n\t\t\n\t\t\tOTanaseichuk\n\t\t\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t1523\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6179b7723bebd86683f62"},"refKey":75},
{"_key":"60c6179b7723bebd86683f65","_id":"references/60c6179b7723bebd86683f65","_rev":"_cfFlt7K---","tei":"\n\t\n\t\tInterferome v2.0: an updated database of annotated interferon-regulated genes\n\t\t\n\t\t\tIRusinova\n\t\t\n\t\t\n\t\t\tSForster\n\t\t\n\t\t\n\t\t\tSYu\n\t\t\n\t\t\n\t\t\tAKannan\n\t\t\n\t\t\n\t\t\tMMasse\n\t\t\n\t\t\n\t\t\tHCumming\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6179b7723bebd86683f62"},"refKey":31},
{"_key":"60c617b87723bebd86683f86","_id":"references/60c617b87723bebd86683f86","_rev":"_cfFlt7S---","tei":"\n\t\n\t\tAdvances in Group-Based Trajectory Modeling and an SAS Procedure for Estimating Them\n\t\t\n\t\t\tBLJones\n\t\t\n\t\t\n\t\t\tDSNagin\n\t\t\n\t\t\n\t\n\t\n\t\tSociol. Methods. Res\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617b87723bebd86683f85"},"refKey":23},
{"_key":"60c617b87723bebd86683f87","_id":"references/60c617b87723bebd86683f87","_rev":"_cfFlt7e---","tei":"\n\t\n\t\tA SAS Procedure Based on Mixture Models for Estimating Developmental Trajectories\n\t\t\n\t\t\tBLJones\n\t\t\n\t\t\n\t\t\tDSNagin\n\t\t\n\t\t\n\t\t\tKRoeder\n\t\t\n\t\t\n\t\n\t\n\t\tSociol. Methods. Res\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617b87723bebd86683f85"},"refKey":24},
{"_key":"60c617bf7723bebd86683f8e","_id":"references/60c617bf7723bebd86683f8e","_rev":"_cfFlt7q---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617bf7723bebd86683f8d"},"refKey":15},
{"_key":"60c617e17723bebd86683fb2","_id":"references/60c617e17723bebd86683fb2","_rev":"_cfFlt72---","tei":"\n\t\n\t\tClustal Omega\n\t\t\n\t\t\tFabianSievers\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t10.1002/0471250953.bi0313s48\n\t\t25501942\n\t\n\t\n\t\tCurr Protoc Bioinformatics\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c617e17723bebd86683fb1"},"refKey":24},
{"_key":"60c617e17723bebd86683fb3","_id":"references/60c617e17723bebd86683fb3","_rev":"_cfFlt8C---","tei":"\n\t\n\t\t6 Clustal Omega, accurate alignment of very large numbers of sequences\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1007/978−1−62703−646−7\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t1079\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c617e17723bebd86683fb1"},"refKey":25},
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{"_key":"60c617e47723bebd86683fbf","_id":"references/60c617e47723bebd86683fbf","_rev":"_cfFlt8W---","tei":"\n\t\n\t\tNetCGlyc 1.0: prediction of mammalian C-mannosylation sites\n\t\t\n\t\t\tKarinJulenius\n\t\t\n\t\t10.1093/glycob/cwm050\n\t\t17494086\n\t\tark:/67375/HXZ-KFZWWJDZ-H\n\t\t6102680C9C2F1A586D820A479E31537D5C2557A9\n\t\t\n\t\n\t\n\t\tGlycobiology\n\t\t0959-6658\n\t\t1460-2423\n\t\t\n\t\t\t17\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c617e47723bebd86683fbd"},"refKey":56},
{"_key":"60c617e47723bebd86683fc0","_id":"references/60c617e47723bebd86683fc0","_rev":"_cfFlt8i---","tei":"\n\t\n\t\tPrediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence\n\t\t\n\t\t\tNikolajBlom\n\t\t\n\t\t\n\t\t\tThomasSicheritz-Pontén\n\t\t\n\t\t\n\t\t\tRamneekGupta\n\t\t\n\t\t\n\t\t\tSteenGammeltoft\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t10.1002/pmic.200300771\n\t\t15174133\n\t\tark:/67375/WNG-HD5ZNZ2S-G\n\t\t2FC5878BEFE279DA3613D377D3C9BC82A545F1BB\n\t\n\t\n\t\tPROTEOMICS\n\t\tPROTEOMICS\n\t\t1615-9853\n\t\t1615-9861\n\t\t\n\t\t\t4\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c617e47723bebd86683fbd"},"refKey":6},
{"_key":"60c617e47723bebd86683fc1","_id":"references/60c617e47723bebd86683fc1","_rev":"_cfFlt8u---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c617e47723bebd86683fbd"},"refKey":38},
{"_key":"60c617e47723bebd86683fc2","_id":"references/60c617e47723bebd86683fc2","_rev":"_cfFlt82---","tei":"\n\t\n\t\tDesigning of Highly Effective Complementary and Mismatch siRNAs for Silencing a Gene\n\t\t\n\t\t\tFirozAhmed\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1371/journal.pone.0023443\n\t\t21853133\n\t\tPMC3154470\n\t\tdoi: 10.1371/ journal.pone.0023443\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t8\n\t\t\te23443\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c617e47723bebd86683fbd"},"refKey":1},
{"_key":"60c617e47723bebd86683fc3","_id":"references/60c617e47723bebd86683fc3","_rev":"_cfFlt9C---","tei":"\n\t\n\t\tPrecision mapping of the human O-GalNAc glycoproteome through SimpleCell technology\n\t\t\n\t\t\tCatharinaSteentoft\n\t\t\n\t\t\n\t\t\tSergeyYVakhrushev\n\t\t\n\t\t\n\t\t\tHirenJJoshi\n\t\t\n\t\t\n\t\t\tYunKong\n\t\t\n\t\t\n\t\t\tMaleneBVester-Christensen\n\t\t\n\t\t\n\t\t\tKatrine T-B GSchjoldager\n\t\t\n\t\t\n\t\t\tKirstineLavrsen\n\t\t\n\t\t\n\t\t\tSallyDabelsteen\n\t\t\n\t\t\n\t\t\tNisBPedersen\n\t\t\n\t\t\n\t\t\tLaraMarcos-Silva\n\t\t\n\t\t\n\t\t\tRamneekGupta\n\t\t\n\t\t\n\t\t\tEricPaul Bennett\n\t\t\n\t\t\n\t\t\tUllaMandel\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tHansHWandall\n\t\t\n\t\t\n\t\t\tStevenBLevery\n\t\t\n\t\t\n\t\t\tHenrikClausen\n\t\t\n\t\t10.1038/emboj.2013.79\n\t\t23584533\n\t\tPMC3655468\n\t\tark:/67375/WNG-S0B0LRCW-T\n\t\t56B7774EED3A9AF84694AC6DD706DF0474655E67\n\t\t\n\t\n\t\n\t\tThe EMBO Journal\n\t\tEMBO J\n\t\t0261-4189\n\t\t1460-2075\n\t\t\n\t\t\t32\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c617e47723bebd86683fbd"},"refKey":97},
{"_key":"60c617e47723bebd86683fc4","_id":"references/60c617e47723bebd86683fc4","_rev":"_cfFlt9O---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c617e47723bebd86683fbd"},"refKey":110},
{"_key":"60c617e47723bebd86683fc5","_id":"references/60c617e47723bebd86683fc5","_rev":"_cfFlt9a---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c617e47723bebd86683fbd"},"refKey":62},
{"_key":"60c617e47723bebd86683fc6","_id":"references/60c617e47723bebd86683fc6","_rev":"_cfFlt9m---","tei":"\n\t\n\t\tCAIcal: A combined set of tools to assess codon usage adaptation\n\t\t\n\t\t\tPerePuigbò\n\t\t\n\t\t\n\t\t\tIgnacioGBravo\n\t\t\n\t\t\n\t\t\tSantiagoGarcia-Vallve\n\t\t\n\t\t10.1186/1745-6150-3-38\n\t\t18796141\n\t\tPMC2553769\n\t\t\n\t\n\t\n\t\tBiology Direct\n\t\tBiology Direct\n\t\t1745-6150\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t38\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c617e47723bebd86683fbd"},"refKey":81},
{"_key":"60c6180b7723bebd86683ffa","_id":"references/60c6180b7723bebd86683ffa","_rev":"_cfFlt9u---","tei":"\n\t\n\t\tSimulating and detecting autocorrelation of molecular evolutionary rates among lineages\n\t\t\n\t\t\tSimonY WHo\n\t\t\n\t\t\n\t\t\tSebastiánDuchêne\n\t\t\n\t\t\n\t\t\tDavidDuchêne\n\t\t\n\t\t10.1111/1755-0998.12320\n\t\t25155426\n\t\tark:/67375/WNG-CTZ2PK27-C\n\t\t7731C6A54DCF541F5B08805D990CDA0373C70DC2\n\t\n\t\n\t\tMolecular Ecology Resources\n\t\tMol Ecol Resour\n\t\t1755-098X\n\t\t\n\t\t\t15\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6180b7723bebd86683ff9"},"refKey":28},
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{"_key":"60c618847723bebd8668404e","_id":"references/60c618847723bebd8668404e","_rev":"_cfFlu-e---","tei":"\n\t\n\t\tOptimization of the Polymer Coating for Glycosylated Gold Nanoparticle Biosensors to Ensure Stability and Rapid Optical Readouts\n\t\t\n\t\t\tS.-JRichards\n\t\t\n\t\t\n\t\t\tMIGibson\n\t\t\n\t\n\t\n\t\tACS Macro Lett\n\t\t\n\t\t\t2014\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c618847723bebd8668404d"},"refKey":0},
{"_key":"60c618c77723bebd8668406f","_id":"references/60c618c77723bebd8668406f","_rev":"_cfFlu-m---","tei":"\n\t\n\t\tModality-specific deep learning model ensembles toward improving TB detection in chest radiographs\n\t\t\n\t\t\tSRajaraman\n\t\t\n\t\t\n\t\t\tSKAntani\n\t\t\n\t\t10.1109/access.2020.2971257\n\t\n\t\n\t\tIEEE Access\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c618c77723bebd8668406e"},"refKey":57},
{"_key":"60c618c77723bebd86684070","_id":"references/60c618c77723bebd86684070","_rev":"_cfFlu-y---","tei":"\n\t\n\t\tModels of Learning to Classify X-ray Images for the Detection of Pneumonia using Neural Networks\n\t\t\n\t\t\tAASaraiva\n\t\t\n\t\t\n\t\t\tDBSantos\n\t\t\n\t\t\n\t\t\tNatorCosta\n\t\t\n\t\t\n\t\t\tJoseSousa\n\t\t\n\t\t\n\t\t\tNMFerreira\n\t\t\n\t\t\n\t\t\tAntonioValente\n\t\t\n\t\t\n\t\t\tSalvianoSoares\n\t\t\n\t\t10.5220/0007346600760083\n\t\tdoi: 10.5220/ 0007346600760083\n\t\n\t\n\t\tProceedings of the 12th International Joint Conference on Biomedical Engineering Systems and Technologies\n\t\t\t\tthe 12th International Joint Conference on Biomedical Engineering Systems and Technologies\n\t\t\n\t\t\tSCITEPRESS - Science and Technology Publications\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c618c77723bebd8668406e"},"refKey":61},
{"_key":"60c618d27723bebd86684079","_id":"references/60c618d27723bebd86684079","_rev":"_cfFlu_----","tei":"\n\t\n\t\tIBM SPSS Statistics for Windows\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t\n\t\t\t\n\t\t\tIBM Corp\n\t\t\tArmonk, NY\n\t\t\n\t\n\n","document":{"$oid":"60c618d27723bebd86684078"},"refKey":9},
{"_key":"60c619147723bebd86684095","_id":"references/60c619147723bebd86684095","_rev":"_cfFlu_K---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tActa Cryst\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c619147723bebd86684094"},"refKey":14},
{"_key":"60c619147723bebd86684096","_id":"references/60c619147723bebd86684096","_rev":"_cfFlu_W---","tei":"\n\t\n\t\tA multi-crystal method for extracting obscured crystallographic states from conventionally uninterpretable electron density\n\t\t\n\t\t\tNicholasMPearce\n\t\t\n\t\t\n\t\t\tTobiasKrojer\n\t\t\n\t\t\n\t\t\tAnthonyRBradley\n\t\t\n\t\t\n\t\t\tPatrickCollins\n\t\t\t0000-0002-6265-9922\n\t\t\n\t\t\n\t\t\tRadosławPNowak\n\t\t\n\t\t\n\t\t\tRomainTalon\n\t\t\n\t\t\n\t\t\tBrianDMarsden\n\t\t\n\t\t\n\t\t\tSebastianKelm\n\t\t\n\t\t\n\t\t\tJiyeShi\n\t\t\n\t\t\n\t\t\tCharlotteMDeane\n\t\t\t0000-0003-1388-2252\n\t\t\n\t\t\n\t\t\tFrankVon Delft\n\t\t\t0000-0003-0378-0017\n\t\t\n\t\t10.1038/ncomms15123\n\t\t28436492\n\t\tPMC5413968\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c619147723bebd86684094"},"refKey":18},
{"_key":"60c619147723bebd86684097","_id":"references/60c619147723bebd86684097","_rev":"_cfFlu_e---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJWollenhaupt\n\t\t\n\t\t\n\t\t\tAMetz\n\t\t\n\t\t\n\t\t\tTBarthel\n\t\t\n\t\t\n\t\t\tGM ALima\n\t\t\n\t\t\n\t\t\tAHeine\n\t\t\n\t\t\n\t\t\tUMueller\n\t\t\n\t\t\n\t\t\tGKlebe\n\t\t\n\t\t\n\t\t\tMSWeiss\n\t\t\n\t\n\t\n\t\tStructure\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c619147723bebd86684094"},"refKey":23},
{"_key":"60c619147723bebd86684098","_id":"references/60c619147723bebd86684098","_rev":"_cfFlu_q---","tei":"\n\t\n\t\tStructures of endothiapepsin–fragment complexes from crystallographic fragment screening using a novel, diverse and affordable 96-compound fragment library\n\t\t\n\t\t\tFranziskaUHuschmann\n\t\t\n\t\t\n\t\t\tJaninaLinnik\n\t\t\n\t\t\n\t\t\tKarineSparta\n\t\t\n\t\t\n\t\t\tMonikaÜhlein\n\t\t\n\t\t\n\t\t\tXiaojieWang\n\t\t\n\t\t\n\t\t\tAlexanderMetz\n\t\t\n\t\t\n\t\t\tJohannesSchiebel\n\t\t\n\t\t\n\t\t\tAndreasHeine\n\t\t\n\t\t\n\t\t\tGerhardKlebe\n\t\t\n\t\t\n\t\t\tManfredSWeiss\n\t\t\n\t\t\n\t\t\tUweMueller\n\t\t\n\t\t10.1107/s2053230x16004623\n\t\t27139825\n\t\tPMC4854561\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section F Structural Biology Communications\n\t\tActa Cryst Sect F\n\t\t2053-230X\n\t\t\n\t\t\t72\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c619147723bebd86684094"},"refKey":10},
{"_key":"60c619147723bebd86684099","_id":"references/60c619147723bebd86684099","_rev":"_cfFlu_2---","tei":"\n\t\n\t\tMXCuBE3: A New Era of MX-Beamline Control Begins\n\t\t\n\t\t\tUweMueller\n\t\t\n\t\t\n\t\t\tMarjoleinThunnissen\n\t\t\n\t\t\n\t\t\tJieNan\n\t\t\n\t\t\n\t\t\tMikelEguiraun\n\t\t\n\t\t\n\t\t\tFredrickBolmsten\n\t\t\n\t\t\n\t\t\tAntonioMilàn-Otero\n\t\t\n\t\t\n\t\t\tMathiasGuijarro\n\t\t\n\t\t\n\t\t\tMarkusOscarsson\n\t\t\n\t\t\n\t\t\tDanieleDe Sanctis\n\t\t\n\t\t\n\t\t\tGordonLeonard\n\t\t\n\t\t10.1080/08940886.2017.1267564\n\t\n\t\n\t\tSynchrotron Radiation News\n\t\tSynchrotron Radiation News\n\t\t0894-0886\n\t\t1931-7344\n\t\t\n\t\t\t30\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c619147723bebd86684094"},"refKey":15},
{"_key":"60c619297723bebd866840d3","_id":"references/60c619297723bebd866840d3","_rev":"_cfFluAC---","tei":"\n\t\n\t\t\n\t\t\tWRevelle\n\t\t\n\t\tpsych: Procedures for Personality and Psychological Research\n\t\t\t\tEvanston\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tNorthwestern University\n\t\t\n\t\n\n","document":{"$oid":"60c619297723bebd866840d2"},"refKey":30},
{"_key":"60c619467723bebd866840df","_id":"references/60c619467723bebd866840df","_rev":"_cfFluAK---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c619467723bebd866840de"},"refKey":13},
{"_key":"60c619657723bebd866840ec","_id":"references/60c619657723bebd866840ec","_rev":"_cfFluAW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJKEng\n\t\t\n\t\t\n\t\t\tTAJahan\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c619657723bebd866840eb"},"refKey":191},
{"_key":"60c619657723bebd866840ed","_id":"references/60c619657723bebd866840ed","_rev":"_cfFluAi---","tei":"\n\t\n\t\tDeutsch EW Extending Comet for global amino acid variant and post-translational modification analysis using the PSI extended FASTA format\n\t\t\n\t\t\tJKEng\n\t\t\n\t\te1900362\n\t\n\t\n\t\tProteomics\n\t\t\n\t\t\t2020\n\t\t\n\t\n\tPubMed: 32106352\n\n","document":{"$oid":"60c619657723bebd866840eb"},"refKey":193},
{"_key":"60c619657723bebd866840ee","_id":"references/60c619657723bebd866840ee","_rev":"_cfFluAu---","tei":"\n\t\n\t\tCombining Results of Multiple Search Engines in Proteomics\n\t\t\n\t\t\tDavidShteynberg\n\t\t\n\t\t\n\t\t\tAlexeyINesvizhskii\n\t\t\n\t\t\n\t\t\tRobertLMoritz\n\t\t\n\t\t\n\t\t\tEricWDeutsch\n\t\t\n\t\t10.1074/mcp.r113.027797\n\t\t23720762\n\t\tPMC3769318\n\t\t\n\t\n\t\n\t\tMolecular & Cellular Proteomics\n\t\tMol Cell Proteomics\n\t\t1535-9476\n\t\t1535-9484\n\t\t\n\t\t\t12\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Biochemistry & Molecular Biology (ASBMB)\n\t\t\n\t\n\n","document":{"$oid":"60c619657723bebd866840eb"},"refKey":206},
{"_key":"60c619967723bebd86684114","_id":"references/60c619967723bebd86684114","_rev":"_cfFluA6---","tei":"\n\t\n\t\tGENMARK: Parallel gene recognition for both DNA strands\n\t\t\n\t\t\tMarkBorodovsky\n\t\t\n\t\t\n\t\t\tJamesMcininch\n\t\t\n\t\t10.1016/0097-8485(93)85004-v\n\t\t0097-8485(93)85004-V\n\t\tark:/67375/6H6-VS9XRJ34-D\n\t\t628D71AA4273DD5ACC711EDBB9D0EA28F022C5C2\n\t\n\t\n\t\tComputers & Chemistry\n\t\tComputers & Chemistry\n\t\t0097-8485\n\t\t\n\t\t\t17\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd86684113"},"refKey":13},
{"_key":"60c619967723bebd86684115","_id":"references/60c619967723bebd86684115","_rev":"_cfFluBC---","tei":"\n\t\n\t\tThe RAST Server: Rapid Annotations using Subsystems Technology\n\t\t\n\t\t\tRKAziz\n\t\t\n\t\t\n\t\t\tDBartels\n\t\t\n\t\t\n\t\t\tAABest\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t8\n\t\t\t9\n\t\t\t75\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd86684113"},"refKey":18},
{"_key":"60c619967723bebd86684116","_id":"references/60c619967723bebd86684116","_rev":"_cfFluBO---","tei":"\n\t\n\t\tBASys: a web server for automated bacterial genome annotation\n\t\t\n\t\t\tGHVan Domselaar\n\t\t\n\t\t\n\t\t\tPStothard\n\t\t\n\t\t\n\t\t\tSShrivastava\n\t\t\n\t\t\n\t\t\tJACruz\n\t\t\n\t\t\n\t\t\tAGuo\n\t\t\n\t\t\n\t\t\tXDong\n\t\t\n\t\t\n\t\t\tPLu\n\t\t\n\t\t\n\t\t\tDSzafron\n\t\t\n\t\t\n\t\t\tRGreiner\n\t\t\n\t\t\n\t\t\tDSWishart\n\t\t\n\t\t10.1093/nar/gki593\n\t\t15980511\n\t\tPMC1160269\n\t\tark:/67375/HXZ-GF76BM7N-V\n\t\t8BC47E3F2E24CE5D2D2B806926B2A18737857DCA\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd86684113"},"refKey":19},
{"_key":"60c619967723bebd86684117","_id":"references/60c619967723bebd86684117","_rev":"_cfFluBa---","tei":"\n\t\n\t\tGeneMarkS: A self-training method for gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions\n\t\t\n\t\t\tJBesemer\n\t\t\n\t\t\n\t\t\tALomsadze\n\t\t\n\t\t\n\t\t\tMBorodovsky\n\t\t\n\t\n\t\n\t\tNucl Acids Res\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd86684113"},"refKey":16},
{"_key":"60c619967723bebd86684118","_id":"references/60c619967723bebd86684118","_rev":"_cfFluBm---","tei":"\n\t\n\t\tProdigal: Prokaryotic gene recognition and translation initiation site identification\n\t\t\n\t\t\tDHyatt\n\t\t\n\t\t\n\t\t\tGWChen\n\t\t\n\t\t\n\t\t\tPFLocascio\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t11\n\t\t\t119\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd86684113"},"refKey":20},
{"_key":"60c619967723bebd86684119","_id":"references/60c619967723bebd86684119","_rev":"_cfFluBy---","tei":"\n\t\n\t\tModeling leaderless transcription and atypical genes results in more accurate gene prediction in prokaryotes\n\t\t\n\t\t\tAlexandreLomsadze\n\t\t\n\t\t\n\t\t\tKarlGemayel\n\t\t\n\t\t\n\t\t\tShiyuyunTang\n\t\t\n\t\t\n\t\t\tMarkBorodovsky\n\t\t\n\t\t10.1101/gr.230615.117\n\t\t29773659\n\t\tPMC6028130\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t28\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd86684113"},"refKey":17},
{"_key":"60c619967723bebd8668411a","_id":"references/60c619967723bebd8668411a","_rev":"_cfFluB6---","tei":"\n\t\n\t\tPHANOTATE: a novel approach to gene identification in phage genomes\n\t\t\n\t\t\tKatelynMcnair\n\t\t\n\t\t\n\t\t\tCarolZhou\n\t\t\n\t\t\n\t\t\tElizabethADinsdale\n\t\t\n\t\t\n\t\t\tBrianSouza\n\t\t\n\t\t\n\t\t\tRobertAEdwards\n\t\t\n\t\t10.1093/bioinformatics/btz265\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t265\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd86684113"},"refKey":23},
{"_key":"60c619967723bebd8668411b","_id":"references/60c619967723bebd8668411b","_rev":"_cfFluCG---","tei":"\n\t\n\t\tGeneMark.hmm: new solutions for gene finding\n\t\t\n\t\t\tAVLukashin\n\t\t\n\t\t\n\t\t\tMBorodovsky\n\t\t\n\t\t\n\t\t\tGenemark\n\t\t\n\t\t10.1093/nar/26.4.1107\n\t\t9461475\n\t\tPMC147337\n\t\tark:/67375/HXZ-68G8RQTG-0\n\t\t0042FF67A01C9649922BE71DE8C44E559AC35DEA\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t26\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd86684113"},"refKey":14},
{"_key":"60c619967723bebd86684160","_id":"references/60c619967723bebd86684160","_rev":"_cfFluCS---","tei":"\n\t\n\t\tMatplotlib: A 2D Graphics Environment\n\t\t\n\t\t\tJDHunter\n\t\t\n\t\n\t\n\t\tComput Sci Eng\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd8668415f"},"refKey":25},
{"_key":"60c619967723bebd86684161","_id":"references/60c619967723bebd86684161","_rev":"_cfFluCe---","tei":"\n\t\n\t\tElegant Graphics for Data Analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York\n\t\t\n\t\n\t2nd ed\n\n","document":{"$oid":"60c619967723bebd8668415f"},"refKey":4},
{"_key":"60c619967723bebd86684162","_id":"references/60c619967723bebd86684162","_rev":"_cfFluCq---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd8668415f"},"refKey":10},
{"_key":"60c619967723bebd86684163","_id":"references/60c619967723bebd86684163","_rev":"_cfFluCy---","tei":"\n\t\n\t\tBEAST 2.5: An Advanced Software Platform for Bayesian Evolutionary Analysis\n\t\t\n\t\t\tRemcoBouckaert\n\t\t\t0000-0001-6765-3813\n\t\t\n\t\t\n\t\t\tTimothyGVaughan\n\t\t\n\t\t\n\t\t\tJoëlleBarido-Sottani\n\t\t\t0000-0002-5220-5468\n\t\t\n\t\t\n\t\t\tSebastiánDuchêne\n\t\t\t0000-0002-2863-0907\n\t\t\n\t\t\n\t\t\tMathieuFourment\n\t\t\t0000-0001-8153-9822\n\t\t\n\t\t\n\t\t\tAlexandraGavryushkina\n\t\t\n\t\t\n\t\t\tJosephHeled\n\t\t\t0000-0002-2403-7997\n\t\t\n\t\t\n\t\t\tGrahamJones\n\t\t\t0000-0002-9686-5871\n\t\t\n\t\t\n\t\t\tDeniseKühnert\n\t\t\t0000-0002-5657-018X\n\t\t\n\t\t\n\t\t\tNicolaDeMaio\n\t\t\t0000-0002-1776-8564\n\t\t\n\t\t\n\t\t\tMichaelMatschiner\n\t\t\n\t\t\n\t\t\tFábioKMendes\n\t\t\t0000-0001-6204-7208\n\t\t\n\t\t\n\t\t\tNicolaFMüller\n\t\t\n\t\t\n\t\t\tHuwOgilvie\n\t\t\t0000-0003-1589-6885\n\t\t\n\t\t\n\t\t\tLouisDuPlessis\n\t\t\n\t\t\n\t\t\tAlexPopinga\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tDavidRasmussen\n\t\t\n\t\t\n\t\t\tIgorSiveroni\n\t\t\t0000-0003-2595-3062\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\t0000-0001-9818-479X\n\t\t\n\t\t\n\t\t\tChieh-HsiWu\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tChiZhang\n\t\t\t0000-0001-6009-5273\n\t\t\n\t\t\n\t\t\tTanjaStadler\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\t0000-0003-4454-2576\n\t\t\n\t\t10.1101/474296\n\t\t30958812\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t15\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c619967723bebd8668415f"},"refKey":11},
{"_key":"60c619b57723bebd8668417d","_id":"references/60c619b57723bebd8668417d","_rev":"_cfFluD----","tei":"\n\t\n\t\tMultidimensional Scaling Using Majorization: SMACOF inR\n\t\t\n\t\t\tJanDeLeeuw\n\t\t\n\t\t\n\t\t\tPatrickMair\n\t\t\n\t\t10.18637/jss.v031.i03\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t31\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c619b57723bebd8668417c"},"refKey":11},
{"_key":"60c619eb7723bebd86684185","_id":"references/60c619eb7723bebd86684185","_rev":"_cfFluDK---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nmeth.3317\n\t\t25751142\n\t\tPMC4655817\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c619eb7723bebd86684184"},"refKey":17},
{"_key":"60c619eb7723bebd86684186","_id":"references/60c619eb7723bebd86684186","_rev":"_cfFluDW---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c619eb7723bebd86684184"},"refKey":27},
{"_key":"60c619f27723bebd8668419e","_id":"references/60c619f27723bebd8668419e","_rev":"_cfFluDi---","tei":"\n\t\n\t\tVisual genome: connecting language and vision using crowdsourced dense image annotations\n\t\t\n\t\t\tRKrishna\n\t\t\n\t\t\n\t\t\tYZhu\n\t\t\n\t\t\n\t\t\tJKravitz\n\t\t\n\t\t\n\t\t\tMSBernstein\n\t\t\n\t\n\t\n\t\tIJCV\n\t\t\n\t\t\t123\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c619f27723bebd8668419d"},"refKey":17},
{"_key":"60c619f37723bebd866841c2","_id":"references/60c619f37723bebd866841c2","_rev":"_cfFluDq---","tei":"\n\t\n\t\tBootstrap confidence intervals: when, which, what? A practical guide for medical statisticians\n\t\t\n\t\t\tJamesCarpenter\n\t\t\n\t\t\n\t\t\tJohnBithell\n\t\t\n\t\t10.1002/(sici)1097-0258(20000515)19:9<1141::aid-sim479>3.0.co;2-f\n\t\t10797513\n\t\tark:/67375/WNG-X7ZS2T45-P\n\t\tAE65CE9DF74957CB2DCE50198349C68E7CA849AD\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t1097-0258\n\t\t\n\t\t\t19\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c619f37723bebd866841c1"},"refKey":11},
{"_key":"60c61a097723bebd866841cd","_id":"references/60c61a097723bebd866841cd","_rev":"_cfFluD2---","tei":"\n\t\n\t\tANNOVAR: functional annotation of genetic variants from high-throughput sequencing data\n\t\t\n\t\t\tKWang\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tHHakonarson\n\t\t\n\t\t10.1093/nar/gkq603\n\t\t20601685\n\t\tPMC2938201\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61a097723bebd866841cc"},"refKey":51},
{"_key":"60c61a517723bebd866841ea","_id":"references/60c61a517723bebd866841ea","_rev":"_cfFluEC---","tei":"\n\t\n\t\tU-net: Convolutional networks for biomedical image segmentation\n\t\t\n\t\t\tORonneberger\n\t\t\n\t\t\n\t\t\tPFischer\n\t\t\n\t\t\n\t\t\tTBrox\n\t\t\n\t\n\t\n\t\tInt. Conference on Medical Image Computing Computer-Assisted Intervention\n\t\t\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61a517723bebd866841e9"},"refKey":82},
{"_key":"60c61a707723bebd86684201","_id":"references/60c61a707723bebd86684201","_rev":"_cfFluEO---","tei":"\n\t\n\t\tDeep Meta-modelling with MetaDepth\n\t\t\n\t\t\tJuanDe Lara\n\t\t\n\t\t\n\t\t\tEstherGuerra\n\t\t\n\t\t10.1007/978-3-642-13953-6_1\n\t\tark:/67375/HCB-L69CNQ7J-1\n\t\tB361727AA2E1F91DEC25693A8CE54CF683AB2879\n\t\t\n\t\n\t\n\t\tObjects, Models, Components, Patterns\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t6141\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61a707723bebd86684200"},"refKey":11},
{"_key":"60c61a707723bebd86684202","_id":"references/60c61a707723bebd86684202","_rev":"_cfFluEa---","tei":"\n\t\n\t\tClafer: Lightweight Modeling of Structure, Behaviour, and Variability\n\t\t\n\t\t\tPauliusJuodisius\n\t\t\n\t\t\n\t\t\tAtrishaSarkar\n\t\t\n\t\t\n\t\t\tRaghavaRaoMukkamala\n\t\t\n\t\t\n\t\t\tMichalAntkiewicz\n\t\t\n\t\t\n\t\t\tKrzysztofCzarnecki\n\t\t\n\t\t\n\t\t\tAndrzejWasowski\n\t\t\n\t\t10.22152/programming-journal.org/2019/3/2\n\t\t\n\t\n\t\n\t\tThe Art, Science, and Engineering of Programming\n\t\tProgramming\n\t\t2473-7321\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t\n\t\t\tAspect-Oriented Software Association (AOSA)\n\t\t\n\t\n\n","document":{"$oid":"60c61a707723bebd86684200"},"refKey":22},
{"_key":"60c61a707723bebd86684203","_id":"references/60c61a707723bebd86684203","_rev":"_cfFluEi---","tei":"\n\t\n\t\tDeepTelos: Multi-level Modeling with Most General Instances\n\t\t\n\t\t\tManfredAJeusfeld\n\t\t\n\t\t\n\t\t\tBerndNeumayr\n\t\t\n\t\t10.1007/978-3-319-46397-1_15\n\t\t\n\t\n\t\n\t\tConceptual Modeling\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t9974\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61a707723bebd86684200"},"refKey":21},
{"_key":"60c61a707723bebd86684204","_id":"references/60c61a707723bebd86684204","_rev":"_cfFluEu---","tei":"\n\t\n\t\tMultilevel modeling -toward a new paradigm of conceptual modeling and information systems design\n\t\t\n\t\t\tUFrank\n\t\t\n\t\n\t\n\t\tBusiness & Information Systems Engineering\n\t\t\n\t\t\t6\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61a707723bebd86684200"},"refKey":17},
{"_key":"60c61a707723bebd86684205","_id":"references/60c61a707723bebd86684205","_rev":"_cfFluE6---","tei":"\n\t\n\t\tFlexible deep modeling with melanee\n\t\t\n\t\t\tCAtkinson\n\t\t\n\t\t\n\t\t\tRGerbig\n\t\t\n\t\t\n\t\t\t\n\t\t\t2\n\t\t\t\n\t\t\tKarlsruhe -Workshopband\n\t\t\n\t\n\n","document":{"$oid":"60c61a707723bebd86684200"},"refKey":2},
{"_key":"60c61a707723bebd86684206","_id":"references/60c61a707723bebd86684206","_rev":"_cfFluFG---","tei":"\n\t\n\t\tAn approach to flexible multilevel modelling\n\t\t\n\t\t\tFMacías\n\t\t\n\t\t\n\t\t\tARutle\n\t\t\n\t\t\n\t\t\tVStolz\n\t\t\n\t\t\n\t\t\tRRodríguez-Echeverría\n\t\t\n\t\t\n\t\t\tUWolter\n\t\t\n\t\t13:10:1-10:35\n\t\n\t\n\t\tEMISA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61a707723bebd86684200"},"refKey":28},
{"_key":"60c61a707723bebd86684207","_id":"references/60c61a707723bebd86684207","_rev":"_cfFluFS---","tei":"\n\t\n\t\tMulti-level Conceptual Modeling: From a Formal Theory to a Well-Founded Language\n\t\t\n\t\t\tClaudenirMFonseca\n\t\t\n\t\t\n\t\t\tJoãoPaulo AAlmeida\n\t\t\n\t\t\n\t\t\tGiancarloGuizzardi\n\t\t\n\t\t\n\t\t\tVictorioACarvalho\n\t\t\n\t\t10.1007/978-3-030-00847-5_29\n\t\n\t\n\t\tConceptual Modeling\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11157\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61a707723bebd86684200"},"refKey":16},
{"_key":"60c61a707723bebd86684208","_id":"references/60c61a707723bebd86684208","_rev":"_cfFluFa---","tei":"\n\t\n\t\tAn integrated multi-level modeling approach for industrial-scale data interoperability\n\t\t\n\t\t\tMuzaffarIgamberdiev\n\t\t\n\t\t\n\t\t\tGeorgGrossmann\n\t\t\n\t\t\n\t\t\tMattSelway\n\t\t\n\t\t\n\t\t\tMarkusStumptner\n\t\t\n\t\t10.1007/s10270-016-0520-6\n\t\n\t\n\t\tSoftware & Systems Modeling\n\t\tSoftw Syst Model\n\t\t1619-1366\n\t\t1619-1374\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c61a707723bebd86684200"},"refKey":20},
{"_key":"60c61ae17723bebd86684278","_id":"references/60c61ae17723bebd86684278","_rev":"_cfFluFm---","tei":"\n\t\n\t\tThermal proteome profiling for unbiased identification of direct and indirect drug targets using multiplexed quantitative mass spectrometry\n\t\t\n\t\t\tHFranken\n\t\t\n\t\t\n\t\t\tTMathieson\n\t\t\n\t\t\n\t\t\tDChilds\n\t\t\n\t\t\n\t\t\tGmaSweetman\n\t\t\n\t\t\n\t\t\tTWerner\n\t\t\n\t\t\n\t\t\tITögel\n\t\t\n\t\t\n\t\t\tCDoce\n\t\t\n\t\t\n\t\t\tSGade\n\t\t\n\t\t\n\t\t\tMBantscheff\n\t\t\n\t\t\n\t\t\tGDrewes\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61ae17723bebd86684277"},"refKey":12},
{"_key":"60c61af07723bebd8668428f","_id":"references/60c61af07723bebd8668428f","_rev":"_cfFluFy---","tei":"\n\t\n\t\tOntoserver: a syndicated terminology server\n\t\t\n\t\t\tAlejandroMetke-Jimenez\n\t\t\t0000-0003-1068-0938\n\t\t\n\t\t\n\t\t\tJimSteel\n\t\t\n\t\t\n\t\t\tDavidHansen\n\t\t\n\t\t\n\t\t\tMichaelLawley\n\t\t\n\t\t10.1186/s13326-018-0191-z\n\t\t30223897\n\t\tPMC6142703\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Semantics\n\t\tJ Biomed Semant\n\t\t2041-1480\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t24\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c61af07723bebd8668428e"},"refKey":15},
{"_key":"60c61af07723bebd86684290","_id":"references/60c61af07723bebd86684290","_rev":"_cfFluG----","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tLO'neal\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61af07723bebd8668428e"},"refKey":8},
{"_key":"60c61af77723bebd86684299","_id":"references/60c61af77723bebd86684299","_rev":"_cfFluGK---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61af77723bebd86684298"},"refKey":17},
{"_key":"60c61b367723bebd866842c3","_id":"references/60c61b367723bebd866842c3","_rev":"_cfFluGS---","tei":"\n\t\n\t\tEvaluation of the efficacy of RUTI and ID93/ GLA-SE vaccines in tuberculosis treatment: in silico trial through UISS-TB simulator\n\t\t\n\t\t\tGRusso\n\t\t\n\t\t\n\t\t\tFPappalardo\n\t\t\n\t\t\n\t\t\tMAJuarez\n\t\t\n\t\t\n\t\t\tMPennisi\n\t\t\n\t\t\n\t\t\tPJCardona\n\t\t\n\t\t\n\t\t\tRColer\n\t\t\n\t\t10.1128/AAC.03728-14\n\t\t\n\t\n\t\n\t\tAntimicrob Agents Chemother\n\t\t\n\t\t\t58\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b367723bebd866842c2"},"refKey":25},
{"_key":"60c61b397723bebd866842d3","_id":"references/60c61b397723bebd866842d3","_rev":"_cfFluGe---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b397723bebd866842d2"},"refKey":38},
{"_key":"60c61b587723bebd866842e5","_id":"references/60c61b587723bebd866842e5","_rev":"_cfFluGq---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c61b587723bebd866842e4"},"refKey":21},
{"_key":"60c61b647723bebd866842e7","_id":"references/60c61b647723bebd866842e7","_rev":"_cfFluG2---","tei":"\n\t\n\t\tAvian astroviruses\n\t\t\n\t\t\tMatthewDKoci\n\t\t\n\t\t\n\t\t\tStaceySchultz-Cherry\n\t\t\n\t\t10.1080/03079450220136521\n\t\t12396344\n\t\t\n\t\n\t\n\t\tAvian Pathology\n\t\tAvian Pathology\n\t\t0307-9457\n\t\t1465-3338\n\t\t\n\t\t\t31\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c61b647723bebd866842e6"},"refKey":31},
{"_key":"60c61b7a7723bebd866842f8","_id":"references/60c61b7a7723bebd866842f8","_rev":"_cfFluHC---","tei":"\n\t\n\t\tAccurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tKDPreter\n\t\t\n\t\t\n\t\t\tFPattyn\n\t\t\n\t\t\n\t\t\tBPoppe\n\t\t\n\t\t\n\t\t\tNVRoy\n\t\t\n\t\t\n\t\t\tADPaepe\n\t\t\n\t\t\n\t\t\tFSpeleman\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t\n\t\t\n\t\n\t3: research0034.1Ð 0034.11\n\n","document":{"$oid":"60c61b7a7723bebd866842f7"},"refKey":34},
{"_key":"60c61b7a7723bebd866842f9","_id":"references/60c61b7a7723bebd866842f9","_rev":"_cfFluHK---","tei":"\n\t\n\t\tNormalization of real-time quantitative reverse transcription-PCR data: a model-based variance estimation approach to identify genes suited for normalization, applied to bladder and colon cancer data sets\n\t\t\n\t\t\tCLAndersen\n\t\t\n\t\t\n\t\t\tJLJensen\n\t\t\n\t\t\n\t\t\tTFOrntoft\n\t\t\n\t\n\t\n\t\tCancer Res\n\t\t\n\t\t\t64\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b7a7723bebd866842f7"},"refKey":0},
{"_key":"60c61b7b7723bebd8668430e","_id":"references/60c61b7b7723bebd8668430e","_rev":"_cfFluHW---","tei":"\n\t\n\t\tTaxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks\n\t\t\n\t\t\tBin\n\t\t\n\t\t\n\t\t\tHJang\n\t\t\n\t\t\n\t\t\tBBolduc\n\t\t\n\t\t\n\t\t\tOZablocki\n\t\t\n\t\t\n\t\t\tJHKuhn\n\t\t\n\t\t\n\t\t\tSRoux\n\t\t\n\t\t\n\t\t\tEMAdriaenssens\n\t\t\n\t\t10.1038/s41587-019-0100-8\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":4},
{"_key":"60c61b7b7723bebd8668430f","_id":"references/60c61b7b7723bebd8668430f","_rev":"_cfFluHi---","tei":"\n\t\n\t\t\n\t\t\tJBArnold\n\t\t\n\t\t\n\t\t\tGDaroczi\n\t\t\n\t\t\n\t\t\tBWerth\n\t\t\n\t\t\n\t\t\tBWeitzner\n\t\t\n\t\t\n\t\t\tJKunst\n\t\t\n\t\t\n\t\t\tBAuguie\n\t\t\n\t\t\n\t\tggthemes: Extra Themes, Scales and Geoms for 'ggplot2'. Available online at\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":1},
{"_key":"60c61b7b7723bebd86684310","_id":"references/60c61b7b7723bebd86684310","_rev":"_cfFluHu---","tei":"\n\t\n\t\tWIsH: who is the host? Predicting prokaryotic hosts from metagenomic phage contigs\n\t\t\n\t\t\tClovisGaliez\n\t\t\n\t\t\n\t\t\tMatthiasSiebert\n\t\t\n\t\t\n\t\t\tFrançoisEnault\n\t\t\n\t\t\n\t\t\tJonathanVincent\n\t\t\n\t\t\n\t\t\tJohannesSöding\n\t\t\n\t\t10.1093/bioinformatics/btx383\n\t\t28957499\n\t\tPMC5870724\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":18},
{"_key":"60c61b7b7723bebd86684311","_id":"references/60c61b7b7723bebd86684311","_rev":"_cfFluH6---","tei":"\n\t\n\t\tProdigal: prokaryotic gene recognition and translation initiation site identification\n\t\t\n\t\t\tDougHyatt\n\t\t\n\t\t\n\t\t\tGwo-LiangChen\n\t\t\n\t\t\n\t\t\tPhilipFLocascio\n\t\t\n\t\t\n\t\t\tMiriamLLand\n\t\t\n\t\t\n\t\t\tFrankWLarimer\n\t\t\n\t\t\n\t\t\tLorenJHauser\n\t\t\n\t\t10.1186/1471-2105-11-119\n\t\t20211023\n\t\tPMC2848648\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t119\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":34},
{"_key":"60c61b7b7723bebd86684312","_id":"references/60c61b7b7723bebd86684312","_rev":"_cfFluIC---","tei":"\n\t\n\t\tReshaping Data with thereshapePackage\n\t\t\n\t\t\tHadleyWickham\n\t\t\n\t\t10.18637/jss.v021.i12\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t21\n\t\t\t12\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":77},
{"_key":"60c61b7b7723bebd86684313","_id":"references/60c61b7b7723bebd86684313","_rev":"_cfFluIO---","tei":"\n\t\n\t\tggpubr: 'ggplot2' Based Publication Ready Plots\n\t\t\n\t\t\tAKassambara\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":35},
{"_key":"60c61b7b7723bebd86684314","_id":"references/60c61b7b7723bebd86684314","_rev":"_cfFluIa---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":42},
{"_key":"60c61b7b7723bebd86684315","_id":"references/60c61b7b7723bebd86684315","_rev":"_cfFluIm---","tei":"\n\t\n\t\tVirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data\n\t\t\n\t\t\tJieRen\n\t\t\n\t\t\n\t\t\tNathanAAhlgren\n\t\t\n\t\t\n\t\t\tYangYoungLu\n\t\t\n\t\t\n\t\t\tJedAFuhrman\n\t\t\n\t\t\n\t\t\tFengzhuSun\n\t\t\n\t\t10.1186/s40168-017-0283-5\n\t\t28683828\n\t\tPMC5501583\n\t\t\n\t\n\t\n\t\tMicrobiome\n\t\tMicrobiome\n\t\t2049-2618\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":60},
{"_key":"60c61b7b7723bebd86684316","_id":"references/60c61b7b7723bebd86684316","_rev":"_cfFluIu---","tei":"\n\t\n\t\tggnewscale: Multiple Fill and Colour Scales in 'ggplot2\n\t\t\n\t\t\tECampitelli\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":10},
{"_key":"60c61b7b7723bebd86684317","_id":"references/60c61b7b7723bebd86684317","_rev":"_cfFluI6---","tei":"\n\t\n\t\tggplot2: Elegant Graphics for Data Analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t10.1007/978-3-319-24277-4\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":78},
{"_key":"60c61b7b7723bebd86684318","_id":"references/60c61b7b7723bebd86684318","_rev":"_cfFluJG---","tei":"\n\t\n\t\tAccuracy, speed and error tolerance of short DNA sequence aligners\n\t\t\n\t\t\tMarkZiemann\n\t\t\t0000-0002-7688-6974\n\t\t\n\t\t10.1101/053686\n\t\t\n\t\n\t\n\t\tbioRxiv Preprint\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":82},
{"_key":"60c61b7b7723bebd86684319","_id":"references/60c61b7b7723bebd86684319","_rev":"_cfFluJS---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBenjaminBuchfink\n\t\t\n\t\t\n\t\t\tChaoXie\n\t\t\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t10.1038/nmeth.3176\n\t\t25402007\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":8},
{"_key":"60c61b7b7723bebd8668431a","_id":"references/60c61b7b7723bebd8668431a","_rev":"_cfFluJe---","tei":"\n\t\n\t\tHmisc: Harrell Miscellaneous\n\t\t\n\t\t\tFEHarrellJr\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":27},
{"_key":"60c61b7b7723bebd8668431b","_id":"references/60c61b7b7723bebd8668431b","_rev":"_cfFluJm---","tei":"\n\t\n\t\tR Package "corrplot": Visualization of a Correlation Matrix\n\t\t\n\t\t\tTWei\n\t\t\n\t\t\n\t\t\tVSimko\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":76},
{"_key":"60c61b7b7723bebd8668431c","_id":"references/60c61b7b7723bebd8668431c","_rev":"_cfFluJy---","tei":"\n\t\n\t\tSeqtk: Toolkit for processing sequences in FASTA/Q formats\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":41},
{"_key":"60c61b7b7723bebd8668431d","_id":"references/60c61b7b7723bebd8668431d","_rev":"_cfFluK----","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":9},
{"_key":"60c61b7b7723bebd8668431e","_id":"references/60c61b7b7723bebd8668431e","_rev":"_cfFluKK---","tei":"\n\t\n\t\tAccelerated Profile HMM Searches\n\t\t\n\t\t\tSeanREddy\n\t\t\n\t\t10.1371/journal.pcbi.1002195\n\t\t22039361\n\t\tPMC3197634\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t7\n\t\t\t10\n\t\t\te1002195\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c61b7b7723bebd8668430d"},"refKey":15},
{"_key":"60c61ba97723bebd86684345","_id":"references/60c61ba97723bebd86684345","_rev":"_cfFluKS---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and postanalysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\t10.1038/nmeth.2109\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61ba97723bebd86684344"},"refKey":13},
{"_key":"60c61bbd7723bebd86684356","_id":"references/60c61bbd7723bebd86684356","_rev":"_cfFluKe---","tei":"\n\t\n\t\tA method and server for predicting damaging missense mutations\n\t\t\n\t\t\tIvanAAdzhubei\n\t\t\n\t\t\n\t\t\tSteffenSchmidt\n\t\t\n\t\t\n\t\t\tLeonidPeshkin\n\t\t\n\t\t\n\t\t\tVasilyERamensky\n\t\t\n\t\t\n\t\t\tAnnaGerasimova\n\t\t\n\t\t\n\t\t\tPeerBork\n\t\t\n\t\t\n\t\t\tAlexeySKondrashov\n\t\t\n\t\t\n\t\t\tShamilRSunyaev\n\t\t\n\t\t10.1038/nmeth0410-248\n\t\t20354512\n\t\tPMC2855889\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t7\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c61bbd7723bebd86684355"},"refKey":0},
{"_key":"60c61bbd7723bebd86684357","_id":"references/60c61bbd7723bebd86684357","_rev":"_cfFluKq---","tei":"\n\t\n\t\tHaploview: analysis and visualization of LD and haplotype maps\n\t\t\n\t\t\tJCBarrett\n\t\t\n\t\t\n\t\t\tBFry\n\t\t\n\t\t\n\t\t\tJMaller\n\t\t\n\t\t\n\t\t\tMJDaly\n\t\t\n\t\t10.1093/bioinformatics/bth457\n\t\t15297300\n\t\tark:/67375/HXZ-3SPSWFJX-W\n\t\t3295380AF8929390661554EBE01C16C6085BCB3C\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61bbd7723bebd86684355"},"refKey":7},
{"_key":"60c61bdd7723bebd86684378","_id":"references/60c61bdd7723bebd86684378","_rev":"_cfFluK2---","tei":"\n\t\n\t\tClickSeq: Fragmentation-Free Next-Generation Sequencing via Click Ligation of Adaptors to Stochastically Terminated 3′-Azido cDNAs\n\t\t\n\t\t\tAndrewRouth\n\t\t\n\t\t\n\t\t\tStevenRHead\n\t\t\n\t\t\n\t\t\tPhillipOrdoukhanian\n\t\t\n\t\t\n\t\t\tJohnEJohnson\n\t\t\n\t\t10.1016/j.jmb.2015.06.011\n\t\t26116762\n\t\tPMC4523409\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t427\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c61bdd7723bebd86684377"},"refKey":23},
{"_key":"60c61bdd7723bebd86684379","_id":"references/60c61bdd7723bebd86684379","_rev":"_cfFluLC---","tei":"\n\t\n\t\tClickSeq: Replacing Fragmentation and Enzymatic Ligation with Click-Chemistry to Prevent Sequence Chimeras\n\t\t\n\t\t\tElizabethJaworski\n\t\t\n\t\t\n\t\t\tAndrewRouth\n\t\t\n\t\t10.1007/978-1-4939-7514-3_6\n\t\t29224069\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1712\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61bdd7723bebd86684377"},"refKey":24},
{"_key":"60c61bdd7723bebd8668437a","_id":"references/60c61bdd7723bebd8668437a","_rev":"_cfFluLO---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61bdd7723bebd86684377"},"refKey":38},
{"_key":"60c61bdd7723bebd8668437b","_id":"references/60c61bdd7723bebd8668437b","_rev":"_cfFluLW---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1101/274100\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c61bdd7723bebd86684377"},"refKey":32},
{"_key":"60c61bdd7723bebd8668437c","_id":"references/60c61bdd7723bebd8668437c","_rev":"_cfFluLi---","tei":"\n\t\n\t\tTablet--next generation sequence assembly visualization\n\t\t\n\t\t\tIMilne\n\t\t\n\t\t\n\t\t\tMBayer\n\t\t\n\t\t\n\t\t\tLCardle\n\t\t\n\t\t\n\t\t\tPShaw\n\t\t\n\t\t\n\t\t\tGStephen\n\t\t\n\t\t\n\t\t\tFWright\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61bdd7723bebd86684377"},"refKey":40},
{"_key":"60c61bdd7723bebd8668437d","_id":"references/60c61bdd7723bebd8668437d","_rev":"_cfFluLu---","tei":"\n\t\n\t\tAn amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar\n\t\t\n\t\t\tNathanDGrubaugh\n\t\t\n\t\t\n\t\t\tKarthikGangavarapu\n\t\t\n\t\t\n\t\t\tJoshuaQuick\n\t\t\n\t\t\n\t\t\tNathanielLMatteson\n\t\t\n\t\t\n\t\t\tJaquelineGoesDe Jesus\n\t\t\n\t\t\n\t\t\tBradleyJMain\n\t\t\n\t\t\n\t\t\tAmandaLTan\n\t\t\n\t\t\n\t\t\tLaurenMPaul\n\t\t\n\t\t\n\t\t\tDougEBrackney\n\t\t\n\t\t\n\t\t\tSaranGrewal\n\t\t\n\t\t\n\t\t\tNikosGurfield\n\t\t\n\t\t\n\t\t\tKoenK AVan Rompay\n\t\t\n\t\t\n\t\t\tSharonIsern\n\t\t\n\t\t\n\t\t\tScottFMichael\n\t\t\n\t\t\n\t\t\tLarkLCoffey\n\t\t\n\t\t\n\t\t\tNicholasJLoman\n\t\t\n\t\t\n\t\t\tKristianGAndersen\n\t\t\t0000-0001-6431-5982\n\t\t\n\t\t10.1186/s13059-018-1618-7\n\t\t30621750\n\t\tPMC6325816\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t8\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c61bdd7723bebd86684377"},"refKey":22},
{"_key":"60c61bdd7723bebd8668437e","_id":"references/60c61bdd7723bebd8668437e","_rev":"_cfFluL6---","tei":"\n\t\n\t\tDiscovery of functional genomic motifs in viruses with ViReMa–a Virus Recombination Mapper–for analysis of next-generation sequencing data\n\t\t\n\t\t\tAndrewRouth\n\t\t\n\t\t\n\t\t\tJohnEJohnson\n\t\t\n\t\t10.1093/nar/gkt916\n\t\t24137010\n\t\tPMC3902915\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61bdd7723bebd86684377"},"refKey":37},
{"_key":"60c61bdd7723bebd8668437f","_id":"references/60c61bdd7723bebd8668437f","_rev":"_cfFluMG---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2. Nature methods\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61bdd7723bebd86684377"},"refKey":35},
{"_key":"60c61bdd7723bebd86684380","_id":"references/60c61bdd7723bebd86684380","_rev":"_cfFluMS---","tei":"\n\t\n\t\tCoVaMa: Co-Variation Mapper for disequilibrium analysis of mutant loci in viral populations using next-generation sequence data\n\t\t\n\t\t\tAndrewRouth\n\t\t\n\t\t\n\t\t\tMaxWChang\n\t\t\n\t\t\n\t\t\tJasonFOkulicz\n\t\t\n\t\t\n\t\t\tJohnEJohnson\n\t\t\n\t\t\n\t\t\tBruceETorbett\n\t\t\n\t\t10.1016/j.ymeth.2015.09.021\n\t\t26408523\n\t\tPMC4684750\n\t\t\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t91\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c61bdd7723bebd86684377"},"refKey":56},
{"_key":"60c61c367723bebd866843e9","_id":"references/60c61c367723bebd866843e9","_rev":"_cfFluMa---","tei":"\n\t\n\t\tSMS: Smart Model Selection in PhyML\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tJean-EmmanuelLongueville\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/molbev/msx149\n\t\t28472384\n\t\tPMC5850602\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t34\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61c367723bebd866843e8"},"refKey":60},
{"_key":"60c61c367723bebd866843ea","_id":"references/60c61c367723bebd866843ea","_rev":"_cfFluMm---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t\n\t\t\tMuscle\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61c367723bebd866843e8"},"refKey":58},
{"_key":"60c61c367723bebd866843eb","_id":"references/60c61c367723bebd866843eb","_rev":"_cfFluMy---","tei":"\n\t\n\t\tSeaView Version 4: A Multiplatform Graphical User Interface for Sequence Alignment and Phylogenetic Tree Building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\t10.1093/molbev/msp259\n\t\t19854763\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61c367723bebd866843e8"},"refKey":59},
{"_key":"60c61c367723bebd866843ec","_id":"references/60c61c367723bebd866843ec","_rev":"_cfFluN----","tei":"\n\t\n\t\tThe PyMol Molecular Graphics System, Versión 1.8. Thomas Holder\n\t\t\n\t\t\tLSchrödinger\n\t\t\n\t\t10.1007/s13398-014-0173-7.2\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c367723bebd866843e8"},"refKey":65},
{"_key":"60c61c3a7723bebd866843fa","_id":"references/60c61c3a7723bebd866843fa","_rev":"_cfFluNK---","tei":"\n\t\n\t\tMolecular recognition of receptor sites using a genetic algorithm with a description of desolvation\n\t\t\n\t\t\tGJones\n\t\t\n\t\t\n\t\t\tPWillett\n\t\t\n\t\t\n\t\t\tRCGlen\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t245\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c3a7723bebd866843f9"},"refKey":42},
{"_key":"60c61c3a7723bebd866843fb","_id":"references/60c61c3a7723bebd866843fb","_rev":"_cfFluNW---","tei":"\n\t\n\t\tDevelopment and validation of a genetic algorithm for flexible docking\n\t\t\n\t\t\tGJones\n\t\t\n\t\t\n\t\t\tPWillett\n\t\t\n\t\t\n\t\t\tRCGlen\n\t\t\n\t\t\n\t\t\tARLeach\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t267\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c3a7723bebd866843f9"},"refKey":43},
{"_key":"60c61c407723bebd86684402","_id":"references/60c61c407723bebd86684402","_rev":"_cfFluNi---","tei":"\n\t\n\t\tVery deep convolutional networks for large-scale image recognition\n\t\t\n\t\t\tKSimonyan\n\t\t\n\t\t\n\t\t\tAZisserman\n\t\t\n\t\tarXiv: 14091556\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c61c407723bebd86684401"},"refKey":14},
{"_key":"60c61c407723bebd86684403","_id":"references/60c61c407723bebd86684403","_rev":"_cfFluNq---","tei":"\n\t\n\t\tGoing deeper with convolutions\n\t\t\n\t\t\tCSzegedy\n\t\t\n\t\t\n\t\t\tWLiu\n\t\t\n\t\t\n\t\t\tYJia\n\t\t\n\t\t\n\t\t\tPSermanet\n\t\t\n\t\t\n\t\t\tSReed\n\t\t\n\t\t\n\t\t\tDAnguelov\n\t\t\n\t\n\t\n\t\tProceedings of the IEEE conference on computer vision and pattern recognition\n\t\t\t\tthe IEEE conference on computer vision and pattern recognition\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c407723bebd86684401"},"refKey":15},
{"_key":"60c61c5e7723bebd8668441a","_id":"references/60c61c5e7723bebd8668441a","_rev":"_cfFluN2---","tei":"\n\t\n\t\tTranscript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown\n\t\t\n\t\t\tMPertea\n\t\t\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tGMPertea\n\t\t\n\t\t\n\t\t\tJTLeek\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t11\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c5e7723bebd86684419"},"refKey":15},
{"_key":"60c61c5e7723bebd8668441b","_id":"references/60c61c5e7723bebd8668441b","_rev":"_cfFluOC---","tei":"\n\t\n\t\tmiEAA: microRNA enrichment analysis and annotation\n\t\t\n\t\t\tChristinaBackes\n\t\t\n\t\t\n\t\t\tQurratulainTKhaleeq\n\t\t\n\t\t\n\t\t\tEckartMeese\n\t\t\n\t\t\n\t\t\tAndreasKeller\n\t\t\n\t\t10.1093/nar/gkw345\n\t\t27131362\n\t\tPMC4987907\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61c5e7723bebd86684419"},"refKey":25},
{"_key":"60c61c5e7723bebd8668441c","_id":"references/60c61c5e7723bebd8668441c","_rev":"_cfFluOO---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c5e7723bebd86684419"},"refKey":20},
{"_key":"60c61c5e7723bebd8668441d","_id":"references/60c61c5e7723bebd8668441d","_rev":"_cfFluOa---","tei":"\n\t\n\t\tThe role of site accessibility in microRNA target recognition\n\t\t\n\t\t\tMKertesz\n\t\t\n\t\t\n\t\t\tNIovino\n\t\t\n\t\t\n\t\t\tUUnnerstall\n\t\t\n\t\t\n\t\t\tUGaul\n\t\t\n\t\t\n\t\t\tESegal\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t39\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c5e7723bebd86684419"},"refKey":26},
{"_key":"60c61c5e7723bebd8668441e","_id":"references/60c61c5e7723bebd8668441e","_rev":"_cfFluOm---","tei":"\n\t\n\t\tFEELnc: A tool for Long non-coding RNAs annotation and its application to the dog transcriptome\n\t\t\n\t\t\tVWucher\n\t\t\n\t\t\n\t\t\tFLegeai\n\t\t\n\t\t\n\t\t\tBHédan\n\t\t\n\t\t\n\t\t\tGRizk\n\t\t\n\t\t\n\t\t\tLLagoutte\n\t\t\n\t\t\n\t\t\tTLeeb\n\t\t\n\t\t\n\t\t\tVJagannathan\n\t\t\n\t\t\n\t\t\tECadieu\n\t\t\n\t\t\n\t\t\tADavid\n\t\t\n\t\t\n\t\t\tHLohi\n\t\t\n\t\t\n\t\t\tSCirera\n\t\t\n\t\t\n\t\t\tMFredholm\n\t\t\n\t\t\n\t\t\tNBotherel\n\t\t\n\t\t\n\t\t\tPLeegwater\n\t\t\n\t\t\n\t\t\tCLe Béguec\n\t\t\n\t\t\n\t\t\tHFieten\n\t\t\n\t\t\n\t\t\tCJohansson\n\t\t\n\t\t\n\t\t\tJJohnsson\n\t\t\n\t\t\n\t\t\tJAlifoldi\n\t\t\n\t\t\n\t\t\tCAndré\n\t\t\n\t\t\n\t\t\tKLindblad-Toh\n\t\t\n\t\t\n\t\t\tCHitte\n\t\t\n\t\t\n\t\t\tTDerrien\n\t\t\n\t\t10.1101/064436\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\t8\n\t\t\te57\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c61c5e7723bebd86684419"},"refKey":16},
{"_key":"60c61c5e7723bebd8668441f","_id":"references/60c61c5e7723bebd8668441f","_rev":"_cfFluOu---","tei":"\n\t\n\t\tHuman MicroRNA Targets\n\t\t\n\t\t\tBinoJohn\n\t\t\n\t\t\n\t\t\tAntonJEnright\n\t\t\n\t\t\n\t\t\tAlexeiAravin\n\t\t\n\t\t\n\t\t\tThomasTuschl\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t\n\t\t\tDeboraSMarks\n\t\t\n\t\t10.1371/journal.pbio.0020363\n\t\t15502875\n\t\tPMC521178\n\t\t\n\t\n\t\n\t\tPLoS Biology\n\t\tPLoS Biol\n\t\t1545-7885\n\t\t\n\t\t\t2\n\t\t\t11\n\t\t\te363\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c61c5e7723bebd86684419"},"refKey":27},
{"_key":"60c61c5e7723bebd86684420","_id":"references/60c61c5e7723bebd86684420","_rev":"_cfFluO6---","tei":"\n\t\n\t\tClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks\n\t\t\n\t\t\tGBindea\n\t\t\n\t\t\n\t\t\tBMlecnik\n\t\t\n\t\t\n\t\t\tHHackl\n\t\t\n\t\t\n\t\t\tPCharoentong\n\t\t\n\t\t\n\t\t\tMTosolini\n\t\t\n\t\t\n\t\t\tAKirilovsky\n\t\t\n\t\t\n\t\t\tWHFridman\n\t\t\n\t\t\n\t\t\tFPages\n\t\t\n\t\t\n\t\t\tZTrajanoski\n\t\t\n\t\t\n\t\t\tJGalon\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c5e7723bebd86684419"},"refKey":23},
{"_key":"60c61c5e7723bebd86684421","_id":"references/60c61c5e7723bebd86684421","_rev":"_cfFluPG---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c5e7723bebd86684419"},"refKey":24},
{"_key":"60c61c5e7723bebd86684422","_id":"references/60c61c5e7723bebd86684422","_rev":"_cfFluPS---","tei":"\n\t\n\t\tConserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets\n\t\t\n\t\t\tBPLewis\n\t\t\n\t\t\n\t\t\tCBBurge\n\t\t\n\t\t\n\t\t\tDPBartel\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t120\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c5e7723bebd86684419"},"refKey":28},
{"_key":"60c61c647723bebd8668443d","_id":"references/60c61c647723bebd8668443d","_rev":"_cfFluPa---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria; Vienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61c647723bebd8668443c"},"refKey":16},
{"_key":"60c61ce77723bebd86684464","_id":"references/60c61ce77723bebd86684464","_rev":"_cfFluPm---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t10.1093/nar/gkg595\n\t\t12824337\n\t\tPMC169194\n\t\tark:/67375/HXZ-CTS3N10R-1\n\t\tF1A174A592D046D94F933F3C8A3EC56E88054798\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61ce77723bebd86684463"},"refKey":20},
{"_key":"60c61d1b7723bebd8668448b","_id":"references/60c61d1b7723bebd8668448b","_rev":"_cfFluPy---","tei":"\n\t\n\t\tggplot2: elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c61d1b7723bebd8668448a"},"refKey":11},
{"_key":"60c61d5d7723bebd866844b3","_id":"references/60c61d5d7723bebd866844b3","_rev":"_cfFluQ----","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tAlexanderDobin\n\t\t\n\t\t\n\t\t\tCarrieADavis\n\t\t\n\t\t\n\t\t\tFelixSchlesinger\n\t\t\n\t\t\n\t\t\tJorgDrenkow\n\t\t\n\t\t\n\t\t\tChrisZaleski\n\t\t\n\t\t\n\t\t\tSonaliJha\n\t\t\n\t\t\n\t\t\tPhilippeBatut\n\t\t\n\t\t\n\t\t\tMarkChaisson\n\t\t\n\t\t\n\t\t\tThomasRGingeras\n\t\t\n\t\t10.1093/bioinformatics/bts635\n\t\t23104886\n\t\tPMC3530905\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61d5d7723bebd866844b2"},"refKey":45},
{"_key":"60c61d647723bebd866844c1","_id":"references/60c61d647723bebd866844c1","_rev":"_cfFluQK---","tei":"\n\t\n\t\tProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMWiederstein\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61d647723bebd866844c0"},"refKey":20},
{"_key":"60c61d647723bebd866844c2","_id":"references/60c61d647723bebd866844c2","_rev":"_cfFluQS---","tei":"\n\t\n\t\tMolProbity: more and better reference data for improved all-atom structure validation\n\t\t\n\t\t\tCJWilliams\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61d647723bebd866844c0"},"refKey":19},
{"_key":"60c61d647723bebd866844c3","_id":"references/60c61d647723bebd866844c3","_rev":"_cfFluQe---","tei":"\n\t\n\t\tProtein identification and analysis tools on the ExPASy server\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\n\t\n\t\tThe Proteomics Protocols Handbook\n\t\t\t\t\n\t\t\tJMWalker\n\t\t\n\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61d647723bebd866844c0"},"refKey":13},
{"_key":"60c61db67723bebd86684500","_id":"references/60c61db67723bebd86684500","_rev":"_cfFluQq---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61db67723bebd866844ff"},"refKey":5},
{"_key":"60c61db67723bebd86684501","_id":"references/60c61db67723bebd86684501","_rev":"_cfFluQ2---","tei":"\n\t\n\t\tFast and accurate short read alignment with burrows-wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61db67723bebd866844ff"},"refKey":6},
{"_key":"60c61db67723bebd86684502","_id":"references/60c61db67723bebd86684502","_rev":"_cfFluR----","tei":"\n\t\n\t\tFrom FastQ data to high confidence variant calls: the genome analysis toolkit best practices pipeline\n\t\t\n\t\t\tGAVan Der Auwera\n\t\t\n\t\t\n\t\t\tMOCarneiro\n\t\t\n\t\t\n\t\t\tCHartl\n\t\t\n\t\t\n\t\t\tRPoplin\n\t\t\n\t\t\n\t\t\tDelAngel\n\t\t\n\t\t\n\t\t\tGLevy-Moonshine\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\t11.10.1-11.1033\n\t\n\t\n\t\tCurr Protoc Bioinformatics\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61db67723bebd866844ff"},"refKey":7},
{"_key":"60c61db67723bebd86684503","_id":"references/60c61db67723bebd86684503","_rev":"_cfFluRO---","tei":"\n\t\n\t\tHaplotype-based variant detection from short-read sequencing\n\t\t\n\t\t\tEGarrison\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\tarXiv:1207.3907\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\tqbio.GN\n\n","document":{"$oid":"60c61db67723bebd866844ff"},"refKey":8},
{"_key":"60c61db97723bebd8668450f","_id":"references/60c61db97723bebd8668450f","_rev":"_cfFluRm---","tei":"\n\t\n\t\tAnalysis of Factorial Experiments. R Package Version 0.23-0\n\t\t\n\t\t\tHSingmann\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tJWestfall\n\t\t\n\t\t\n\t\t\tFAust\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61db97723bebd8668450e"},"refKey":28},
{"_key":"60c61db97723bebd86684510","_id":"references/60c61db97723bebd86684510","_rev":"_cfFluR6---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c61db97723bebd8668450e"},"refKey":1},
{"_key":"60c61db97723bebd86684511","_id":"references/60c61db97723bebd86684511","_rev":"_cfFluSG---","tei":"\n\t\n\t\tlmerTest Package: Tests in Linear Mixed Effects Models\n\t\t\n\t\t\tAlexandraKuznetsova\n\t\t\n\t\t\n\t\t\tPerBBrockhoff\n\t\t\n\t\t\n\t\t\tRuneH BChristensen\n\t\t\n\t\t10.18637/jss.v082.i13\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t82\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c61db97723bebd8668450e"},"refKey":16},
{"_key":"60c61db97723bebd86684512","_id":"references/60c61db97723bebd86684512","_rev":"_cfFluSW---","tei":"\n\t\n\t\tWRS2: Wilcox Robust Estimation and Testing\n\t\t\n\t\t\tPMair\n\t\t\n\t\t\n\t\t\tRWilcox\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61db97723bebd8668450e"},"refKey":18},
{"_key":"60c61dbc7723bebd8668451c","_id":"references/60c61dbc7723bebd8668451c","_rev":"_cfFluSi---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61dbc7723bebd8668451b"},"refKey":32},
{"_key":"60c61dc07723bebd86684524","_id":"references/60c61dc07723bebd86684524","_rev":"_cfFluSu---","tei":"\n\t\n\t\tRPI-Pred: predicting ncRNA-protein interaction using sequence and structural information\n\t\t\n\t\t\tVSuresh\n\t\t\n\t\t\n\t\t\tLiangLiu\n\t\t\n\t\t\n\t\t\tDonaldAdjeroh\n\t\t\n\t\t\n\t\t\tXiaoboZhou\n\t\t\n\t\t10.1093/nar/gkv020\n\t\t25609700\n\t\tPMC4330382\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61dc07723bebd86684523"},"refKey":24},
{"_key":"60c61dd07723bebd86684531","_id":"references/60c61dd07723bebd86684531","_rev":"_cfFluS6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tTSeemann\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61dd07723bebd86684530"},"refKey":25},
{"_key":"60c61dd07723bebd86684532","_id":"references/60c61dd07723bebd86684532","_rev":"_cfFluTG---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tBabraham Bioinformatics -FastQC A Quality Control tool for High Throughput Sequence Data\n\t\t\n\t\n\n","document":{"$oid":"60c61dd07723bebd86684530"},"refKey":8},
{"_key":"60c61dd07723bebd86684533","_id":"references/60c61dd07723bebd86684533","_rev":"_cfFluTS---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1101/274100\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c61dd07723bebd86684530"},"refKey":9},
{"_key":"60c61dd07723bebd86684534","_id":"references/60c61dd07723bebd86684534","_rev":"_cfFluTe---","tei":"\n\t\n\t\tCD-HIT: accelerated for clustering the next-generation (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. sequencing data\n\t\t\n\t\t\tLFu\n\t\t\n\t\t\n\t\t\tBNiu\n\t\t\n\t\t\n\t\t\tZZhu\n\t\t\n\t\t\n\t\t\tSWu\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61dd07723bebd86684530"},"refKey":10},
{"_key":"60c61dd07723bebd86684535","_id":"references/60c61dd07723bebd86684535","_rev":"_cfFluTq---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61dd07723bebd86684530"},"refKey":15},
{"_key":"60c61def7723bebd8668455b","_id":"references/60c61def7723bebd8668455b","_rev":"_cfFluTy---","tei":"\n\t\n\t\tVirtual Computational Chemistry Laboratory – Design and Description\n\t\t\n\t\t\tIgorVTetko\n\t\t\n\t\t\n\t\t\tJohannGasteiger\n\t\t\n\t\t\n\t\t\tRobertoTodeschini\n\t\t\n\t\t\n\t\t\tAndreaMauri\n\t\t\n\t\t\n\t\t\tDavidLivingstone\n\t\t\n\t\t\n\t\t\tPeterErtl\n\t\t\n\t\t\n\t\t\tVladimirAPalyulin\n\t\t\n\t\t\n\t\t\tEugeneVRadchenko\n\t\t\n\t\t\n\t\t\tNikolaySZefirov\n\t\t\n\t\t\n\t\t\tAlexanderSMakarenko\n\t\t\n\t\t\n\t\t\tVsevolodYu. Tanchuk\n\t\t\n\t\t\n\t\t\tVolodymyrVProkopenko\n\t\t\n\t\t10.1007/s10822-005-8694-y\n\t\t16231203\n\t\tark:/67375/VQC-WXHSHQ0J-T\n\t\t408BA578F5FE9EA00F2437736B7BBD2262DEFC06\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t19\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c61def7723bebd8668455a"},"refKey":10},
{"_key":"60c61dfa7723bebd8668456e","_id":"references/60c61dfa7723bebd8668456e","_rev":"_cfFluU----","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\tCOVID-19\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c61dfa7723bebd8668456d"},"refKey":3},
{"_key":"60c61e017723bebd86684578","_id":"references/60c61e017723bebd86684578","_rev":"_cfFluUK---","tei":"\n\t\n\t\tDifferences in predictions for survival and expectations for goals of care between physicians and family surrogate decision makers of chronically critically ill adults\n\t\t\n\t\t\tSLDouglas\n\t\t\n\t\t\n\t\t\tBJDaly\n\t\t\n\t\t\n\t\t\tARLipson\n\t\t\n\t\n\t\n\t\tRes Rev J Nurs Health Sci\n\t\t\n\t\t\t3\n\t\t\t3\n\t\t\t74\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61e017723bebd86684577"},"refKey":16},
{"_key":"60c61e167723bebd86684583","_id":"references/60c61e167723bebd86684583","_rev":"_cfFluUW---","tei":"\n\t\n\t\tAutomated genome annotation and pathway identification using the KEGG Orthology (KO) as a controlled vocabulary\n\t\t\n\t\t\tXMao\n\t\t\n\t\t\n\t\t\tTCai\n\t\t\n\t\t\n\t\t\tJGOlyarchuk\n\t\t\n\t\t\n\t\t\tLWei\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61e167723bebd86684582"},"refKey":26},
{"_key":"60c61e167723bebd86684584","_id":"references/60c61e167723bebd86684584","_rev":"_cfFluUi---","tei":"\n\t\n\t\tGene ontology analysis for RNA-seq: accounting for selection bias\n\t\t\n\t\t\tMDYoung\n\t\t\n\t\t\n\t\t\tMJWakefield\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tOAlicia\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t11\n\t\t\tR14\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61e167723bebd86684582"},"refKey":48},
{"_key":"60c61e287723bebd866845ac","_id":"references/60c61e287723bebd866845ac","_rev":"_cfFluUu---","tei":"\n\t\n\t\tMrbayes 3.2: efficient bayesian phylogenetic inference and model choice across a large model space\n\t\t\n\t\t\tFRonquist\n\t\t\n\t\t\n\t\t\tMTeslenko\n\t\t\n\t\t\n\t\t\tPVan Der Mark\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t61\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61e287723bebd866845ab"},"refKey":16},
{"_key":"60c61e287723bebd866845ad","_id":"references/60c61e287723bebd866845ad","_rev":"_cfFluU6---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61e287723bebd866845ab"},"refKey":15},
{"_key":"60c61e287723bebd866845ae","_id":"references/60c61e287723bebd866845ae","_rev":"_cfFluVC---","tei":"\n\t\n\t\tDatamonkey : rapid detection of selective pressure on individual sites of codon alignments\n\t\t\n\t\t\tSlkPond\n\t\t\n\t\t\n\t\t\tSdwFrost\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61e287723bebd866845ab"},"refKey":17},
{"_key":"60c61e2d7723bebd866845b5","_id":"references/60c61e2d7723bebd866845b5","_rev":"_cfFluVO---","tei":"\n\t\n\t\tSHELXT: Integrating space group determination and structure solution\n\t\t\n\t\t\tGeorgeMSheldrick\n\t\t\n\t\t10.1107/s2053273314085623\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations and Advances\n\t\tActa Cryst Sect A\n\t\t2053-2733\n\t\t\n\t\t\t70\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c61e2d7723bebd866845b4"},"refKey":60},
{"_key":"60c61e2d7723bebd866845b6","_id":"references/60c61e2d7723bebd866845b6","_rev":"_cfFluVa---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tKBrandenburg\n\t\t\n\t\t\n\t\t\tHPutz\n\t\t\n\t\t\n\t\t\tCrystalImpactDiamond\n\t\t\n\t\t\n\t\t\tGbr\n\t\t\n\t\t\n\t\t\t\n\t\t\tBonn, Germany\n\t\t\n\t\n\n","document":{"$oid":"60c61e2d7723bebd866845b4"},"refKey":63},
{"_key":"60c61e397723bebd866845e5","_id":"references/60c61e397723bebd866845e5","_rev":"_cfFluVm---","tei":"\n\t\n\t\tGenome sequence assembly using trace signals and additional sequence information\n\t\t\n\t\t\tBChevreux\n\t\t\n\t\t\n\t\t\tTWetter\n\t\t\n\t\t\n\t\t\tSSuhai\n\t\t\n\t\n\t\n\t\tComputer Science and BiologyProceedings of the German Conference on Bioinformatics, GCB'99. GCB\n\t\t\t\tHannover, Germany\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61e397723bebd866845e4"},"refKey":0},
{"_key":"60c61e397723bebd866845e6","_id":"references/60c61e397723bebd866845e6","_rev":"_cfFluVy---","tei":"\n\t\n\t\tVMD -visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ. Mol. Graphs\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61e397723bebd866845e4"},"refKey":5},
{"_key":"60c61e397723bebd866845e7","_id":"references/60c61e397723bebd866845e7","_rev":"_cfFluV6---","tei":"\n\t\n\t\tI-TASSER server for protein 3D structure prediction\n\t\t\n\t\t\tJWWynne\n\t\t\n\t\t\n\t\t\tLFWang\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t10\n\t\t\t40\n\t\t\t\n\t\t\n\t\n\tPLoS Pathog\n\n","document":{"$oid":"60c61e397723bebd866845e4"},"refKey":33},
{"_key":"60c61e397723bebd866845e8","_id":"references/60c61e397723bebd866845e8","_rev":"_cfFluWG---","tei":"\n\t\n\t\tI-TASSER: a unified platform for automated protein structure and function prediction\n\t\t\n\t\t\tARoy\n\t\t\n\t\t\n\t\t\tAKucukural\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61e397723bebd866845e4"},"refKey":21},
{"_key":"60c61e947723bebd86684623","_id":"references/60c61e947723bebd86684623","_rev":"_cfFluWS---","tei":"\n\t\n\t\tggplot2: elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York, NY\n\t\t\n\t\n\n","document":{"$oid":"60c61e947723bebd86684622"},"refKey":54},
{"_key":"60c61e947723bebd86684624","_id":"references/60c61e947723bebd86684624","_rev":"_cfFluWe---","tei":"\n\t\n\t\ttpsDig 2, 2.16 ed. Distributed by Morphometrics\n\t\t\n\t\t\tFJRohlf\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tSUNY Stony Brook, Stony Brook, NY\n\t\t\n\t\n\n","document":{"$oid":"60c61e947723bebd86684622"},"refKey":49},
{"_key":"60c61e947723bebd86684625","_id":"references/60c61e947723bebd86684625","_rev":"_cfFluWm---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tFJRohlf\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tSUNY Stony Brook, Stony Brook, NY\n\t\t\n\t\n\t46 ed. Distributed by Morphometrics\n\n","document":{"$oid":"60c61e947723bebd86684622"},"refKey":50},
{"_key":"60c61eb17723bebd86684658","_id":"references/60c61eb17723bebd86684658","_rev":"_cfFluWy---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95=98=NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucl Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61eb17723bebd86684657"},"refKey":8},
{"_key":"60c61ec67723bebd86684666","_id":"references/60c61ec67723bebd86684666","_rev":"_cfFluX----","tei":"\n\t\n\t\t2020 EpiNow2 v1.2.0: Estimate Real-Time Case Counts and Time-Varying Epidemiological Parameters\n\t\t\n\t\t\tSAbbott\n\t\t\n\t\t10.5281/zenodo.4088545\n\t\t\n\t\t\tSee\n\t\t\n\t\n\n","document":{"$oid":"60c61ec67723bebd86684665"},"refKey":21},
{"_key":"60c61ec67723bebd86684667","_id":"references/60c61ec67723bebd86684667","_rev":"_cfFluXK---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61ec67723bebd86684665"},"refKey":22},
{"_key":"60c61ec67723bebd86684668","_id":"references/60c61ec67723bebd86684668","_rev":"_cfFluXW---","tei":"\n\t\n\t\tRStan: the R interface to Stan\n\t\t\n\t\t\tStanDevelopment Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61ec67723bebd86684665"},"refKey":23},
{"_key":"60c61ee27723bebd86684679","_id":"references/60c61ee27723bebd86684679","_rev":"_cfFluXe---","tei":"\n\t\n\t\tThe EMBL-EBI Search and Sequence Analysis Tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tTGur\n\t\t\n\t\t\n\t\t\tNMadhusoodanan\n\t\t\n\t\t\n\t\t\tPBasutkar\n\t\t\n\t\t\n\t\t\tAR NTivey\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t10.1093/nar/gkz268\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61ee27723bebd86684678"},"refKey":36},
{"_key":"60c61ee27723bebd8668467a","_id":"references/60c61ee27723bebd8668467a","_rev":"_cfFluXq---","tei":"\n\t\n\t\tiGEMDOCK: a graphical environment of enhancing GEMDOCK using pharmacological interactions and post-screening analysis\n\t\t\n\t\t\tKai-ChengHsu\n\t\t\n\t\t\n\t\t\tYen-FuChen\n\t\t\n\t\t\n\t\t\tShen-RongLin\n\t\t\n\t\t\n\t\t\tJinn-MoonYang\n\t\t\n\t\t10.1186/1471-2105-12-s1-s33\n\t\t21342564\n\t\tPMC3044289\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\tSuppl 1\n\t\t\tS33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c61ee27723bebd86684678"},"refKey":28},
{"_key":"60c61ee27723bebd8668467b","_id":"references/60c61ee27723bebd8668467b","_rev":"_cfFluX2---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61ee27723bebd86684678"},"refKey":35},
{"_key":"60c61ee27723bebd8668467c","_id":"references/60c61ee27723bebd8668467c","_rev":"_cfFluYC---","tei":"\n\t\n\t\tSiMMap: a web server for inferring site-moiety map to recognize interaction preferences between protein pockets and compound moieties\n\t\t\n\t\t\tYen-FuChen\n\t\t\n\t\t\n\t\t\tKai-ChengHsu\n\t\t\n\t\t\n\t\t\tShen-RongLin\n\t\t\n\t\t\n\t\t\tWen-ChingWang\n\t\t\n\t\t\n\t\t\tYu-ChiHuang\n\t\t\n\t\t\n\t\t\tJinn-MoonYang\n\t\t\n\t\t10.1093/nar/gkq480\n\t\t20519201\n\t\tPMC2896162\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61ee27723bebd86684678"},"refKey":20},
{"_key":"60c61ef47723bebd8668468f","_id":"references/60c61ef47723bebd8668468f","_rev":"_cfFluYK---","tei":"\n\t\n\t\tIsolation forest\n\t\t\n\t\t\tFTLiu\n\t\t\n\t\t\n\t\t\tKMTing\n\t\t\n\t\t\n\t\t\tZHZhou\n\t\t\n\t\n\t\n\t\teighth IEEE international conference on data mining\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c61ef47723bebd8668468e"},"refKey":49},
{"_key":"60c61f1e7723bebd866846ad","_id":"references/60c61f1e7723bebd866846ad","_rev":"_cfFluYW---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c61f1e7723bebd866846ac"},"refKey":15},
{"_key":"60c61f1e7723bebd866846ae","_id":"references/60c61f1e7723bebd866846ae","_rev":"_cfFluYi---","tei":"\n\t\n\t\tAn amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar\n\t\t\n\t\t\tNathanDGrubaugh\n\t\t\n\t\t\n\t\t\tKarthikGangavarapu\n\t\t\n\t\t\n\t\t\tJoshuaQuick\n\t\t\n\t\t\n\t\t\tNathanielLMatteson\n\t\t\n\t\t\n\t\t\tJaquelineGoesDe Jesus\n\t\t\n\t\t\n\t\t\tBradleyJMain\n\t\t\n\t\t\n\t\t\tAmandaLTan\n\t\t\n\t\t\n\t\t\tLaurenMPaul\n\t\t\n\t\t\n\t\t\tDougEBrackney\n\t\t\n\t\t\n\t\t\tSaranGrewal\n\t\t\n\t\t\n\t\t\tNikosGurfield\n\t\t\n\t\t\n\t\t\tKoenK AVan Rompay\n\t\t\n\t\t\n\t\t\tSharonIsern\n\t\t\n\t\t\n\t\t\tScottFMichael\n\t\t\n\t\t\n\t\t\tLarkLCoffey\n\t\t\n\t\t\n\t\t\tNicholasJLoman\n\t\t\n\t\t\n\t\t\tKristianGAndersen\n\t\t\t0000-0001-6431-5982\n\t\t\n\t\t10.1186/s13059-018-1618-7\n\t\t30621750\n\t\tPMC6325816\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c61f1e7723bebd866846ac"},"refKey":7},
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{"_key":"60c61f237723bebd866846b6","_id":"references/60c61f237723bebd866846b6","_rev":"_cfFluY6---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tThe R Package for Statistical Computing: R: A Language and Environment for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\t/: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c61f237723bebd866846b5"},"refKey":15},
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{"_key":"60c621167723bebd86684851","_id":"references/60c621167723bebd86684851","_rev":"_cfFluhe---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c621167723bebd8668484f"},"refKey":15},
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{"_key":"60c621217723bebd8668485c","_id":"references/60c621217723bebd8668485c","_rev":"_cfFluh2---","tei":"\n\t\n\t\tExperimental phasing withSHELXC/D/E: combining chain tracing with density modification\n\t\t\n\t\t\tGeorgeMSheldrick\n\t\t\n\t\t10.1107/s0907444909038360\n\t\t20383001\n\t\tPMC2852312\n\t\tark:/67375/WNG-9FDGD3QF-3\n\t\tCD02EDBBC672C103C8E62D610874383DCE74DB14\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c621217723bebd8668485a"},"refKey":45},
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{"_key":"60c621217723bebd8668485e","_id":"references/60c621217723bebd8668485e","_rev":"_cfFluiK---","tei":"\n\t\n\t\tXDS\n\t\t\n\t\t\tWolfgangKabsch\n\t\t\n\t\t\n\t\t\tXds\n\t\t\n\t\t10.1107/s0907444909047337\n\t\t20124692\n\t\tPMC2815665\n\t\tark:/67375/WNG-9M60ZBPP-P\n\t\t894B5ACAFB01FD6DB4B5783B87D812162EAEE35C\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c621217723bebd8668485a"},"refKey":43},
{"_key":"60c621217723bebd8668485f","_id":"references/60c621217723bebd8668485f","_rev":"_cfFluiW---","tei":"\n\t\n\t\tIntegration, scaling, space-group assignment and post-refinement\n\t\t\n\t\t\tWolfgangKabsch\n\t\t\n\t\t10.1107/s0907444909047374\n\t\t20124693\n\t\tPMC2815666\n\t\tark:/67375/WNG-N42N337M-X\n\t\t890DD65DF8AE9608005E22F9DCF88F4902ADF5E1\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c621217723bebd8668485a"},"refKey":44},
{"_key":"60c6214a7723bebd86684873","_id":"references/60c6214a7723bebd86684873","_rev":"_cfFluii---","tei":"\n\t\n\t\tEpiModel: An R Package for Mathematical Modeling of Infectious Disease over Networks\n\t\t\n\t\t\tSamuelMJenness\n\t\t\n\t\t\n\t\t\tStevenMGoodreau\n\t\t\n\t\t\n\t\t\tMartinaMorris\n\t\t\n\t\t10.18637/jss.v084.i08\n\t\t29731699\n\t\tPMC5931789\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t84\n\t\t\t8\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c6214a7723bebd86684872"},"refKey":26},
{"_key":"60c6214a7723bebd86684874","_id":"references/60c6214a7723bebd86684874","_rev":"_cfFluiu---","tei":"\n\t\n\t\tSimInf: An R package for Data-driven Stochastic Disease Spread Simulations\n\t\t\n\t\t\tSWidgren\n\t\t\n\t\t\n\t\t\tPBauer\n\t\t\n\t\t\n\t\t\tREriksson\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tpreprint]. arXiv [q-bio.PE\n\n","document":{"$oid":"60c6214a7723bebd86684872"},"refKey":27},
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{"_key":"60c6215c7723bebd86684887","_id":"references/60c6215c7723bebd86684887","_rev":"_cfFluja---","tei":"\n\t\n\t\tMplus User's Guide, 7th End\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t\n\t\t\t\n\t\t\tMuthén & Muthén\n\t\t\tLos Angeles, CA\n\t\t\n\t\n\n","document":{"$oid":"60c6215c7723bebd86684885"},"refKey":71},
{"_key":"60c6215c7723bebd86684888","_id":"references/60c6215c7723bebd86684888","_rev":"_cfFlujm---","tei":"\n\t\n\t\tCovariances of Exogenous Variables\n\t\t\n\t\t\tLKMuthen\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tOnline Forum Post\n\n","document":{"$oid":"60c6215c7723bebd86684885"},"refKey":68},
{"_key":"60c6220e7723bebd86684897","_id":"references/60c6220e7723bebd86684897","_rev":"_cfFluju---","tei":"\n\t\n\t\tComparison of Sequencing Utility Programs\n\t\t\n\t\t\tErikAronesty\n\t\t\n\t\t10.2174/1875036201307010001\n\t\t\n\t\t\n\t\n\t\n\t\tThe Open Bioinformatics Journal\n\t\tTOBIOIJ\n\t\t1875-0362\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tBentham Science Publishers Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c6220e7723bebd86684896"},"refKey":53},
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{"_key":"60c622e77723bebd86684930","_id":"references/60c622e77723bebd86684930","_rev":"_cfFlulq---","tei":"\n\t\n\t\tFast admixture analysis and population tree estimation for SNP and NGS data\n\t\t\n\t\t\tJadeYuCheng\n\t\t\n\t\t\n\t\t\tThomasMailund\n\t\t\n\t\t\n\t\t\tRasmusNielsen\n\t\t\n\t\t10.1093/bioinformatics/btx098\n\t\t28334108\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":16},
{"_key":"60c622e77723bebd86684931","_id":"references/60c622e77723bebd86684931","_rev":"_cfFlul2---","tei":"\n\t\n\t\tPhysiological and Genetic Adaptations to Diving in Sea Nomads\n\t\t\n\t\t\tMelissaAIlardo\n\t\t\n\t\t\n\t\t\tIdaMoltke\n\t\t\n\t\t\n\t\t\tThorfinnSKorneliussen\n\t\t\n\t\t\n\t\t\tJadeCheng\n\t\t\n\t\t\n\t\t\tAaronJStern\n\t\t\n\t\t\n\t\t\tFernandoRacimo\n\t\t\n\t\t\n\t\t\tPeterDe Barros Damgaard\n\t\t\n\t\t\n\t\t\tMartinSikora\n\t\t\n\t\t\n\t\t\tAndaineSeguin-Orlando\n\t\t\n\t\t\n\t\t\tSimonRasmussen\n\t\t\n\t\t\n\t\t\tIngeC LVan Den Munckhof\n\t\t\n\t\t\n\t\t\tRobTer Horst\n\t\t\n\t\t\n\t\t\tLeoA BJoosten\n\t\t\n\t\t\n\t\t\tMihaiGNetea\n\t\t\n\t\t\n\t\t\tSuhartiniSalingkat\n\t\t\n\t\t\n\t\t\tRasmusNielsen\n\t\t\n\t\t\n\t\t\tEskeWillerslev\n\t\t\n\t\t10.1016/j.cell.2018.03.054\n\t\t29677510\n\t\t\n\t\n\t\n\t\tCell\n\t\tCell\n\t\t0092-8674\n\t\t\n\t\t\t173\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":44},
{"_key":"60c622e77723bebd86684932","_id":"references/60c622e77723bebd86684932","_rev":"_cfFlumC---","tei":"\n\t\n\t\tOhana: detecting selection in multiple populations by modelling ancestral admixture components\n\t\t\n\t\t\tJadeYuCheng\n\t\t\t0000-0002-8994-1581\n\t\t\n\t\t\n\t\t\tFernandoRacimo\n\t\t\t0000-0002-5025-2607\n\t\t\n\t\t\n\t\t\tRasmusNielsen\n\t\t\t0000-0003-0513-6591\n\t\t\n\t\t10.1101/546408\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":17},
{"_key":"60c622e77723bebd86684933","_id":"references/60c622e77723bebd86684933","_rev":"_cfFlumO---","tei":"\n\t\n\t\tPLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses\n\t\t\n\t\t\tShaunPurcell\n\t\t\n\t\t\n\t\t\tBenjaminNeale\n\t\t\n\t\t\n\t\t\tKatheTodd-Brown\n\t\t\n\t\t\n\t\t\tLoriThomas\n\t\t\n\t\t\n\t\t\tManuelA RFerreira\n\t\t\n\t\t\n\t\t\tDavidBender\n\t\t\n\t\t\n\t\t\tJulianMaller\n\t\t\n\t\t\n\t\t\tPamelaSklar\n\t\t\n\t\t\n\t\t\tPaulI WDe Bakker\n\t\t\n\t\t\n\t\t\tMarkJDaly\n\t\t\n\t\t\n\t\t\tPakCSham\n\t\t\n\t\t10.1086/519795\n\t\t17701901\n\t\tPMC1950838\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":72},
{"_key":"60c622e77723bebd86684934","_id":"references/60c622e77723bebd86684934","_rev":"_cfFlumW---","tei":"\n\t\n\t\tReproducible RNA-seq analysis using recount2\n\t\t\n\t\t\tLeonardoCollado-Torres\n\t\t\t0000-0003-2140-308X\n\t\t\n\t\t\n\t\t\tAbhinavNellore\n\t\t\n\t\t\n\t\t\tKaiKammers\n\t\t\n\t\t\n\t\t\tShannonEEllis\n\t\t\n\t\t\n\t\t\tMargaretATaub\n\t\t\n\t\t\n\t\t\tKasperDHansen\n\t\t\t0000-0003-0086-0687\n\t\t\n\t\t\n\t\t\tAndrewEJaffe\n\t\t\t0000-0001-6886-1454\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tJeffreyTLeek\n\t\t\n\t\t10.1038/nbt.3838\n\t\t28398307\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t35\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":18},
{"_key":"60c622e77723bebd86684935","_id":"references/60c622e77723bebd86684935","_rev":"_cfFlumi---","tei":"\n\t\n\t\tBCFtools/csq: Haplotype-aware variant consequences\n\t\t\n\t\t\tPetrDanecek\n\t\t\t0000-0002-4159-1666\n\t\t\n\t\t\n\t\t\tShaneAMccarthy\n\t\t\n\t\t10.1101/090811\n\t\t\n\t\n\t\n\t\tTwelve years of SAMtools and BCFtools. ArXiv201210295 Q-Bio\n\t\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":21},
{"_key":"60c622e77723bebd86684936","_id":"references/60c622e77723bebd86684936","_rev":"_cfFlumu---","tei":"\n\t\n\t\tcyvcf2: fast, flexible variant analysis with Python\n\t\t\n\t\t\tBrentSPedersen\n\t\t\n\t\t\n\t\t\tAaronRQuinlan\n\t\t\n\t\t10.1093/bioinformatics/btx057\n\t\t28165109\n\t\tPMC5870853\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":67},
{"_key":"60c622e77723bebd86684937","_id":"references/60c622e77723bebd86684937","_rev":"_cfFlum6---","tei":"\n\t\n\t\tFast and efficient QTL mapper for thousands of molecular phenotypes\n\t\t\n\t\t\tHalitOngen\n\t\t\n\t\t\n\t\t\tAlfonsoBuil\n\t\t\n\t\t\n\t\t\tAndrewAnandBrown\n\t\t\n\t\t\n\t\t\tEmmanouilTDermitzakis\n\t\t\n\t\t\n\t\t\tOlivierDelaneau\n\t\t\n\t\t10.1093/bioinformatics/btv722\n\t\t26708335\n\t\tPMC4866519\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":63},
{"_key":"60c622e77723bebd86684938","_id":"references/60c622e77723bebd86684938","_rev":"_cfFlunG---","tei":"\n\t\n\t\tAccurate detection of complex structural variations using single-molecule sequencing\n\t\t\n\t\t\tFritzJSedlazeck\n\t\t\t0000-0001-6040-2691\n\t\t\n\t\t\n\t\t\tPhilippRescheneder\n\t\t\n\t\t\n\t\t\tMoritzSmolka\n\t\t\t0000-0002-8621-600X\n\t\t\n\t\t\n\t\t\tHanFang\n\t\t\n\t\t\n\t\t\tMariaNattestad\n\t\t\t0000-0002-4796-2894\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tMichaelCSchatz\n\t\t\t0000-0002-4118-4446\n\t\t\n\t\t10.1038/s41592-018-0001-7\n\t\t29713083\n\t\tPMC5990442\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t15\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":85},
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{"_key":"60c622e77723bebd8668493a","_id":"references/60c622e77723bebd8668493a","_rev":"_cfFluna---","tei":"\n\t\n\t\tSLiM 3: Forward genetic simulations beyond the Wright–Fisher model\n\t\t\n\t\t\tBenjaminCHaller\n\t\t\n\t\t\n\t\t\tPhilippWMesser\n\t\t\t0000-0001-8453-9377\n\t\t\n\t\t10.1101/418657\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":38},
{"_key":"60c622e77723bebd8668493b","_id":"references/60c622e77723bebd8668493b","_rev":"_cfFlunm---","tei":"\n\t\n\t\tExploring Diallelic Genetic Markers: TheHardyWeinbergPackage\n\t\t\n\t\t\tJanGraffelman\n\t\t\n\t\t10.18637/jss.v064.i03\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t64\n\t\t\t3\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c622e77723bebd8668492f"},"refKey":33},
{"_key":"60c622f77723bebd86684950","_id":"references/60c622f77723bebd86684950","_rev":"_cfFlun2---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c622f77723bebd8668494f"},"refKey":33},
{"_key":"60c622f77723bebd86684951","_id":"references/60c622f77723bebd86684951","_rev":"_cfFluoC---","tei":"\n\t\n\t\tSplatter: simulation of single-cell RNA sequencing data\n\t\t\n\t\t\tLukeZappia\n\t\t\t0000-0001-7744-8565\n\t\t\n\t\t\n\t\t\tBelindaPhipson\n\t\t\t0000-0002-1711-7454\n\t\t\n\t\t\n\t\t\tAliciaOshlack\n\t\t\t0000-0001-9788-5690\n\t\t\n\t\t10.1101/133173\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t18\n\t\t\t174\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c622f77723bebd8668494f"},"refKey":39},
{"_key":"60c622f77723bebd86684952","_id":"references/60c622f77723bebd86684952","_rev":"_cfFluoO---","tei":"\n\t\n\t\tMAST: A flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA-seq data.\n\t\t\n\t\t\tGregFinak\n\t\t\t0000-0003-4341-9090\n\t\t\n\t\t\n\t\t\tAndrewMcdavid\n\t\t\t0000-0002-6581-1213\n\t\t\n\t\t\n\t\t\tMasanaoYajima\n\t\t\t0000-0002-7583-3707\n\t\t\n\t\t\n\t\t\tJingyuanDeng\n\t\t\n\t\t\n\t\t\tVivianGersuk\n\t\t\n\t\t\n\t\t\tAlexKShalek\n\t\t\n\t\t\n\t\t\tChloeKSlichter\n\t\t\n\t\t\n\t\t\tHannahWMiller\n\t\t\n\t\t\n\t\t\tMJuliannaMcelrath\n\t\t\n\t\t\n\t\t\tMartinPrlic\n\t\t\n\t\t\n\t\t\tPeterLinsley\n\t\t\n\t\t\n\t\t\tRaphaelGottardo\n\t\t\t0000-0002-3867-0232\n\t\t\n\t\t10.1101/020842\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t16\n\t\t\t278\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c622f77723bebd8668494f"},"refKey":7},
{"_key":"60c622fb7723bebd86684966","_id":"references/60c622fb7723bebd86684966","_rev":"_cfFluoW---","tei":"\n\t\n\t\tANNOVAR: functional annotation of genetic variants from high-throughput sequencing data\n\t\t\n\t\t\tKWang\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tHHakonarson\n\t\t\n\t\t10.1093/nar/gkq603\n\t\t20601685\n\t\tPMC2938201\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c622fb7723bebd86684965"},"refKey":52},
{"_key":"60c622fb7723bebd86684967","_id":"references/60c622fb7723bebd86684967","_rev":"_cfFluoi---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows–Wheeler transform\n\t\t\n\t\t\tHengLi\n\t\t\n\t\t\n\t\t\tRichardDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp698\n\t\t20080505\n\t\tPMC2828108\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c622fb7723bebd86684965"},"refKey":50},
{"_key":"60c6231b7723bebd8668497e","_id":"references/60c6231b7723bebd8668497e","_rev":"_cfFluou---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6231b7723bebd8668497c"},"refKey":46},
{"_key":"60c6231b7723bebd8668497f","_id":"references/60c6231b7723bebd8668497f","_rev":"_cfFluo6---","tei":"\n\t\n\t\tAn amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar\n\t\t\n\t\t\tNathanDGrubaugh\n\t\t\n\t\t\n\t\t\tKarthikGangavarapu\n\t\t\n\t\t\n\t\t\tJoshuaQuick\n\t\t\n\t\t\n\t\t\tNathanielLMatteson\n\t\t\n\t\t\n\t\t\tJaquelineGoesDe Jesus\n\t\t\n\t\t\n\t\t\tBradleyJMain\n\t\t\n\t\t\n\t\t\tAmandaLTan\n\t\t\n\t\t\n\t\t\tLaurenMPaul\n\t\t\n\t\t\n\t\t\tDougEBrackney\n\t\t\n\t\t\n\t\t\tSaranGrewal\n\t\t\n\t\t\n\t\t\tNikosGurfield\n\t\t\n\t\t\n\t\t\tKoenK AVan Rompay\n\t\t\n\t\t\n\t\t\tSharonIsern\n\t\t\n\t\t\n\t\t\tScottFMichael\n\t\t\n\t\t\n\t\t\tLarkLCoffey\n\t\t\n\t\t\n\t\t\tNicholasJLoman\n\t\t\n\t\t\n\t\t\tKristianGAndersen\n\t\t\t0000-0001-6431-5982\n\t\t\n\t\t10.1186/s13059-018-1618-7\n\t\t30621750\n\t\tPMC6325816\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6231b7723bebd8668497c"},"refKey":28},
{"_key":"60c6231b7723bebd86684980","_id":"references/60c6231b7723bebd86684980","_rev":"_cfFlupG---","tei":"\n\t\n\t\tBio.Phylo: a unified toolkit for processing, analyzing and visualizing phylogenetic trees in Biopython\n\t\t\n\t\t\tETalevich\n\t\t\n\t\t\n\t\t\tBMInvergo\n\t\t\n\t\t\n\t\t\tPJ ACock\n\t\t\n\t\t\n\t\t\tBAChapman\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t13\n\t\t\t209\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6231b7723bebd8668497c"},"refKey":74},
{"_key":"60c6231b7723bebd86684981","_id":"references/60c6231b7723bebd86684981","_rev":"_cfFlupS---","tei":"\n\t\n\t\tGeneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6231b7723bebd8668497c"},"refKey":38},
{"_key":"60c6231b7723bebd86684983","_id":"references/60c6231b7723bebd86684983","_rev":"_cfFlupa---","tei":"\n\t\n\t\tPosterior Summarization in\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tBayesian Phylogenetics Using Tracer 1.7. Syst. Biol\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6231b7723bebd8668497c"},"refKey":66},
{"_key":"60c6231b7723bebd86684985","_id":"references/60c6231b7723bebd86684985","_rev":"_cfFlupm---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6231b7723bebd8668497c"},"refKey":30},
{"_key":"60c6231b7723bebd86684987","_id":"references/60c6231b7723bebd86684987","_rev":"_cfFlupy---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6231b7723bebd8668497c"},"refKey":65},
{"_key":"60c6231b7723bebd86684988","_id":"references/60c6231b7723bebd86684988","_rev":"_cfFluq----","tei":"\n\t\n\t\tMaximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods\n\t\t\n\t\t\tZihengYang\n\t\t\n\t\t10.1007/bf00160154\n\t\t7932792\n\t\tark:/67375/1BB-LTB0KDLG-R\n\t\t5EF6B137A7E591EF404F8EB0336400363434A87D\n\t\t\n\t\n\t\n\t\tJournal of Molecular Evolution\n\t\tJ Mol Evol\n\t\t0022-2844\n\t\t1432-1432\n\t\t\n\t\t\t39\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6231b7723bebd8668497c"},"refKey":89},
{"_key":"60c6231b7723bebd86684989","_id":"references/60c6231b7723bebd86684989","_rev":"_cfFluqK---","tei":"\n\t\n\t\tMatplotlib: A 2D Graphics Environment\n\t\t\n\t\t\tJDHunter\n\t\t\n\t\n\t\n\t\tComput. Sci. Eng\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6231b7723bebd8668497c"},"refKey":35},
{"_key":"60c6231b7723bebd8668498a","_id":"references/60c6231b7723bebd8668498a","_rev":"_cfFluqS---","tei":"\n\t\n\t\tBayesian phylogenetic and phylodynamic data integration using BEAST 1\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tDLAyres\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t4\n\t\t\t10\n\t\t\t16\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6231b7723bebd8668497c"},"refKey":73},
{"_key":"60c623407723bebd866849ab","_id":"references/60c623407723bebd866849ab","_rev":"_cfFluqe---","tei":"\n\t\n\t\tIlastik: interactive machine learning for (bio)image analysis\n\t\t\n\t\t\tSBerg\n\t\t\n\t\t\n\t\t\tDKutra\n\t\t\n\t\t\n\t\t\tTKroeger\n\t\t\n\t\t\n\t\t\tCNStraehle\n\t\t\n\t\t\n\t\t\tBXKausler\n\t\t\n\t\t\n\t\t\tCHaubold\n\t\t\n\t\t\n\t\t\tMSchiegg\n\t\t\n\t\t\n\t\t\tJAles\n\t\t\n\t\t\n\t\t\tTBeier\n\t\t\n\t\t\n\t\t\tMRudy\n\t\t\n\t\t\n\t\t\tKEren\n\t\t\n\t\t\n\t\t\tJICervantes\n\t\t\n\t\t\n\t\t\tBXu\n\t\t\n\t\t\n\t\t\tFBeuttenmueller\n\t\t\n\t\t\n\t\t\tAWolny\n\t\t\n\t\t\n\t\t\tCZhang\n\t\t\n\t\t\n\t\t\tUKoethe\n\t\t\n\t\t\n\t\t\tFAHamprecht\n\t\t\n\t\t\n\t\t\tAKreshuk\n\t\t\n\t\t10.1038/s41592-019-0582-9\n\t\t31570887\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c623407723bebd866849aa"},"refKey":2},
{"_key":"60c623537723bebd866849b6","_id":"references/60c623537723bebd866849b6","_rev":"_cfFluqq---","tei":"\n\t\n\t\tiMOSFLM: a new graphical interface for diffraction-image processing withMOSFLM\n\t\t\n\t\t\tTGeoff GBattye\n\t\t\n\t\t\n\t\t\tLukeKontogiannis\n\t\t\n\t\t\n\t\t\tOwenJohnson\n\t\t\n\t\t\n\t\t\tHaroldRPowell\n\t\t\n\t\t\n\t\t\tAndrewG WLeslie\n\t\t\n\t\t10.1107/s0907444910048675\n\t\t21460445\n\t\tPMC3069742\n\t\tark:/67375/WNG-2G2FNTV4-6\n\t\t7DDA77B851292B458FB423C4357A20020ACA0CBD\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tPart 4\n\n","document":{"$oid":"60c623537723bebd866849b5"},"refKey":60},
{"_key":"60c623537723bebd866849b7","_id":"references/60c623537723bebd866849b7","_rev":"_cfFluq2---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPart 7\n\n","document":{"$oid":"60c623537723bebd866849b5"},"refKey":61},
{"_key":"60c6235b7723bebd866849c2","_id":"references/60c6235b7723bebd866849c2","_rev":"_cfFlurC---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6235b7723bebd866849c1"},"refKey":12},
{"_key":"60c6235b7723bebd866849c3","_id":"references/60c6235b7723bebd866849c3","_rev":"_cfFlurK---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6235b7723bebd866849c1"},"refKey":13},
{"_key":"60c6235b7723bebd866849c4","_id":"references/60c6235b7723bebd866849c4","_rev":"_cfFlura---","tei":"\n\t\n\t\tjModelTest: phylogenetic model averaging\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6235b7723bebd866849c1"},"refKey":19},
{"_key":"60c6236c7723bebd866849d3","_id":"references/60c6236c7723bebd866849d3","_rev":"_cfFluri---","tei":"\n\t\n\t\tspTest: An R Package Implementing Nonparametric Tests of Isotropy\n\t\t\n\t\t\tZacharyDWeller\n\t\t\n\t\t10.18637/jss.v083.i04\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t83\n\t\t\t4\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c6236c7723bebd866849d2"},"refKey":16},
{"_key":"60c623907723bebd866849ef","_id":"references/60c623907723bebd866849ef","_rev":"_cfFluru---","tei":"\n\t\n\t\tANTONIA perfusion and stroke: a software tool for the multi-purpose analysis of MR perfusion-weighted datasets and quantitative ischemic stroke assessment\n\t\t\n\t\t\tNDForkert\n\t\t\n\t\t\n\t\t\tBCheng\n\t\t\n\t\t\n\t\t\tAKemmling\n\t\t\n\t\n\t\n\t\tMethods Inf Med\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c623907723bebd866849ee"},"refKey":15},
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{"_key":"60c624ab7723bebd86684afa","_id":"references/60c624ab7723bebd86684afa","_rev":"_cfFluvy---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c624ab7723bebd86684af9"},"refKey":32},
{"_key":"60c624ab7723bebd86684afb","_id":"references/60c624ab7723bebd86684afb","_rev":"_cfFluw----","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tVonHaeseler\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c624ab7723bebd86684af9"},"refKey":36},
{"_key":"60c624ab7723bebd86684afc","_id":"references/60c624ab7723bebd86684afc","_rev":"_cfFluwK---","tei":"\n\t\n\t\tGenomic and taxonomy in diagnostics for food security: soft-rotting enterobacterial plant pathogens\n\t\t\n\t\t\tLPritchard\n\t\t\n\t\t\n\t\t\tRHGlover\n\t\t\n\t\t\n\t\t\tSHumphris\n\t\t\n\t\n\t\n\t\tAnal Methods\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c624ab7723bebd86684af9"},"refKey":38},
{"_key":"60c625087723bebd86684b20","_id":"references/60c625087723bebd86684b20","_rev":"_cfFluwW---","tei":"\n\t\n\t\tThe Psychophysics Toolbox\n\t\t\n\t\t\tDHBrainard\n\t\t\n\t\n\t\n\t\tSpatial vision\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625087723bebd86684b1f"},"refKey":13},
{"_key":"60c625087723bebd86684b21","_id":"references/60c625087723bebd86684b21","_rev":"_cfFluwi---","tei":"\n\t\n\t\tThe videotoolbox software for visual psychophysics: Transforming numbers into movies\n\t\t\n\t\t\tDPelli\n\t\t\n\t\n\t\n\t\tSpatial Vision\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625087723bebd86684b1f"},"refKey":51},
{"_key":"60c625087723bebd86684b22","_id":"references/60c625087723bebd86684b22","_rev":"_cfFluwu---","tei":"\n\t\n\t\tWhat's new in Psychtoolbox-3? Perception\n\t\t\n\t\t\tMKleiner\n\t\t\n\t\t\n\t\t\tDHBrainard\n\t\t\n\t\t\n\t\t\tDPelli\n\t\t\n\t\t\n\t\t\t\n\t\t\t36\n\t\t\n\t\n\n","document":{"$oid":"60c625087723bebd86684b1f"},"refKey":40},
{"_key":"60c625247723bebd86684b34","_id":"references/60c625247723bebd86684b34","_rev":"_cfFluw6---","tei":"\n\t\n\t\tHands-on experiences of undergraduate students in Automatics and Robotics using a virtual and remote laboratory\n\t\t\n\t\t\tCarlosAJara\n\t\t\n\t\t\n\t\t\tFranciscoACandelas\n\t\t\n\t\t\n\t\t\tSantiagoTPuente\n\t\t\n\t\t\n\t\t\tFernandoTorres\n\t\t\n\t\t10.1016/j.compedu.2011.07.003\n\t\n\t\n\t\tComputers & Education\n\t\tComputers & Education\n\t\t0360-1315\n\t\t\n\t\t\t57\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c625247723bebd86684b33"},"refKey":5},
{"_key":"60c625247723bebd86684b35","_id":"references/60c625247723bebd86684b35","_rev":"_cfFluxG---","tei":"\n\t\n\t\tExperiences with virtual environment and remote laboratory for teaching and learning robotics at the university of Alicante\n\t\t\n\t\t\tFTorres\n\t\t\n\t\t\n\t\t\tF ACandelas\n\t\t\n\t\t\n\t\t\tS TPuente\n\t\t\n\t\t\n\t\t\tJPomares\n\t\t\n\t\t\n\t\t\tPGil\n\t\t\n\t\t\n\t\t\tFOrtiz\n\t\t\n\t\t10.1016/j.compedu.2011.07.003\n\t\n\t\n\t\tInternational Journal of Engineering Education\n\t\t\n\t\t\t22\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625247723bebd86684b33"},"refKey":6},
{"_key":"60c625247723bebd86684b36","_id":"references/60c625247723bebd86684b36","_rev":"_cfFluxO---","tei":"\n\t\n\t\tGamingAnywhere: an open cloud gaming system\n\t\t\n\t\t\tC YHuang\n\t\t\n\t\t\n\t\t\tC HHsu\n\t\t\n\t\t\n\t\t\tY CChang\n\t\t\n\t\t\n\t\t\tKTChen\n\t\t\n\t\t10.1145/2483977.2483981\n\t\n\t\n\t\tProceedings of the 4th ACM Multimedia Systems Conference on-MMSys'13\n\t\t\t\tthe 4th ACM Multimedia Systems Conference on-MMSys'13Oslo, Norway, NewYork\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625247723bebd86684b33"},"refKey":14},
{"_key":"60c625247723bebd86684b37","_id":"references/60c625247723bebd86684b37","_rev":"_cfFluxa---","tei":"\n\t\n\t\tA modular virtual reality system for engineering laboratory education\n\t\t\n\t\t\tMajidHashemipour\n\t\t\n\t\t\n\t\t\tHamedFarahaniManesh\n\t\t\n\t\t\n\t\t\tMertBal\n\t\t\n\t\t10.1002/cae.20312\n\t\tark:/67375/WNG-XWQ0L3H9-H\n\t\t19765FC5A63E6602A27C2551D15957710EB61D10\n\t\n\t\n\t\tComputer Applications in Engineering Education\n\t\tComput. Appl. Eng. Educ.\n\t\t1061-3773\n\t\t\n\t\t\t19\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c625247723bebd86684b33"},"refKey":4},
{"_key":"60c625247723bebd86684b38","_id":"references/60c625247723bebd86684b38","_rev":"_cfFluxm---","tei":"\n\t\n\t\tA scalable graphics system for clusters\n\t\t\n\t\t\tHEldrdgem\n\t\t\n\t\n\t\n\t\tProc. of ACM SIGRAPH\n\t\t\t\tof ACM SIGRAPHLosAngeles\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625247723bebd86684b33"},"refKey":7},
{"_key":"60c625267723bebd86684b40","_id":"references/60c625267723bebd86684b40","_rev":"_cfFluxy---","tei":"\n\t\n\t\tCellExpress: a comprehensive microarray-based cancer cell line and clinical sample gene expression analysis online system\n\t\t\n\t\t\tYi-FangLee\n\t\t\n\t\t\n\t\t\tChien-YuehLee\n\t\t\n\t\t\n\t\t\tLiang-ChuanLai\n\t\t\n\t\t\n\t\t\tMong-HsunTsai\n\t\t\n\t\t\n\t\t\tTzu-PinLu\n\t\t\n\t\t\n\t\t\tEricYChuang\n\t\t\n\t\t10.1093/database/bax101\n\t\t29688349\n\t\t\n\t\n\t\n\t\tDatabase\n\t\t1758-0463\n\t\t\n\t\t\t2018\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c625267723bebd86684b3f"},"refKey":29},
{"_key":"60c625377723bebd86684b51","_id":"references/60c625377723bebd86684b51","_rev":"_cfFluy----","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625377723bebd86684b50"},"refKey":19},
{"_key":"60c625377723bebd86684b52","_id":"references/60c625377723bebd86684b52","_rev":"_cfFluyK---","tei":"\n\t\n\t\tComparative protein modeling by satisfaction of spatial restraints\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1107/s0108767396095578\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t52\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c625377723bebd86684b50"},"refKey":47},
{"_key":"60c625377723bebd86684b53","_id":"references/60c625377723bebd86684b53","_rev":"_cfFluyW---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625377723bebd86684b50"},"refKey":11},
{"_key":"60c625377723bebd86684b54","_id":"references/60c625377723bebd86684b54","_rev":"_cfFluyi---","tei":"\n\t\n\t\tPAUP*: phylogenetic analysis using parsimony (*and other methods). Version 4\n\t\t\n\t\t\tDSwofford\n\t\t\n\t\t\n\t\t\t\n\t\t\tSinauer Associates\n\t\t\tSunderland (MA\n\t\t\n\t\n\n","document":{"$oid":"60c625377723bebd86684b50"},"refKey":56},
{"_key":"60c625377723bebd86684b55","_id":"references/60c625377723bebd86684b55","_rev":"_cfFluyu---","tei":"\n\t\n\t\tGenetic algorithm approaches for the phylogenetic analysis of large biological sequence datasets under the maximum likelihood criterion [dissertation\n\t\t\n\t\t\tDZwickl\n\t\t\n\t\t\n\t\t\t\n\t\t\tAustin (TX\n\t\t\n\t\t\n\t\t\tUniversity of Texas\n\t\t\n\t\n\n","document":{"$oid":"60c625377723bebd86684b50"},"refKey":65},
{"_key":"60c625377723bebd86684b56","_id":"references/60c625377723bebd86684b56","_rev":"_cfFluy2---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625377723bebd86684b50"},"refKey":0},
{"_key":"60c625377723bebd86684b57","_id":"references/60c625377723bebd86684b57","_rev":"_cfFluzC---","tei":"\n\t\n\t\tInferring phylogenies\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\t\n\t\t\t\n\t\t\tSinauer Associates, Inc\n\t\t\tSunderland (MA\n\t\t\n\t\n\n","document":{"$oid":"60c625377723bebd86684b50"},"refKey":13},
{"_key":"60c6254e7723bebd86684b7c","_id":"references/60c6254e7723bebd86684b7c","_rev":"_cfFluzO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRanklib\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6254e7723bebd86684b7b"},"refKey":0},
{"_key":"60c6254e7723bebd86684b7d","_id":"references/60c6254e7723bebd86684b7d","_rev":"_cfFluza---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tVarder\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6254e7723bebd86684b7b"},"refKey":1},
{"_key":"60c625587723bebd86684b99","_id":"references/60c625587723bebd86684b99","_rev":"_cfFluzm---","tei":"\n\t\n\t\tNAD metabolic process\n\t\t\t\t\n\t\t\t19674\n\t\t\n\t\n\n","document":{"$oid":"60c625587723bebd86684b98"},"refKey":5},
{"_key":"60c6259d7723bebd86684bd4","_id":"references/60c6259d7723bebd86684bd4","_rev":"_cfFluzu---","tei":"\n\t\n\t\tAvailable at: < https://simapro.com/ > Accessed\n\t\t\n\t\t\tPréconsultants\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tSimapro software\n\n","document":{"$oid":"60c6259d7723bebd86684bd3"},"refKey":45},
{"_key":"60c6259e7723bebd86684bd7","_id":"references/60c6259e7723bebd86684bd7","_rev":"_cfFluz6---","tei":"\n\t\n\t\tMOLSCRIPT: a program to produce both detailed and schematic plots of protein structures\n\t\t\n\t\t\tPJKraulis\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6259e7723bebd86684bd6"},"refKey":9},
{"_key":"60c6259e7723bebd86684bd8","_id":"references/60c6259e7723bebd86684bd8","_rev":"_cfFlu0G---","tei":"\n\t\n\t\tTopDraw: a sketchpad for protein structure topology cartoons\n\t\t\n\t\t\tCSBond\n\t\t\n\t\t10.1093/bioinformatics/19.2.311\n\t\t12538265\n\t\t1460-2059\n\t\tark:/67375/HXZ-PG711G0W-9\n\t\tF83F1249B2FC512985BEE11200C02B59EAB0976E\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6259e7723bebd86684bd6"},"refKey":1},
{"_key":"60c6259e7723bebd86684bd9","_id":"references/60c6259e7723bebd86684bd9","_rev":"_cfFlu0S---","tei":"\n\t\n\t\tFurther additions to MolScript version 1.4, including reading and contouring of electron-density maps\n\t\t\n\t\t\tRobertMEsnouf\n\t\t\n\t\t10.1107/s0907444998017363\n\t\t10089341\n\t\tark:/67375/WNG-GWG5L8MP-3\n\t\t83E025D9071D038EA8598C80FB67B9C792F1C5AF\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t55\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tPt. 4\n\n","document":{"$oid":"60c6259e7723bebd86684bd6"},"refKey":5},
{"_key":"60c6259e7723bebd86684bda","_id":"references/60c6259e7723bebd86684bda","_rev":"_cfFlu0e---","tei":"\n\t\n\t\tARP⧸wARP and Automatic Interpretation of Protein Electron Density Maps\n\t\t\n\t\t\tRichardJMorris\n\t\t\n\t\t\n\t\t\tAnastassisPerrakis\n\t\t\n\t\t\n\t\t\tVictorSLamzin\n\t\t\n\t\t10.1016/s0076-6879(03)74011-7\n\t\t14696376\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t374\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6259e7723bebd86684bd6"},"refKey":15},
{"_key":"60c6259e7723bebd86684bdb","_id":"references/60c6259e7723bebd86684bdb","_rev":"_cfFlu0q---","tei":"\n\t\n\t\tProcessing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZM WOtwinowsky\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6259e7723bebd86684bd6"},"refKey":20},
{"_key":"60c6259e7723bebd86684bdc","_id":"references/60c6259e7723bebd86684bdc","_rev":"_cfFlu0y---","tei":"\n\t\n\t\t[26] Raster3D: Photorealistic molecular graphics\n\t\t\n\t\t\tEthanAMerritt\n\t\t\n\t\t\n\t\t\tDavidJBacon\n\t\t\n\t\t10.1016/s0076-6879(97)77028-9\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t50\n\t\t\t\n\t\t\n\t\n\tPt. 6\n\n","document":{"$oid":"60c6259e7723bebd86684bd6"},"refKey":14},
{"_key":"60c6259e7723bebd86684bdd","_id":"references/60c6259e7723bebd86684bdd","_rev":"_cfFlu1----","tei":"\n\t\n\t\tSOLVE and RESOLVE: automated structure solution, density modification and model building\n\t\t\n\t\t\tThomasTerwilliger\n\t\t\n\t\t10.1107/s0909049503023938\n\t\tark:/67375/WNG-JN71RZK5-M\n\t\tD199604C353E88C79641DA774EF4EEB0489D47C6\n\t\t\n\t\n\t\n\t\tJournal of Synchrotron Radiation\n\t\tJ Synchrotron Radiat\n\t\t0909-0495\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tPt. 1\n\n","document":{"$oid":"60c6259e7723bebd86684bd6"},"refKey":30},
{"_key":"60c6259e7723bebd86684bde","_id":"references/60c6259e7723bebd86684bde","_rev":"_cfFlu1K---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr., Sect. D: Biol. Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPt. 3\n\n","document":{"$oid":"60c6259e7723bebd86684bd6"},"refKey":17},
{"_key":"60c625bc7723bebd86684c07","_id":"references/60c625bc7723bebd86684c07","_rev":"_cfFlu1W---","tei":"\n\t\n\t\tFactors Influencing the Detection of Early CT Signs of Cerebral Ischemia\n\t\t\n\t\t\tJoannaMWardlaw\n\t\t\n\t\t\n\t\t\tAndrewJFarrall\n\t\t\n\t\t\n\t\t\tDavidPerry\n\t\t\n\t\t\n\t\t\tRudigerVon Kummer\n\t\t\n\t\t\n\t\t\tOrellMielke\n\t\t\n\t\t\n\t\t\tThierryMoulin\n\t\t\n\t\t\n\t\t\tAlfonsoCiccone\n\t\t\n\t\t\n\t\t\tMichaelHill\n\t\t\n\t\t10.1161/01.str.0000259715.53166.25\n\t\t17347470\n\t\t\n\t\n\t\n\t\tStroke\n\t\tStroke\n\t\t0039-2499\n\t\t1524-4628\n\t\t\n\t\t\t38\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOvid Technologies (Wolters Kluwer Health)\n\t\t\n\t\n\n","document":{"$oid":"60c625bc7723bebd86684c06"},"refKey":10},
{"_key":"60c625bc7723bebd86684c08","_id":"references/60c625bc7723bebd86684c08","_rev":"_cfFlu1e---","tei":"\n\t\n\t\tA Large Web-Based Observer Reliability Study of Early Ischaemic Signs on Computed Tomography. The Acute Cerebral CT Evaluation of Stroke Study (ACCESS)\n\t\t\n\t\t\tJoannaMWardlaw\n\t\t\n\t\t\n\t\t\tRüdigerVon Kummer\n\t\t\n\t\t\n\t\t\tAndrewJFarrall\n\t\t\n\t\t\n\t\t\tFrancescaMChappell\n\t\t\n\t\t\n\t\t\tMichaelHill\n\t\t\n\t\t\n\t\t\tDavidPerry\n\t\t\n\t\t10.1371/journal.pone.0015757\n\t\t21209901\n\t\tPMC3012713\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t5\n\t\t\t12\n\t\t\te15757\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c625bc7723bebd86684c06"},"refKey":12},
{"_key":"60c625fa7723bebd86684c1a","_id":"references/60c625fa7723bebd86684c1a","_rev":"_cfFlu1q---","tei":"\n\t\n\t\tNEURAL MODELS FOR PREDICTING VIRAL VACCINE TARGETS\n\t\t\n\t\t\tGuangLanZhang\n\t\t\n\t\t\n\t\t\tAsifMKhan\n\t\t\n\t\t\n\t\t\tKellathurNSrinivasan\n\t\t\n\t\t\n\t\t\tJThomasAugust\n\t\t\n\t\t\n\t\t\tVladimirBrusic\n\t\t\n\t\t10.1142/s0219720005001466\n\t\t16278955\n\t\n\t\n\t\tJournal of Bioinformatics and Computational Biology\n\t\tJ. Bioinform. Comput. Biol.\n\t\t0219-7200\n\t\t1757-6334\n\t\t\n\t\t\t03\n\t\t\t05\n\t\t\t\n\t\t\t\n\t\t\tWorld Scientific Pub Co Pte Lt\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":140},
{"_key":"60c625fa7723bebd86684c1b","_id":"references/60c625fa7723bebd86684c1b","_rev":"_cfFlu12---","tei":"\n\t\n\t\tDyNAVacS: an integrative tool for optimized DNA vaccine design\n\t\t\n\t\t\tNHarish\n\t\t\n\t\t\n\t\t\tRGupta\n\t\t\n\t\t\n\t\t\tPAgarwal\n\t\t\n\t\t\n\t\t\tVScaria\n\t\t\n\t\t\n\t\t\tBPillai\n\t\t\n\t\t10.1093/nar/gkl242\n\t\t16845007\n\t\tPMC1538838\n\t\tark:/67375/HXZ-TGC4JKB1-6\n\t\t963275BD0B6D3AD2FBF7FA341E2FCD99B06FA5E4\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":151},
{"_key":"60c625fa7723bebd86684c1c","_id":"references/60c625fa7723bebd86684c1c","_rev":"_cfFlu2C---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":80},
{"_key":"60c625fa7723bebd86684c1d","_id":"references/60c625fa7723bebd86684c1d","_rev":"_cfFlu2O---","tei":"\n\t\n\t\tSYFPEITHI: database for searching and Tcell epitope prediction\n\t\t\n\t\t\tMMSchuler\n\t\t\n\t\t\n\t\t\tMDNastke\n\t\t\n\t\t\n\t\t\tSStevanovikc\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t409\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":60},
{"_key":"60c625fa7723bebd86684c1e","_id":"references/60c625fa7723bebd86684c1e","_rev":"_cfFlu2a---","tei":"\n\t\n\t\tMHC Ligands and Peptide Motifs\n\t\t\n\t\t\tHans-GeorgRammensee\n\t\t\n\t\t\n\t\t\tJuttaBachmann\n\t\t\n\t\t\n\t\t\tStefanStevanović\n\t\t\n\t\t10.1007/978-3-662-22162-4\n\t\n\t\n\t\tImmunogenetics\n\t\t1431-0414\n\t\t\n\t\t\t50\n\t\t\t3-4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":61},
{"_key":"60c625fa7723bebd86684c1f","_id":"references/60c625fa7723bebd86684c1f","_rev":"_cfFlu2i---","tei":"\n\t\n\t\tPrediction of HLA-A2-restricted CTL epitope specific to HCC by SYFPEITHI combined with polynomial method\n\t\t\n\t\t\tHai-LongLDong\n\t\t\n\t\t\n\t\t\tYFSui\n\t\t\n\t\t10.3748/wjg.v11.i2.208\n\t\t15633217\n\t\tPMC4205403\n\t\n\t\n\t\tWorld Journal of Gastroenterology\n\t\tWJG\n\t\t1007-9327\n\t\t\n\t\t\t11\n\t\t\t2\n\t\t\t208\n\t\t\t\n\t\t\tBaishideng Publishing Group Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":134},
{"_key":"60c625fa7723bebd86684c20","_id":"references/60c625fa7723bebd86684c20","_rev":"_cfFlu2u---","tei":"\n\t\n\t\tProPred analysis and experimental evaluation of promiscuous T-cell epitopes of three major secreted antigens of Mycobacterium tuberculosis\n\t\t\n\t\t\tAbuSMustafa\n\t\t\n\t\t\n\t\t\tFatemaAShaban\n\t\t\n\t\t10.1016/j.tube.2005.05.001\n\t\t16039905\n\t\n\t\n\t\tTuberculosis\n\t\tTuberculosis\n\t\t1472-9792\n\t\t\n\t\t\t86\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":135},
{"_key":"60c625fa7723bebd86684c21","_id":"references/60c625fa7723bebd86684c21","_rev":"_cfFlu26---","tei":"\n\t\n\t\tProPred: prediction of HLA-DR binding sites\n\t\t\n\t\t\tHSingh\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1093/bioinformatics/17.12.1236\n\t\t11751237\n\t\t1460-2059\n\t\tark:/67375/HXZ-4F9R3SQV-D\n\t\tE1CF1364E42A19CD4095A071451E55F78C38C1D2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t17\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":136},
{"_key":"60c625fa7723bebd86684c22","_id":"references/60c625fa7723bebd86684c22","_rev":"_cfFlu3G---","tei":"\n\t\n\t\tIslandViewer: an integrated interface for computational identification and visualization of genomic islands\n\t\t\n\t\t\tMG ILangille\n\t\t\n\t\t\n\t\t\tFS LBrinkman\n\t\t\n\t\t10.1093/bioinformatics/btp030\n\t\t19151094\n\t\tPMC2647836\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":55},
{"_key":"60c625fa7723bebd86684c23","_id":"references/60c625fa7723bebd86684c23","_rev":"_cfFlu3S---","tei":"\n\t\n\t\tIslandPath: aiding detection of genomic islands in prokaryotes\n\t\t\n\t\t\tWHsiao\n\t\t\n\t\t\n\t\t\tIWan\n\t\t\n\t\t\n\t\t\tSJJones\n\t\t\n\t\t\n\t\t\tFS LBrinkman\n\t\t\n\t\t10.1093/bioinformatics/btg004\n\t\t12584130\n\t\t1460-2059\n\t\tark:/67375/HXZ-WXMMT8X5-7\n\t\t9783C1F39168825DC00E88199CAE56B4DC19A53D\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":49},
{"_key":"60c625fa7723bebd86684c24","_id":"references/60c625fa7723bebd86684c24","_rev":"_cfFlu3e---","tei":"\n\t\n\t\tEvaluation of genomic island predictors using a comparative genomics approach\n\t\t\n\t\t\tMorganGiLangille\n\t\t\n\t\t\n\t\t\tWilliamWlHsiao\n\t\t\n\t\t\n\t\t\tFionaSlBrinkman\n\t\t\n\t\t10.1186/1471-2105-9-329\n\t\t18680607\n\t\tPMC2518932\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t329\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":48},
{"_key":"60c625fa7723bebd86684c25","_id":"references/60c625fa7723bebd86684c25","_rev":"_cfFlu3m---","tei":"\n\t\n\t\tScore-based prediction of genomic islands in prokaryotic genomes using hidden Markov models\n\t\t\n\t\t\tSWaack\n\t\t\n\t\t\n\t\t\tOKeller\n\t\t\n\t\t\n\t\t\tRAsper\n\t\t\n\t\t\n\t\t\tTBrodag\n\t\t\n\t\t\n\t\t\tCDamm\n\t\t\n\t\t\n\t\t\tWFFricke\n\t\t\n\t\t\n\t\t\tKSurovcik\n\t\t\n\t\t\n\t\t\tPMeinicke\n\t\t\n\t\t\n\t\t\tRMerkl\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t7\n\t\t\t142\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625fa7723bebd86684c19"},"refKey":50},
{"_key":"60c625ff7723bebd86684c3e","_id":"references/60c625ff7723bebd86684c3e","_rev":"_cfFlu3y---","tei":"\n\t\n\t\tMicrosoft Corporation\n\t\t\n\t\t\t\n\t\t\n\t\n\tMicrosoft excel\n\n","document":{"$oid":"60c625ff7723bebd86684c3d"},"refKey":16},
{"_key":"60c625ff7723bebd86684c45","_id":"references/60c625ff7723bebd86684c45","_rev":"_cfFlu4----","tei":"\n\t\n\t\tPrediction of Protein–Protein Interaction Sites in Sequences and 3D Structures by Random Forests\n\t\t\n\t\t\tMileŠikić\n\t\t\n\t\t\n\t\t\tSanjaTomić\n\t\t\n\t\t\n\t\t\tKristianVlahoviček\n\t\t\n\t\t10.1371/journal.pcbi.1000278\n\t\t19180183\n\t\tPMC2621338\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\te1000278\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c625ff7723bebd86684c44"},"refKey":36},
{"_key":"60c625ff7723bebd86684c46","_id":"references/60c625ff7723bebd86684c46","_rev":"_cfFlu4K---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625ff7723bebd86684c44"},"refKey":23},
{"_key":"60c625ff7723bebd86684c47","_id":"references/60c625ff7723bebd86684c47","_rev":"_cfFlu4W---","tei":"\n\t\n\t\tGEOquery: a bridge between the Gene Expression Omnibus (GEO) and BioConductor\n\t\t\n\t\t\tSDavis\n\t\t\n\t\t\n\t\t\tPSMeltzer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c625ff7723bebd86684c44"},"refKey":25},
{"_key":"60c626147723bebd86684c6b","_id":"references/60c626147723bebd86684c6b","_rev":"_cfFlu4e---","tei":"\n\t\n\t\tCirkit (version 3\n\t\t\n\t\t\tMSoeken\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c626147723bebd86684c6a"},"refKey":20},
{"_key":"60c626147723bebd86684c6c","_id":"references/60c626147723bebd86684c6c","_rev":"_cfFlu4q---","tei":"\n\t\n\t\tThe MathSAT 4 SMT Solver\n\t\t\n\t\t\tRobertoBruttomesso\n\t\t\n\t\t\n\t\t\tAlessandroCimatti\n\t\t\n\t\t\n\t\t\tAndersFranzén\n\t\t\n\t\t\n\t\t\tAlbertoGriggio\n\t\t\n\t\t\n\t\t\tRobertoSebastiani\n\t\t\n\t\t10.1007/978-3-540-70545-1_28\n\t\tark:/67375/HCB-R3TRQJ46-F\n\t\t366FFE193DE66D7455B94289C8C1D152983B3A86\n\t\t\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tAGupta\n\t\t\tSMalik\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t2008\n\t\t\t5123\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c626147723bebd86684c6a"},"refKey":1},
{"_key":"60c6266b7723bebd86684c97","_id":"references/60c6266b7723bebd86684c97","_rev":"_cfFlu42---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6266b7723bebd86684c96"},"refKey":26},
{"_key":"60c6266b7723bebd86684c98","_id":"references/60c6266b7723bebd86684c98","_rev":"_cfFlu5C---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6266b7723bebd86684c96"},"refKey":25},
{"_key":"60c6266b7723bebd86684c99","_id":"references/60c6266b7723bebd86684c99","_rev":"_cfFlu5O---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6266b7723bebd86684c96"},"refKey":24},
{"_key":"60c6269f7723bebd86684cb3","_id":"references/60c6269f7723bebd86684cb3","_rev":"_cfFlu5a---","tei":"\n\t\n\t\tA compression algorithm for DNA sequences and its applications in genome comparison\n\t\t\n\t\t\tXinChen\n\t\t\n\t\t\n\t\t\tSamKwong\n\t\t\n\t\t\n\t\t\tMingLi\n\t\t\n\t\t10.1145/332306.332352\n\t\n\t\n\t\tProceedings of the fourth annual international conference on Computational molecular biology - RECOMB '00\n\t\t\t\tthe fourth annual international conference on Computational molecular biology - RECOMB '00\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t107\n\t\t\n\t\n\n","document":{"$oid":"60c6269f7723bebd86684cb2"},"refKey":18},
{"_key":"60c626bd7723bebd86684cce","_id":"references/60c626bd7723bebd86684cce","_rev":"_cfFlu5i---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c626bd7723bebd86684ccd"},"refKey":95},
{"_key":"60c627657723bebd86684d14","_id":"references/60c627657723bebd86684d14","_rev":"_cfFlu5u---","tei":"\n\t\n\t\tX3M a computer program to extract 3D models\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t\n\t\t\tCLundegaard\n\t\t\n\t\t\n\t\t\tPWorning\n\t\t\n\t\n\t\n\t\tCASP5, fifth community wide experiment on the critical assessment of techniques for protein structure prediction. Book of abstracts. A102. Asilomer\n\t\t\t\tCA, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c627657723bebd86684d13"},"refKey":13},
{"_key":"60c627657723bebd86684d15","_id":"references/60c627657723bebd86684d15","_rev":"_cfFlu56---","tei":"\n\t\n\t\tThe PSIPRED protein structure prediction server\n\t\t\n\t\t\tLJMcguffin\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c627657723bebd86684d13"},"refKey":14},
{"_key":"60c627877723bebd86684d30","_id":"references/60c627877723bebd86684d30","_rev":"_cfFlu6G---","tei":"\n\t\n\t\tSTAR: Ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c627877723bebd86684d2f"},"refKey":56},
{"_key":"60c6279c7723bebd86684d3f","_id":"references/60c6279c7723bebd86684d3f","_rev":"_cfFlu6S---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6279c7723bebd86684d3e"},"refKey":29},
{"_key":"60c6279c7723bebd86684d40","_id":"references/60c6279c7723bebd86684d40","_rev":"_cfFlu6a---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6279c7723bebd86684d3e"},"refKey":30},
{"_key":"60c627a87723bebd86684d56","_id":"references/60c627a87723bebd86684d56","_rev":"_cfFlu6m---","tei":"\n\t\n\t\tThis is an open access article under the terms of the Creative Commons Attribution-NonCommercial License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tJRozewicki\n\t\t\n\t\t\n\t\t\tKDYamada\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tMAFFT online service: multiple sequence alignment, interactive sequence choice and visualization\n\n","document":{"$oid":"60c627a87723bebd86684d55"},"refKey":178},
{"_key":"60c627d57723bebd86684da3","_id":"references/60c627d57723bebd86684da3","_rev":"_cfFlu6y---","tei":"\n\t\n\t\tT-Coffee: a novel method for fast and accurate multiple sequence alignment\n\t\t\n\t\t\tCNotredame\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJHeringa\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t302\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c627d57723bebd86684da2"},"refKey":49},
{"_key":"60c627d77723bebd86684daa","_id":"references/60c627d77723bebd86684daa","_rev":"_cfFlu7----","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLLWang\n\t\t\n\t\t\n\t\t\tMCoon\n\t\t\n\t\t\n\t\t\tTNguyen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tSJLand\n\t\t\n\t\t\n\t\t\tXLu\n\t\t\n\t\t\n\t\t\tDMRuden\n\t\t\n\t\n\t\n\t\tFly\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c627d77723bebd86684da9"},"refKey":1},
{"_key":"60c627d77723bebd86684dab","_id":"references/60c627d77723bebd86684dab","_rev":"_cfFlu7K---","tei":"\n\t\n\t\tMinimap2: pairwise alignment for nucleotide sequences\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c627d77723bebd86684da9"},"refKey":6},
{"_key":"60c627ee7723bebd86684dba","_id":"references/60c627ee7723bebd86684dba","_rev":"_cfFlu7S---","tei":"\n\t\n\t\tFAF-Drugs4: free ADME-tox filtering computations for chemical biology and early stages drug discovery\n\t\t\n\t\t\tDavidLagorce\n\t\t\n\t\t\n\t\t\tLinaBouslama\n\t\t\n\t\t\n\t\t\tJeromeBecot\n\t\t\n\t\t\n\t\t\tMariaAMiteva\n\t\t\n\t\t\n\t\t\tBrunoOVilloutreix\n\t\t\n\t\t10.1093/bioinformatics/btx491\n\t\t28961788\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c627ee7723bebd86684db9"},"refKey":42},
{"_key":"60c627ee7723bebd86684dbb","_id":"references/60c627ee7723bebd86684dbb","_rev":"_cfFlu7e---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\t\n\t\t\tJCHess\n\t\t\n\t\t\n\t\t\tBLindahl\n\t\t\n\t\t\n\t\t\tE\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c627ee7723bebd86684db9"},"refKey":2},
{"_key":"60c628337723bebd86684df2","_id":"references/60c628337723bebd86684df2","_rev":"_cfFlu7q---","tei":"\n\t\n\t\tMinION analysis and reference consortium: phase 1 data release and analysis\n\t\t\n\t\t\tCL CIp\n\t\t\n\t\t\n\t\t\t\n\t\t\t4\n\t\t\t1075\n\t\t\n\t\n\n","document":{"$oid":"60c628337723bebd86684df1"},"refKey":131},
{"_key":"60c628337723bebd86684df3","_id":"references/60c628337723bebd86684df3","_rev":"_cfFlu72---","tei":"\n\t\n\t\tThree decades of nanopore sequencing\n\t\t\n\t\t\tDDeamer\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c628337723bebd86684df1"},"refKey":133},
{"_key":"60c6284d7723bebd86684e15","_id":"references/60c6284d7723bebd86684e15","_rev":"_cfFlu8C---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRstudio\n\t\t\n\t\t\n\t\t\t; RRstudio\n\t\t\n\t\t\n\t\t\tBoston\n\t\t\n\t\t\n\t\t\tPbcMa: Rstudio\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6284d7723bebd86684e14"},"refKey":1},
{"_key":"60c628707723bebd86684e27","_id":"references/60c628707723bebd86684e27","_rev":"_cfFlu8O---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\tNC Department of Health and Human Services. COVID-19 cases\n\n","document":{"$oid":"60c628707723bebd86684e26"},"refKey":14},
{"_key":"60c628707723bebd86684e28","_id":"references/60c628707723bebd86684e28","_rev":"_cfFlu8W---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJournal of biomedical informatics\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c628707723bebd86684e26"},"refKey":13},
{"_key":"60c628947723bebd86684e40","_id":"references/60c628947723bebd86684e40","_rev":"_cfFlu8i---","tei":"\n\t\n\t\tNumerische Methoden für Optimale Versuchsplanungsprobleme bei nichtlinearen DAE-Modellen, doctoral thesis\n\t\t\n\t\t\tSKörkel\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of Heidelberg\n\t\t\n\t\n\n","document":{"$oid":"60c628947723bebd86684e3f"},"refKey":8},
{"_key":"60c628cb7723bebd86684e68","_id":"references/60c628cb7723bebd86684e68","_rev":"_cfFlu8u---","tei":"\n\t\n\t\tModern Applied Statistics with S-PLUS\n\t\t\n\t\t\tWNVenables\n\t\t\n\t\t\n\t\t\tBDRipley\n\t\t\n\t\t10.1007/978-1-4757-3121-7\n\t\t\n\t\t\t\n\t\t\tSpringer New York\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c628cb7723bebd86684e67"},"refKey":75},
{"_key":"60c628cb7723bebd86684e69","_id":"references/60c628cb7723bebd86684e69","_rev":"_cfFlu86---","tei":"\n\t\n\t\tCluster: cluster analysis basics and extensions\n\t\t\n\t\t\tMMaechler\n\t\t\n\t\t\n\t\t\tPRousseeuw\n\t\t\n\t\t\n\t\t\tAStruyf\n\t\t\n\t\t\n\t\t\tMHubert\n\t\t\n\t\t\n\t\t\tKHornik\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 1.14.4.\n\n","document":{"$oid":"60c628cb7723bebd86684e67"},"refKey":44},
{"_key":"60c628cb7723bebd86684e6a","_id":"references/60c628cb7723bebd86684e6a","_rev":"_cfFlu9G---","tei":"\n\t\n\t\texactRankTests: exact distributions for rank and permutation tests. R package version\n\t\t\n\t\t\tTHothorn\n\t\t\n\t\t\n\t\t\tKHornik\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c628cb7723bebd86684e67"},"refKey":31},
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{"_key":"60c62a7b7723bebd8668505c","_id":"references/60c62a7b7723bebd8668505c","_rev":"_cfFlvBy---","tei":"\n\t\n\t\tThe artificial disc: theory, design and materials\n\t\t\n\t\t\tQi-BinBao\n\t\t\n\t\t\n\t\t\tGeoffreyMMccullen\n\t\t\n\t\t\n\t\t\tPaulAHigham\n\t\t\n\t\t\n\t\t\tJohnHDumbleton\n\t\t\n\t\t\n\t\t\tHansenAYuan\n\t\t\n\t\t10.1016/0142-9612(96)84936-2\n\t\t8799500\n\t\t0142-9612(96)84936-2\n\t\tark:/67375/6H6-PQ9KXZNP-M\n\t\t88837B2F91CF99AEAF8D80F3DB2BD519FD98AA0A\n\t\n\t\n\t\tBiomaterials\n\t\tBiomaterials\n\t\t0142-9612\n\t\t\n\t\t\t17\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c62a7b7723bebd8668505b"},"refKey":1},
{"_key":"60c62aa67723bebd86685084","_id":"references/60c62aa67723bebd86685084","_rev":"_cfFlvC----","tei":"\n\t\n\t\tBlockchain Technology for Enabling Transparent and Traceable Government Collaboration in Public Project Processes of Developing Economies\n\t\t\n\t\t\tEbizimohAbodei\n\t\t\n\t\t\n\t\t\tAlexNorta\n\t\t\t0000-0003-0593-8244\n\t\t\n\t\t\n\t\t\tIreneAzogu\n\t\t\n\t\t\n\t\t\tChibuzorUdokwu\n\t\t\n\t\t\n\t\t\tDirkDraheim\n\t\t\t0000-0003-3376-7489\n\t\t\n\t\t10.1007/978-3-030-29374-1_38\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tIOPappas\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11701\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62aa67723bebd86685083"},"refKey":0},
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{"_key":"60c62af27723bebd866850a8","_id":"references/60c62af27723bebd866850a8","_rev":"_cfFlvCS---","tei":"\n\t\n\t\tSeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62af27723bebd866850a7"},"refKey":32},
{"_key":"60c62af27723bebd866850a9","_id":"references/60c62af27723bebd866850a9","_rev":"_cfFlvCe---","tei":"\n\t\n\t\tWebLogo: a sequence logo generator\n\t\t\n\t\t\tGECrooks\n\t\t\n\t\t\n\t\t\tGHon\n\t\t\n\t\t\n\t\t\tJ-MChandonia\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62af27723bebd866850a7"},"refKey":35},
{"_key":"60c62af27723bebd866850aa","_id":"references/60c62af27723bebd866850aa","_rev":"_cfFlvCq---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tSMezulis\n\t\t\n\t\t\n\t\t\tCMYates\n\t\t\n\t\t\n\t\t\tMNWass\n\t\t\n\t\t\n\t\t\tMjeSternberg\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62af27723bebd866850a7"},"refKey":34},
{"_key":"60c62af27723bebd866850ab","_id":"references/60c62af27723bebd866850ab","_rev":"_cfFlvC2---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62af27723bebd866850a7"},"refKey":29},
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{"_key":"60c62b147723bebd866850c2","_id":"references/60c62b147723bebd866850c2","_rev":"_cfFlvDK---","tei":"\n\t\n\t\tProtein identification and analysis tools on the ExPASy server. The proteomics protocols handbook\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\t\n\t\t\tMRWilkins\n\t\t\n\t\t\n\t\t\tRDAppel\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62b147723bebd866850c0"},"refKey":47},
{"_key":"60c62b147723bebd866850c3","_id":"references/60c62b147723bebd866850c3","_rev":"_cfFlvDW---","tei":"\n\t\n\t\tNetMHCpan 4.0: Improved peptide-MHC class I interaction predictions integrating eluted ligand and peptide binding affinity data\n\t\t\n\t\t\tVanessaJurtz\n\t\t\t0000-0003-4452-6605\n\t\t\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1101/149518\n\t\t\n\t\n\t\n\t\tThe Journal of Immunology\n\t\t\n\t\t\t199\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c62b147723bebd866850c0"},"refKey":37},
{"_key":"60c62b147723bebd866850c4","_id":"references/60c62b147723bebd866850c4","_rev":"_cfFlvDi---","tei":"\n\t\n\t\t3Drefine: an interactive web server for efficient protein structure refinement\n\t\t\n\t\t\tDBhattacharya\n\t\t\n\t\t\n\t\t\tJNowotny\n\t\t\n\t\t\n\t\t\tRCao\n\t\t\n\t\t\n\t\t\tJCheng\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62b147723bebd866850c0"},"refKey":52},
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{"_key":"60c62b147723bebd866850c6","_id":"references/60c62b147723bebd866850c6","_rev":"_cfFlvD6---","tei":"\n\t\n\t\tSCRATCH: a protein structure and structural feature prediction server\n\t\t\n\t\t\tJCheng\n\t\t\n\t\t\n\t\t\tAZRandall\n\t\t\n\t\t\n\t\t\tMJSweredoski\n\t\t\n\t\t\n\t\t\tPBaldi\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62b147723bebd866850c0"},"refKey":48},
{"_key":"60c62b147723bebd866850c7","_id":"references/60c62b147723bebd866850c7","_rev":"_cfFlvEC---","tei":"\n\t\n\t\tPredicting population coverage of T-cell epitope-based diagnostics and vaccines\n\t\t\n\t\t\tH-HBui\n\t\t\n\t\t\n\t\t\tJSidney\n\t\t\n\t\t\n\t\t\tKDinh\n\t\t\n\t\t\n\t\t\tSSouthwood\n\t\t\n\t\t\n\t\t\tMJNewman\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\n\t\n\t\tBMC bioinformatics\n\t\t\n\t\t\t7\n\t\t\t153\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62b147723bebd866850c0"},"refKey":46},
{"_key":"60c62b147723bebd866850c8","_id":"references/60c62b147723bebd866850c8","_rev":"_cfFlvEO---","tei":"\n\t\n\t\tAllergenFP: allergenicity prediction by descriptor fingerprints\n\t\t\n\t\t\tIDimitrov\n\t\t\n\t\t\n\t\t\tLNaneva\n\t\t\n\t\t\n\t\t\tIDoytchinova\n\t\t\n\t\t\n\t\t\tIBangov\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62b147723bebd866850c0"},"refKey":45},
{"_key":"60c62b147723bebd866850c9","_id":"references/60c62b147723bebd866850c9","_rev":"_cfFlvEa---","tei":"\n\t\n\t\tDevelopment of an epitope conservancy analysis tool to facilitate the design of epitope-based diagnostics and vaccines\n\t\t\n\t\t\tHuynh-HoaBui\n\t\t\n\t\t\n\t\t\tJohnSidney\n\t\t\n\t\t\n\t\t\tWeiLi\n\t\t\n\t\t\n\t\t\tNicolasFusseder\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t10.1186/1471-2105-8-361\n\t\t17897458\n\t\tPMC2233646\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t361\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c62b147723bebd866850c0"},"refKey":40},
{"_key":"60c62b147723bebd866850ca","_id":"references/60c62b147723bebd866850ca","_rev":"_cfFlvEm---","tei":"\n\t\n\t\tClusPro: a fully automated algorithm for protein-protein docking\n\t\t\n\t\t\tSRComeau\n\t\t\n\t\t\n\t\t\tDWGatchell\n\t\t\n\t\t\n\t\t\tSVajda\n\t\t\n\t\t\n\t\t\tCJCamacho\n\t\t\n\t\t10.1093/nar/gkh354\n\t\t15215358\n\t\tPMC441492\n\t\tark:/67375/HXZ-S4DC0L6R-0\n\t\tD3279D8EA4B1F84733A63A2E40502CCDF49164F0\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c62b147723bebd866850c0"},"refKey":43},
{"_key":"60c62b8f7723bebd86685149","_id":"references/60c62b8f7723bebd86685149","_rev":"_cfFlvEy---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c62b8f7723bebd86685148"},"refKey":59},
{"_key":"60c62bb57723bebd8668516c","_id":"references/60c62bb57723bebd8668516c","_rev":"_cfFlvF----","tei":"\n\t\n\t\tESPript/ENDscript: extracting and rendering sequence and 3D information from atomic structures of proteins\n\t\t\n\t\t\tPGouet\n\t\t\n\t\t\n\t\t\tXRobert\n\t\t\n\t\t\n\t\t\tECourcelle\n\t\t\n\t\t10.1093/nar/gkg556\n\t\t12824317\n\t\tPMC168963\n\t\tark:/67375/HXZ-KX37R7XC-F\n\t\t05B4DE5F85B33037D02DF40A961407F3845C6C90\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c62bb57723bebd8668516b"},"refKey":29},
{"_key":"60c62bb57723bebd8668516d","_id":"references/60c62bb57723bebd8668516d","_rev":"_cfFlvFG---","tei":"\n\t\n\t\t\n\t\t\tLZimmermann\n\t\t\n\t\t\n\t\t\tAStephens\n\t\t\n\t\t\n\t\t\tS-ZNam\n\t\t\n\t\t\n\t\t\tDRau\n\t\t\n\t\t\n\t\t\tJKübler\n\t\t\n\t\t\n\t\t\tMLozajic\n\t\t\n\t\t\n\t\t\tFGabler\n\t\t\n\t\t\n\t\t\tJSöding\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\t\n\t\t\tAlvaV\n\t\t\n\t\n\t\n\t\tCompletely Reimplemented MPI Bioinformatics Toolkit with a New HHpred Server at its Core\n\t\t\t\t\n\t\t\t\n\t\t\t430\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62bb57723bebd8668516b"},"refKey":26},
{"_key":"60c62bb57723bebd8668516e","_id":"references/60c62bb57723bebd8668516e","_rev":"_cfFlvFS---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tSMezulis\n\t\t\n\t\t\n\t\t\tCMYates\n\t\t\n\t\t\n\t\t\tMNWass\n\t\t\n\t\t\n\t\t\tMjeSternberg\n\t\t\n\t\t\n\t\t\tGECrooks\n\t\t\n\t\t\n\t\t\tGHon\n\t\t\n\t\t\n\t\t\tJ-MChandonia\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tGenome Res\n\n","document":{"$oid":"60c62bb57723bebd8668516b"},"refKey":30},
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{"_key":"60c62bb57723bebd86685170","_id":"references/60c62bb57723bebd86685170","_rev":"_cfFlvFq---","tei":"\n\t\n\t\tPredictProtein--an open resource for online prediction of protein structural and functional features\n\t\t\n\t\t\tGYachdav\n\t\t\n\t\t\n\t\t\tEKloppmann\n\t\t\n\t\t\n\t\t\tLKajan\n\t\t\n\t\t\n\t\t\tMHecht\n\t\t\n\t\t\n\t\t\tTGoldberg\n\t\t\n\t\t\n\t\t\tTHamp\n\t\t\n\t\t\n\t\t\tPHönigschmid\n\t\t\n\t\t\n\t\t\tASchafferhans\n\t\t\n\t\t\n\t\t\tMRoos\n\t\t\n\t\t\n\t\t\tMBernhofer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62bb57723bebd8668516b"},"refKey":28},
{"_key":"60c62bb57723bebd86685171","_id":"references/60c62bb57723bebd86685171","_rev":"_cfFlvF2---","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62bb57723bebd8668516b"},"refKey":25},
{"_key":"60c62bc27723bebd86685183","_id":"references/60c62bc27723bebd86685183","_rev":"_cfFlvG----","tei":"\n\t\n\t\tMotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tKlimentAVerba\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1038/nmeth.4193\n\t\t28250466\n\t\tPMC5494038\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c62bc27723bebd86685182"},"refKey":114},
{"_key":"60c62bc27723bebd86685184","_id":"references/60c62bc27723bebd86685184","_rev":"_cfFlvGK---","tei":"\n\t\n\t\tRELION-3: new tools for automated high-resolution cryo-EM structure determination\n\t\t\n\t\t\tJasenkoZivanov\n\t\t\t0000-0001-8407-0759\n\t\t\n\t\t\n\t\t\tTakanoriNakane\n\t\t\t0000-0003-2697-2767\n\t\t\n\t\t\n\t\t\tBjörnForsberg\n\t\t\t0000-0002-6247-4063\n\t\t\n\t\t\n\t\t\tDariKimanius\n\t\t\t0000-0002-2662-6373\n\t\t\n\t\t\n\t\t\tWimJ HHagen\n\t\t\t0000-0001-6229-2692\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\t0000-0002-2734-2794\n\t\t\n\t\t\n\t\t\tSjorsH WScheres\n\t\t\t0000-0002-0462-6540\n\t\t\n\t\t10.1101/421123\n\t\t30412051\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t7\n\t\t\te42166\n\t\t\n\t\n\n","document":{"$oid":"60c62bc27723bebd86685182"},"refKey":118},
{"_key":"60c62bc27723bebd86685185","_id":"references/60c62bc27723bebd86685185","_rev":"_cfFlvGW---","tei":"\n\t\n\t\tcryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tJohnLRubinstein\n\t\t\t0000-0003-0566-2209\n\t\t\n\t\t\n\t\t\tDavidJFleet\n\t\t\n\t\t\n\t\t\tMarcusABrubaker\n\t\t\t0000-0002-7892-9026\n\t\t\n\t\t10.1038/nmeth.4169\n\t\t28165473\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c62bc27723bebd86685182"},"refKey":78},
{"_key":"60c62bc27723bebd86685186","_id":"references/60c62bc27723bebd86685186","_rev":"_cfFlvGi---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c62bc27723bebd86685182"},"refKey":77},
{"_key":"60c62bc27723bebd86685187","_id":"references/60c62bc27723bebd86685187","_rev":"_cfFlvGu---","tei":"\n\t\n\t\tCollaboration gets the most out of software\n\t\t\n\t\t\tAndrewMorin\n\t\t\n\t\t\n\t\t\tBenEisenbraun\n\t\t\n\t\t\n\t\t\tJasonKey\n\t\t\n\t\t\n\t\t\tPaulCSanschagrin\n\t\t\n\t\t\n\t\t\tMichaelATimony\n\t\t\n\t\t\n\t\t\tMichelleOttaviano\n\t\t\n\t\t\n\t\t\tPiotrSliz\n\t\t\n\t\t10.7554/elife.01456\n\t\t24040512\n\t\tPMC3771563\n\t\t\n\t\n\t\n\t\teLife\n\t\t2050-084X\n\t\t\n\t\t\t2\n\t\t\te01456\n\t\t\t\n\t\t\teLife Sciences Publications, Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c62bc27723bebd86685182"},"refKey":70},
{"_key":"60c62bc27723bebd86685188","_id":"references/60c62bc27723bebd86685188","_rev":"_cfFlvG2---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tJohnHMorris\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\t0000-0001-6227-0637\n\t\t\n\t\t10.1002/pro.3235\n\t\t28710774\n\t\tPMC5734306\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c62bc27723bebd86685182"},"refKey":38},
{"_key":"60c62bc87723bebd86685199","_id":"references/60c62bc87723bebd86685199","_rev":"_cfFlvHC---","tei":"\n\t\n\t\tBepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes\n\t\t\n\t\t\tMartinClosterJespersen\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t10.1093/nar/gkx346\n\t\t28472356\n\t\tPMC5570230\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tBepiPred-2.\n\n","document":{"$oid":"60c62bc87723bebd86685198"},"refKey":15},
{"_key":"60c62bd47723bebd8668519c","_id":"references/60c62bd47723bebd8668519c","_rev":"_cfFlvHO---","tei":"\n\t\n\t\tMastering Data Analysis with R\n\t\t\n\t\t\tGDaróczi\n\t\t\n\t\t\n\t\t\t\n\t\t\tPackt Publishing\n\t\t\tBirmingham, UK\n\t\t\n\t\n\n","document":{"$oid":"60c62bd47723bebd8668519b"},"refKey":20},
{"_key":"60c62bd47723bebd8668519d","_id":"references/60c62bd47723bebd8668519d","_rev":"_cfFlvHa---","tei":"\n\t\n\t\tAutonomous Metabolomics for Rapid Metabolite Identification in Global Profiling\n\t\t\n\t\t\tHPaulBenton\n\t\t\n\t\t\n\t\t\tJulijanaIvanisevic\n\t\t\n\t\t\n\t\t\tNathanielGMahieu\n\t\t\n\t\t\n\t\t\tMichaelEKurczy\n\t\t\n\t\t\n\t\t\tCarolineHJohnson\n\t\t\n\t\t\n\t\t\tLaurenFranco\n\t\t\n\t\t\n\t\t\tDuaneRinehart\n\t\t\n\t\t\n\t\t\tElizabethValentine\n\t\t\n\t\t\n\t\t\tHarshaGowda\n\t\t\n\t\t\n\t\t\tBaljitKUbhi\n\t\t\n\t\t\n\t\t\tRalfTautenhahn\n\t\t\n\t\t\n\t\t\tAndrewGieschen\n\t\t\n\t\t\n\t\t\tMatthewWFields\n\t\t\n\t\t\n\t\t\tGaryJPatti\n\t\t\n\t\t\n\t\t\tGarySiuzdak\n\t\t\n\t\t10.1021/ac5025649\n\t\t25496351\n\t\tPMC4303330\n\t\t\n\t\n\t\n\t\tAnalytical Chemistry\n\t\tAnal. Chem.\n\t\t0003-2700\n\t\t1520-6882\n\t\t\n\t\t\t87\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c62bd47723bebd8668519b"},"refKey":19},
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{"_key":"60c62bf47723bebd866851b0","_id":"references/60c62bf47723bebd866851b0","_rev":"_cfFlvIG---","tei":"\n\t\n\t\tCausal analysis approaches in Ingenuity Pathway Analysis\n\t\t\n\t\t\tAKramer\n\t\t\n\t\t\n\t\t\tJGreen\n\t\t\n\t\t\n\t\t\tJPollardJr\n\t\t\n\t\t\n\t\t\tSTugendreich\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62bf47723bebd866851ad"},"refKey":55},
{"_key":"60c62bf47723bebd866851b1","_id":"references/60c62bf47723bebd866851b1","_rev":"_cfFlvIS---","tei":"\n\t\n\t\tOptimizing RNA-Seq Mapping with STAR\n\t\t\n\t\t\tAlexanderDobin\n\t\t\n\t\t\n\t\t\tThomasRGingeras\n\t\t\n\t\t10.1007/978-1-4939-3572-7_13\n\t\t27115637\n\t\t11.14.1-11.14.19\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t51\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62bf47723bebd866851ad"},"refKey":52},
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{"_key":"60c62d327723bebd8668527a","_id":"references/60c62d327723bebd8668527a","_rev":"_cfFlvLS---","tei":"\n\t\n\t\tA New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tNeilMFerguson\n\t\t\n\t\t\n\t\t\tChristopheFraser\n\t\t\n\t\t\n\t\t\tSimonCauchemez\n\t\t\n\t\t10.1093/aje/kwt133\n\t\t24043437\n\t\tPMC3816335\n\t\t\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t1476-6256\n\t\t\n\t\t\t178\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c62d327723bebd86685278"},"refKey":19},
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{"_key":"60c62e347723bebd86685391","_id":"references/60c62e347723bebd86685391","_rev":"_cfFlvOi---","tei":"\n\t\n\t\tPatchDock and SymmDock: servers for rigid and symmetric docking\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tYInbar\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tHJWolfson\n\t\t\n\t\t10.1093/nar/gki481\n\t\t15980490\n\t\tPMC1160241\n\t\tark:/67375/HXZ-5SHH9NN3-T\n\t\t69025555577394917D43758F4E26C6EAF09BA9A4\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c62e347723bebd8668538f"},"refKey":31},
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{"_key":"60c62e6c7723bebd866853c1","_id":"references/60c62e6c7723bebd866853c1","_rev":"_cfFlvO6---","tei":"\n\t\n\t\tCortical surface-based analysis: I. Segmentation and surface reconstruction\n\t\t\n\t\t\tAMDale\n\t\t\n\t\t\n\t\t\tBFischl\n\t\t\n\t\t\n\t\t\tMISereno\n\t\t\n\t\t10.1006/nimg.1998.0395\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\t\n\t\t\t9\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62e6c7723bebd866853c0"},"refKey":73},
{"_key":"60c62e6c7723bebd866853c2","_id":"references/60c62e6c7723bebd866853c2","_rev":"_cfFlvPG---","tei":"\n\t\n\t\tHigh-resolution intersubject averaging and a coordinate system for the cortical surface\n\t\t\n\t\t\tBFischl\n\t\t\n\t\t\n\t\t\tMISereno\n\t\t\n\t\t\n\t\t\tRBTootell\n\t\t\n\t\t\n\t\t\tAMDale\n\t\t\n\t\n\t\n\t\tHuman Brain Mapping\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62e6c7723bebd866853c0"},"refKey":74},
{"_key":"60c62e927723bebd866853f3","_id":"references/60c62e927723bebd866853f3","_rev":"_cfFlvPS---","tei":"\n\t\n\t\tNormalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/576827\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t296\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c62e927723bebd866853f2"},"refKey":92},
{"_key":"60c62e927723bebd866853f4","_id":"references/60c62e927723bebd866853f4","_rev":"_cfFlvPe---","tei":"\n\t\n\t\tComprehensive integration of single cell data\n\t\t\n\t\t\tTimStuart\n\t\t\t0000-0002-3044-0897\n\t\t\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\t0000-0002-7693-8957\n\t\t\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\t0000-0001-5898-694X\n\t\t\n\t\t\n\t\t\tWilliamMMauck\n\t\t\n\t\t\n\t\t\tMarlonStoeckius\n\t\t\t0000-0002-5658-029X\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\t0000-0003-0772-1647\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/460147\n\t\t\n\t\n\t\n\t\tComprehensive Integration of Single-Cell Data. Cell\n\t\t\n\t\t\t177\n\t\t\t7\n\t\t\te21\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c62e927723bebd866853f2"},"refKey":93},
{"_key":"60c62e927723bebd866853f5","_id":"references/60c62e927723bebd866853f5","_rev":"_cfFlvPm---","tei":"\n\t\n\t\tEnhancing droplet-based single-nucleus RNA-seq resolution using the semi-supervised machine learning classifier DIEM\n\t\t\n\t\t\tMAlvarez\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t786285\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62e927723bebd866853f2"},"refKey":91},
{"_key":"60c62e927723bebd866853f6","_id":"references/60c62e927723bebd866853f6","_rev":"_cfFlvPy---","tei":"\n\t\n\t\tErratum: Near-optimal probabilistic RNA-seq quantification\n\t\t\n\t\t\tNicolasLBray\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tPállMelsted\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nbt0816-888d\n\t\t27504780\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t34\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c62e927723bebd866853f2"},"refKey":89},
{"_key":"60c62e927723bebd866853f7","_id":"references/60c62e927723bebd866853f7","_rev":"_cfFlvQ----","tei":"\n\t\n\t\tModular and efficient pre-processing of single-cell RNA-seq\n\t\t\n\t\t\tPállMelsted\n\t\t\t0000-0002-8418-6724\n\t\t\n\t\t\n\t\t\tASinaBooeshaghi\n\t\t\t0000-0002-6442-4502\n\t\t\n\t\t\n\t\t\tFanGao\n\t\t\n\t\t\n\t\t\tEduardoBeltrame\n\t\t\t0000-0002-1529-9207\n\t\t\n\t\t\n\t\t\tLambdaLu\n\t\t\t0000-0002-7092-9427\n\t\t\n\t\t\n\t\t\tKristjánEldjárnHjorleifsson\n\t\t\t0000-0002-7851-1818\n\t\t\n\t\t\n\t\t\tJaseGehring\n\t\t\t0000-0002-3894-9495\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\t0000-0002-9164-6231\n\t\t\n\t\t10.1101/673285\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t673285\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c62e927723bebd866853f2"},"refKey":90},
{"_key":"60c62e927723bebd866853f8","_id":"references/60c62e927723bebd866853f8","_rev":"_cfFlvQK---","tei":"\n\t\n\t\tggplot2\n\t\t\n\t\t\tHadleyWickham\n\t\t\n\t\t10.1002/wics.147\n\t\tark:/67375/WNG-D88W04X1-X\n\t\t13A0FE1CD154EA974D410598275284EF095E4859\n\t\n\t\n\t\tWiley Interdisciplinary Reviews: Computational Statistics\n\t\tWIREs Comp Stat\n\t\t1939-5108\n\t\t\n\t\t\t3\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c62e927723bebd866853f2"},"refKey":96},
{"_key":"60c62e927723bebd866853f9","_id":"references/60c62e927723bebd866853f9","_rev":"_cfFlvQW---","tei":"\n\t\n\t\tFast, sensitive and accurate integration of single-cell data with Harmony\n\t\t\n\t\t\tIKorsunsky\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t16\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62e927723bebd866853f2"},"refKey":94},
{"_key":"60c62eaa7723bebd8668540c","_id":"references/60c62eaa7723bebd8668540c","_rev":"_cfFlvQi---","tei":"\n\t\n\t\tAn improved GROMOS96 force field for aliphatic hydrocarbons in the condensed phase\n\t\t\n\t\t\tLukasDSchuler\n\t\t\n\t\t\n\t\t\tXavierDaura\n\t\t\n\t\t\n\t\t\tWilfredFVan Gunsteren\n\t\t\n\t\t10.1002/jcc.1078\n\t\tark:/67375/WNG-WCQW78BG-D\n\t\tA775F44FB49A8AC8ED9C869EA43F15CED163E1D2\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t22\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c62eaa7723bebd8668540b"},"refKey":52},
{"_key":"60c62eb27723bebd86685426","_id":"references/60c62eb27723bebd86685426","_rev":"_cfFlvQu---","tei":"\n\t\n\t\tRay Meta: scalable de novo metagenome assembly and profiling\n\t\t\n\t\t\tSébastienBoisvert\n\t\t\n\t\t\n\t\t\tFrédéricRaymond\n\t\t\n\t\t\n\t\t\tÉlénieGodzaridis\n\t\t\n\t\t\n\t\t\tFrançoisLaviolette\n\t\t\n\t\t\n\t\t\tJacquesCorbeil\n\t\t\n\t\t10.1186/gb-2012-13-12-r122\n\t\t23259615\n\t\tPMC4056372\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t13\n\t\t\t12\n\t\t\tR122\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c62eb27723bebd86685425"},"refKey":14},
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{"_key":"60c62efb7723bebd86685453","_id":"references/60c62efb7723bebd86685453","_rev":"_cfFlvRa---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\n\tcomputer program\n\n","document":{"$oid":"60c62efb7723bebd86685452"},"refKey":27},
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{"_key":"60c62fa37723bebd86685497","_id":"references/60c62fa37723bebd86685497","_rev":"_cfFlvSq---","tei":"\n\t\n\t\tAnalyzing cluster log files using Logsurfer\n\t\t\n\t\t\tJEPrewett\n\t\t\n\t\n\t\n\t\tProceedings of Annual Conference on Linux Clusters\n\t\t\t\tAnnual Conference on Linux Clusters\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62fa37723bebd86685496"},"refKey":9},
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{"_key":"60c62fb37723bebd866854b5","_id":"references/60c62fb37723bebd866854b5","_rev":"_cfFlvTC---","tei":"\n\t\n\t\tCLUSTAL: a package for performing multiple sequence alignment on a microcomputer\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tPMSharp\n\t\t\n\t\n\t\n\t\tGene\n\t\t\n\t\t\t73\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62fb37723bebd866854b4"},"refKey":24},
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{"_key":"60c62ff17723bebd866854dc","_id":"references/60c62ff17723bebd866854dc","_rev":"_cfFlvTW---","tei":"\n\t\n\t\tImproving question retrieval in community question answering using world knowledge\n\t\t\n\t\t\tGZhou\n\t\t\n\t\t\n\t\t\tYLiu\n\t\t\n\t\t\n\t\t\tFLiu\n\t\t\n\t\t\n\t\t\tDZeng\n\t\t\n\t\t\n\t\t\tJZhao\n\t\t\n\t\n\t\n\t\tIJCAI\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c62ff17723bebd866854db"},"refKey":21},
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{"_key":"60c630d67723bebd866855b3","_id":"references/60c630d67723bebd866855b3","_rev":"_cfFlvVG---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucl. Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c630d67723bebd866855b2"},"refKey":10},
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{"_key":"60c6312e7723bebd866855ed","_id":"references/60c6312e7723bebd866855ed","_rev":"_cfFlvVq---","tei":"\n\t\n\t\tImagenet: A largescale hierarchical image database\n\t\t\n\t\t\tJDeng\n\t\t\n\t\t\n\t\t\tWDong\n\t\t\n\t\t\n\t\t\tRSocher\n\t\t\n\t\t\n\t\t\tL.-JLi\n\t\t\n\t\t\n\t\t\tKLi\n\t\t\n\t\t\n\t\t\tLFei-Fei\n\t\t\n\t\n\t\n\t\t2009 IEEE conference on computer vision and pattern recognition\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6312e7723bebd866855ea"},"refKey":40},
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{"_key":"60c631607723bebd86685640","_id":"references/60c631607723bebd86685640","_rev":"_cfFlvWi---","tei":"\n\t\n\t\tThe mathlib Community: The lean mathematical library\n\t\n\t\n\t\t9th ACM SIGPLAN International Conference on Certified Programs and Proofs (CPP 2020)\n\t\t\t\tNew Orleans, LA, USA\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c631607723bebd8668563d"},"refKey":34},
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{"_key":"60c631dc7723bebd866856cb","_id":"references/60c631dc7723bebd866856cb","_rev":"_cfFlvXy---","tei":"\n\t\n\t\tSchliep, ape 5.0: An environment for modern phylogenetics and evolutionary analyses in R\n\t\t\n\t\t\tEParadis\n\t\t\n\t\t\n\t\t\tK\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c631dc7723bebd866856c6"},"refKey":52},
{"_key":"60c631e37723bebd866856de","_id":"references/60c631e37723bebd866856de","_rev":"_cfFlvX6---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tRDevelopment Core\n\t\t\n\t\t\n\t\t\tTeam\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c631e37723bebd866856dd"},"refKey":12},
{"_key":"60c631e37723bebd866856df","_id":"references/60c631e37723bebd866856df","_rev":"_cfFlvYG---","tei":"\n\t\n\t\t\n\t\t\tStatcorp\n\t\t\n\t\t\n\t\t\tStata\n\t\t\n\t\tRelease 14. Statistical Software. College Station, TX: StataCorp LP\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c631e37723bebd866856dd"},"refKey":14},
{"_key":"60c631e97723bebd866856e7","_id":"references/60c631e97723bebd866856e7","_rev":"_cfFlvYS---","tei":"\n\t\n\t\t\n\t\t\tGapThe\n\t\t\n\t\t\n\t\t\tGroup\n\t\t\n\t\t4.10\n\t\t\n\t\tGAP -Groups, Algorithms and Programming\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c631e97723bebd866856e6"},"refKey":10},
{"_key":"60c631e97723bebd866856e8","_id":"references/60c631e97723bebd866856e8","_rev":"_cfFlvYe---","tei":"\n\t\n\t\tLiering, a GAP 4 package, see\n\t\t\n\t\t\tSCicalò\n\t\t\n\t\t\n\t\t\tWADe Graaf\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c631e97723bebd866856e6"},"refKey":2},
{"_key":"60c632027723bebd86685700","_id":"references/60c632027723bebd86685700","_rev":"_cfFlvYq---","tei":"\n\t\n\t\tcorto: A lightweight R package for gene network inference and master regulator analysis\n\t\t\n\t\t\tDMercatelli\n\t\t\n\t\t\n\t\t\tGLopez-Garcia\n\t\t\n\t\t\n\t\t\tFMGiorgi\n\t\t\n\t\t10.1093/bioinformatics/btaa223\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c632027723bebd866856ff"},"refKey":26},
{"_key":"60c632587723bebd86685720","_id":"references/60c632587723bebd86685720","_rev":"_cfFlvYy---","tei":"\n\t\n\t\tThe Hmisc Package\n\t\t\n\t\t\tFEHarrellJr\n\t\t\n\t\t\n\t\t\tMCDupont\n\t\t\n\t\t\n\t\t\t\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\tR package version\n\n","document":{"$oid":"60c632587723bebd8668571f"},"refKey":33},
{"_key":"60c632727723bebd86685730","_id":"references/60c632727723bebd86685730","_rev":"_cfFlvZ----","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c632727723bebd8668572f"},"refKey":7},
{"_key":"60c632727723bebd86685731","_id":"references/60c632727723bebd86685731","_rev":"_cfFlvZK---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximumlikelihood phylogenies\n\t\t\n\t\t\tL-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tVonHaeseler\n\t\t\n\t\t\n\t\t\tAMinh\n\t\t\n\t\t\n\t\t\tBQ\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c632727723bebd8668572f"},"refKey":6},
{"_key":"60c632db7723bebd86685774","_id":"references/60c632db7723bebd86685774","_rev":"_cfFlvZW---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tFREE Full text. Medline: 18929686\n\n","document":{"$oid":"60c632db7723bebd86685773"},"refKey":25},
{"_key":"60c632db7723bebd86685775","_id":"references/60c632db7723bebd86685775","_rev":"_cfFlvZe---","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c632db7723bebd86685773"},"refKey":26},
{"_key":"60c633057723bebd8668579a","_id":"references/60c633057723bebd8668579a","_rev":"_cfFlvZq---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBenjaminBuchfink\n\t\t\n\t\t\n\t\t\tChaoXie\n\t\t\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t10.1038/nmeth.3176\n\t\t25402007\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c633057723bebd86685799"},"refKey":15},
{"_key":"60c633197723bebd866857b9","_id":"references/60c633197723bebd866857b9","_rev":"_cfFlvZ2---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tFREE Full text. Medline: 18929686\n\n","document":{"$oid":"60c633197723bebd866857b8"},"refKey":45},
{"_key":"60c6335b7723bebd866857ea","_id":"references/60c6335b7723bebd866857ea","_rev":"_cfFlvaC---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJulieDThompson\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t\n\t\t\tTobyJGibson\n\t\t\n\t\t10.1093/nar/22.22.4673\n\t\t7984417\n\t\tPMC308517\n\t\tark:/67375/HXZ-F03BKBVP-7\n\t\t779EA0D5394D5256976CC2873144010B7F618F65\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6335b7723bebd866857e9"},"refKey":13},
{"_key":"60c633607723bebd866857f6","_id":"references/60c633607723bebd866857f6","_rev":"_cfFlvaO---","tei":"\n\t\n\t\tGC-Content Normalization for RNA-Seq Data\n\t\t\n\t\t\tDavideRisso\n\t\t\n\t\t\n\t\t\tKatjaSchwartz\n\t\t\n\t\t\n\t\t\tGavinSherlock\n\t\t\n\t\t\n\t\t\tSandrineDudoit\n\t\t\n\t\t10.1186/1471-2105-12-480\n\t\t22177264\n\t\tPMC3315510\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t480\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c633607723bebd866857f5"},"refKey":27},
{"_key":"60c6336e7723bebd86685809","_id":"references/60c6336e7723bebd86685809","_rev":"_cfFlvaa---","tei":"\n\t\n\t\t\n\t\t\tCMRingle\n\t\t\n\t\t\n\t\t\tSWende\n\t\t\n\t\t\n\t\t\tJ.-MBecker\n\t\t\n\t\tSmartPLS 3. 2015. Available online at: www.smartpls.com\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6336e7723bebd86685808"},"refKey":39},
{"_key":"60c633727723bebd8668580e","_id":"references/60c633727723bebd8668580e","_rev":"_cfFlvai---","tei":"\n\t\n\t\t\n\t\t\tZHuang\n\t\t\n\t\t\n\t\t\tSLiang\n\t\t\n\t\t\n\t\t\tMLiang\n\t\t\n\t\tarXiv:1905.10671\n\t\tDianet: dense-and-implicit attention network\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c633727723bebd8668580d"},"refKey":4},
{"_key":"60c633817723bebd86685821","_id":"references/60c633817723bebd86685821","_rev":"_cfFlvau---","tei":"\n\t\n\t\tA tutorial on regularized partial correlation networks.\n\t\t\n\t\t\tSachaEpskamp\n\t\t\n\t\t\n\t\t\tEikoIFried\n\t\t\n\t\t10.1037/met0000167\n\t\t29595293\n\t\t\n\t\n\t\n\t\tPsychological Methods\n\t\tPsychological Methods\n\t\t1082-989X\n\t\t1939-1463\n\t\t\n\t\t\t23\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAmerican Psychological Association (APA)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c633817723bebd86685820"},"refKey":23},
{"_key":"60c633837723bebd86685825","_id":"references/60c633837723bebd86685825","_rev":"_cfFlva6---","tei":"\n\t\n\t\tNew research funds YouTube, video drives generation Z learning preference\n\t\t\n\t\t\tPearson\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tresea rch-finds -youtu be-video -drive s-gener ation -z-learn ing-p.html\n\n","document":{"$oid":"60c633837723bebd86685824"},"refKey":52},
{"_key":"60c6338a7723bebd86685828","_id":"references/60c6338a7723bebd86685828","_rev":"_cfFlvbG---","tei":"\n\t\n\t\tSpatial reconstruction of single-cell gene expression data\n\t\t\n\t\t\tRSatija\n\t\t\n\t\t\n\t\t\tJAFarrell\n\t\t\n\t\t\n\t\t\tDGennert\n\t\t\n\t\t\n\t\t\tAFSchier\n\t\t\n\t\t\n\t\t\tARegev\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6338a7723bebd86685827"},"refKey":22},
{"_key":"60c6338a7723bebd8668582d","_id":"references/60c6338a7723bebd8668582d","_rev":"_cfFlvbS---","tei":"\n\t\n\t\tStan: A Probabilistic Programming Language\n\t\t\n\t\t\tBobCarpenter\n\t\t\n\t\t\n\t\t\tAndrewGelman\n\t\t\n\t\t\n\t\t\tMatthewDHoffman\n\t\t\n\t\t\n\t\t\tDanielLee\n\t\t\n\t\t\n\t\t\tBenGoodrich\n\t\t\n\t\t\n\t\t\tMichaelBetancourt\n\t\t\n\t\t\n\t\t\tMarcusBrubaker\n\t\t\n\t\t\n\t\t\tJiqiangGuo\n\t\t\n\t\t\n\t\t\tPeterLi\n\t\t\n\t\t\n\t\t\tAllenRiddell\n\t\t\n\t\t10.18637/jss.v076.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t76\n\t\t\t1\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\tpublished online\n\n","document":{"$oid":"60c6338a7723bebd8668582c"},"refKey":8},
{"_key":"60c633a57723bebd8668583a","_id":"references/60c633a57723bebd8668583a","_rev":"_cfFlvba---","tei":"\n\t\n\t\tBLAST: a more efficient report with usability improvements\n\t\t\n\t\t\tGrzegorzMBoratyn\n\t\t\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tPeterSCooper\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tAmeliaFong\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t\n\t\t\tWayneTMatten\n\t\t\n\t\t\n\t\t\tScottDMcginnis\n\t\t\n\t\t\n\t\t\tYuriMerezhuk\n\t\t\n\t\t\n\t\t\tYanRaytselis\n\t\t\n\t\t\n\t\t\tEricWSayers\n\t\t\n\t\t\n\t\t\tTaoTao\n\t\t\n\t\t\n\t\t\tJianYe\n\t\t\n\t\t\n\t\t\tIrenaZaretskaya\n\t\t\n\t\t10.1093/nar/gkt282\n\t\t23609542\n\t\tPMC3692093\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c633a57723bebd86685839"},"refKey":0},
{"_key":"60c633a57723bebd8668583b","_id":"references/60c633a57723bebd8668583b","_rev":"_cfFlvbm---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/nar/gkz239\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c633a57723bebd86685839"},"refKey":8},
{"_key":"60c633b47723bebd8668584b","_id":"references/60c633b47723bebd8668584b","_rev":"_cfFlvby---","tei":"\n\t\n\t\tCRISPResso2 provides accurate and rapid genome editing sequence analysis\n\t\t\n\t\t\tKClement\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c633b47723bebd8668584a"},"refKey":23},
{"_key":"60c633d87723bebd86685862","_id":"references/60c633d87723bebd86685862","_rev":"_cfFlvc----","tei":"\n\t\n\t\tMHC Ligands and Peptide Motifs\n\t\t\n\t\t\tHans-GeorgRammensee\n\t\t\n\t\t\n\t\t\tJuttaBachmann\n\t\t\n\t\t\n\t\t\tStefanStevanović\n\t\t\n\t\t10.1007/978-3-662-22162-4\n\t\n\t\n\t\tImmunogenetics\n\t\t1431-0414\n\t\t\n\t\t\t50\n\t\t\t3-4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\n\t\n\n","document":{"$oid":"60c633d87723bebd86685861"},"refKey":4},
{"_key":"60c633d87723bebd86685863","_id":"references/60c633d87723bebd86685863","_rev":"_cfFlvcK---","tei":"\n\t\n\t\tPrediction of MHC class I binding peptides, using SVMHC\n\t\t\n\t\t\tPDonnes\n\t\t\n\t\t\n\t\t\tAElofsson\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c633d87723bebd86685861"},"refKey":12},
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{"_key":"60c633e77723bebd86685879","_id":"references/60c633e77723bebd86685879","_rev":"_cfFlvce---","tei":"\n\t\n\t\tInterPro in 2017-beyond protein family and domain annotations\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tTKAttwood\n\t\t\n\t\t\n\t\t\tPCBabbitt\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t\n\t\t\tAJBridge\n\t\t\n\t\t\n\t\t\tHYChang\n\t\t\n\t\t\n\t\t\tZDosztányi\n\t\t\n\t\t\n\t\t\tSEl-Gebali\n\t\t\n\t\t\n\t\t\tMFraser\n\t\t\n\t\t\n\t\t\tJGough\n\t\t\n\t\n\t\n\t\tNucleic Acids Res Suppl\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c633e77723bebd86685877"},"refKey":16},
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{"_key":"60c633e77723bebd8668587c","_id":"references/60c633e77723bebd8668587c","_rev":"_cfFlvdC---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c633e77723bebd86685877"},"refKey":35},
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{"_key":"60c633ef7723bebd866858b1","_id":"references/60c633ef7723bebd866858b1","_rev":"_cfFlvdi---","tei":"\n\t\n\t\tWeightedROC: Fast, Weighted ROC Curves\n\t\t\n\t\t\tTDHocking\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2020.1.31\n\n","document":{"$oid":"60c633ef7723bebd866858b0"},"refKey":2},
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{"_key":"60c634677723bebd86685912","_id":"references/60c634677723bebd86685912","_rev":"_cfFlvey---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tTouchsurgerytm\n\t\t\n\t\t\n\t\t\tTouchsurgerytm\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c634677723bebd86685911"},"refKey":16},
{"_key":"60c6346c7723bebd86685915","_id":"references/60c6346c7723bebd86685915","_rev":"_cfFlvf----","tei":"\n\t\n\t\tMOLEonline 2.0: interactive web-based analysis of biomacromolecular channels\n\t\t\n\t\t\tKBerka\n\t\t\n\t\t\n\t\t\tOHanak\n\t\t\n\t\t\n\t\t\tDSehnal\n\t\t\n\t\t\n\t\t\tPBanas\n\t\t\n\t\t\n\t\t\tVNavratilova\n\t\t\n\t\t\n\t\t\tDJaiswal\n\t\t\n\t\t\n\t\t\tC-MIonescu\n\t\t\n\t\t\n\t\t\tRSvobodova Varekova\n\t\t\n\t\t\n\t\t\tJKoca\n\t\t\n\t\t\n\t\t\tMOtyepka\n\t\t\n\t\t10.1093/nar/gks363\n\t\t22553366\n\t\tPMC3394309\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6346c7723bebd86685914"},"refKey":1},
{"_key":"60c6346c7723bebd86685916","_id":"references/60c6346c7723bebd86685916","_rev":"_cfFlvfG---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6346c7723bebd86685914"},"refKey":35},
{"_key":"60c6346c7723bebd86685917","_id":"references/60c6346c7723bebd86685917","_rev":"_cfFlvfS---","tei":"\n\t\n\t\tVery fast empirical prediction and rationalization of protein pKa values\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tADRobertson\n\t\t\n\t\t\n\t\t\tJHJensen\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\t\n\t\t\t61\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6346c7723bebd86685914"},"refKey":20},
{"_key":"60c6346c7723bebd86685918","_id":"references/60c6346c7723bebd86685918","_rev":"_cfFlvfe---","tei":"\n\t\n\t\tImproving efficiency of large time-scale molecular dynamics simulations of hydrogen-rich systems\n\t\t\n\t\t\tKAntonFeenstra\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tHermanJ CBerendsen\n\t\t\n\t\t10.1002/(sici)1096-987x(199906)20:8<786::aid-jcc5>3.3.co;2-2\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t20\n\t\t\t8\n\t\t\t786\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6346c7723bebd86685914"},"refKey":8},
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{"_key":"60c634d57723bebd86685970","_id":"references/60c634d57723bebd86685970","_rev":"_cfFlvgi---","tei":"\n\t\n\t\tThe PSIPRED protein structure prediction server\n\t\t\n\t\t\tLJMcguffin\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t10869041\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t16\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c634d57723bebd8668596d"},"refKey":28},
{"_key":"60c634d57723bebd86685971","_id":"references/60c634d57723bebd86685971","_rev":"_cfFlvgu---","tei":"\n\t\n\t\tAccurate secondary structure prediction and fold recognition for circular dichroism spectroscopy\n\t\t\n\t\t\tAndrásMicsonai\n\t\t\n\t\t\n\t\t\tFrankWien\n\t\t\n\t\t\n\t\t\tLindaKernya\n\t\t\n\t\t\n\t\t\tYoung-HoLee\n\t\t\n\t\t\n\t\t\tYujiGoto\n\t\t\n\t\t\n\t\t\tMatthieuRéfrégiers\n\t\t\n\t\t\n\t\t\tJózsefKardos\n\t\t\n\t\t10.1073/pnas.1500851112\n\t\t26038575\n\t\tPMC4475991\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProc Natl Acad Sci USA\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t112\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c634d57723bebd8668596d"},"refKey":31},
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{"_key":"60c634d57723bebd86685973","_id":"references/60c634d57723bebd86685973","_rev":"_cfFlvhC---","tei":"\n\t\n\t\tCascaded multiple classifiers for secondary structure prediction\n\t\t\n\t\t\tMohammedOuali\n\t\t\n\t\t\n\t\t\tRossDKing\n\t\t\n\t\t10.1110/ps.9.6.1162\n\t\t10892809\n\t\tPMC2144653\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t9\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c634d57723bebd8668596d"},"refKey":29},
{"_key":"60c634d97723bebd86685983","_id":"references/60c634d97723bebd86685983","_rev":"_cfFlvhO---","tei":"\n\t\n\t\tThe Design of SimpleITK\n\t\t\n\t\t\tBradleyCLowekamp\n\t\t\n\t\t\n\t\t\tDavidTChen\n\t\t\n\t\t\n\t\t\tLuisIbáñez\n\t\t\n\t\t\n\t\t\tDanielBlezek\n\t\t\n\t\t10.3389/fninf.2013.00045\n\t\t24416015\n\t\tPMC3874546\n\t\t\n\t\n\t\n\t\tFrontiers in Neuroinformatics\n\t\tFront. Neuroinform.\n\t\t1662-5196\n\t\t\n\t\t\t7\n\t\t\t45\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c634d97723bebd86685982"},"refKey":5},
{"_key":"60c634d97723bebd86685984","_id":"references/60c634d97723bebd86685984","_rev":"_cfFlvha---","tei":"\n\t\n\t\telastix: a toolbox for intensity based medical image registration\n\t\t\n\t\t\tSKlein\n\t\t\n\t\t\n\t\t\tMStaring\n\t\t\n\t\t\n\t\t\tKMurphy\n\t\t\n\t\t\n\t\t\tMAViergever\n\t\t\n\t\t\n\t\t\tJP WPluim\n\t\t\n\t\n\t\n\t\tIEEE Trans. Med. Imaging\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c634d97723bebd86685982"},"refKey":1},
{"_key":"60c634d97723bebd86685985","_id":"references/60c634d97723bebd86685985","_rev":"_cfFlvhm---","tei":"\n\t\n\t\tFast parallel image registration on CPU and GPU for diagnostic classification of Alzheimer's disease\n\t\t\n\t\t\tDenisPShamonin\n\t\t\n\t\t\n\t\t\tEEBron\n\t\t\n\t\t\n\t\t\tBP FLelieveldt\n\t\t\n\t\t\n\t\t\tMSmits\n\t\t\n\t\t\n\t\t\tSKlein\n\t\t\n\t\t\n\t\t\tMStaring\n\t\t\n\t\t10.3389/fninf.2013.00050\n\t\t24474917\n\t\tPMC3893567\n\t\t\n\t\n\t\n\t\tFrontiers in Neuroinformatics\n\t\tFront. Neuroinform.\n\t\t1662-5196\n\t\t\n\t\t\t7\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c634d97723bebd86685982"},"refKey":2},
{"_key":"60c634e47723bebd8668598b","_id":"references/60c634e47723bebd8668598b","_rev":"_cfFlvhy---","tei":"\n\t\n\t\tSignificance analysis of microarrays applied to the ionizing radiation response\n\t\t\n\t\t\tVGTusher\n\t\t\n\t\t\n\t\t\tRTibshirani\n\t\t\n\t\t\n\t\t\tGChu\n\t\t\n\t\t10.1073/pnas.091062498\n\t\t11309499\n\t\tPMC33173\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c634e47723bebd8668598a"},"refKey":18},
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{"_key":"60c635377723bebd866859c1","_id":"references/60c635377723bebd866859c1","_rev":"_cfFlviG---","tei":"\n\t\n\t\tA pressure-correction scheme for convection-dominated incompressible flows with discontinuous velocity and continuous pressure\n\t\t\n\t\t\tLorenzoBotti\n\t\t\n\t\t\n\t\t\tDanieleADi Pietro\n\t\t\n\t\t10.1016/j.jcp.2010.10.004\n\t\t\n\t\n\t\n\t\tJournal of Computational Physics\n\t\tJournal of Computational Physics\n\t\t0021-9991\n\t\t\n\t\t\t230\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c635377723bebd866859c0"},"refKey":10},
{"_key":"60c6355a7723bebd866859f5","_id":"references/60c6355a7723bebd866859f5","_rev":"_cfFlviS---","tei":"\n\t\n\t\tR: A Language for Data Analysis and Graphics\n\t\t\n\t\t\tRIhaka\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\n\t\n\t\tJournal of Computational and Graphical Statistics\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6355a7723bebd866859f4"},"refKey":14},
{"_key":"60c635b57723bebd86685a4f","_id":"references/60c635b57723bebd86685a4f","_rev":"_cfFlvie---","tei":"\n\t\n\t\tThe empathy paradox: increasing disconnection in the age of increasing connection\n\t\t\n\t\t\tSKonrath\n\t\t\n\t\n\t\n\t\tHandbook of research on technoself: identity in a technological society\n\t\t\t\t\n\t\t\tRLuppicini\n\t\t\n\t\tHershey (PA\n\t\t\n\t\t\tIGI Global\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c635b57723bebd86685a4e"},"refKey":8},
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{"_key":"60c635d77723bebd86685a5c","_id":"references/60c635d77723bebd86685a5c","_rev":"_cfFlvj----","tei":"\n\t\n\t\tGlobal mapping of human RNA-RNA interactions\n\t\t\n\t\t\tESharma\n\t\t\n\t\t\n\t\t\tTSterne-Weiler\n\t\t\n\t\t\n\t\t\tDO'hanlon\n\t\t\n\t\t\n\t\t\tBJBlencowe\n\t\t\n\t\n\t\n\t\tMol. Cell\n\t\t\n\t\t\t62\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c635d77723bebd86685a59"},"refKey":23},
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{"_key":"60c635e07723bebd86685a70","_id":"references/60c635e07723bebd86685a70","_rev":"_cfFlvji---","tei":"\n\t\n\t\tPredicting the Lifetime Durations of Donors to Charities\n\t\t\n\t\t\tRogerBennett\n\t\t\n\t\t10.1300/j054v15n01_03\n\t\n\t\n\t\tJournal of Nonprofit & Public Sector Marketing\n\t\tJournal of Nonprofit & Public Sector Marketing\n\t\t1049-5142\n\t\t1540-6997\n\t\t\n\t\t\t15\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c635e07723bebd86685a6f"},"refKey":5},
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{"_key":"60c636667723bebd86685a94","_id":"references/60c636667723bebd86685a94","_rev":"_cfFlvkC---","tei":"\n\t\n\t\tThe theory and pratice of econometrics\n\t\t\n\t\t\tGGJudge\n\t\t\n\t\t\n\t\t\tWEGriffiths\n\t\t\n\t\t\n\t\t\tCarterHill\n\t\t\n\t\t\n\t\t\tRLutkepohl\n\t\t\n\t\t\n\t\t\tHLee\n\t\t\n\t\t\n\t\t\tT-C\n\t\t\n\t\n\t\n\t\tWiley Series in Probability and Mathematical Statistics\n\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons\n\t\t\n\t\n\n","document":{"$oid":"60c636667723bebd86685a93"},"refKey":16},
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{"_key":"60c6366c7723bebd86685a9b","_id":"references/60c6366c7723bebd86685a9b","_rev":"_cfFlvka---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tRMWolf\n\t\t\n\t\t\n\t\t\tJWCaldwell\n\t\t\n\t\t\n\t\t\tPAKollman\n\t\t\n\t\t\n\t\t\tDCase\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6366c7723bebd86685a99"},"refKey":46},
{"_key":"60c6366c7723bebd86685a9c","_id":"references/60c6366c7723bebd86685a9c","_rev":"_cfFlvkm---","tei":"\n\t\n\t\tHADDOCK: A Protein−Protein Docking Approach Based on Biochemical or Biophysical Information\n\t\t\n\t\t\tCyrilDominguez\n\t\t\n\t\t\n\t\t\tRolfBoelens\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\n\t\t10.1021/ja026939x\n\t\t12580598\n\t\t\n\t\n\t\n\t\tJournal of the American Chemical Society\n\t\tJ. Am. Chem. Soc.\n\t\t0002-7863\n\t\t1520-5126\n\t\t\n\t\t\t125\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c6366c7723bebd86685a99"},"refKey":30},
{"_key":"60c636777723bebd86685aac","_id":"references/60c636777723bebd86685aac","_rev":"_cfFlvky---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636777723bebd86685aab"},"refKey":0},
{"_key":"60c636777723bebd86685aad","_id":"references/60c636777723bebd86685aad","_rev":"_cfFlvl----","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tSchro ¨dinger\n\t\t\n\t\t\n\t\t\tLlc\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636777723bebd86685aab"},"refKey":48},
{"_key":"60c636777723bebd86685aae","_id":"references/60c636777723bebd86685aae","_rev":"_cfFlvlG---","tei":"\n\t\n\t\tAutomated electron microscope tomography using robust prediction of specimen movements\n\t\t\n\t\t\tDNMastronarde\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t152\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636777723bebd86685aab"},"refKey":39},
{"_key":"60c636777723bebd86685aaf","_id":"references/60c636777723bebd86685aaf","_rev":"_cfFlvlS---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. U S A\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636777723bebd86685aab"},"refKey":54},
{"_key":"60c636777723bebd86685ab0","_id":"references/60c636777723bebd86685ab0","_rev":"_cfFlvle---","tei":"\n\t\n\t\tDifferential analysis of RNA-Seq incorporating quantification uncertainty\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tBrayNicolas L.\n\t\t\n\t\t\n\t\t\tSuzettePuente\n\t\t\n\t\t\n\t\t\tPállMelsted\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1101/058164\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c636777723bebd86685aab"},"refKey":45},
{"_key":"60c636777723bebd86685ab1","_id":"references/60c636777723bebd86685ab1","_rev":"_cfFlvlq---","tei":"\n\t\n\t\tThe DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tQTan\n\t\t\n\t\t\n\t\t\tJRCollins\n\t\t\n\t\t\n\t\t\tWGAlvord\n\t\t\n\t\t\n\t\t\tJRoayaei\n\t\t\n\t\t\n\t\t\tRStephens\n\t\t\n\t\t\n\t\t\tMWBaseler\n\t\t\n\t\t\n\t\t\tHCLane\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t8\n\t\t\tR183\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636777723bebd86685aab"},"refKey":26},
{"_key":"60c636777723bebd86685ab2","_id":"references/60c636777723bebd86685ab2","_rev":"_cfFlvl2---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636777723bebd86685aab"},"refKey":44},
{"_key":"60c6369b7723bebd86685ad8","_id":"references/60c6369b7723bebd86685ad8","_rev":"_cfFlvmC---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6369b7723bebd86685ad7"},"refKey":24},
{"_key":"60c636a67723bebd86685ae1","_id":"references/60c636a67723bebd86685ae1","_rev":"_cfFlvmK---","tei":"\n\t\n\t\tThe sequence alignment/ map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tGenome Project Data Processing Subgroup\n\t\t\t\t\n\t\t\t\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636a67723bebd86685ae0"},"refKey":52},
{"_key":"60c636a67723bebd86685ae2","_id":"references/60c636a67723bebd86685ae2","_rev":"_cfFlvma---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSMccarthy\n\t\t\n\t\t\n\t\t\tSDas\n\t\t\n\t\t\n\t\t\tWKretzschmar\n\t\t\n\t\t\n\t\t\tODelaneau\n\t\t\n\t\t\n\t\t\tARWood\n\t\t\n\t\t\n\t\t\tATeumer\n\t\t\n\t\t\n\t\t\tHMKang\n\t\t\n\t\t\n\t\t\tCFuchsberger\n\t\t\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tKSharp\n\t\t\n\t\t\n\t\t\tYLuo\n\t\t\n\t\t\n\t\t\tCSidore\n\t\t\n\t\t\n\t\t\tAKwong\n\t\t\n\t\t\n\t\t\tNTimpson\n\t\t\n\t\t\n\t\t\tSKoskinen\n\t\t\n\t\t\n\t\t\tSVrieze\n\t\t\n\t\t\n\t\t\tLJScott\n\t\t\n\t\t\n\t\t\tHZhang\n\t\t\n\t\t\n\t\t\tAMahajan\n\t\t\n\t\t\n\t\t\tJVeldink\n\t\t\n\t\t\n\t\t\tUPeters\n\t\t\n\t\t\n\t\t\tCPato\n\t\t\n\t\t\n\t\t\tCVan Duijn\n\t\t\n\t\t\n\t\t\tCEGillies\n\t\t\n\t\t\n\t\t\tIGandin\n\t\t\n\t\t\n\t\t\tMMezzavilla\n\t\t\n\t\t\n\t\t\tAGilly\n\t\t\n\t\t\n\t\t\tMCocca\n\t\t\n\t\t\n\t\t\tMTraglia\n\t\t\n\t\t\n\t\t\tAAngius\n\t\t\n\t\t\n\t\t\tJCBarrett\n\t\t\n\t\t\n\t\t\tDBoomsma\n\t\t\n\t\t\n\t\t\tKBranham\n\t\t\n\t\t\n\t\t\tGBreen\n\t\t\n\t\t\n\t\t\tCMBrummett\n\t\t\n\t\t\n\t\t\tFBusonero\n\t\t\n\t\t\n\t\t\tHCampbell\n\t\t\n\t\t\n\t\t\tAChan\n\t\t\n\t\t\n\t\t\tSChen\n\t\t\n\t\t\n\t\t\tEChew\n\t\t\n\t\t\n\t\t\tFSCollins\n\t\t\n\t\t\n\t\t\tLJCorbin\n\t\t\n\t\t\n\t\t\tGDSmith\n\t\t\n\t\t\n\t\t\tGDedoussis\n\t\t\n\t\t\n\t\t\tMDorr\n\t\t\n\t\t\n\t\t\tAEFarmaki\n\t\t\n\t\t\n\t\t\tLFerrucci\n\t\t\n\t\t\n\t\t\tLForer\n\t\t\n\t\t\n\t\t\tRMFraser\n\t\t\n\t\t\n\t\t\tSGabriel\n\t\t\n\t\t\n\t\t\tSLevy\n\t\t\n\t\t\n\t\t\tLGroop\n\t\t\n\t\t\n\t\t\tTHarrison\n\t\t\n\t\t\n\t\t\tAHattersley\n\t\t\n\t\t\n\t\t\tOLHolmen\n\t\t\n\t\t\n\t\t\tKHveem\n\t\t\n\t\t\n\t\t\tMKretzler\n\t\t\n\t\t\n\t\t\tJCLee\n\t\t\n\t\t\n\t\t\tMMcgue\n\t\t\n\t\t\n\t\t\tTMeitinger\n\t\t\n\t\t\n\t\t\tDMelzer\n\t\t\n\t\t\n\t\t\tJLMin\n\t\t\n\t\t\n\t\t\tKLMohlke\n\t\t\n\t\t\n\t\t\tJBVincent\n\t\t\n\t\t\n\t\t\tMNauck\n\t\t\n\t\t\n\t\t\tDNickerson\n\t\t\n\t\t\n\t\t\tAPalotie\n\t\t\n\t\t\n\t\t\tMPato\n\t\t\n\t\t\n\t\t\tNPirastu\n\t\t\n\t\t\n\t\t\tMMcinnis\n\t\t\n\t\t\n\t\t\tJBRichards\n\t\t\n\t\t\n\t\t\tCSala\n\t\t\n\t\t\n\t\t\tVSalomaa\n\t\t\n\t\t\n\t\t\tDSchlessinger\n\t\t\n\t\t\n\t\t\tSSchoenherr\n\t\t\n\t\t\n\t\t\tPESlagboom\n\t\t\n\t\t\n\t\t\tKSmall\n\t\t\n\t\t\n\t\t\tTSpector\n\t\t\n\t\t\n\t\t\tDStambolian\n\t\t\n\t\t\n\t\t\tMTuke\n\t\t\n\t\t\n\t\t\tJTuomilehto\n\t\t\n\t\t\n\t\t\tLVan Den\n\t\t\n\t\t\n\t\t\tWBerg\n\t\t\n\t\t\n\t\t\tUVan Rheenen\n\t\t\n\t\t\n\t\t\tCVolker\n\t\t\n\t\t\n\t\t\tDWijmenga\n\t\t\n\t\t\n\t\t\tEToniolo\n\t\t\n\t\t\n\t\t\tPZeggini\n\t\t\n\t\t\n\t\t\tMGGasparini\n\t\t\n\t\t\n\t\t\tJFSampson\n\t\t\n\t\t\n\t\t\tTWilson\n\t\t\n\t\t\n\t\t\tPIFrayling\n\t\t\n\t\t\n\t\t\tMADe Bakker\n\t\t\n\t\t\n\t\t\tSSwertz\n\t\t\n\t\t\n\t\t\tCMccarroll\n\t\t\n\t\t\n\t\t\tAKooperberg\n\t\t\n\t\t\n\t\t\tDDekker\n\t\t\n\t\t\n\t\t\tCAltshuler\n\t\t\n\t\t\n\t\t\tWWiller\n\t\t\n\t\t\n\t\t\tSIacono\n\t\t\n\t\t\n\t\t\tNRipatti\n\t\t\n\t\t\n\t\t\tKSoranzo\n\t\t\n\t\t\n\t\t\tAWalter\n\t\t\n\t\t\n\t\t\tFSwaroop\n\t\t\n\t\t\n\t\t\tCACucca\n\t\t\n\t\t\n\t\t\tRMAnderson\n\t\t\n\t\t\n\t\t\tMMyers\n\t\t\n\t\t\n\t\t\tMIBoehnke\n\t\t\n\t\t\n\t\t\tRMccarthy\n\t\t\n\t\t\n\t\t\tDurbin\n\t\t\n\t\n\t\n\t\tNat. Genet\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tHaplotype Reference Consortium, A reference panel of 64,976 haplotypes for genotype imputation\n\n","document":{"$oid":"60c636a67723bebd86685ae0"},"refKey":35},
{"_key":"60c636a67723bebd86685ae3","_id":"references/60c636a67723bebd86685ae3","_rev":"_cfFlvmm---","tei":"\n\t\n\t\tScaling accurate genetic variant discovery to tens of thousands of samples\n\t\t\n\t\t\tRPoplin\n\t\t\n\t\t\n\t\t\tVRuano-Rubio\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t\n\t\t\tTJFennell\n\t\t\n\t\t\n\t\t\tMOCarneiro\n\t\t\n\t\t\n\t\t\tGAVan Der Auwera\n\t\t\n\t\t\n\t\t\tDEKling\n\t\t\n\t\t\n\t\t\tLDGauthier\n\t\t\n\t\t\n\t\t\tALevy-Moonshine\n\t\t\n\t\t\n\t\t\tDRoazen\n\t\t\n\t\t\n\t\t\tKShakir\n\t\t\n\t\t\n\t\t\tJThibault\n\t\t\n\t\t\n\t\t\tSChandran\n\t\t\n\t\t\n\t\t\tCWhelan\n\t\t\n\t\t\n\t\t\tMLek\n\t\t\n\t\t\n\t\t\tSGabriel\n\t\t\n\t\t\n\t\t\tMJDaly\n\t\t\n\t\t\n\t\t\tBNeale\n\t\t\n\t\t\n\t\t\tDGMacarthur\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t201178\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636a67723bebd86685ae0"},"refKey":43},
{"_key":"60c636a67723bebd86685ae4","_id":"references/60c636a67723bebd86685ae4","_rev":"_cfFlvmy---","tei":"\n\t\n\t\tThe Ensembl Variant Effect Predictor\n\t\t\n\t\t\tWilliamMclaren\n\t\t\n\t\t\n\t\t\tLaurentGil\n\t\t\n\t\t\n\t\t\tSarahEHunt\n\t\t\n\t\t\n\t\t\tHarpreetSinghRiat\n\t\t\n\t\t\n\t\t\tGrahamR SRitchie\n\t\t\n\t\t\n\t\t\tAnjaThormann\n\t\t\n\t\t\n\t\t\tPaulFlicek\n\t\t\n\t\t\n\t\t\tFionaCunningham\n\t\t\n\t\t10.1101/042374\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t17\n\t\t\t122\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c636a67723bebd86685ae0"},"refKey":44},
{"_key":"60c636c57723bebd86685b0c","_id":"references/60c636c57723bebd86685b0c","_rev":"_cfFlvn----","tei":"\n\t\n\t\tCutadapt removes adapter sequences from highsequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\n\t\n\t\tEMBnet J\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":33},
{"_key":"60c636c57723bebd86685b0d","_id":"references/60c636c57723bebd86685b0d","_rev":"_cfFlvnK---","tei":"\n\t\n\t\tImproved Placement of Multi-mapping Small RNAs\n\t\t\n\t\t\tNathanRJohnson\n\t\t\t0000-0002-5279-9964\n\t\t\n\t\t\n\t\t\tJonathanMYeoh\n\t\t\n\t\t\n\t\t\tCeydaCoruh\n\t\t\n\t\t\n\t\t\tMichaelJAxtell\n\t\t\n\t\t10.1534/g3.116.030452\n\t\t27175019\n\t\tPMC4938663\n\t\t\n\t\n\t\n\t\tG3: Genes|Genomes|Genetics\n\t\tG3\n\t\t2160-1836\n\t\t\n\t\t\t6\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tGenetics Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":17},
{"_key":"60c636c57723bebd86685b0e","_id":"references/60c636c57723bebd86685b0e","_rev":"_cfFlvnW---","tei":"\n\t\n\t\tStringTie enables improved reconstruction of a transcriptome from RNA-seq reads\n\t\t\n\t\t\tMPertea\n\t\t\n\t\t\n\t\t\tGMPertea\n\t\t\n\t\t\n\t\t\tCMAntonescu\n\t\t\n\t\t\n\t\t\tTCChang\n\t\t\n\t\t\n\t\t\tJTMendell\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":41},
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{"_key":"60c636c57723bebd86685b10","_id":"references/60c636c57723bebd86685b10","_rev":"_cfFlvny---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: Recent updates and new\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":29},
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{"_key":"60c636c57723bebd86685b12","_id":"references/60c636c57723bebd86685b12","_rev":"_cfFlvoK---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":50},
{"_key":"60c636c57723bebd86685b13","_id":"references/60c636c57723bebd86685b13","_rev":"_cfFlvoi---","tei":"\n\t\n\t\ttrimAl: A tool for automated alignment trimming in large-scale phylogenetic analyses\n\t\t\n\t\t\tSCapella-Gutiérrez\n\t\t\n\t\t\n\t\t\tJMSilla-Martínez\n\t\t\n\t\t\n\t\t\tTGabaldón\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":7},
{"_key":"60c636c57723bebd86685b14","_id":"references/60c636c57723bebd86685b14","_rev":"_cfFlvo2---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":10},
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{"_key":"60c636c57723bebd86685b16","_id":"references/60c636c57723bebd86685b16","_rev":"_cfFlvpO---","tei":"\n\t\n\t\tHISAT: A fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":24},
{"_key":"60c636c57723bebd86685b17","_id":"references/60c636c57723bebd86685b17","_rev":"_cfFlvpa---","tei":"\n\t\n\t\tUltrafast approximation for phylogenetic bootstrap\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tANguyen Von Haeseler\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":35},
{"_key":"60c636c57723bebd86685b18","_id":"references/60c636c57723bebd86685b18","_rev":"_cfFlvpm---","tei":"\n\t\n\t\tIQ-TREE: A fast and effective stochastic algorithm for estimating maximumlikelihood phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tVonHaeseler\n\t\t\n\t\t\n\t\t\tABq\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":37},
{"_key":"60c636c57723bebd86685b19","_id":"references/60c636c57723bebd86685b19","_rev":"_cfFlvp2---","tei":"\n\t\n\t\tModelFinder: fast model selection for accurate phylogenetic estimates\n\t\t\n\t\t\tSKalyaanamoorthy\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tTkfWong\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tLSJermiin\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c636c57723bebd86685b0b"},"refKey":21},
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{"_key":"60c637377723bebd86685ba1","_id":"references/60c637377723bebd86685ba1","_rev":"_cfFlvsu---","tei":"\n\t\n\t\tIn SilicoDetection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing\n\t\t\n\t\t\tAlessandraCarattoli\n\t\t\n\t\t\n\t\t\tEaZankari\n\t\t\n\t\t\n\t\t\tAuroraGarcía-Fernández\n\t\t\n\t\t\n\t\t\tMetteVoldby Larsen\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tLauraVilla\n\t\t\n\t\t\n\t\t\tFrankMøller Aarestrup\n\t\t\n\t\t\n\t\t\tHenrikHasman\n\t\t\n\t\t10.1128/aac.02412-14\n\t\t24777092\n\t\tPMC4068535\n\t\t\n\t\n\t\n\t\tAntimicrobial Agents and Chemotherapy\n\t\tAntimicrob. Agents Chemother.\n\t\t0066-4804\n\t\t1098-6596\n\t\t\n\t\t\t58\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c637377723bebd86685b9d"},"refKey":40},
{"_key":"60c637377723bebd86685ba2","_id":"references/60c637377723bebd86685ba2","_rev":"_cfFlvs6---","tei":"\n\t\n\t\tNCBI prokaryotic genome annotation pipeline\n\t\t\n\t\t\tTatianaTatusova\n\t\t\n\t\t\n\t\t\tMichaelDicuccio\n\t\t\n\t\t\n\t\t\tAzatBadretdin\n\t\t\n\t\t\n\t\t\tVyacheslavChetvernin\n\t\t\n\t\t\n\t\t\tEricPNawrocki\n\t\t\n\t\t\n\t\t\tLeonidZaslavsky\n\t\t\n\t\t\n\t\t\tAlexandreLomsadze\n\t\t\n\t\t\n\t\t\tKimDPruitt\n\t\t\n\t\t\n\t\t\tMarkBorodovsky\n\t\t\n\t\t\n\t\t\tJamesOstell\n\t\t\n\t\t10.1093/nar/gkw569\n\t\t27342282\n\t\tPMC5001611\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c637377723bebd86685b9d"},"refKey":38},
{"_key":"60c6374a7723bebd86685bb2","_id":"references/60c6374a7723bebd86685bb2","_rev":"_cfFlvtC---","tei":"\n\t\n\t\tRelating genes to function: identifying enriched transcription factors using the ENCODE ChIP-Seq significance tool\n\t\t\n\t\t\tRaymondKAuerbach\n\t\t\n\t\t\n\t\t\tBinChen\n\t\t\n\t\t\n\t\t\tAtulJButte\n\t\t\n\t\t10.1093/bioinformatics/btt316\n\t\t23732275\n\t\tPMC3712221\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6374a7723bebd86685bb1"},"refKey":34},
{"_key":"60c6374a7723bebd86685bb3","_id":"references/60c6374a7723bebd86685bb3","_rev":"_cfFlvtO---","tei":"\n\t\n\t\t\n\t\t\tRCGentleman\n\t\t\n\t\t\n\t\t\tVJCarey\n\t\t\n\t\t\n\t\t\tDMBates\n\t\t\n\t\t\n\t\t\tBBolstad\n\t\t\n\t\t\n\t\t\tMDettling\n\t\t\n\t\t\n\t\t\tSDudoit\n\t\t\n\t\t\n\t\t\tBEllis\n\t\t\n\t\t\n\t\t\tLGautier\n\t\t\n\t\t\n\t\t\tYGe\n\t\t\n\t\t\n\t\t\tJGentry\n\t\t\n\t\tOpen software development for computational biology and bioinformatics\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c6374a7723bebd86685bb1"},"refKey":57},
{"_key":"60c6374a7723bebd86685bb4","_id":"references/60c6374a7723bebd86685bb4","_rev":"_cfFlvta---","tei":"\n\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\t\n\t\t\tVCarey\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tFHahne\n\t\t\n\t\t\n\t\t\tGenefilter\n\t\t\n\t\tGenefilter: Methods for Filtering Genes from High-Throughput Experiments; R Package Version 1.42.0; Bioconductor\n\t\t\t\tSeattle, WA, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6374a7723bebd86685bb1"},"refKey":60},
{"_key":"60c6374a7723bebd86685bb5","_id":"references/60c6374a7723bebd86685bb5","_rev":"_cfFlvtm---","tei":"\n\t\n\t\tGplots: Various R Programming Tools for Plotting Data\n\t\t\n\t\t\tGRWarnes\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tLBonebakker\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\t\n\t\t\tWH ALiaw\n\t\t\n\t\t\n\t\t\tTLumley\n\t\t\n\t\t\n\t\t\tMMaechler\n\t\t\n\t\t\n\t\t\tAMagnusson\n\t\t\n\t\t\n\t\t\tSMoeller\n\t\t\n\t\t\n\t\t\tMSchwartz\n\t\t\n\t\t\n\t\n\tR Package Version 2.12.1\n\n","document":{"$oid":"60c6374a7723bebd86685bb1"},"refKey":62},
{"_key":"60c6374a7723bebd86685bb6","_id":"references/60c6374a7723bebd86685bb6","_rev":"_cfFlvtu---","tei":"\n\t\n\t\tAffymetrix Rat Genome 230 2.0 Array Annotation Data\n\t\t\n\t\t\tMCarlson\n\t\t\n\t\t\n\t\t\tRat2302\n\t\t\n\t\t\n\t\t\tDb\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6374a7723bebd86685bb1"},"refKey":64},
{"_key":"60c6377f7723bebd86685bda","_id":"references/60c6377f7723bebd86685bda","_rev":"_cfFlvt6---","tei":"\n\t\n\t\tRegularization Paths for Generalized Linear Models via Coordinate Descent\n\t\t\n\t\t\tJeromeFriedman\n\t\t\n\t\t\n\t\t\tTrevorHastie\n\t\t\n\t\t\n\t\t\tRobertTibshirani\n\t\t\n\t\t10.18637/jss.v033.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t33\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c6377f7723bebd86685bd9"},"refKey":26},
{"_key":"60c6377f7723bebd86685bdb","_id":"references/60c6377f7723bebd86685bdb","_rev":"_cfFlvuG---","tei":"\n\t\n\t\tMALDIquant: a versatile R package for the analysis of mass spectrometry data\n\t\t\n\t\t\tSGibb\n\t\t\n\t\t\n\t\t\tKStrimmer\n\t\t\n\t\t10.1093/bioinformatics/bts447\n\t\t22796955\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6377f7723bebd86685bd9"},"refKey":22},
{"_key":"60c6377f7723bebd86685bdc","_id":"references/60c6377f7723bebd86685bdc","_rev":"_cfFlvuS---","tei":"\n\t\n\t\tUsing MetaboAnalyst 4.0 for Comprehensive and Integrative Metabolomics Data Analysis\n\t\t\n\t\t\tJasmineChong\n\t\t\n\t\t\n\t\t\tDavidSWishart\n\t\t\n\t\t\n\t\t\tJianguoXia\n\t\t\n\t\t10.1002/cpbi.86\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t1934-340X\n\t\t\n\t\t\t68\n\t\t\t1\n\t\t\te86\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6377f7723bebd86685bd9"},"refKey":24},
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{"_key":"60c6379e7723bebd86685bf7","_id":"references/60c6379e7723bebd86685bf7","_rev":"_cfFlvum---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/nar/25.24.4876\n\t\t9396791\n\t\tPMC147148\n\t\tark:/67375/HXZ-GM5B384S-6\n\t\t47C661A1984C1D5EBB9C0AF04D088CD3B96C3AE6\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t25\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tCrossRef\n\n","document":{"$oid":"60c6379e7723bebd86685bf6"},"refKey":25},
{"_key":"60c637e67723bebd86685c3a","_id":"references/60c637e67723bebd86685c3a","_rev":"_cfFlvuy---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c637e67723bebd86685c39"},"refKey":4},
{"_key":"60c637e67723bebd86685c3b","_id":"references/60c637e67723bebd86685c3b","_rev":"_cfFlvv----","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\thttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=10.1093/nar/25.24.4876\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c637e67723bebd86685c39"},"refKey":5},
{"_key":"60c637e67723bebd86685c3c","_id":"references/60c637e67723bebd86685c3c","_rev":"_cfFlvvK---","tei":"\n\t\n\t\tT-Coffee: A novel method for fast and accurate multiple sequence alignment\n\t\t\n\t\t\tCNotredame\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJHeringa\n\t\t\n\t\thttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=10.1006/jmbi.2000.4042\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t302\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c637e67723bebd86685c39"},"refKey":6},
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{"_key":"60c637e67723bebd86685c3e","_id":"references/60c637e67723bebd86685c3e","_rev":"_cfFlvvi---","tei":"\n\t\n\t\tDIALIGN 2: improvement of the segment-tosegment approach to multiple sequence alignment. Bioinformatics\n\t\t\n\t\t\tBMorgenstern\n\t\t\n\t\thttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=10.1093/bioinformatics/15.3.211\n\t\t\n\t\t\t\n\t\t\t15\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c637e67723bebd86685c39"},"refKey":9},
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{"_key":"60c638117723bebd86685c8a","_id":"references/60c638117723bebd86685c8a","_rev":"_cfFlvv2---","tei":"\n\t\n\t\tIBM SPSS AMOS 23 user's guide. IBM\n\t\t\n\t\t\tJLArbuckle\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c638117723bebd86685c89"},"refKey":2},
{"_key":"60c638567723bebd86685ccb","_id":"references/60c638567723bebd86685ccb","_rev":"_cfFlvwC---","tei":"\n\t\n\t\tMEDiSN: Medical emergency detection in sensor networks\n\t\t\n\t\t\tJGKo\n\t\t\n\t\t\n\t\t\tJHLim\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\n\t\n\t\tACM Transactions on Embedded Computing Systems\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c638567723bebd86685cca"},"refKey":6},
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{"_key":"60c638567723bebd86685ccd","_id":"references/60c638567723bebd86685ccd","_rev":"_cfFlvwa---","tei":"\n\t\n\t\tThe Advanced Health and Disaster Aid Network: A Light-Weight Wireless Medical System for Triage\n\t\t\n\t\t\tTiaGao\n\t\t\n\t\t\n\t\t\tTammaraMassey\n\t\t\n\t\t\n\t\t\tLeoSelavo\n\t\t\n\t\t\n\t\t\tDavidCrawford\n\t\t\n\t\t\n\t\t\tBor-RongChen\n\t\t\n\t\t\n\t\t\tKonradLorincz\n\t\t\n\t\t\n\t\t\tVictorShnayder\n\t\t\n\t\t\n\t\t\tLoganHauenstein\n\t\t\n\t\t\n\t\t\tFoadDabiri\n\t\t\n\t\t\n\t\t\tJamesJeng\n\t\t\n\t\t\n\t\t\tArjunChanmugam\n\t\t\n\t\t\n\t\t\tDavidWhite\n\t\t\n\t\t\n\t\t\tMajidSarrafzadeh\n\t\t\n\t\t\n\t\t\tMattWelsh\n\t\t\n\t\t10.1109/tbcas.2007.910901\n\t\t23852414\n\t\n\t\n\t\tIEEE Transactions on Biomedical Circuits and Systems\n\t\tIEEE Trans. Biomed. Circuits Syst.\n\t\t1932-4545\n\t\t1940-9990\n\t\t\n\t\t\t1\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c638567723bebd86685cca"},"refKey":8},
{"_key":"60c638567723bebd86685cce","_id":"references/60c638567723bebd86685cce","_rev":"_cfFlvwm---","tei":"\n\t\n\t\tPEACH: Power-efficient and adaptive clustering hierarchy protocol for wireless sensor networks\n\t\t\n\t\t\tSanghoYi\n\t\t\n\t\t\n\t\t\tJunyoungHeo\n\t\t\n\t\t\n\t\t\tYookunCho\n\t\t\n\t\t\n\t\t\tJimanHong\n\t\t\n\t\t10.1016/j.comcom.2007.05.034\n\t\n\t\n\t\tComputer Communications\n\t\tComputer Communications\n\t\t0140-3664\n\t\t\n\t\t\t30\n\t\t\t14-15\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c638567723bebd86685cca"},"refKey":9},
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{"_key":"60c639017723bebd86685d99","_id":"references/60c639017723bebd86685d99","_rev":"_cfFlv1C---","tei":"\n\t\n\t\tAllergenFP: allergenicity prediction by descriptor fingerprints\n\t\t\n\t\t\tIDimitrov\n\t\t\n\t\t\n\t\t\tLNaneva\n\t\t\n\t\t\n\t\t\tIDoytchinova\n\t\t\n\t\t\n\t\t\tIBangov\n\t\t\n\t\t10.1093/bioinformatics/btt619\n\t\t24167156\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c639017723bebd86685d94"},"refKey":11},
{"_key":"60c639017723bebd86685d9a","_id":"references/60c639017723bebd86685d9a","_rev":"_cfFlv1O---","tei":"\n\t\n\t\tProperties of MHC Class I Presented Peptides That Enhance Immunogenicity\n\t\t\n\t\t\tJorgJ ACalis\n\t\t\n\t\t\n\t\t\tMattMaybeno\n\t\t\n\t\t\n\t\t\tJasonAGreenbaum\n\t\t\n\t\t\n\t\t\tDanielaWeiskopf\n\t\t\n\t\t\n\t\t\tArunaDDe Silva\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tCanKeşmir\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t10.1371/journal.pcbi.1003266\n\t\t24204222\n\t\tPMC3808449\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t9\n\t\t\t10\n\t\t\te1003266\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c639017723bebd86685d94"},"refKey":3},
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{"_key":"60c639017723bebd86685d9c","_id":"references/60c639017723bebd86685d9c","_rev":"_cfFlv1i---","tei":"\n\t\n\t\tImproved PEP-FOLD Approach for Peptide and Miniprotein Structure Prediction\n\t\t\n\t\t\tYiminShen\n\t\t\n\t\t\n\t\t\tJulienMaupetit\n\t\t\n\t\t\n\t\t\tPhilippeDerreumaux\n\t\t\n\t\t\n\t\t\tPierreTufféry\n\t\t\n\t\t10.1021/ct500592m\n\t\t26588162\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t10\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c639017723bebd86685d94"},"refKey":55},
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{"_key":"60c639087723bebd86685e10","_id":"references/60c639087723bebd86685e10","_rev":"_cfFlv2G---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c639087723bebd86685e0d"},"refKey":31},
{"_key":"60c639087723bebd86685e11","_id":"references/60c639087723bebd86685e11","_rev":"_cfFlv2S---","tei":"\n\t\n\t\tSMS: Smart Model Selection in PhyML\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tJean-EmmanuelLongueville\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/molbev/msx149\n\t\t28472384\n\t\tPMC5850602\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t34\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c639087723bebd86685e0d"},"refKey":88},
{"_key":"60c639247723bebd86685e39","_id":"references/60c639247723bebd86685e39","_rev":"_cfFlv2e---","tei":"\n\t\n\t\tAnalysis of Single Chain Antibody Sequences Using the VBASE2 Fab Analysis Tool\n\t\t\n\t\t\tSvetlanaMollova\n\t\t\n\t\t\n\t\t\tIdaRetter\n\t\t\n\t\t\n\t\t\tMichaelHust\n\t\t\n\t\t\n\t\t\tStefanDübel\n\t\t\n\t\t\n\t\t\tWernerMüller\n\t\t\n\t\t10.1007/978-3-642-01147-4_1\n\t\n\t\n\t\tAntibody Engineering\n\t\t\t\tHeidelberg/New York\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c639247723bebd86685e38"},"refKey":44},
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{"_key":"60c639857723bebd86685e76","_id":"references/60c639857723bebd86685e76","_rev":"_cfFlv2y---","tei":"\n\t\n\t\tPocketome via comprehensive identification and classification of ligand binding envelopes\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJ. ; JDodson\n\t\t\n\t\t\n\t\t\tMTotrov\n\t\t\n\t\t\n\t\t\tAbagyan\n\t\t\n\t\t\n\t\t\tR\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tMol Cell Proteomics\n\n","document":{"$oid":"60c639857723bebd86685e75"},"refKey":34},
{"_key":"60c639857723bebd86685e77","_id":"references/60c639857723bebd86685e77","_rev":"_cfFlv3----","tei":"\n\t\n\t\tTowards automated crystallographic structure refinement with phenix.refine\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tMMustyakimov\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tAUrzhumtsev\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t\n\t\t\tAdams\n\t\t\n\t\t\n\t\t\tPD\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c639857723bebd86685e75"},"refKey":32},
{"_key":"60c639857723bebd86685e78","_id":"references/60c639857723bebd86685e78","_rev":"_cfFlv3K---","tei":"\n\t\n\t\tDIALS: implementation and evaluation of a new integration package\n\t\t\n\t\t\tGWinter\n\t\t\n\t\t\n\t\t\tDGWaterman\n\t\t\n\t\t\n\t\t\tJMParkhurst\n\t\t\n\t\t\n\t\t\tASBrewster\n\t\t\n\t\t\n\t\t\tRJGildea\n\t\t\n\t\t\n\t\t\tMGerstel\n\t\t\n\t\t\n\t\t\tLFuentes-Montero\n\t\t\n\t\t\n\t\t\tMVollmar\n\t\t\n\t\t\n\t\t\tTMichels-Clark\n\t\t\n\t\t\n\t\t\tIDYoung\n\t\t\n\t\t\n\t\t\tNKSauter\n\t\t\n\t\t\n\t\t\tGEvans\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Struct Biol\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c639857723bebd86685e75"},"refKey":31},
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{"_key":"60c639bb7723bebd86685ec6","_id":"references/60c639bb7723bebd86685ec6","_rev":"_cfFlv3i---","tei":"\n\t\n\t\tNormalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/576827\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c639bb7723bebd86685ec5"},"refKey":19},
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{"_key":"60c639bb7723bebd86685ec8","_id":"references/60c639bb7723bebd86685ec8","_rev":"_cfFlv36---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tGenome Project Data Processing Subgroup\n\t\t\t\t\n\t\t\t\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c639bb7723bebd86685ec5"},"refKey":43},
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{"_key":"60c639bb7723bebd86685eca","_id":"references/60c639bb7723bebd86685eca","_rev":"_cfFlv4O---","tei":"\n\t\n\t\tComprehensive integration of single cell data\n\t\t\n\t\t\tTimStuart\n\t\t\t0000-0002-3044-0897\n\t\t\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\t0000-0002-7693-8957\n\t\t\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\t0000-0001-5898-694X\n\t\t\n\t\t\n\t\t\tWilliamMMauck\n\t\t\n\t\t\n\t\t\tMarlonStoeckius\n\t\t\t0000-0002-5658-029X\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\t0000-0003-0772-1647\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/460147\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t177\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\te21\n\n","document":{"$oid":"60c639bb7723bebd86685ec5"},"refKey":64},
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{"_key":"60c63a017723bebd86685f15","_id":"references/60c63a017723bebd86685f15","_rev":"_cfFlv7W---","tei":"\n\t\n\t\tThe HHpred interactive server for protein homology detection and structure prediction\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\t10.1093/nar/gki408\n\t\t15980461\n\t\tPMC1160169\n\t\tark:/67375/HXZ-VQ80LLMR-1\n\t\t661899669D797C6691F2952A9CF1677A1BB8E9C3\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c63a017723bebd86685f0e"},"refKey":45},
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{"_key":"60c63a9b7723bebd86685fcb","_id":"references/60c63a9b7723bebd86685fcb","_rev":"_cfFlv9W---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c63a9b7723bebd86685fca"},"refKey":31},
{"_key":"60c63a9b7723bebd86685fcc","_id":"references/60c63a9b7723bebd86685fcc","_rev":"_cfFlv9i---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c63a9b7723bebd86685fca"},"refKey":32},
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{"_key":"60c63ace7723bebd86686021","_id":"references/60c63ace7723bebd86686021","_rev":"_cfFlv92---","tei":"\n\t\n\t\tExploration and discovery of the COVID-19 literature through semantic visualization\n\t\t\n\t\t\tJingxuanTu\n\t\t\n\t\t\n\t\t\tMarcVerhagen\n\t\t\n\t\t\n\t\t\tBrentCochran\n\t\t\n\t\t\n\t\t\tJamesPustejovsky\n\t\t\n\t\tarXiv:2007.01800\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c63ace7723bebd86686020"},"refKey":20},
{"_key":"60c63ace7723bebd86686022","_id":"references/60c63ace7723bebd86686022","_rev":"_cfFlw-C---","tei":"\n\t\n\t\tBioBERT: a pretrained biomedical language representation model for biomedical text mining\n\t\t\n\t\t\tJinhyukLee\n\t\t\n\t\t\n\t\t\tWonjinYoon\n\t\t\n\t\t\n\t\t\tSungdongKim\n\t\t\n\t\t\n\t\t\tDonghyeonKim\n\t\t\n\t\t\n\t\t\tSunkyuKim\n\t\t\n\t\t\n\t\t\tChanHo So\n\t\t\n\t\t\n\t\t\tJaewooKang\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t36\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c63ace7723bebd86686020"},"refKey":13},
{"_key":"60c63afa7723bebd86686056","_id":"references/60c63afa7723bebd86686056","_rev":"_cfFlw-O---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c63afa7723bebd86686055"},"refKey":7},
{"_key":"60c63afa7723bebd86686057","_id":"references/60c63afa7723bebd86686057","_rev":"_cfFlw-a---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c63afa7723bebd86686055"},"refKey":4},
{"_key":"60c63afa7723bebd86686058","_id":"references/60c63afa7723bebd86686058","_rev":"_cfFlw-m---","tei":"\n\t\n\t\tRecent developments in the MAFFT multiple sequence alignment program\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tHToh\n\t\t\n\t\t10.1093/bib/bbn013\n\t\t18372315\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c63afa7723bebd86686055"},"refKey":5},
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{"_key":"60c63bef7723bebd86686113","_id":"references/60c63bef7723bebd86686113","_rev":"_cfFlwAC---","tei":"\n\t\n\t\tMiTepid sim: A python-based library to simulate the spread of COVID19 in a stratified population\n\t\t\n\t\t\tVSBokharaie\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c63bef7723bebd86686112"},"refKey":7},
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{"_key":"60c63d5f7723bebd86686318","_id":"references/60c63d5f7723bebd86686318","_rev":"_cfFlwHe---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1093/bioinformatics/btu033\n\t\t24451623\n\t\tPMC3998144\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c63d5f7723bebd86686317"},"refKey":32},
{"_key":"60c63d737723bebd8668632a","_id":"references/60c63d737723bebd8668632a","_rev":"_cfFlwHq---","tei":"\n\t\n\t\tA phylogenetic method to perform genome-wide association studies in microbes that accounts for population structure and recombination\n\t\t\n\t\t\tCaitlinCollins\n\t\t\n\t\t\n\t\t\tXavierDidelot\n\t\t\n\t\t10.1101/140798\n\t\t\n\t\n\t\n\t\tPLoS Comput. Biol\n\t\t\n\t\t\t14\n\t\t\te1005958\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c63d737723bebd86686329"},"refKey":22},
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{"_key":"60c63d7e7723bebd86686338","_id":"references/60c63d7e7723bebd86686338","_rev":"_cfFlwI----","tei":"\n\t\n\t\tA complete bacterial genome assembled de novo using only nanopore sequencing data\n\t\t\n\t\t\tNicholasJamesLoman\n\t\t\n\t\t\n\t\t\tJoshuaQuick\n\t\t\n\t\t\n\t\t\tJaredTSimpson\n\t\t\n\t\t10.1101/015552\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c63d7e7723bebd86686337"},"refKey":54},
{"_key":"60c63d7e7723bebd86686339","_id":"references/60c63d7e7723bebd86686339","_rev":"_cfFlwIK---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c63d7e7723bebd86686337"},"refKey":55},
{"_key":"60c63d8f7723bebd86686341","_id":"references/60c63d8f7723bebd86686341","_rev":"_cfFlwIW---","tei":"\n\t\n\t\tA Novel Facile Method of Labeling Octreotide with 18F-Fluorine\n\t\t\n\t\t\tPLaverman\n\t\t\n\t\t\n\t\t\tWJMcbride\n\t\t\n\t\t\n\t\t\tRMSharkey\n\t\t\n\t\t\n\t\t\tAEek\n\t\t\n\t\t\n\t\t\tLJoosten\n\t\t\n\t\t\n\t\t\tWJ GOyen\n\t\t\n\t\t\n\t\t\tDMGoldenberg\n\t\t\n\t\t\n\t\t\tOCBoerman\n\t\t\n\t\t10.2967/jnumed.109.066902\n\t\t20150268\n\t\tPMC2908260\n\t\t\n\t\n\t\n\t\tJournal of Nuclear Medicine\n\t\tJournal of Nuclear Medicine\n\t\t0161-5505\n\t\t\n\t\t\t51\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSociety of Nuclear Medicine\n\t\t\n\t\n\n","document":{"$oid":"60c63d8f7723bebd86686340"},"refKey":18},
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{"_key":"60c63dcb7723bebd8668636e","_id":"references/60c63dcb7723bebd8668636e","_rev":"_cfFlwJe---","tei":"\n\t\n\t\tApplication of modified Sholl analysis to neuronal dendritic arborization of the cat spinal cord\n\t\t\n\t\t\tDušanRistanović\n\t\t\n\t\t\n\t\t\tNebojšaTMilošević\n\t\t\n\t\t\n\t\t\tVesnaŠtulić\n\t\t\n\t\t10.1016/j.jneumeth.2006.05.030\n\t\t16814868\n\t\n\t\n\t\tJournal of Neuroscience Methods\n\t\tJournal of Neuroscience Methods\n\t\t0165-0270\n\t\t\n\t\t\t158\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c63dcb7723bebd8668636b"},"refKey":54},
{"_key":"60c63dcb7723bebd8668636f","_id":"references/60c63dcb7723bebd8668636f","_rev":"_cfFlwJq---","tei":"\n\t\n\t\tThe Sholl analysis of neuronal cell images: Semi-log or log–log method?\n\t\t\n\t\t\tNebojšaTMilošević\n\t\t\n\t\t\n\t\t\tDušanRistanović\n\t\t\n\t\t10.1016/j.jtbi.2006.09.022\n\t\t17084415\n\t\n\t\n\t\tJournal of Theoretical Biology\n\t\tJournal of Theoretical Biology\n\t\t0022-5193\n\t\t\n\t\t\t245\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c63dcb7723bebd8668636b"},"refKey":55},
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{"_key":"60c63ee17723bebd86686445","_id":"references/60c63ee17723bebd86686445","_rev":"_cfFlwMS---","tei":"\n\t\n\t\tAccurate Prediction of the Relative Potencies of Members of a Series of Kinase Inhibitors Using Molecular Docking and MM-GBSA Scoring\n\t\t\n\t\t\tPaulDLyne\n\t\t\n\t\t\n\t\t\tMichelleLLamb\n\t\t\n\t\t\n\t\t\tJamalCSaeh\n\t\t\n\t\t10.1021/jm060522a\n\t\t16884290\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t49\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c63ee17723bebd86686443"},"refKey":25},
{"_key":"60c63ee17723bebd86686446","_id":"references/60c63ee17723bebd86686446","_rev":"_cfFlwMe---","tei":"\n\t\n\t\tMolecular modeling study of checkpoint kinase 1 inhibitors by multiple docking strategies and prime/MM–GBSA calculation\n\t\t\n\t\t\tJuanDu\n\t\t\n\t\t\n\t\t\tHuijunSun\n\t\t\n\t\t\n\t\t\tLiliXi\n\t\t\n\t\t\n\t\t\tJiazhongLi\n\t\t\n\t\t\n\t\t\tYingYang\n\t\t\n\t\t\n\t\t\tHuanxiangLiu\n\t\t\n\t\t\n\t\t\tXiaojunYao\n\t\t\n\t\t10.1002/jcc.21859\n\t\t21717478\n\t\tark:/67375/WNG-QWD2LNB6-N\n\t\tD7D8DB63F5E7990EFCC74C768C393D10A1AC79FE\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t32\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c63ee17723bebd86686443"},"refKey":7},
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{"_key":"60c63f157723bebd86686488","_id":"references/60c63f157723bebd86686488","_rev":"_cfFlwN----","tei":"\n\t\n\t\tDeep learning for the life sciences applying deep learning to genomics, microscopy, drug discovery\n\t\t\n\t\t\tJOliver\n\t\t\n\t\t\n\t\t\tSebastopol\n\t\t\n\t\t\n\t\t\tJCa: O'reilly Media Ordovas-Montanes\n\t\t\n\t\t\n\t\t\tDFDwyer\n\t\t\n\t\t\n\t\t\tSKNyquist\n\t\t\n\t\t\n\t\t\tKMBuchheit\n\t\t\n\t\t\n\t\t\tMVukovic\n\t\t\n\t\t\n\t\t\tCDeb\n\t\t\n\t\t10.1038/s41586-018-0449-8\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t560\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tAllergic inflammatory memory in human respiratory epithelial progenitor cells\n\n","document":{"$oid":"60c63f157723bebd86686487"},"refKey":96},
{"_key":"60c63f157723bebd86686489","_id":"references/60c63f157723bebd86686489","_rev":"_cfFlwNK---","tei":"\n\t\n\t\tSTRING v10: protein–protein interaction networks, integrated over the tree of life\n\t\t\n\t\t\tDamianSzklarczyk\n\t\t\n\t\t\n\t\t\tAndreaFranceschini\n\t\t\n\t\t\n\t\t\tStefanWyder\n\t\t\n\t\t\n\t\t\tKristofferForslund\n\t\t\n\t\t\n\t\t\tDavideHeller\n\t\t\n\t\t\n\t\t\tJaimeHuerta-Cepas\n\t\t\n\t\t\n\t\t\tMilanSimonovic\n\t\t\n\t\t\n\t\t\tAlexanderRoth\n\t\t\n\t\t\n\t\t\tAlbertoSantos\n\t\t\n\t\t\n\t\t\tKalliopiPTsafou\n\t\t\n\t\t\n\t\t\tMichaelKuhn\n\t\t\n\t\t\n\t\t\tPeerBork\n\t\t\n\t\t\n\t\t\tLarsJJensen\n\t\t\n\t\t\n\t\t\tChristianVon mering\n\t\t\n\t\t10.1093/nar/gku1003\n\t\t25352553\n\t\tPMC4383874\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c63f157723bebd86686487"},"refKey":127},
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{"_key":"60c63f757723bebd866864d6","_id":"references/60c63f757723bebd866864d6","_rev":"_cfFlwOG---","tei":"\n\t\n\t\tAn implementation of "turtle graphics" in Maple V. The Maple Technical Newsletter. Maple Tech. Special Issue\n\t\t\n\t\t\tERoanes-Macías\n\t\t\n\t\t\n\t\t\tERoanes-Lozano\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c63f757723bebd866864d4"},"refKey":5},
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{"_key":"60c63faa7723bebd86686502","_id":"references/60c63faa7723bebd86686502","_rev":"_cfFlwOq---","tei":"\n\t\n\t\tMicroreact: visualizing and sharing data for genomic epidemiology and phylogeography\n\t\t\n\t\t\tSilviaArgimón\n\t\t\n\t\t\n\t\t\tKhalilAbudahab\n\t\t\n\t\t\n\t\t\tRichardJ EGoater\n\t\t\n\t\t\n\t\t\tArtemijFedosejev\n\t\t\n\t\t\n\t\t\tJyothishBhai\n\t\t\n\t\t\n\t\t\tCorinnaGlasner\n\t\t\n\t\t\n\t\t\tEdwardJFeil\n\t\t\n\t\t\n\t\t\tMatthewT GHolden\n\t\t\n\t\t\n\t\t\tCorinAYeats\n\t\t\n\t\t\n\t\t\tHajoGrundmann\n\t\t\n\t\t\n\t\t\tBrianGSpratt\n\t\t\n\t\t\n\t\t\tDavidMAanensen\n\t\t\n\t\t10.1099/mgen.0.000093\n\t\t28348833\n\t\tPMC5320705\n\t\t\n\t\t\n\t\n\t\n\t\tMicrobial Genomics\n\t\t2057-5858\n\t\t\n\t\t\t2\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tMicrobiology Society\n\t\t\n\t\n\n","document":{"$oid":"60c63faa7723bebd86686501"},"refKey":19},
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{"_key":"60c640e97723bebd86686630","_id":"references/60c640e97723bebd86686630","_rev":"_cfFlwUS---","tei":"\n\t\n\t\tPRALINE™: a strategy for improved multiple alignment of transmembrane proteins\n\t\t\n\t\t\tWPirovano\n\t\t\n\t\t\n\t\t\tKAFeenstra\n\t\t\n\t\t\n\t\t\tJJ BHeringa\n\t\t\n\t\t\n\t\t\t\n\t\t\t24\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c640e97723bebd86686629"},"refKey":21},
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{"_key":"60c640e97723bebd86686636","_id":"references/60c640e97723bebd86686636","_rev":"_cfFlwVW---","tei":"\n\t\n\t\tFunctional Exposed Amino Acids of CarO Analysis as a Potential Vaccine Candidate in Acinetobacter Baumannii\n\t\t\n\t\t\tMaryamTohidinia\n\t\t\n\t\t\n\t\t\tSeyedMohammadMoshtaghioun\n\t\t\t0000-0002-6281-9674\n\t\t\n\t\t\n\t\t\tFatemehSefid\n\t\t\n\t\t\n\t\t\tAliFalahati\n\t\t\n\t\t10.1007/s10989-019-09923-2\n\t\n\t\n\t\tInternational Journal of Peptide Research and Therapeutics\n\t\tInt J Pept Res Ther\n\t\t1573-3149\n\t\t1573-3904\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c640e97723bebd86686629"},"refKey":41},
{"_key":"60c640e97723bebd86686637","_id":"references/60c640e97723bebd86686637","_rev":"_cfFlwVi---","tei":"\n\t\n\t\tPeptide Toxicity Prediction\n\t\t\n\t\t\tSudheerGupta\n\t\t\n\t\t\n\t\t\tPallaviKapoor\n\t\t\n\t\t\n\t\t\tKumardeepChaudhary\n\t\t\n\t\t\n\t\t\tAnkurGautam\n\t\t\n\t\t\n\t\t\tRahulKumar\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1007/978-1-4939-2285-7_7\n\t\t25555724\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c640e97723bebd86686629"},"refKey":39},
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{"_key":"60c641d97723bebd86686722","_id":"references/60c641d97723bebd86686722","_rev":"_cfFlwYi---","tei":"\n\t\n\t\tA fast program for maximum likelihood-based inference of large phylogenetic trees\n\t\t\n\t\t\tAPStamatakis\n\t\t\n\t\t\n\t\t\tTLudwig\n\t\t\n\t\t\n\t\t\tHMeier\n\t\t\n\t\t10.1145/967900.967940\n\t\n\t\n\t\tProceedings of the 2004 ACM symposium on Applied computing - SAC '04\n\t\t\t\tthe 2004 ACM symposium on Applied computing - SAC '04\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t21\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c641d97723bebd86686720"},"refKey":67},
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{"_key":"60c642a17723bebd866867eb","_id":"references/60c642a17723bebd866867eb","_rev":"_cfFlwbO---","tei":"\n\t\n\t\tgnuplot 4.0: a portable interactive plotting utility\n\t\t\n\t\t\tJeffRacine\n\t\t\n\t\t10.1002/jae.885\n\t\tark:/67375/WNG-TBWM94FV-0\n\t\t71C785FDD3D889E4FA4A6D02CE18030123E4CAB7\n\t\tdoi:10.1002/jae.885\n\t\t\n\t\n\t\n\t\tJournal of Applied Econometrics\n\t\tJ. Appl. Econ.\n\t\t0883-7252\n\t\t1099-1255\n\t\t\n\t\t\t21\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c642a17723bebd866867e7"},"refKey":23},
{"_key":"60c642a17723bebd866867ec","_id":"references/60c642a17723bebd866867ec","_rev":"_cfFlwba---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c642a17723bebd866867e7"},"refKey":22},
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{"_key":"60c642bf7723bebd86686806","_id":"references/60c642bf7723bebd86686806","_rev":"_cfFlwby---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t1870\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c642bf7723bebd86686805"},"refKey":19},
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{"_key":"60c6439e7723bebd866868aa","_id":"references/60c6439e7723bebd866868aa","_rev":"_cfFlwdO---","tei":"\n\t\n\t\tGROMACS: high performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\n\t\n\t\tSoftwareX\n\t\t\n\t\t\t1\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6439e7723bebd866868a9"},"refKey":33},
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{"_key":"60c6439e7723bebd866868ac","_id":"references/60c6439e7723bebd866868ac","_rev":"_cfFlwdm---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Mol Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6439e7723bebd866868a9"},"refKey":34},
{"_key":"60c643ae7723bebd866868bb","_id":"references/60c643ae7723bebd866868bb","_rev":"_cfFlwdu---","tei":"\n\t\n\t\tBioconductor: open software development for computational biology and bioinformatics\n\t\t\n\t\t\tRCGentleman\n\t\t\n\t\t\n\t\t\tVJCarey\n\t\t\n\t\t\n\t\t\tDMBates\n\t\t\n\t\t\n\t\t\tBBolstad\n\t\t\n\t\t\n\t\t\tMDettling\n\t\t\n\t\t\n\t\t\tSDudoit\n\t\t\n\t\t\n\t\t\tBEllis\n\t\t\n\t\t\n\t\t\tLGautier\n\t\t\n\t\t\n\t\t\tYGe\n\t\t\n\t\t\n\t\t\tJGentry\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t5\n\t\t\tR80\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c643ae7723bebd866868ba"},"refKey":20},
{"_key":"60c643ba7723bebd866868c4","_id":"references/60c643ba7723bebd866868c4","_rev":"_cfFlwd6---","tei":"\n\t\n\t\tBeyond Multilevel Regression Modeling\n\t\t\n\t\t\tBengtMuthén\n\t\t\n\t\t\n\t\t\tTihomirAsparouhov\n\t\t\n\t\t10.4324/9780203848852.ch2\n\t\n\t\n\t\tHandbook of Advanced Multilevel Analysis\n\t\t\t\t\n\t\t\tRoutledge\n\t\t\t1998. 2015\n\t\t\n\t\n\n","document":{"$oid":"60c643ba7723bebd866868c3"},"refKey":22},
{"_key":"60c644147723bebd86686932","_id":"references/60c644147723bebd86686932","_rev":"_cfFlweG---","tei":"\n\t\n\t\tYices 2.2\n\t\t\n\t\t\tBrunoDutertre\n\t\t\n\t\t10.1007/978-3-319-08867-9_49\n\t\t\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tABiere\n\t\t\tRBloem\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t8559\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644147723bebd86686931"},"refKey":18},
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{"_key":"60c644147723bebd86686934","_id":"references/60c644147723bebd86686934","_rev":"_cfFlwee---","tei":"\n\t\n\t\tThe MathSAT5 SMT Solver\n\t\t\n\t\t\tAlessandroCimatti\n\t\t\n\t\t\n\t\t\tAlbertoGriggio\n\t\t\n\t\t\n\t\t\tBastiaanJoostSchaafsma\n\t\t\n\t\t\n\t\t\tRobertoSebastiani\n\t\t\n\t\t10.1007/978-3-642-36742-7_7\n\t\tark:/67375/HCB-KNF05CM3-W\n\t\t2C2C86F1AEE57F215E7825739BB1F0F850BE0BA3\n\t\t\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\t\n\t\t\tNPiterman\n\t\t\tSASmolka\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t7795\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644147723bebd86686931"},"refKey":12},
{"_key":"60c644147723bebd86686935","_id":"references/60c644147723bebd86686935","_rev":"_cfFlweq---","tei":"\n\t\n\t\tSMT-Based Bounded Model Checking for Embedded ANSI-C Software\n\t\t\n\t\t\tLucasCordeiro\n\t\t\n\t\t\n\t\t\tBerndFischer\n\t\t\n\t\t\n\t\t\tJoaoMarques-Silva\n\t\t\n\t\t10.1109/ase.2009.63\n\t\t\n\t\t\n\t\n\t\n\t\t2009 IEEE/ACM International Conference on Automated Software Engineering\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644147723bebd86686931"},"refKey":14},
{"_key":"60c644147723bebd86686936","_id":"references/60c644147723bebd86686936","_rev":"_cfFlwe2---","tei":"\n\t\n\t\tESBMC 5.0: an industrial-strength C model checker\n\t\t\n\t\t\tMikhailRGadelha\n\t\t\n\t\t\n\t\t\tFelipeRMonteiro\n\t\t\n\t\t\n\t\t\tJeremyMorse\n\t\t\n\t\t\n\t\t\tLucasCCordeiro\n\t\t\n\t\t\n\t\t\tBerndFischer\n\t\t\n\t\t\n\t\t\tDenisANicole\n\t\t\n\t\t10.1145/3238147.3240481\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the 33rd ACM/IEEE International Conference on Automated Software Engineering - ASE 2018\n\t\t\t\tthe 33rd ACM/IEEE International Conference on Automated Software Engineering - ASE 2018\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644147723bebd86686931"},"refKey":21},
{"_key":"60c644147723bebd86686937","_id":"references/60c644147723bebd86686937","_rev":"_cfFlwfC---","tei":"\n\t\n\t\tCross platform fixed point maths library\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644147723bebd86686931"},"refKey":31},
{"_key":"60c644147723bebd86686938","_id":"references/60c644147723bebd86686938","_rev":"_cfFlwfO---","tei":"\n\t\n\t\tLearning in practice: reasoning about quantization\n\t\t\n\t\t\tACherkaev\n\t\t\n\t\t\n\t\t\tWTai\n\t\t\n\t\t\n\t\t\tJMPhillips\n\t\t\n\t\t\n\t\t\tVSrikumar\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tCoRR abs\n\n","document":{"$oid":"60c644147723bebd86686931"},"refKey":10},
{"_key":"60c644147723bebd86686939","_id":"references/60c644147723bebd86686939","_rev":"_cfFlwfW---","tei":"\n\t\n\t\tDeep learning with limited numerical precision\n\t\t\n\t\t\tSGupta\n\t\t\n\t\t\n\t\t\tAAgrawal\n\t\t\n\t\t\n\t\t\tKGopalakrishnan\n\t\t\n\t\t\n\t\t\tPNarayanan\n\t\t\n\t\n\t\n\t\tProceedings of the International Conference on Machine Learning (ICML)\n\t\t\t\tthe International Conference on Machine Learning (ICML)\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644147723bebd86686931"},"refKey":24},
{"_key":"60c644147723bebd8668693a","_id":"references/60c644147723bebd8668693a","_rev":"_cfFlwfi---","tei":"\n\t\n\t\tFixed point quantization of deep convolutional networks\n\t\t\n\t\t\tDDLin\n\t\t\n\t\t\n\t\t\tSSTalathi\n\t\t\n\t\t\n\t\t\tVSAnnapureddy\n\t\t\n\t\n\t\n\t\tProceedings of the International Conference on Machine Learning (ICML)\n\t\t\t\tthe International Conference on Machine Learning (ICML)\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644147723bebd86686931"},"refKey":34},
{"_key":"60c644177723bebd8668694b","_id":"references/60c644177723bebd8668694b","_rev":"_cfFlwfu---","tei":"\n\t\n\t\tNetMHCpan-4.0: Improved Peptide–MHC Class I Interaction Predictions Integrating Eluted Ligand and Peptide Binding Affinity Data\n\t\t\n\t\t\tVanessaJurtz\n\t\t\n\t\t\n\t\t\tSinuPaul\n\t\t\t0000-0002-8964-0244\n\t\t\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\t0000-0002-8036-2647\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\t0000-0003-2615-5695\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\t0000-0002-8457-6693\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\t0000-0001-7885-4311\n\t\t\n\t\t10.4049/jimmunol.1700893\n\t\t28978689\n\t\tPMC5679736\n\t\t\n\t\n\t\n\t\tThe Journal of Immunology\n\t\tJ.I.\n\t\t0022-1767\n\t\t1550-6606\n\t\t\n\t\t\t199\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tThe American Association of Immunologists\n\t\t\n\t\n\n","document":{"$oid":"60c644177723bebd8668694a"},"refKey":48},
{"_key":"60c644287723bebd86686965","_id":"references/60c644287723bebd86686965","_rev":"_cfFlwf6---","tei":"\n\t\n\t\tParallelization of MAFFT for large-scale multiple sequence alignments\n\t\t\n\t\t\tTNakamura\n\t\t\n\t\t\n\t\t\tKDYamada\n\t\t\n\t\t\n\t\t\tKTomii\n\t\t\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644287723bebd86686964"},"refKey":29},
{"_key":"60c644287723bebd86686966","_id":"references/60c644287723bebd86686966","_rev":"_cfFlwgG---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644287723bebd86686964"},"refKey":30},
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{"_key":"60c6442f7723bebd86686975","_id":"references/60c6442f7723bebd86686975","_rev":"_cfFlwge---","tei":"\n\t\n\t\tThe dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tDCacchiarelli\n\t\t\n\t\t\n\t\t\tJGrimsby\n\t\t\n\t\t\n\t\t\tPPokharel\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tMMorse\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6442f7723bebd86686974"},"refKey":37},
{"_key":"60c644397723bebd8668697f","_id":"references/60c644397723bebd8668697f","_rev":"_cfFlwgq---","tei":"\n\t\n\t\tPower 3: a flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFFaul\n\t\t\n\t\t\n\t\t\tEErdfelder\n\t\t\n\t\t\n\t\t\tA-GLang\n\t\t\n\t\n\t\n\t\tBehav Res Methods\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644397723bebd8668697e"},"refKey":21},
{"_key":"60c6445c7723bebd86686995","_id":"references/60c6445c7723bebd86686995","_rev":"_cfFlwg2---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6445c7723bebd86686994"},"refKey":20},
{"_key":"60c6445c7723bebd86686996","_id":"references/60c6445c7723bebd86686996","_rev":"_cfFlwh----","tei":"\n\t\n\t\tA greedy algorithm for aligning DNA sequences\n\t\t\n\t\t\tZZhang\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t7\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6445c7723bebd86686994"},"refKey":25},
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{"_key":"60c644677723bebd866869a7","_id":"references/60c644677723bebd866869a7","_rev":"_cfFlwhW---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644677723bebd866869a6"},"refKey":31},
{"_key":"60c644737723bebd866869b6","_id":"references/60c644737723bebd866869b6","_rev":"_cfFlwhi---","tei":"\n\t\n\t\tA language and enviroment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tRc T\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644737723bebd866869b5"},"refKey":51},
{"_key":"60c6447b7723bebd866869b9","_id":"references/60c6447b7723bebd866869b9","_rev":"_cfFlwhu---","tei":"\n\t\n\t\tSatisfying hydrogen bonding potential in proteins\n\t\t\n\t\t\tIKMcdonald\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t238\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6447b7723bebd866869b8"},"refKey":25},
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{"_key":"60c644937723bebd866869c7","_id":"references/60c644937723bebd866869c7","_rev":"_cfFlwiG---","tei":"\n\t\n\t\tThe SWISS-MODEL Repository-New features and functionality\n\t\t\n\t\t\tSBienert\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c644937723bebd866869c5"},"refKey":74},
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{"_key":"60c644e37723bebd866869d7","_id":"references/60c644e37723bebd866869d7","_rev":"_cfFlwie---","tei":"\n\t\n\t\tidock: A multithreaded virtual screening tool for flexible ligand docking\n\t\t\n\t\t\tHongjianLi\n\t\t\n\t\t\n\t\t\tKwong-SakLeung\n\t\t\n\t\t\n\t\t\tMan-HonWong\n\t\t\n\t\t10.1109/cibcb.2012.6217214\n\t\n\t\n\t\t2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)\n\t\t\t\tSan Diego, CA\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tINSPEC Accession Number: 12803637)\n\n","document":{"$oid":"60c644e37723bebd866869d6"},"refKey":30},
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{"_key":"60c645557723bebd86686a5e","_id":"references/60c645557723bebd86686a5e","_rev":"_cfFlwkK---","tei":"\n\t\n\t\tHIV Haplotype Inference Using a Propagating Dirichlet Process Mixture Model\n\t\t\n\t\t\tSandhyaPrabhakaran\n\t\t\n\t\t\n\t\t\tMelanieRey\n\t\t\n\t\t\n\t\t\tOsvaldoZagordi\n\t\t\n\t\t\n\t\t\tNikoBeerenwinkel\n\t\t\n\t\t\n\t\t\tVolkerRoth\n\t\t\n\t\t10.1109/tcbb.2013.145\n\t\t26355517\n\t\t\n\t\n\t\n\t\tIEEE/ACM Transactions on Computational Biology and Bioinformatics\n\t\tIEEE/ACM Trans. Comput. Biol. and Bioinf.\n\t\t1545-5963\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c645557723bebd86686a5a"},"refKey":95},
{"_key":"60c645557723bebd86686a5f","_id":"references/60c645557723bebd86686a5f","_rev":"_cfFlwkW---","tei":"\n\t\n\t\tAn automated genotyping system for analysis of HIV-1 and other microbial sequences\n\t\t\n\t\t\tTDe Oliveira\n\t\t\n\t\t\n\t\t\tKDeforche\n\t\t\n\t\t\n\t\t\tSCassol\n\t\t\n\t\t\n\t\t\tMSalminen\n\t\t\n\t\t\n\t\t\tDParaskevis\n\t\t\n\t\t\n\t\t\tCSeebregts\n\t\t\n\t\t\n\t\t\tJSnoeck\n\t\t\n\t\t\n\t\t\tEJVan Rensburg\n\t\t\n\t\t\n\t\t\tAM JWensing\n\t\t\n\t\t\n\t\t\tDAVan De Vijver\n\t\t\n\t\t\n\t\t\tCABoucher\n\t\t\n\t\t\n\t\t\tRCamacho\n\t\t\n\t\t\n\t\t\tA-MVandamme\n\t\t\n\t\t10.1093/bioinformatics/bti607\n\t\t16076886\n\t\tark:/67375/HXZ-0GTG6N3L-G\n\t\tCAFE94CD146C4A5999DFFCB53FF376A7296C5FB8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c645557723bebd86686a5a"},"refKey":77},
{"_key":"60c645557723bebd86686a60","_id":"references/60c645557723bebd86686a60","_rev":"_cfFlwki---","tei":"\n\t\n\t\tA standardized framework for accurate, high-throughput genotyping of recombinant and non-recombinant viral sequences\n\t\t\n\t\t\tLC JAlcantara\n\t\t\n\t\t\n\t\t\tSCassol\n\t\t\n\t\t\n\t\t\tPLibin\n\t\t\n\t\t\n\t\t\tKDeforche\n\t\t\n\t\t\n\t\t\tOGPybus\n\t\t\n\t\t\n\t\t\tMVan Ranst\n\t\t\n\t\t\n\t\t\tBGalvao-Castro\n\t\t\n\t\t\n\t\t\tA-MVandamme\n\t\t\n\t\t\n\t\t\tTDe Oliveira\n\t\t\n\t\t10.1093/nar/gkp455\n\t\t19483099\n\t\tPMC2703899\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c645557723bebd86686a5a"},"refKey":78},
{"_key":"60c645557723bebd86686a61","_id":"references/60c645557723bebd86686a61","_rev":"_cfFlwku---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDiegoDarriba\n\t\t\n\t\t\n\t\t\tGuillermoLTaboada\n\t\t\n\t\t\n\t\t\tRamónDoallo\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t10.1038/nmeth.2109\n\t\t22847109\n\t\tPMC4594756\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c645557723bebd86686a5a"},"refKey":85},
{"_key":"60c645557723bebd86686a62","_id":"references/60c645557723bebd86686a62","_rev":"_cfFlwl----","tei":"\n\t\n\t\tBLAST: a more efficient report with usability improvements\n\t\t\n\t\t\tGrzegorzMBoratyn\n\t\t\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tPeterSCooper\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tAmeliaFong\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t\n\t\t\tWayneTMatten\n\t\t\n\t\t\n\t\t\tScottDMcginnis\n\t\t\n\t\t\n\t\t\tYuriMerezhuk\n\t\t\n\t\t\n\t\t\tYanRaytselis\n\t\t\n\t\t\n\t\t\tEricWSayers\n\t\t\n\t\t\n\t\t\tTaoTao\n\t\t\n\t\t\n\t\t\tJianYe\n\t\t\n\t\t\n\t\t\tIrenaZaretskaya\n\t\t\n\t\t10.1093/nar/gkt282\n\t\t23609542\n\t\tPMC3692093\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c645557723bebd86686a5a"},"refKey":73},
{"_key":"60c645557723bebd86686a63","_id":"references/60c645557723bebd86686a63","_rev":"_cfFlwlK---","tei":"\n\t\n\t\tGeneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMeintjes\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\t10.1093/bioinformatics/bts199\n\t\t22543367\n\t\tPMC3371832\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c645557723bebd86686a5a"},"refKey":75},
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{"_key":"60c645677723bebd86686a81","_id":"references/60c645677723bebd86686a81","_rev":"_cfFlwli---","tei":"\n\t\n\t\tXtalView/Xfit—A Versatile Program for Manipulating Atomic Coordinates and Electron Density\n\t\t\n\t\t\tDuncanEMcree\n\t\t\n\t\t10.1006/jsbi.1999.4094\n\t\t10222271\n\t\tS1047-8477(99)94094-7\n\t\tark:/67375/6H6-KWNLQ0D0-6\n\t\tF984D1F7FF1C928BEEF1E5866174F4E7075482A0\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t125\n\t\t\t2-3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c645677723bebd86686a80"},"refKey":33},
{"_key":"60c645677723bebd86686a82","_id":"references/60c645677723bebd86686a82","_rev":"_cfFlwlu---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallog\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c645677723bebd86686a80"},"refKey":35},
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{"_key":"60c649797723bebd86686e61","_id":"references/60c649797723bebd86686e61","_rev":"_cfFlwwK---","tei":"\n\t\n\t\tThe FoldX web server: an online force field 10\n\t\t\n\t\t\tJSchymkowitz\n\t\t\n\t\t\n\t\t\tJBorg\n\t\t\n\t\t\n\t\t\tFStricher\n\t\t\n\t\t\n\t\t\tRNys\n\t\t\n\t\t\n\t\t\tFRousseau\n\t\t\n\t\t\n\t\t\tLSerrano\n\t\t\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c649797723bebd86686e60"},"refKey":43},
{"_key":"60c649797723bebd86686e62","_id":"references/60c649797723bebd86686e62","_rev":"_cfFlwwW---","tei":"\n\t\n\t\tThe SWISS-MODEL workspace: a web-based environment for protein structure homology modelling\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c649797723bebd86686e60"},"refKey":0},
{"_key":"60c649797723bebd86686e63","_id":"references/60c649797723bebd86686e63","_rev":"_cfFlwwi---","tei":"\n\t\n\t\tSWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling\n\t\t\n\t\t\tNGuex\n\t\t\n\t\t\n\t\t\tMCPeitsch\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c649797723bebd86686e60"},"refKey":10},
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{"_key":"60c649827723bebd86686e6c","_id":"references/60c649827723bebd86686e6c","_rev":"_cfFlww6---","tei":"\n\t\n\t\tMultiple Imputation by Chained Equations (MICE): Implementation inStata\n\t\t\n\t\t\tPatrickRoyston\n\t\t\n\t\t\n\t\t\tIanWhite\n\t\t\n\t\t10.18637/jss.v045.i04\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t45\n\t\t\t4\n\t\t\t4\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c649827723bebd86686e6a"},"refKey":35},
{"_key":"60c649a57723bebd86686e7b","_id":"references/60c649a57723bebd86686e7b","_rev":"_cfFlwxG---","tei":"\n\t\n\t\tComparative protein modeling by satisfaction of spatial restraints\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1107/s0108767396095578\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t52\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c649a57723bebd86686e7a"},"refKey":21},
{"_key":"60c649ab7723bebd86686e7e","_id":"references/60c649ab7723bebd86686e7e","_rev":"_cfFlwxS---","tei":"\n\t\n\t\tHow high will it go?\n\t\t\n\t\t\tSBegley\n\t\t\n\t\t\n\t\t\tHEmpinado\n\t\t\n\t\n\t\n\t\tStat\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c649ab7723bebd86686e7d"},"refKey":32},
{"_key":"60c649e27723bebd86686e9d","_id":"references/60c649e27723bebd86686e9d","_rev":"_cfFlwxe---","tei":"\n\t\n\t\tNVivo Qualitative Data Analysis Software. Version 12\n\t\t\n\t\t\tQsr International\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tnvivo-qualitative-dataanalysis-software/home\n\n","document":{"$oid":"60c649e27723bebd86686e9c"},"refKey":14},
{"_key":"60c649ea7723bebd86686ea4","_id":"references/60c649ea7723bebd86686ea4","_rev":"_cfFlwxq---","tei":"\n\t\n\t\tPSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization\n\t\t\n\t\t\tKentaNakai\n\t\t\n\t\t\n\t\t\tPaulHorton\n\t\t\n\t\t10.1016/s0968-0004(98)01336-x\n\t\t10087920\n\t\tS0968-0004(98)01336-X\n\t\tark:/67375/6H6-MMC1VG2D-P\n\t\tBF0EE0AB0E0862194495EDD91130F48AA00A8DB0\n\t\n\t\n\t\tTrends in Biochemical Sciences\n\t\tTrends in Biochemical Sciences\n\t\t0968-0004\n\t\t\n\t\t\t24\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c649ea7723bebd86686ea3"},"refKey":32},
{"_key":"60c64a1e7723bebd86686ec8","_id":"references/60c64a1e7723bebd86686ec8","_rev":"_cfFlwx2---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64a1e7723bebd86686ec7"},"refKey":14},
{"_key":"60c64a217723bebd86686ecc","_id":"references/60c64a217723bebd86686ecc","_rev":"_cfFlwyC---","tei":"\n\t\n\t\tIn VitroSelection of Membrane-spanning Leucine Zipper Protein-Protein Interaction Motifs Using POSSYCCAT\n\t\t\n\t\t\tRolfGurezka\n\t\t\n\t\t\n\t\t\tDieterLangosch\n\t\t\n\t\t10.1074/jbc.m105362200\n\t\t11585820\n\t\t\n\t\n\t\n\t\tJournal of Biological Chemistry\n\t\tJ. Biol. Chem.\n\t\t0021-9258\n\t\t1083-351X\n\t\t\n\t\t\t276\n\t\t\t49\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Biochemistry & Molecular Biology (ASBMB)\n\t\t\n\t\n\n","document":{"$oid":"60c64a217723bebd86686ecb"},"refKey":50},
{"_key":"60c64a457723bebd86686edb","_id":"references/60c64a457723bebd86686edb","_rev":"_cfFlwyK---","tei":"\n\t\n\t\tPAUP: phylogenetic analysis using parsimony\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\n\t\n\t\tIllinois Natural History Survey\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64a457723bebd86686eda"},"refKey":21},
{"_key":"60c64a457723bebd86686edc","_id":"references/60c64a457723bebd86686edc","_rev":"_cfFlwyW---","tei":"\n\t\n\t\tMUST, a computer package of Management Utilities for Sequences and Trees\n\t\t\n\t\t\tHervéPhilippe\n\t\t\n\t\t10.1093/nar/21.22.5264\n\t\t8255784\n\t\tPMC310646\n\t\tark:/67375/HXZ-5ZSWDKBC-R\n\t\tE5E01A84EE573E981AE417F2E9A8FFE602D27B04\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t21\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\t\n\t\t\tUniversity of\n\t\t\n\t\n\n","document":{"$oid":"60c64a457723bebd86686eda"},"refKey":13},
{"_key":"60c64a547723bebd86686eee","_id":"references/60c64a547723bebd86686eee","_rev":"_cfFlwyi---","tei":"\n\t\n\t\tAb initio molecular dynamics for liquid metals\n\t\t\n\t\t\tGKresse\n\t\t\n\t\t\n\t\t\tJHafner\n\t\t\n\t\t10.1016/0022-3093(95)00355-x\n\t\t0022-3093(95)00355-X\n\t\tark:/67375/6H6-F3M8MPVJ-N\n\t\t70171466DDCFC6CFE6A8C90DFF74A470691E7B73\n\t\n\t\n\t\tJournal of Non-Crystalline Solids\n\t\tJournal of Non-Crystalline Solids\n\t\t0022-3093\n\t\t\n\t\t\t192-193\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c64a547723bebd86686eed"},"refKey":21},
{"_key":"60c64a547723bebd86686eef","_id":"references/60c64a547723bebd86686eef","_rev":"_cfFlwyu---","tei":"\n\t\n\t\tEfficient iterative schemes for ab initio total-energy calculations using a plane-wave basis set\n\t\t\n\t\t\tGKresse\n\t\t\n\t\t\n\t\t\tJFurthmüller\n\t\t\n\t\n\t\n\t\tPhys Rev B\n\t\t\n\t\t\t54\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64a547723bebd86686eed"},"refKey":22},
{"_key":"60c64a547723bebd86686ef0","_id":"references/60c64a547723bebd86686ef0","_rev":"_cfFlwy6---","tei":"\n\t\n\t\tAb initio molecular-dynamics simulation of the liquidmetal-amorphous-semiconductor transition in germanium\n\t\t\n\t\t\tGKresse\n\t\t\n\t\t\n\t\t\tJHafner\n\t\t\n\t\n\t\n\t\tPhys Rev B\n\t\t\n\t\t\t49\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64a547723bebd86686eed"},"refKey":23},
{"_key":"60c64a547723bebd86686ef1","_id":"references/60c64a547723bebd86686ef1","_rev":"_cfFlwzG---","tei":"\n\t\n\t\tEfficiency of ab-initio total energy calculations for metals and semiconductors using a plane-wave basis set\n\t\t\n\t\t\tGKresse\n\t\t\n\t\t\n\t\t\tJFurthmüller\n\t\t\n\t\n\t\n\t\tComput Mater Sci\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64a547723bebd86686eed"},"refKey":24},
{"_key":"60c64a6a7723bebd86686f0c","_id":"references/60c64a6a7723bebd86686f0c","_rev":"_cfFlwzS---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64a6a7723bebd86686f0b"},"refKey":25},
{"_key":"60c64a6a7723bebd86686f0d","_id":"references/60c64a6a7723bebd86686f0d","_rev":"_cfFlwze---","tei":"\n\t\n\t\tAccurate SAXS profile computation and its assessment by contrast variation experiments\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tMHammel\n\t\t\n\t\t\n\t\t\tJATainer\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\n\t\n\t\tBiophys. J\n\t\t\n\t\t\t105\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64a6a7723bebd86686f0b"},"refKey":40},
{"_key":"60c64a877723bebd86686f25","_id":"references/60c64a877723bebd86686f25","_rev":"_cfFlwzq---","tei":"\n\t\n\t\tAuto-sklearn: Efficient and Robust Automated Machine Learning\n\t\t\n\t\t\tMatthiasFeurer\n\t\t\n\t\t\n\t\t\tAaronKlein\n\t\t\n\t\t\n\t\t\tKatharinaEggensperger\n\t\t\n\t\t\n\t\t\tJostTobiasSpringenberg\n\t\t\n\t\t\n\t\t\tManuelBlum\n\t\t\n\t\t\n\t\t\tFrankHutter\n\t\t\n\t\t10.1007/978-3-030-05318-5_6\n\t\t\n\t\n\t\n\t\tAutomated Machine Learning\n\t\t\t\t\n\t\t\tFHutter\n\t\t\tLKotthoff\n\t\t\tJVanschoren\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64a877723bebd86686f24"},"refKey":27},
{"_key":"60c64a877723bebd86686f26","_id":"references/60c64a877723bebd86686f26","_rev":"_cfFlwz2---","tei":"\n\t\n\t\tMaMaDroid: Detecting Android Malware by Building Markov Chains of Behavioral Models\n\t\t\n\t\t\tEnricoMariconti\n\t\t\n\t\t\n\t\t\tLuckyOnwuzurike\n\t\t\n\t\t\n\t\t\tPanagiotisAndriotis\n\t\t\n\t\t\n\t\t\tEmilianoDe Cristofaro\n\t\t\n\t\t\n\t\t\tGordonRoss\n\t\t\n\t\t\n\t\t\tGianlucaStringhini\n\t\t\n\t\t10.14722/ndss.2017.23353\n\t\t\n\t\n\t\n\t\tProceedings 2017 Network and Distributed System Security Symposium\n\t\t\t\t2017 Network and Distributed System Security Symposium\n\t\t\n\t\t\tInternet Society\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64a877723bebd86686f24"},"refKey":36},
{"_key":"60c64a877723bebd86686f27","_id":"references/60c64a877723bebd86686f27","_rev":"_cfFlw0C---","tei":"\n\t\n\t\tDrebin: Effective and explainable detection of android malware in your pocket\n\t\t\n\t\t\tDArp\n\t\t\n\t\t\n\t\t\tMSpreitzenbarth\n\t\t\n\t\t\n\t\t\tMHübner\n\t\t\n\t\t\n\t\t\tHGascon\n\t\t\n\t\t\n\t\t\tKRieck\n\t\t\n\t\n\t\n\t\tAnnual Network and Distributed System Security Symposium (NDSS)\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64a877723bebd86686f24"},"refKey":13},
{"_key":"60c64aa27723bebd86686f66","_id":"references/60c64aa27723bebd86686f66","_rev":"_cfFlw0O---","tei":"\n\t\n\t\t\n\t\t\tMJohnson\n\t\t\n\t\t\n\t\t\tIZaretskaya\n\t\t\n\t\t\n\t\t\tYRaytselis\n\t\t\n\t\t\n\t\t\tYMerezhuk\n\t\t\n\t\t\n\t\t\tSMcginnis\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\n\t\n\t\tNCBI BLAST: a better web interface\n\t\t\t\t\n\t\t\t\n\t\t\t36\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64aa27723bebd86686f65"},"refKey":68},
{"_key":"60c64aa27723bebd86686f67","_id":"references/60c64aa27723bebd86686f67","_rev":"_cfFlw0a---","tei":"\n\t\n\t\tGlide: a new approach for rapid, accurate docking and scoring. 1. Method and assessment of docking accuracy\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tJLBanks\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\t\n\t\t\tJJKlicic\n\t\t\n\t\t\n\t\t\tDTMainz\n\t\t\n\t\t\n\t\t\tMPRepasky\n\t\t\n\t\t\n\t\t\tEHKnoll\n\t\t\n\t\t\n\t\t\tMShelley\n\t\t\n\t\t\n\t\t\tJKPerry\n\t\t\n\t\n\t\n\t\tJ. Med. Chem\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64aa27723bebd86686f65"},"refKey":94},
{"_key":"60c64aa27723bebd86686f68","_id":"references/60c64aa27723bebd86686f68","_rev":"_cfFlw0m---","tei":"\n\t\n\t\tRelease, 1: Schrödinger Suite 2019-1 Protein Preparation Wizard\n\t\t\n\t\t\tSÖdinger\n\t\t\n\t\t\n\t\t\t\n\t\t\tEpik, Schrödinger, LLC, New York, NY\n\t\t\n\t\n\n","document":{"$oid":"60c64aa27723bebd86686f65"},"refKey":88},
{"_key":"60c64abd7723bebd86686fb5","_id":"references/60c64abd7723bebd86686fb5","_rev":"_cfFlw0y---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tLintian\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64abd7723bebd86686fb4"},"refKey":0},
{"_key":"60c64abd7723bebd86686fb6","_id":"references/60c64abd7723bebd86686fb6","_rev":"_cfFlw06---","tei":"\n\t\n\t\t\n\t\t\tRRosenfeld\n\t\t\n\t\t\n\t\tPackage rancid-cgi: looking glass cgi based on rancid tools\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64abd7723bebd86686fb4"},"refKey":30},
{"_key":"60c64ace7723bebd86686fff","_id":"references/60c64ace7723bebd86686fff","_rev":"_cfFlw1G---","tei":"\n\t\n\t\tRegularization paths for generalized linear models via coordinate descent\n\t\t\n\t\t\tJFriedman\n\t\t\n\t\t\n\t\t\tTHastie\n\t\t\n\t\t\n\t\t\tRTibshirani\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64ace7723bebd86686ffe"},"refKey":34},
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{"_key":"60c64ad37723bebd86687006","_id":"references/60c64ad37723bebd86687006","_rev":"_cfFlw1e---","tei":"\n\t\n\t\tTHE NEED FOR A THEORY OF CITING\n\t\t\n\t\t\tBlaiseCronin\n\t\t\n\t\t10.1108/eb026703\n\t\tark:/67375/4W2-VQ8LPW0G-S\n\t\t01F69D908DA9A131423590FBC0373E35B4E2F885\n\t\n\t\n\t\tJournal of Documentation\n\t\tJournal of Documentation\n\t\t0022-0418\n\t\t\n\t\t\t37\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tEmerald\n\t\t\n\t\n\n","document":{"$oid":"60c64ad37723bebd86687005"},"refKey":3},
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{"_key":"60c64af67723bebd8668701b","_id":"references/60c64af67723bebd8668701b","_rev":"_cfFlw12---","tei":"\n\t\n\t\tR Core Team: R. A language environment for statistical programming\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64af67723bebd86687019"},"refKey":43},
{"_key":"60c64b037723bebd8668702d","_id":"references/60c64b037723bebd8668702d","_rev":"_cfFlw2C---","tei":"\n\t\n\t\tTools for integrated sequence-structure analysis with UCSF chimera\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tBMC bioinformatics\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t339\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64b037723bebd8668702c"},"refKey":37},
{"_key":"60c64b037723bebd8668702e","_id":"references/60c64b037723bebd8668702e","_rev":"_cfFlw2O---","tei":"\n\t\n\t\tUCSF chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64b037723bebd8668702c"},"refKey":42},
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{"_key":"60c64b6f7723bebd86687077","_id":"references/60c64b6f7723bebd86687077","_rev":"_cfFlw2i---","tei":"\n\t\n\t\tphytools: An R package for phylogenetic comparative biology (and other things)\n\t\t\n\t\t\tLJ\n\t\t\n\t\n\t\n\t\tMethods Ecol. Evol\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64b6f7723bebd86687076"},"refKey":55},
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{"_key":"60c64b787723bebd86687083","_id":"references/60c64b787723bebd86687083","_rev":"_cfFlw3S---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 15. College Station, TX: StataCorp LLC\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64b787723bebd86687082"},"refKey":19},
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{"_key":"60c64be17723bebd866870d2","_id":"references/60c64be17723bebd866870d2","_rev":"_cfFlw3q---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 14. College Station, TX: StataCorp LP\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64be17723bebd866870d1"},"refKey":42},
{"_key":"60c64be47723bebd866870dc","_id":"references/60c64be47723bebd866870dc","_rev":"_cfFlw32---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tL\n\t\t\t\n\t\t\t\tREDCap Consortium\n\t\t\t\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64be47723bebd866870db"},"refKey":13},
{"_key":"60c64be47723bebd866870dd","_id":"references/60c64be47723bebd866870dd","_rev":"_cfFlw4----","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c64be47723bebd866870db"},"refKey":14},
{"_key":"60c64c037723bebd866870fa","_id":"references/60c64c037723bebd866870fa","_rev":"_cfFlw4K---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64c037723bebd866870f9"},"refKey":38},
{"_key":"60c64c1d7723bebd8668710c","_id":"references/60c64c1d7723bebd8668710c","_rev":"_cfFlw4W---","tei":"\n\t\n\t\tCell Lineage and Communication Network Inference via Optimization for Single-cell Transcriptomics\n\t\t\n\t\t\tShuxiongWang\n\t\t\t0000-0002-1021-9853\n\t\t\n\t\t\n\t\t\tMatthewKarikomi\n\t\t\n\t\t\n\t\t\tAdamLMaclean\n\t\t\t0000-0003-0689-7907\n\t\t\n\t\t\n\t\t\tQingNie\n\t\t\n\t\t10.1101/168922\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\te66\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c64c1d7723bebd8668710b"},"refKey":25},
{"_key":"60c64c1d7723bebd8668710d","_id":"references/60c64c1d7723bebd8668710d","_rev":"_cfFlw4i---","tei":"\n\t\n\t\tTranscriptome Analysis of Individual Stromal Cell Populations Identifies Stroma-Tumor Crosstalk in Mouse Lung Cancer Model\n\t\t\n\t\t\tHyejinChoi\n\t\t\n\t\t\n\t\t\tJiantingSheng\n\t\t\n\t\t\n\t\t\tDingchengGao\n\t\t\n\t\t\n\t\t\tFuhaiLi\n\t\t\n\t\t\n\t\t\tAnnaDurrans\n\t\t\n\t\t\n\t\t\tSeonghoRyu\n\t\t\n\t\t\n\t\t\tSharrellBLee\n\t\t\n\t\t\n\t\t\tNavneetNarula\n\t\t\n\t\t\n\t\t\tShahinRafii\n\t\t\n\t\t\n\t\t\tOlivierElemento\n\t\t\n\t\t\n\t\t\tNasserKAltorki\n\t\t\n\t\t\n\t\t\tStephenT CWong\n\t\t\n\t\t\n\t\t\tVivekMittal\n\t\t\n\t\t10.1016/j.celrep.2015.01.040\n\t\t25704820\n\t\n\t\n\t\tCell Reports\n\t\tCell Reports\n\t\t2211-1247\n\t\t\n\t\t\t10\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c64c1d7723bebd8668710b"},"refKey":69},
{"_key":"60c64c1d7723bebd8668710e","_id":"references/60c64c1d7723bebd8668710e","_rev":"_cfFlw4u---","tei":"\n\t\n\t\tThis study introduces a PageRank-based algorithm to rank ligand-receptor interactions\n\t\t\n\t\t\tRBrowaeys\n\t\t\n\t\t\n\t\t\tWSaelens\n\t\t\n\t\t\n\t\t\tYSaeys\n\t\t\n\t\t10.1038/s41592-019-0667-5\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t\n\t\t\n\t\n\tNicheNet: modeling intercellular communication by linking ligands to target genes. involved in communication of cells\n\n","document":{"$oid":"60c64c1d7723bebd8668710b"},"refKey":56},
{"_key":"60c64c1d7723bebd8668710f","_id":"references/60c64c1d7723bebd8668710f","_rev":"_cfFlw46---","tei":"\n\t\n\t\tSingle-cell reconstruction of the early maternal-fetal interface in humans\n\t\t\n\t\t\tRVento-Tormo\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t563\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64c1d7723bebd8668710b"},"refKey":31},
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{"_key":"60c64c1d7723bebd86687111","_id":"references/60c64c1d7723bebd86687111","_rev":"_cfFlw5O---","tei":"\n\t\n\t\tImmune landscape of viral-and carcinogen-driven head and neck cancer\n\t\t\n\t\t\tARCillo\n\t\t\n\t\t10.1016/j.immuni.2019.11.014\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64c1d7723bebd8668710b"},"refKey":63},
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{"_key":"60c64c897723bebd86687174","_id":"references/60c64c897723bebd86687174","_rev":"_cfFlw6K---","tei":"\n\t\n\t\tPrediction of post-translational glycosylation and phosphorylation of proteins from the aminoacid sequence\n\t\t\n\t\t\tNBlom\n\t\t\n\t\t\n\t\t\tTSicheritz-Pontén\n\t\t\n\t\t\n\t\t\tRGupta\n\t\t\n\t\t\n\t\t\tSGammeltoft\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\n\t\n\t\tProteomics\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64c897723bebd86687173"},"refKey":0},
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{"_key":"60c64c907723bebd86687185","_id":"references/60c64c907723bebd86687185","_rev":"_cfFlw6i---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64c907723bebd86687183"},"refKey":22},
{"_key":"60c64ca37723bebd866871a2","_id":"references/60c64ca37723bebd866871a2","_rev":"_cfFlw6q---","tei":"\n\t\n\t\tSignalP 4.0: discriminating signal peptides from transmembrane regions\n\t\t\n\t\t\tThomasNordahlPetersen\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tHenrikNielsen\n\t\t\n\t\t10.1038/nmeth.1701\n\t\t21959131\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t8\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c64ca37723bebd866871a1"},"refKey":38},
{"_key":"60c64caa7723bebd866871ae","_id":"references/60c64caa7723bebd866871ae","_rev":"_cfFlw62---","tei":"\n\t\n\t\tProtorP: a protein-protein interaction analysis server\n\t\t\n\t\t\tCReynolds\n\t\t\n\t\t\n\t\t\tDDamerell\n\t\t\n\t\t\n\t\t\tSJones\n\t\t\n\t\t10.1093/bioinformatics/btn584\n\t\t19001476\n\t\tark:/67375/HXZ-NHVVSL0W-4\n\t\t075AADF573B268388DC060A0E2A205690A78D1B1\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c64caa7723bebd866871ad"},"refKey":53},
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{"_key":"60c64d437723bebd866871d8","_id":"references/60c64d437723bebd866871d8","_rev":"_cfFlw7O---","tei":"\n\t\n\t\tProcheck-a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64d437723bebd866871d7"},"refKey":20},
{"_key":"60c64d437723bebd866871d9","_id":"references/60c64d437723bebd866871d9","_rev":"_cfFlw7a---","tei":"\n\t\n\t\tMHC Ligands and Peptide Motifs\n\t\t\n\t\t\tHans-GeorgRammensee\n\t\t\n\t\t\n\t\t\tJuttaBachmann\n\t\t\n\t\t\n\t\t\tStefanStevanović\n\t\t\n\t\t10.1007/978-3-662-22162-4\n\t\n\t\n\t\tImmunogenetics\n\t\t1431-0414\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\n\t\n\n","document":{"$oid":"60c64d437723bebd866871d7"},"refKey":37},
{"_key":"60c64da27723bebd8668720a","_id":"references/60c64da27723bebd8668720a","_rev":"_cfFlw7m---","tei":"\n\t\n\t\tThe Language of Technical Computing\n\t\t\n\t\t\tMatlab\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe MathWorks, Inc\n\t\t\tNatick, MA, USA\n\t\t\n\t\n\n","document":{"$oid":"60c64da27723bebd86687209"},"refKey":41},
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{"_key":"60c64e477723bebd86687259","_id":"references/60c64e477723bebd86687259","_rev":"_cfFlw8G---","tei":"\n\t\n\t\tUser's Guide. FLUENT Inc\n\t\tFLUENT 6.1\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64e477723bebd86687258"},"refKey":14},
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Hippel\n\t\t\n\t\t\n\t\t\tWilliamWalters\n\t\t\n\t\t\n\t\t\tYunhuWan\n\t\t\n\t\t\n\t\t\tMingxunWang\n\t\t\n\t\t\n\t\t\tJonathanWarren\n\t\t\n\t\t\n\t\t\tKyleCWeber\n\t\t\n\t\t\n\t\t\tChaseHdWilliamson\n\t\t\n\t\t\n\t\t\tAmyDWillis\n\t\t\n\t\t\n\t\t\tZhenjiangZechXu\n\t\t\n\t\t\n\t\t\tJesseRZaneveld\n\t\t\n\t\t\n\t\t\tYilongZhang\n\t\t\n\t\t\n\t\t\tQiyunZhu\n\t\t\n\t\t\n\t\t\tRobKnight\n\t\t\n\t\t\n\t\t\tJGregoryCaporaso\n\t\t\t0000-0002-8865-1670\n\t\t\n\t\t10.7287/peerj.preprints.27295v2\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c64e7e7723bebd8668727b"},"refKey":21},
{"_key":"60c64e7e7723bebd8668727e","_id":"references/60c64e7e7723bebd8668727e","_rev":"_cfFlw8q---","tei":"\n\t\n\t\tQIIME 2 enables comprehensive end-to-end analysis of diverse microbiome data and comparative studies with publicly available data\n\t\t\n\t\t\tMEstaki\n\t\t\n\t\t\n\t\t\tLJiang\n\t\t\n\t\t\n\t\t\tNABokulich\n\t\t\n\t\t\n\t\t\tDMcdonald\n\t\t\n\t\t\n\t\t\tAGonzález\n\t\t\n\t\t\n\t\t\tTKosciolek\n\t\t\n\t\n\t\n\t\tCurrent Protocols Bioinformatics\n\t\t\n\t\t\t70\n\t\t\te100\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c64e7e7723bebd8668727b"},"refKey":22},
{"_key":"60c64e867723bebd86687288","_id":"references/60c64e867723bebd86687288","_rev":"_cfFlw82---","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBoLi\n\t\t\n\t\t\n\t\t\tColinNDewey\n\t\t\n\t\t10.1186/1471-2105-12-323\n\t\t21816040\n\t\tPMC3163565\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t323\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c64e867723bebd86687287"},"refKey":91},
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{"_key":"60c653267723bebd86687624","_id":"references/60c653267723bebd86687624","_rev":"_cfFlxGG---","tei":"\n\t\n\t\tAccurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ\n\t\t\n\t\t\tJürgenCox\n\t\t\n\t\t\n\t\t\tMarcoYHein\n\t\t\n\t\t\n\t\t\tChristianALuber\n\t\t\n\t\t\n\t\t\tIgorParon\n\t\t\n\t\t\n\t\t\tNagarjunaNagaraj\n\t\t\n\t\t\n\t\t\tMatthiasMann\n\t\t\n\t\t10.1074/mcp.m113.031591\n\t\t24942700\n\t\tPMC4159666\n\t\t\n\t\n\t\n\t\tMolecular & Cellular Proteomics\n\t\tMol Cell Proteomics\n\t\t1535-9476\n\t\t1535-9484\n\t\t\n\t\t\t13\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Biochemistry & Molecular Biology (ASBMB)\n\t\t\n\t\n\n","document":{"$oid":"60c653267723bebd86687620"},"refKey":13},
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{"_key":"60c653687723bebd86687662","_id":"references/60c653687723bebd86687662","_rev":"_cfFlxHO---","tei":"\n\t\n\t\tAdvanced Bayesian Multilevel Modeling with the R Package brms\n\t\t\n\t\t\tP-CBürkner\n\t\t\n\t\t10.32614/RJ-2018-017\n\t\n\t\n\t\tThe R Journal\n\t\t\n\t\t\t10\n\t\t\t395\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c653687723bebd86687661"},"refKey":8},
{"_key":"60c653687723bebd86687663","_id":"references/60c653687723bebd86687663","_rev":"_cfFlxHW---","tei":"\n\t\n\t\tbrms: An R Package for Bayesian Multilevel Models Using Stan\n\t\t\n\t\t\tP-CBürkner\n\t\t\n\t\t10.18637/jss.v080.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t80\n\t\t\t1\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c653687723bebd86687661"},"refKey":9},
{"_key":"60c653687723bebd86687664","_id":"references/60c653687723bebd86687664","_rev":"_cfFlxHi---","tei":"\n\t\n\t\tStan: A Probabilistic Programming Language\n\t\t\n\t\t\tBobCarpenter\n\t\t\n\t\t\n\t\t\tAndrewGelman\n\t\t\n\t\t\n\t\t\tMatthewDHoffman\n\t\t\n\t\t\n\t\t\tDanielLee\n\t\t\n\t\t\n\t\t\tBenGoodrich\n\t\t\n\t\t\n\t\t\tMichaelBetancourt\n\t\t\n\t\t\n\t\t\tMarcusBrubaker\n\t\t\n\t\t\n\t\t\tJiqiangGuo\n\t\t\n\t\t\n\t\t\tPeterLi\n\t\t\n\t\t\n\t\t\tAllenRiddell\n\t\t\n\t\t10.18637/jss.v076.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t76\n\t\t\t1\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c653687723bebd86687661"},"refKey":11},
{"_key":"60c653837723bebd86687686","_id":"references/60c653837723bebd86687686","_rev":"_cfFlxHu---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t7984417\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c653837723bebd86687685"},"refKey":72},
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{"_key":"60c6539f7723bebd866876a4","_id":"references/60c6539f7723bebd866876a4","_rev":"_cfFlxIG---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. U. S. A\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6539f7723bebd866876a3"},"refKey":29},
{"_key":"60c6539f7723bebd866876a5","_id":"references/60c6539f7723bebd866876a5","_rev":"_cfFlxIS---","tei":"\n\t\n\t\tPGC-1α-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\n\t\n\t\tNat. Genet\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6539f7723bebd866876a3"},"refKey":30},
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{"_key":"60c653d97723bebd866876d0","_id":"references/60c653d97723bebd866876d0","_rev":"_cfFlxIu---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c653d97723bebd866876ce"},"refKey":43},
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{"_key":"60c654657723bebd8668771d","_id":"references/60c654657723bebd8668771d","_rev":"_cfFlxJS---","tei":"\n\t\n\t\tEvaluation of methods for detecting recombination from DNA sequences: Computer simulations\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\t10.1073/pnas.241370698\n\t\t11717435\n\t\tPMC61114\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\t\n\t\t\tProceedings of the National Academy of Sciences of the United States of America\n\t\t\n\t\n\n","document":{"$oid":"60c654657723bebd8668771b"},"refKey":27},
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{"_key":"60c654a17723bebd86687750","_id":"references/60c654a17723bebd86687750","_rev":"_cfFlxKC---","tei":"\n\t\n\t\tVSEARCH: a versatile open source tool for metagenomics\n\t\t\n\t\t\tTorbjørnRognes\n\t\t\n\t\t\n\t\t\tTomášFlouri\n\t\t\n\t\t\n\t\t\tBenNichols\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tFrédéricMahé\n\t\t\n\t\t10.7717/peerj.2584\n\t\t27781170\n\t\tPMC5075697\n\t\t\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t4\n\t\t\te2584\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c654a17723bebd8668774f"},"refKey":38},
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{"_key":"60c654a17723bebd86687753","_id":"references/60c654a17723bebd86687753","_rev":"_cfFlxK2---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\t10.1093/bioinformatics/btu033\n\t\t24451623\n\t\tPMC3998144\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c654a17723bebd8668774f"},"refKey":39},
{"_key":"60c654fd7723bebd86687777","_id":"references/60c654fd7723bebd86687777","_rev":"_cfFlxLK---","tei":"\n\t\n\t\tMultiple sequence alignment with hierarchical clustering\n\t\t\n\t\t\tFCorpet\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c654fd7723bebd86687776"},"refKey":45},
{"_key":"60c6551b7723bebd86687798","_id":"references/60c6551b7723bebd86687798","_rev":"_cfFlxLa---","tei":"\n\t\n\t\tCompression of DNA sequences\n\t\t\n\t\t\tSGrumbach\n\t\t\n\t\t\n\t\t\tFTahi\n\t\t\n\t\t10.1109/dcc.1993.253115\n\t\n\t\n\t\t[Proceedings] DCC `93: Data Compression Conference\n\t\t\t\t\n\t\t\tIEEE Comput. Soc. Press\n\t\t\t1993\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6551b7723bebd86687797"},"refKey":4},
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{"_key":"60c655ff7723bebd866878a9","_id":"references/60c655ff7723bebd866878a9","_rev":"_cfFlxSm---","tei":"\n\t\n\t\tA simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences\n\t\t\n\t\t\tMKimura\n\t\t\n\t\n\t\n\t\tJ Mol Evol\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c655ff7723bebd866878a8"},"refKey":51},
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{"_key":"60c6561e7723bebd86687966","_id":"references/60c6561e7723bebd86687966","_rev":"_cfFlxTK---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\n\t\n\t\tAm. J. Hum. Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6561e7723bebd86687965"},"refKey":84},
{"_key":"60c6561e7723bebd86687967","_id":"references/60c6561e7723bebd86687967","_rev":"_cfFlxTW---","tei":"\n\t\n\t\tSecond-generation PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tCCChang\n\t\t\n\t\n\t\n\t\tGigascience\n\t\t\n\t\t\t4\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6561e7723bebd86687965"},"refKey":79},
{"_key":"60c6561e7723bebd86687968","_id":"references/60c6561e7723bebd86687968","_rev":"_cfFlxTi---","tei":"\n\t\n\t\tMETAL: fast and efficient meta-analysis of genomewide association scans\n\t\t\n\t\t\tCJWiller\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tGRAbecasis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6561e7723bebd86687965"},"refKey":82},
{"_key":"60c6561e7723bebd86687969","_id":"references/60c6561e7723bebd86687969","_rev":"_cfFlxTu---","tei":"\n\t\n\t\tFlashPCA2: principal component analysis of biobank-scale genotype datasets\n\t\t\n\t\t\tGadAbraham\n\t\t\t0000-0003-4853-0118\n\t\t\n\t\t\n\t\t\tYixuanQiu\n\t\t\n\t\t\n\t\t\tMichaelInouye\n\t\t\t0000-0001-9413-6520\n\t\t\n\t\t10.1101/094714\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6561e7723bebd86687965"},"refKey":80},
{"_key":"60c656227723bebd86687976","_id":"references/60c656227723bebd86687976","_rev":"_cfFlxT6---","tei":"\n\t\n\t\tDesigning B-and T-cell multiepitope-based subunit vaccine using immunoinformatics approach to control Zika virus infection\n\t\t\n\t\t\tRKPandey\n\t\t\n\t\t\n\t\t\tROjha\n\t\t\n\t\t\n\t\t\tAMishra\n\t\t\n\t\t\n\t\t\tVKPrajapati\n\t\t\n\t\n\t\n\t\tJ. Cell. Biochem\n\t\t\n\t\t\t119\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c656227723bebd86687975"},"refKey":31},
{"_key":"60c656227723bebd86687977","_id":"references/60c656227723bebd86687977","_rev":"_cfFlxUC---","tei":"\n\t\n\t\tStrategic development of a next-generation multi-epitope vaccine to prevent Nipah virus zoonotic infection\n\t\t\n\t\t\tRupalOjha\n\t\t\n\t\t\n\t\t\tAditiPareek\n\t\t\n\t\t\n\t\t\tRajanKPandey\n\t\t\n\t\t\n\t\t\tDhaneswarPrusty\n\t\t\n\t\t\n\t\t\tVijayKPrajapati\n\t\t\n\t\n\t\n\t\tACS Omega\n\t\t\n\t\t\t4\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c656227723bebd86687975"},"refKey":32},
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{"_key":"60c656227723bebd8668797c","_id":"references/60c656227723bebd8668797c","_rev":"_cfFlxU6---","tei":"\n\t\n\t\tModeling the MHC class I pathway by combining predictions of proteasomal cleavage,TAP transport and MHC class I binding\n\t\t\n\t\t\tSTenzer\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tSBulik\n\t\t\n\t\t\n\t\t\tOSchoor\n\t\t\n\t\t\n\t\t\tCLemmel\n\t\t\n\t\t\n\t\t\tMMSchatz\n\t\t\n\t\t\n\t\t\tP-MKloetzel\n\t\t\n\t\t\n\t\t\tH-GRammensee\n\t\t\n\t\t\n\t\t\tHSchild\n\t\t\n\t\t\n\t\t\tH-GHolzhütter\n\t\t\n\t\t10.1007/s00018-005-4528-2\n\t\t15868101\n\t\tark:/67375/VQC-G5PDXKZH-X\n\t\t82E3CDD8D35F3E8FCA00C0ECFC0A3DF05C7C7DDC\n\t\n\t\n\t\tCMLS Cellular and Molecular Life Sciences\n\t\tCMLS, Cell. Mol. Life Sci.\n\t\t1420-682X\n\t\t1420-9071\n\t\t\n\t\t\t62\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c656227723bebd86687975"},"refKey":83},
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{"_key":"60c656227723bebd8668797f","_id":"references/60c656227723bebd8668797f","_rev":"_cfFlxVe---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tSMezulis\n\t\t\n\t\t\n\t\t\tCMYates\n\t\t\n\t\t\n\t\t\tMNWass\n\t\t\n\t\t\n\t\t\tMJSternberg\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c656227723bebd86687975"},"refKey":96},
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{"_key":"60c656227723bebd86687981","_id":"references/60c656227723bebd86687981","_rev":"_cfFlxVy---","tei":"\n\t\n\t\tProtein identification and analysis tools on the ExPASy server\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\n\t\n\t\tThe Proteomics Protocols Handbook\n\t\t\t\t\n\t\t\tJohnMWalker\n\t\t\n\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c656227723bebd86687975"},"refKey":93},
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{"_key":"60c6565c7723bebd866879d9","_id":"references/60c6565c7723bebd866879d9","_rev":"_cfFlxWK---","tei":"\n\t\n\t\tAssessment of protein models with threedimensional profiles\n\t\t\n\t\t\tRLüthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t356\n\t\t\t6364\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6565c7723bebd866879d8"},"refKey":15},
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{"_key":"60c656777723bebd866879ef","_id":"references/60c656777723bebd866879ef","_rev":"_cfFlxWi---","tei":"\n\t\n\t\tDeveloping a Test Collection for the Evaluation of Integrated Search\n\t\t\n\t\t\tMarianneLykke\n\t\t\n\t\t\n\t\t\tBirgerLarsen\n\t\t\n\t\t\n\t\t\tHaakonLund\n\t\t\n\t\t\n\t\t\tPeterIngwersen\n\t\t\n\t\t10.1007/978-3-642-12275-0_63\n\t\tark:/67375/HCB-D4H5SKR1-R\n\t\tF8A9B54F76FF28B36158A268F0BF568DB8925658\n\t\t\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tCGurrin\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t5993\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c656777723bebd866879ed"},"refKey":9},
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{"_key":"60c656897723bebd86687a25","_id":"references/60c656897723bebd86687a25","_rev":"_cfFlxXa---","tei":"\n\t\n\t\tKaKs_Calculator 2.0: a toolkit incorporating gamma-series methods and sliding window strategies\n\t\t\n\t\t\tDWang\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tJZhu\n\t\t\n\t\t\n\t\t\tJYu\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c656897723bebd86687a23"},"refKey":50},
{"_key":"60c656897723bebd86687a26","_id":"references/60c656897723bebd86687a26","_rev":"_cfFlxXm---","tei":"\n\t\n\t\tThe Pfam protein families database\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tJTate\n\t\t\n\t\t\n\t\t\tJMistry\n\t\t\n\t\t\n\t\t\tPCCoggill\n\t\t\n\t\t\n\t\t\tSJSammut\n\t\t\n\t\t\n\t\t\tH-RHotz\n\t\t\n\t\t\n\t\t\tGCeric\n\t\t\n\t\t\n\t\t\tKForslund\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tEL LSonnhammer\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t10.1093/nar/gkm960\n\t\t18039703\n\t\tPMC2238907\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tSUPPL. 1\n\n","document":{"$oid":"60c656897723bebd86687a23"},"refKey":44},
{"_key":"60c657157723bebd86687a78","_id":"references/60c657157723bebd86687a78","_rev":"_cfFlxXu---","tei":"\n\t\n\t\tMinimizing Analytical Procedural Mass Spectral Features as False Positive Peaks in Untargeted Liquid Chromatography-High Resolution Mass Spectrometry Data Processing\n\t\t\n\t\t\tPBeikos\n\t\t\n\t\t\n\t\t\tRAalizadeh\n\t\t\n\t\t\n\t\t\tNSThomaidis\n\t\t\n\t\n\t\n\t\tProceedings of the 11th Aegean Analytical Chemistry Days (AACD2018)\n\t\t\t\tthe 11th Aegean Analytical Chemistry Days (AACD2018)Chania, Crete, Greece\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c657157723bebd86687a77"},"refKey":33},
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{"_key":"60c6594e7723bebd86687c60","_id":"references/60c6594e7723bebd86687c60","_rev":"_cfFlxfa---","tei":"\n\t\n\t\tSEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny\n\t\t\n\t\t\tNGaltier\n\t\t\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tCGautier\n\t\t\n\t\t10.1093/bioinformatics/12.6.543\n\t\tark:/67375/HXZ-CWBL5GQ5-J\n\t\tBED95A643F015F6DBF98AB062A83569C336EB7DF\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6594e7723bebd86687c5f"},"refKey":25},
{"_key":"60c659737723bebd86687c77","_id":"references/60c659737723bebd86687c77","_rev":"_cfFlxfi---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c659737723bebd86687c76"},"refKey":36},
{"_key":"60c659747723bebd86687c7c","_id":"references/60c659747723bebd86687c7c","_rev":"_cfFlxfu---","tei":"\n\t\n\t\tAccurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\n\t\n\t\tGenome biology\n\t\t\n\t\t\t3\n\t\t\tH0034\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c659747723bebd86687c7b"},"refKey":23},
{"_key":"60c659747723bebd86687c7d","_id":"references/60c659747723bebd86687c7d","_rev":"_cfFlxf6---","tei":"\n\t\n\t\tDetermination of stable housekeeping genes, differentially regulated target genes and sample integrity: BestKeeper-Excel-based tool using pair-wise correlations\n\t\t\n\t\t\tMWPfaffl\n\t\t\n\t\t\n\t\t\tATichopad\n\t\t\n\t\t\n\t\t\tCPrgomet\n\t\t\n\t\t\n\t\t\tTPNeuvians\n\t\t\n\t\n\t\n\t\tBiotechnology letters\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c659747723bebd86687c7b"},"refKey":52},
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{"_key":"60c659747723bebd86687c80","_id":"references/60c659747723bebd86687c80","_rev":"_cfFlxge---","tei":"\n\t\n\t\tPrimer3Plus, an enhanced web interface to Primer3\n\t\t\n\t\t\tAUntergasser\n\t\t\n\t\t\n\t\t\tHNijveen\n\t\t\n\t\t\n\t\t\tXRao\n\t\t\n\t\t\n\t\t\tTBisseling\n\t\t\n\t\t\n\t\t\tRGeurts\n\t\t\n\t\t\n\t\t\tJA MLeunissen\n\t\t\n\t\t10.1093/nar/gkm306\n\t\t17485472\n\t\tPMC1933133\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c659747723bebd86687c7b"},"refKey":62},
{"_key":"60c659b77723bebd86687ccd","_id":"references/60c659b77723bebd86687ccd","_rev":"_cfFlxgq---","tei":"\n\t\n\t\tInterventional therapeutic procedures in the musculoskeletal system: an Italian Survey by the Italian College of Musculoskeletal Radiology\n\t\t\n\t\t\tEnzoSilvestri\n\t\t\n\t\t\n\t\t\tAntonioBarile\n\t\t\n\t\t\n\t\t\tDomenicoAlbano\n\t\t\n\t\t\n\t\t\tCarmeloMessina\n\t\t\n\t\t\n\t\t\tDavideOrlandi\n\t\t\n\t\t\n\t\t\tAngeloCorazza\n\t\t\n\t\t\n\t\t\tLuigiZugaro\n\t\t\n\t\t\n\t\t\tCarloMasciocchi\n\t\t\n\t\t\n\t\t\tLucaMariaSconfienza\n\t\t\t0000-0003-0759-8431\n\t\t\n\t\t10.1007/s11547-017-0842-7\n\t\t29249079\n\t\n\t\n\t\tLa radiologia medica\n\t\tRadiol med\n\t\t0033-8362\n\t\t1826-6983\n\t\t\n\t\t\t123\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c659b77723bebd86687ccc"},"refKey":11},
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{"_key":"60c659d67723bebd86687cd9","_id":"references/60c659d67723bebd86687cd9","_rev":"_cfFlxhC---","tei":"\n\t\n\t\tDevelopment and validation of a genetic algorithm for flexible docking\n\t\t\n\t\t\tGJones\n\t\t\n\t\t\n\t\t\tPWillett\n\t\t\n\t\t\n\t\t\tRCGlen\n\t\t\n\t\t\n\t\t\tARLeach\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t267\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 9126849\n\n","document":{"$oid":"60c659d67723bebd86687cd8"},"refKey":25},
{"_key":"60c659de7723bebd86687ce4","_id":"references/60c659de7723bebd86687ce4","_rev":"_cfFlxhO---","tei":"\n\t\n\t\tSeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c659de7723bebd86687ce3"},"refKey":22},
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{"_key":"60c65a227723bebd86687d11","_id":"references/60c65a227723bebd86687d11","_rev":"_cfFlxhu---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c65a227723bebd86687d10"},"refKey":118},
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{"_key":"60c65abc7723bebd86687da1","_id":"references/60c65abc7723bebd86687da1","_rev":"_cfFlxiS---","tei":"\n\t\n\t\tVienna RNA secondary structure server\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t10.1093/nar/gkg599\n\t\t12824340\n\t\tPMC169005\n\t\tark:/67375/HXZ-HNC9HZWP-J\n\t\t8DDA80BB66A3C49E8D06B97FD478DF6F1B338419\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c65abc7723bebd86687da0"},"refKey":14},
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{"_key":"60c65abc7723bebd86687da3","_id":"references/60c65abc7723bebd86687da3","_rev":"_cfFlxiq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tKLHowe\n\t\t\n\t\t\n\t\t\tPAchuthan\n\t\t\n\t\t\n\t\t\tAllenJAllen\n\t\t\n\t\t\n\t\t\tJAlvarez-Jarreta\n\t\t\n\t\t\n\t\t\tJAmode\n\t\t\n\t\t\n\t\t\tMR\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t49\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65abc7723bebd86687da0"},"refKey":6},
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{"_key":"60c65c257723bebd86687f5d","_id":"references/60c65c257723bebd86687f5d","_rev":"_cfFlxne---","tei":"\n\t\n\t\tSpatial analysis of malaria in Anhui province, China\n\t\t\n\t\t\tWenyiZhang\n\t\t\n\t\t\n\t\t\tLipingWang\n\t\t\n\t\t\n\t\t\tLiqunFang\n\t\t\n\t\t\n\t\t\tJiaqiMa\n\t\t\n\t\t\n\t\t\tYoufuXu\n\t\t\n\t\t\n\t\t\tJiafuJiang\n\t\t\n\t\t\n\t\t\tFengmingHui\n\t\t\n\t\t\n\t\t\tJianjunWang\n\t\t\n\t\t\n\t\t\tSongLiang\n\t\t\n\t\t\n\t\t\tHongYang\n\t\t\n\t\t\n\t\t\tWuchunCao\n\t\t\n\t\t10.1186/1475-2875-7-206\n\t\t18847489\n\t\tPMC2572066\n\t\t\n\t\n\t\n\t\tMalaria Journal\n\t\tMalar J\n\t\t1475-2875\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t206\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\t206. [CrossRef\n\n","document":{"$oid":"60c65c257723bebd86687f58"},"refKey":29},
{"_key":"60c65c4d7723bebd86687f90","_id":"references/60c65c4d7723bebd86687f90","_rev":"_cfFlxnm---","tei":"\n\t\n\t\tA language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c65c4d7723bebd86687f8f"},"refKey":40},
{"_key":"60c65c527723bebd86687f97","_id":"references/60c65c527723bebd86687f97","_rev":"_cfFlxny---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65c527723bebd86687f96"},"refKey":37},
{"_key":"60c65c527723bebd86687f98","_id":"references/60c65c527723bebd86687f98","_rev":"_cfFlxo----","tei":"\n\t\n\t\tExpanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t\n\t\t\tJSabina\n\t\t\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t\n\t\t\tDHTurner\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t288\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65c527723bebd86687f96"},"refKey":27},
{"_key":"60c65c6b7723bebd86687fad","_id":"references/60c65c6b7723bebd86687fad","_rev":"_cfFlxoK---","tei":"\n\t\n\t\tStructural Basis for Norovirus Inhibition by Human Milk Oligosaccharides\n\t\t\n\t\t\tStefanWeichert\n\t\t\n\t\t\n\t\t\tAnnaKoromyslova\n\t\t\n\t\t\n\t\t\tBishalKSingh\n\t\t\n\t\t\n\t\t\tSatokoHansman\n\t\t\n\t\t\n\t\t\tStefanJennewein\n\t\t\n\t\t\n\t\t\tHorstSchroten\n\t\t\n\t\t\n\t\t\tGrantSHansman\n\t\t\n\t\t10.1128/jvi.03223-15\n\t\t26889023\n\t\tPMC4836343\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJ. Virol.\n\t\t0022-538X\n\t\t1098-5514\n\t\t\n\t\t\t90\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c65c6b7723bebd86687fac"},"refKey":13},
{"_key":"60c65c7f7723bebd86687fce","_id":"references/60c65c7f7723bebd86687fce","_rev":"_cfFlxoW---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with BWA-MEM\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\t\n\t\t\t3\n\t\t\t13033997\n\t\t\n\t\n\n","document":{"$oid":"60c65c7f7723bebd86687fcd"},"refKey":8},
{"_key":"60c65c7f7723bebd86687fcf","_id":"references/60c65c7f7723bebd86687fcf","_rev":"_cfFlxoi---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t1000\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65c7f7723bebd86687fcd"},"refKey":9},
{"_key":"60c65c7f7723bebd86687fd0","_id":"references/60c65c7f7723bebd86687fd0","_rev":"_cfFlxou---","tei":"\n\t\n\t\tKaKs_Calculator 2.0: a toolkit incorporating Gamma-series methods and sliding window strategies\n\t\t\n\t\t\tDWang\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tJZhu\n\t\t\n\t\t\n\t\t\tJYu\n\t\t\n\t\n\t\n\t\tDev. Reprod. Biol\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65c7f7723bebd86687fcd"},"refKey":23},
{"_key":"60c65c7f7723bebd86687fd1","_id":"references/60c65c7f7723bebd86687fd1","_rev":"_cfFlxo6---","tei":"\n\t\n\t\tImproved metagenomic analysis with Kraken 2\n\t\t\n\t\t\tDerrickEWood\n\t\t\t0000-0002-7429-1854\n\t\t\n\t\t\n\t\t\tJenniferLu\n\t\t\t0000-0001-9167-2002\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\t0000-0003-2437-1976\n\t\t\n\t\t10.1101/762302\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t257\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c65c7f7723bebd86687fcd"},"refKey":25},
{"_key":"60c65c867723bebd86687fde","_id":"references/60c65c867723bebd86687fde","_rev":"_cfFlxpG---","tei":"\n\t\n\t\tPulmonary embolism in COVID-19 patients: awareness of an increased prevalence\n\t\t\n\t\t\tJulienPoissy\n\t\t\n\t\t\n\t\t\tJulienGoutay\n\t\t\n\t\t\n\t\t\tMorganCaplan\n\t\t\n\t\t\n\t\t\tErikaParmentier\n\t\t\n\t\t\n\t\t\tThibaultDuburcq\n\t\t\n\t\t\n\t\t\tFannyLassalle\n\t\t\n\t\t10.1161/CIRCULATIONAHA.120.047430\n\t\n\t\n\t\tCirculation\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65c867723bebd86687fdd"},"refKey":7},
{"_key":"60c65ca97723bebd86687ff6","_id":"references/60c65ca97723bebd86687ff6","_rev":"_cfFlxpS---","tei":"\n\t\n\t\tThe R0 package: a toolbox to estimate reproduction numbers for epidemic outbreaks\n\t\t\n\t\t\tTObadia\n\t\t\n\t\t\n\t\t\tRHaneef\n\t\t\n\t\t\n\t\t\tPYBoelle\n\t\t\n\t\n\t\n\t\tBMC Med. Inform. Decis. Mak\n\t\t\n\t\t\t12\n\t\t\t147\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65ca97723bebd86687ff5"},"refKey":26},
{"_key":"60c65cc37723bebd86688000","_id":"references/60c65cc37723bebd86688000","_rev":"_cfFlxpe---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t22388286\n\t\tPMC3322381\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65cc37723bebd86687fff"},"refKey":20},
{"_key":"60c65ce67723bebd86688019","_id":"references/60c65ce67723bebd86688019","_rev":"_cfFlxpm---","tei":"\n\t\n\t\tDetecting overlapping coding sequences in virus genomes\n\t\t\n\t\t\tAEFirth\n\t\t\n\t\t\n\t\t\tCMBrown\n\t\t\n\t\t10.1186/1471-2105-7-75\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t7\n\t\t\t75\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65ce67723bebd86688018"},"refKey":24},
{"_key":"60c65ce67723bebd8668801a","_id":"references/60c65ce67723bebd8668801a","_rev":"_cfFlxpy---","tei":"\n\t\n\t\tPAML 4: Phylogenetic Analysis by Maximum Likelihood\n\t\t\n\t\t\tZYang\n\t\t\n\t\t10.1093/molbev/msm088\n\t\t17483113\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c65ce67723bebd86688018"},"refKey":23},
{"_key":"60c65ce67723bebd8668801b","_id":"references/60c65ce67723bebd8668801b","_rev":"_cfFlxq----","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2009-10-3-r25\n\t\t19261174\n\t\tPMC2690996\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\tR25\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c65ce67723bebd86688018"},"refKey":62},
{"_key":"60c65ce67723bebd8668801c","_id":"references/60c65ce67723bebd8668801c","_rev":"_cfFlxqK---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tAlexanderDobin\n\t\t\n\t\t\n\t\t\tCarrieADavis\n\t\t\n\t\t\n\t\t\tFelixSchlesinger\n\t\t\n\t\t\n\t\t\tJorgDrenkow\n\t\t\n\t\t\n\t\t\tChrisZaleski\n\t\t\n\t\t\n\t\t\tSonaliJha\n\t\t\n\t\t\n\t\t\tPhilippeBatut\n\t\t\n\t\t\n\t\t\tMarkChaisson\n\t\t\n\t\t\n\t\t\tThomasRGingeras\n\t\t\n\t\t10.1093/bioinformatics/bts635\n\t\t23104886\n\t\tPMC3530905\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c65ce67723bebd86688018"},"refKey":63},
{"_key":"60c65ced7723bebd86688044","_id":"references/60c65ced7723bebd86688044","_rev":"_cfFlxqW---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65ced7723bebd86688043"},"refKey":51},
{"_key":"60c65ced7723bebd86688045","_id":"references/60c65ced7723bebd86688045","_rev":"_cfFlxqi---","tei":"\n\t\n\t\tPhylogeny inference based on parsimony and other methods using PAUP\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t\n\t\t\tJackSullivan\n\t\t\n\t\t10.1017/cbo9780511819049.010\n\t\n\t\n\t\tThe Phylogenetic Handbook\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t1998\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65ced7723bebd86688043"},"refKey":52},
{"_key":"60c65ced7723bebd86688046","_id":"references/60c65ced7723bebd86688046","_rev":"_cfFlxqu---","tei":"\n\t\n\t\tMODELTEST: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65ced7723bebd86688043"},"refKey":53},
{"_key":"60c65d007723bebd86688052","_id":"references/60c65d007723bebd86688052","_rev":"_cfFlxq6---","tei":"\n\t\n\t\tThe FoldX web server: an online force field\n\t\t\n\t\t\tJSchymkowitz\n\t\t\n\t\t\n\t\t\tJBorg\n\t\t\n\t\t\n\t\t\tFStricher\n\t\t\n\t\t\n\t\t\tRNys\n\t\t\n\t\t\n\t\t\tFRousseau\n\t\t\n\t\t\n\t\t\tLSerrano\n\t\t\n\t\t10.1093/nar/gki387\n\t\t15980494\n\t\tPMC1160148\n\t\tark:/67375/HXZ-V6X7NMFL-H\n\t\tA51143A3E07B7E7A7C24EC25C3CEF7EAFEF10791\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c65d007723bebd86688051"},"refKey":34},
{"_key":"60c65d007723bebd86688053","_id":"references/60c65d007723bebd86688053","_rev":"_cfFlxrG---","tei":"\n\t\n\t\tAQUA-DUCT 1.0: Structural and functional analysis of macromolecules from an intramolecular voids perspective\n\t\t\n\t\t\tTMagdziarz\n\t\t\n\t\t\n\t\t\tKMitusi Ńska\n\t\t\n\t\t\n\t\t\tMBzówka\n\t\t\n\t\t\n\t\t\tARaczy Ńska\n\t\t\n\t\t\n\t\t\tASta Ńczak\n\t\t\n\t\t\n\t\t\tMBanas\n\t\t\n\t\t\n\t\t\tWBagrowska\n\t\t\n\t\t\n\t\t\tAGóra\n\t\t\n\t\t10.1093/bioinformatics/btz946\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65d007723bebd86688051"},"refKey":29},
{"_key":"60c65d007723bebd86688054","_id":"references/60c65d007723bebd86688054","_rev":"_cfFlxrO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tIYBen-Shalom\n\t\t\n\t\t\n\t\t\tSRBrozell\n\t\t\n\t\t\n\t\t\tDSCerutti\n\t\t\n\t\t\n\t\t\tIiiCheatham\n\t\t\n\t\t\n\t\t\tTECruzeiro\n\t\t\n\t\t\n\t\t\tVW DDarden\n\t\t\n\t\t\n\t\t\tTADuke\n\t\t\n\t\t\n\t\t\tREGhoreishi\n\t\t\n\t\t\n\t\t\tDGilson\n\t\t\n\t\t\n\t\t\tMK\n\t\t\n\t\t\n\t\t\t\n\t\t\tSan Francisco, CA, USA\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\n","document":{"$oid":"60c65d007723bebd86688051"},"refKey":49},
{"_key":"60c65d007723bebd86688055","_id":"references/60c65d007723bebd86688055","_rev":"_cfFlxra---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 2.0 Schrödinger; Schrödinger LLC\n\t\t\n\t\t\tNew York, NY, USA\n\t\t\n\t\n\n","document":{"$oid":"60c65d007723bebd86688051"},"refKey":57},
{"_key":"60c65d007723bebd86688056","_id":"references/60c65d007723bebd86688056","_rev":"_cfFlxrm---","tei":"\n\t\n\t\tNetSurfP‐2.0: Improved prediction of protein structural features by integrated deep learning\n\t\t\n\t\t\tMichaelSchantzKlausen\n\t\t\n\t\t\n\t\t\tMartinClosterJespersen\n\t\t\n\t\t\n\t\t\tHenrikNielsen\n\t\t\n\t\t\n\t\t\tKamillaKjærgaardJensen\n\t\t\n\t\t\n\t\t\tVanessaIsabellJurtz\n\t\t\n\t\t\n\t\t\tCasperKaaeSønderby\n\t\t\n\t\t\n\t\t\tMortenOtto AlexanderSommer\n\t\t\n\t\t\n\t\t\tOleWinther\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tBentPetersen\n\t\t\t0000-0002-2472-8317\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\t0000-0003-2615-5695\n\t\t\n\t\t10.1002/prot.25674\n\t\t30785653\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t87\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c65d007723bebd86688051"},"refKey":35},
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{"_key":"60c65d387723bebd866880ad","_id":"references/60c65d387723bebd866880ad","_rev":"_cfFlxs----","tei":"\n\t\n\t\tConstructing Knowledge Graphs of Depression\n\t\t\n\t\t\tZhishengHuang\n\t\t\n\t\t\n\t\t\tJieYang\n\t\t\n\t\t\n\t\t\tFrankVan Harmelen\n\t\t\n\t\t\n\t\t\tQingHu\n\t\t\n\t\t10.1007/978-3-319-69182-4_16\n\t\n\t\n\t\tHealth Information Science\n\t\t\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65d387723bebd866880ac"},"refKey":9},
{"_key":"60c65d3d7723bebd866880bc","_id":"references/60c65d3d7723bebd866880bc","_rev":"_cfFlxsK---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tRTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t14\n\t\t\t34\n\t\t\n\t\n\tRstudio: integrated development for r. dim (ca533) 1 (1358\n\n","document":{"$oid":"60c65d3d7723bebd866880bb"},"refKey":32},
{"_key":"60c65d3d7723bebd866880bd","_id":"references/60c65d3d7723bebd866880bd","_rev":"_cfFlxsW---","tei":"\n\t\n\t\tProspective time periodic geographical disease surveillance using a scan statistic\n\t\t\n\t\t\tMKulldorff\n\t\t\n\t\n\t\n\t\tJ. R. Stat. Soc.)\n\t\t\n\t\t\t164\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65d3d7723bebd866880bb"},"refKey":19},
{"_key":"60c65d3d7723bebd866880be","_id":"references/60c65d3d7723bebd866880be","_rev":"_cfFlxsm---","tei":"\n\t\n\t\tSatscan TM user guide for version 9\n\t\t\n\t\t\tMKulldorff\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65d3d7723bebd866880bb"},"refKey":20},
{"_key":"60c65d3d7723bebd866880bf","_id":"references/60c65d3d7723bebd866880bf","_rev":"_cfFlxsy---","tei":"\n\t\n\t\tEvaluating cluster alarms: a space-time scan statistic and brain cancer in Los Alamos, New Mexico.\n\t\t\n\t\t\tMKulldorff\n\t\t\n\t\t\n\t\t\tWFAthas\n\t\t\n\t\t\n\t\t\tEJFeurer\n\t\t\n\t\t\n\t\t\tBAMiller\n\t\t\n\t\t\n\t\t\tCRKey\n\t\t\n\t\t10.2105/ajph.88.9.1377\n\t\t9736881\n\t\t\n\t\n\t\n\t\tAmerican Journal of Public Health\n\t\tAm J Public Health\n\t\t0090-0036\n\t\t1541-0048\n\t\t\n\t\t\t88\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Public Health Association\n\t\t\n\t\n\tnew mexico.\n\n","document":{"$oid":"60c65d3d7723bebd866880bb"},"refKey":21},
{"_key":"60c65d497723bebd866880ce","_id":"references/60c65d497723bebd866880ce","_rev":"_cfFlxt----","tei":"\n\t\n\t\tNear-optimal probabilistic RNA-seq quantification\n\t\t\n\t\t\tNicolasLBray\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tPállMelsted\n\t\t\t0000-0002-8418-6724\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nbt.3519\n\t\t27043002\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t34\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c65d497723bebd866880cd"},"refKey":10},
{"_key":"60c65d497723bebd866880cf","_id":"references/60c65d497723bebd866880cf","_rev":"_cfFlxtG---","tei":"\n\t\n\t\tGenome dynamics during experimental evolution\n\t\t\n\t\t\tJeffreyEBarrick\n\t\t\n\t\t\n\t\t\tRichardELenski\n\t\t\n\t\t10.1038/nrg3564\n\t\t24166031\n\t\tPMC4239992\n\t\t\n\t\t\n\t\n\t\n\t\tNature Reviews Genetics\n\t\tNat Rev Genet\n\t\t1471-0056\n\t\t1471-0064\n\t\t\n\t\t\t14\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c65d497723bebd866880cd"},"refKey":2},
{"_key":"60c65d497723bebd866880d0","_id":"references/60c65d497723bebd866880d0","_rev":"_cfFlxtS---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c65d497723bebd866880cd"},"refKey":9},
{"_key":"60c65d967723bebd86688112","_id":"references/60c65d967723bebd86688112","_rev":"_cfFlxti---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65d967723bebd86688111"},"refKey":22},
{"_key":"60c65d967723bebd86688113","_id":"references/60c65d967723bebd86688113","_rev":"_cfFlxtu---","tei":"\n\t\n\t\tA multi-crystal method for extracting obscured crystallographic states from conventionally uninterpretable electron density\n\t\t\n\t\t\tNicholasMPearce\n\t\t\n\t\t\n\t\t\tTobiasKrojer\n\t\t\n\t\t\n\t\t\tAnthonyRBradley\n\t\t\n\t\t\n\t\t\tPatrickCollins\n\t\t\t0000-0002-6265-9922\n\t\t\n\t\t\n\t\t\tRadosławPNowak\n\t\t\n\t\t\n\t\t\tRomainTalon\n\t\t\n\t\t\n\t\t\tBrianDMarsden\n\t\t\n\t\t\n\t\t\tSebastianKelm\n\t\t\n\t\t\n\t\t\tJiyeShi\n\t\t\n\t\t\n\t\t\tCharlotteMDeane\n\t\t\t0000-0003-1388-2252\n\t\t\n\t\t\n\t\t\tFrankVon Delft\n\t\t\t0000-0003-0378-0017\n\t\t\n\t\t10.1038/ncomms15123\n\t\t28436492\n\t\tPMC5413968\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c65d967723bebd86688111"},"refKey":23},
{"_key":"60c65db17723bebd86688124","_id":"references/60c65db17723bebd86688124","_rev":"_cfFlxt6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMKulldorff\n\t\t\n\t\t\n\t\t\tSatscan User Guide\n\t\t\n\t\n\t\n\t\tInformation Management Services Inc\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65db17723bebd86688123"},"refKey":37},
{"_key":"60c65deb7723bebd86688141","_id":"references/60c65deb7723bebd86688141","_rev":"_cfFlxuG---","tei":"\n\t\n\t\tRandom forests\n\t\t\n\t\t\tLBreiman\n\t\t\n\t\t10.1023/A:1010933404324\n\t\t\n\t\n\t\n\t\tMach Learn\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65deb7723bebd86688140"},"refKey":50},
{"_key":"60c65deb7723bebd86688142","_id":"references/60c65deb7723bebd86688142","_rev":"_cfFlxuS---","tei":"\n\t\n\t\tSupport-vector networks\n\t\t\n\t\t\tCCortes\n\t\t\n\t\t\n\t\t\tVVapnik\n\t\t\n\t\t10.1023/A:1022627411411\n\t\t\n\t\n\t\n\t\tMach Learn\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65deb7723bebd86688140"},"refKey":51},
{"_key":"60c65deb7723bebd86688143","_id":"references/60c65deb7723bebd86688143","_rev":"_cfFlxue---","tei":"\n\t\n\t\tGreedy function approximation: a gradient boosting machine\n\t\t\n\t\t\tJHFriedman\n\t\t\n\t\t10.1214/aos/1013203451\n\t\t\n\t\n\t\n\t\tAnn Stat\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65deb7723bebd86688140"},"refKey":52},
{"_key":"60c65deb7723bebd86688144","_id":"references/60c65deb7723bebd86688144","_rev":"_cfFlxuq---","tei":"\n\t\n\t\tScikitlearn: machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tVMichel\n\t\t\n\t\t\n\t\t\tBThirion\n\t\t\n\t\t\n\t\t\tOGrisel\n\t\t\n\t\n\t\n\t\tJ Mach Learn Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65deb7723bebd86688140"},"refKey":53},
{"_key":"60c65deb7723bebd86688145","_id":"references/60c65deb7723bebd86688145","_rev":"_cfFlxu2---","tei":"\n\t\n\t\tXGBoost: a scalable tree boosting system\n\t\t\n\t\t\tTChen\n\t\t\n\t\t\n\t\t\tCGuestrin\n\t\t\n\t\t10.1145/2939672.2939785\n\t\t\n\t\n\t\n\t\tProceedings of the 22Nd ACM SIGKDD international conference on knowledge discovery and data mining\n\t\t\t\tthe 22Nd ACM SIGKDD international conference on knowledge discovery and data miningNew York, NY, USA\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65deb7723bebd86688140"},"refKey":58},
{"_key":"60c65ded7723bebd8668814e","_id":"references/60c65ded7723bebd8668814e","_rev":"_cfFlxvC---","tei":"\n\t\n\t\tScikit-learn: Machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tVMichel\n\t\t\n\t\t\n\t\t\tBThirion\n\t\t\n\t\t\n\t\t\tOGrisel\n\t\t\n\t\t\n\t\t\tVDubourg\n\t\t\n\t\n\t\n\t\tJournal of Machine Learning Research\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65ded7723bebd8668814d"},"refKey":26},
{"_key":"60c65ded7723bebd8668814f","_id":"references/60c65ded7723bebd8668814f","_rev":"_cfFlxvO---","tei":"\n\t\n\t\tUsing random forest to learn imbalanced data\n\t\t\n\t\t\tCChen\n\t\t\n\t\t\n\t\t\tALiaw\n\t\t\n\t\t\n\t\t\tLBreiman\n\t\t\n\t\t\n\t\t\t\n\t\t\t110\n\t\t\t\n\t\t\tBerkeley, CA\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\n","document":{"$oid":"60c65ded7723bebd8668814d"},"refKey":10},
{"_key":"60c65e337723bebd8668819e","_id":"references/60c65e337723bebd8668819e","_rev":"_cfFlxva---","tei":"\n\t\n\t\tMolecular evolutionary genetics analysis across computing platforms\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tCKnyaz\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tXMega\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65e337723bebd8668819d"},"refKey":11},
{"_key":"60c65e4a7723bebd866881af","_id":"references/60c65e4a7723bebd866881af","_rev":"_cfFlxvm---","tei":"\n\t\n\t\tInverse Folding with RNA-As-Graphs Produces a Large Pool of Candidate Sequences with Target Topologies\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tYTao\n\t\t\n\t\t\n\t\t\tTSchlick\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t209\n\t\t\t107438\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65e4a7723bebd866881ae"},"refKey":20},
{"_key":"60c65e4a7723bebd866881b0","_id":"references/60c65e4a7723bebd866881b0","_rev":"_cfFlxvy---","tei":"\n\t\n\t\tGRO-MACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tSoftwareX 1-2:19-25\n\n","document":{"$oid":"60c65e4a7723bebd866881ae"},"refKey":43},
{"_key":"60c65e4a7723bebd866881b1","_id":"references/60c65e4a7723bebd866881b1","_rev":"_cfFlxv6---","tei":"\n\t\n\t\tRNAMotif, an RNA secondary structure definition and search algorithm\n\t\t\n\t\t\tTJMacke\n\t\t\n\t\t\n\t\t\tDJEcker\n\t\t\n\t\t\n\t\t\tRRGutell\n\t\t\n\t\t\n\t\t\tDGautheret\n\t\t\n\t\t10.1093/nar/29.22.4724\n\t\t11713323\n\t\tPMC92549\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c65e4a7723bebd866881ae"},"refKey":27},
{"_key":"60c65e4a7723bebd866881b2","_id":"references/60c65e4a7723bebd866881b2","_rev":"_cfFlxwG---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tLlcSchrödinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVersion 1.8\n\n","document":{"$oid":"60c65e4a7723bebd866881ae"},"refKey":48},
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{"_key":"60c65e4a7723bebd866881b4","_id":"references/60c65e4a7723bebd866881b4","_rev":"_cfFlxwi---","tei":"\n\t\n\t\tHierarchical Assembly of RNA Three-Dimensional Structures Based on Loop Templates\n\t\t\n\t\t\tXXu\n\t\t\n\t\t\n\t\t\tS.-JChen\n\t\t\n\t\n\t\n\t\tJ. Phys. Chem. B\n\t\t\n\t\t\t122\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65e4a7723bebd866881ae"},"refKey":37},
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{"_key":"60c65e4a7723bebd866881b6","_id":"references/60c65e4a7723bebd866881b6","_rev":"_cfFlxw6---","tei":"\n\t\n\t\t3dRNA v2.0: An Updated Web Server for RNA 3D Structure Prediction\n\t\t\n\t\t\tJunWang\n\t\t\t0000-0002-4871-6556\n\t\t\n\t\t\n\t\t\tJianWang\n\t\t\t0000-0001-7768-2802\n\t\t\n\t\t\n\t\t\tYanzhaoHuang\n\t\t\n\t\t\n\t\t\tYiXiao\n\t\t\n\t\t10.3390/ijms20174116\n\t\t\n\t\n\t\n\t\tInternational Journal of Molecular Sciences\n\t\tIJMS\n\t\t1422-0067\n\t\t\n\t\t\t20\n\t\t\t17\n\t\t\t4116\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c65e4a7723bebd866881ae"},"refKey":39},
{"_key":"60c65e4a7723bebd866881b7","_id":"references/60c65e4a7723bebd866881b7","_rev":"_cfFlxxK---","tei":"\n\t\n\t\t3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures\n\t\t\n\t\t\tXiang-JunLu\n\t\t\n\t\t\n\t\t\tWilmaKOlson\n\t\t\n\t\t10.1038/nprot.2008.104\n\t\t18600227\n\t\tPMC3065354\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t3\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c65e4a7723bebd866881ae"},"refKey":40},
{"_key":"60c65e4a7723bebd866881b8","_id":"references/60c65e4a7723bebd866881b8","_rev":"_cfFlxxW---","tei":"\n\t\n\t\tTools for the automatic identification and classification of RNA base pairs\n\t\t\n\t\t\tHYang\n\t\t\n\t\t\n\t\t\tFJossinet\n\t\t\n\t\t\n\t\t\tNLeontis\n\t\t\n\t\t10.1093/nar/gkg529\n\t\t12824344\n\t\tPMC168936\n\t\tark:/67375/HXZ-N2MKL7G6-P\n\t\tDBACB2BE1D3162E3A21DC4607C51554D602C967F\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c65e4a7723bebd866881ae"},"refKey":41},
{"_key":"60c65e4a7723bebd866881b9","_id":"references/60c65e4a7723bebd866881b9","_rev":"_cfFlxxm---","tei":"\n\t\n\t\tProbKnot: Fast prediction of RNA secondary structure including pseudoknots\n\t\t\n\t\t\tSBellaousov\n\t\t\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t10.1261/rna.2125310\n\t\t20699301\n\t\tPMC2941096\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t16\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c65e4a7723bebd866881ae"},"refKey":34},
{"_key":"60c65e4a7723bebd866881ba","_id":"references/60c65e4a7723bebd866881ba","_rev":"_cfFlxxy---","tei":"\n\t\n\t\tPrediction of RNA Pseudoknots Using Heuristic Modeling with Mapping and Sequential Folding\n\t\t\n\t\t\tWayneKDawson\n\t\t\n\t\t\n\t\t\tKazuyaFujiwara\n\t\t\n\t\t\n\t\t\tGotaKawai\n\t\t\n\t\t10.1371/journal.pone.0000905\n\t\t17878940\n\t\tPMC1975678\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t2\n\t\t\t9\n\t\t\te905\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c65e4a7723bebd866881ae"},"refKey":35},
{"_key":"60c65e807723bebd86688212","_id":"references/60c65e807723bebd86688212","_rev":"_cfFlxy----","tei":"\n\t\n\t\tPytorch: An imperative style, high-performance deep learning library\n\t\t\n\t\t\tAPaszke\n\t\t\n\t\n\t\n\t\tProc\n\t\t\t\tnull\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65e807723bebd86688211"},"refKey":54},
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{"_key":"60c65ede7723bebd86688258","_id":"references/60c65ede7723bebd86688258","_rev":"_cfFlxyW---","tei":"\n\t\n\t\tIn silicopKaPrediction and ADME Profiling\n\t\t\n\t\t\tGabrieleCruciani\n\t\t\n\t\t\n\t\t\tFrancescaMilletti\n\t\t\n\t\t\n\t\t\tLorianoStorchi\n\t\t\n\t\t\n\t\t\tGianlucaSforna\n\t\t\n\t\t\n\t\t\tLauraGoracci\n\t\t\n\t\t10.1002/cbdv.200900153\n\t\t19937818\n\t\tark:/67375/WNG-4LR09NZF-T\n\t\t76B47E49861BC7C0E2E27356137EC24B96E66AB7\n\t\t\n\t\n\t\n\t\tChemistry & Biodiversity\n\t\tC&B\n\t\t1612-1872\n\t\t1612-1880\n\t\t\n\t\t\t6\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c65ede7723bebd86688257"},"refKey":69},
{"_key":"60c65ede7723bebd86688259","_id":"references/60c65ede7723bebd86688259","_rev":"_cfFlxyi---","tei":"\n\t\n\t\tMetaSite: Understanding Metabolism in Human Cytochromes from the Perspective of the Chemist\n\t\t\n\t\t\tGabrieleCruciani\n\t\t\n\t\t\n\t\t\tEmanueleCarosati\n\t\t\n\t\t\n\t\t\tBenoitDe Boeck\n\t\t\n\t\t\n\t\t\tKantharajEthirajulu\n\t\t\n\t\t\n\t\t\tClaireMackie\n\t\t\n\t\t\n\t\t\tTrevorHowe\n\t\t\n\t\t\n\t\t\tRiccardoVianello\n\t\t\n\t\t10.1021/jm050529c\n\t\t16250655\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t48\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c65ede7723bebd86688257"},"refKey":66},
{"_key":"60c65efd7723bebd86688275","_id":"references/60c65efd7723bebd86688275","_rev":"_cfFlxyu---","tei":"\n\t\n\t\tRAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\t\n\t\t\tTLudwig\n\t\t\n\t\t\n\t\t\tHMeier\n\t\t\n\t\t10.1093/bioinformatics/bti191\n\t\t15608047\n\t\tark:/67375/HXZ-FQMFQJ86-L\n\t\t2C6F9733ED9DEB5623FEF3238B4E6A721F5744E4\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c65efd7723bebd86688274"},"refKey":56},
{"_key":"60c65efd7723bebd86688276","_id":"references/60c65efd7723bebd86688276","_rev":"_cfFlxy6---","tei":"\n\t\n\t\tAccelerated Profile HMM Searches\n\t\t\n\t\t\tSeanREddy\n\t\t\n\t\t10.1371/journal.pcbi.1002195\n\t\t22039361\n\t\tPMC3197634\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t7\n\t\t\t10\n\t\t\te1002195\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c65efd7723bebd86688274"},"refKey":16},
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{"_key":"60c65f287723bebd866882a5","_id":"references/60c65f287723bebd866882a5","_rev":"_cfFlxze---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap): a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65f287723bebd866882a4"},"refKey":29},
{"_key":"60c65f287723bebd866882a6","_id":"references/60c65f287723bebd866882a6","_rev":"_cfFlxzq---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65f287723bebd866882a4"},"refKey":30},
{"_key":"60c65f4b7723bebd866882b8","_id":"references/60c65f4b7723bebd866882b8","_rev":"_cfFlxz2---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65f4b7723bebd866882b7"},"refKey":37},
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{"_key":"60c65f4b7723bebd866882bb","_id":"references/60c65f4b7723bebd866882bb","_rev":"_cfFlx0W---","tei":"\n\t\n\t\tJalview Version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65f4b7723bebd866882b7"},"refKey":36},
{"_key":"60c65f4c7723bebd866882ca","_id":"references/60c65f4c7723bebd866882ca","_rev":"_cfFlx0i---","tei":"\n\t\n\t\tBreaking the memory wall in MonetDB\n\t\t\n\t\t\tPeterABoncz\n\t\t\n\t\t\n\t\t\tMartinLKersten\n\t\t\n\t\t\n\t\t\tStefanManegold\n\t\t\n\t\t10.1145/1409360.1409380\n\t\t\n\t\n\t\n\t\tCommunications of the ACM\n\t\tCommun. ACM\n\t\t0001-0782\n\t\t\n\t\t\t51\n\t\t\t12\n\t\t\t77\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c65f4c7723bebd866882c9"},"refKey":2},
{"_key":"60c65f4c7723bebd866882cb","_id":"references/60c65f4c7723bebd866882cb","_rev":"_cfFlx0u---","tei":"\n\t\n\t\tPostgreSQL 12 documentation\n\t\t\n\t\t\tSQPostgre\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65f4c7723bebd866882c9"},"refKey":12},
{"_key":"60c65f4c7723bebd866882cc","_id":"references/60c65f4c7723bebd866882cc","_rev":"_cfFlx06---","tei":"\n\t\n\t\tThe Netherlands 10. ICPC (2020) The international collegiate programming contest\n\t\t\n\t\t\tDHirn\n\t\t\n\t\t\n\t\t\tTGrust\n\t\t\n\t\t\n\t\n\t\n\t\tProc. SIGMOD Amsterdam\n\t\t\t\tSIGMOD Amsterdam\n\t\t\n\t\t\t\n\t\t\n\t\n\tPgCuckoo-laying plan eggs into Post-greSQL's nest\n\n","document":{"$oid":"60c65f4c7723bebd866882c9"},"refKey":8},
{"_key":"60c65f797723bebd86688326","_id":"references/60c65f797723bebd86688326","_rev":"_cfFlx1G---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65f797723bebd86688325"},"refKey":0},
{"_key":"60c65f827723bebd86688339","_id":"references/60c65f827723bebd86688339","_rev":"_cfFlx1O---","tei":"\n\t\n\t\tA Resistant Strain: Revealing the Online Grassroots Rise of the Antivaccination Movement\n\t\t\n\t\t\tRojaBandari\n\t\t\n\t\t\n\t\t\tZicongZhou\n\t\t\n\t\t\n\t\t\tHaiQian\n\t\t\n\t\t\n\t\t\tTimothyRTangherlini\n\t\t\n\t\t\n\t\t\tVwaniPRoychowdhury\n\t\t\n\t\t10.1109/mc.2017.4041354\n\t\t\n\t\n\t\n\t\tComputer\n\t\tComputer\n\t\t0018-9162\n\t\t\n\t\t\t50\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c65f827723bebd86688338"},"refKey":3},
{"_key":"60c65f827723bebd8668833a","_id":"references/60c65f827723bebd8668833a","_rev":"_cfFlx1a---","tei":"\n\t\n\t\thdbscan: Hierarchical density based clustering\n\t\t\n\t\t\tLMcinnes\n\t\t\n\t\t\n\t\t\tJHealy\n\t\t\n\t\t\n\t\t\tSteveAstels\n\t\t\n\t\n\t\n\t\tJournal of Open Source Software\n\t\t\n\t\t\t2\n\t\t\t11\n\t\t\t205\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65f827723bebd86688338"},"refKey":44},
{"_key":"60c65f897723bebd86688343","_id":"references/60c65f897723bebd86688343","_rev":"_cfFlx1m---","tei":"\n\t\n\t\tBayesian Phylogeography Finds Its Roots\n\t\t\n\t\t\tPhilippeLemey\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1371/journal.pcbi.1000520\n\t\t19779555\n\t\tPMC2740835\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\tFraser C\n\t\t1553-7358\n\t\t\n\t\t\t5\n\t\t\t9\n\t\t\te1000520\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c65f897723bebd86688342"},"refKey":34},
{"_key":"60c65f967723bebd86688359","_id":"references/60c65f967723bebd86688359","_rev":"_cfFlx1y---","tei":"\n\t\n\t\tProlific.ac-A subject pool for online experiments\n\t\t\n\t\t\tSPalan\n\t\t\n\t\t\n\t\t\tCSchitter\n\t\t\n\t\n\t\n\t\tJ. Behav. Exp. Finance\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65f967723bebd86688358"},"refKey":9},
{"_key":"60c65f9c7723bebd86688362","_id":"references/60c65f9c7723bebd86688362","_rev":"_cfFlx2----","tei":"\n\t\n\t\tSolving Differential Equations in R\n\t\t\n\t\t\tKarlineSoetaert\n\t\t\n\t\t\n\t\t\tThomasPetzoldt\n\t\t\n\t\t\n\t\t\tR,WoodrowSetzer\n\t\t\n\t\t10.32614/rj-2010-013\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\tThe R Journal\n\t\t2073-4859\n\t\t\n\t\t\t2\n\t\t\t2\n\t\t\t5\n\t\t\t\n\t\t\tThe R Foundation\n\t\t\n\t\n\n","document":{"$oid":"60c65f9c7723bebd86688361"},"refKey":9},
{"_key":"60c65fbc7723bebd86688375","_id":"references/60c65fbc7723bebd86688375","_rev":"_cfFlx2K---","tei":"\n\t\n\t\tggplot2: elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c65fbc7723bebd86688374"},"refKey":24},
{"_key":"60c65fbc7723bebd86688376","_id":"references/60c65fbc7723bebd86688376","_rev":"_cfFlx2S---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing. Available at\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65fbc7723bebd86688374"},"refKey":25},
{"_key":"60c65fc57723bebd8668837a","_id":"references/60c65fc57723bebd8668837a","_rev":"_cfFlx2e---","tei":"\n\t\n\t\tIgBLAST: an immunoglobulin variable domain sequence analysis tool\n\t\t\n\t\t\tJYe\n\t\t\n\t\t\n\t\t\tNMa\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tJMOstell\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65fc57723bebd86688379"},"refKey":42},
{"_key":"60c65fc57723bebd8668837b","_id":"references/60c65fc57723bebd8668837b","_rev":"_cfFlx2q---","tei":"\n\t\n\t\tDictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features\n\t\t\n\t\t\tWKabsch\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\n\t\n\t\tBiopolymers\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65fc57723bebd86688379"},"refKey":10},
{"_key":"60c65fc57723bebd8668837c","_id":"references/60c65fc57723bebd8668837c","_rev":"_cfFlx22---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65fc57723bebd86688379"},"refKey":6},
{"_key":"60c65fc57723bebd8668837d","_id":"references/60c65fc57723bebd8668837d","_rev":"_cfFlx3C---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65fc57723bebd86688379"},"refKey":13},
{"_key":"60c65fc57723bebd8668837e","_id":"references/60c65fc57723bebd8668837e","_rev":"_cfFlx3O---","tei":"\n\t\n\t\tPIGSPro: prediction of immunoGlobulin structures v2\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tPierPOlimpieri\n\t\t\n\t\t\n\t\t\tMarioAMessih\n\t\t\n\t\t\n\t\t\tAnnaTramontano\n\t\t\n\t\t10.1093/nar/gkx334\n\t\t28472367\n\t\tPMC5570210\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c65fc57723bebd86688379"},"refKey":17},
{"_key":"60c65fc57723bebd8668837f","_id":"references/60c65fc57723bebd8668837f","_rev":"_cfFlx3a---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tPSkuba ´k\n\t\t\n\t\t\n\t\t\tAALebedev\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tRASteiner\n\t\t\n\t\t\n\t\t\tRANicholls\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tFLong\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c65fc57723bebd86688379"},"refKey":24},
{"_key":"60c65fdf7723bebd86688396","_id":"references/60c65fdf7723bebd86688396","_rev":"_cfFlx3i---","tei":"\n\t\n\t\tYouTube as a source of information on rhinosinusitis: the good, the bad and the ugly\n\t\t\n\t\t\tTCBiggs\n\t\t\n\t\t\n\t\t\tJHBird\n\t\t\n\t\t\n\t\t\tPGHarries\n\t\t\n\t\t\n\t\t\tRJSalib\n\t\t\n\t\t10.1017/s0022215113001473\n\t\t23866821\n\t\n\t\n\t\tThe Journal of Laryngology & Otology\n\t\tJ. Laryngol. Otol.\n\t\t0022-2151\n\t\t1748-5460\n\t\t\n\t\t\t127\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tCambridge University Press (CUP)\n\t\t\n\t\n\tMedline: 23866821\n\n","document":{"$oid":"60c65fdf7723bebd86688395"},"refKey":38},
{"_key":"60c65fdf7723bebd86688397","_id":"references/60c65fdf7723bebd86688397","_rev":"_cfFlx3u---","tei":"\n\t\n\t\tAre YouTube videos useful for patient self-education in type 2 diabetes?\n\t\t\n\t\t\tGabrielGimenez-Perez\n\t\t\t0000-0002-8541-766X\n\t\t\n\t\t\n\t\t\tNeusRobert-Vila\n\t\t\n\t\t\n\t\t\tMartaTomé-Guerreiro\n\t\t\n\t\t\n\t\t\tIgnasiCastells\n\t\t\n\t\t\n\t\t\tDidacMauricio\n\t\t\n\t\t10.1177/1460458218813632\n\t\t30488752\n\t\t\n\t\n\t\n\t\tHealth Informatics Journal\n\t\tHealth Informatics J\n\t\t1460-4582\n\t\t1741-2811\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t146045821881363\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\tFREE Full text. Medline: 30488752\n\n","document":{"$oid":"60c65fdf7723bebd86688395"},"refKey":56},
{"_key":"60c65fdf7723bebd86688398","_id":"references/60c65fdf7723bebd86688398","_rev":"_cfFlx36---","tei":"\n\t\n\t\tYouTube Videos as a Source of Misinformation on Idiopathic Pulmonary Fibrosis\n\t\t\n\t\t\tGillianCGoobie\n\t\t\t0000-0001-7982-5635\n\t\t\n\t\t\n\t\t\tSabinaAGuler\n\t\t\n\t\t\n\t\t\tKerriAJohannson\n\t\t\n\t\t\n\t\t\tJoleneHFisher\n\t\t\n\t\t\n\t\t\tChristopherJRyerson\n\t\t\n\t\t10.1513/annalsats.201809-644oc\n\t\t30608877\n\t\n\t\n\t\tAnnals of the American Thoracic Society\n\t\tAnnals ATS\n\t\t2329-6933\n\t\t2325-6621\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Thoracic Society\n\t\t\n\t\n\n","document":{"$oid":"60c65fdf7723bebd86688395"},"refKey":57},
{"_key":"60c65fdf7723bebd86688399","_id":"references/60c65fdf7723bebd86688399","_rev":"_cfFlx4G---","tei":"\n\t\n\t\tDry facts are not always inviting: a content analysis of Korean videos regarding Parkinson’s disease on YouTube\n\t\t\n\t\t\tRyulKim\n\t\t\n\t\t\n\t\t\tHye-YoungPark\n\t\t\n\t\t\n\t\t\tHan-JoonKim\n\t\t\n\t\t\n\t\t\tAryunKim\n\t\t\n\t\t\n\t\t\tMi-HeeJang\n\t\t\n\t\t\n\t\t\tBeomseokJeon\n\t\t\n\t\t10.1016/j.jocn.2017.09.001\n\t\t28988649\n\t\n\t\n\t\tJournal of Clinical Neuroscience\n\t\tJournal of Clinical Neuroscience\n\t\t0967-5868\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tMedline: 28988649\n\n","document":{"$oid":"60c65fdf7723bebd86688395"},"refKey":69},
{"_key":"60c65fdf7723bebd8668839a","_id":"references/60c65fdf7723bebd8668839a","_rev":"_cfFlx4S---","tei":"\n\t\n\t\tAre video sharing Web sites a useful source of information on hypertension?\n\t\t\n\t\t\tNilayKumar\n\t\t\t0000-0001-8216-9026\n\t\t\n\t\t\n\t\t\tAmbarishPandey\n\t\t\t0000-0001-9651-3836\n\t\t\n\t\t\n\t\t\tAnandVenkatraman\n\t\t\n\t\t\n\t\t\tNeetikaGarg\n\t\t\t0000-0002-7001-2168\n\t\t\n\t\t10.1016/j.jash.2014.05.001\n\t\t25064770\n\t\n\t\n\t\tJournal of the American Society of Hypertension\n\t\tJournal of the American Society of Hypertension\n\t\t1933-1711\n\t\t\n\t\t\t8\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tMedline: 25064770\n\n","document":{"$oid":"60c65fdf7723bebd86688395"},"refKey":72},
{"_key":"60c65fdf7723bebd8668839b","_id":"references/60c65fdf7723bebd8668839b","_rev":"_cfFlx4e---","tei":"\n\t\n\t\tIs YouTube Useful as a Source of Health Information for Adults With Type 2 Diabetes? A South Asian Perspective\n\t\t\n\t\t\tAmandaYLeong\n\t\t\n\t\t\n\t\t\tRavinaSanghera\n\t\t\n\t\t\n\t\t\tJaspreetJhajj\n\t\t\n\t\t\n\t\t\tNandiniDesai\n\t\t\n\t\t\n\t\t\tBikramjitSinghJammu\n\t\t\n\t\t\n\t\t\tMarkJMakowsky\n\t\t\n\t\t10.1016/j.jcjd.2017.10.056\n\t\t29282200\n\t\n\t\n\t\tCanadian Journal of Diabetes\n\t\tCanadian Journal of Diabetes\n\t\t1499-2671\n\t\t\n\t\t\t42\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tMedline: 29282200\n\n","document":{"$oid":"60c65fdf7723bebd86688395"},"refKey":74},
{"_key":"60c65fdf7723bebd8668839c","_id":"references/60c65fdf7723bebd8668839c","_rev":"_cfFlx4q---","tei":"\n\t\n\t\tDissemination of Misinformative and Biased Information about Prostate Cancer on YouTube\n\t\t\n\t\t\tSLoeb\n\t\t\n\t\t\n\t\t\tSSengupta\n\t\t\n\t\t\n\t\t\tMButaney\n\t\t\n\t\t\n\t\t\tJNMacaluso\n\t\t\n\t\t\n\t\t\tSWCzarniecki\n\t\t\n\t\t\n\t\t\tRRobbins\n\t\t\n\t\t10.1016/j.eururo.2018.10.056\n\t\n\t\n\t\tEur Urol\n\t\t\n\t\t\t75\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tMedline: 30502104\n\n","document":{"$oid":"60c65fdf7723bebd86688395"},"refKey":76},
{"_key":"60c65fe07723bebd8668839d","_id":"references/60c65fe07723bebd8668839d","_rev":"_cfFlx4y---","tei":"\n\t\n\t\tEpilepsy in the Twitter era: A need to re-tweet the way we think about seizures\n\t\t\n\t\t\tKMcneil\n\t\t\n\t\t\n\t\t\tPMBrna\n\t\t\n\t\t\n\t\t\tKEGordon\n\t\t\n\t\t10.1016/j.yebeh.2011.10.020\n\t\t22134096\n\t\n\t\n\t\tEpilepsy & Behavior\n\t\tEpilepsy & Behavior\n\t\t1525-5050\n\t\t\n\t\t\t23\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tMedline: 22134096\n\n","document":{"$oid":"60c65fdf7723bebd86688395"},"refKey":80},
{"_key":"60c65fe07723bebd8668839e","_id":"references/60c65fe07723bebd8668839e","_rev":"_cfFlx5----","tei":"\n\t\n\t\tThe Absence of Evidence is Evidence of Non-Sense: Cross-Sectional Study on the Quality of Psoriasis-Related Videos on YouTube and Their Reception by Health Seekers\n\t\t\n\t\t\tSimonMMueller\n\t\t\t0000-0002-0200-4254\n\t\t\n\t\t\n\t\t\tPierreJungo\n\t\t\t0000-0003-3305-7954\n\t\t\n\t\t\n\t\t\tLucianCajacob\n\t\t\t0000-0002-1091-7440\n\t\t\n\t\t\n\t\t\tSimonSchwegler\n\t\t\t0000-0003-1818-5333\n\t\t\n\t\t\n\t\t\tPeterItin\n\t\t\t0000-0002-7522-002X\n\t\t\n\t\t\n\t\t\tOliverBrandt\n\t\t\t0000-0003-2461-4843\n\t\t\n\t\t10.2196/11935\n\t\t30664460\n\t\n\t\n\t\tJournal of Medical Internet Research\n\t\tJ Med Internet Res\n\t\t1438-8871\n\t\t\n\t\t\t21\n\t\t\t1\n\t\t\te11935\n\t\t\t\n\t\t\tJMIR Publications Inc.\n\t\t\n\t\n\tFREE Full text. Medline: 30664460\n\n","document":{"$oid":"60c65fdf7723bebd86688395"},"refKey":85},
{"_key":"60c65fe07723bebd8668839f","_id":"references/60c65fe07723bebd8668839f","_rev":"_cfFlx5K---","tei":"\n\t\n\t\tThe Reliability of Bariatric Surgery Videos in YouTube Platform\n\t\t\n\t\t\tHasanErdem\n\t\t\n\t\t\n\t\t\tAbdullahSisik\n\t\t\t0000-0002-7500-8651\n\t\t\n\t\t10.1007/s11695-017-2911-3\n\t\t28875396\n\t\n\t\n\t\tObesity Surgery\n\t\tOBES SURG\n\t\t0960-8923\n\t\t1708-0428\n\t\t\n\t\t\t28\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tMedline: 28875396\n\n","document":{"$oid":"60c65fdf7723bebd86688395"},"refKey":52},
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{"_key":"60c6624e7723bebd8668854c","_id":"references/60c6624e7723bebd8668854c","_rev":"_cfFly-K---","tei":"\n\t\n\t\tComparative Protein Structure Modeling: Introduction and Practical Examples with Modeller\n\t\t\n\t\t\tRobertoSánchez\n\t\t\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t10.1385/1-59259-368-2:97\n\t\t11084904\n\t\n\t\n\t\tProtein Structure Prediction\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t2000\n\t\t\t143\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6624e7723bebd86688546"},"refKey":46},
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{"_key":"60c662f07723bebd86688620","_id":"references/60c662f07723bebd86688620","_rev":"_cfFlyCu---","tei":"\n\t\n\t\tThe ClusPro web server for protein–protein docking\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tKathrynAPorter\n\t\t\n\t\t\n\t\t\tDzmitryPadhorny\n\t\t\n\t\t\n\t\t\tChristineYueh\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t10.1038/nprot.2016.169\n\t\t28079879\n\t\tPMC5540229\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c662f07723bebd8668861a"},"refKey":21},
{"_key":"60c662f07723bebd86688621","_id":"references/60c662f07723bebd86688621","_rev":"_cfFlyC6---","tei":"\n\t\n\t\tPIPER: An FFT-based protein docking program with pairwise potentials\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t\n\t\t\tRyanBrenke\n\t\t\n\t\t\n\t\t\tStephenRComeau\n\t\t\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t10.1002/prot.21117\n\t\t16933295\n\t\tark:/67375/WNG-8MGJ5SPP-V\n\t\t899B9DA92441B10D07CFBBD835D264F5315D51F4\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t65\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c662f07723bebd8668861a"},"refKey":24},
{"_key":"60c662f07723bebd86688622","_id":"references/60c662f07723bebd86688622","_rev":"_cfFlyDG---","tei":"\n\t\n\t\tHexServer: an FFT-based protein docking server powered by graphics processors\n\t\t\n\t\t\tGMacindoe\n\t\t\n\t\t\n\t\t\tLMavridis\n\t\t\n\t\t\n\t\t\tVVenkatraman\n\t\t\n\t\t\n\t\t\tM-DDevignes\n\t\t\n\t\t\n\t\t\tDWRitchie\n\t\t\n\t\t10.1093/nar/gkq311\n\t\t20444869\n\t\tPMC2896144\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c662f07723bebd8668861a"},"refKey":25},
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{"_key":"60c663787723bebd86688696","_id":"references/60c663787723bebd86688696","_rev":"_cfFlyFO---","tei":"\n\t\n\t\tBmlm: Bayesian multilevel mediation\n\t\t\n\t\t\tMVuorre\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c663787723bebd86688695"},"refKey":42},
{"_key":"60c6637d7723bebd866886a7","_id":"references/60c6637d7723bebd866886a7","_rev":"_cfFlyFa---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6637d7723bebd866886a6"},"refKey":15},
{"_key":"60c6637d7723bebd866886a8","_id":"references/60c6637d7723bebd866886a8","_rev":"_cfFlyFm---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\n\t\t\n\t\t\tDaronMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6637d7723bebd866886a6"},"refKey":11},
{"_key":"60c6639c7723bebd866886ba","_id":"references/60c6639c7723bebd866886ba","_rev":"_cfFlyFy---","tei":"\n\t\n\t\tDeep-learning contact-map guided protein structure prediction in CASP13\n\t\t\n\t\t\tWZheng\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tCXZhang\n\t\t\n\t\t\n\t\t\tRPearce\n\t\t\n\t\t\n\t\t\tSMMortuza\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6639c7723bebd866886b9"},"refKey":4},
{"_key":"60c6639c7723bebd866886bb","_id":"references/60c6639c7723bebd866886bb","_rev":"_cfFlyG----","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c6639c7723bebd866886b9"},"refKey":18},
{"_key":"60c6639c7723bebd866886bc","_id":"references/60c6639c7723bebd866886bc","_rev":"_cfFlyGK---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6639c7723bebd866886b9"},"refKey":16},
{"_key":"60c6639c7723bebd866886bd","_id":"references/60c6639c7723bebd866886bd","_rev":"_cfFlyGS---","tei":"\n\t\n\t\tSeaView Version 4: A Multiplatform Graphical User Interface for Sequence Alignment and Phylogenetic Tree Building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6639c7723bebd866886b9"},"refKey":17},
{"_key":"60c663a37723bebd866886ca","_id":"references/60c663a37723bebd866886ca","_rev":"_cfFlyGi---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c663a37723bebd866886c9"},"refKey":36},
{"_key":"60c663a37723bebd866886cb","_id":"references/60c663a37723bebd866886cb","_rev":"_cfFlyGu---","tei":"\n\t\n\t\ttrimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses\n\t\t\n\t\t\tSCapella-Gutierrez\n\t\t\n\t\t\n\t\t\tJMSilla-Martinez\n\t\t\n\t\t\n\t\t\tTGabaldon\n\t\t\n\t\t10.1093/bioinformatics/btp348\n\t\t19505945\n\t\tPMC2712344\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c663a37723bebd866886c9"},"refKey":15},
{"_key":"60c663a37723bebd866886cc","_id":"references/60c663a37723bebd866886cc","_rev":"_cfFlyG6---","tei":"\n\t\n\t\tModelFinder: fast model selection for accurate phylogenetic estimates\n\t\t\n\t\t\tSubhaKalyaanamoorthy\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t\n\t\t\tThomasK FWong\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tLarsSJermiin\n\t\t\n\t\t10.1038/nmeth.4285\n\t\t28481363\n\t\tPMC5453245\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Meth\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c663a37723bebd866886c9"},"refKey":63},
{"_key":"60c663a37723bebd866886cd","_id":"references/60c663a37723bebd866886cd","_rev":"_cfFlyHG---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDiegoDarriba\n\t\t\n\t\t\n\t\t\tGuillermoLTaboada\n\t\t\n\t\t\n\t\t\tRamónDoallo\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t10.1038/nmeth.2109\n\t\t22847109\n\t\tPMC4594756\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c663a37723bebd866886c9"},"refKey":21},
{"_key":"60c663a37723bebd866886da","_id":"references/60c663a37723bebd866886da","_rev":"_cfFlyHS---","tei":"\n\t\n\t\tPrincipal components analysis corrects for stratification in genome-wide association studies\n\t\t\n\t\t\tALPrice\n\t\t\n\t\t\n\t\t\tNJPatterson\n\t\t\n\t\t\n\t\t\tRMPlenge\n\t\t\n\t\t\n\t\t\tMEWeinblatt\n\t\t\n\t\t\n\t\t\tNAShadick\n\t\t\n\t\t\n\t\t\tDReich\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c663a37723bebd866886d9"},"refKey":41},
{"_key":"60c663c97723bebd86688705","_id":"references/60c663c97723bebd86688705","_rev":"_cfFlyHe---","tei":"\n\t\n\t\tHigh-definition likelihood inference of genetic correlations across human complex traits\n\t\t\n\t\t\tZNing\n\t\t\n\t\t\n\t\t\tYPawitan\n\t\t\n\t\t\n\t\t\tXShen\n\t\t\n\t\t10.1038/s41588-020-0653-y\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t1\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c663c97723bebd86688704"},"refKey":32},
{"_key":"60c663d47723bebd86688717","_id":"references/60c663d47723bebd86688717","_rev":"_cfFlyHq---","tei":"\n\t\n\t\tPDB file parser and structure class implemented in Python\n\t\t\n\t\t\tTHamelryck\n\t\t\n\t\t\n\t\t\tBManderick\n\t\t\n\t\t10.1093/bioinformatics/btg299\n\t\t14630660\n\t\tark:/67375/HXZ-03VQC1L4-P\n\t\t571EECE8FEC4535752CCC085B8E2D14CBE0FDB08\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c663d47723bebd86688716"},"refKey":23},
{"_key":"60c663d47723bebd86688718","_id":"references/60c663d47723bebd86688718","_rev":"_cfFlyH2---","tei":"\n\t\n\t\tBiopython: freely available Python tools for computational molecular biology and bioinformatics\n\t\t\n\t\t\tPJ ACock\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c663d47723bebd86688716"},"refKey":24},
{"_key":"60c663e17723bebd86688729","_id":"references/60c663e17723bebd86688729","_rev":"_cfFlyIC---","tei":"\n\t\n\t\tAnalysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) method\n\t\t\n\t\t\tKJLivak\n\t\t\n\t\t\n\t\t\tTDSchmittgen\n\t\t\n\t\n\t\n\t\tMethods\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c663e17723bebd86688728"},"refKey":34},
{"_key":"60c663e97723bebd8668872d","_id":"references/60c663e97723bebd8668872d","_rev":"_cfFlyIO---","tei":"\n\t\n\t\tThe ClusPro web server for protein–protein docking\n\t\t\n\t\t\tDimaKozakov\n\t\t\n\t\t\n\t\t\tDavidRHall\n\t\t\n\t\t\n\t\t\tBingXia\n\t\t\n\t\t\n\t\t\tKathrynAPorter\n\t\t\n\t\t\n\t\t\tDzmitryPadhorny\n\t\t\n\t\t\n\t\t\tChristineYueh\n\t\t\n\t\t\n\t\t\tDmitriBeglov\n\t\t\n\t\t\n\t\t\tSandorVajda\n\t\t\n\t\t10.1038/nprot.2016.169\n\t\t28079879\n\t\tPMC5540229\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c663e97723bebd8668872c"},"refKey":48},
{"_key":"60c663e97723bebd8668872e","_id":"references/60c663e97723bebd8668872e","_rev":"_cfFlyIa---","tei":"\n\t\n\t\tClusPro: an automated docking and discrimination method for the prediction of protein complexes\n\t\t\n\t\t\tSRComeau\n\t\t\n\t\t\n\t\t\tDWGatchell\n\t\t\n\t\t\n\t\t\tSVajda\n\t\t\n\t\t\n\t\t\tCJCamacho\n\t\t\n\t\t10.1093/bioinformatics/btg371\n\t\t14693807\n\t\tark:/67375/HXZ-8GRL6M9C-J\n\t\tC407CADC5844B40CAE0A254466E3A7D8976FDD21\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c663e97723bebd8668872c"},"refKey":49},
{"_key":"60c663e97723bebd8668872f","_id":"references/60c663e97723bebd8668872f","_rev":"_cfFlyIm---","tei":"\n\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tTADarden\n\t\t\n\t\t\n\t\t\tCLSimmerling\n\t\t\n\t\t\n\t\t\tTECheatham 3rd\n\t\t\n\t\t\n\t\t\tKMMerz\n\t\t\n\t\tAmber11 user's manual\n\t\t\t\tAMBER\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c663e97723bebd8668872c"},"refKey":37},
{"_key":"60c663e97723bebd86688730","_id":"references/60c663e97723bebd86688730","_rev":"_cfFlyIy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tJTBerryman\n\t\t\n\t\t\n\t\t\tRMBetz\n\t\t\n\t\t\n\t\t\tDSCerutti\n\t\t\n\t\t\n\t\t\tTECheatham 3rd\n\t\t\n\t\t\n\t\t\tTADarden\n\t\t\n\t\t\n\t\t\tREDuke\n\t\t\n\t\t\n\t\t\tTJGiese\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tAWGoetz\n\t\t\n\t\t\n\t\t\tNHomeyer\n\t\t\n\t\t\n\t\t\tSIzadi\n\t\t\n\t\t\n\t\t\tPJanowski\n\t\t\n\t\t\n\t\t\tJKaus\n\t\t\n\t\t\n\t\t\tAKovalenko\n\t\t\n\t\t\n\t\t\tTSLee\n\t\t\n\t\t\n\t\t\tSLegrand\n\t\t\n\t\t\n\t\t\tPLi\n\t\t\n\t\t\n\t\t\tTLuchko\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tBMadej\n\t\t\n\t\t\n\t\t\t\n\t\t\tAMBER\n\t\t\n\t\n\n","document":{"$oid":"60c663e97723bebd8668872c"},"refKey":38},
{"_key":"60c663e97723bebd86688731","_id":"references/60c663e97723bebd86688731","_rev":"_cfFlyJ----","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVersion 1.5.0.4, Schrödinger, LLC\n\n","document":{"$oid":"60c663e97723bebd8668872c"},"refKey":40},
{"_key":"60c663e97723bebd86688732","_id":"references/60c663e97723bebd86688732","_rev":"_cfFlyJK---","tei":"\n\t\n\t\tMOLMOL: a program for display and analysis of macromolecular structures\n\t\t\n\t\t\tWKKoradi\n\t\t\n\t\t\n\t\t\tMBilleter\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c663e97723bebd8668872c"},"refKey":39},
{"_key":"60c663e97723bebd86688733","_id":"references/60c663e97723bebd86688733","_rev":"_cfFlyJW---","tei":"\n\t\n\t\tMolProbity: all-atom contacts and structure validation for proteins and nucleic acids\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tALeaver-Fay\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tJNBlock\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJSnoeyink\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1093/nar/gkm216\n\t\t17452350\n\t\tPMC1933162\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c663e97723bebd8668872c"},"refKey":43},
{"_key":"60c664017723bebd8668874e","_id":"references/60c664017723bebd8668874e","_rev":"_cfFlyJi---","tei":"\n\t\n\t\tComprehensive integration of single cell data\n\t\t\n\t\t\tTimStuart\n\t\t\t0000-0002-3044-0897\n\t\t\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tPaulHoffman\n\t\t\t0000-0002-7693-8957\n\t\t\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tEfthymiaPapalexi\n\t\t\t0000-0001-5898-694X\n\t\t\n\t\t\n\t\t\tWilliamMMauck\n\t\t\n\t\t\n\t\t\tMarlonStoeckius\n\t\t\t0000-0002-5658-029X\n\t\t\n\t\t\n\t\t\tPeterSmibert\n\t\t\t0000-0003-0772-1647\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/460147\n\t\t\n\t\n\t\n\t\tComprehensive Integration of Single-Cell Data. Cell\n\t\t\n\t\t\t177\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\te21\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":72},
{"_key":"60c664017723bebd8668874f","_id":"references/60c664017723bebd8668874f","_rev":"_cfFlyKS---","tei":"\n\t\n\t\tFlexible statistical methods for estimating and testing effects in genomic studies with multiple conditions\n\t\t\n\t\t\tSarahMUrbut\n\t\t\n\t\t\n\t\t\tGaoWang\n\t\t\n\t\t\n\t\t\tPeterCarbonetto\n\t\t\n\t\t\n\t\t\tMatthewStephens\n\t\t\n\t\t10.1101/096552\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t51\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":74},
{"_key":"60c664017723bebd86688750","_id":"references/60c664017723bebd86688750","_rev":"_cfFlyKe---","tei":"\n\t\n\t\thapbin: An Efficient Program for Performing Haplotype-Based Scans for Positive Selection in Large Genomic Datasets: Fig. 1.\n\t\t\n\t\t\tColinAMaclean\n\t\t\n\t\t\n\t\t\tNeilPChue Hong\n\t\t\n\t\t\n\t\t\tJamesG DPrendergast\n\t\t\n\t\t10.1093/molbev/msv172\n\t\t26248562\n\t\tPMC4651233\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":51},
{"_key":"60c664017723bebd86688751","_id":"references/60c664017723bebd86688751","_rev":"_cfFlyKq---","tei":"\n\t\n\t\tFast gene set enrichment analysis\n\t\t\n\t\t\tGKorotkevich\n\t\t\n\t\t\n\t\t\tVSukhov\n\t\t\n\t\t\n\t\t\tASergushichev\n\t\t\n\t\n\t\n\t\tBioRxiv\n\t\t\n\t\t\t060012\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":43},
{"_key":"60c664017723bebd86688752","_id":"references/60c664017723bebd86688752","_rev":"_cfFlyK2---","tei":"\n\t\n\t\tMatrix eQTL: ultra fast eQTL analysis via large matrix operations\n\t\t\n\t\t\tAAShabalin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":67},
{"_key":"60c664017723bebd86688753","_id":"references/60c664017723bebd86688753","_rev":"_cfFlyLC---","tei":"\n\t\n\t\tThe variant call format and VCFtools\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tAAuton\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tCAAlbers\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t\n\t\t\tREHandsaker\n\t\t\n\t\t\n\t\t\tGLunter\n\t\t\n\t\t\n\t\t\tGTMarth\n\t\t\n\t\t\n\t\t\tSTSherry\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":17},
{"_key":"60c664017723bebd86688754","_id":"references/60c664017723bebd86688754","_rev":"_cfFlyLO---","tei":"\n\t\n\t\tClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks\n\t\t\n\t\t\tGBindea\n\t\t\n\t\t\n\t\t\tBMlecnik\n\t\t\n\t\t\n\t\t\tHHackl\n\t\t\n\t\t\n\t\t\tPCharoentong\n\t\t\n\t\t\n\t\t\tMTosolini\n\t\t\n\t\t\n\t\t\tAKirilovsky\n\t\t\n\t\t\n\t\t\tW.-HFridman\n\t\t\n\t\t\n\t\t\tFPagès\n\t\t\n\t\t\n\t\t\tZTrajanoski\n\t\t\n\t\t\n\t\t\tJGalon\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":9},
{"_key":"60c664017723bebd86688755","_id":"references/60c664017723bebd86688755","_rev":"_cfFlyLa---","tei":"\n\t\n\t\tSecondgeneration PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tCCChang\n\t\t\n\t\t\n\t\t\tCCChow\n\t\t\n\t\t\n\t\t\tLCTellier\n\t\t\n\t\t\n\t\t\tSVattikuti\n\t\t\n\t\t\n\t\t\tSMPurcell\n\t\t\n\t\t\n\t\t\tJJLee\n\t\t\n\t\n\t\n\t\tGigascience\n\t\t\n\t\t\t4\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":15},
{"_key":"60c664017723bebd86688756","_id":"references/60c664017723bebd86688756","_rev":"_cfFlyLm---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":62},
{"_key":"60c664017723bebd86688757","_id":"references/60c664017723bebd86688757","_rev":"_cfFlyLy---","tei":"\n\t\n\t\tCytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":68},
{"_key":"60c664017723bebd86688758","_id":"references/60c664017723bebd86688758","_rev":"_cfFlyMC---","tei":"\n\t\n\t\tA highperformance computing toolset for relatedness and principal component analysis of SNP data\n\t\t\n\t\t\tXZheng\n\t\t\n\t\t\n\t\t\tDLevine\n\t\t\n\t\t\n\t\t\tJShen\n\t\t\n\t\t\n\t\t\tSMGogarten\n\t\t\n\t\t\n\t\t\tCLaurie\n\t\t\n\t\t\n\t\t\tBSWeir\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":86},
{"_key":"60c664017723bebd86688759","_id":"references/60c664017723bebd86688759","_rev":"_cfFlyMO---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664017723bebd8668874d"},"refKey":47},
{"_key":"60c664177723bebd866887ad","_id":"references/60c664177723bebd866887ad","_rev":"_cfFlyMa---","tei":"\n\t\n\t\tDAVID: database for annotation, visualization, and integrated discovery\n\t\t\n\t\t\tGDennis\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tDAHosack\n\t\t\n\t\t\n\t\t\tJYang\n\t\t\n\t\t\n\t\t\tWGao\n\t\t\n\t\t\n\t\t\tHCLane\n\t\t\n\t\t10.1186/Gb-2003-4-9-R60\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t4\n\t\t\tR60\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664177723bebd866887ac"},"refKey":21},
{"_key":"60c664427723bebd866887cc","_id":"references/60c664427723bebd866887cc","_rev":"_cfFlyMq---","tei":"\n\t\n\t\tPLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses\n\t\t\n\t\t\tShaunPurcell\n\t\t\n\t\t\n\t\t\tBenjaminNeale\n\t\t\n\t\t\n\t\t\tKatheTodd-Brown\n\t\t\n\t\t\n\t\t\tLoriThomas\n\t\t\n\t\t\n\t\t\tManuelA RFerreira\n\t\t\n\t\t\n\t\t\tDavidBender\n\t\t\n\t\t\n\t\t\tJulianMaller\n\t\t\n\t\t\n\t\t\tPamelaSklar\n\t\t\n\t\t\n\t\t\tPaulI WDe Bakker\n\t\t\n\t\t\n\t\t\tMarkJDaly\n\t\t\n\t\t\n\t\t\tPakCSham\n\t\t\n\t\t10.1086/519795\n\t\t17701901\n\t\tPMC1950838\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c664427723bebd866887cb"},"refKey":19},
{"_key":"60c6644c7723bebd866887d3","_id":"references/60c6644c7723bebd866887d3","_rev":"_cfFlyM2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMatomo\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t20\n\t\t\n\t\n\n","document":{"$oid":"60c6644c7723bebd866887d2"},"refKey":71},
{"_key":"60c664607723bebd866887ea","_id":"references/60c664607723bebd866887ea","_rev":"_cfFlyNC---","tei":"\n\t\n\t\tScikit-learn: Machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tVMichel\n\t\t\n\t\t\n\t\t\tBThirion\n\t\t\n\t\t\n\t\t\tOGrisel\n\t\t\n\t\t\n\t\t\tMBlondel\n\t\t\n\t\t\n\t\t\tPPrettenhofer\n\t\t\n\t\t\n\t\t\tRWeiss\n\t\t\n\t\t\n\t\t\tVDubourg\n\t\t\n\t\t\n\t\t\tJVanderplas\n\t\t\n\t\t\n\t\t\tAPassos\n\t\t\n\t\t\n\t\t\tDCournapeau\n\t\t\n\t\t\n\t\t\tMBrucher\n\t\t\n\t\t\n\t\t\tMPerrot\n\t\t\n\t\t\n\t\t\tEDuchesnay\n\t\t\n\t\n\t\n\t\tJ Mach Learn Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664607723bebd866887e9"},"refKey":23},
{"_key":"60c664627723bebd866887ef","_id":"references/60c664627723bebd866887ef","_rev":"_cfFlyNS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664627723bebd866887ee"},"refKey":60},
{"_key":"60c664867723bebd86688815","_id":"references/60c664867723bebd86688815","_rev":"_cfFlyNe---","tei":"\n\t\n\t\tChEMBL: a large-scale bioactivity database for drug discovery\n\t\t\n\t\t\tAGaulton\n\t\t\n\t\t\n\t\t\tLJBellis\n\t\t\n\t\t\n\t\t\tAPBento\n\t\t\n\t\t\n\t\t\tJChambers\n\t\t\n\t\t\n\t\t\tMDavies\n\t\t\n\t\t\n\t\t\tAHersey\n\t\t\n\t\t\n\t\t\tYLight\n\t\t\n\t\t\n\t\t\tSMcglinchey\n\t\t\n\t\t\n\t\t\tDMichalovich\n\t\t\n\t\t\n\t\t\tBAl-Lazikani\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664867723bebd86688814"},"refKey":22},
{"_key":"60c664d77723bebd86688847","_id":"references/60c664d77723bebd86688847","_rev":"_cfFlyNq---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664d77723bebd86688846"},"refKey":31},
{"_key":"60c664dd7723bebd86688855","_id":"references/60c664dd7723bebd86688855","_rev":"_cfFlyN2---","tei":"\n\t\n\t\tEstimating Optimal Transformations for Multiple Regression and Correlation: Rejoinder\n\t\t\n\t\t\tLeoBreiman\n\t\t\n\t\t\n\t\t\tJeromeHFriedman\n\t\t\n\t\t10.2307/2288477\n\t\n\t\n\t\tJournal of the American Statistical Association\n\t\tJournal of the American Statistical Association\n\t\t0162-1459\n\t\t\n\t\t\t80\n\t\t\t391\n\t\t\t614\n\t\t\t\n\t\t\tJSTOR\n\t\t\n\t\n\n","document":{"$oid":"60c664dd7723bebd86688854"},"refKey":45},
{"_key":"60c664e87723bebd8668885d","_id":"references/60c664e87723bebd8668885d","_rev":"_cfFlyOC---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c664e87723bebd8668885c"},"refKey":43},
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{"_key":"60c665147723bebd86688876","_id":"references/60c665147723bebd86688876","_rev":"_cfFlyOe---","tei":"\n\t\n\t\tCarnap: An Open Framework for Formal Reasoning in the Browser\n\t\t\n\t\t\tGrahamLeach-Krouse\n\t\t\n\t\t10.4204/eptcs.267.5\n\t\t\n\t\t\n\t\n\t\n\t\tElectronic Proceedings in Theoretical Computer Science\n\t\tElectron. Proc. Theor. Comput. Sci.\n\t\tQuaresma, P., Neuper, W.\n\t\t2075-2180\n\t\t\n\t\t\t267\n\t\t\t\n\t\t\t\n\t\t\tOpen Publishing Association\n\t\t\n\t\n\n","document":{"$oid":"60c665147723bebd86688875"},"refKey":4},
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{"_key":"60c665fe7723bebd86688919","_id":"references/60c665fe7723bebd86688919","_rev":"_cfFlyQa---","tei":"\n\t\n\t\tEpithelial induction of porcine suppressor of cytokine signaling 2 (SOCS2) gene expression in response to Entamoeba histolytica\n\t\t\n\t\t\tTimothéeBruel\n\t\t\n\t\t\n\t\t\tRoselineGuibon\n\t\t\n\t\t\n\t\t\tSandrineMelo\n\t\t\n\t\t\n\t\t\tNancyGuillén\n\t\t\n\t\t\n\t\t\tHenriSalmon\n\t\t\n\t\t\n\t\t\tFabienneGirard-Misguich\n\t\t\n\t\t\n\t\t\tFrançoisMeurens\n\t\t\n\t\t10.1016/j.dci.2009.12.017\n\t\t20045027\n\t\n\t\n\t\tDevelopmental & Comparative Immunology\n\t\tDevelopmental & Comparative Immunology\n\t\t0145-305X\n\t\t\n\t\t\t34\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c665fe7723bebd86688918"},"refKey":31},
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{"_key":"60c6674e7723bebd86688ac1","_id":"references/60c6674e7723bebd86688ac1","_rev":"_cfFlyVa---","tei":"\n\t\n\t\tGeneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6674e7723bebd86688ac0"},"refKey":208},
{"_key":"60c667787723bebd86688ad8","_id":"references/60c667787723bebd86688ad8","_rev":"_cfFlyVq---","tei":"\n\t\n\t\tStatistical power analyses using G*Power 3.1: tests for correlation and regression analyses\n\t\t\n\t\t\tFFaul\n\t\t\n\t\t\n\t\t\tEErdfelder\n\t\t\n\t\t\n\t\t\tABuchner\n\t\t\n\t\t\n\t\t\tAGLang\n\t\t\n\t\n\t\n\t\tBehav. Res. Methods\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c667787723bebd86688ad7"},"refKey":14},
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{"_key":"60c667857723bebd86688ae3","_id":"references/60c667857723bebd86688ae3","_rev":"_cfFlyWO---","tei":"\n\t\n\t\tRisk-of-bias VISualization (robvis): An R package and Shiny web app for visualizing risk-of-bias assessments\n\t\t\n\t\t\tLAMcguinness\n\t\t\n\t\t\n\t\t\tJptHiggins\n\t\t\n\t\t10.1002/jrsm.1411\n\t\tjrsm.1411\n\t\t\n\t\n\t\n\t\tRes Synth Methods\n\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c667857723bebd86688ae2"},"refKey":28},
{"_key":"60c667857723bebd86688ae4","_id":"references/60c667857723bebd86688ae4","_rev":"_cfFlyWi---","tei":"\n\t\n\t\tRoB 2: a revised tool for assessing risk of bias in randomised trials\n\t\t\n\t\t\tJacSterne\n\t\t\n\t\t\n\t\t\tJSavović\n\t\t\n\t\t\n\t\t\tMJPage\n\t\t\n\t\t\n\t\t\tRGElbers\n\t\t\n\t\t\n\t\t\tNSBlencowe\n\t\t\n\t\t\n\t\t\tIBoutron\n\t\t\n\t\t10.1136/bmj.l4898\n\t\t\n\t\n\t\n\t\tBMJ\n\t\t\n\t\t\t2019\n\t\t\t4898\n\t\t\n\t\n\n","document":{"$oid":"60c667857723bebd86688ae2"},"refKey":26},
{"_key":"60c667857723bebd86688ae5","_id":"references/60c667857723bebd86688ae5","_rev":"_cfFlyW2---","tei":"\n\t\n\t\tConducting Meta-Analyses inRwith themetaforPackage\n\t\t\n\t\t\tWolfgangViechtbauer\n\t\t\n\t\t10.18637/jss.v036.i03\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t36\n\t\t\t3\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c667857723bebd86688ae2"},"refKey":32},
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{"_key":"60c667857723bebd86688ae7","_id":"references/60c667857723bebd86688ae7","_rev":"_cfFlyXa---","tei":"\n\t\n\t\tMetaprop: a Stata command to perform meta-analysis of binomial data\n\t\t\n\t\t\tVictoriaNNyaga\n\t\t\n\t\t\n\t\t\tMarcArbyn\n\t\t\n\t\t\n\t\t\tMarcAerts\n\t\t\n\t\t10.1186/2049-3258-72-39\n\t\t25810908\n\t\tPMC4373114\n\t\t\n\t\t\n\t\n\t\n\t\tArchives of Public Health\n\t\tArch Public Health\n\t\t2049-3258\n\t\t\n\t\t\t72\n\t\t\t1\n\t\t\t39\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c667857723bebd86688ae2"},"refKey":33},
{"_key":"60c6679e7723bebd86688af8","_id":"references/60c6679e7723bebd86688af8","_rev":"_cfFlyXq---","tei":"\n\t\n\t\tIntroduction to mediation, moderation, and conditional process analysis: A regression-based approach\n\t\t\n\t\t\tAFHayes\n\t\t\n\t\t\n\t\t\t\n\t\t\tGuilford Press\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c6679e7723bebd86688af7"},"refKey":21},
{"_key":"60c667b97723bebd86688b0a","_id":"references/60c667b97723bebd86688b0a","_rev":"_cfFlyX6---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c667b97723bebd86688b09"},"refKey":44},
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{"_key":"60c667b97723bebd86688b0c","_id":"references/60c667b97723bebd86688b0c","_rev":"_cfFlyYa---","tei":"\n\t\n\t\tRELION: implementation of a Bayesian approach to cryo-EM structure determination\n\t\t\n\t\t\tSHScheres\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t180\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c667b97723bebd86688b09"},"refKey":52},
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{"_key":"60c6680a7723bebd86688b35","_id":"references/60c6680a7723bebd86688b35","_rev":"_cfFlyY6---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap) -A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6680a7723bebd86688b34"},"refKey":19},
{"_key":"60c6680a7723bebd86688b36","_id":"references/60c6680a7723bebd86688b36","_rev":"_cfFlyZK---","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software partners\n\t\t\n\t\t\tAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tLO'neal\n\t\t\n\t\t\n\t\t\tLMcleod\n\t\t\n\t\t\n\t\t\tGDelacqua\n\t\t\n\t\t\n\t\t\tFDelacqua\n\t\t\n\t\t\n\t\t\tJKirby\n\t\t\n\t\t\n\t\t\tSNDuda\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6680a7723bebd86688b34"},"refKey":18},
{"_key":"60c668137723bebd86688b3e","_id":"references/60c668137723bebd86688b3e","_rev":"_cfFlyZe---","tei":"\n\t\n\t\tThe Amber biomolecular simulation programs\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tThomasECheatham\n\t\t\n\t\t\n\t\t\tTomDarden\n\t\t\n\t\t\n\t\t\tHolgerGohlke\n\t\t\n\t\t\n\t\t\tRayLuo\n\t\t\n\t\t\n\t\t\tKennethMMerz\n\t\t\n\t\t\n\t\t\tAlexeyOnufriev\n\t\t\n\t\t\n\t\t\tCarlosSimmerling\n\t\t\n\t\t\n\t\t\tBingWang\n\t\t\n\t\t\n\t\t\tRobertJWoods\n\t\t\n\t\t10.1002/jcc.20290\n\t\t16200636\n\t\tPMC1989667\n\t\tark:/67375/WNG-SM7M10M5-T\n\t\t96193A43CE477101A1574AF2E58893F449F4F999\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c668137723bebd86688b3d"},"refKey":11},
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{"_key":"60c669827723bebd86688c20","_id":"references/60c669827723bebd86688c20","_rev":"_cfFlycW---","tei":"\n\t\n\t\tSyncGC: a synchronized garbage collection technique for reducing tail latency in Cassandra\n\t\t\n\t\t\tSHan\n\t\t\n\t\t\n\t\t\tSLee\n\t\t\n\t\t\n\t\t\tSSHahn\n\t\t\n\t\t\n\t\t\tJKim\n\t\t\n\t\n\t\n\t\tProceedings of the 9th Asia-Pacific Workshop on Systems\n\t\t\t\tthe 9th Asia-Pacific Workshop on Systems\n\t\t\n\t\t\tAPSys\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c669827723bebd86688c1f"},"refKey":17},
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{"_key":"60c66b847723bebd86688e4f","_id":"references/60c66b847723bebd86688e4f","_rev":"_cfFlykq---","tei":"\n\t\n\t\tDevelopment of AMSTAR: a measurement tool to assess the methodological quality of systematic reviews\n\t\t\n\t\t\tBJShea\n\t\t\n\t\t\n\t\t\tJMGrimshaw\n\t\t\n\t\t\n\t\t\tGAWells\n\t\t\n\t\n\t\n\t\tBMC Med Res Methodol\n\t\t\n\t\t\t7\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66b847723bebd86688e4e"},"refKey":25},
{"_key":"60c66ba37723bebd86688e5f","_id":"references/60c66ba37723bebd86688e5f","_rev":"_cfFlyk6---","tei":"\n\t\n\t\tClustering procedures for the optimal selection of data sets from multiple crystals in macromolecular crystallography\n\t\t\n\t\t\tJamesFoadi\n\t\t\n\t\t\n\t\t\tPierreAller\n\t\t\n\t\t\n\t\t\tYilmazAlguel\n\t\t\n\t\t\n\t\t\tAlexCameron\n\t\t\n\t\t\n\t\t\tDannyAxford\n\t\t\n\t\t\n\t\t\tRobinLOwen\n\t\t\n\t\t\n\t\t\tWesArmour\n\t\t\n\t\t\n\t\t\tDavidGWaterman\n\t\t\n\t\t\n\t\t\tSoIwata\n\t\t\n\t\t\n\t\t\tGwyndafEvans\n\t\t\n\t\t10.1107/s0907444913012274\n\t\t23897484\n\t\tPMC3727331\n\t\tark:/67375/WNG-0941ZZKH-0\n\t\tA18E29D8BE535399C08AAE5320C13572A8BC34B5\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t1399-0047\n\t\t\n\t\t\t69\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c66ba37723bebd86688e5e"},"refKey":18},
{"_key":"60c66ba37723bebd86688e60","_id":"references/60c66ba37723bebd86688e60","_rev":"_cfFlylO---","tei":"\n\t\n\t\tOverview of theCCP4 suite and current developments\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tCharlesCBallard\n\t\t\n\t\t\n\t\t\tKevinDCowtan\n\t\t\n\t\t\n\t\t\tEleanorJDodson\n\t\t\n\t\t\n\t\t\tPaulEmsley\n\t\t\n\t\t\n\t\t\tPhilREvans\n\t\t\n\t\t\n\t\t\tRonanMKeegan\n\t\t\n\t\t\n\t\t\tEugeneBKrissinel\n\t\t\n\t\t\n\t\t\tAndrewG WLeslie\n\t\t\n\t\t\n\t\t\tAirlieMccoy\n\t\t\n\t\t\n\t\t\tStuartJMcnicholas\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tElizabethAPotterton\n\t\t\n\t\t\n\t\t\tHaroldRPowell\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tAlexeiVagin\n\t\t\n\t\t\n\t\t\tKeithSWilson\n\t\t\n\t\t10.1107/s0907444910045749\n\t\t21460441\n\t\tPMC3069738\n\t\tark:/67375/WNG-2WD8BNN1-X\n\t\tEA86D1B0B076B7089F0E9BB8FED9AAE79E2C4083\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c66ba37723bebd86688e5e"},"refKey":31},
{"_key":"60c66bb97723bebd86688e72","_id":"references/60c66bb97723bebd86688e72","_rev":"_cfFlyle---","tei":"\n\t\n\t\tProgram FACTOR at 10: Origins, development and future directions\n\t\t\n\t\t\tPJFerrando\n\t\t\n\t\t\n\t\t\tULorenzo-Seva\n\t\t\n\t\t10.7334/psicothema2016.304\n\t\t\n\t\n\t\n\t\tPsicothema\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66bb97723bebd86688e71"},"refKey":13},
{"_key":"60c66be07723bebd86688e7e","_id":"references/60c66be07723bebd86688e7e","_rev":"_cfFlyl2---","tei":"\n\t\n\t\tCircular RNAs are a large class of animal RNAs with regulatory potency\n\t\t\n\t\t\tSebastianMemczak\n\t\t\n\t\t\n\t\t\tMarvinJens\n\t\t\n\t\t\n\t\t\tAntigoniElefsinioti\n\t\t\n\t\t\n\t\t\tFrancescaTorti\n\t\t\n\t\t\n\t\t\tJannaKrueger\n\t\t\n\t\t\n\t\t\tAgnieszkaRybak\n\t\t\n\t\t\n\t\t\tLuisaMaier\n\t\t\n\t\t\n\t\t\tSebastianDMackowiak\n\t\t\n\t\t\n\t\t\tLeaHGregersen\n\t\t\n\t\t\n\t\t\tMathiasMunschauer\n\t\t\n\t\t\n\t\t\tAlexanderLoewer\n\t\t\n\t\t\n\t\t\tUlrikeZiebold\n\t\t\n\t\t\n\t\t\tMarkusLandthaler\n\t\t\n\t\t\n\t\t\tChristineKocks\n\t\t\n\t\t\n\t\t\tFerdinandLe Noble\n\t\t\n\t\t\n\t\t\tNikolausRajewsky\n\t\t\n\t\t10.1038/nature11928\n\t\t23446348\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t495\n\t\t\t7441\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":70},
{"_key":"60c66be07723bebd86688e7f","_id":"references/60c66be07723bebd86688e7f","_rev":"_cfFlymG---","tei":"\n\t\n\t\tCPC: assess the protein-coding potential of transcripts using sequence features and support vector machine\n\t\t\n\t\t\tLeiKong\n\t\t\n\t\t\n\t\t\tYongZhang\n\t\t\n\t\t\n\t\t\tZhi-QiangYe\n\t\t\n\t\t\n\t\t\tXiao-QiaoLiu\n\t\t\n\t\t\n\t\t\tShu-QiZhao\n\t\t\n\t\t\n\t\t\tLipingWei\n\t\t\n\t\t\n\t\t\tGeGao\n\t\t\n\t\t10.1093/nar/gkm391\n\t\t17631615\n\t\tPMC1933232\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":50},
{"_key":"60c66be07723bebd86688e80","_id":"references/60c66be07723bebd86688e80","_rev":"_cfFlymW---","tei":"\n\t\n\t\tMapSplice: Accurate mapping of RNA-seq reads for splice junction discovery\n\t\t\n\t\t\tKaiWang\n\t\t\n\t\t\n\t\t\tDarshanSingh\n\t\t\n\t\t\n\t\t\tZhengZeng\n\t\t\n\t\t\n\t\t\tStephenJColeman\n\t\t\n\t\t\n\t\t\tYanHuang\n\t\t\n\t\t\n\t\t\tGlebLSavich\n\t\t\n\t\t\n\t\t\tXiapingHe\n\t\t\n\t\t\n\t\t\tPiotrMieczkowski\n\t\t\n\t\t\n\t\t\tSaraAGrimm\n\t\t\n\t\t\n\t\t\tCharlesMPerou\n\t\t\n\t\t\n\t\t\tJamesNMacleod\n\t\t\n\t\t\n\t\t\tDerekYChiang\n\t\t\n\t\t\n\t\t\tJanFPrins\n\t\t\n\t\t\n\t\t\tJinzeLiu\n\t\t\n\t\t10.1093/nar/gkq622\n\t\t20802226\n\t\tPMC2952873\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":71},
{"_key":"60c66be07723bebd86688e81","_id":"references/60c66be07723bebd86688e81","_rev":"_cfFlymi---","tei":"\n\t\n\t\tEMBOSS: The European Molecular Biology Open Software Suite\n\t\t\n\t\t\tPeterRice\n\t\t\n\t\t\n\t\t\tIanLongden\n\t\t\n\t\t\n\t\t\tAlanBleasby\n\t\t\n\t\t10.1016/s0168-9525(00)02024-2\n\t\t10827456\n\t\tS0168-9525(00)02024-2\n\t\tark:/67375/6H6-5DKFQFC8-B\n\t\t3C9902D8477EC7901934D84EDD53D81386C72D82\n\t\n\t\n\t\tTrends in Genetics\n\t\tTrends in Genetics\n\t\t0168-9525\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":51},
{"_key":"60c66be07723bebd86688e82","_id":"references/60c66be07723bebd86688e82","_rev":"_cfFlymy---","tei":"\n\t\n\t\tA multi-split mapping algorithm for circular RNA, splicing, trans-splicing and fusion detection\n\t\t\n\t\t\tSteveHoffmann\n\t\t\n\t\t\n\t\t\tChristianOtto\n\t\t\n\t\t\n\t\t\tGeroDoose\n\t\t\n\t\t\n\t\t\tAndreaTanzer\n\t\t\n\t\t\n\t\t\tDavidLangenberger\n\t\t\n\t\t\n\t\t\tSabinaChrist\n\t\t\n\t\t\n\t\t\tManfredKunz\n\t\t\n\t\t\n\t\t\tLescaMHoldt\n\t\t\n\t\t\n\t\t\tDanielTeupser\n\t\t\n\t\t\n\t\t\tJörgHackermüller\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t10.1186/gb-2014-15-2-r34\n\t\t24512684\n\t\tPMC4056463\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t15\n\t\t\t2\n\t\t\tR34\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":72},
{"_key":"60c66be07723bebd86688e83","_id":"references/60c66be07723bebd86688e83","_rev":"_cfFlynC---","tei":"\n\t\n\t\tComplementary Sequence-Mediated Exon Circularization\n\t\t\n\t\t\tXiao-OuZhang\n\t\t\n\t\t\n\t\t\tHai-BinWang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t\n\t\t\tXuhuaLu\n\t\t\n\t\t\n\t\t\tLing-LingChen\n\t\t\n\t\t\n\t\t\tLiYang\n\t\t\n\t\t10.1016/j.cell.2014.09.001\n\t\t25242744\n\t\t\n\t\n\t\n\t\tCell\n\t\tCell\n\t\t0092-8674\n\t\t\n\t\t\t159\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":73},
{"_key":"60c66be07723bebd86688e84","_id":"references/60c66be07723bebd86688e84","_rev":"_cfFlynS---","tei":"\n\t\n\t\tGenome-wide Analysis of Drosophila Circular RNAs Reveals Their Structural and Sequence Properties and Age-Dependent Neural Accumulation\n\t\t\n\t\t\tJakubOWestholm\n\t\t\n\t\t\n\t\t\tPedroMiura\n\t\t\n\t\t\n\t\t\tSaraOlson\n\t\t\n\t\t\n\t\t\tSolShenker\n\t\t\n\t\t\n\t\t\tBrianJoseph\n\t\t\n\t\t\n\t\t\tPieroSanfilippo\n\t\t\n\t\t\n\t\t\tSusanECelniker\n\t\t\n\t\t\n\t\t\tBrentonRGraveley\n\t\t\n\t\t\n\t\t\tEricCLai\n\t\t\n\t\t10.1016/j.celrep.2014.10.062\n\t\t25544350\n\t\tPMC4279448\n\t\t\n\t\n\t\n\t\tCell Reports\n\t\tCell Reports\n\t\t2211-1247\n\t\t\n\t\t\t9\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":74},
{"_key":"60c66be07723bebd86688e85","_id":"references/60c66be07723bebd86688e85","_rev":"_cfFlyni---","tei":"\n\t\n\t\tPredicting effective microRNA target sites in mammalian mRNAs\n\t\t\n\t\t\tVikramAgarwal\n\t\t\n\t\t\n\t\t\tGeorgeWBell\n\t\t\n\t\t\n\t\t\tJin-WuNam\n\t\t\n\t\t\n\t\t\tDavidPBartel\n\t\t\n\t\t10.7554/elife.05005\n\t\t26267216\n\t\tPMC4532895\n\t\n\t\n\t\teLife\n\t\t2050-084X\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\teLife Sciences Publications, Ltd\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":103},
{"_key":"60c66be07723bebd86688e86","_id":"references/60c66be07723bebd86688e86","_rev":"_cfFlynu---","tei":"\n\t\n\t\tCIRI: an efficient and unbiased algorithm for de novo circular RNA identification\n\t\t\n\t\t\tYuanGao\n\t\t\n\t\t\n\t\t\tJinfengWang\n\t\t\n\t\t\n\t\t\tFangqingZhao\n\t\t\n\t\t10.1186/s13059-014-0571-3\n\t\t25583365\n\t\tPMC4316645\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t4\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":75},
{"_key":"60c66be07723bebd86688e87","_id":"references/60c66be07723bebd86688e87","_rev":"_cfFlyo----","tei":"\n\t\n\t\tNeural circular RNAs are derived from synaptic genes and regulated by development and plasticity\n\t\t\n\t\t\tXintianYou\n\t\t\n\t\t\n\t\t\tIrenaVlatkovic\n\t\t\n\t\t\n\t\t\tAnaBabic\n\t\t\n\t\t\n\t\t\tTristanWill\n\t\t\n\t\t\n\t\t\tIrinaEpstein\n\t\t\n\t\t\n\t\t\tGeorgiTushev\n\t\t\n\t\t\n\t\t\tGüneyAkbalik\n\t\t\n\t\t\n\t\t\tMantianWang\n\t\t\n\t\t\n\t\t\tCasparGlock\n\t\t\n\t\t\n\t\t\tClaudiaQuedenau\n\t\t\n\t\t\n\t\t\tXiWang\n\t\t\n\t\t\n\t\t\tJingyiHou\n\t\t\n\t\t\n\t\t\tHongyuLiu\n\t\t\n\t\t\n\t\t\tWeiSun\n\t\t\n\t\t\n\t\t\tSivakumarSambandan\n\t\t\n\t\t\n\t\t\tTaoChen\n\t\t\n\t\t\n\t\t\tErinMSchuman\n\t\t\n\t\t\n\t\t\tWeiChen\n\t\t\n\t\t10.1038/nn.3975\n\t\t25714049\n\t\tPMC4376664\n\t\t\n\t\n\t\n\t\tNature Neuroscience\n\t\tNat Neurosci\n\t\t1097-6256\n\t\t1546-1726\n\t\t\n\t\t\t18\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":68},
{"_key":"60c66be07723bebd86688e88","_id":"references/60c66be07723bebd86688e88","_rev":"_cfFlyoO---","tei":"\n\t\n\t\tStatistically based splicing detection reveals neural enrichment and tissue-specific induction of circular RNA during human fetal development\n\t\t\n\t\t\tLindaSzabo\n\t\t\n\t\t\n\t\t\tRobertMorey\n\t\t\n\t\t\n\t\t\tNathanJPalpant\n\t\t\n\t\t\n\t\t\tPeterLWang\n\t\t\n\t\t\n\t\t\tNastaranAfari\n\t\t\n\t\t\n\t\t\tChuanJiang\n\t\t\n\t\t\n\t\t\tManaMParast\n\t\t\n\t\t\n\t\t\tCharlesEMurry\n\t\t\n\t\t\n\t\t\tLouiseCLaurent\n\t\t\n\t\t\n\t\t\tJuliaSalzman\n\t\t\n\t\t10.1186/s13059-015-0690-5\n\t\t26076956\n\t\tPMC4506483\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":76},
{"_key":"60c66be07723bebd86688e89","_id":"references/60c66be07723bebd86688e89","_rev":"_cfFlyoe---","tei":"\n\t\n\t\tThe UCSC Genome Browser Database: update 2006\n\t\t\n\t\t\tASHinrichs\n\t\t\n\t\t\n\t\t\tDKarolchik\n\t\t\n\t\t\n\t\t\tRBaertsch\n\t\t\n\t\t\n\t\t\tGPBarber\n\t\t\n\t\t\n\t\t\tGBejerano\n\t\t\n\t\t\n\t\t\tHClawson\n\t\t\n\t\t\n\t\t\tMDiekhans\n\t\t\n\t\t\n\t\t\tTSFurey\n\t\t\n\t\t\n\t\t\tRAHarte\n\t\t\n\t\t\n\t\t\tFHsu\n\t\t\n\t\t10.1093/nar/gkj144\n\t\t16381938\n\t\tPMC1347506\n\t\tark:/67375/HXZ-23VXT0RH-N\n\t\t76A807812B22F8B3A81BF8D8D2D7AF6BD91E7C4E\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\t90001\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":52},
{"_key":"60c66be07723bebd86688e8a","_id":"references/60c66be07723bebd86688e8a","_rev":"_cfFlyoy---","tei":"\n\t\n\t\tNCLscan: accurate identification of non-co-linear transcripts (fusion,trans-splicing and circular RNA) with a good balance between sensitivity and precision\n\t\t\n\t\t\tTrees-JuenChuang\n\t\t\n\t\t\n\t\t\tChan-ShuoWu\n\t\t\n\t\t\n\t\t\tChia-YingChen\n\t\t\n\t\t\n\t\t\tLi-YuanHung\n\t\t\n\t\t\n\t\t\tTai-WeiChiang\n\t\t\n\t\t\n\t\t\tMin-YuYang\n\t\t\n\t\t10.1093/nar/gkv1013\n\t\t26442529\n\t\tPMC4756807\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":77},
{"_key":"60c66be07723bebd86688e8b","_id":"references/60c66be07723bebd86688e8b","_rev":"_cfFlypC---","tei":"\n\t\n\t\tSpecific identification and quantification of circular RNAs from sequencing data\n\t\t\n\t\t\tJunCheng\n\t\t\n\t\t\n\t\t\tFranziskaMetge\n\t\t\n\t\t\n\t\t\tChristophDieterich\n\t\t\n\t\t10.1093/bioinformatics/btv656\n\t\t26556385\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c66be07723bebd86688e7d"},"refKey":78},
{"_key":"60c66c097723bebd86688ec0","_id":"references/60c66c097723bebd86688ec0","_rev":"_cfFlypS---","tei":"\n\t\n\t\tCooperation S. Stata 15 release. TX: Stata Cooperation, College Station\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66c097723bebd86688ebf"},"refKey":32},
{"_key":"60c66c197723bebd86688ec5","_id":"references/60c66c197723bebd86688ec5","_rev":"_cfFlypi---","tei":"\n\t\n\t\tlavaan: AnRPackage for Structural Equation Modeling\n\t\t\n\t\t\tYvesRosseel\n\t\t\n\t\t10.18637/jss.v048.i02\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t48\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c66c197723bebd86688ec4"},"refKey":64},
{"_key":"60c66c1e7723bebd86688ec9","_id":"references/60c66c1e7723bebd86688ec9","_rev":"_cfFlypy---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66c1e7723bebd86688ec8"},"refKey":31},
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{"_key":"60c66c767723bebd86688ef1","_id":"references/60c66c767723bebd86688ef1","_rev":"_cfFlyqO---","tei":"\n\t\n\t\tSequence variations in small-subunit ribosomal RNAs of Hartmannella vermiformis and their phylogenetic implications\n\t\t\n\t\t\tPH HWeekers\n\t\t\n\t\t\n\t\t\tRJGast\n\t\t\n\t\t\n\t\t\tPAFuerst\n\t\t\n\t\t\n\t\t\tTJByers\n\t\t\n\t\t\n\t\t\tKYagita\n\t\t\n\t\t\n\t\t\tTEndo\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tJ. Protozool.\n\n","document":{"$oid":"60c66c767723bebd86688ef0"},"refKey":30},
{"_key":"60c66c767723bebd86688ef2","_id":"references/60c66c767723bebd86688ef2","_rev":"_cfFlyqe---","tei":"\n\t\n\t\tSimultaneous editing of multiple nucleic acid and protein sequences with ESEE\n\t\t\n\t\t\tELCabot\n\t\t\n\t\t\n\t\t\tATBeckenbach\n\t\t\n\t\t10.1093/bioinformatics/5.3.233\n\t\tark:/67375/HXZ-032NBX1G-3\n\t\tC9A9FB58DDF5A84075180E15269732E402A9CBBE\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c66c767723bebd86688ef0"},"refKey":3},
{"_key":"60c66c767723bebd86688ef3","_id":"references/60c66c767723bebd86688ef3","_rev":"_cfFlyqu---","tei":"\n\t\n\t\tPHYLIP: Phylogeny inference package (Version 3.5)\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\n\t\n\t\tCladistics\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66c767723bebd86688ef0"},"refKey":6},
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{"_key":"60c66c8b7723bebd86688f0e","_id":"references/60c66c8b7723bebd86688f0e","_rev":"_cfFlyrm---","tei":"\n\t\n\t\tUpSetR: An R Package for the Visualization of Intersecting Sets and their Properties\n\t\t\n\t\t\tJakeRConway\n\t\t\t0000-0002-6617-2054\n\t\t\n\t\t\n\t\t\tAlexanderLex\n\t\t\t0000-0001-6930-5468\n\t\t\n\t\t\n\t\t\tNilsGehlenborg\n\t\t\t0000-0003-0327-8297\n\t\t\n\t\t10.1101/120600\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c66c8b7723bebd86688f0c"},"refKey":14},
{"_key":"60c66cc67723bebd86688f44","_id":"references/60c66cc67723bebd86688f44","_rev":"_cfFlyr2---","tei":"\n\t\n\t\tModeltest: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66cc67723bebd86688f43"},"refKey":103},
{"_key":"60c66d4c7723bebd86688f7f","_id":"references/60c66d4c7723bebd86688f7f","_rev":"_cfFlysG---","tei":"\n\t\n\t\t\n\t\t\tEFrank\n\t\t\n\t\tData Mining and Knowledge Discovery Handbook\n\t\t\t\t\n\t\t\tOded Maimon & Lior Rokach\n\t\t\n\t\tUS\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66d4c7723bebd86688f7e"},"refKey":37},
{"_key":"60c66d607723bebd86688fa3","_id":"references/60c66d607723bebd86688fa3","_rev":"_cfFlysa---","tei":"\n\t\n\t\tArrows, Robots, and Functional Reactive Programming\n\t\t\n\t\t\tPaulHudak\n\t\t\n\t\t\n\t\t\tAntonyCourtney\n\t\t\n\t\t\n\t\t\tHenrikNilsson\n\t\t\n\t\t\n\t\t\tJohnPeterson\n\t\t\n\t\t10.1007/978-3-540-44833-4_6\n\t\tark:/67375/HCB-K768V3LZ-X\n\t\t253AECDE11F27A3EB5EF0A8229CED4DC8F6FB920\n\t\t\n\t\n\t\n\t\tAdvanced Functional Programming\n\t\t\t\t\n\t\t\tJJeuring\n\t\t\tSL PJones\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t2638\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66d607723bebd86688fa2"},"refKey":13},
{"_key":"60c66d607723bebd86688fa4","_id":"references/60c66d607723bebd86688fa4","_rev":"_cfFlysu---","tei":"\n\t\n\t\tDistributed REScala: an update algorithm for distributed reactive programming\n\t\t\n\t\t\tJDrechsler\n\t\t\n\t\t\n\t\t\tGSalvaneschi\n\t\t\n\t\t\n\t\t\tRMogk\n\t\t\n\t\t\n\t\t\tMMezini\n\t\t\n\t\n\t\n\t\tProceedings of the 2014 ACM International Conference on Object Oriented Programming Systems Languages & Applications, OOPSLA 2014, Part of SPLASH\n\t\t\t\t\n\t\t\tAPBlack\n\t\t\tTDMillstein\n\t\t\n\t\tthe 2014 ACM International Conference on Object Oriented Programming Systems Languages & Applications, OOPSLA 2014, Part of SPLASHPortland, OR, USA\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66d607723bebd86688fa2"},"refKey":10},
{"_key":"60c66dfe7723bebd86689018","_id":"references/60c66dfe7723bebd86689018","_rev":"_cfFlyt----","tei":"\n\t\n\t\tTensorFlow: large-scale machine learning on heterogeneous systems\n\t\t\n\t\t\tMAbadi\n\t\t\n\t\t\n\t\t\tAAgarwal\n\t\t\n\t\t\n\t\t\tPBarham\n\t\t\n\t\t\n\t\t\tEBrevdo\n\t\t\n\t\t\n\t\t\tZChen\n\t\t\n\t\t\n\t\t\tCCitro\n\t\t\n\t\t\n\t\t\tGSCorrado\n\t\t\n\t\t\n\t\t\tADavis\n\t\t\n\t\t\n\t\t\tJDean\n\t\t\n\t\t\n\t\t\tMDevin\n\t\t\n\t\t\n\t\t\tSGhemawat\n\t\t\n\t\t\n\t\t\tIGoodfellow\n\t\t\n\t\t\n\t\t\tAHarp\n\t\t\n\t\t\n\t\t\tGIrving\n\t\t\n\t\t\n\t\t\tMIsard\n\t\t\n\t\t\n\t\t\tYJia\n\t\t\n\t\t\n\t\t\tRJozefowicz\n\t\t\n\t\t\n\t\t\tLKaiser\n\t\t\n\t\t\n\t\t\tMKudlur\n\t\t\n\t\t\n\t\t\tJLevenberg\n\t\t\n\t\t\n\t\t\tDMané\n\t\t\n\t\t\n\t\t\tRMonga\n\t\t\n\t\t\n\t\t\tSMoore\n\t\t\n\t\t\n\t\t\tDMurray\n\t\t\n\t\t\n\t\t\tCOlah\n\t\t\n\t\t\n\t\t\tMSchuster\n\t\t\n\t\t\n\t\t\tJShlens\n\t\t\n\t\t\n\t\t\tBSteiner\n\t\t\n\t\t\n\t\t\tISutskever\n\t\t\n\t\t\n\t\t\tKTalwar\n\t\t\n\t\t\n\t\t\tPTucker\n\t\t\n\t\t\n\t\t\tVVanhoucke\n\t\t\n\t\t\n\t\t\tVVasudevan\n\t\t\n\t\t\n\t\t\tFViégas\n\t\t\n\t\t\n\t\t\tOVinyals\n\t\t\n\t\t\n\t\t\tPWarden\n\t\t\n\t\t\n\t\t\tMWattenberg\n\t\t\n\t\t\n\t\t\tMWicke\n\t\t\n\t\t\n\t\t\tYYu\n\t\t\n\t\t\n\t\t\tXZheng\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66dfe7723bebd86689017"},"refKey":35},
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{"_key":"60c66eb77723bebd86689108","_id":"references/60c66eb77723bebd86689108","_rev":"_cfFlyvi---","tei":"\n\t\n\t\tEfficacy Information in Media Coverage of Infectious Disease Risks\n\t\t\n\t\t\tDarrickTEvensen\n\t\t\n\t\t\n\t\t\tChristopherEClarke\n\t\t\n\t\t10.1177/1075547011421020\n\t\n\t\n\t\tScience Communication\n\t\tScience Communication\n\t\t1075-5470\n\t\t1552-8545\n\t\t\n\t\t\t34\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c66eb77723bebd86689107"},"refKey":28},
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{"_key":"60c66f0f7723bebd8668914a","_id":"references/60c66f0f7723bebd8668914a","_rev":"_cfFlywC---","tei":"\n\t\n\t\tGeneralized Additive Models: An Introduction with R. Chapman and Hall/CRC, 2 edition\n\t\t\n\t\t\tSWood\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c66f0f7723bebd86689149"},"refKey":10},
{"_key":"60c66f847723bebd86689199","_id":"references/60c66f847723bebd86689199","_rev":"_cfFlywS---","tei":"\n\t\n\t\tPotential factors influencing repeated SARS outbreaks in China\n\t\t\n\t\t\t;Statacorp\n\t\t\n\t\t\n\t\t\tTx\n\t\t\n\t\t\n\t\t\tZSun\n\t\t\n\t\t\n\t\t\tKThilakavathy\n\t\t\n\t\t\n\t\t\tSSKumar\n\t\t\n\t\t\n\t\t\tGHe\n\t\t\n\t\t\n\t\t\tSVLiu\n\t\t\n\t\n\t\n\t\tStata Statistical Software: Release. StataCorp LP, College Station\n\t\t\t\t\n\t\t\t\n\t\t\t17\n\t\t\t1633\n\t\t\n\t\n\n","document":{"$oid":"60c66f847723bebd86689198"},"refKey":21},
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{"_key":"60c671507723bebd86689391","_id":"references/60c671507723bebd86689391","_rev":"_cfFly36---","tei":"\n\t\n\t\tFARFAR2: Improved de novo Rosetta prediction of complex global RNA folds\n\t\t\n\t\t\tAndrewMWatkins\n\t\t\t0000-0003-1617-1720\n\t\t\n\t\t\n\t\t\tRhijuDas\n\t\t\t0000-0001-7497-0972\n\t\t\n\t\t10.1101/764449\n\t\t32531203\n\t\t\n\t\t\n\t\n\t\n\t\tStructure\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c671507723bebd8668938c"},"refKey":18},
{"_key":"60c671507723bebd86689392","_id":"references/60c671507723bebd86689392","_rev":"_cfFly4G---","tei":"\n\t\n\t\tRNAvista: a webserver to assess RNA secondary structures with non-canonical base pairs\n\t\t\n\t\t\tMaciejAntczak\n\t\t\n\t\t\n\t\t\tMarcinZablocki\n\t\t\n\t\t\n\t\t\tTomaszZok\n\t\t\n\t\t\n\t\t\tAgnieszkaRybarczyk\n\t\t\n\t\t\n\t\t\tJacekBlazewicz\n\t\t\n\t\t\n\t\t\tMartaSzachniuk\n\t\t\n\t\t10.1093/bioinformatics/bty609\n\t\t29985979\n\t\tPMC6298044\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c671507723bebd8668938c"},"refKey":22},
{"_key":"60c671507723bebd86689393","_id":"references/60c671507723bebd86689393","_rev":"_cfFly4W---","tei":"\n\t\n\t\tAutomated RNA 3D Structure Prediction with RNAComposer\n\t\t\n\t\t\tMarcinBiesiada\n\t\t\n\t\t\n\t\t\tKatarzynaJPurzycka\n\t\t\n\t\t\n\t\t\tMartaSzachniuk\n\t\t\n\t\t\n\t\t\tJacekBlazewicz\n\t\t\n\t\t\n\t\t\tRyszardWAdamiak\n\t\t\n\t\t10.1007/978-1-4939-6433-8_13\n\t\t27665601\n\t\t\n\t\n\t\n\t\tRNA Structure Determination\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c671507723bebd8668938c"},"refKey":21},
{"_key":"60c671507723bebd86689394","_id":"references/60c671507723bebd86689394","_rev":"_cfFly4i---","tei":"\n\t\n\t\tRNA2D3D: A program for Generating, Viewing, and Comparing 3-Dimensional Models of RNA\n\t\t\n\t\t\tHugoMMartinez\n\t\t\n\t\t\n\t\t\tJacobVMaizel\n\t\t\n\t\t\n\t\t\tBruceAShapiro\n\t\t\n\t\t10.1080/07391102.2008.10531240\n\t\t18399701\n\t\tPMC3727907\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomolecular Structure and Dynamics\n\t\tJournal of Biomolecular Structure and Dynamics\n\t\t0739-1102\n\t\t1538-0254\n\t\t\n\t\t\t25\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c671507723bebd8668938c"},"refKey":24},
{"_key":"60c671507723bebd86689395","_id":"references/60c671507723bebd86689395","_rev":"_cfFly4y---","tei":"\n\t\n\t\tHierarchical Assembly of RNA Three-Dimensional Structures Based on Loop Templates\n\t\t\n\t\t\tXiaojunXu\n\t\t\n\t\t\n\t\t\tShi-JieChen\n\t\t\t0000-0002-8093-7244\n\t\t\n\t\t10.1021/acs.jpcb.7b10102\n\t\t29258305\n\t\t\n\t\n\t\n\t\tThe Journal of Physical Chemistry B\n\t\tJ. Phys. Chem. B\n\t\t1520-6106\n\t\t1520-5207\n\t\t\n\t\t\t122\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c671507723bebd8668938c"},"refKey":25},
{"_key":"60c671797723bebd866893c1","_id":"references/60c671797723bebd866893c1","_rev":"_cfFly5----","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCarolineASchneider\n\t\t\n\t\t\n\t\t\tWayneSRasband\n\t\t\n\t\t\n\t\t\tKevinWEliceiri\n\t\t\n\t\t10.1038/nmeth.2089\n\t\t22930834\n\t\tPMC5554542\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c671797723bebd866893c0"},"refKey":11},
{"_key":"60c671797723bebd866893c2","_id":"references/60c671797723bebd866893c2","_rev":"_cfFly5O---","tei":"\n\t\n\t\tA high-level 3D visualization API for Java and ImageJ\n\t\t\n\t\t\tBenjaminSchmid\n\t\t\n\t\t\n\t\t\tJohannesSchindelin\n\t\t\n\t\t\n\t\t\tAlbertCardona\n\t\t\n\t\t\n\t\t\tMarkLongair\n\t\t\n\t\t\n\t\t\tMartinHeisenberg\n\t\t\n\t\t10.1186/1471-2105-11-274\n\t\t20492697\n\t\tPMC2896381\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t274\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c671797723bebd866893c0"},"refKey":13},
{"_key":"60c671797723bebd866893c3","_id":"references/60c671797723bebd866893c3","_rev":"_cfFly5a---","tei":"\n\t\n\t\tPENELOPE-a code system for Monte Carlo simulation of electron and photon transport\n\t\t\n\t\t\tFSalvat\n\t\t\n\t\n\t\n\t\tWorkshop Proc\n\t\t\t\t\n\t\t\t\n\t\t\t384\n\t\t\n\t\n\n","document":{"$oid":"60c671797723bebd866893c0"},"refKey":20},
{"_key":"60c671797723bebd866893c4","_id":"references/60c671797723bebd866893c4","_rev":"_cfFly5q---","tei":"\n\t\n\t\tAPENELOPE-based system for the automated Monte Carlo simulation of clinacs and voxelized geometries-application to far-from-axis fields\n\t\t\n\t\t\tJosepSempau\n\t\t\n\t\t\n\t\t\tAndreuBadal\n\t\t\n\t\t\n\t\t\tLorenzoBrualla\n\t\t\n\t\t10.1118/1.3643029\n\t\t22047353\n\t\t\n\t\n\t\n\t\tMedical Physics\n\t\tMed. Phys.\n\t\t0094-2405\n\t\t\n\t\t\t38\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c671797723bebd866893c0"},"refKey":21},
{"_key":"60c671d27723bebd866893ef","_id":"references/60c671d27723bebd866893ef","_rev":"_cfFly52---","tei":"\n\t\n\t\tLmbench: portable tools for performance analysis\n\t\t\n\t\t\tLMcvoy\n\t\t\n\t\t\n\t\t\tCStaelin\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the 1996 Annual Conference on USENIX Annual Technical Conference ATEC 1996\n\t\t\t\tthe 1996 Annual Conference on USENIX Annual Technical Conference ATEC 1996Berkeley\n\t\t\n\t\t\tUSENIX Association\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c671d27723bebd866893ee"},"refKey":18},
{"_key":"60c6726a7723bebd86689419","_id":"references/60c6726a7723bebd86689419","_rev":"_cfFly6C---","tei":"\n\t\n\t\tPex–White Box Test Generation for .NET\n\t\t\n\t\t\tNikolaiTillmann\n\t\t\n\t\t\n\t\t\tJonathanDe Halleux\n\t\t\n\t\t10.1007/978-3-540-79124-9_10\n\t\tark:/67375/HCB-M13P9MMM-W\n\t\tEBEAC0011868CE563EE905C0E3CCF274A5C3D523\n\t\t\n\t\n\t\n\t\tTests and Proofs\n\t\t\t\t\n\t\t\tBBeckert\n\t\t\tRHähnle\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t4966\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6726a7723bebd86689418"},"refKey":10},
{"_key":"60c6726a7723bebd8668941a","_id":"references/60c6726a7723bebd8668941a","_rev":"_cfFly6S---","tei":"\n\t\n\t\tSoftware Abstractions: Logic, Language, and Analysis, 2nd edn\n\t\t\n\t\t\tDJackson\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe MIT Press\n\t\t\tCambridge\n\t\t\n\t\n\n","document":{"$oid":"60c6726a7723bebd86689418"},"refKey":5},
{"_key":"60c672837723bebd86689449","_id":"references/60c672837723bebd86689449","_rev":"_cfFly6e---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tSchroedinger, LLC, New York\n\t\t\n\t\n\tversion 1.5.0.1\n\n","document":{"$oid":"60c672837723bebd86689448"},"refKey":81},
{"_key":"60c672837723bebd8668944a","_id":"references/60c672837723bebd8668944a","_rev":"_cfFly6q---","tei":"\n\t\n\t\tJoint X-ray and neutron refinement withphenix.refine\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tMaratMustyakimov\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tPaulLangan\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1107/s0907444910026582\n\t\t21041930\n\t\tPMC2967420\n\t\tark:/67375/WNG-91T3MP4Z-F\n\t\t8B542900E1ABD54CCBEDF321BF1637F06571115C\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c672837723bebd86689448"},"refKey":78},
{"_key":"60c672837723bebd8668944b","_id":"references/60c672837723bebd8668944b","_rev":"_cfFly62---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGBricogne\n\t\t\n\t\t\n\t\t\tEBlanc\n\t\t\n\t\t\n\t\t\tMBrandl\n\t\t\n\t\t\n\t\t\tCFlensburg\n\t\t\n\t\t\n\t\t\tPKeller\n\t\t\n\t\t\n\t\t\tWPaciorek\n\t\t\n\t\t\n\t\t\tPRoversi\n\t\t\n\t\t\n\t\t\tASharff\n\t\t\n\t\t\n\t\t\tOSSmart\n\t\t\n\t\t\n\t\t\tCVonrhein\n\t\t\n\t\t\n\t\t\tTOWomack\n\t\t\n\t\n\t\n\t\tGlobal Phasing Ltd\n\t\t\n\t\t\t\n\t\t\n\t\n\tBUSTER\n\n","document":{"$oid":"60c672837723bebd86689448"},"refKey":79},
{"_key":"60c672837723bebd8668944c","_id":"references/60c672837723bebd8668944c","_rev":"_cfFly7G---","tei":"\n\t\n\t\tPhasercrystallographic software\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tLaurentCStoroni\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t10.1107/s0021889807021206\n\t\t19461840\n\t\tPMC2483472\n\t\tark:/67375/WNG-4GVX4PS6-V\n\t\t197D1845A540D1878B0E50058B5141B05749167F\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t40\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tCrossRef Medline\n\n","document":{"$oid":"60c672837723bebd86689448"},"refKey":75},
{"_key":"60c672997723bebd86689471","_id":"references/60c672997723bebd86689471","_rev":"_cfFly7S---","tei":"\n\t\n\t\tcomorbidity: An R package for computing comorbidity scores\n\t\t\n\t\t\tAlessandroGasparini\n\t\t\t0000-0002-8319-7624\n\t\t\n\t\t10.21105/joss.00648\n\t\n\t\n\t\tJournal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t3\n\t\t\t23\n\t\t\t648\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c672997723bebd86689470"},"refKey":12},
{"_key":"60c672b27723bebd8668947f","_id":"references/60c672b27723bebd8668947f","_rev":"_cfFly7e---","tei":"\n\t\n\t\tCombinative method using HPLC fingerprint and quantitative analyses for quality consistency evaluation of an herbal medicinal preparation produced by different manufacturers\n\t\t\n\t\t\tYanLi\n\t\t\n\t\t\n\t\t\tTaoWu\n\t\t\n\t\t\n\t\t\tJinghuiZhu\n\t\t\n\t\t\n\t\t\tLiliWan\n\t\t\n\t\t\n\t\t\tQiYu\n\t\t\n\t\t\n\t\t\tXingxiaLi\n\t\t\n\t\t\n\t\t\tZhihongCheng\n\t\t\n\t\t\n\t\t\tChengGuo\n\t\t\n\t\t10.1016/j.jpba.2010.01.018\n\t\t20138726\n\t\n\t\n\t\tJournal of Pharmaceutical and Biomedical Analysis\n\t\tJournal of Pharmaceutical and Biomedical Analysis\n\t\t0731-7085\n\t\t\n\t\t\t52\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c672b27723bebd8668947e"},"refKey":41},
{"_key":"60c672b27723bebd86689480","_id":"references/60c672b27723bebd86689480","_rev":"_cfFly7q---","tei":"\n\t\n\t\tSimultaneous Determination of Seven Bioactive Components in Oolong Tea Camellia sinensis: Quality Control by Chemical Composition and HPLC Fingerprints\n\t\t\n\t\t\tYixiangWang\n\t\t\n\t\t\n\t\t\tQingLi\n\t\t\n\t\t\n\t\t\tQianWang\n\t\t\n\t\t\n\t\t\tYujiaoLi\n\t\t\n\t\t\n\t\t\tJunhongLing\n\t\t\n\t\t\n\t\t\tLiliLiu\n\t\t\n\t\t\n\t\t\tXiaohuiChen\n\t\t\n\t\t\n\t\t\tKaishunBi\n\t\t\n\t\t10.1021/jf204312w\n\t\t22098505\n\t\n\t\n\t\tJournal of Agricultural and Food Chemistry\n\t\tJ. Agric. Food Chem.\n\t\t0021-8561\n\t\t1520-5118\n\t\t\n\t\t\t60\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c672b27723bebd8668947e"},"refKey":42},
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{"_key":"60c672cf7723bebd86689495","_id":"references/60c672cf7723bebd86689495","_rev":"_cfFly8G---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.2011.75\n\t\t21988835\n\t\tPMC3261699\n\t\t\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMolecular Systems Biology\n\t\t1744-4292\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c672cf7723bebd86689494"},"refKey":20},
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{"_key":"60c673447723bebd866894e6","_id":"references/60c673447723bebd866894e6","_rev":"_cfFly9----","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c673447723bebd866894e4"},"refKey":22},
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{"_key":"60c674547723bebd866895bf","_id":"references/60c674547723bebd866895bf","_rev":"_cfFlzBi---","tei":"\n\t\n\t\tMultilocus sequence typing for characterization of methicillin-resistant and methicillin-susceptible clones of Staphylococcus aureus\n\t\t\n\t\t\tMCEnright\n\t\t\n\t\t\n\t\t\tNPDay\n\t\t\n\t\t\n\t\t\tDavies Ce\n\t\t\n\t\n\t\n\t\tJ Clin Microbiol\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c674547723bebd866895be"},"refKey":10},
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{"_key":"60c674a27723bebd86689601","_id":"references/60c674a27723bebd86689601","_rev":"_cfFlzCK---","tei":"\n\t\n\t\tEZ-Viz, a tool for simplifying molecular viewing in PyMOL\n\t\t\n\t\t\tLauraGrell\n\t\t\n\t\t\n\t\t\tChristopherParkin\n\t\t\n\t\t\n\t\t\tLenSlatest\n\t\t\n\t\t\n\t\t\tPaulACraig\n\t\t\n\t\t10.1002/bmb.2006.494034062672\n\t\t21638731\n\t\n\t\n\t\tBiochemistry and Molecular Biology Education\n\t\tBiochem. Mol. Biol. Educ.\n\t\t1470-8175\n\t\t1539-3429\n\t\t\n\t\t\t34\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c674a27723bebd86689600"},"refKey":41},
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{"_key":"60c674d67723bebd86689621","_id":"references/60c674d67723bebd86689621","_rev":"_cfFlzDO---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: Improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c674d67723bebd8668961f"},"refKey":18},
{"_key":"60c675177723bebd8668964f","_id":"references/60c675177723bebd8668964f","_rev":"_cfFlzDe---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c675177723bebd8668964e"},"refKey":24},
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{"_key":"60c675177723bebd86689653","_id":"references/60c675177723bebd86689653","_rev":"_cfFlzEW---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\n\t\n\t\tJournal of computational biology: a journal of computational molecular cell biology\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c675177723bebd8668964e"},"refKey":40},
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{"_key":"60c675df7723bebd86689745","_id":"references/60c675df7723bebd86689745","_rev":"_cfFlzJ----","tei":"\n\t\n\t\tIntegrative analysis of environmental sequences using MEGAN4\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tSMitra\n\t\t\n\t\t\n\t\t\tH-JRuscheweyh\n\t\t\n\t\t\n\t\t\tNWeber\n\t\t\n\t\t\n\t\t\tSCSchuster\n\t\t\n\t\t10.1101/gr.120618.111\n\t\t21690186\n\t\tPMC3166839\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c675df7723bebd86689740"},"refKey":29},
{"_key":"60c676387723bebd8668977c","_id":"references/60c676387723bebd8668977c","_rev":"_cfFlzJK---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c676387723bebd8668977b"},"refKey":4},
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{"_key":"60c676387723bebd86689788","_id":"references/60c676387723bebd86689788","_rev":"_cfFlzK----","tei":"\n\t\n\t\tEpitools epidemiological calculators. Ausvet Pty Ltd\n\t\t\n\t\t\tEsgSergeant\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c676387723bebd86689785"},"refKey":30},
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{"_key":"60c676e37723bebd86689804","_id":"references/60c676e37723bebd86689804","_rev":"_cfFlzMu---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.2011.75\n\t\t21988835\n\t\tPMC3261699\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMolecular Systems Biology\n\t\t1744-4292\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c676e37723bebd86689803"},"refKey":27},
{"_key":"60c676e37723bebd86689805","_id":"references/60c676e37723bebd86689805","_rev":"_cfFlzM6---","tei":"\n\t\n\t\tMoRFpred, a computational tool for sequence-based prediction and characterization of short disorder-to-order transitioning binding regions in proteins\n\t\t\n\t\t\tFatemehMiriDisfani\n\t\t\n\t\t\n\t\t\tWei-LunHsu\n\t\t\n\t\t\n\t\t\tMarcinJMizianty\n\t\t\n\t\t\n\t\t\tChristopherJOldfield\n\t\t\n\t\t\n\t\t\tBinXue\n\t\t\n\t\t\n\t\t\tAKeithDunker\n\t\t\n\t\t\n\t\t\tVladimirNUversky\n\t\t\n\t\t\n\t\t\tLukaszKurgan\n\t\t\n\t\t10.1093/bioinformatics/bts209\n\t\t22689782\n\t\tPMC3371841\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c676e37723bebd86689803"},"refKey":41},
{"_key":"60c676e37723bebd86689806","_id":"references/60c676e37723bebd86689806","_rev":"_cfFlzNK---","tei":"\n\t\n\t\tDeciphering key features in protein structures with the new ENDscript server\n\t\t\n\t\t\tXavierRobert\n\t\t\n\t\t\n\t\t\tPatriceGouet\n\t\t\n\t\t10.1093/nar/gku316\n\t\t24753421\n\t\tPMC4086106\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c676e37723bebd86689803"},"refKey":28},
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{"_key":"60c677ce7723bebd8668990d","_id":"references/60c677ce7723bebd8668990d","_rev":"_cfFlzTO---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c677ce7723bebd8668990c"},"refKey":22},
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{"_key":"60c677ce7723bebd8668990f","_id":"references/60c677ce7723bebd8668990f","_rev":"_cfFlzTq---","tei":"\n\t\n\t\tThe ImageJ ecosystem: an open platform for biomedical image analysis\n\t\t\n\t\t\tJSchindelin\n\t\t\n\t\t\n\t\t\tCTRueden\n\t\t\n\t\t\n\t\t\tMCHiner\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tMol Reprod Dev\n\t\t\n\t\t\t82\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c677ce7723bebd8668990c"},"refKey":80},
{"_key":"60c677ce7723bebd86689910","_id":"references/60c677ce7723bebd86689910","_rev":"_cfFlzT6---","tei":"\n\t\n\t\tPhyloBot: a web portal for automated phylogenetics, ancestral sequence reconstruction, and J. Takagi et al. | 17 exploration of mutational trajectories\n\t\t\n\t\t\tHanson-Smith V\n\t\t\n\t\t\n\t\t\tJohnsonA\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t12\n\t\t\te1004976\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c677ce7723bebd8668990c"},"refKey":39},
{"_key":"60c677e97723bebd86689925","_id":"references/60c677e97723bebd86689925","_rev":"_cfFlzUK---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c677e97723bebd86689924"},"refKey":12},
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{"_key":"60c678427723bebd86689956","_id":"references/60c678427723bebd86689956","_rev":"_cfFlzUm---","tei":"\n\t\n\t\tFastQC: a quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c678427723bebd86689954"},"refKey":35},
{"_key":"60c678427723bebd86689957","_id":"references/60c678427723bebd86689957","_rev":"_cfFlzUy---","tei":"\n\t\n\t\tMetaPhyler: Taxonomic profiling for metagenomic sequences\n\t\t\n\t\t\tBoLiu\n\t\t\n\t\t\n\t\t\tTheodoreGibbons\n\t\t\n\t\t\n\t\t\tMohammadGhodsi\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t10.1109/bibm.2010.5706544\n\t\n\t\n\t\t2010 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c678427723bebd86689954"},"refKey":32},
{"_key":"60c678427723bebd86689958","_id":"references/60c678427723bebd86689958","_rev":"_cfFlzVC---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c678427723bebd86689954"},"refKey":36},
{"_key":"60c678427723bebd86689959","_id":"references/60c678427723bebd86689959","_rev":"_cfFlzVO---","tei":"\n\t\n\t\tBBTools\n\t\t\n\t\t\tBBushnell\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c678427723bebd86689954"},"refKey":37},
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{"_key":"60c678427723bebd8668995b","_id":"references/60c678427723bebd8668995b","_rev":"_cfFlzVu---","tei":"\n\t\n\t\tMEGAN analysis of metagenomic data\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tAFAuch\n\t\t\n\t\t\n\t\t\tJQi\n\t\t\n\t\t\n\t\t\tSCSchuster\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\t\n\t\t\t17\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c678427723bebd86689954"},"refKey":29},
{"_key":"60c678427723bebd8668995c","_id":"references/60c678427723bebd8668995c","_rev":"_cfFlzV6---","tei":"\n\t\n\t\tInteractive metagenomic visualization in a Web browser\n\t\t\n\t\t\tBrianDOndov\n\t\t\n\t\t\n\t\t\tNicholasHBergman\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\n\t\t10.1186/1471-2105-12-385\n\t\t21961884\n\t\tPMC3190407\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t385\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c678427723bebd86689954"},"refKey":40},
{"_key":"60c678427723bebd8668995d","_id":"references/60c678427723bebd8668995d","_rev":"_cfFlzWK---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c678427723bebd86689954"},"refKey":39},
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{"_key":"60c678f97723bebd86689a59","_id":"references/60c678f97723bebd86689a59","_rev":"_cfFlzaG---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c678f97723bebd86689a57"},"refKey":27},
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{"_key":"60c678f97723bebd86689a5b","_id":"references/60c678f97723bebd86689a5b","_rev":"_cfFlzae---","tei":"\n\t\n\t\tImproved prediction of signal peptides: SignalP 3.0\n\t\t\n\t\t\tJDBendtsen\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t340\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c678f97723bebd86689a57"},"refKey":25},
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{"_key":"60c679237723bebd86689a7b","_id":"references/60c679237723bebd86689a7b","_rev":"_cfFlzbO---","tei":"\n\t\n\t\tR package nplr n-parameter logistic regressions\n\t\t\n\t\t\tFCommo\n\t\t\n\t\t\n\t\t\tBMBot\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c679237723bebd86689a79"},"refKey":57},
{"_key":"60c679357723bebd86689a8a","_id":"references/60c679357723bebd86689a8a","_rev":"_cfFlzba---","tei":"\n\t\n\t\tGenerating stereochemically acceptable protein pathways\n\t\t\n\t\t\tDanielWFarrell\n\t\t\n\t\t\n\t\t\tKirillSperanskiy\n\t\t\n\t\t\n\t\t\tMFThorpe\n\t\t\n\t\t10.1002/prot.22810\n\t\t20715289\n\t\tark:/67375/WNG-60LHC8C5-L\n\t\t5695DF453687C4219FE924E591879BDDA0921EEF\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t78\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c679357723bebd86689a89"},"refKey":35},
{"_key":"60c679357723bebd86689a8b","_id":"references/60c679357723bebd86689a8b","_rev":"_cfFlzbm---","tei":"\n\t\n\t\tMultiscale modeling of macromolecular conformational changes combining concepts from rigidity and elastic network theory\n\t\t\n\t\t\tAqeelAhmed\n\t\t\n\t\t\n\t\t\tHolgerGohlke\n\t\t\n\t\t10.1002/prot.20907\n\t\t16493629\n\t\tark:/67375/WNG-TH7V5TFN-0\n\t\tC87430F9050FF61C8CC0A2DCED8771EFEEE9AC23\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t63\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c679357723bebd86689a89"},"refKey":36},
{"_key":"60c6796c7723bebd86689ab5","_id":"references/60c6796c7723bebd86689ab5","_rev":"_cfFlzbu---","tei":"\n\t\n\t\tMaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification\n\t\t\n\t\t\tJürgenCox\n\t\t\n\t\t\n\t\t\tMatthiasMann\n\t\t\n\t\t10.1038/nbt.1511\n\t\t19029910\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t26\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6796c7723bebd86689ab4"},"refKey":19},
{"_key":"60c679897723bebd86689ac6","_id":"references/60c679897723bebd86689ac6","_rev":"_cfFlzb6---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c679897723bebd86689ac5"},"refKey":36},
{"_key":"60c679897723bebd86689ac7","_id":"references/60c679897723bebd86689ac7","_rev":"_cfFlzcG---","tei":"\n\t\n\t\tCTFFIND4: Fast and accurate defocus estimation from electron micrographs\n\t\t\n\t\t\tAlexisRohou\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\n\t\t10.1101/020917\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t192\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c679897723bebd86689ac5"},"refKey":37},
{"_key":"60c679897723bebd86689ac8","_id":"references/60c679897723bebd86689ac8","_rev":"_cfFlzcS---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c679897723bebd86689ac5"},"refKey":43},
{"_key":"60c679897723bebd86689ac9","_id":"references/60c679897723bebd86689ac9","_rev":"_cfFlzca---","tei":"\n\t\n\t\tUCSF chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c679897723bebd86689ac5"},"refKey":41},
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{"_key":"60c679a97723bebd86689ae1","_id":"references/60c679a97723bebd86689ae1","_rev":"_cfFlzcy---","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c679a97723bebd86689adf"},"refKey":30},
{"_key":"60c679a97723bebd86689ae2","_id":"references/60c679a97723bebd86689ae2","_rev":"_cfFlzd----","tei":"\n\t\n\t\tIMGT/V-QUEST: the highly customized and integrated system for IG and TR standardized V-J and V-D-J sequence analysis\n\t\t\n\t\t\tXBrochet\n\t\t\n\t\t\n\t\t\tM-PLefranc\n\t\t\n\t\t\n\t\t\tVGiudicelli\n\t\t\n\t\t10.1093/nar/gkn316\n\t\t18503082\n\t\tPMC2447746\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c679a97723bebd86689adf"},"refKey":4},
{"_key":"60c679a97723bebd86689ae3","_id":"references/60c679a97723bebd86689ae3","_rev":"_cfFlzdK---","tei":"\n\t\n\t\tIMGT/V-QUEST: IMGT Standardized Analysis of the Immunoglobulin (IG) and T Cell Receptor (TR) Nucleotide Sequences\n\t\t\n\t\t\tVGiudicelli\n\t\t\n\t\t\n\t\t\tXBrochet\n\t\t\n\t\t\n\t\t\tM-PLefranc\n\t\t\n\t\t10.1101/pdb.prot5633\n\t\t21632778\n\t\t\n\t\n\t\n\t\tCold Spring Harbor Protocols\n\t\tCold Spring Harbor Protocols\n\t\t1559-6095\n\t\t\n\t\t\t2011\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c679a97723bebd86689adf"},"refKey":14},
{"_key":"60c679a97723bebd86689ae4","_id":"references/60c679a97723bebd86689ae4","_rev":"_cfFlzdW---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c679a97723bebd86689adf"},"refKey":16},
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{"_key":"60c679e77723bebd86689b29","_id":"references/60c679e77723bebd86689b29","_rev":"_cfFlzd2---","tei":"\n\t\n\t\tComparing the areas under two or more correlated receiver operating characteristic curves: a nonparametric approach\n\t\t\n\t\t\tERDelong\n\t\t\n\t\t\n\t\t\tDMDelong\n\t\t\n\t\t\n\t\t\tDLClarke-Pearson\n\t\t\n\t\n\t\n\t\tBiometrics\n\t\t\n\t\t\t44\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c679e77723bebd86689b28"},"refKey":16},
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{"_key":"60c67a157723bebd86689b62","_id":"references/60c67a157723bebd86689b62","_rev":"_cfFlzem---","tei":"\n\t\n\t\tThe OpenACC application programming interface\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67a157723bebd86689b61"},"refKey":1},
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{"_key":"60c67a597723bebd86689bc8","_id":"references/60c67a597723bebd86689bc8","_rev":"_cfFlzhG---","tei":"\n\t\n\t\tTreeAge Pro Healthcare R2.1, Software for health economic modelling to analyze medical treatment decisions\n\t\t\n\t\t\t\n\t\t\tTreeAge Software\n\t\t\tWilliamstown, MA, USA\n\t\t\n\t\n\n","document":{"$oid":"60c67a597723bebd86689bc7"},"refKey":18},
{"_key":"60c67a997723bebd86689be3","_id":"references/60c67a997723bebd86689be3","_rev":"_cfFlzhW---","tei":"\n\t\n\t\tDetermination of Domain Structure of Proteins from X-Ray Solution Scattering\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t\n\t\t\tMaximVPetoukhov\n\t\t\n\t\t\n\t\t\tMichelH JKoch\n\t\t\n\t\t10.1016/s0006-3495(01)76260-1\n\t\t11371467\n\t\tPMC1301478\n\t\tS0006-3495(01)76260-1\n\t\tark:/67375/6H6-JQGZ6SXR-Z\n\t\t99BFE1840BF24A9F6639CC29E8DC695D44987424\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t80\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c67a997723bebd86689be2"},"refKey":67},
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{"_key":"60c67aca7723bebd86689c07","_id":"references/60c67aca7723bebd86689c07","_rev":"_cfFlziq---","tei":"\n\t\n\t\tThe Observer XT: A tool for the integration and synchronization of multimodal signals\n\t\t\n\t\t\tPatrickHZimmerman\n\t\t\n\t\t\n\t\t\tJElizabethBolhuis\n\t\t\n\t\t\n\t\t\tAlbertWillemsen\n\t\t\n\t\t\n\t\t\tErikSMeyer\n\t\t\n\t\t\n\t\t\tLucasP J JNoldus\n\t\t\n\t\t10.3758/brm.41.3.731\n\t\t19587185\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t41\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c67aca7723bebd86689c04"},"refKey":58},
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{"_key":"60c67b187723bebd86689c2e","_id":"references/60c67b187723bebd86689c2e","_rev":"_cfFlzje---","tei":"\n\t\n\t\tCrystal structure of cat muscle pyruvate kinase at a resolution of 2.6 Å\n\t\t\n\t\t\tDavidIStuart\n\t\t\n\t\t\n\t\t\tMichaelLevine\n\t\t\n\t\t\n\t\t\tHilaryMuirhead\n\t\t\n\t\t\n\t\t\tDavidKStammers\n\t\t\n\t\t10.1016/0022-2836(79)90416-9\n\t\t537059\n\t\t0022-2836(79)90416-9\n\t\tark:/67375/6H6-2R0057Q9-J\n\t\t9ADBEEA3222EC2CA9E7A5CCCB298BC1DBEF72354\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t134\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c67b187723bebd86689c2a"},"refKey":24},
{"_key":"60c67b227723bebd86689c3f","_id":"references/60c67b227723bebd86689c3f","_rev":"_cfFlzju---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67b227723bebd86689c3e"},"refKey":41},
{"_key":"60c67b227723bebd86689c40","_id":"references/60c67b227723bebd86689c40","_rev":"_cfFlzj6---","tei":"\n\t\n\t\tPredicting secretory proteins with SignalP\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t1611\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67b227723bebd86689c3e"},"refKey":42},
{"_key":"60c67b637723bebd86689c65","_id":"references/60c67b637723bebd86689c65","_rev":"_cfFlzkG---","tei":"\n\t\n\t\tEpiEstim: Estimate time varying reproduction numbers from epidemic curves\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tSimonCauchemez\n\t\t\n\t\t\n\t\t\tNeilMFerguson\n\t\t\n\t\t\n\t\t\tChristopheFraser\n\t\t\n\t\t\n\t\t\tElisabethDahlqwist\n\t\t\n\t\t\n\t\t\tPAlexDemarsh\n\t\t\n\t\t\n\t\t\tThibautJombart\n\t\t\n\t\t\n\t\t\tNZhian\n\t\t\n\t\t\n\t\t\tJustinKamvar\n\t\t\n\t\t\n\t\t\tShikunLessler\n\t\t\n\t\t\n\t\t\tJonathanALi\n\t\t\n\t\t\n\t\t\tJakePolonsky\n\t\t\n\t\t\n\t\t\tRobinStockwin\n\t\t\n\t\t\n\t\t\tRolinaThompson\n\t\t\n\t\t\n\t\t\tVan Gaalen\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67b637723bebd86689c64"},"refKey":10},
{"_key":"60c67b637723bebd86689c66","_id":"references/60c67b637723bebd86689c66","_rev":"_cfFlzkS---","tei":"\n\t\n\t\tA new framework and software to estimate time-varying reproduction numbers during epidemics\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tNeilMFerguson\n\t\t\n\t\t\n\t\t\tChristopheFraser\n\t\t\n\t\t\n\t\t\tSimonCauchemez\n\t\t\n\t\t\n\t\t\t\n\t\t\tPublisher: Oxford Academic\n\t\t\t178\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67b637723bebd86689c64"},"refKey":6},
{"_key":"60c67b697723bebd86689c8f","_id":"references/60c67b697723bebd86689c8f","_rev":"_cfFlzke---","tei":"\n\t\n\t\tTOPAS: An innovative proton Monte Carlo platform for research and clinical applications\n\t\t\n\t\t\tJPerl\n\t\t\n\t\t\n\t\t\tJShin\n\t\t\n\t\t\n\t\t\tJSchümann\n\t\t\n\t\t\n\t\t\tBFaddegon\n\t\t\n\t\t\n\t\t\tHPaganetti\n\t\t\n\t\t10.1118/1.4758060\n\t\t23127075\n\t\tPMC3493036\n\t\t\n\t\n\t\n\t\tMedical Physics\n\t\tMed. Phys.\n\t\t0094-2405\n\t\t\n\t\t\t39\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c67b697723bebd86689c8e"},"refKey":27},
{"_key":"60c67b927723bebd86689cb3","_id":"references/60c67b927723bebd86689cb3","_rev":"_cfFlzkq---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c67b927723bebd86689cb2"},"refKey":58},
{"_key":"60c67be37723bebd86689ce8","_id":"references/60c67be37723bebd86689ce8","_rev":"_cfFlzk2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c67be37723bebd86689ce7"},"refKey":35},
{"_key":"60c67be37723bebd86689ce9","_id":"references/60c67be37723bebd86689ce9","_rev":"_cfFlzlC---","tei":"\n\t\n\t\tMolecular recognition of receptor sites using a genetic algorithm with a description of desolvation\n\t\t\n\t\t\tGarethJones\n\t\t\n\t\t\n\t\t\tPeterWillett\n\t\t\n\t\t\n\t\t\tRobertCGlen\n\t\t\n\t\t10.1016/s0022-2836(95)80037-9\n\t\t7823319\n\t\tS0022-2836(95)80037-9\n\t\tark:/67375/6H6-NXJ4W1C4-M\n\t\t1BED883747BD5A7E778E29961EA906C28832A5F9\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t245\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c67be37723bebd86689ce7"},"refKey":34},
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{"_key":"60c67be37723bebd86689ceb","_id":"references/60c67be37723bebd86689ceb","_rev":"_cfFlzla---","tei":"\n\t\n\t\tValidation Studies of the Site-Directed Docking Program LibDock\n\t\t\n\t\t\tShashidharNRao\n\t\t\n\t\t\n\t\t\tMarthaSHead\n\t\t\n\t\t\n\t\t\tAmitKulkarni\n\t\t\n\t\t\n\t\t\tJudithMLalonde\n\t\t\n\t\t10.1021/ci6004299\n\t\t17985863\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t47\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c67be37723bebd86689ce7"},"refKey":33},
{"_key":"60c67beb7723bebd86689d04","_id":"references/60c67beb7723bebd86689d04","_rev":"_cfFlzlm---","tei":"\n\t\n\t\tProPred1: prediction of promiscuous MHC Class-I binding sites\n\t\t\n\t\t\tHSingh\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1093/bioinformatics/btg108\n\t\t12761064\n\t\t1460-2059\n\t\tark:/67375/HXZ-W63PBHVH-X\n\t\t18A2098B16DF8D713C7335EC78566D6FD2D7D2E4\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c67beb7723bebd86689d03"},"refKey":54},
{"_key":"60c67beb7723bebd86689d05","_id":"references/60c67beb7723bebd86689d05","_rev":"_cfFlzly---","tei":"\n\t\n\t\tI-TASSER: a unified platform for automated protein structure and function prediction\n\t\t\n\t\t\tARoy\n\t\t\n\t\t\n\t\t\tAKucukural\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t5\n\t\t\t4\n\t\t\t725\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67beb7723bebd86689d03"},"refKey":44},
{"_key":"60c67beb7723bebd86689d06","_id":"references/60c67beb7723bebd86689d06","_rev":"_cfFlzm----","tei":"\n\t\n\t\tSOPMA: significant improvements in protein secondary structure prediction by consensus prediction from multiple alignments\n\t\t\n\t\t\tCGeourjon\n\t\t\n\t\t\n\t\t\tGDeléage\n\t\t\n\t\t10.1093/bioinformatics/11.6.681\n\t\tark:/67375/HXZ-3NCG9X08-F\n\t\tF28C01AB29C5F411E08EAED1E7B846C54236DDE3\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t11\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c67beb7723bebd86689d03"},"refKey":8},
{"_key":"60c67beb7723bebd86689d07","_id":"references/60c67beb7723bebd86689d07","_rev":"_cfFlzmK---","tei":"\n\t\n\t\tProtein identification and analysis tools on the ExPASy server\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\t\n\t\t\tMRWilkins\n\t\t\n\t\t\n\t\t\tRDAppel\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\n\t\n\t\tWalker JM (ed) The proteomics protocols handbook\n\t\t\t\tNew York\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67beb7723bebd86689d03"},"refKey":6},
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{"_key":"60c67c2e7723bebd86689d67","_id":"references/60c67c2e7723bebd86689d67","_rev":"_cfFlzmu---","tei":"\n\t\n\t\tAnalysis tool web services from the EMBL-EBI\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tMUludag\n\t\t\n\t\t\n\t\t\tSSquizzato\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tAPCowley\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67c2e7723bebd86689d65"},"refKey":35},
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{"_key":"60c67c6c7723bebd86689dc3","_id":"references/60c67c6c7723bebd86689dc3","_rev":"_cfFlznC---","tei":"\n\t\n\t\tThe foldx web server: an online force field\n\t\t\n\t\t\tJSchymkowitz\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67c6c7723bebd86689dc2"},"refKey":17},
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{"_key":"60c67c6c7723bebd86689dc5","_id":"references/60c67c6c7723bebd86689dc5","_rev":"_cfFlzna---","tei":"\n\t\n\t\tScikit-learn: machine learning in python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\n\t\n\t\tJ. Machine Learning Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67c6c7723bebd86689dc2"},"refKey":36},
{"_key":"60c67c6c7723bebd86689dc6","_id":"references/60c67c6c7723bebd86689dc6","_rev":"_cfFlznm---","tei":"\n\t\n\t\tAn Orientation-dependent Hydrogen Bonding Potential Improves Prediction of Specificity and Structure for Proteins and Protein–Protein Complexes\n\t\t\n\t\t\tTanjaKortemme\n\t\t\n\t\t\n\t\t\tAlexandreVMorozov\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t10.1016/s0022-2836(03)00021-4\n\t\t12589766\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t326\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c67c6c7723bebd86689dc2"},"refKey":12},
{"_key":"60c67c6c7723bebd86689dc7","_id":"references/60c67c6c7723bebd86689dc7","_rev":"_cfFlzny---","tei":"\n\t\n\t\tProtein Structure Modeling with MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1007/978-1-4939-0366-5_1\n\t\t24573470\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t47\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67c6c7723bebd86689dc2"},"refKey":14},
{"_key":"60c67c6c7723bebd86689dc8","_id":"references/60c67c6c7723bebd86689dc8","_rev":"_cfFlzo----","tei":"\n\t\n\t\tdbMPIKT: a database of kinetic and thermodynamic mutant protein interactions\n\t\t\n\t\t\tQuanyaLiu\n\t\t\n\t\t\n\t\t\tPengChen\n\t\t\t0000-0002-5810-8159\n\t\t\n\t\t\n\t\t\tBingWang\n\t\t\n\t\t\n\t\t\tJunZhang\n\t\t\n\t\t\n\t\t\tJinyanLi\n\t\t\n\t\t10.1186/s12859-018-2493-7\n\t\t30482172\n\t\tPMC6260753\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t455\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c67c6c7723bebd86689dc2"},"refKey":45},
{"_key":"60c67c7c7723bebd86689dda","_id":"references/60c67c7c7723bebd86689dda","_rev":"_cfFlzoG---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c67c7c7723bebd86689dd9"},"refKey":42},
{"_key":"60c67c7c7723bebd86689ddb","_id":"references/60c67c7c7723bebd86689ddb","_rev":"_cfFlzoS---","tei":"\n\t\n\t\tProfile hidden Markov models\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67c7c7723bebd86689dd9"},"refKey":39},
{"_key":"60c67c7c7723bebd86689ddc","_id":"references/60c67c7c7723bebd86689ddc","_rev":"_cfFlzoe---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMolecular biology and evolution\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67c7c7723bebd86689dd9"},"refKey":41},
{"_key":"60c67c9d7723bebd86689dfc","_id":"references/60c67c9d7723bebd86689dfc","_rev":"_cfFlzoq---","tei":"\n\t\n\t\tBiomolecules in the computer: Jmol to the rescue\n\t\t\n\t\t\tAngelHerráez\n\t\t\n\t\t10.1002/bmb.2006.494034042644\n\t\t21638687\n\t\n\t\n\t\tBiochemistry and Molecular Biology Education\n\t\tBiochem. Mol. Biol. Educ.\n\t\t1470-8175\n\t\t1539-3429\n\t\t\n\t\t\t34\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c67c9d7723bebd86689dfb"},"refKey":44},
{"_key":"60c67c9f7723bebd86689e00","_id":"references/60c67c9f7723bebd86689e00","_rev":"_cfFlzo2---","tei":"\n\t\n\t\tProspects for inferring very large phylogenies by using the neighbor-joining method\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci\n\t\t\n\t\t\t101\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67c9f7723bebd86689dff"},"refKey":14},
{"_key":"60c67c9f7723bebd86689e01","_id":"references/60c67c9f7723bebd86689e01","_rev":"_cfFlzpC---","tei":"\n\t\n\t\tMEGA5: Molecular Evolutionary Genetics Analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67c9f7723bebd86689dff"},"refKey":15},
{"_key":"60c67cb97723bebd86689e15","_id":"references/60c67cb97723bebd86689e15","_rev":"_cfFlzpK---","tei":"\n\t\n\t\tLinear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments\n\t\t\n\t\t\tGordonKSmyth\n\t\t\n\t\t10.2202/1544-6115.1027\n\t\t16646809\n\t\tark:/67375/QT4-4H6K59TF-1\n\t\tBA48F7F1DF42836DD59240FDB307838F792478B7\n\t\t\n\t\n\t\n\t\tStatistical Applications in Genetics and Molecular Biology\n\t\t1544-6115\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWalter de Gruyter GmbH\n\t\t\n\t\n\n","document":{"$oid":"60c67cb97723bebd86689e14"},"refKey":41},
{"_key":"60c67ccf7723bebd86689e21","_id":"references/60c67ccf7723bebd86689e21","_rev":"_cfFlzpW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tULund\n\t\t\n\t\t\n\t\t\tCAgostinelli\n\t\t\n\t\t\n\t\t\tHArai\n\t\t\n\t\t\n\t\t\tAGagliardi\n\t\t\n\t\t\n\t\t\tEGPortugues\n\t\t\n\t\t\n\t\t\tDGiunchi\n\t\t\n\t\t\n\t\t\tJOIrisson\n\t\t\n\t\t\n\t\t\tMPocernich\n\t\t\n\t\t\n\t\t\tFRotolo\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67ccf7723bebd86689e20"},"refKey":36},
{"_key":"60c67ce07723bebd86689e2a","_id":"references/60c67ce07723bebd86689e2a","_rev":"_cfFlzpi---","tei":"\n\t\n\t\tSCENIC: Single-cell regulatory network inference and clustering\n\t\t\n\t\t\tSaraAibar\n\t\t\t0000-0001-6104-7134\n\t\t\n\t\t\n\t\t\tCarmenBravoGonzález-Blas\n\t\t\n\t\t\n\t\t\tThomasMoerman\n\t\t\n\t\t\n\t\t\tJasperWouters\n\t\t\n\t\t\n\t\t\tVânAnhHuynh-Thu\n\t\t\n\t\t\n\t\t\tHanaImrichova\n\t\t\n\t\t\n\t\t\tZeynepKalenderAtak\n\t\t\n\t\t\n\t\t\tGertHulselmans\n\t\t\n\t\t\n\t\t\tMichaelDewaele\n\t\t\n\t\t\n\t\t\tFlorianRambow\n\t\t\n\t\t\n\t\t\tPierreGeurts\n\t\t\n\t\t\n\t\t\tJanAerts\n\t\t\n\t\t\n\t\t\tJean-ChristopheMarine\n\t\t\n\t\t\n\t\t\tJoostVanDen Oord\n\t\t\n\t\t\n\t\t\tSteinAerts\n\t\t\n\t\t10.1101/144501\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c67ce07723bebd86689e29"},"refKey":76},
{"_key":"60c67ce07723bebd86689e2b","_id":"references/60c67ce07723bebd86689e2b","_rev":"_cfFlzpu---","tei":"\n\t\n\t\tTrajectory-based differential expression analysis for single-cell sequencing data\n\t\t\n\t\t\tKoenVan Den Berge\n\t\t\n\t\t\n\t\t\tHectorRouxDe Bézieux\n\t\t\t0000-0002-1489-8339\n\t\t\n\t\t\n\t\t\tKellyStreet\n\t\t\n\t\t\n\t\t\tWouterSaelens\n\t\t\t0000-0002-7114-6248\n\t\t\n\t\t\n\t\t\tRobrechtCannoodt\n\t\t\t0000-0003-3641-729X\n\t\t\n\t\t\n\t\t\tYvanSaeys\n\t\t\t0000-0002-0415-1506\n\t\t\n\t\t\n\t\t\tSandrineDudoit\n\t\t\t0000-0002-6069-8629\n\t\t\n\t\t\n\t\t\tLievenClement\n\t\t\t0000-0002-9050-4370\n\t\t\n\t\t10.1101/623397\n\t\t\n\t\n\t\n\t\tNat. Commun\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c67ce07723bebd86689e29"},"refKey":77},
{"_key":"60c67ce07723bebd86689e2c","_id":"references/60c67ce07723bebd86689e2c","_rev":"_cfFlzp6---","tei":"\n\t\n\t\tDoubletFinder: Doublet detection in single-cell RNA sequencing data using artificial nearest neighbors\n\t\t\n\t\t\tChristopherSMcginnis\n\t\t\t0000-0001-6923-9341\n\t\t\n\t\t\n\t\t\tLyndsayMMurrow\n\t\t\n\t\t\n\t\t\tZevJGartner\n\t\t\t0000-0001-7803-1219\n\t\t\n\t\t10.1101/352484\n\t\t\n\t\n\t\n\t\tCell Syst\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c67ce07723bebd86689e29"},"refKey":70},
{"_key":"60c67d147723bebd86689e62","_id":"references/60c67d147723bebd86689e62","_rev":"_cfFlzqG---","tei":"\n\t\n\t\tDynaMut: predicting the impact of mutations on protein conformation, flexibility and stability\n\t\t\n\t\t\tCHRodrigues\n\t\t\n\t\t\n\t\t\tDEPires\n\t\t\n\t\t\n\t\t\tDBAscher\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67d147723bebd86689e61"},"refKey":27},
{"_key":"60c67d147723bebd86689e63","_id":"references/60c67d147723bebd86689e63","_rev":"_cfFlzqS---","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c67d147723bebd86689e61"},"refKey":45},
{"_key":"60c67d147723bebd86689e64","_id":"references/60c67d147723bebd86689e64","_rev":"_cfFlzqe---","tei":"\n\t\n\t\tPTRAJ and CPPTRAJ: software for processing and analysis of molecular dynamics trajectory data\n\t\t\n\t\t\tDRRoe\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tIii\n\t\t\n\t\n\t\n\t\tJ. Chem. Theory Comput\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67d147723bebd86689e61"},"refKey":28},
{"_key":"60c67d237723bebd86689e77","_id":"references/60c67d237723bebd86689e77","_rev":"_cfFlzqq---","tei":"\n\t\n\t\tThe microRNA.org resource: targets and expression\n\t\t\n\t\t\tDBetel\n\t\t\n\t\t\n\t\t\tMWilson\n\t\t\n\t\t\n\t\t\tAGabow\n\t\t\n\t\t\n\t\t\tDSMarks\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\t10.1093/nar/gkm995\n\t\t18158296\n\t\tPMC2238905\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c67d237723bebd86689e76"},"refKey":3},
{"_key":"60c67d367723bebd86689e82","_id":"references/60c67d367723bebd86689e82","_rev":"_cfFlzq2---","tei":"\n\t\n\t\tAn evolutionary many-objective optimization algorithm using reference-point-based nondominated sorting approach, part i: solving problems with box constraints\n\t\t\n\t\t\tKDeb\n\t\t\n\t\t\n\t\t\tHJain\n\t\t\n\t\n\t\n\t\tIEEE transactions on evolutionary computation\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67d367723bebd86689e81"},"refKey":10},
{"_key":"60c67d367723bebd86689e83","_id":"references/60c67d367723bebd86689e83","_rev":"_cfFlzrC---","tei":"\n\t\n\t\tA reference vector guided evolutionary algorithm for many-objective optimization\n\t\t\n\t\t\tRCheng\n\t\t\n\t\t\n\t\t\tYJin\n\t\t\n\t\t\n\t\t\tMOlhofer\n\t\t\n\t\t\n\t\t\tBSendhoff\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Evolutionary Computation\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67d367723bebd86689e81"},"refKey":2},
{"_key":"60c67d367723bebd86689e84","_id":"references/60c67d367723bebd86689e84","_rev":"_cfFlzrO---","tei":"\n\t\n\t\tMoea/d: A multiobjective evolutionary algorithm based on decomposition\n\t\t\n\t\t\tQZhang\n\t\t\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tIEEE Transactions on evolutionary computation\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67d367723bebd86689e81"},"refKey":55},
{"_key":"60c67d367723bebd86689e85","_id":"references/60c67d367723bebd86689e85","_rev":"_cfFlzra---","tei":"\n\t\n\t\tAn Indicator-Based Multiobjective Evolutionary Algorithm With Reference Point Adaptation for Better Versatility\n\t\t\n\t\t\tYeTian\n\t\t\n\t\t\n\t\t\tRanCheng\n\t\t\t0000-0001-9410-8263\n\t\t\n\t\t\n\t\t\tXingyiZhang\n\t\t\t0000-0002-5052-000X\n\t\t\n\t\t\n\t\t\tFanCheng\n\t\t\n\t\t\n\t\t\tYaochuJin\n\t\t\t0000-0003-1100-0631\n\t\t\n\t\t10.1109/tevc.2017.2749619\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Evolutionary Computation\n\t\tIEEE Trans. Evol. Computat.\n\t\t1089-778X\n\t\t1941-0026\n\t\t\n\t\t\t22\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c67d367723bebd86689e81"},"refKey":43},
{"_key":"60c67d5b7723bebd86689e92","_id":"references/60c67d5b7723bebd86689e92","_rev":"_cfFlzrm---","tei":"\n\t\n\t\ta high-throughput and highly parallel open source molecular simulation toolkit\n\t\t\n\t\t\tSPronk\n\t\t\n\t\t\n\t\t\tSPall\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tPLarsson\n\t\t\n\t\t\n\t\t\tPBjelkmar\n\t\t\n\t\t\n\t\t\tRApostolov\n\t\t\n\t\t\n\t\t\tMRShirts\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tPMKasson\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\tGROMACS 4.5\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67d5b7723bebd86689e91"},"refKey":14},
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{"_key":"60c67d717723bebd86689ec3","_id":"references/60c67d717723bebd86689ec3","_rev":"_cfFlzs----","tei":"\n\t\n\t\tNatural language question answering over RDF: a graph data driven approach\n\t\t\n\t\t\tLZou\n\t\t\n\t\t\n\t\t\tRHuang\n\t\t\n\t\t\n\t\t\tHWang\n\t\t\n\t\t\n\t\t\tJXYu\n\t\t\n\t\t\n\t\t\tWHe\n\t\t\n\t\t\n\t\t\tDZhao\n\t\t\n\t\n\t\n\t\tProceedings of the 2014 ACM SIGMOD International Conference on Management of Data\n\t\t\t\tthe 2014 ACM SIGMOD International Conference on Management of Data\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67d717723bebd86689ec1"},"refKey":19},
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{"_key":"60c67d717723bebd86689ec5","_id":"references/60c67d717723bebd86689ec5","_rev":"_cfFlzsS---","tei":"\n\t\n\t\tThe QALL-ME Framework: A Specifiable-Domain Multilingual Question Answering Architecture\n\t\t\n\t\t\tOscarFerrandez\n\t\t\n\t\t\n\t\t\tChristianSpurk\n\t\t\n\t\t\n\t\t\tMilenKouylekov\n\t\t\n\t\t\n\t\t\tIustinDornescu\n\t\t\n\t\t\n\t\t\tSergioFerrandez\n\t\t\n\t\t\n\t\t\tMatteoNegri\n\t\t\n\t\t\n\t\t\tRubenIzquierdo\n\t\t\n\t\t\n\t\t\tDavidTomas\n\t\t\n\t\t\n\t\t\tConstantinOrasan\n\t\t\n\t\t\n\t\t\tGuenterNeumann\n\t\t\n\t\t\n\t\t\tBernardoMagnini\n\t\t\n\t\t\n\t\t\tJoseLuisVicedo\n\t\t\n\t\t10.2139/ssrn.3199513\n\t\n\t\n\t\tSSRN Electronic Journal\n\t\tSSRN Journal\n\t\t1556-5068\n\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c67d717723bebd86689ec1"},"refKey":11},
{"_key":"60c67d717723bebd86689ec6","_id":"references/60c67d717723bebd86689ec6","_rev":"_cfFlzse---","tei":"\n\t\n\t\tPageRank and Generic Entity Summarization for RDF Knowledge Bases\n\t\t\n\t\t\tDennisDiefenbach\n\t\t\t0000-0002-0046-2219\n\t\t\n\t\t\n\t\t\tAndreasThalhammer\n\t\t\t0000-0002-0991-5771\n\t\t\n\t\t10.1007/978-3-319-93417-4_10\n\t\t\n\t\t\n\t\n\t\n\t\tThe Semantic Web\n\t\t\t\t\n\t\t\tAGangemi\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t10843\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67d717723bebd86689ec1"},"refKey":10},
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{"_key":"60c67e017723bebd86689fc6","_id":"references/60c67e017723bebd86689fc6","_rev":"_cfFlzwa---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDM AMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btp033\n\t\t19151095\n\t\tPMC2672624\n\t\tark:/67375/HXZ-5L762ZQS-N\n\t\t984BAD740626CEADBD2E31F4094D8E18B07D49EA\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c67e017723bebd86689fc5"},"refKey":13},
{"_key":"60c67e017723bebd86689fc7","_id":"references/60c67e017723bebd86689fc7","_rev":"_cfFlzwm---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c67e017723bebd86689fc5"},"refKey":15},
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{"_key":"60c67e5d7723bebd8668a018","_id":"references/60c67e5d7723bebd8668a018","_rev":"_cfFlzxe---","tei":"\n\t\n\t\tClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks\n\t\t\n\t\t\tGabrielaBindea\n\t\t\n\t\t\n\t\t\tBernhardMlecnik\n\t\t\n\t\t\n\t\t\tHubertHackl\n\t\t\n\t\t\n\t\t\tPornpimolCharoentong\n\t\t\n\t\t\n\t\t\tMarieTosolini\n\t\t\n\t\t\n\t\t\tAmosKirilovsky\n\t\t\n\t\t\n\t\t\tWolf-HermanFridman\n\t\t\n\t\t\n\t\t\tFranckPagès\n\t\t\n\t\t\n\t\t\tZlatkoTrajanoski\n\t\t\n\t\t\n\t\t\tJérômeGalon\n\t\t\n\t\t10.1093/bioinformatics/btp101\n\t\t19237447\n\t\tPMC2666812\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c67e5d7723bebd8668a016"},"refKey":6},
{"_key":"60c67e5d7723bebd8668a019","_id":"references/60c67e5d7723bebd8668a019","_rev":"_cfFlzxm---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tJohnHMorris\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\t0000-0001-6227-0637\n\t\t\n\t\t10.1002/pro.3235\n\t\t28710774\n\t\tPMC5734306\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c67e5d7723bebd8668a016"},"refKey":12},
{"_key":"60c67e5d7723bebd8668a01a","_id":"references/60c67e5d7723bebd8668a01a","_rev":"_cfFlzxy---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c67e5d7723bebd8668a016"},"refKey":29},
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{"_key":"60c67ec97723bebd8668a091","_id":"references/60c67ec97723bebd8668a091","_rev":"_cfFlzzK---","tei":"\n\t\n\t\tAutomated docking using a Lamarckian genetic algorithm and an empirical binding free energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tRSHalliday\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWEHart\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t19\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67ec97723bebd8668a08f"},"refKey":25},
{"_key":"60c67ec97723bebd8668a092","_id":"references/60c67ec97723bebd8668a092","_rev":"_cfFlzzW---","tei":"\n\t\n\t\tAvogadro: an advanced semantic chemical editor, visualization, and analysis platform\n\t\t\n\t\t\tMDHanwell\n\t\t\n\t\t\n\t\t\tDECurtis\n\t\t\n\t\t\n\t\t\tDCLonie\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tEZurek\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\n\t\n\t\tJ. Cheminform\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t17\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67ec97723bebd8668a08f"},"refKey":26},
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{"_key":"60c67f417723bebd8668a100","_id":"references/60c67f417723bebd8668a100","_rev":"_cfFlz1y---","tei":"\n\t\n\t\tModeltest: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67f417723bebd8668a0f6"},"refKey":59},
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{"_key":"60c67f817723bebd8668a163","_id":"references/60c67f817723bebd8668a163","_rev":"_cfFlz2e---","tei":"\n\t\n\t\tMaximum-likelihood density modification\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t10.1107/s0907444900005072\n\t\t10944333\n\t\tPMC2792768\n\t\tark:/67375/WNG-G78MB7VN-V\n\t\tE5E40A4D058E31D1F89D6174A3357514126EE724\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t56\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c67f817723bebd8668a160"},"refKey":27},
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{"_key":"60c67fc87723bebd8668a196","_id":"references/60c67fc87723bebd8668a196","_rev":"_cfFlz3i---","tei":"\n\t\n\t\tMega7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMolecular biology and evolution\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":45},
{"_key":"60c67fc87723bebd8668a197","_id":"references/60c67fc87723bebd8668a197","_rev":"_cfFlz3u---","tei":"\n\t\n\t\tAliview: a fast and lightweight alignment viewer and editor for large datasets. Bioinformatics\n\t\t\n\t\t\tALarsson\n\t\t\n\t\t\n\t\t\t\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":48},
{"_key":"60c67fc87723bebd8668a198","_id":"references/60c67fc87723bebd8668a198","_rev":"_cfFlz36---","tei":"\n\t\n\t\tEstimating Diversifying Selection and Functional Constraint in the Presence of Recombination\n\t\t\n\t\t\tDanielJWilson\n\t\t\n\t\t\n\t\t\tGileanMcvean\n\t\t\n\t\t10.1534/genetics.105.044917\n\t\t16387887\n\t\tPMC1456295\n\t\t\n\t\n\t\n\t\tGenetics\n\t\tGenetics\n\t\t0016-6731\n\t\t1943-2631\n\t\t\n\t\t\t172\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tGenetics Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":96},
{"_key":"60c67fc87723bebd8668a199","_id":"references/60c67fc87723bebd8668a199","_rev":"_cfFlz4C---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":6},
{"_key":"60c67fc87723bebd8668a19a","_id":"references/60c67fc87723bebd8668a19a","_rev":"_cfFlz4O---","tei":"\n\t\n\t\tape 5.0: an environment for modern phylogenetics and evolutionary analyses in R\n\t\t\n\t\t\tEParadis\n\t\t\n\t\t\n\t\t\tKSchliep\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":66},
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{"_key":"60c67fc87723bebd8668a19c","_id":"references/60c67fc87723bebd8668a19c","_rev":"_cfFlz4m---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using tempest (formerly path-o-gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\n\t\n\t\tVirus evolution\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":72},
{"_key":"60c67fc87723bebd8668a19d","_id":"references/60c67fc87723bebd8668a19d","_rev":"_cfFlz4u---","tei":"\n\t\n\t\tMultiple alignment of dna sequences with mafft\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tGAsimenos\n\t\t\n\t\t\n\t\t\tHToh\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t537\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":44},
{"_key":"60c67fc87723bebd8668a19e","_id":"references/60c67fc87723bebd8668a19e","_rev":"_cfFlz46---","tei":"\n\t\n\t\tFast gapped-read alignment with bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":47},
{"_key":"60c67fc87723bebd8668a19f","_id":"references/60c67fc87723bebd8668a19f","_rev":"_cfFlz5G---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":21},
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{"_key":"60c67fc87723bebd8668a1a1","_id":"references/60c67fc87723bebd8668a1a1","_rev":"_cfFlz5a---","tei":"\n\t\n\t\tViral population analysis and minority-variant detection using short read next-generation sequencing\n\t\t\n\t\t\tSJWatson\n\t\t\n\t\t\n\t\t\tMR AWelkers\n\t\t\n\t\t\n\t\t\tDPDepledge\n\t\t\n\t\t\n\t\t\tECoulter\n\t\t\n\t\t\n\t\t\tJMBreuer\n\t\t\n\t\t\n\t\t\tMDDe Jong\n\t\t\n\t\t\n\t\t\tPKellam\n\t\t\n\t\n\t\n\t\tPhilosophical Transactions of the Royal Society B: Biological Sciences\n\t\t\n\t\t\t368\n\t\t\t20120205\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":94},
{"_key":"60c67fc87723bebd8668a1a2","_id":"references/60c67fc87723bebd8668a1a2","_rev":"_cfFlz5m---","tei":"\n\t\n\t\tadephylo: new tools for investigating the phylogenetic signal in biological traits\n\t\t\n\t\t\tThibautJombart\n\t\t\n\t\t\n\t\t\tFrançoisBalloux\n\t\t\n\t\t\n\t\t\tStéphaneDray\n\t\t\n\t\t10.1093/bioinformatics/btq292\n\t\t20525823\n\t\tark:/67375/HXZ-3QWQ8JGP-2\n\t\tC6FD19F79BE63EDECC3A10DED621C81D1FBFE06F\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":39},
{"_key":"60c67fc87723bebd8668a1a3","_id":"references/60c67fc87723bebd8668a1a3","_rev":"_cfFlz5y---","tei":"\n\t\n\t\tQuality control and preprocessing of metagenomic datasets\n\t\t\n\t\t\tRSchmieder\n\t\t\n\t\t\n\t\t\tREdwards\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c67fc87723bebd8668a192"},"refKey":78},
{"_key":"60c67fd67723bebd8668a1cb","_id":"references/60c67fd67723bebd8668a1cb","_rev":"_cfFlz6----","tei":"\n\t\n\t\tPhylogenetic Models of Molecular Evolution: Next-Generation Data, Fit, and Performance\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t10.1007/s00239-013-9566-z\n\t\t23695649\n\t\tPMC4594774\n\t\tark:/67375/VQC-8Z8TQKF9-R\n\t\t2ABEA35B2F0BD13236DF95B1459859BE0A7211BC\n\t\t\n\t\n\t\n\t\tJournal of Molecular Evolution\n\t\tJ Mol Evol\n\t\t0022-2844\n\t\t1432-1432\n\t\t\n\t\t\t76\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c67fd67723bebd8668a1ca"},"refKey":7},
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{"_key":"60c680587723bebd8668a242","_id":"references/60c680587723bebd8668a242","_rev":"_cfFlz7W---","tei":"\n\t\n\t\tCatboost: unbiased boosting with categorical features\n\t\t\n\t\t\tPLiudmila\n\t\t\n\t\t\n\t\t\tGGleb\n\t\t\n\t\t\n\t\t\tVAleksandr\n\t\t\n\t\t\n\t\t\tAnnaVeronika\n\t\t\n\t\t\n\t\t\tD\n\t\t\n\t\t\n\t\t\tAndreyG\n\t\t\n\t\n\t\n\t\tAdvances in Neural Information Processing Systems\n\t\t\t\t\n\t\t\tSBengio\n\t\t\tHWallach\n\t\t\tHLarochelle\n\t\t\tKGrauman\n\t\t\tNCesa-Bianchi\n\t\t\tRGarnett\n\t\t\n\t\t\n\t\t\tCurran Associates, Inc\n\t\t\t\n\t\t\t31\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c680587723bebd8668a241"},"refKey":1},
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{"_key":"60c682007723bebd8668a4d4","_id":"references/60c682007723bebd8668a4d4","_rev":"_cfFl0AO---","tei":"\n\t\n\t\tThe Reactome Pathway Knowledgebase\n\t\t\n\t\t\tAntonioFabregat\n\t\t\t0000-0002-3288-8599\n\t\t\n\t\t\n\t\t\tStevenJupe\n\t\t\n\t\t\n\t\t\tLisaMatthews\n\t\t\n\t\t\n\t\t\tKonstantinosSidiropoulos\n\t\t\n\t\t\n\t\t\tMarcGillespie\n\t\t\n\t\t\n\t\t\tPhaniGarapati\n\t\t\n\t\t\n\t\t\tRobinHaw\n\t\t\n\t\t\n\t\t\tBijayJassal\n\t\t\n\t\t\n\t\t\tFlorianKorninger\n\t\t\n\t\t\n\t\t\tBruceMay\n\t\t\n\t\t\n\t\t\tMarijaMilacic\n\t\t\n\t\t\n\t\t\tCorinaDuenasRoca\n\t\t\n\t\t\n\t\t\tKarenRothfels\n\t\t\n\t\t\n\t\t\tCristofferSevilla\n\t\t\n\t\t\n\t\t\tVeronicaShamovsky\n\t\t\n\t\t\n\t\t\tSolomonShorser\n\t\t\n\t\t\n\t\t\tThawfeekVarusai\n\t\t\n\t\t\n\t\t\tGuilhermeViteri\n\t\t\n\t\t\n\t\t\tJoelWeiser\n\t\t\n\t\t\n\t\t\tGuanmingWu\n\t\t\n\t\t\n\t\t\tLincolnStein\n\t\t\n\t\t\n\t\t\tHenningHermjakob\n\t\t\n\t\t\n\t\t\tPeterD’eustachio\n\t\t\t0000-0002-5494-626X\n\t\t\n\t\t10.1093/nar/gkx1132\n\t\t29145629\n\t\tPMC5753187\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c682007723bebd8668a4cd"},"refKey":45},
{"_key":"60c682007723bebd8668a4d5","_id":"references/60c682007723bebd8668a4d5","_rev":"_cfFl0Aa---","tei":"\n\t\n\t\tJASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework\n\t\t\n\t\t\tAzizKhan\n\t\t\t0000-0002-6459-6224\n\t\t\n\t\t\n\t\t\tOriolFornes\n\t\t\n\t\t\n\t\t\tArnaudStigliani\n\t\t\n\t\t\n\t\t\tMariusGheorghe\n\t\t\n\t\t\n\t\t\tJaimeACastro-Mondragon\n\t\t\n\t\t\n\t\t\tRobinVan der lee\n\t\t\t0000-0001-7391-9438\n\t\t\n\t\t\n\t\t\tAdrienBessy\n\t\t\n\t\t\n\t\t\tJeanneChèneby\n\t\t\n\t\t\n\t\t\tShubhadaRKulkarni\n\t\t\n\t\t\n\t\t\tGeTan\n\t\t\n\t\t\n\t\t\tDamirBaranasic\n\t\t\n\t\t\n\t\t\tDavidJArenillas\n\t\t\n\t\t\n\t\t\tAlbinSandelin\n\t\t\n\t\t\n\t\t\tKlaasVandepoele\n\t\t\n\t\t\n\t\t\tBorisLenhard\n\t\t\t0000-0002-1114-1509\n\t\t\n\t\t\n\t\t\tBenoîtBallester\n\t\t\t0000-0002-0834-7135\n\t\t\n\t\t\n\t\t\tWyethWWasserman\n\t\t\n\t\t\n\t\t\tFrançoisParcy\n\t\t\n\t\t\n\t\t\tAnthonyMathelier\n\t\t\t0000-0001-5127-5459\n\t\t\n\t\t10.1093/nar/gkx1126\n\t\t29140473\n\t\tPMC5753243\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c682007723bebd8668a4cd"},"refKey":77},
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{"_key":"60c682ca7723bebd8668a5e8","_id":"references/60c682ca7723bebd8668a5e8","_rev":"_cfFl0FC---","tei":"\n\t\n\t\tMining Web data for Chinese segmentation\n\t\t\n\t\t\tFuLeeWang\n\t\t\n\t\t\n\t\t\tChristopherCYang\n\t\t\n\t\t10.1002/asi.20629\n\t\tark:/67375/WNG-M15DV3R3-Z\n\t\t46826A73133F8C55F927754644DDD1001AF35C3C\n\t\n\t\n\t\tJournal of the American Society for Information Science and Technology\n\t\tJ. Am. Soc. Inf. Sci.\n\t\t1532-2882\n\t\t1532-2890\n\t\t\n\t\t\t58\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c682ca7723bebd8668a5e7"},"refKey":41},
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{"_key":"60c683e07723bebd8668a69b","_id":"references/60c683e07723bebd8668a69b","_rev":"_cfFl0GS---","tei":"\n\t\n\t\tPredicting intrinsic disorder from amino acid sequence\n\t\t\n\t\t\tZoranObradovic\n\t\t\n\t\t\n\t\t\tKangPeng\n\t\t\n\t\t\n\t\t\tSlobodanVucetic\n\t\t\n\t\t\n\t\t\tPredragRadivojac\n\t\t\n\t\t\n\t\t\tCelesteJBrown\n\t\t\n\t\t\n\t\t\tAKeithDunker\n\t\t\n\t\t10.1002/prot.10532\n\t\t14579347\n\t\tark:/67375/WNG-13W5TC6P-W\n\t\t2E14F63532E8B26B8B155137767E8A57A2D9E0D7\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t53\n\t\t\tS6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c683e07723bebd8668a699"},"refKey":34},
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{"_key":"60c684137723bebd8668a6f4","_id":"references/60c684137723bebd8668a6f4","_rev":"_cfFl0IC---","tei":"\n\t\n\t\tPrediction of N-glycosylation sites in human proteins\n\t\t\n\t\t\tRGupta\n\t\t\n\t\t\n\t\t\tEJung\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\t\n\t\t\t46\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c684137723bebd8668a6f2"},"refKey":33},
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{"_key":"60c689127723bebd8668ab18","_id":"references/60c689127723bebd8668ab18","_rev":"_cfFl0VO---","tei":"\n\t\n\t\tApplication of the PM6 semi-empirical method to modeling proteins enhances docking accuracy of AutoDock\n\t\t\n\t\t\tZsoltBikadi\n\t\t\n\t\t\n\t\t\tEszterHazai\n\t\t\n\t\t10.1186/1758-2946-1-15\n\t\t20150996\n\t\tPMC2820493\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJ Cheminform\n\t\t1758-2946\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c689127723bebd8668ab15"},"refKey":7},
{"_key":"60c689127723bebd8668ab19","_id":"references/60c689127723bebd8668ab19","_rev":"_cfFl0Va---","tei":"\n\t\n\t\tA simple click by click protocol to perform docking: AutoDock 4.2 made easy\n\t\t\n\t\t\tSDanish\n\t\t\n\t\n\t\n\t\tExcli Journal\n\t\t\n\t\t\t12\n\t\t\t831\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c689127723bebd8668ab15"},"refKey":16},
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{"_key":"60c689127723bebd8668ab22","_id":"references/60c689127723bebd8668ab22","_rev":"_cfFl0X----","tei":"\n\t\n\t\t[20] VERIFY3D: Assessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tDavidEisenberg\n\t\t\n\t\t\n\t\t\tRolandLüthy\n\t\t\n\t\t\n\t\t\tJamesUBowie\n\t\t\n\t\t10.1016/s0076-6879(97)77022-8\n\t\t9379925\n\t\t\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t277\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c689127723bebd8668ab15"},"refKey":17},
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{"_key":"60c689487723bebd8668ab65","_id":"references/60c689487723bebd8668ab65","_rev":"_cfFl0XS---","tei":"\n\t\n\t\tGeneMANIA Prediction Server 2013 Update\n\t\t\n\t\t\tKhalidZuberi\n\t\t\n\t\t\n\t\t\tMaxFranz\n\t\t\n\t\t\n\t\t\tHaroldRodriguez\n\t\t\n\t\t\n\t\t\tJasonMontojo\n\t\t\n\t\t\n\t\t\tChristianTannusLopes\n\t\t\n\t\t\n\t\t\tGaryDBader\n\t\t\n\t\t\n\t\t\tQuaidMorris\n\t\t\n\t\t10.1093/nar/gkt533\n\t\t23794635\n\t\tPMC3692113\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed: 23794635\n\n","document":{"$oid":"60c689487723bebd8668ab64"},"refKey":90},
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{"_key":"60c689727723bebd8668ab84","_id":"references/60c689727723bebd8668ab84","_rev":"_cfFl0Xq---","tei":"\n\t\n\t\tLearning transferable architectures for scalable image recognition\n\t\t\n\t\t\tBZoph\n\t\t\n\t\t\n\t\t\tVVasudevan\n\t\t\n\t\t\n\t\t\tJShlens\n\t\t\n\t\t\n\t\t\tQVLe\n\t\t\n\t\t10.1109/CVPR.2018.00907\n\t\t\n\t\n\t\n\t\tProc. IEEE Comput. Soc. Conf. Comput. Vis. Pattern Recognit\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c689727723bebd8668ab83"},"refKey":9},
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{"_key":"60c689fc7723bebd8668abfe","_id":"references/60c689fc7723bebd8668abfe","_rev":"_cfFl0ZC---","tei":"\n\t\n\t\tPastView: a user-friendly interface to explore evolutionary scenarios\n\t\t\n\t\t\tFrançoisChevenet\n\t\t\t0000-0003-2622-6596\n\t\t\n\t\t\n\t\t\tGuillaumeCastel\n\t\t\n\t\t\n\t\t\tEmmanuelleJousselin\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1101/651661\n\t\t\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c689fc7723bebd8668abfa"},"refKey":33},
{"_key":"60c689fc7723bebd8668abff","_id":"references/60c689fc7723bebd8668abff","_rev":"_cfFl0ZO---","tei":"\n\t\n\t\tDendroscope: An interactive viewer for large phylogenetic trees\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tDanielCRichter\n\t\t\n\t\t\n\t\t\tChristianRausch\n\t\t\n\t\t\n\t\t\tTobiasDezulian\n\t\t\n\t\t\n\t\t\tMarkusFranz\n\t\t\n\t\t\n\t\t\tRegulaRupp\n\t\t\n\t\t10.1186/1471-2105-8-460\n\t\t18034891\n\t\tPMC2216043\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t460\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c689fc7723bebd8668abfa"},"refKey":27},
{"_key":"60c689fc7723bebd8668ac00","_id":"references/60c689fc7723bebd8668ac00","_rev":"_cfFl0ZW---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1093/bioinformatics/bty407\n\t\t29790939\n\t\tPMC6247931\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c689fc7723bebd8668abfa"},"refKey":18},
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{"_key":"60c689fc7723bebd8668ac02","_id":"references/60c689fc7723bebd8668ac02","_rev":"_cfFl0Zu---","tei":"\n\t\n\t\tMicroreact: visualizing and sharing data for genomic epidemiology and phylogeography\n\t\t\n\t\t\tSilviaArgimón\n\t\t\n\t\t\n\t\t\tKhalilAbudahab\n\t\t\n\t\t\n\t\t\tRichardJ EGoater\n\t\t\n\t\t\n\t\t\tArtemijFedosejev\n\t\t\n\t\t\n\t\t\tJyothishBhai\n\t\t\n\t\t\n\t\t\tCorinnaGlasner\n\t\t\n\t\t\n\t\t\tEdwardJFeil\n\t\t\n\t\t\n\t\t\tMatthewT GHolden\n\t\t\n\t\t\n\t\t\tCorinAYeats\n\t\t\n\t\t\n\t\t\tHajoGrundmann\n\t\t\n\t\t\n\t\t\tBrianGSpratt\n\t\t\n\t\t\n\t\t\tDavidMAanensen\n\t\t\n\t\t10.1099/mgen.0.000093\n\t\t28348833\n\t\tPMC5320705\n\t\t\n\t\n\t\n\t\tMicrobial Genomics\n\t\t2057-5858\n\t\t\n\t\t\t2\n\t\t\t11\n\t\t\te000093\n\t\t\t\n\t\t\tMicrobiology Society\n\t\t\n\t\n\n","document":{"$oid":"60c689fc7723bebd8668abfa"},"refKey":43},
{"_key":"60c689fc7723bebd8668ac03","_id":"references/60c689fc7723bebd8668ac03","_rev":"_cfFl0Z6---","tei":"\n\t\n\t\tA Fast Method for Approximating Maximum Likelihoods of Phylogenetic Trees from Nucleotide Sequences\n\t\t\n\t\t\tJamesSRogers\n\t\t\n\t\t\n\t\t\tDavidLSwofford\n\t\t\n\t\t10.1080/106351598261049\n\t\t12064242\n\t\tark:/67375/HXZ-FJRVMRGP-7\n\t\tB94FC82EFDD16F4E9D3FB064FE2AB116985C910A\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t47\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c689fc7723bebd8668abfa"},"refKey":21},
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{"_key":"60c689fc7723bebd8668ac06","_id":"references/60c689fc7723bebd8668ac06","_rev":"_cfFl0aa---","tei":"\n\t\n\t\tNeXML: Rich, Extensible, and Verifiable Representation of Comparative Data and Metadata\n\t\t\n\t\t\tRutgerAVos\n\t\t\n\t\t\n\t\t\tJamesPBalhoff\n\t\t\n\t\t\n\t\t\tJasonACaravas\n\t\t\n\t\t\n\t\t\tMarkTHolder\n\t\t\n\t\t\n\t\t\tHilmarLapp\n\t\t\n\t\t\n\t\t\tWaynePMaddison\n\t\t\n\t\t\n\t\t\tPeterEMidford\n\t\t\n\t\t\n\t\t\tAnuragPriyam\n\t\t\n\t\t\n\t\t\tJeetSukumaran\n\t\t\n\t\t\n\t\t\tXuhuaXia\n\t\t\n\t\t\n\t\t\tArlinStoltzfus\n\t\t\n\t\t10.1093/sysbio/sys025\n\t\t22357728\n\t\tPMC3376374\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t61\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c689fc7723bebd8668abfa"},"refKey":53},
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{"_key":"60c68b1f7723bebd8668ad98","_id":"references/60c68b1f7723bebd8668ad98","_rev":"_cfFl0fK---","tei":"\n\t\n\t\tZDOCK server: interactive docking prediction of protein-protein complexes and symmetric multimers\n\t\t\n\t\t\tBGPierce\n\t\t\n\t\t\n\t\t\tKWiehe\n\t\t\n\t\t\n\t\t\tHHwang\n\t\t\n\t\t\n\t\t\tB.-HKim\n\t\t\n\t\t\n\t\t\tTVreven\n\t\t\n\t\t\n\t\t\tZWeng\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c68b1f7723bebd8668ad97"},"refKey":13},
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{"_key":"60c68b2c7723bebd8668ada8","_id":"references/60c68b2c7723bebd8668ada8","_rev":"_cfFl0fi---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t10.1093/bioinformatics/btp616\n\t\t19910308\n\t\tPMC2796818\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c68b2c7723bebd8668ada6"},"refKey":37},
{"_key":"60c68b487723bebd8668adbc","_id":"references/60c68b487723bebd8668adbc","_rev":"_cfFl0fu---","tei":"\n\t\n\t\tpkCSM: Predicting Small-Molecule Pharmacokinetic and Toxicity Properties Using Graph-Based Signatures\n\t\t\n\t\t\tDouglasE VPires\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t\n\t\t\tDavidBAscher\n\t\t\n\t\t10.1021/acs.jmedchem.5b00104\n\t\t25860834\n\t\tPMC4434528\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t58\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c68b487723bebd8668adbb"},"refKey":57},
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{"_key":"60c68b487723bebd8668adbe","_id":"references/60c68b487723bebd8668adbe","_rev":"_cfFl0gG---","tei":"\n\t\n\t\tNAMD: a Parallel, Object-Oriented Molecular Dynamics Program\n\t\t\n\t\t\tMarkTNelson\n\t\t\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAttilaGursoy\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tLaxmikantVKalé\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1177/109434209601000401\n\t\tark:/67375/M70-6NTHQJPH-9\n\t\t5F4D0CB7F681BEC3AF84F089DB6F7338563FEE25\n\t\t\n\t\n\t\n\t\tThe International Journal of Supercomputer Applications and High Performance Computing\n\t\tThe International Journal of Supercomputer Applications and High Performance Computing\n\t\t1078-3482\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c68b487723bebd8668adbb"},"refKey":53},
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{"_key":"60c68cf97723bebd8668af50","_id":"references/60c68cf97723bebd8668af50","_rev":"_cfFl0k6---","tei":"\n\t\n\t\tA fast Peptide Match service for UniProt Knowledgebase\n\t\t\n\t\t\tChumingChen\n\t\t\n\t\t\n\t\t\tZhiwenLi\n\t\t\n\t\t\n\t\t\tHongzhanHuang\n\t\t\n\t\t\n\t\t\tBarisESuzek\n\t\t\n\t\t\n\t\t\tCathyHWu\n\t\t\n\t\t10.1093/bioinformatics/btt484\n\t\t23958731\n\t\tPMC3799477\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c68cf97723bebd8668af4f"},"refKey":6},
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{"_key":"60c68ddb7723bebd8668b019","_id":"references/60c68ddb7723bebd8668b019","_rev":"_cfFl0qm---","tei":"\n\t\n\t\tMEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tSinaBeier\n\t\t\n\t\t\n\t\t\tIsabellFlade\n\t\t\n\t\t\n\t\t\tAnnaGórska\n\t\t\t0000-0003-3305-8711\n\t\t\n\t\t\n\t\t\tMohamedEl-Hadidi\n\t\t\t0000-0002-0360-3654\n\t\t\n\t\t\n\t\t\tSuparnaMitra\n\t\t\t0000-0002-9378-1496\n\t\t\n\t\t\n\t\t\tHans-JoachimRuscheweyh\n\t\t\n\t\t\n\t\t\tRewatiTappu\n\t\t\n\t\t10.1371/journal.pcbi.1004957\n\t\t27327495\n\t\tPMC4915700\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\te1004957\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c68ddb7723bebd8668b008"},"refKey":29},
{"_key":"60c68df87723bebd8668b04e","_id":"references/60c68df87723bebd8668b04e","_rev":"_cfFl0qy---","tei":"\n\t\n\t\tSoftware survey: VOSviewer, a computer program for bibliometric mapping\n\t\t\n\t\t\tNJVan Eck\n\t\t\n\t\t\n\t\t\tLWaltman\n\t\t\n\t\n\t\n\t\tScientometrics\n\t\t\n\t\t\t84\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c68df87723bebd8668b04d"},"refKey":31},
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{"_key":"60c68e1d7723bebd8668b087","_id":"references/60c68e1d7723bebd8668b087","_rev":"_cfFl0re---","tei":"\n\t\n\t\tEnrichr: interactive and collaborative HTML5 gene list enrichment analysis tool\n\t\t\n\t\t\tEYChen\n\t\t\n\t\n\t\n\t\tBMC bioinformatics\n\t\t\n\t\t\t14\n\t\t\t128\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c68e1d7723bebd8668b086"},"refKey":36},
{"_key":"60c68e647723bebd8668b0ba","_id":"references/60c68e647723bebd8668b0ba","_rev":"_cfFl0rq---","tei":"\n\t\n\t\tComputational identification of prion-like RNA-binding proteins that form liquid phase-separated condensates\n\t\t\n\t\t\tGabrieleOrlando\n\t\t\n\t\t\n\t\t\tDanieleRaimondi\n\t\t\n\t\t\n\t\t\tFrancescoTabaro\n\t\t\n\t\t\n\t\t\tFrancescoCodicè\n\t\t\n\t\t\n\t\t\tYvesMoreau\n\t\t\n\t\t\n\t\t\tWimFVranken\n\t\t\n\t\t10.1093/bioinformatics/btz274\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c68e647723bebd8668b0b9"},"refKey":10},
{"_key":"60c68e867723bebd8668b0ce","_id":"references/60c68e867723bebd8668b0ce","_rev":"_cfFl0r2---","tei":"\n\t\n\t\tWHO (World Health Organization), 2016a. Global Health Observatory: Country Views\n\t\t\n\t\t\tSimio\n\t\t\n\t\t\n\t\t\tSimio Enterprise\n\t\t\n\t\t\n\t\t\tSimio Llc\n\t\t\n\t\t\n\t\t\tPASewickley\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c68e867723bebd8668b0cd"},"refKey":19},
{"_key":"60c68ea87723bebd8668b0e2","_id":"references/60c68ea87723bebd8668b0e2","_rev":"_cfFl0s----","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c68ea87723bebd8668b0e1"},"refKey":50},
{"_key":"60c68ebf7723bebd8668b0e6","_id":"references/60c68ebf7723bebd8668b0e6","_rev":"_cfFl0sK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c68ebf7723bebd8668b0e5"},"refKey":0},
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{"_key":"60c68eea7723bebd8668b104","_id":"references/60c68eea7723bebd8668b104","_rev":"_cfFl0tC---","tei":"\n\t\n\t\tSARS-CoV-2 outbreak in a tri-national urban area is dominated by a B.1 lineage variant linked to mass gathering events\n\t\t\n\t\t\tMStange\n\t\t\n\t\t10.1101/2020.09.01.20186155\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c68eea7723bebd8668b103"},"refKey":22},
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{"_key":"60c6905c7723bebd8668b257","_id":"references/60c6905c7723bebd8668b257","_rev":"_cfFl0yy---","tei":"\n\t\n\t\tConditional density-based analysis of T cell signaling in single-cell data\n\t\t\n\t\t\tSKrishnaswamy\n\t\t\n\t\t\n\t\t\tMHSpitzer\n\t\t\n\t\t\n\t\t\tMMingueneau\n\t\t\n\t\t\n\t\t\tSCBendall\n\t\t\n\t\t\n\t\t\tOLitvin\n\t\t\n\t\t\n\t\t\tEStone\n\t\t\n\t\t\n\t\t\tDPe'er\n\t\t\n\t\t\n\t\t\tGPNolan\n\t\t\n\t\t10.1126/science.1250689\n\t\t25342659\n\t\tPMC4334155\n\t\t\n\t\n\t\n\t\tScience\n\t\tScience\n\t\t0036-8075\n\t\t1095-9203\n\t\t\n\t\t\t346\n\t\t\t6213\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c6905c7723bebd8668b251"},"refKey":19},
{"_key":"60c6905c7723bebd8668b258","_id":"references/60c6905c7723bebd8668b258","_rev":"_cfFl0z----","tei":"\n\t\n\t\tTrajectorynet: A dynamic optimal transport network for modeling cellular dynamics\n\t\t\n\t\t\tATong\n\t\t\n\t\t\n\t\t\tJHuang\n\t\t\n\t\t\n\t\t\tGWolf\n\t\t\n\t\t\n\t\t\tDVan Dijk\n\t\t\n\t\t\n\t\t\tSKrishnaswamy\n\t\t\n\t\n\t\n\t\tInternational Conference on Machine Learning\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6905c7723bebd8668b251"},"refKey":25},
{"_key":"60c690717723bebd8668b293","_id":"references/60c690717723bebd8668b293","_rev":"_cfFl0zK---","tei":"\n\t\n\t\tOpenJS Foundation, Node-RED tool\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c690717723bebd8668b292"},"refKey":21},
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{"_key":"60c690b77723bebd8668b2c0","_id":"references/60c690b77723bebd8668b2c0","_rev":"_cfFl0ze---","tei":"\n\t\n\t\tRestoring Low Resolution Structure of Biological Macromolecules from Solution Scattering Using Simulated Annealing\n\t\t\n\t\t\tDISvergun\n\t\t\n\t\t10.1016/s0006-3495(99)77443-6\n\t\t10354416\n\t\tPMC1300260\n\t\tS0006-3495(99)77443-6\n\t\tark:/67375/6H6-RRXGT91N-N\n\t\t546AB47AC3E005C9E7AE83AB6F1D439C0CD34DFB\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t76\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c690b77723bebd8668b2bf"},"refKey":27},
{"_key":"60c690b77723bebd8668b2c1","_id":"references/60c690b77723bebd8668b2c1","_rev":"_cfFl0zq---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c690b77723bebd8668b2bf"},"refKey":38},
{"_key":"60c690b77723bebd8668b2c2","_id":"references/60c690b77723bebd8668b2c2","_rev":"_cfFl0z2---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tMol. Syst. Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c690b77723bebd8668b2bf"},"refKey":19},
{"_key":"60c690b77723bebd8668b2c3","_id":"references/60c690b77723bebd8668b2c3","_rev":"_cfFl00----","tei":"\n\t\n\t\tPhaser crystallographic software\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c690b77723bebd8668b2bf"},"refKey":37},
{"_key":"60c690b77723bebd8668b2c4","_id":"references/60c690b77723bebd8668b2c4","_rev":"_cfFl00K---","tei":"\n\t\n\t\tAn introduction to data reduction: space-group determination, scaling and intensity statistics\n\t\t\n\t\t\tPREvans\n\t\t\n\t\n\t\n\t\tActa Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c690b77723bebd8668b2bf"},"refKey":34},
{"_key":"60c690b77723bebd8668b2c5","_id":"references/60c690b77723bebd8668b2c5","_rev":"_cfFl00W---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c690b77723bebd8668b2bf"},"refKey":35},
{"_key":"60c690b77723bebd8668b2c6","_id":"references/60c690b77723bebd8668b2c6","_rev":"_cfFl00e---","tei":"\n\t\n\t\tUniqueness ofab initioshape determination in small-angle scattering\n\t\t\n\t\t\tVladimirVVolkov\n\t\t\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t10.1107/s0021889803000268\n\t\tark:/67375/WNG-2N76ZP8B-G\n\t\t2D083EEC03184EC205B1DA5CD3E0ED83285B2FA5\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t36\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c690b77723bebd8668b2bf"},"refKey":28},
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{"_key":"60c692a77723bebd8668b488","_id":"references/60c692a77723bebd8668b488","_rev":"_cfFl04a---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\t1016/0263-7855(96)00018-5\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c692a77723bebd8668b485"},"refKey":26},
{"_key":"60c692a77723bebd8668b489","_id":"references/60c692a77723bebd8668b489","_rev":"_cfFl04m---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c692a77723bebd8668b485"},"refKey":45},
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{"_key":"60c692d67723bebd8668b4c6","_id":"references/60c692d67723bebd8668b4c6","_rev":"_cfFl05G---","tei":"\n\t\n\t\tNonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data\n\t\t\n\t\t\tC.-SChin\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c692d67723bebd8668b4c5"},"refKey":28},
{"_key":"60c692d67723bebd8668b4c7","_id":"references/60c692d67723bebd8668b4c7","_rev":"_cfFl05S---","tei":"\n\t\n\t\tIntegrating Hi-C links with assembly graphs for chromosome-scale assembly\n\t\t\n\t\t\tJayGhurye\n\t\t\t0000-0003-1381-4081\n\t\t\n\t\t\n\t\t\tArangRhie\n\t\t\t0000-0002-9809-8127\n\t\t\n\t\t\n\t\t\tBrianPWalenz\n\t\t\t0000-0001-8431-1428\n\t\t\n\t\t\n\t\t\tAnthonySchmitt\n\t\t\n\t\t\n\t\t\tSiddarthSelvaraj\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\t0000-0001-9617-5304\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\t0000-0003-2983-8934\n\t\t\n\t\t\n\t\t\tSergeyKoren\n\t\t\t0000-0002-1472-8962\n\t\t\n\t\t10.1371/journal.pcbi.1007273\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t15\n\t\t\t8\n\t\t\te1007273\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c692d67723bebd8668b4c5"},"refKey":35},
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{"_key":"60c692d67723bebd8668b4c9","_id":"references/60c692d67723bebd8668b4c9","_rev":"_cfFl05q---","tei":"\n\t\n\t\tMerqury: reference-free quality, completeness, and phasing assessment for genome assemblies\n\t\t\n\t\t\tARhie\n\t\t\n\t\t\n\t\t\tBPWalenz\n\t\t\n\t\t\n\t\t\tSKoren\n\t\t\n\t\t\n\t\t\tAMPhillippy\n\t\t\n\t\t10.1101/2020.03.15.992941\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c692d67723bebd8668b4c5"},"refKey":47},
{"_key":"60c692d67723bebd8668b4ca","_id":"references/60c692d67723bebd8668b4ca","_rev":"_cfFl05y---","tei":"\n\t\n\t\tgEVAL — a web-based browser for evaluating genome assemblies\n\t\t\n\t\t\tWilliamChow\n\t\t\n\t\t\n\t\t\tKimBrugger\n\t\t\n\t\t\n\t\t\tMarioCaccamo\n\t\t\n\t\t\n\t\t\tIanSealy\n\t\t\n\t\t\n\t\t\tJamesTorrance\n\t\t\n\t\t\n\t\t\tKerstinHowe\n\t\t\n\t\t10.1093/bioinformatics/btw159\n\t\t27153597\n\t\tPMC4978925\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c692d67723bebd8668b4c5"},"refKey":37},
{"_key":"60c692f67723bebd8668b517","_id":"references/60c692f67723bebd8668b517","_rev":"_cfFl06----","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c692f67723bebd8668b516"},"refKey":29},
{"_key":"60c693277723bebd8668b533","_id":"references/60c693277723bebd8668b533","_rev":"_cfFl06K---","tei":"\n\t\n\t\tSpatial population dynamics: analyzing patterns and processes of population synchrony\n\t\t\n\t\t\tOttarNBjørnstad\n\t\t\n\t\t\n\t\t\tRolfAIms\n\t\t\n\t\t\n\t\t\tXavierLambin\n\t\t\n\t\t10.1016/s0169-5347(99)01677-8\n\t\t10511718\n\t\tS0169-5347(99)01677-8\n\t\tark:/67375/6H6-F5XW0B09-4\n\t\tC2C1F5CB6FE5B97AE6A19585D62C9D4F223363B8\n\t\n\t\n\t\tTrends in Ecology & Evolution\n\t\tTrends in Ecology & Evolution\n\t\t0169-5347\n\t\t\n\t\t\t14\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c693277723bebd8668b532"},"refKey":46},
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{"_key":"60c693497723bebd8668b5d5","_id":"references/60c693497723bebd8668b5d5","_rev":"_cfFl08O---","tei":"\n\t\n\t\tAvailable online at\n\t\t\n\t\n\t\n\t\tQSR International Pty Ltd. Nvivo 11 for Windows\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c693497723bebd8668b5d4"},"refKey":30},
{"_key":"60c693507723bebd8668b5ef","_id":"references/60c693507723bebd8668b5ef","_rev":"_cfFl08W---","tei":"\n\t\n\t\tImproving the translation of search strategies using the Polyglot Search Translator: a randomised controlled trial\n\t\t\n\t\t\tJClark\n\t\t\n\t\n\t\n\t\tJ Am Libr Assoc\n\t\t\n\t\t\t\n\t\t\tp. In press\n\t\t\n\t\n\n","document":{"$oid":"60c693507723bebd8668b5ee"},"refKey":6},
{"_key":"60c693527723bebd8668b5f4","_id":"references/60c693527723bebd8668b5f4","_rev":"_cfFl08i---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tPavolSkubák\n\t\t\n\t\t\n\t\t\tAndreyALebedev\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tRobertoASteiner\n\t\t\n\t\t\n\t\t\tRobertANicholls\n\t\t\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tFeiLong\n\t\t\n\t\t\n\t\t\tAlexeiAVagin\n\t\t\n\t\t10.1107/s0907444911001314\n\t\t21460454\n\t\tPMC3069751\n\t\tark:/67375/WNG-803CZV1W-1\n\t\tA0888E7BC1F9B7777B324A0979A74D1B188F073A\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c693527723bebd8668b5f3"},"refKey":27},
{"_key":"60c693527723bebd8668b5f5","_id":"references/60c693527723bebd8668b5f5","_rev":"_cfFl08u---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/s0021889892009944\n\t\tark:/67375/WNG-1V02WKNX-V\n\t\t7FF6EABFE5D6E9AB8536E310B9782B625E4CA368\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c693527723bebd8668b5f3"},"refKey":19},
{"_key":"60c693527723bebd8668b5f6","_id":"references/60c693527723bebd8668b5f6","_rev":"_cfFl086---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.2011.75\n\t\t21988835\n\t\tPMC3261699\n\t\t\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMolecular Systems Biology\n\t\t1744-4292\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c693527723bebd8668b5f3"},"refKey":37},
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{"_key":"60c693527723bebd8668b5f8","_id":"references/60c693527723bebd8668b5f8","_rev":"_cfFl09O---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPhilipREvans\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t10.1107/s0907444913000061\n\t\t23793146\n\t\tPMC3689523\n\t\tark:/67375/WNG-5NGXND0Q-1\n\t\tBB88595D0B6EDD2B9D3A2D34A0E0E6807A0B5A6E\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t69\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c693527723bebd8668b5f3"},"refKey":10},
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{"_key":"60c6936d7723bebd8668b62d","_id":"references/60c6936d7723bebd8668b62d","_rev":"_cfFl096---","tei":"\n\t\n\t\tIntroducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities\n\t\t\n\t\t\tPDSchloss\n\t\t\n\t\t\n\t\t\tSLWestcott\n\t\t\n\t\t\n\t\t\tTRyabin\n\t\t\n\t\t\n\t\t\tJRHall\n\t\t\n\t\t\n\t\t\tMHartmann\n\t\t\n\t\t\n\t\t\tEBHollister\n\t\t\n\t\t\n\t\t\tRALesniewski\n\t\t\n\t\t\n\t\t\tBBOakley\n\t\t\n\t\t\n\t\t\tDHParks\n\t\t\n\t\t\n\t\t\tCJRobinson\n\t\t\n\t\t\n\t\t\tJWSahl\n\t\t\n\t\t\n\t\t\tBStres\n\t\t\n\t\t\n\t\t\tGGThallinger\n\t\t\n\t\t\n\t\t\tDJVan Horn\n\t\t\n\t\t\n\t\t\tCFWeber\n\t\t\n\t\t10.1128/aem.01541-09\n\t\t19801464\n\t\tPMC2786419\n\t\t\n\t\n\t\n\t\tApplied and Environmental Microbiology\n\t\tApplied and Environmental Microbiology\n\t\t0099-2240\n\t\t\n\t\t\t75\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c6936d7723bebd8668b62c"},"refKey":54},
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{"_key":"60c693707723bebd8668b638","_id":"references/60c693707723bebd8668b638","_rev":"_cfFl1-a---","tei":"\n\t\n\t\tKnowledge discovery through SysFor: a systematically developed forest of multiple decision trees\n\t\t\n\t\t\tZIslam\n\t\t\n\t\t\n\t\t\tHGiggins\n\t\t\n\t\n\t\n\t\tProc 9th Austr Data Mining Conf\n\t\t\t\t9th Austr Data Mining Conf\n\t\t\n\t\t\t\n\t\t\t121\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c693707723bebd8668b637"},"refKey":14},
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{"_key":"60c694397723bebd8668b695","_id":"references/60c694397723bebd8668b695","_rev":"_cfFl1_----","tei":"\n\t\n\t\tThe Estimation of Item Response Models with thelmerFunction from thelme4Package inR\n\t\t\n\t\t\tPaulDeBoeck\n\t\t\n\t\t\n\t\t\tMarjanBakker\n\t\t\n\t\t\n\t\t\tRobertZwitser\n\t\t\n\t\t\n\t\t\tMichelNivard\n\t\t\n\t\t\n\t\t\tAbeHofman\n\t\t\n\t\t\n\t\t\tFrancisTuerlinckx\n\t\t\n\t\t\n\t\t\tIvailoPartchev\n\t\t\n\t\t10.18637/jss.v039.i12\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t39\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c694397723bebd8668b694"},"refKey":10},
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{"_key":"60c697577723bebd8668b8d0","_id":"references/60c697577723bebd8668b8d0","_rev":"_cfFl1Iu---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\t1000 Genome Project Data Processing Subgroup\n\n","document":{"$oid":"60c697577723bebd8668b8cb"},"refKey":97},
{"_key":"60c697747723bebd8668b903","_id":"references/60c697747723bebd8668b903","_rev":"_cfFl1JC---","tei":"\n\t\n\t\tGAsDock: a new approach for rapid flexible docking based on an improved multi-population genetic algorithm\n\t\t\n\t\t\tHonglinLi\n\t\t\n\t\t\n\t\t\tChunlianLi\n\t\t\n\t\t\n\t\t\tChunshanGui\n\t\t\n\t\t\n\t\t\tXiaominLuo\n\t\t\n\t\t\n\t\t\tKaixianChen\n\t\t\n\t\t\n\t\t\tJianhuaShen\n\t\t\n\t\t\n\t\t\tXichengWang\n\t\t\n\t\t\n\t\t\tHualiangJiang\n\t\t\n\t\t10.1016/j.bmcl.2004.06.091\n\t\t15324886\n\t\n\t\n\t\tBioorganic & Medicinal Chemistry Letters\n\t\tBioorganic & Medicinal Chemistry Letters\n\t\t0960-894X\n\t\t\n\t\t\t14\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c697747723bebd8668b902"},"refKey":4},
{"_key":"60c697747723bebd8668b904","_id":"references/60c697747723bebd8668b904","_rev":"_cfFl1JO---","tei":"\n\t\n\t\tDrug Design on the Cell BroadBand Engine\n\t\t\n\t\t\tHaraldServat\n\t\t\n\t\t\n\t\t\tCeciliaGonzalez\n\t\t\n\t\t\n\t\t\tXavierAguilar\n\t\t\n\t\t\n\t\t\tDanielCabrera\n\t\t\n\t\t\n\t\t\tDanielJimenez\n\t\t\n\t\t10.1109/pact.2007.4336253\n\t\n\t\n\t\t16th International Conference on Parallel Architecture and Compilation Techniques (PACT 2007)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t425\n\t\t\n\t\n\n","document":{"$oid":"60c697747723bebd8668b902"},"refKey":5},
{"_key":"60c697787723bebd8668b90d","_id":"references/60c697787723bebd8668b90d","_rev":"_cfFl1Je---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symposium Series\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c697787723bebd8668b90c"},"refKey":37},
{"_key":"60c697cc7723bebd8668b916","_id":"references/60c697cc7723bebd8668b916","_rev":"_cfFl1Jq---","tei":"\n\t\n\t\tClustal w and clustal x version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c697cc7723bebd8668b915"},"refKey":28},
{"_key":"60c697e57723bebd8668b92f","_id":"references/60c697e57723bebd8668b92f","_rev":"_cfFl1J6---","tei":"\n\t\n\t\tMiXCR: software for comprehensive adaptive immunity profiling\n\t\t\n\t\t\tDABolotin\n\t\t\n\t\t\n\t\t\tSPoslavsky\n\t\t\n\t\t\n\t\t\tIMitrophanov\n\t\t\n\t\t\n\t\t\tMShugay\n\t\t\n\t\t\n\t\t\tIZMamedov\n\t\t\n\t\t\n\t\t\tEVPutintseva\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c697e57723bebd8668b92e"},"refKey":35},
{"_key":"60c697e57723bebd8668b930","_id":"references/60c697e57723bebd8668b930","_rev":"_cfFl1KG---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c697e57723bebd8668b92e"},"refKey":39},
{"_key":"60c698037723bebd8668b953","_id":"references/60c698037723bebd8668b953","_rev":"_cfFl1KS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tCMRingle\n\t\t\n\t\t\n\t\t\tSWende\n\t\t\n\t\t\n\t\t\tJ.-MBecker\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c698037723bebd8668b952"},"refKey":32},
{"_key":"60c698117723bebd8668b95a","_id":"references/60c698117723bebd8668b95a","_rev":"_cfFl1Ke---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: Recent developments in Phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tBHintze\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRDOeffner\n\t\t\n\t\t\n\t\t\tBKPoon\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tMDSammito\n\t\t\n\t\t\n\t\t\tOVSobolev\n\t\t\n\t\t\n\t\t\tDHStockwell\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tAGUrzhumtsev\n\t\t\n\t\t\n\t\t\tLLVideau\n\t\t\n\t\t\n\t\t\tCJWilliams\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c698117723bebd8668b959"},"refKey":54},
{"_key":"60c698117723bebd8668b95b","_id":"references/60c698117723bebd8668b95b","_rev":"_cfFl1Kq---","tei":"\n\t\n\t\tQuantifying the local resolution of cryo-EM density maps\n\t\t\n\t\t\tAKucukelbir\n\t\t\n\t\t\n\t\t\tFJSigworth\n\t\t\n\t\t\n\t\t\tHDTagare\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c698117723bebd8668b959"},"refKey":52},
{"_key":"60c698117723bebd8668b95c","_id":"references/60c698117723bebd8668b95c","_rev":"_cfFl1K6---","tei":"\n\t\n\t\tUCSF Chimera-A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c698117723bebd8668b959"},"refKey":55},
{"_key":"60c698117723bebd8668b95d","_id":"references/60c698117723bebd8668b95d","_rev":"_cfFl1LG---","tei":"\n\t\n\t\tAutomated molecular microscopy: The new Leginon system\n\t\t\n\t\t\tCSuloway\n\t\t\n\t\t\n\t\t\tJPulokas\n\t\t\n\t\t\n\t\t\tDFellmann\n\t\t\n\t\t\n\t\t\tACheng\n\t\t\n\t\t\n\t\t\tFGuerra\n\t\t\n\t\t\n\t\t\tJQuispe\n\t\t\n\t\t\n\t\t\tSStagg\n\t\t\n\t\t\n\t\t\tCSPotter\n\t\t\n\t\t\n\t\t\tBCarragher\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t151\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c698117723bebd8668b959"},"refKey":45},
{"_key":"60c6985e7723bebd8668b998","_id":"references/60c6985e7723bebd8668b998","_rev":"_cfFl1LS---","tei":"\n\t\n\t\tSAS/STAT user's guide. Version 6\n\t\t\n\t\t\tSas Institute\n\t\t\n\t\t\n\t\t\t\n\t\t\tSAS Institute\n\t\t\t1\n\t\t\tCary, NC\n\t\t\n\t\n\t4th ed.\n\n","document":{"$oid":"60c6985e7723bebd8668b997"},"refKey":58},
{"_key":"60c698b37723bebd8668b9c1","_id":"references/60c698b37723bebd8668b9c1","_rev":"_cfFl1Le---","tei":"\n\t\n\t\tData, disease and diplomacy: GISAID's innovative contribution to global health\n\t\t\n\t\t\tStefanElbe\n\t\t\n\t\t\n\t\t\tGemmaBuckland-Merrett\n\t\t\n\t\t10.1002/gch2.1018\n\t\t\n\t\n\t\n\t\tGlobal Challenges\n\t\tGlobal Challenges\n\t\t2056-6646\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c698b37723bebd8668b9c0"},"refKey":34},
{"_key":"60c698b37723bebd8668b9c2","_id":"references/60c698b37723bebd8668b9c2","_rev":"_cfFl1Lq---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKIKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\t10.1093/nar/gkf436\n\t\t12136088\n\t\tPMC135756\n\t\tark:/67375/HXZ-NRP1F2B9-4\n\t\t5EA93CBE48016E67AE51670E4623847EAB8A8265\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c698b37723bebd8668b9c0"},"refKey":40},
{"_key":"60c698b47723bebd8668b9cf","_id":"references/60c698b47723bebd8668b9cf","_rev":"_cfFl1Ly---","tei":"\n\t\n\t\tkeras-team/keras. (Keras, 2020)\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c698b47723bebd8668b9ce"},"refKey":8},
{"_key":"60c698b87723bebd8668b9d6","_id":"references/60c698b87723bebd8668b9d6","_rev":"_cfFl1M----","tei":"\n\t\n\t\tPractical convolutional Neural Network\n\t\t\n\t\t\tMSewak\n\t\t\n\t\t\n\t\t\t\n\t\t\tPackt Publishing Ltd\n\t\t\tBirmingham\n\t\t\n\t\n\n","document":{"$oid":"60c698b87723bebd8668b9d5"},"refKey":10},
{"_key":"60c698c07723bebd8668b9e3","_id":"references/60c698c07723bebd8668b9e3","_rev":"_cfFl1MK---","tei":"\n\t\n\t\tCRISPRminer is a knowledge base for exploring CRISPR-Cas systems in microbe and phage interactions\n\t\t\n\t\t\tFanZhang\n\t\t\n\t\t\n\t\t\tShijiaZhao\n\t\t\n\t\t\n\t\t\tChunyanRen\n\t\t\n\t\t\n\t\t\tYuweiZhu\n\t\t\n\t\t\n\t\t\tHaibinZhou\n\t\t\n\t\t\n\t\t\tYongkuiLai\n\t\t\n\t\t\n\t\t\tFengxiaZhou\n\t\t\n\t\t\n\t\t\tYuqiangJia\n\t\t\n\t\t\n\t\t\tKangjieZheng\n\t\t\n\t\t\n\t\t\tZhiweiHuang\n\t\t\n\t\t10.1038/s42003-018-0184-6\n\t\t30393777\n\t\tPMC6208339\n\t\t\n\t\n\t\n\t\tCommunications Biology\n\t\tCommun Biol\n\t\t2399-3642\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c698c07723bebd8668b9e2"},"refKey":257},
{"_key":"60c698c07723bebd8668b9e4","_id":"references/60c698c07723bebd8668b9e4","_rev":"_cfFl1MW---","tei":"\n\t\n\t\tCRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins\n\t\t\n\t\t\tDavidCouvin\n\t\t\n\t\t\n\t\t\tAudeBernheim\n\t\t\n\t\t\n\t\t\tClaireToffano-Nioche\n\t\t\n\t\t\n\t\t\tMarieTouchon\n\t\t\n\t\t\n\t\t\tJurajMichalik\n\t\t\n\t\t\n\t\t\tBertrandNéron\n\t\t\n\t\t\n\t\t\tEduardoP CRocha\n\t\t\t0000-0001-7704-822X\n\t\t\n\t\t\n\t\t\tGillesVergnaud\n\t\t\n\t\t\n\t\t\tDanielGautheret\n\t\t\n\t\t\n\t\t\tChristinePourcel\n\t\t\n\t\t10.1093/nar/gky425\n\t\t29790974\n\t\tPMC6030898\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c698c07723bebd8668b9e2"},"refKey":240},
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{"_key":"60c698c77723bebd8668b9f8","_id":"references/60c698c77723bebd8668b9f8","_rev":"_cfFl1Mu---","tei":"\n\t\n\t\tThe GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function\n\t\t\n\t\t\tDWarde-Farley\n\t\t\n\t\t\n\t\t\tSLDonaldson\n\t\t\n\t\t\n\t\t\tOComes\n\t\t\n\t\t\n\t\t\tKZuberi\n\t\t\n\t\t\n\t\t\tRBadrawi\n\t\t\n\t\t\n\t\t\tPChao\n\t\t\n\t\t\n\t\t\tMFranz\n\t\t\n\t\t\n\t\t\tCGrouios\n\t\t\n\t\t\n\t\t\tFKazi\n\t\t\n\t\t\n\t\t\tCTLopes\n\t\t\n\t\t\n\t\t\tAMaitland\n\t\t\n\t\t\n\t\t\tSMostafavi\n\t\t\n\t\t\n\t\t\tJMontojo\n\t\t\n\t\t\n\t\t\tQShao\n\t\t\n\t\t\n\t\t\tGWright\n\t\t\n\t\t\n\t\t\tGDBader\n\t\t\n\t\t\n\t\t\tMorris\n\t\t\n\t\t\n\t\t\tQ\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c698c77723bebd8668b9f6"},"refKey":50},
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{"_key":"60c698e87723bebd8668ba29","_id":"references/60c698e87723bebd8668ba29","_rev":"_cfFl1Nm---","tei":"\n\t\n\t\tHOLE: a program for the analysis of the pore dimensions of ion channel structural models\n\t\t\n\t\t\tOSSmart\n\t\t\n\t\t\n\t\t\tJGNeduvelil\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\t\n\t\t\tBAWallace\n\t\t\n\t\t\n\t\t\tMSSansom\n\t\t\n\t\n\t\n\t\tJ Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c698e87723bebd8668ba28"},"refKey":30},
{"_key":"60c699127723bebd8668ba66","_id":"references/60c699127723bebd8668ba66","_rev":"_cfFl1Ny---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c699127723bebd8668ba65"},"refKey":3},
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{"_key":"60c699147723bebd8668ba6e","_id":"references/60c699147723bebd8668ba6e","_rev":"_cfFl1OG---","tei":"\n\t\n\t\tProtocol for rapid unsupervised cryo-EM structure determination using cryoSPARC software\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tJohnRubinstein\n\t\t\n\t\t\n\t\t\tDavidFleet\n\t\t\n\t\t\n\t\t\tMarcusBrubaker\n\t\t\n\t\t10.1038/protex.2017.009\n\t\n\t\n\t\tProtocol Exchange\n\t\tProtocol Exchange\n\t\t2043-0116\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c699147723bebd8668ba6c"},"refKey":57},
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{"_key":"60c699147723bebd8668ba70","_id":"references/60c699147723bebd8668ba70","_rev":"_cfFl1Oe---","tei":"\n\t\n\t\tNamdinator - Automatic Molecular Dynamics flexible fitting of structural models into cryo-EM and crystallography experimental maps\n\t\t\n\t\t\tRuneThomasKidmose\n\t\t\n\t\t\n\t\t\tJonathanJuhl\n\t\t\n\t\t\n\t\t\tPoulNissen\n\t\t\t0000-0003-0948-6628\n\t\t\n\t\t\n\t\t\tThomasBoesen\n\t\t\n\t\t\n\t\t\tJesperLykkegaardKarlsen\n\t\t\n\t\t\n\t\t\tBjørnPanyellaPedersen\n\t\t\t0000-0001-7860-7230\n\t\t\n\t\t10.1101/501197\n\t\t\n\t\n\t\n\t\tIUCrJ\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c699147723bebd8668ba6c"},"refKey":36},
{"_key":"60c699147723bebd8668ba71","_id":"references/60c699147723bebd8668ba71","_rev":"_cfFl1Oq---","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c699147723bebd8668ba6c"},"refKey":60},
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{"_key":"60c699787723bebd8668bad9","_id":"references/60c699787723bebd8668bad9","_rev":"_cfFl1PW---","tei":"\n\t\n\t\tProtocol for rapid unsupervised cryo-EM structure determination using cryoSPARC software\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tJohnRubinstein\n\t\t\n\t\t\n\t\t\tDavidFleet\n\t\t\n\t\t\n\t\t\tMarcusBrubaker\n\t\t\n\t\t10.1038/protex.2017.009\n\t\n\t\n\t\tProtocol Exchange\n\t\tProtocol Exchange\n\t\t2043-0116\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c699787723bebd8668bad8"},"refKey":26},
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{"_key":"60c69a2d7723bebd8668bb83","_id":"references/60c69a2d7723bebd8668bb83","_rev":"_cfFl1Qu---","tei":"\n\t\n\t\tThe lockdown worked -but what comes next?\n\t\t\n\t\t\tKKupferschmidt\n\t\t\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t368\n\t\t\t6488\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69a2d7723bebd8668bb82"},"refKey":10},
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{"_key":"60c69a857723bebd8668bbd5","_id":"references/60c69a857723bebd8668bbd5","_rev":"_cfFl1Sa---","tei":"\n\t\n\t\tSoftware for geometric morphometric analyses\n\t\t\n\t\t\tDCAdams\n\t\t\n\t\t\n\t\t\tMLCollyer\n\t\t\n\t\t\n\t\t\tAKaliontzopoulous\n\t\t\n\t\t\n\t\t\tGeomorph\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 3.1.0\n\n","document":{"$oid":"60c69a857723bebd8668bbd2"},"refKey":38},
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{"_key":"60c69ab37723bebd8668bbfb","_id":"references/60c69ab37723bebd8668bbfb","_rev":"_cfFl1TK---","tei":"\n\t\n\t\tMeasuring human and economic activity from satellite imagery to support city-scale decision-making during COVID-19 pandemic\n\t\t\n\t\t\tRMinetto\n\t\t\n\t\t\n\t\t\tMPSegundo\n\t\t\n\t\t\n\t\t\tGRotich\n\t\t\n\t\t\n\t\t\tSSarkar\n\t\t\n\t\tarXiv:2004.07438\n\t\n\t\n\t\tarXiv\n\t\t\n\t\t\t215786072\n\t\t\t\n\t\t\n\t\n\tpreprint\n\n","document":{"$oid":"60c69ab37723bebd8668bbf8"},"refKey":60},
{"_key":"60c69ac87723bebd8668bc15","_id":"references/60c69ac87723bebd8668bc15","_rev":"_cfFl1TS---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c69ac87723bebd8668bc14"},"refKey":26},
{"_key":"60c69ac87723bebd8668bc16","_id":"references/60c69ac87723bebd8668bc16","_rev":"_cfFl1Te---","tei":"\n\t\n\t\tNeural Networks inRUsing the Stuttgart Neural Network Simulator:RSNNS\n\t\t\n\t\t\tChristophBergmeir\n\t\t\n\t\t\n\t\t\tJoséMBenítez\n\t\t\n\t\t10.18637/jss.v046.i07\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t46\n\t\t\t7\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c69ac87723bebd8668bc14"},"refKey":28},
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{"_key":"60c69b387723bebd8668bc93","_id":"references/60c69b387723bebd8668bc93","_rev":"_cfFl1U2---","tei":"\n\t\n\t\tNMRFAM-SPARKY: enhanced software for biomolecular NMR spectroscopy\n\t\t\n\t\t\tWoongheeLee\n\t\t\n\t\t\n\t\t\tMarcoTonelli\n\t\t\n\t\t\n\t\t\tJohnLMarkley\n\t\t\n\t\t10.1093/bioinformatics/btu830\n\t\t25505092\n\t\tPMC4393527\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c69b387723bebd8668bc92"},"refKey":15},
{"_key":"60c69bb67723bebd8668bcbf","_id":"references/60c69bb67723bebd8668bcbf","_rev":"_cfFl1VC---","tei":"\n\t\n\t\t\n\t\t\tAGHoward\n\t\t\n\t\t\n\t\t\tMZhu\n\t\t\n\t\t\n\t\t\tBChen\n\t\t\n\t\t\n\t\t\tDKalenichenko\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tTWeyand\n\t\t\n\t\t\n\t\t\tMAndreetto\n\t\t\n\t\t\n\t\t\tHAdam\n\t\t\n\t\t\n\t\t\tMobilenets\n\t\t\n\t\tarXiv:1704.04861\n\t\tEfficient convolutional neural networks for mobile vision applications\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69bb67723bebd8668bcbe"},"refKey":73},
{"_key":"60c69bce7723bebd8668bccd","_id":"references/60c69bce7723bebd8668bccd","_rev":"_cfFl1VO---","tei":"\n\t\n\t\tGEMDOCK: A generic evolutionary method for molecular docking\n\t\t\n\t\t\tJinn-MoonYang\n\t\t\n\t\t\n\t\t\tChun-ChenChen\n\t\t\n\t\t10.1002/prot.20035\n\t\t15048822\n\t\tark:/67375/WNG-2D234NDG-L\n\t\t5BC029F381183B0E287819BDCD50275CABB9ED21\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t55\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c69bce7723bebd8668bccc"},"refKey":46},
{"_key":"60c69bce7723bebd8668bcce","_id":"references/60c69bce7723bebd8668bcce","_rev":"_cfFl1Va---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput, Inside Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69bce7723bebd8668bccc"},"refKey":47},
{"_key":"60c69c407723bebd8668bd17","_id":"references/60c69c407723bebd8668bd17","_rev":"_cfFl1Vi---","tei":"\n\t\n\t\tThe climate action simulation\n\t\t\n\t\t\tJNRooney-Varga\n\t\t\n\t\t\n\t\t\tFKapmeier\n\t\t\n\t\t\n\t\t\tJDSterman\n\t\t\n\t\t\n\t\t\tAPJones\n\t\t\n\t\t\n\t\t\tMPutko\n\t\t\n\t\t\n\t\t\tKRath\n\t\t\n\t\t10.1177/1046878119890643\n\t\t\n\t\n\t\n\t\tSimul. Gaming\n\t\t\n\t\t\t51\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69c407723bebd8668bd16"},"refKey":5},
{"_key":"60c69c4e7723bebd8668bd20","_id":"references/60c69c4e7723bebd8668bd20","_rev":"_cfFl1Vu---","tei":"\n\t\n\t\tIBASPM: Toolbox for automatic parcellation of brain structures\n\t\t\n\t\t\tYAlemán-Gómez\n\t\t\n\t\t\n\t\t\tLMelie-García\n\t\t\n\t\t\n\t\t\tPValdés-Hernandez\n\t\t\n\t\n\t\n\t\t12th Annual Meeting of the Organization for Human Brain Mapping\n\t\t\t\tFlorence\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69c4e7723bebd8668bd1f"},"refKey":0},
{"_key":"60c69c6e7723bebd8668bd2e","_id":"references/60c69c6e7723bebd8668bd2e","_rev":"_cfFl1V6---","tei":"\n\t\n\t\tPhaser crystallographic software\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69c6e7723bebd8668bd2d"},"refKey":24},
{"_key":"60c69c897723bebd8668bd43","_id":"references/60c69c897723bebd8668bd43","_rev":"_cfFl1WG---","tei":"\n\t\n\t\tSeq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tNCGrassly\n\t\t\n\t\n\t\n\t\tComput. Appl. Biosci\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69c897723bebd8668bd42"},"refKey":46},
{"_key":"60c69c897723bebd8668bd44","_id":"references/60c69c897723bebd8668bd44","_rev":"_cfFl1WS---","tei":"\n\t\n\t\tPAUP*: phylogenetic analysis using parsimony (*and other methods), version 4.0b10\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\t\n\t\t\t\n\t\t\tSinauer Associates\n\t\t\tSunderland (MA\n\t\t\n\t\n\n","document":{"$oid":"60c69c897723bebd8668bd42"},"refKey":55},
{"_key":"60c69c897723bebd8668bd45","_id":"references/60c69c897723bebd8668bd45","_rev":"_cfFl1Wa---","tei":"\n\t\n\t\tTreeFinder, version of\n\t\t\n\t\t\tGJobb\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tMunich (Germany\n\t\t\n\t\n\n","document":{"$oid":"60c69c897723bebd8668bd42"},"refKey":25},
{"_key":"60c69cc07723bebd8668bd6f","_id":"references/60c69cc07723bebd8668bd6f","_rev":"_cfFl1Wm---","tei":"\n\t\n\t\tJalview, version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69cc07723bebd8668bd6e"},"refKey":74},
{"_key":"60c69cc07723bebd8668bd70","_id":"references/60c69cc07723bebd8668bd70","_rev":"_cfFl1Wy---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69cc07723bebd8668bd6e"},"refKey":0},
{"_key":"60c69ccc7723bebd8668bd7a","_id":"references/60c69ccc7723bebd8668bd7a","_rev":"_cfFl1X----","tei":"\n\t\n\t\tThe R0 package: a toolbox to estimate reproduction numbers for epidemic outbreaks\n\t\t\n\t\t\tTObadia\n\t\t\n\t\t\n\t\t\tRHaneef\n\t\t\n\t\t\n\t\t\tPYBoelle\n\t\t\n\t\n\t\n\t\tBMC Med Inform Decis Mak\n\t\t\n\t\t\t12\n\t\t\t147\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69ccc7723bebd8668bd79"},"refKey":15},
{"_key":"60c69cf97723bebd8668bd94","_id":"references/60c69cf97723bebd8668bd94","_rev":"_cfFl1XG---","tei":"\n\t\n\t\tUse of the 3D surgical modelling technique with open-source software for mandibular fibula free flap reconstruction and its surgical guides\n\t\t\n\t\t\tLGanry\n\t\t\n\t\t\n\t\t\tBHersant\n\t\t\n\t\t\n\t\t\tJQuilichini\n\t\t\n\t\t\n\t\t\tPLeyder\n\t\t\n\t\t\n\t\t\tJPMeningaud\n\t\t\n\t\t10.1016/j.jormas.2017.03.002\n\t\t28365396\n\t\n\t\n\t\tJournal of Stomatology, Oral and Maxillofacial Surgery\n\t\tJournal of Stomatology, Oral and Maxillofacial Surgery\n\t\t2468-7855\n\t\t\n\t\t\t118\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c69cf97723bebd8668bd93"},"refKey":1},
{"_key":"60c69cf97723bebd8668bd95","_id":"references/60c69cf97723bebd8668bd95","_rev":"_cfFl1XS---","tei":"\n\t\n\t\tThree-dimensional surgical modelling with an open-source software protocol: study of precision and reproducibility in mandibular reconstruction with the fibula free flap\n\t\t\n\t\t\tLGanry\n\t\t\t0000-0001-9384-4154\n\t\t\n\t\t\n\t\t\tJQuilichini\n\t\t\n\t\t\n\t\t\tCMBandini\n\t\t\n\t\t\n\t\t\tPLeyder\n\t\t\n\t\t\n\t\t\tBHersant\n\t\t\n\t\t\n\t\t\tJPMeningaud\n\t\t\n\t\t10.1016/j.ijom.2017.02.1276\n\t\t28433213\n\t\n\t\n\t\tInternational Journal of Oral and Maxillofacial Surgery\n\t\tInternational Journal of Oral and Maxillofacial Surgery\n\t\t0901-5027\n\t\t\n\t\t\t46\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c69cf97723bebd8668bd93"},"refKey":2},
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{"_key":"60c69cfa7723bebd8668bda2","_id":"references/60c69cfa7723bebd8668bda2","_rev":"_cfFl1Xy---","tei":"\n\t\n\t\tRDP4: Detection and analysis of recombination patterns in virus genomes\n\t\t\n\t\t\tDarrenPMartin\n\t\t\n\t\t\n\t\t\tBenMurrell\n\t\t\n\t\t\n\t\t\tMichaelGolden\n\t\t\n\t\t\n\t\t\tArjunKhoosal\n\t\t\n\t\t\n\t\t\tBrejnevMuhire\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69cfa7723bebd8668bd9f"},"refKey":34},
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{"_key":"60c69d5c7723bebd8668be21","_id":"references/60c69d5c7723bebd8668be21","_rev":"_cfFl1YK---","tei":"\n\t\n\t\tAxon-Axon Interactions Regulate Topographic Optic Tract Sorting via CYFIP2-Dependent WAVE Complex Function\n\t\t\n\t\t\tJean-MichelCioni\n\t\t\n\t\t\n\t\t\tHovy Ho-WaiWong\n\t\t\n\t\t\n\t\t\tDarioBressan\n\t\t\n\t\t\n\t\t\tLayKodama\n\t\t\n\t\t\n\t\t\tWilliamAHarris\n\t\t\n\t\t\n\t\t\tChristineEHolt\n\t\t\n\t\t10.1016/j.neuron.2018.01.027\n\t\t29518358\n\t\tPMC5855093\n\t\t\n\t\n\t\n\t\tNeuron\n\t\tNeuron\n\t\t0896-6273\n\t\t\n\t\t\t97\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\te6\n\n","document":{"$oid":"60c69d5c7723bebd8668be20"},"refKey":13},
{"_key":"60c69d5c7723bebd8668be22","_id":"references/60c69d5c7723bebd8668be22","_rev":"_cfFl1YW---","tei":"\n\t\n\t\tα-synuclein Induces Mitochondrial Dysfunction through Spectrin and the Actin Cytoskeleton\n\t\t\n\t\t\tDalilaGOrdonez\n\t\t\n\t\t\n\t\t\tMichaelKLee\n\t\t\n\t\t\n\t\t\tMelBFeany\n\t\t\n\t\t10.1016/j.neuron.2017.11.036\n\t\t29249285\n\t\tPMC5755717\n\t\t\n\t\n\t\n\t\tNeuron\n\t\tNeuron\n\t\t0896-6273\n\t\t\n\t\t\t97\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\te6\n\n","document":{"$oid":"60c69d5c7723bebd8668be20"},"refKey":62},
{"_key":"60c69d5c7723bebd8668be23","_id":"references/60c69d5c7723bebd8668be23","_rev":"_cfFl1Yi---","tei":"\n\t\n\t\tp190RhoGAP Filters Competing Signals to Resolve Axon Guidance Conflicts\n\t\t\n\t\t\tDarioBonanomi\n\t\t\n\t\t\n\t\t\tFabiolaValenza\n\t\t\n\t\t\n\t\t\tOnanongChivatakarn\n\t\t\n\t\t\n\t\t\tMatthewJSternfeld\n\t\t\n\t\t\n\t\t\tShawnPDriscoll\n\t\t\n\t\t\n\t\t\tAaronAslanian\n\t\t\n\t\t\n\t\t\tKarenLettieri\n\t\t\n\t\t\n\t\t\tMiriamGullo\n\t\t\n\t\t\n\t\t\tAuroraBadaloni\n\t\t\n\t\t\n\t\t\tJosephWLewcock\n\t\t\n\t\t\n\t\t\tTonyHunter\n\t\t\n\t\t\n\t\t\tSamuelLPfaff\n\t\t\n\t\t10.1016/j.neuron.2019.02.034\n\t\n\t\n\t\tNeuron\n\t\tNeuron\n\t\t0896-6273\n\t\t\n\t\t\t102\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\te9\n\n","document":{"$oid":"60c69d5c7723bebd8668be20"},"refKey":6},
{"_key":"60c69d6d7723bebd8668be59","_id":"references/60c69d6d7723bebd8668be59","_rev":"_cfFl1Yq---","tei":"\n\t\n\t\tUnicycler: Resolving bacterial genome assemblies from short and long sequencing reads\n\t\t\n\t\t\tRyanRWick\n\t\t\t0000-0001-8349-0778\n\t\t\n\t\t\n\t\t\tLouiseMJudd\n\t\t\t0000-0003-3613-4839\n\t\t\n\t\t\n\t\t\tClaireLGorrie\n\t\t\t0000-0002-2637-2529\n\t\t\n\t\t\n\t\t\tKathrynEHolt\n\t\t\t0000-0003-3949-2471\n\t\t\n\t\t10.1371/journal.pcbi.1005595\n\t\t28594827\n\t\tPMC5481147\n\t\t\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t13\n\t\t\t6\n\t\t\te1005595\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c69d6d7723bebd8668be58"},"refKey":5},
{"_key":"60c69d817723bebd8668be67","_id":"references/60c69d817723bebd8668be67","_rev":"_cfFl1Y2---","tei":"\n\t\n\t\tTOPAS: An innovative proton Monte Carlo platform for research and clinical applications\n\t\t\n\t\t\tJPerl\n\t\t\n\t\t\n\t\t\tJShin\n\t\t\n\t\t\n\t\t\tJSchümann\n\t\t\n\t\t\n\t\t\tBFaddegon\n\t\t\n\t\t\n\t\t\tHPaganetti\n\t\t\n\t\t10.1118/1.4758060\n\t\t23127075\n\t\tPMC3493036\n\t\t\n\t\n\t\n\t\tMedical Physics\n\t\tMed. Phys.\n\t\t0094-2405\n\t\t\n\t\t\t39\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c69d817723bebd8668be66"},"refKey":17},
{"_key":"60c69d817723bebd8668be68","_id":"references/60c69d817723bebd8668be68","_rev":"_cfFl1ZC---","tei":"\n\t\n\t\tGEANT4-a simulation toolkit\n\t\t\n\t\t\tSAgostinelli\n\t\t\n\t\t\n\t\t\tJAllison\n\t\t\n\t\t\n\t\t\tKAmako\n\t\t\n\t\t\n\t\t\tJApostolakis\n\t\t\n\t\t\n\t\t\tHAraujo\n\t\t\n\t\t\n\t\t\tPArce\n\t\t\n\t\n\t\n\t\tNucl Instrum Methods Phys Res A\n\t\t\n\t\t\t506\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69d817723bebd8668be66"},"refKey":18},
{"_key":"60c69d817723bebd8668be69","_id":"references/60c69d817723bebd8668be69","_rev":"_cfFl1ZO---","tei":"\n\t\n\t\tRecent developments in Geant4\n\t\t\n\t\t\tJAllison\n\t\t\n\t\t\n\t\t\tKAmako\n\t\t\n\t\t\n\t\t\tJApostolakis\n\t\t\n\t\t\n\t\t\tPArce\n\t\t\n\t\t\n\t\t\tMAsai\n\t\t\n\t\t\n\t\t\tTAso\n\t\t\n\t\n\t\n\t\tNucl Instrum Methods Phys Res A\n\t\t\n\t\t\t835\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69d817723bebd8668be66"},"refKey":19},
{"_key":"60c69d977723bebd8668be75","_id":"references/60c69d977723bebd8668be75","_rev":"_cfFl1Za---","tei":"\n\t\n\t\tGurobi Optimization LLC: Gurobi optimizer reference manual\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69d977723bebd8668be74"},"refKey":15},
{"_key":"60c69dcc7723bebd8668be87","_id":"references/60c69dcc7723bebd8668be87","_rev":"_cfFl1Zi---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t44\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dcc7723bebd8668be86"},"refKey":22},
{"_key":"60c69dd07723bebd8668be97","_id":"references/60c69dd07723bebd8668be97","_rev":"_cfFl1Zu---","tei":"\n\t\n\t\tImproved Splice Site Detection in Genie\n\t\t\n\t\t\tMartinGReese\n\t\t\n\t\t\n\t\t\tFrankHEeckman\n\t\t\n\t\t\n\t\t\tDavidKulp\n\t\t\n\t\t\n\t\t\tDavidHaussler\n\t\t\n\t\t10.1089/cmb.1997.4.311\n\t\t9278062\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":56},
{"_key":"60c69dd07723bebd8668be98","_id":"references/60c69dd07723bebd8668be98","_rev":"_cfFl1Z6---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tBerkeley Drosophila Genome Project\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":57},
{"_key":"60c69dd07723bebd8668be99","_id":"references/60c69dd07723bebd8668be99","_rev":"_cfFl1aG---","tei":"\n\t\n\t\tFast and accurate short read alignment with burrowswheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":44},
{"_key":"60c69dd07723bebd8668be9a","_id":"references/60c69dd07723bebd8668be9a","_rev":"_cfFl1aO---","tei":"\n\t\n\t\tHighly specific localization of promoter regions in large genomic sequences by PromoterInspector: a novel context analysis approach\n\t\t\n\t\t\tMatthiasScherf\n\t\t\n\t\t\n\t\t\tAndreasKlingenhoff\n\t\t\n\t\t\n\t\t\tThomasWerner\n\t\t\n\t\t10.1006/jmbi.2000.3589\n\t\t10731414\n\t\tS0022-2836(00)93589-7\n\t\tark:/67375/6H6-MDMW2XB9-7\n\t\tB654649A059C5661FCAF3489DB2B192833040269\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t297\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":53},
{"_key":"60c69dd07723bebd8668be9b","_id":"references/60c69dd07723bebd8668be9b","_rev":"_cfFl1aa---","tei":"\n\t\n\t\tEuropean College of Veterinary Ophthalmologists\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\thereditary-eye-diseases/eye-scheme\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":31},
{"_key":"60c69dd07723bebd8668be9c","_id":"references/60c69dd07723bebd8668be9c","_rev":"_cfFl1am---","tei":"\n\t\n\t\tGene therapy rescues photoreceptor blindness in dogs and paves the way for treating human Xlinked retinitis pigmentosa\n\t\t\n\t\t\tWABeltran\n\t\t\n\t\t\n\t\t\tAVCideciyan\n\t\t\n\t\t\n\t\t\tASLewin\n\t\t\n\t\t\n\t\t\tSIwabe\n\t\t\n\t\t\n\t\t\tHKhanna\n\t\t\n\t\t\n\t\t\tASumaroka\n\t\t\n\t\t\n\t\t\tVAChiodo\n\t\t\n\t\t\n\t\t\tDSFajardo\n\t\t\n\t\t\n\t\t\tAJRoman\n\t\t\n\t\t\n\t\t\tWTDeng\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t109\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":32},
{"_key":"60c69dd07723bebd8668be9d","_id":"references/60c69dd07723bebd8668be9d","_rev":"_cfFl1ay---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":40},
{"_key":"60c69dd07723bebd8668be9e","_id":"references/60c69dd07723bebd8668be9e","_rev":"_cfFl1b----","tei":"\n\t\n\t\tIntegrative genomics viewer (IGV): high-performance genomics data visualization and exploration\n\t\t\n\t\t\tHThorvaldsdottir\n\t\t\n\t\t\n\t\t\tJTRobinson\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t14\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":41},
{"_key":"60c69dd07723bebd8668be9f","_id":"references/60c69dd07723bebd8668be9f","_rev":"_cfFl1bK---","tei":"\n\t\n\t\tSOAPdenovo-trans: de novo transcriptome assembly with short RNA-Seq reads\n\t\t\n\t\t\tYXie\n\t\t\n\t\t\n\t\t\tGWu\n\t\t\n\t\t\n\t\t\tJTang\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tJPatterson\n\t\t\n\t\t\n\t\t\tSLiu\n\t\t\n\t\t\n\t\t\tWHuang\n\t\t\n\t\t\n\t\t\tGHe\n\t\t\n\t\t\n\t\t\tSGu\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":49},
{"_key":"60c69dd07723bebd8668bea0","_id":"references/60c69dd07723bebd8668bea0","_rev":"_cfFl1bS---","tei":"\n\t\n\t\t\n\t\tGenomatix software suite\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":52},
{"_key":"60c69dd07723bebd8668bea1","_id":"references/60c69dd07723bebd8668bea1","_rev":"_cfFl1be---","tei":"\n\t\n\t\tThe human genome browser at UCSC\n\t\t\n\t\t\tWJKent\n\t\t\n\t\t\n\t\t\tCWSugnet\n\t\t\n\t\t\n\t\t\tTSFurey\n\t\t\n\t\t\n\t\t\tKMRoskin\n\t\t\n\t\t\n\t\t\tTHPringle\n\t\t\n\t\t\n\t\t\tAMZahler\n\t\t\n\t\t\n\t\t\tDHaussler\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":51},
{"_key":"60c69dd07723bebd8668bea2","_id":"references/60c69dd07723bebd8668bea2","_rev":"_cfFl1bq---","tei":"\n\t\n\t\tMatInspector and beyond: promoter analysis based on transcription factor binding sites\n\t\t\n\t\t\tKCartharius\n\t\t\n\t\t\n\t\t\tKFrech\n\t\t\n\t\t\n\t\t\tKGrote\n\t\t\n\t\t\n\t\t\tBKlocke\n\t\t\n\t\t\n\t\t\tMHaltmeier\n\t\t\n\t\t\n\t\t\tAKlingenhoff\n\t\t\n\t\t\n\t\t\tMFrisch\n\t\t\n\t\t\n\t\t\tMBayerlein\n\t\t\n\t\t\n\t\t\tTWerner\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":54},
{"_key":"60c69dd07723bebd8668bea3","_id":"references/60c69dd07723bebd8668bea3","_rev":"_cfFl1b2---","tei":"\n\t\n\t\tThe Ensembl Variant Effect Predictor\n\t\t\n\t\t\tWilliamMclaren\n\t\t\n\t\t\n\t\t\tLaurentGil\n\t\t\n\t\t\n\t\t\tSarahEHunt\n\t\t\n\t\t\n\t\t\tHarpreetSinghRiat\n\t\t\n\t\t\n\t\t\tGrahamR SRitchie\n\t\t\n\t\t\n\t\t\tAnjaThormann\n\t\t\n\t\t\n\t\t\tPaulFlicek\n\t\t\n\t\t\n\t\t\tFionaCunningham\n\t\t\n\t\t10.1101/042374\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t122\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":48},
{"_key":"60c69dd07723bebd8668bea4","_id":"references/60c69dd07723bebd8668bea4","_rev":"_cfFl1cC---","tei":"\n\t\n\t\tVariance component model to account for sample structure in genome-wide association studies\n\t\t\n\t\t\tHMKang\n\t\t\n\t\t\n\t\t\tJHSul\n\t\t\n\t\t\n\t\t\tSKService\n\t\t\n\t\t\n\t\t\tNAZaitlen\n\t\t\n\t\t\n\t\t\tSYKong\n\t\t\n\t\t\n\t\t\tNBFreimer\n\t\t\n\t\t\n\t\t\tCSabatti\n\t\t\n\t\t\n\t\t\tEEskin\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t42\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd07723bebd8668be96"},"refKey":42},
{"_key":"60c69dd77723bebd8668bec9","_id":"references/60c69dd77723bebd8668bec9","_rev":"_cfFl1cO---","tei":"\n\t\n\t\tVariance component testing for identifying differentially expressed genes in RNA-seq data\n\t\t\n\t\t\tShengYang\n\t\t\n\t\t\n\t\t\tFangShao\n\t\t\n\t\t\n\t\t\tWeiweiDuan\n\t\t\n\t\t\n\t\t\tYangZhao\n\t\t\n\t\t\n\t\t\tFengChen\n\t\t\n\t\t10.7717/peerj.3797\n\t\t28929020\n\t\tPMC5592911\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\te3797\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c69dd77723bebd8668bec8"},"refKey":29},
{"_key":"60c69dd77723bebd8668beca","_id":"references/60c69dd77723bebd8668beca","_rev":"_cfFl1cW---","tei":"\n\t\n\t\tDifferential expression analysis for sequence count data\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t10.1038/npre.2010.4282.1\n\t\t\n\t\n\t\n\t\tNature Precedings\n\t\tNat Prec\n\t\t1756-0357\n\t\t\n\t\t\t11\n\t\t\tR106\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c69dd77723bebd8668bec8"},"refKey":0},
{"_key":"60c69dd77723bebd8668becb","_id":"references/60c69dd77723bebd8668becb","_rev":"_cfFl1ci---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69dd77723bebd8668bec8"},"refKey":21},
{"_key":"60c69ddf7723bebd8668bef0","_id":"references/60c69ddf7723bebd8668bef0","_rev":"_cfFl1cu---","tei":"\n\t\n\t\tOverview of the CCP4 suite and current developments\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tCCBallard\n\t\t\n\t\t\n\t\t\tKDCowtan\n\t\t\n\t\n\t\n\t\tActa Crystallogr D\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69ddf7723bebd8668beef"},"refKey":32},
{"_key":"60c69ddf7723bebd8668bef1","_id":"references/60c69ddf7723bebd8668bef1","_rev":"_cfFl1c6---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr D\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69ddf7723bebd8668beef"},"refKey":36},
{"_key":"60c69ddf7723bebd8668bef2","_id":"references/60c69ddf7723bebd8668bef2","_rev":"_cfFl1dG---","tei":"\n\t\n\t\tMolecular replacement withMOLREP\n\t\t\n\t\t\tAVagin\n\t\t\n\t\t\n\t\t\tATeplyakov\n\t\t\n\t\t10.1107/97809553602060000843\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69ddf7723bebd8668beef"},"refKey":33},
{"_key":"60c69ddf7723bebd8668bef3","_id":"references/60c69ddf7723bebd8668bef3","_rev":"_cfFl1dS---","tei":"\n\t\n\t\tTreatment of negative intensity observations\n\t\t\n\t\t\tSFrench\n\t\t\n\t\t\n\t\t\tKWilson\n\t\t\n\t\n\t\n\t\tActa Crystallogr A\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69ddf7723bebd8668beef"},"refKey":30},
{"_key":"60c69ddf7723bebd8668bef4","_id":"references/60c69ddf7723bebd8668bef4","_rev":"_cfFl1da---","tei":"\n\t\n\t\tA statistic for local intensity differences: robustness to anisotropy and pseudo-centering and utility for detecting twinning\n\t\t\n\t\t\tJenniferEPadilla\n\t\t\n\t\t\n\t\t\tToddOYeates\n\t\t\n\t\t10.1107/s0907444903007947\n\t\t12832754\n\t\tark:/67375/WNG-V27P3G70-9\n\t\t17824D8F8E44F76E09772FEC7A97EA59F262C9BC\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t59\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c69ddf7723bebd8668beef"},"refKey":31},
{"_key":"60c69ddf7723bebd8668bef5","_id":"references/60c69ddf7723bebd8668bef5","_rev":"_cfFl1dm---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69ddf7723bebd8668beef"},"refKey":35},
{"_key":"60c69e157723bebd8668bf3b","_id":"references/60c69e157723bebd8668bf3b","_rev":"_cfFl1dy---","tei":"\n\t\n\t\tCovidence -Accelerate your systematic review\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e157723bebd8668bf3a"},"refKey":16},
{"_key":"60c69e1d7723bebd8668bf46","_id":"references/60c69e1d7723bebd8668bf46","_rev":"_cfFl1e----","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tRBraun\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tJGumbart\n\t\t\n\t\t\n\t\t\tETajkhorshid\n\t\t\n\t\t\n\t\t\tEVilla\n\t\t\n\t\t\n\t\t\tCChipot\n\t\t\n\t\t\n\t\t\tRDSkeel\n\t\t\n\t\t\n\t\t\tLKale\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e1d7723bebd8668bf45"},"refKey":24},
{"_key":"60c69e1d7723bebd8668bf47","_id":"references/60c69e1d7723bebd8668bf47","_rev":"_cfFl1eK---","tei":"\n\t\n\t\tOptimization of the additive CHARMM all-atom protein force field targeting improved sampling of the backbone ϕ, ψ and side-chain χ1 and χ2 dihedral angles\n\t\t\n\t\t\tRBBest\n\t\t\n\t\t\n\t\t\tXZhu\n\t\t\n\t\t\n\t\t\tJShim\n\t\t\n\t\t\n\t\t\tPELopes\n\t\t\n\t\t\n\t\t\tJMittal\n\t\t\n\t\t\n\t\t\tMFeig\n\t\t\n\t\t\n\t\t\tAMackerellJr\n\t\t\n\t\n\t\n\t\tJournal of chemical theory and computation\n\t\t\n\t\t\t8\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e1d7723bebd8668bf45"},"refKey":1},
{"_key":"60c69e257723bebd8668bf4d","_id":"references/60c69e257723bebd8668bf4d","_rev":"_cfFl1eW---","tei":"\n\t\n\t\tPrevalence and Clinical Characterization of a Newly Identified Human Rhinovirus C Species in Children with Acute Respiratory Tract Infections\n\t\t\n\t\t\tYJin\n\t\t\n\t\t\n\t\t\tX-HYuan\n\t\t\n\t\t\n\t\t\tZ-PXie\n\t\t\n\t\t\n\t\t\tH-CGao\n\t\t\n\t\t\n\t\t\tJ-RSong\n\t\t\n\t\t\n\t\t\tR-FZhang\n\t\t\n\t\t\n\t\t\tZ-QXu\n\t\t\n\t\t\n\t\t\tL-SZheng\n\t\t\n\t\t\n\t\t\tY-DHou\n\t\t\n\t\t\n\t\t\tZ-JDuan\n\t\t\n\t\t10.1128/jcm.00745-09\n\t\t19625482\n\t\tPMC2738104\n\t\t\n\t\n\t\n\t\tJournal of Clinical Microbiology\n\t\tJournal of Clinical Microbiology\n\t\t0095-1137\n\t\t\n\t\t\t47\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c69e257723bebd8668bf4c"},"refKey":19},
{"_key":"60c69e357723bebd8668bf58","_id":"references/60c69e357723bebd8668bf58","_rev":"_cfFl1ee---","tei":"\n\t\n\t\tSiegwart, maplab, An open framework for research in visual-inertial mapping and localization\n\t\t\n\t\t\tTSchneider\n\t\t\n\t\t\n\t\t\tMDymczyk\n\t\t\n\t\t\n\t\t\tMFehr\n\t\t\n\t\t\n\t\t\tKEgger\n\t\t\n\t\t\n\t\t\tSLynen\n\t\t\n\t\t\n\t\t\tIGilitschenski\n\t\t\n\t\t\n\t\t\tR\n\t\t\n\t\n\t\n\t\tIEEE Robot. Autom. Lett\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e357723bebd8668bf57"},"refKey":24},
{"_key":"60c69e357723bebd8668bf59","_id":"references/60c69e357723bebd8668bf59","_rev":"_cfFl1eq---","tei":"\n\t\n\t\tImproved techniques for grid mapping with rao-blackwellized particle filters\n\t\t\n\t\t\tGGrisetti\n\t\t\n\t\t\n\t\t\tCStachniss\n\t\t\n\t\t\n\t\t\tWBurgard\n\t\t\n\t\n\t\n\t\tIEEE Trans. Robot\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e357723bebd8668bf57"},"refKey":19},
{"_key":"60c69e357723bebd8668bf5a","_id":"references/60c69e357723bebd8668bf5a","_rev":"_cfFl1e2---","tei":"\n\t\n\t\tOrb-slam2: an open-source slam system for monocular, stereo, and rgb-d cameras\n\t\t\n\t\t\tRMur-Artal\n\t\t\n\t\t\n\t\t\tJDTardós\n\t\t\n\t\n\t\n\t\tIEEE Trans. Robot\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e357723bebd8668bf57"},"refKey":27},
{"_key":"60c69e357723bebd8668bf5b","_id":"references/60c69e357723bebd8668bf5b","_rev":"_cfFl1fC---","tei":"\n\t\n\t\t\n\t\t\tWHess\n\t\t\n\t\t\n\t\t\tDKohler\n\t\t\n\t\t\n\t\t\tHRapp\n\t\t\n\t\t\n\t\t\tDAndor\n\t\t\n\t\n\t\n\t\tReal-time loop closure in 2D LIDAR SLAM\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e357723bebd8668bf57"},"refKey":23},
{"_key":"60c69e357723bebd8668bf5c","_id":"references/60c69e357723bebd8668bf5c","_rev":"_cfFl1fO---","tei":"\n\t\n\t\ttinySLAM: A SLAM algorithm in less than 200 lines C-language program\n\t\t\n\t\t\tBrunoSteux\n\t\t\n\t\t\n\t\t\tOussamaElHamzaoui\n\t\t\n\t\t10.1109/icarcv.2010.5707402\n\t\n\t\n\t\t2010 11th International Conference on Control Automation Robotics & Vision\n\t\t\t\tSingapore\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e357723bebd8668bf57"},"refKey":20},
{"_key":"60c69e357723bebd8668bf5d","_id":"references/60c69e357723bebd8668bf5d","_rev":"_cfFl1fa---","tei":"\n\t\n\t\tAutonomous aerial navigation using monocular visual-inertial fusion\n\t\t\n\t\t\tYLin\n\t\t\n\t\t\n\t\t\tFGao\n\t\t\n\t\t\n\t\t\tTQin\n\t\t\n\t\t\n\t\t\tWGao\n\t\t\n\t\t\n\t\t\tTLiu\n\t\t\n\t\t\n\t\t\tWWu\n\t\t\n\t\t\n\t\t\tZYang\n\t\t\n\t\t\n\t\t\tSShen\n\t\t\n\t\n\t\n\t\tJ. Field Robot\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e357723bebd8668bf57"},"refKey":25},
{"_key":"60c69e5a7723bebd8668bf78","_id":"references/60c69e5a7723bebd8668bf78","_rev":"_cfFl1fi---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunko ´czi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL.-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\n\t\n\t\tActa Cryst\n\t\t\n\t\t\t66\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e5a7723bebd8668bf77"},"refKey":0},
{"_key":"60c69e5a7723bebd8668bf79","_id":"references/60c69e5a7723bebd8668bf79","_rev":"_cfFl1fu---","tei":"\n\t\n\t\tEstimate your dose: RADDOSE-3D\n\t\t\n\t\t\tCharlesSBury\n\t\t\n\t\t\n\t\t\tJonathanCBrooks-Bartlett\n\t\t\n\t\t\n\t\t\tStevenPWalsh\n\t\t\n\t\t\n\t\t\tElspethFGarman\n\t\t\n\t\t10.1002/pro.3302\n\t\t28921782\n\t\tPMC5734275\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c69e5a7723bebd8668bf77"},"refKey":10},
{"_key":"60c69e5a7723bebd8668bf7a","_id":"references/60c69e5a7723bebd8668bf7a","_rev":"_cfFl1f6---","tei":"\n\t\n\t\tRADDOSE-3D: time- and space-resolved modelling of dose in macromolecular crystallography\n\t\t\n\t\t\tOliverBZeldin\n\t\t\n\t\t\n\t\t\tMarkusGerstel\n\t\t\n\t\t\n\t\t\tElspethFGarman\n\t\t\n\t\t10.1107/s0021889813011461\n\t\tark:/67375/WNG-PSFS588V-Z\n\t\t5216232F8BDB00D319A41078492945B256A60BAD\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t46\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c69e5a7723bebd8668bf77"},"refKey":78},
{"_key":"60c69e5c7723bebd8668bf8a","_id":"references/60c69e5c7723bebd8668bf8a","_rev":"_cfFl1gG---","tei":"\n\t\n\t\tBias, prevalence and kappa\n\t\t\n\t\t\tTedByrt\n\t\t\n\t\t\n\t\t\tJanetBishop\n\t\t\n\t\t\n\t\t\tJohnBCarlin\n\t\t\n\t\t10.1016/0895-4356(93)90018-v\n\t\t8501467\n\t\t0895-4356(93)90018-V\n\t\tark:/67375/6H6-86MFPXTZ-Q\n\t\t2278F38E37DFCB732BCF091E0BA40E13DC28FECC\n\t\n\t\n\t\tJournal of Clinical Epidemiology\n\t\tJournal of Clinical Epidemiology\n\t\t0895-4356\n\t\t\n\t\t\t46\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c69e5c7723bebd8668bf89"},"refKey":2},
{"_key":"60c69e6a7723bebd8668bf94","_id":"references/60c69e6a7723bebd8668bf94","_rev":"_cfFl1gS---","tei":"\n\t\n\t\tGeneric ontology of datatypes\n\t\t\n\t\t\tPančePanov\n\t\t\t0000-0002-7685-9140\n\t\t\n\t\t\n\t\t\tLarisaNSoldatova\n\t\t\n\t\t\n\t\t\tSašoDžeroski\n\t\t\n\t\t10.1016/j.ins.2015.08.006\n\t\n\t\n\t\tInformation Sciences\n\t\tInformation Sciences\n\t\t0020-0255\n\t\t\n\t\t\t329\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c69e6a7723bebd8668bf93"},"refKey":17},
{"_key":"60c69e7d7723bebd8668bfa4","_id":"references/60c69e7d7723bebd8668bfa4","_rev":"_cfFl1ga---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e7d7723bebd8668bfa3"},"refKey":20},
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{"_key":"60c69e7d7723bebd8668bfa6","_id":"references/60c69e7d7723bebd8668bfa6","_rev":"_cfFl1gy---","tei":"\n\t\n\t\tRAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69e7d7723bebd8668bfa3"},"refKey":36},
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{"_key":"60c69eba7723bebd8668bfd6","_id":"references/60c69eba7723bebd8668bfd6","_rev":"_cfFl1h2---","tei":"\n\t\n\t\tThe Barcelogic SMT Solver\n\t\t\n\t\t\tMiquelBofill\n\t\t\n\t\t\n\t\t\tRobertNieuwenhuis\n\t\t\n\t\t\n\t\t\tAlbertOliveras\n\t\t\n\t\t\n\t\t\tEnricRodríguez-Carbonell\n\t\t\n\t\t\n\t\t\tAlbertRubio\n\t\t\n\t\t10.1007/978-3-540-70545-1_27\n\t\tark:/67375/HCB-G4C0R07T-B\n\t\t6FC5CA2B846BA05733B04C5C3FBEE67E004ABC19\n\t\t\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tAGupta\n\t\t\tSMalik\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t2008\n\t\t\t5123\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69eba7723bebd8668bfd5"},"refKey":6},
{"_key":"60c69eba7723bebd8668bfd7","_id":"references/60c69eba7723bebd8668bfd7","_rev":"_cfFl1iC---","tei":"\n\t\n\t\tTOAST: Applying Answer Set Programming to Superoptimisation\n\t\t\n\t\t\tMartinBrain\n\t\t\n\t\t\n\t\t\tTomCrick\n\t\t\n\t\t\n\t\t\tMarinaDe Vos\n\t\t\n\t\t\n\t\t\tJohnFitch\n\t\t\n\t\t10.1007/11799573_21\n\t\tark:/67375/HCB-THT5VDLZ-Z\n\t\tFD195C2BB1168F9BA12DF9A6C64890F2262B9391\n\t\t\n\t\t\n\t\n\t\n\t\tLogic Programming\n\t\t\t\t\n\t\t\tSEtalle\n\t\t\tMTruszczyński\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t4079\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69eba7723bebd8668bfd5"},"refKey":7},
{"_key":"60c69eba7723bebd8668bfd8","_id":"references/60c69eba7723bebd8668bfd8","_rev":"_cfFl1iO---","tei":"\n\t\n\t\tGASOL: gas analysis and optimization for ethereum smart contracts\n\t\t\n\t\t\tEAlbert\n\t\t\n\t\t\n\t\t\tJCorreas\n\t\t\n\t\t\n\t\t\tPGordillo\n\t\t\n\t\t\n\t\t\tGRomán-Díez\n\t\t\n\t\t\n\t\t\tARubio\n\t\t\n\t\t10.1007/978-3-030-45237-7_7\n\t\t\n\t\n\t\n\t\tTACAS 2020. LNCS\n\t\t\t\tCham\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t12079\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69eba7723bebd8668bfd5"},"refKey":4},
{"_key":"60c69eba7723bebd8668bfd9","_id":"references/60c69eba7723bebd8668bfd9","_rev":"_cfFl1ia---","tei":"\n\t\n\t\tThe MathSAT5 SMT Solver\n\t\t\n\t\t\tAlessandroCimatti\n\t\t\n\t\t\n\t\t\tAlbertoGriggio\n\t\t\n\t\t\n\t\t\tBastiaanJoostSchaafsma\n\t\t\n\t\t\n\t\t\tRobertoSebastiani\n\t\t\n\t\t10.1007/978-3-642-36742-7_7\n\t\tark:/67375/HCB-KNF05CM3-W\n\t\t2C2C86F1AEE57F215E7825739BB1F0F850BE0BA3\n\t\t\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\t\n\t\t\tNPiterman\n\t\t\tSASmolka\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t7795\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69eba7723bebd8668bfd5"},"refKey":10},
{"_key":"60c69eba7723bebd8668bfda","_id":"references/60c69eba7723bebd8668bfda","_rev":"_cfFl1ii---","tei":"\n\t\n\t\tEthIR: A Framework for High-Level Analysis of Ethereum Bytecode\n\t\t\n\t\t\tElviraAlbert\n\t\t\n\t\t\n\t\t\tPabloGordillo\n\t\t\n\t\t\n\t\t\tBenjaminLivshits\n\t\t\n\t\t\n\t\t\tAlbertRubio\n\t\t\n\t\t\n\t\t\tIlyaSergey\n\t\t\n\t\t10.1007/978-3-030-01090-4_30\n\t\t1007/978-3-030-01090-4 30\n\t\t\n\t\t\n\t\n\t\n\t\tAutomated Technology for Verification and Analysis\n\t\t\t\t\n\t\t\tSKLahiri\n\t\t\tCWang\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11138\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69eba7723bebd8668bfd5"},"refKey":5},
{"_key":"60c69eba7723bebd8668bfdb","_id":"references/60c69eba7723bebd8668bfdb","_rev":"_cfFl1iu---","tei":"\n\t\n\t\tMadMax: surviving out-of-gas conditions in Ethereum smart contracts\n\t\t\n\t\t\tNevilleGrech\n\t\t\n\t\t\n\t\t\tMichaelKong\n\t\t\n\t\t\n\t\t\tAntonJurisevic\n\t\t\n\t\t\n\t\t\tLexiBrent\n\t\t\n\t\t\n\t\t\tBernhardScholz\n\t\t\n\t\t\n\t\t\tYannisSmaragdakis\n\t\t\n\t\t10.1145/3276486\n\t\t\n\t\n\t\n\t\tProceedings of the ACM on Programming Languages\n\t\tProc. ACM Program. Lang.\n\t\t2475-1421\n\t\t\n\t\t\t2\n\t\t\tOOPSLA\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\tPACMPL\n\n","document":{"$oid":"60c69eba7723bebd8668bfd5"},"refKey":13},
{"_key":"60c69eba7723bebd8668bfdc","_id":"references/60c69eba7723bebd8668bfdc","_rev":"_cfFl1i6---","tei":"\n\t\n\t\tSmashing ethereum smart contracts for fun and real profit\n\t\t\n\t\t\tBMueller\n\t\t\n\t\n\t\n\t\tThe 9th annual HITB Security Conference\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69eba7723bebd8668bfd5"},"refKey":17},
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{"_key":"60c69f4c7723bebd8668c049","_id":"references/60c69f4c7723bebd8668c049","_rev":"_cfFl1jS---","tei":"\n\t\n\t\tPrinciples of dengue virus evolvability derived from genotype-fitness maps in human and mosquito cells\n\t\t\n\t\t\tPTDolan\n\t\t\n\t\t\n\t\t\tSTaguwa\n\t\t\n\t\t\n\t\t\tMARangel\n\t\t\n\t\t\n\t\t\tAAcevedo\n\t\t\n\t\t\n\t\t\tTHagai\n\t\t\n\t\t\n\t\t\tRAndino\n\t\t\n\t\t\n\t\t\tJFrydman\n\t\t\n\t\t10.1101/2020.02.05.936195\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69f4c7723bebd8668c048"},"refKey":11},
{"_key":"60c69fad7723bebd8668c07d","_id":"references/60c69fad7723bebd8668c07d","_rev":"_cfFl1ja---","tei":"\n\t\n\t\tThe dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tDavideCacchiarelli\n\t\t\n\t\t\n\t\t\tJonnaGrimsby\n\t\t\n\t\t\n\t\t\tPraptiPokharel\n\t\t\n\t\t\n\t\t\tShuqiangLi\n\t\t\n\t\t\n\t\t\tMichaelMorse\n\t\t\n\t\t\n\t\t\tNiallJLennon\n\t\t\n\t\t\n\t\t\tKennethJLivak\n\t\t\n\t\t\n\t\t\tTarjeiSMikkelsen\n\t\t\t0000-0002-8133-3135\n\t\t\n\t\t\n\t\t\tJohnLRinn\n\t\t\n\t\t10.1038/nbt.2859\n\t\t24658644\n\t\tPMC4122333\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t32\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c69fad7723bebd8668c07c"},"refKey":39},
{"_key":"60c69fad7723bebd8668c07e","_id":"references/60c69fad7723bebd8668c07e","_rev":"_cfFl1jm---","tei":"\n\t\n\t\tSilkDB 3.0: visualizing and exploring multiple levels of data for silkworm\n\t\t\n\t\t\tFLu\n\t\t\n\t\t\n\t\t\tZWei\n\t\t\n\t\t\n\t\t\tYLuo\n\t\t\n\t\t\n\t\t\tHGuo\n\t\t\n\t\t\n\t\t\tGZhang\n\t\t\n\t\t\n\t\t\tQXia\n\t\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t10.1093/nar/gkz919\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69fad7723bebd8668c07c"},"refKey":12},
{"_key":"60c69fee7723bebd8668c0a3","_id":"references/60c69fee7723bebd8668c0a3","_rev":"_cfFl1jy---","tei":"\n\t\n\t\tGenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research-an update\n\t\t\n\t\t\tRPeakall\n\t\t\n\t\t\n\t\t\tPESmouse\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c69fee7723bebd8668c0a2"},"refKey":105},
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{"_key":"60c6a0b47723bebd8668c0c9","_id":"references/60c6a0b47723bebd8668c0c9","_rev":"_cfFl1kS---","tei":"\n\t\n\t\tMonitoring Count Time Series inR: Aberration Detection in Public Health Surveillance\n\t\t\n\t\t\tMaëlleSalmon\n\t\t\n\t\t\n\t\t\tDirkSchumacher\n\t\t\n\t\t\n\t\t\tMichaelHöhle\n\t\t\n\t\t10.18637/jss.v070.i10\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t70\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c6a0b47723bebd8668c0c8"},"refKey":15},
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{"_key":"60c6a0e87723bebd8668c0f7","_id":"references/60c6a0e87723bebd8668c0f7","_rev":"_cfFl1kq---","tei":"\n\t\n\t\tMetascape provides a biologist-oriented resource for the analysis of systems-level datasets\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tLPache\n\t\t\n\t\t\n\t\t\tMChang\n\t\t\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t10\n\t\t\t1523\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a0e87723bebd8668c0f6"},"refKey":17},
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{"_key":"60c6a1567723bebd8668c141","_id":"references/60c6a1567723bebd8668c141","_rev":"_cfFl1lq---","tei":"\n\t\n\t\tPredicting functional variants in enhancer and promoter elements using RegulomeDB\n\t\t\n\t\t\tShengchengDong\n\t\t\t0000-0001-5728-8090\n\t\t\n\t\t\n\t\t\tAlanPBoyle\n\t\t\n\t\t10.1002/humu.23791\n\t\t\n\t\n\t\n\t\tHuman Mutation\n\t\tHuman Mutation\n\t\t1059-7794\n\t\t1098-1004\n\t\t\n\t\t\t40\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6a1567723bebd8668c140"},"refKey":22},
{"_key":"60c6a1a77723bebd8668c158","_id":"references/60c6a1a77723bebd8668c158","_rev":"_cfFl1l2---","tei":"\n\t\n\t\tGeneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a1a77723bebd8668c157"},"refKey":1},
{"_key":"60c6a1e37723bebd8668c15d","_id":"references/60c6a1e37723bebd8668c15d","_rev":"_cfFl1mC---","tei":"\n\t\n\t\tImportance of the CMAP Correction to the CHARMM22 Protein Force Field: Dynamics of Hen Lysozyme\n\t\t\n\t\t\tMatthiasBuck\n\t\t\n\t\t\n\t\t\tSabineBouguet-Bonnet\n\t\t\n\t\t\n\t\t\tRichardWPastor\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t10.1529/biophysj.105.078154\n\t\t16361340\n\t\tPMC1367299\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t90\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6a1e37723bebd8668c15c"},"refKey":0},
{"_key":"60c6a2447723bebd8668c1b1","_id":"references/60c6a2447723bebd8668c1b1","_rev":"_cfFl1mK---","tei":"\n\t\n\t\taffy-analysis of Affymetrix GeneChip data at the probe level\n\t\t\n\t\t\tLGautier\n\t\t\n\t\t\n\t\t\tLCope\n\t\t\n\t\t\n\t\t\tBMBolstad\n\t\t\n\t\t\n\t\t\tRAIrizarry\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a2447723bebd8668c1b0"},"refKey":13},
{"_key":"60c6a2447723bebd8668c1b2","_id":"references/60c6a2447723bebd8668c1b2","_rev":"_cfFl1mW---","tei":"\n\t\n\t\tUse of within-array replicate spots for assessing differential expression in microarray experiments\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tJMichaud\n\t\t\n\t\t\n\t\t\tHSScott\n\t\t\n\t\t10.1093/bioinformatics/bti270\n\t\t15657102\n\t\tark:/67375/HXZ-L1DB9S0S-1\n\t\t5697F154CB953A22F21422AEA96C02098FB719FB\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6a2447723bebd8668c1b0"},"refKey":14},
{"_key":"60c6a26d7723bebd8668c1c4","_id":"references/60c6a26d7723bebd8668c1c4","_rev":"_cfFl1mi---","tei":"\n\t\n\t\tBase 11.5 Applications guide\n\t\t\n\t\t\t\n\t\t\tSPSS Inc\n\t\t\n\t\n\n","document":{"$oid":"60c6a26d7723bebd8668c1c3"},"refKey":13},
{"_key":"60c6a2787723bebd8668c1cf","_id":"references/60c6a2787723bebd8668c1cf","_rev":"_cfFl1mu---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a2787723bebd8668c1ce"},"refKey":21},
{"_key":"60c6a29b7723bebd8668c1ef","_id":"references/60c6a29b7723bebd8668c1ef","_rev":"_cfFl1m6---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDaWeiHuang\n\t\t\n\t\t\n\t\t\tBradTSherman\n\t\t\n\t\t\n\t\t\tRichardALempicki\n\t\t\n\t\t10.1038/nprot.2008.211\n\t\t19131956\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6a29b7723bebd8668c1ee"},"refKey":23},
{"_key":"60c6a2a37723bebd8668c1f6","_id":"references/60c6a2a37723bebd8668c1f6","_rev":"_cfFl1nG---","tei":"\n\t\n\t\tNormalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression\n\t\t\n\t\t\tChristophHafemeister\n\t\t\t0000-0001-6365-8254\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/576827\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t296\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6a2a37723bebd8668c1f4"},"refKey":7},
{"_key":"60c6a2de7723bebd8668c228","_id":"references/60c6a2de7723bebd8668c228","_rev":"_cfFl1nS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tFFaul\n\t\t\n\t\t\n\t\t\tEErdfelder\n\t\t\n\t\t\n\t\t\tA.-GLang\n\t\t\n\t\t\n\t\t\tABuchner\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a2de7723bebd8668c227"},"refKey":27},
{"_key":"60c6a2e27723bebd8668c22e","_id":"references/60c6a2e27723bebd8668c22e","_rev":"_cfFl1ne---","tei":"\n\t\n\t\tRAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference\n\t\t\n\t\t\tAMKozlov\n\t\t\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tTFlouri\n\t\t\n\t\t\n\t\t\tBMorel\n\t\t\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a2e27723bebd8668c22d"},"refKey":39},
{"_key":"60c6a2f37723bebd8668c241","_id":"references/60c6a2f37723bebd8668c241","_rev":"_cfFl1nq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a2f37723bebd8668c240"},"refKey":15},
{"_key":"60c6a2f37723bebd8668c242","_id":"references/60c6a2f37723bebd8668c242","_rev":"_cfFl1ny---","tei":"\n\t\n\t\tRDP2: recombination detection and analysis from sequence alignments\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tCWilliamson\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bth490\n\t\t15377507\n\t\tark:/67375/HXZ-1CJ571R5-H\n\t\tFBF994AF07DCF440DBE2361DA623551B56A99871\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6a2f37723bebd8668c240"},"refKey":19},
{"_key":"60c6a2f57723bebd8668c248","_id":"references/60c6a2f57723bebd8668c248","_rev":"_cfFl1o----","tei":"\n\t\n\t\tA Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a2f57723bebd8668c247"},"refKey":39},
{"_key":"60c6a3527723bebd8668c288","_id":"references/60c6a3527723bebd8668c288","_rev":"_cfFl1oO---","tei":"\n\t\n\t\tThe Language of Technical Computing\n\t\t\n\t\t\t\n\t\t\tThe MathWorks, Inc\n\t\t\n\t\t\n\t\t\tMATLAB®\n\t\t\n\t\n\n","document":{"$oid":"60c6a3527723bebd8668c287"},"refKey":13},
{"_key":"60c6a36c7723bebd8668c29a","_id":"references/60c6a36c7723bebd8668c29a","_rev":"_cfFl1oW---","tei":"\n\t\n\t\tBUSCO: assessing genome assembly and annotation completeness with single-copy orthologs\n\t\t\n\t\t\tFASimão\n\t\t\n\t\t\n\t\t\tRMWaterhouse\n\t\t\n\t\t\n\t\t\tPIoannidis\n\t\t\n\t\t\n\t\t\tEVKriventseva\n\t\t\n\t\t\n\t\t\tEMZdobnov\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a36c7723bebd8668c299"},"refKey":70},
{"_key":"60c6a36c7723bebd8668c29b","_id":"references/60c6a36c7723bebd8668c29b","_rev":"_cfFl1oi---","tei":"\n\t\n\t\tFast Program for Clustering and Comparing Large Sets of Protein or Nucleotide Sequences\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1007/978-1-4899-7478-5_221\n\t\n\t\n\t\tEncyclopedia of Metagenomics\n\t\t\t\t\n\t\t\tSpringer US\n\t\t\t\n\t\t\t22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a36c7723bebd8668c299"},"refKey":55},
{"_key":"60c6a36c7723bebd8668c29c","_id":"references/60c6a36c7723bebd8668c29c","_rev":"_cfFl1ou---","tei":"\n\t\n\t\tCD-HIT: accelerated for clustering the next-generation sequencing data\n\t\t\n\t\t\tLFu\n\t\t\n\t\t\n\t\t\tBNiu\n\t\t\n\t\t\n\t\t\tZZhu\n\t\t\n\t\t\n\t\t\tSWu\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a36c7723bebd8668c299"},"refKey":21},
{"_key":"60c6a36c7723bebd8668c29d","_id":"references/60c6a36c7723bebd8668c29d","_rev":"_cfFl1o6---","tei":"\n\t\n\t\tBLAST: a more efficient report with usability improvements\n\t\t\n\t\t\tGMBoratyn\n\t\t\n\t\t\n\t\t\tCCamacho\n\t\t\n\t\t\n\t\t\tPSCooper\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tAFong\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c6a36c7723bebd8668c299"},"refKey":8},
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{"_key":"60c6a36c7723bebd8668c29f","_id":"references/60c6a36c7723bebd8668c29f","_rev":"_cfFl1pO---","tei":"\n\t\n\t\tInterProScan 5: genome-scale protein function classification\n\t\t\n\t\t\tPJones\n\t\t\n\t\t\n\t\t\tDBinns\n\t\t\n\t\t\n\t\t\tHYChang\n\t\t\n\t\t\n\t\t\tMFraser\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a36c7723bebd8668c299"},"refKey":35},
{"_key":"60c6a36c7723bebd8668c2a0","_id":"references/60c6a36c7723bebd8668c2a0","_rev":"_cfFl1pa---","tei":"\n\t\n\t\tCircos: an information aesthetic for comparative genomics\n\t\t\n\t\t\tMKrzywinski\n\t\t\n\t\t\n\t\t\tJSchein\n\t\t\n\t\t\n\t\t\tIBirol\n\t\t\n\t\t\n\t\t\tJConnors\n\t\t\n\t\t\n\t\t\tRGascoyne\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a36c7723bebd8668c299"},"refKey":47},
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{"_key":"60c6a36c7723bebd8668c2a5","_id":"references/60c6a36c7723bebd8668c2a5","_rev":"_cfFl1qS---","tei":"\n\t\n\t\tInference of human population history from individual whole-genome sequences\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t475\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a36c7723bebd8668c299"},"refKey":52},
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{"_key":"60c6a5157723bebd8668c435","_id":"references/60c6a5157723bebd8668c435","_rev":"_cfFl1um---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6a5157723bebd8668c431"},"refKey":16},
{"_key":"60c6a5477723bebd8668c456","_id":"references/60c6a5477723bebd8668c456","_rev":"_cfFl1uy---","tei":"\n\t\n\t\tDrugBank: a comprehensive resource for in silico drug discovery and exploration\n\t\t\n\t\t\tDSWishart\n\t\t\n\t\t\n\t\t\tCKnox\n\t\t\n\t\t\n\t\t\tACGuo\n\t\t\n\t\t\n\t\t\tSShrivastava\n\t\t\n\t\t\n\t\t\tMHassanali\n\t\t\n\t\t\n\t\t\tPStothard\n\t\t\n\t\t\n\t\t\tZChang\n\t\t\n\t\t\n\t\t\tJWoolsey\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a5477723bebd8668c455"},"refKey":112},
{"_key":"60c6a5477723bebd8668c457","_id":"references/60c6a5477723bebd8668c457","_rev":"_cfFl1u6---","tei":"\n\t\n\t\tAn atlas of alternative splicing profiles and functional associations reveals new regulatory programs and genes that simultaneously express multiple major isoforms\n\t\t\n\t\t\tJTapial\n\t\t\n\t\t\n\t\t\tKC HHa\n\t\t\n\t\t\n\t\t\tTSterne-Weiler\n\t\t\n\t\t\n\t\t\tAGohr\n\t\t\n\t\t\n\t\t\tUBraunschweig\n\t\t\n\t\t\n\t\t\tAHermoso-Pulido\n\t\t\n\t\t\n\t\t\tMQuesnel-Vallie `res\n\t\t\n\t\t\n\t\t\tJPermanyer\n\t\t\n\t\t\n\t\t\tRSodaei\n\t\t\n\t\t\n\t\t\tYMarquez\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a5477723bebd8668c455"},"refKey":96},
{"_key":"60c6a5477723bebd8668c458","_id":"references/60c6a5477723bebd8668c458","_rev":"_cfFl1vG---","tei":"\n\t\n\t\tKEA: kinase enrichment analysis\n\t\t\n\t\t\tALachmann\n\t\t\n\t\t\n\t\t\tAMa'ayan\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a5477723bebd8668c455"},"refKey":57},
{"_key":"60c6a5477723bebd8668c459","_id":"references/60c6a5477723bebd8668c459","_rev":"_cfFl1vS---","tei":"\n\t\n\t\tGoFish finds genes with combinations of Gene Ontology attributes\n\t\t\n\t\t\tGFBerriz\n\t\t\n\t\t\n\t\t\tJVWhite\n\t\t\n\t\t\n\t\t\tODKing\n\t\t\n\t\t\n\t\t\tFPRoth\n\t\t\n\t\t10.1093/bioinformatics/btg088\n\t\t12691998\n\t\t1460-2059\n\t\tark:/67375/HXZ-7WFDQ9W7-M\n\t\tBDC1C778264A95277AEF7D24026423D303AA1DF6\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6a5477723bebd8668c455"},"refKey":5},
{"_key":"60c6a5477723bebd8668c45a","_id":"references/60c6a5477723bebd8668c45a","_rev":"_cfFl1ve---","tei":"\n\t\n\t\tAn algorithm for fast preranked gene set enrichment analysis using cumulative statistic calculation\n\t\t\n\t\t\tAlexeyASergushichev\n\t\t\n\t\t10.1101/060012\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6a5477723bebd8668c455"},"refKey":88},
{"_key":"60c6a5477723bebd8668c45b","_id":"references/60c6a5477723bebd8668c45b","_rev":"_cfFl1vm---","tei":"\n\t\n\t\tHH-suite3 for fast remote homology detection and deep protein annotation\n\t\t\n\t\t\tMartinSteinegger\n\t\t\n\t\t\n\t\t\tMarkusMeier\n\t\t\n\t\t\n\t\t\tMilotMirdita\n\t\t\n\t\t\n\t\t\tHaraldVöhringer\n\t\t\n\t\t\n\t\t\tStephanJHaunsberger\n\t\t\n\t\t\n\t\t\tJohannesSöding\n\t\t\t0000-0001-9642-8244\n\t\t\n\t\t10.1186/s12859-019-3019-7\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t473\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c6a5477723bebd8668c455"},"refKey":92},
{"_key":"60c6a5477723bebd8668c45c","_id":"references/60c6a5477723bebd8668c45c","_rev":"_cfFl1vy---","tei":"\n\t\n\t\tCHARMM-GUI: a web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSJo\n\t\t\n\t\t\n\t\t\tTKim\n\t\t\n\t\t\n\t\t\tVGIyer\n\t\t\n\t\t\n\t\t\tWIm\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a5477723bebd8668c455"},"refKey":48},
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{"_key":"60c6a54e7723bebd8668c47f","_id":"references/60c6a54e7723bebd8668c47f","_rev":"_cfFl1wK---","tei":"\n\t\n\t\tTeam: R: A language and environment for statistical computing\n\t\t\n\t\t\tDevelopment Core\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a54e7723bebd8668c47e"},"refKey":33},
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{"_key":"60c6a5a87723bebd8668c4d2","_id":"references/60c6a5a87723bebd8668c4d2","_rev":"_cfFl1we---","tei":"\n\t\n\t\tR: a language and environment for statistical computing, version 3.6.1. Vienna, Austria: R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a5a87723bebd8668c4d1"},"refKey":35},
{"_key":"60c6a5a87723bebd8668c4d3","_id":"references/60c6a5a87723bebd8668c4d3","_rev":"_cfFl1wq---","tei":"\n\t\n\t\tphangorn: phylogenetic analysis in R\n\t\t\n\t\t\tKlausPSchliep\n\t\t\n\t\t10.1093/bioinformatics/btq706\n\t\t21169378\n\t\tPMC3035803\n\t\tdoi:10.1093/ bioinformatics/btq706\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6a5a87723bebd8668c4d1"},"refKey":38},
{"_key":"60c6a5a87723bebd8668c4d4","_id":"references/60c6a5a87723bebd8668c4d4","_rev":"_cfFl1w2---","tei":"\n\t\n\t\tvegan: Community Ecology Package. R package version 2.5-6\n\t\t\n\t\t\tJOksanen\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a5a87723bebd8668c4d1"},"refKey":42},
{"_key":"60c6a5ae7723bebd8668c4dc","_id":"references/60c6a5ae7723bebd8668c4dc","_rev":"_cfFl1x----","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\t: R Foundation for Statistical Computing. Accessed on 2015-03-12. See www.R-project.org\n\n","document":{"$oid":"60c6a5ae7723bebd8668c4db"},"refKey":33},
{"_key":"60c6a5ae7723bebd8668c4dd","_id":"references/60c6a5ae7723bebd8668c4dd","_rev":"_cfFl1xK---","tei":"\n\t\n\t\tepiR: an R package for the analysis of epidemiological data\n\t\t\n\t\t\tMStevenson\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 0.9-69. See\n\n","document":{"$oid":"60c6a5ae7723bebd8668c4db"},"refKey":29},
{"_key":"60c6a5c17723bebd8668c4f0","_id":"references/60c6a5c17723bebd8668c4f0","_rev":"_cfFl1xW---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2009-10-3-r25\n\t\t19261174\n\t\tPMC2690996\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\tR25\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tR25. [CrossRef. PubMed\n\n","document":{"$oid":"60c6a5c17723bebd8668c4ef"},"refKey":36},
{"_key":"60c6a5c17723bebd8668c4f1","_id":"references/60c6a5c17723bebd8668c4f1","_rev":"_cfFl1xi---","tei":"\n\t\n\t\tDifferential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tAdamRoberts\n\t\t\n\t\t\n\t\t\tLoyalGoff\n\t\t\n\t\t\n\t\t\tGeoPertea\n\t\t\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tDavidRKelley\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t\n\t\t\tJohnLRinn\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nprot.2012.016\n\t\t22383036\n\t\tPMC3334321\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t7\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6a5c17723bebd8668c4ef"},"refKey":37},
{"_key":"60c6a5c17723bebd8668c4f2","_id":"references/60c6a5c17723bebd8668c4f2","_rev":"_cfFl1xq---","tei":"\n\t\n\t\tTopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tGeoPertea\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tRyanKelley\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2013-14-4-r36\n\t\t23618408\n\t\tPMC4053844\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\tR36\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tR36. [CrossRef\n\n","document":{"$oid":"60c6a5c17723bebd8668c4ef"},"refKey":38},
{"_key":"60c6a5c17723bebd8668c4f3","_id":"references/60c6a5c17723bebd8668c4f3","_rev":"_cfFl1x2---","tei":"\n\t\n\t\tA Wrapper Script to Automate Quality and Adapter Trimming\n\t\t\n\t\t\tFTrimKrueger\n\t\t\n\t\t\n\t\t\tGalore\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a5c17723bebd8668c4ef"},"refKey":33},
{"_key":"60c6a5c17723bebd8668c4f4","_id":"references/60c6a5c17723bebd8668c4f4","_rev":"_cfFl1yC---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMarcelMartin\n\t\t\n\t\t10.14806/ej.17.1.200\n\t\n\t\n\t\tEMBnet.journal\n\t\tEMBnet j.\n\t\t2226-6089\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t10\n\t\t\t\n\t\t\tEMBnet Stichting\n\t\t\n\t\n\n","document":{"$oid":"60c6a5c17723bebd8668c4ef"},"refKey":34},
{"_key":"60c6a5c17723bebd8668c4f5","_id":"references/60c6a5c17723bebd8668c4f5","_rev":"_cfFl1yO---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6a5c17723bebd8668c4ef"},"refKey":40},
{"_key":"60c6a5c17723bebd8668c4f6","_id":"references/60c6a5c17723bebd8668c4f6","_rev":"_cfFl1yW---","tei":"\n\t\n\t\tGene ontology analysis for RNA-seq: accounting for selection bias\n\t\t\n\t\t\tMatthewDYoung\n\t\t\n\t\t\n\t\t\tMatthewJWakefield\n\t\t\n\t\t\n\t\t\tGordonKSmyth\n\t\t\n\t\t\n\t\t\tAliciaOshlack\n\t\t\n\t\t10.1186/gb-2010-11-2-r14\n\t\t20132535\n\t\tPMC2872874\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t11\n\t\t\t2\n\t\t\tR14\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tR14. [CrossRef\n\n","document":{"$oid":"60c6a5c17723bebd8668c4ef"},"refKey":42},
{"_key":"60c6a5c17723bebd8668c4f7","_id":"references/60c6a5c17723bebd8668c4f7","_rev":"_cfFl1yi---","tei":"\n\t\n\t\tA Quality Control Tool for High throughput Sequence Data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\tFastqc\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6a5c17723bebd8668c4ef"},"refKey":35},
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{"_key":"60c6a9c37723bebd8668c7fe","_id":"references/60c6a9c37723bebd8668c7fe","_rev":"_cfFl176---","tei":"\n\t\n\t\tFlexible design of multiple metagenomics classification pipelines with UGENE\n\t\t\n\t\t\tRebeccaRose\n\t\t\n\t\t\n\t\t\tOlgaGolosova\n\t\t\n\t\t\n\t\t\tDmitriiSukhomlinov\n\t\t\n\t\t\n\t\t\tAlekseyTiunov\n\t\t\n\t\t\n\t\t\tMattiaProsperi\n\t\t\n\t\t10.1093/bioinformatics/bty901\n\t\t30358807\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6a9c37723bebd8668c7fc"},"refKey":26},
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{"_key":"60c6aa047723bebd8668c82a","_id":"references/60c6aa047723bebd8668c82a","_rev":"_cfFl18S---","tei":"\n\t\n\t\tNovel mannopyranoside esters as sterol 14a-demethylase inhibitors: Synthesis, PASS predication, molecular docking, and pharmacokinetic studies\n\t\t\n\t\t\tMMMatin\n\t\t\n\t\t\n\t\t\tPChakraborty\n\t\t\n\t\t\n\t\t\tMSAlam\n\t\t\n\t\t\n\t\t\tMMIslam\n\t\t\n\t\t\n\t\t\tUHanee\n\t\t\n\t\t10.1016/j.carres.2020.108130\n\t\t\n\t\n\t\n\t\tCarbohydrate Research\n\t\t\n\t\t\t496\n\t\t\t108130\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6aa047723bebd8668c829"},"refKey":33},
{"_key":"60c6aa047723bebd8668c82b","_id":"references/60c6aa047723bebd8668c82b","_rev":"_cfFl18a---","tei":"\n\t\n\t\tSynthesis, spectroscopic characterization, molecular docking, and ADMET studies of mannopyranoside esters as antimicrobial agents\n\t\t\n\t\t\tMMMatin\n\t\t\n\t\t\n\t\t\tMSHasan\n\t\t\n\t\t\n\t\t\tMUzzaman\n\t\t\n\t\t\n\t\t\tMM HBhuiyan\n\t\t\n\t\t\n\t\t\tSMKibria\n\t\t\n\t\t\n\t\t\tMEHossain\n\t\t\n\t\t\n\t\t\tMH ORoshid\n\t\t\n\t\t10.1016/j.molstruc.2020.128821\n\t\t\n\t\n\t\n\t\tJournal of Molecular Structure\n\t\t\n\t\t\t1222\n\t\t\t128821\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6aa047723bebd8668c829"},"refKey":34},
{"_key":"60c6aa197723bebd8668c83b","_id":"references/60c6aa197723bebd8668c83b","_rev":"_cfFl18m---","tei":"\n\t\n\t\tTensorflow: A system for large-scale machine learning\n\t\t\n\t\t\tMAbadi\n\t\t\n\t\t\n\t\t\tPBarham\n\t\t\n\t\t\n\t\t\tJChen\n\t\t\n\t\t\n\t\t\tZChen\n\t\t\n\t\t\n\t\t\tADavis\n\t\t\n\t\t\n\t\t\tJDean\n\t\t\n\t\t\n\t\t\tMDevin\n\t\t\n\t\t\n\t\t\tSGhemawat\n\t\t\n\t\t\n\t\t\tGIrving\n\t\t\n\t\t\n\t\t\tMIsard\n\t\t\n\t\t\n\t\t\tMKudlur\n\t\t\n\t\t\n\t\t\tJLevenberg\n\t\t\n\t\t\n\t\t\tRMonga\n\t\t\n\t\t\n\t\t\tSMoore\n\t\t\n\t\t\n\t\t\tGMurray\n\t\t\n\t\t\n\t\t\tDSteiner\n\t\t\n\t\t\n\t\t\tBTucker\n\t\t\n\t\t\n\t\t\tPVasudevan\n\t\t\n\t\t\n\t\t\tVWarden\n\t\t\n\t\t\n\t\t\tPZhang\n\t\t\n\t\t\n\t\t\tX\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6aa197723bebd8668c83a"},"refKey":39},
{"_key":"60c6aa427723bebd8668c866","_id":"references/60c6aa427723bebd8668c866","_rev":"_cfFl18y---","tei":"\n\t\n\t\tSOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads\n\t\t\n\t\t\tYXie\n\t\t\n\t\t\n\t\t\tGWu\n\t\t\n\t\t\n\t\t\tJTang\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tJPatterson\n\t\t\n\t\t\n\t\t\tSLiu\n\t\t\n\t\t\n\t\t\tWHuang\n\t\t\n\t\t\n\t\t\tGHe\n\t\t\n\t\t\n\t\t\tSGu\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tXZhou\n\t\t\n\t\t\n\t\t\tTWLam\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tXXu\n\t\t\n\t\t\n\t\t\tGKWong\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6aa427723bebd8668c865"},"refKey":49},
{"_key":"60c6aa427723bebd8668c867","_id":"references/60c6aa427723bebd8668c867","_rev":"_cfFl19----","tei":"\n\t\n\t\tBlast2GO: a comprehensive suite for functional analysis in plant genomics\n\t\t\n\t\t\tAConesa\n\t\t\n\t\t\n\t\t\tSGotz\n\t\t\n\t\n\t\n\t\tInt J Plant Genomics\n\t\t\n\t\t\t619832\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6aa427723bebd8668c865"},"refKey":55},
{"_key":"60c6aa457723bebd8668c88b","_id":"references/60c6aa457723bebd8668c88b","_rev":"_cfFl19K---","tei":"\n\t\n\t\tForce fields for protein simulations\n\t\t\n\t\t\tPonderJay\n\t\t\n\t\t\n\t\t\tW\n\t\t\n\t\t\n\t\t\tCaseDavid\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\n\t\n\t\tAdv Protein Chem\n\t\t\n\t\t\t66\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 14631816\n\n","document":{"$oid":"60c6aa457723bebd8668c88a"},"refKey":68},
{"_key":"60c6aa457723bebd8668c88c","_id":"references/60c6aa457723bebd8668c88c","_rev":"_cfFl19S---","tei":"\n\t\n\t\tHow well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules?\n\t\t\n\t\t\tJunmeiWang\n\t\t\n\t\t\n\t\t\tPiotrCieplak\n\t\t\n\t\t\n\t\t\tPeterAKollman\n\t\t\n\t\t10.1002/1096-987x(200009)21:12<1049::aid-jcc3>3.3.co;2-6\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t21\n\t\t\t12\n\t\t\t1049\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6aa457723bebd8668c88a"},"refKey":69},
{"_key":"60c6aa457723bebd8668c88d","_id":"references/60c6aa457723bebd8668c88d","_rev":"_cfFl19e---","tei":"\n\t\n\t\t\n\t\n\t\n\t\tDiscovery Studio Modeling Environment. Accelrys Software Inc\n\t\t\n\t\n\tSan Diego: 2010. p. 2.5.1\n\n","document":{"$oid":"60c6aa457723bebd8668c88a"},"refKey":62},
{"_key":"60c6aa457723bebd8668c88e","_id":"references/60c6aa457723bebd8668c88e","_rev":"_cfFl19q---","tei":"\n\t\n\t\tComparative protein modeling by satisfaction of spatial restraints\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1107/s0108767396095578\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t52\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tPubMed: 8254673\n\n","document":{"$oid":"60c6aa457723bebd8668c88a"},"refKey":30},
{"_key":"60c6aa467723bebd8668c89a","_id":"references/60c6aa467723bebd8668c89a","_rev":"_cfFl192---","tei":"\n\t\n\t\tEvaluating potential drug targets through human loss-of-function genetic variation\n\t\t\n\t\t\tEricVallabhMinikel\n\t\t\t0000-0003-2206-1608\n\t\t\n\t\t\n\t\t\tKonradJKarczewski\n\t\t\t0000-0003-2878-4671\n\t\t\n\t\t\n\t\t\tHilaryCMartin\n\t\t\t0000-0002-4454-9084\n\t\t\n\t\t\n\t\t\tBerylBCummings\n\t\t\t0000-0001-6346-1646\n\t\t\n\t\t\n\t\t\tNicolaWhiffin\n\t\t\t0000-0003-1554-6594\n\t\t\n\t\t\n\t\t\tDanielRhodes\n\t\t\n\t\t\n\t\t\tJessicaAlföldi\n\t\t\t0000-0001-9713-6200\n\t\t\n\t\t\n\t\t\tRichardCTrembath\n\t\t\t0000-0003-0550-3400\n\t\t\n\t\t\n\t\t\tDavidA VanHeel\n\t\t\t0000-0002-0637-2265\n\t\t\n\t\t\n\t\t\tMarkJDaly\n\t\t\n\t\t\n\t\t\tStuartLSchreiber\n\t\t\t0000-0003-1922-7558\n\t\t\n\t\t\n\t\t\tDanielGMacarthur\n\t\t\n\t\t10.1101/530881\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t581\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6aa467723bebd8668c899"},"refKey":120},
{"_key":"60c6aa467723bebd8668c89b","_id":"references/60c6aa467723bebd8668c89b","_rev":"_cfFl2-C---","tei":"\n\t\n\t\tChEMBL: towards direct deposition of bioassay data\n\t\t\n\t\t\tDavidMendez\n\t\t\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tAPatríciaBento\n\t\t\n\t\t\n\t\t\tJonChambers\n\t\t\n\t\t\n\t\t\tMarleenDe veij\n\t\t\n\t\t\n\t\t\tEloyFélix\n\t\t\n\t\t\n\t\t\tMaríaPaulaMagariños\n\t\t\n\t\t\n\t\t\tJuanFMosquera\n\t\t\n\t\t\n\t\t\tPrudenceMutowo\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tMaríaGordillo-Marañón\n\t\t\n\t\t\n\t\t\tFionaHunter\n\t\t\n\t\t\n\t\t\tLauraJunco\n\t\t\n\t\t\n\t\t\tGraceMugumbate\n\t\t\n\t\t\n\t\t\tMilagrosRodriguez-Lopez\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tNicolasBosc\n\t\t\n\t\t\n\t\t\tChrisJRadoux\n\t\t\n\t\t\n\t\t\tAldoSegura-Cabrera\n\t\t\n\t\t\n\t\t\tAnneHersey\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t10.1093/nar/gky1075\n\t\t30398643\n\t\tPMC6323927\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6aa467723bebd8668c899"},"refKey":104},
{"_key":"60c6aa467723bebd8668c89c","_id":"references/60c6aa467723bebd8668c89c","_rev":"_cfFl2-O---","tei":"\n\t\n\t\tPrioritisation of oncology therapeutic targets using CRISPR-Cas9 screening\n\t\t\n\t\t\tFionaMBehan\n\t\t\n\t\t\n\t\t\tFrancescoIorio\n\t\t\t0000-0001-7063-8913\n\t\t\n\t\t\n\t\t\tEmanuelGonçalves\n\t\t\t0000-0002-9967-5205\n\t\t\n\t\t\n\t\t\tGabrielePicco\n\t\t\n\t\t\n\t\t\tCharlotteMBeaver\n\t\t\n\t\t\n\t\t\tRitaSantos\n\t\t\n\t\t\n\t\t\tYanhuaRao\n\t\t\n\t\t\n\t\t\tRizwanAnsari\n\t\t\n\t\t\n\t\t\tSarahHarper\n\t\t\n\t\t\n\t\t\tDavidAdamJackson\n\t\t\n\t\t\n\t\t\tRebeccaMcrae\n\t\t\n\t\t\n\t\t\tRachelPooley\n\t\t\n\t\t\n\t\t\tPiersWilkinson\n\t\t\n\t\t\n\t\t\tDavidDow\n\t\t\n\t\t\n\t\t\tCarolynBuser-Doepner\n\t\t\n\t\t\n\t\t\tEuanAStronach\n\t\t\n\t\t\n\t\t\tJulioSaez-Rodriguez\n\t\t\t0000-0002-8552-8976\n\t\t\n\t\t\n\t\t\tKosukeYusa\n\t\t\n\t\t\n\t\t\tMathewJGarnett\n\t\t\t0000-0002-2618-4237\n\t\t\n\t\t10.1101/502005\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t568\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6aa467723bebd8668c899"},"refKey":67},
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{"_key":"60c6aa517723bebd8668c8ac","_id":"references/60c6aa517723bebd8668c8ac","_rev":"_cfFl2-i---","tei":"\n\t\n\t\tIncreased expression of IL-32 correlates with IFN-γ, Th1 and Tc1 in virologically suppressed HIV-1-infected patients\n\t\t\n\t\t\tLetiziaSantinelli\n\t\t\t0000-0002-5621-058X\n\t\t\n\t\t\n\t\t\tMauraStatzu\n\t\t\n\t\t\n\t\t\tAlessandraPierangeli\n\t\t\n\t\t\n\t\t\tFedericaFrasca\n\t\t\n\t\t\n\t\t\tAlessiaBressan\n\t\t\t0000-0002-6024-9540\n\t\t\n\t\t\n\t\t\tClaudiaPinacchio\n\t\t\n\t\t\n\t\t\tChiaraNonne\n\t\t\n\t\t\n\t\t\tOmbrettaTurriziani\n\t\t\n\t\t\n\t\t\tGuidoAntonelli\n\t\t\n\t\t\n\t\t\tGabriellaD'ettorre\n\t\t\n\t\t\n\t\t\tCarolinaScagnolari\n\t\t\t0000-0003-1044-1478\n\t\t\n\t\t10.1016/j.cyto.2019.01.012\n\t\n\t\n\t\tCytokine\n\t\tCytokine\n\t\t1043-4666\n\t\t\n\t\t\t120\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6aa517723bebd8668c8ab"},"refKey":11},
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{"_key":"60c6aa9c7723bebd8668c8e9","_id":"references/60c6aa9c7723bebd8668c8e9","_rev":"_cfFl2_G---","tei":"\n\t\n\t\tR Foundation for Statistical Computing (2012) R: A Language and Environment for Statistical Computing\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c6aa9c7723bebd8668c8e8"},"refKey":21},
{"_key":"60c6aac87723bebd8668c903","_id":"references/60c6aac87723bebd8668c903","_rev":"_cfFl2_S---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\n\t\n\t\tGenome research\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6aac87723bebd8668c902"},"refKey":19},
{"_key":"60c6ab357723bebd8668c941","_id":"references/60c6ab357723bebd8668c941","_rev":"_cfFl2_e---","tei":"\n\t\n\t\trgeos: Interface to Geometry Engine\n\t\t\n\t\t\tRogerBivand\n\t\t\n\t\t\n\t\t\tColinRundel\n\t\t\n\t\t\n\t\t\tEdzerPebesma\n\t\t\n\t\t\n\t\t\tRainerStuetz\n\t\t\n\t\t\n\t\t\tKarlOveHufthammer\n\t\t\n\t\t\n\t\t\tPatrickGiraudoux\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t13\n\t\t\n\t\n\n","document":{"$oid":"60c6ab357723bebd8668c940"},"refKey":2},
{"_key":"60c6ab467723bebd8668c94a","_id":"references/60c6ab467723bebd8668c94a","_rev":"_cfFl2_m---","tei":"\n\t\n\t\tNHS Test and Trace: if you've been in contact with a person who has coronavirus [Internet]. National Health Service\n\t\t\n\t\t\tMLDelignette-Muller\n\t\t\n\t\t\n\t\t\tCDutang\n\t\t\n\t\t\n\t\n\t\n\t\tCoronavirus (COVID-19)). Available from\n\t\t\t\t\n\t\t\t\n\t\t\t64\n\t\t\n\t\n\tfitdistrplus: An R Package for Fitting Distributions\n\n","document":{"$oid":"60c6ab467723bebd8668c949"},"refKey":7},
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{"_key":"60c6aba07723bebd8668c9b6","_id":"references/60c6aba07723bebd8668c9b6","_rev":"_cfFl2AW---","tei":"\n\t\n\t\tProposal and Validation of a Knee Measurement System for Patients With Osteoarthritis\n\t\t\n\t\t\tRileyAaronBloomfield\n\t\t\t0000-0002-2592-5515\n\t\t\n\t\t\n\t\t\tMeganChristineFennema\n\t\t\t0000-0001-9893-2524\n\t\t\n\t\t\n\t\t\tKennethAMcisaac\n\t\t\n\t\t\n\t\t\tMatthewGTeeter\n\t\t\t0000-0002-3911-3171\n\t\t\n\t\t10.1109/tbme.2018.2837620\n\t\t29993529\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Biomedical Engineering\n\t\tIEEE Trans. Biomed. Eng.\n\t\t0018-9294\n\t\t1558-2531\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c6aba07723bebd8668c9b5"},"refKey":1},
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{"_key":"60c6aba27723bebd8668c9bb","_id":"references/60c6aba27723bebd8668c9bb","_rev":"_cfFl2Aq---","tei":"\n\t\n\t\tDomain-Opening and Dynamic Coupling in the α-Subunit of Heterotrimeric G Proteins\n\t\t\n\t\t\tXin-QiuYao\n\t\t\n\t\t\n\t\t\tBarryJGrant\n\t\t\n\t\t10.1016/j.bpj.2013.06.006\n\t\t23870276\n\t\tPMC3714883\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t105\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6aba27723bebd8668c9b9"},"refKey":137},
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{"_key":"60c6aba27723bebd8668c9bd","_id":"references/60c6aba27723bebd8668c9bd","_rev":"_cfFl2BC---","tei":"\n\t\n\t\t\n\t\t\tKJBowers\n\t\t\n\t\t\n\t\t\tEChow\n\t\t\n\t\t\n\t\t\tHXu\n\t\t\n\t\t\n\t\t\tRODror\n\t\t\n\t\t\n\t\t\tMPEastwood\n\t\t\n\t\t\n\t\t\tBAGregersen\n\t\t\n\t\t\n\t\t\tJLKlepeis\n\t\t\n\t\t\n\t\t\tIKolossvary\n\t\t\n\t\t\n\t\t\tMAMoraes\n\t\t\n\t\t\n\t\t\tFDSacerdoti\n\t\t\n\t\t\n\t\t\tJKSalmon\n\t\t\n\t\t\n\t\t\tYShan\n\t\t\n\t\t\n\t\t\tDEShaw\n\t\t\n\t\tProceedings of the 2006 ACM/IEEE Conference on Supercomputing\n\t\t\t\tthe 2006 ACM/IEEE Conference on Supercomputing\n\t\t\n\t\t\t\n\t\t\t6\n\t\t\n\t\n\n","document":{"$oid":"60c6aba27723bebd8668c9b9"},"refKey":112},
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{"_key":"60c6aba27723bebd8668c9bf","_id":"references/60c6aba27723bebd8668c9bf","_rev":"_cfFl2Ba---","tei":"\n\t\n\t\tVery fast prediction and rationalization of pKa values for protein-ligand complexes\n\t\t\n\t\t\tDelphineCBas\n\t\t\n\t\t\n\t\t\tDavidMRogers\n\t\t\n\t\t\n\t\t\tJanHJensen\n\t\t\n\t\t10.1002/prot.22102\n\t\t18498103\n\t\tark:/67375/WNG-WZ4VK1S6-6\n\t\tD12001330C4828811A8751A8BE32B7B09CC1A3F4\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t73\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6aba27723bebd8668c9b9"},"refKey":99},
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{"_key":"60c6ae197723bebd8668cbd2","_id":"references/60c6ae197723bebd8668cbd2","_rev":"_cfFl2Fq---","tei":"\n\t\n\t\tThe Vienna RNA Websuite\n\t\t\n\t\t\tARGruber\n\t\t\n\t\t\n\t\t\tRLorenz\n\t\t\n\t\t\n\t\t\tSHBernhart\n\t\t\n\t\t\n\t\t\tRNeubock\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t10.1093/nar/gkn188\n\t\t18424795\n\t\tPMC2447809\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6ae197723bebd8668cbd1"},"refKey":25},
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{"_key":"60c6ae197723bebd8668cbd4","_id":"references/60c6ae197723bebd8668cbd4","_rev":"_cfFl2G----","tei":"\n\t\n\t\tRAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference\n\t\t\n\t\t\tAMKozlov\n\t\t\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tTFlouri\n\t\t\n\t\t\n\t\t\tBMorel\n\t\t\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\t\n\t\t\tJWren\n\t\t\n\t\t10.1093/bioinformatics/btz305\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6ae197723bebd8668cbd1"},"refKey":44},
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{"_key":"60c6ae197723bebd8668cbd8","_id":"references/60c6ae197723bebd8668cbd8","_rev":"_cfFl2Gu---","tei":"\n\t\n\t\tFATCAT: a web server for flexible structure comparison and structure similarity searching\n\t\t\n\t\t\tYYe\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1093/nar/gkh430\n\t\t15215455\n\t\tPMC441568\n\t\tark:/67375/HXZ-8TH0K3XR-8\n\t\t6084B786DA959083422B9D1C5BF02DAFB209DAA2\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6ae197723bebd8668cbd1"},"refKey":86},
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{"_key":"60c6aed57723bebd8668cc87","_id":"references/60c6aed57723bebd8668cc87","_rev":"_cfFl2JS---","tei":"\n\t\n\t\tRAxML Version 8: A Tool for Phylogenetic Analysis and Post-Analysis of Large Phylogenies\n\t\t\n\t\t\tAlexandrosStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6aed57723bebd8668cc85"},"refKey":37},
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{"_key":"60c6af5c7723bebd8668cd02","_id":"references/60c6af5c7723bebd8668cd02","_rev":"_cfFl2K----","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucl. Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6af5c7723bebd8668cd01"},"refKey":8},
{"_key":"60c6af777723bebd8668cd22","_id":"references/60c6af777723bebd8668cd22","_rev":"_cfFl2KK---","tei":"\n\t\n\t\tElephant search optimization combined with deep neural network for microarray data analysis\n\t\t\n\t\t\tMrutyunjayaPanda\n\t\t\n\t\t10.1016/j.jksuci.2017.12.002\n\t\n\t\n\t\tJournal of King Saud University - Computer and Information Sciences\n\t\tJournal of King Saud University - Computer and Information Sciences\n\t\t1319-1578\n\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tComput Inf Sci\n\n","document":{"$oid":"60c6af777723bebd8668cd21"},"refKey":25},
{"_key":"60c6b0127723bebd8668cd29","_id":"references/60c6b0127723bebd8668cd29","_rev":"_cfFl2KS---","tei":"\n\t\n\t\tThe MHC of the Duck (Anas platyrhynchos) Contains Five Differentially Expressed Class I Genes\n\t\t\n\t\t\tDebraAMoon\n\t\t\n\t\t\n\t\t\tSimonaMVeniamin\n\t\t\n\t\t\n\t\t\tJulieAParks-Dely\n\t\t\n\t\t\n\t\t\tKatharineEMagor\n\t\t\n\t\t10.4049/jimmunol.175.10.6702\n\t\t16272326\n\t\t\n\t\n\t\n\t\tThe Journal of Immunology\n\t\tJ Immunol\n\t\t0022-1767\n\t\t1550-6606\n\t\t\n\t\t\t175\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tThe American Association of Immunologists\n\t\t\n\t\n\n","document":{"$oid":"60c6b0127723bebd8668cd28"},"refKey":63},
{"_key":"60c6b0147723bebd8668cd38","_id":"references/60c6b0147723bebd8668cd38","_rev":"_cfFl2Ke---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b0147723bebd8668cd37"},"refKey":28},
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{"_key":"60c6b01d7723bebd8668cd3b","_id":"references/60c6b01d7723bebd8668cd3b","_rev":"_cfFl2Ky---","tei":"\n\t\n\t\tRobust and Objective Decomposition and Mapping of Bifurcating Vessels\n\t\t\n\t\t\tLAntiga\n\t\t\n\t\t\n\t\t\tDASteinman\n\t\t\n\t\t10.1109/tmi.2004.826946\n\t\t15191145\n\t\n\t\n\t\tIEEE Transactions on Medical Imaging\n\t\tIEEE Trans. Med. Imaging\n\t\t0278-0062\n\t\t\n\t\t\t23\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c6b01d7723bebd8668cd39"},"refKey":20},
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{"_key":"60c6b0687723bebd8668cd7c","_id":"references/60c6b0687723bebd8668cd7c","_rev":"_cfFl2L2---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6b0687723bebd8668cd78"},"refKey":16},
{"_key":"60c6b0687723bebd8668cd7d","_id":"references/60c6b0687723bebd8668cd7d","_rev":"_cfFl2MC---","tei":"\n\t\n\t\tDeep profiling reveals substantial heterogeneity of integration outcomes in CRISPR knock-in experiments\n\t\t\n\t\t\tHCanaj\n\t\t\n\t\t\n\t\t\tJAHussmann\n\t\t\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tKABeckman\n\t\t\n\t\t\n\t\t\tLGoodrich\n\t\t\n\t\t\n\t\t\tNHCho\n\t\t\n\t\t\n\t\t\tYJLi\n\t\t\n\t\t\n\t\t\tDASantos\n\t\t\n\t\t\n\t\t\tAMcgeever\n\t\t\n\t\t\n\t\t\tEMStewart\n\t\t\n\t\t\n\t\t\tVPessino\n\t\t\n\t\t\n\t\t\tMAMandegar\n\t\t\n\t\t\n\t\t\tCHuang\n\t\t\n\t\t\n\t\t\tLGan\n\t\t\n\t\t\n\t\t\tBPanning\n\t\t\n\t\t\n\t\t\tBHuang\n\t\t\n\t\t\n\t\t\tJSWeissman\n\t\t\n\t\t\n\t\t\tMDLeonetti\n\t\t\n\t\t10.1101/841098\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b0687723bebd8668cd78"},"refKey":3},
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{"_key":"60c6b1b07723bebd8668cf34","_id":"references/60c6b1b07723bebd8668cf34","_rev":"_cfFl2Pe---","tei":"\n\t\n\t\tFastQC: A Quality Control Tool for High Throughput Sequence Data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b1b07723bebd8668cf33"},"refKey":27},
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{"_key":"60c6b1c77723bebd8668cf54","_id":"references/60c6b1c77723bebd8668cf54","_rev":"_cfFl2RW---","tei":"\n\t\n\t\tBetter prediction of protein cellular localization sites with the k nearest neighbors classifier\n\t\t\n\t\t\tPHorton\n\t\t\n\t\t\n\t\t\tKNakai\n\t\t\n\t\n\t\n\t\tProc. Int. Conf. Intell. Syst. Mol. Biol\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b1c77723bebd8668cf52"},"refKey":12},
{"_key":"60c6b1d97723bebd8668cf60","_id":"references/60c6b1d97723bebd8668cf60","_rev":"_cfFl2Ri---","tei":"\n\t\n\t\tGROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tCarstenKutzner\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1021/ct700301q\n\t\t26620784\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c6b1d97723bebd8668cf5f"},"refKey":24},
{"_key":"60c6b1fe7723bebd8668cf81","_id":"references/60c6b1fe7723bebd8668cf81","_rev":"_cfFl2Rq---","tei":"\n\t\n\t\tRevision and update on clinical practice guideline for liver cirrhosis\n\t\t\n\t\t\tKiTaeSuk\n\t\t\n\t\t\n\t\t\tSoonKooBaik\n\t\t\n\t\t\n\t\t\tJungHwanYoon\n\t\t\n\t\t\n\t\t\tJaeYounCheong\n\t\t\n\t\t\n\t\t\tYongHanPaik\n\t\t\n\t\t\n\t\t\tChangHyeongLee\n\t\t\n\t\t\n\t\t\tYoungSeokKim\n\t\t\n\t\t\n\t\t\tJinWooLee\n\t\t\n\t\t\n\t\t\tDongJoonKim\n\t\t\n\t\t\n\t\t\tSungWonCho\n\t\t\n\t\t\n\t\t\tSeongGyuHwang\n\t\t\n\t\t\n\t\t\tJooHyunSohn\n\t\t\n\t\t\n\t\t\tMoonYoungKim\n\t\t\n\t\t\n\t\t\tYoungBaeKim\n\t\t\n\t\t\n\t\t\tJaeGeunKim\n\t\t\n\t\t\n\t\t\tYongKyunCho\n\t\t\n\t\t\n\t\t\tMoonSeokChoi\n\t\t\n\t\t\n\t\t\tHyungJoonKim\n\t\t\n\t\t\n\t\t\tHyunWoongLee\n\t\t\n\t\t\n\t\t\tSeungUpKim\n\t\t\n\t\t\n\t\t\tJaKyungKim\n\t\t\n\t\t\n\t\t\tJinYoungChoi\n\t\t\n\t\t\n\t\t\tDaeWonJun\n\t\t\n\t\t\n\t\t\tWonYoungTak\n\t\t\n\t\t\n\t\t\tByungSeokLee\n\t\t\n\t\t\n\t\t\tByoungKukJang\n\t\t\n\t\t\n\t\t\tWooJinChung\n\t\t\n\t\t\n\t\t\tHongSooKim\n\t\t\n\t\t\n\t\t\tJaeYoungJang\n\t\t\n\t\t\n\t\t\tSoungWonJeong\n\t\t\n\t\t\n\t\t\tSangGyuneKim\n\t\t\n\t\t\n\t\t\tOhSangKwon\n\t\t\n\t\t\n\t\t\tYoungKulJung\n\t\t\n\t\t\n\t\t\tWonHyeokChoe\n\t\t\n\t\t\n\t\t\tJuneSungLee\n\t\t\n\t\t\n\t\t\tInHeeKim\n\t\t\n\t\t\n\t\t\tJaeJunShim\n\t\t\n\t\t\n\t\t\tGabJinCheon\n\t\t\n\t\t\n\t\t\tSiHyunBae\n\t\t\n\t\t\n\t\t\tYeonSeokSeo\n\t\t\n\t\t\n\t\t\tDaeHeeChoi\n\t\t\n\t\t\n\t\t\tSeJinJang\n\t\t\n\t\t10.3350/kjhep.2012.18.1.1\n\t\t22511898\n\t\tPMC3326994\n\t\n\t\n\t\tThe Korean Journal of Hepatology\n\t\tKorean J Hepatol\n\t\t1738-222X\n\t\t2093-8047\n\t\t\n\t\t\t18\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\tThe Korean Association for the Study of the Liver\n\t\t\n\t\n\n","document":{"$oid":"60c6b1fe7723bebd8668cf80"},"refKey":21},
{"_key":"60c6b2707723bebd8668cfb9","_id":"references/60c6b2707723bebd8668cfb9","_rev":"_cfFl2R2---","tei":"\n\t\n\t\tLight-inducible genetic engineering and control of non-homologous end-joining in industrial eukaryotic microorganisms: LML 3.0 and OFN 1.0\n\t\t\n\t\t\tLeiZhang\n\t\t\n\t\t\n\t\t\tXihuaZhao\n\t\t\n\t\t\n\t\t\tGuoxiuZhang\n\t\t\n\t\t\n\t\t\tJiajiaZhang\n\t\t\n\t\t\n\t\t\tXuedongWang\n\t\t\n\t\t\n\t\t\tSupingZhang\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tDongzhiWei\n\t\t\n\t\t10.1038/srep20761\n\t\t26857594\n\t\tPMC4746737\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t20761\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c6b2707723bebd8668cfb8"},"refKey":32},
{"_key":"60c6b2777723bebd8668cfbf","_id":"references/60c6b2777723bebd8668cfbf","_rev":"_cfFl2SC---","tei":"\n\t\n\t\tPhylogeographic reconstruction using air transportation data and its application to the 2009 H1N1 influenza A pandemic\n\t\t\n\t\t\tSusanneReimering\n\t\t\t0000-0001-8629-0392\n\t\t\n\t\t\n\t\t\tSebastianMuñoz\n\t\t\n\t\t\n\t\t\tAliceCMchardy\n\t\t\n\t\t10.1101/666982\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\tC. Viboud\n\t\t\n\t\t\t16\n\t\t\t2\n\t\t\te1007101\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6b2777723bebd8668cfbe"},"refKey":75},
{"_key":"60c6b2777723bebd8668cfc0","_id":"references/60c6b2777723bebd8668cfc0","_rev":"_cfFl2SO---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b2777723bebd8668cfbe"},"refKey":20},
{"_key":"60c6b2777723bebd8668cfc1","_id":"references/60c6b2777723bebd8668cfc1","_rev":"_cfFl2Sa---","tei":"\n\t\n\t\tSnakemake—a scalable bioinformatics workflow engine\n\t\t\n\t\t\tJohannesKöster\n\t\t\n\t\t\n\t\t\tSvenRahmann\n\t\t\n\t\t10.1093/bioinformatics/bty350\n\t\t29788404\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6b2777723bebd8668cfbe"},"refKey":21},
{"_key":"60c6b2777723bebd8668cfc2","_id":"references/60c6b2777723bebd8668cfc2","_rev":"_cfFl2Si---","tei":"\n\t\n\t\tNextflow enables reproducible computational workflows\n\t\t\n\t\t\tPDTommaso\n\t\t\n\t\t\n\t\t\tMChatzou\n\t\t\n\t\t\n\t\t\tEWFloden\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b2777723bebd8668cfbe"},"refKey":23},
{"_key":"60c6b2777723bebd8668cfc3","_id":"references/60c6b2777723bebd8668cfc3","_rev":"_cfFl2Su---","tei":"\n\t\n\t\tnf-core: Community curated bioinformatics pipelines\n\t\t\n\t\t\tPhilipAEwels\n\t\t\t0000-0003-4101-2502\n\t\t\n\t\t\n\t\t\tAlexanderPeltzer\n\t\t\t0000-0002-6503-2180\n\t\t\n\t\t\n\t\t\tSvenFillinger\n\t\t\t0000-0001-8835-2219\n\t\t\n\t\t\n\t\t\tJohannesAlneberg\n\t\t\t0000-0002-2467-008X\n\t\t\n\t\t\n\t\t\tHarshilPatel\n\t\t\t0000-0003-2707-7940\n\t\t\n\t\t\n\t\t\tAndreasWilm\n\t\t\t0000-0002-7344-3764\n\t\t\n\t\t\n\t\t\tMaximeUlysseGarcia\n\t\t\t0000-0003-2827-9261\n\t\t\n\t\t\n\t\t\tPaoloDi Tommaso\n\t\t\t0000-0003-3220-0253\n\t\t\n\t\t\n\t\t\tSvenNahnsen\n\t\t\t0000-0002-4375-0691\n\t\t\n\t\t10.1101/610741\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6b2777723bebd8668cfbe"},"refKey":124},
{"_key":"60c6b2777723bebd8668cfc4","_id":"references/60c6b2777723bebd8668cfc4","_rev":"_cfFl2S6---","tei":"\n\t\n\t\tAccelerated Profile HMM Searches\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\tW. R. Pearson\n\t\t\n\t\t\t7\n\t\t\t10\n\t\t\te1002195\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b2777723bebd8668cfbe"},"refKey":53},
{"_key":"60c6b2777723bebd8668cfc5","_id":"references/60c6b2777723bebd8668cfc5","_rev":"_cfFl2TG---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b2777723bebd8668cfbe"},"refKey":19},
{"_key":"60c6b2797723bebd8668cfff","_id":"references/60c6b2797723bebd8668cfff","_rev":"_cfFl2TS---","tei":"\n\t\n\t\tIBM SPSS statistics for windows, version 23.0\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t\n\t\t\t\n\t\t\tIBM Corp\n\t\t\tArmonk, NY\n\t\t\n\t\n\n","document":{"$oid":"60c6b2797723bebd8668cffe"},"refKey":71},
{"_key":"60c6b29e7723bebd8668d010","_id":"references/60c6b29e7723bebd8668d010","_rev":"_cfFl2Ta---","tei":"\n\t\n\t\tMethylation of HpaII and HhaI sites near the polymorphic CAG repeat in the human androgen-receptor gene correlates with X chromosome inactivation\n\t\t\n\t\t\tRCAllen\n\t\t\n\t\t\n\t\t\tHYZoghbi\n\t\t\n\t\t\n\t\t\tABMoseley\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t51\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b29e7723bebd8668d00f"},"refKey":21},
{"_key":"60c6b2d67723bebd8668d038","_id":"references/60c6b2d67723bebd8668d038","_rev":"_cfFl2Tm---","tei":"\n\t\n\t\tTranscript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown\n\t\t\n\t\t\tMPertea\n\t\t\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tGMPertea\n\t\t\n\t\t\n\t\t\tJTLeek\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b2d67723bebd8668d037"},"refKey":29},
{"_key":"60c6b2d67723bebd8668d039","_id":"references/60c6b2d67723bebd8668d039","_rev":"_cfFl2Ty---","tei":"\n\t\n\t\tStringTie enables improved reconstruction of a transcriptome from RNAseq reads\n\t\t\n\t\t\tMPertea\n\t\t\n\t\t\n\t\t\tGMPertea\n\t\t\n\t\t\n\t\t\tCMAntonescu\n\t\t\n\t\t\n\t\t\tTCChang\n\t\t\n\t\t\n\t\t\tJTMendell\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b2d67723bebd8668d037"},"refKey":30},
{"_key":"60c6b2d67723bebd8668d03a","_id":"references/60c6b2d67723bebd8668d03a","_rev":"_cfFl2U----","tei":"\n\t\n\t\tPrediction of novel long non-coding RNAs based on RNA-Seq data of mouse Klf1 knockout study\n\t\t\n\t\t\tLeiSun\n\t\t\n\t\t\n\t\t\tZhihuaZhang\n\t\t\n\t\t\n\t\t\tTimothyLBailey\n\t\t\n\t\t\n\t\t\tAndrewCPerkins\n\t\t\n\t\t\n\t\t\tMichaelRTallack\n\t\t\n\t\t\n\t\t\tZhaoXu\n\t\t\n\t\t\n\t\t\tHuiLiu\n\t\t\n\t\t10.1186/1471-2105-13-331\n\t\t23237380\n\t\tPMC3577497\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\t1\n\t\t\t331\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6b2d67723bebd8668d037"},"refKey":33},
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{"_key":"60c6b3ad7723bebd8668d0a3","_id":"references/60c6b3ad7723bebd8668d0a3","_rev":"_cfFl2US---","tei":"\n\t\n\t\t\n\t\t\tMEPeters\n\t\t\n\t\t\n\t\t\tMNeumann\n\t\t\n\t\t\n\t\t\tMIyyer\n\t\t\n\t\t\n\t\t\tMGardner\n\t\t\n\t\t\n\t\t\tCClark\n\t\t\n\t\t\n\t\t\tKLee\n\t\t\n\t\t\n\t\t\tLZettlemoyer\n\t\t\n\t\tarXiv:1802.05365\n\t\tDeep contextualized word representations\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c6b3ad7723bebd8668d0a2"},"refKey":11},
{"_key":"60c6b3bd7723bebd8668d0ad","_id":"references/60c6b3bd7723bebd8668d0ad","_rev":"_cfFl2Ue---","tei":"\n\t\n\t\tpLogo: a probabilistic approach to visualizing sequence motifs\n\t\t\n\t\t\tJPO'shea\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b3bd7723bebd8668d0ac"},"refKey":32},
{"_key":"60c6b3bd7723bebd8668d0ae","_id":"references/60c6b3bd7723bebd8668d0ae","_rev":"_cfFl2Uq---","tei":"\n\t\n\t\tUsing MetaboAnalyst 4.0 for Comprehensive and Integrative Metabolomics Data Analysis\n\t\t\n\t\t\tJasmineChong\n\t\t\n\t\t\n\t\t\tDavidSWishart\n\t\t\n\t\t\n\t\t\tJianguoXia\n\t\t\n\t\t10.1002/cpbi.86\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t1934-340X\n\t\t\n\t\t\t68\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6b3bd7723bebd8668d0ac"},"refKey":61},
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{"_key":"60c6b5337723bebd8668d213","_id":"references/60c6b5337723bebd8668d213","_rev":"_cfFl2Yq---","tei":"\n\t\n\t\tSimulating Illumina metagenomic data with InSilicoSeq\n\t\t\n\t\t\tHadrienGourlé\n\t\t\n\t\t\n\t\t\tOskarKarlsson-Lindsjö\n\t\t\n\t\t\n\t\t\tJulietteHayer\n\t\t\n\t\t\n\t\t\tErikBongcam-Rudloff\n\t\t\n\t\t10.1093/bioinformatics/bty630\n\t\t30016412\n\t\tPMC6361232\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6b5337723bebd8668d20e"},"refKey":73},
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{"_key":"60c6b5337723bebd8668d217","_id":"references/60c6b5337723bebd8668d217","_rev":"_cfFl2ZW---","tei":"\n\t\n\t\tA cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples\n\t\t\n\t\t\tSNNaccache\n\t\t\n\t\t\n\t\t\tSFederman\n\t\t\n\t\t\n\t\t\tNVeeraraghavan\n\t\t\n\t\t\n\t\t\tMZaharia\n\t\t\n\t\t\n\t\t\tDLee\n\t\t\n\t\t\n\t\t\tESamayoa\n\t\t\n\t\t\n\t\t\tJBouquet\n\t\t\n\t\t\n\t\t\tALGreninger\n\t\t\n\t\t\n\t\t\tK-CLuk\n\t\t\n\t\t\n\t\t\tBEnge\n\t\t\n\t\t\n\t\t\tDAWadford\n\t\t\n\t\t\n\t\t\tSLMessenger\n\t\t\n\t\t\n\t\t\tGLGenrich\n\t\t\n\t\t\n\t\t\tKPellegrino\n\t\t\n\t\t\n\t\t\tGGrard\n\t\t\n\t\t\n\t\t\tELeroy\n\t\t\n\t\t\n\t\t\tBSSchneider\n\t\t\n\t\t\n\t\t\tJNFair\n\t\t\n\t\t\n\t\t\tMAMartinez\n\t\t\n\t\t\n\t\t\tPIsa\n\t\t\n\t\t\n\t\t\tJACrump\n\t\t\n\t\t\n\t\t\tJLDerisi\n\t\t\n\t\t\n\t\t\tTSittler\n\t\t\n\t\t\n\t\t\tJHackett\n\t\t\n\t\t\n\t\t\tSMiller\n\t\t\n\t\t\n\t\t\tCYChiu\n\t\t\n\t\t10.1101/gr.171934.113\n\t\t24899342\n\t\tPMC4079973\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t24\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6b5337723bebd8668d20e"},"refKey":22},
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{"_key":"60c6b6397723bebd8668d362","_id":"references/60c6b6397723bebd8668d362","_rev":"_cfFl2fO---","tei":"\n\t\n\t\tExploring the limit of using a deep neural network on pileup data for germline variant calling\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tC-LWong\n\t\t\n\t\t\n\t\t\tY-SWong\n\t\t\n\t\n\t\n\t\tNature Machine Intelligence\n\t\t\n\t\t\t2\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b6397723bebd8668d351"},"refKey":65},
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{"_key":"60c6b6397723bebd8668d367","_id":"references/60c6b6397723bebd8668d367","_rev":"_cfFl2gG---","tei":"\n\t\n\t\tSNVer: a statistical tool for variant calling in analysis of pooled or individual next-generation sequencing data\n\t\t\n\t\t\tZWei\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tPHu\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b6397723bebd8668d351"},"refKey":67},
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{"_key":"60c6b6397723bebd8668d369","_id":"references/60c6b6397723bebd8668d369","_rev":"_cfFl2ge---","tei":"\n\t\n\t\tSimulating nextgeneration sequencing datasets from empirical mutation and sequencing models\n\t\t\n\t\t\tJParkinson\n\t\t\n\t\t\n\t\t\tZDStephens\n\t\t\n\t\t\n\t\t\tMEHudson\n\t\t\n\t\n\t\n\t\tPlos One\n\t\t\n\t\t\t11\n\t\t\t11\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b6397723bebd8668d351"},"refKey":60},
{"_key":"60c6b6a77723bebd8668d3e5","_id":"references/60c6b6a77723bebd8668d3e5","_rev":"_cfFl2gq---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b6a77723bebd8668d3e4"},"refKey":28},
{"_key":"60c6b6a97723bebd8668d3ed","_id":"references/60c6b6a97723bebd8668d3ed","_rev":"_cfFl2gy---","tei":"\n\t\n\t\tExploratory Chemometrics for Spectroscopy. R Package Version 4\n\t\t\n\t\t\tBAHanson\n\t\t\n\t\t\n\t\t\tChemospec\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t12\n\t\t\n\t\n\n","document":{"$oid":"60c6b6a97723bebd8668d3ec"},"refKey":98},
{"_key":"60c6b6a97723bebd8668d3ee","_id":"references/60c6b6a97723bebd8668d3ee","_rev":"_cfFl2h----","tei":"\n\t\n\t\thyperspec: A Package to Handle Hyperspectral Data Sets in R. R Package Version 0\n\t\t\n\t\t\tCBeleites\n\t\t\n\t\t\n\t\t\tVSergo\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t19\n\t\t\n\t\n\n","document":{"$oid":"60c6b6a97723bebd8668d3ec"},"refKey":99},
{"_key":"60c6b6e07723bebd8668d416","_id":"references/60c6b6e07723bebd8668d416","_rev":"_cfFl2hK---","tei":"\n\t\n\t\twith contributions from Jean Thioulouse. Based on earlier work by Alice Julien-Laferriére, adegraphics: An S4 Lattice-Based Package for the Representation of Multivariate Data, r package version 1\n\t\t\n\t\t\tSDray\n\t\t\n\t\t\n\t\t\tASiberchicot\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b6e07723bebd8668d415"},"refKey":6},
{"_key":"60c6b7337723bebd8668d46c","_id":"references/60c6b7337723bebd8668d46c","_rev":"_cfFl2hW---","tei":"\n\t\n\t\tThe R*-tree: an efficient and robust access method for points and rectangles\n\t\t\n\t\t\tNorbertBeckmann\n\t\t\n\t\t\n\t\t\tHans-PeterKriegel\n\t\t\n\t\t\n\t\t\tRalfSchneider\n\t\t\n\t\t\n\t\t\tBernhardSeeger\n\t\t\n\t\t10.1145/93605.98741\n\t\t\n\t\t\n\t\n\t\n\t\tACM SIGMOD Record\n\t\tSIGMOD Rec.\n\t\t0163-5808\n\t\t\n\t\t\t19\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c6b7337723bebd8668d46b"},"refKey":5},
{"_key":"60c6b7507723bebd8668d491","_id":"references/60c6b7507723bebd8668d491","_rev":"_cfFl2hi---","tei":"\n\t\n\t\tArrowsmith two-node search interface: A tutorial on finding meaningful links between two disparate sets of articles in MEDLINE\n\t\t\n\t\t\tNeilRSmalheiser\n\t\t\n\t\t\n\t\t\tVetleITorvik\n\t\t\n\t\t\n\t\t\tWeiZhou\n\t\t\n\t\t10.1016/j.cmpb.2008.12.006\n\t\t19185946\n\t\tPMC2693227\n\t\t\n\t\t\n\t\n\t\n\t\tComputer Methods and Programs in Biomedicine\n\t\tComputer Methods and Programs in Biomedicine\n\t\t0169-2607\n\t\t\n\t\t\t94\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6b7507723bebd8668d490"},"refKey":23},
{"_key":"60c6b7507723bebd8668d492","_id":"references/60c6b7507723bebd8668d492","_rev":"_cfFl2hq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPubreminer\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b7507723bebd8668d490"},"refKey":5},
{"_key":"60c6b7507723bebd8668d493","_id":"references/60c6b7507723bebd8668d493","_rev":"_cfFl2h2---","tei":"\n\t\n\t\tThe NIH Open Citation Collection: A publicaccess, broad coverage resource\n\t\t\n\t\t\tBIHutchins\n\t\t\n\t\t\n\t\t\tKLBaker\n\t\t\n\t\t\n\t\t\tMTDavis\n\t\t\n\t\t\n\t\t\tMADiwersy\n\t\t\n\t\t\n\t\t\tEHaque\n\t\t\n\t\t\n\t\t\tRMHarriman\n\t\t\n\t\t\n\t\t\tTAHoppe\n\t\t\n\t\t\n\t\t\tSALeicht\n\t\t\n\t\t\n\t\t\tPMeyer\n\t\t\n\t\t\n\t\t\tGMSantangelo\n\t\t\n\t\t10.1371/journal.pbio.3000385\n\t\t31600197\n\t\t\n\t\n\t\n\t\tPLoS Biol\n\t\t\n\t\t\t17\n\t\t\t10\n\t\t\te3000385\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b7507723bebd8668d490"},"refKey":27},
{"_key":"60c6b7a67723bebd8668d5ed","_id":"references/60c6b7a67723bebd8668d5ed","_rev":"_cfFl2iC---","tei":"\n\t\n\t\tA Stochastic Simulator of Birth-Death Master Equations with Application to Phylodynamics\n\t\t\n\t\t\tTGVaughan\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t10.1093/molbev/mst057\n\t\t23505043\n\t\tPMC3649681\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6b7a67723bebd8668d5ec"},"refKey":53},
{"_key":"60c6b7a67723bebd8668d5ee","_id":"references/60c6b7a67723bebd8668d5ee","_rev":"_cfFl2iO---","tei":"\n\t\n\t\tROCR: visualizing classifier performance in R\n\t\t\n\t\t\tTSing\n\t\t\n\t\t\n\t\t\tOSander\n\t\t\n\t\t\n\t\t\tNBeerenwinkel\n\t\t\n\t\t\n\t\t\tTLengauer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b7a67723bebd8668d5ec"},"refKey":46},
{"_key":"60c6b7a67723bebd8668d5ef","_id":"references/60c6b7a67723bebd8668d5ef","_rev":"_cfFl2iW---","tei":"\n\t\n\t\tphangorn: phylogenetic analysis in R\n\t\t\n\t\t\tKPSchliep\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b7a67723bebd8668d5ec"},"refKey":43},
{"_key":"60c6b7a67723bebd8668d5f0","_id":"references/60c6b7a67723bebd8668d5f0","_rev":"_cfFl2ii---","tei":"\n\t\n\t\tCODA: convergence diagnosis and output analysis for\n\t\t\n\t\t\tMPlummer\n\t\t\n\t\t\n\t\t\tNBest\n\t\t\n\t\t\n\t\t\tKCowles\n\t\t\n\t\t\n\t\t\tKVines\n\t\t\n\t\n\t\n\t\tMCMC. R News\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b7a67723bebd8668d5ec"},"refKey":37},
{"_key":"60c6b7a67723bebd8668d5f1","_id":"references/60c6b7a67723bebd8668d5f1","_rev":"_cfFl2iu---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJ-FDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b7a67723bebd8668d5ec"},"refKey":20},
{"_key":"60c6b7bf7723bebd8668d604","_id":"references/60c6b7bf7723bebd8668d604","_rev":"_cfFl2i6---","tei":"\n\t\n\t\t\n\t\t\tABrunger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tGMClore\n\t\t\n\t\t\n\t\t\tWL PGross\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tJSJiung\n\t\t\n\t\t\n\t\t\tJKuszewski\n\t\t\n\t\t\n\t\t\tMNilges\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tLMRice\n\t\t\n\t\t\n\t\t\tTSimonson\n\t\t\n\t\t\n\t\t\tGLWarren\n\t\t\n\t\n\t\n\t\tCrystallography and NMR system: a new software system for macromolecular structure determination\n\t\t\t\t\n\t\t\t\n\t\t\t54\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b7bf7723bebd8668d603"},"refKey":9},
{"_key":"60c6b7bf7723bebd8668d605","_id":"references/60c6b7bf7723bebd8668d605","_rev":"_cfFl2jG---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGHeijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b7bf7723bebd8668d603"},"refKey":16},
{"_key":"60c6b7e47723bebd8668d624","_id":"references/60c6b7e47723bebd8668d624","_rev":"_cfFl2jO---","tei":"\n\t\n\t\tA new look at the statistical model identification\n\t\t\n\t\t\tHAkaike\n\t\t\n\t\n\t\n\t\tIEEE Trans. Autom. Control\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6b7e47723bebd8668d623"},"refKey":57},
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{"_key":"60c6b8a17723bebd8668d749","_id":"references/60c6b8a17723bebd8668d749","_rev":"_cfFl2mm---","tei":"\n\t\n\t\tRole of RNA chaperones in virus replication\n\t\t\n\t\t\tSoniaZúñiga\n\t\t\n\t\t\n\t\t\tIsabelSola\n\t\t\n\t\t\n\t\t\tJazminaL GCruz\n\t\t\n\t\t\n\t\t\tLuisEnjuanes\n\t\t\n\t\t10.1016/j.virusres.2008.06.015\n\t\t18675859\n\t\n\t\n\t\tVirus Research\n\t\tVirus Research\n\t\t0168-1702\n\t\t\n\t\t\t139\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6b8a17723bebd8668d748"},"refKey":25},
{"_key":"60c6b8a17723bebd8668d74a","_id":"references/60c6b8a17723bebd8668d74a","_rev":"_cfFl2my---","tei":"\n\t\n\t\tPredicting intrinsic disorder from amino acid sequence\n\t\t\n\t\t\tZoranObradovic\n\t\t\n\t\t\n\t\t\tKangPeng\n\t\t\n\t\t\n\t\t\tSlobodanVucetic\n\t\t\n\t\t\n\t\t\tPredragRadivojac\n\t\t\n\t\t\n\t\t\tCelesteJBrown\n\t\t\n\t\t\n\t\t\tAKeithDunker\n\t\t\n\t\t10.1002/prot.10532\n\t\t14579347\n\t\tark:/67375/WNG-13W5TC6P-W\n\t\t2E14F63532E8B26B8B155137767E8A57A2D9E0D7\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t53\n\t\t\tS6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c6b8a17723bebd8668d748"},"refKey":68},
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{"_key":"60c6be517723bebd8668dae4","_id":"references/60c6be517723bebd8668dae4","_rev":"_cfFl21q---","tei":"\n\t\n\t\tMapping a Neutralizing Epitope on the SARS Coronavirus Spike Protein: Computational Prediction Based on Affinity-selected Peptides\n\t\t\n\t\t\tNataliaTarnovitski\n\t\t\n\t\t\n\t\t\tLeslieJMatthews\n\t\t\n\t\t\n\t\t\tJianhuaSui\n\t\t\n\t\t\n\t\t\tJonathanMGershoni\n\t\t\n\t\t\n\t\t\tWayneAMarasco\n\t\t\n\t\t10.1016/j.jmb.2006.03.008\n\t\t16630634\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t359\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6be517723bebd8668dae2"},"refKey":3},
{"_key":"60c6bea37723bebd8668db0f","_id":"references/60c6bea37723bebd8668db0f","_rev":"_cfFl212---","tei":"\n\t\n\t\tThe Computer Aided Resonance Assignment Tutorial\n\t\t\n\t\t\tRL JKeller\n\t\t\n\t\t\n\t\t\t\n\t\t\tCANTINA Verlag\n\t\t\tGoldau, Switzerland\n\t\t\n\t\n\n","document":{"$oid":"60c6bea37723bebd8668db0e"},"refKey":18},
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{"_key":"60c6bece7723bebd8668db21","_id":"references/60c6bece7723bebd8668db21","_rev":"_cfFl22K---","tei":"\n\t\n\t\tBayesian Computing with INLA: A Review\n\t\t\n\t\t\tHåvardRue\n\t\t\n\t\t\n\t\t\tAndreaRiebler\n\t\t\n\t\t\n\t\t\tSigrunnHSørbye\n\t\t\n\t\t\n\t\t\tJanineBIllian\n\t\t\n\t\t\n\t\t\tDanielPSimpson\n\t\t\n\t\t\n\t\t\tFinnKLindgren\n\t\t\n\t\t10.1146/annurev-statistics-060116-054045\n\t\t\n\t\n\t\n\t\tAnnual Review of Statistics and Its Application\n\t\tAnnu. Rev. Stat. Appl.\n\t\t2326-8298\n\t\t2326-831X\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAnnual Reviews\n\t\t\n\t\n\n","document":{"$oid":"60c6bece7723bebd8668db20"},"refKey":13},
{"_key":"60c6bf1f7723bebd8668db45","_id":"references/60c6bf1f7723bebd8668db45","_rev":"_cfFl22W---","tei":"\n\t\n\t\tExact inference for the risk ratio with an imperfect diagnostic test\n\t\t\n\t\t\tJReiczigel\n\t\t\n\t\t\n\t\t\tJSinger\n\t\t\n\t\t\n\t\t\tZs.Lang\n\t\t\n\t\t10.1017/s0950268816002028\n\t\t27608542\n\t\t\n\t\n\t\n\t\tEpidemiology and Infection\n\t\tEpidemiol. Infect.\n\t\t0950-2688\n\t\t1469-4409\n\t\t\n\t\t\t145\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCambridge University Press (CUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6bf1f7723bebd8668db44"},"refKey":10},
{"_key":"60c6bf1f7723bebd8668db46","_id":"references/60c6bf1f7723bebd8668db46","_rev":"_cfFl22e---","tei":"\n\t\n\t\tConfidence curves and improved exact confidence intervals for discrete distributions\n\t\t\n\t\t\tHelgeBlaker\n\t\t\n\t\t10.2307/3315916\n\t\tark:/67375/WNG-13C3S2ST-Q\n\t\t42BE5A587E20FF6A223B17AABF28AB539925C087\n\t\t\n\t\n\t\n\t\tCanadian Journal of Statistics\n\t\tCan. J. Statistics\n\t\t0319-5724\n\t\t1708-945X\n\t\t\n\t\t\t28\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6bf1f7723bebd8668db44"},"refKey":11},
{"_key":"60c6bf257723bebd8668db4c","_id":"references/60c6bf257723bebd8668db4c","_rev":"_cfFl22q---","tei":"\n\t\n\t\t\n\t\tBabraham Bioinformatics -FastQC A Quality Control tool for High Throughput Sequence Data\n\t\t\t\t\n\t\n\tInternet. cited 2020 May 7]. Available from\n\n","document":{"$oid":"60c6bf257723bebd8668db4b"},"refKey":16},
{"_key":"60c6bf587723bebd8668db6c","_id":"references/60c6bf587723bebd8668db6c","_rev":"_cfFl226---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6bf587723bebd8668db6b"},"refKey":26},
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{"_key":"60c6bf707723bebd8668db82","_id":"references/60c6bf707723bebd8668db82","_rev":"_cfFl23q---","tei":"\n\t\n\t\tMinimap and miniasm: fast mapping and de novo assembly for noisy long sequences\n\t\t\n\t\t\tHengLi\n\t\t\n\t\t10.1093/bioinformatics/btw152\n\t\t27153593\n\t\tPMC4937194\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6bf707723bebd8668db7f"},"refKey":33},
{"_key":"60c6bf707723bebd8668db83","_id":"references/60c6bf707723bebd8668db83","_rev":"_cfFl232---","tei":"\n\t\n\t\tMinIONQC: fast and simple quality control for MinION sequencing data\n\t\t\n\t\t\tRLanfear\n\t\t\n\t\t\n\t\t\tMSchalamun\n\t\t\n\t\t\n\t\t\tDKainer\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tBSchwessinger\n\t\t\n\t\t10.1093/bioinformatics/bty654\n\t\t30052755\n\t\tPMC6361240\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6bf707723bebd8668db7f"},"refKey":32},
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{"_key":"60c6bf707723bebd8668db85","_id":"references/60c6bf707723bebd8668db85","_rev":"_cfFl24O---","tei":"\n\t\n\t\tQualimap 2: advanced multi-sample quality control for high-throughput sequencing data\n\t\t\n\t\t\tKonstantinOkonechnikov\n\t\t\n\t\t\n\t\t\tAnaConesa\n\t\t\n\t\t\n\t\t\tFernandoGarcía-Alcalde\n\t\t\n\t\t10.1093/bioinformatics/btv566\n\t\t26428292\n\t\tPMC4708105\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\tbtv566\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6bf707723bebd8668db7f"},"refKey":34},
{"_key":"60c6bf707723bebd8668db86","_id":"references/60c6bf707723bebd8668db86","_rev":"_cfFl24W---","tei":"\n\t\n\t\tNanoPack: visualizing and processing long-read sequencing data\n\t\t\n\t\t\tWouterDe Coster\n\t\t\t0000-0002-5248-8197\n\t\t\n\t\t\n\t\t\tSvennD’hert\n\t\t\n\t\t\n\t\t\tDarrinTSchultz\n\t\t\n\t\t\n\t\t\tMarcCruts\n\t\t\n\t\t\n\t\t\tChristineVan Broeckhoven\n\t\t\n\t\t10.1093/bioinformatics/bty149\n\t\t29547981\n\t\tPMC6061794\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6bf707723bebd8668db7f"},"refKey":36},
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{"_key":"60c6c0047723bebd8668dbfc","_id":"references/60c6c0047723bebd8668dbfc","_rev":"_cfFl25m---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6c0047723bebd8668dbfb"},"refKey":12},
{"_key":"60c6c0047723bebd8668dbfd","_id":"references/60c6c0047723bebd8668dbfd","_rev":"_cfFl25y---","tei":"\n\t\n\t\tREDCap Consortium. The RED-Cap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tLMcleod\n\t\t\n\t\t\n\t\t\tLDelacqua\n\t\t\n\t\t\n\t\t\tGDelacqua\n\t\t\n\t\t\n\t\t\tFKirby\n\t\t\n\t\t\n\t\t\tJ\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c0047723bebd8668dbfb"},"refKey":13},
{"_key":"60c6c01d7723bebd8668dc0b","_id":"references/60c6c01d7723bebd8668dc0b","_rev":"_cfFl26----","tei":"\n\t\n\t\tReal-space refinement in Phenix for cryo-EM and crystallography\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tBillyKPoon\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tOlegVSobolev\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1101/249607\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6c01d7723bebd8668dc0a"},"refKey":43},
{"_key":"60c6c01d7723bebd8668dc0c","_id":"references/60c6c01d7723bebd8668dc0c","_rev":"_cfFl26K---","tei":"\n\t\n\t\tCTFFIND4: Fast and accurate defocus estimation from electron micrographs\n\t\t\n\t\t\tAlexisRohou\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\n\t\t10.1101/020917\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t192\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6c01d7723bebd8668dc0a"},"refKey":38},
{"_key":"60c6c07f7723bebd8668dc56","_id":"references/60c6c07f7723bebd8668dc56","_rev":"_cfFl26S---","tei":"\n\t\n\t\tAutomated MAD and MIR structure solution\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tJoelBerendzen\n\t\t\n\t\t10.1107/s0907444999000839\n\t\t10089316\n\t\tPMC2746121\n\t\tark:/67375/WNG-6990X6L4-P\n\t\t2FE8F0266CA4A6B01599B11B2A2306B9D6533034\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t55\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c6c07f7723bebd8668dc55"},"refKey":43},
{"_key":"60c6c07f7723bebd8668dc57","_id":"references/60c6c07f7723bebd8668dc57","_rev":"_cfFl26e---","tei":"\n\t\n\t\tAutomated protein model building combined with iterative structure refinement\n\t\t\n\t\t\tAPerrakis\n\t\t\n\t\t\n\t\t\tRMMorris\n\t\t\n\t\t\n\t\t\tVSLamzin\n\t\t\n\t\n\t\n\t\tNat Struct Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c07f7723bebd8668dc55"},"refKey":33},
{"_key":"60c6c07f7723bebd8668dc58","_id":"references/60c6c07f7723bebd8668dc58","_rev":"_cfFl26q---","tei":"\n\t\n\t\tMain-chain Bond Lengths and Bond Angles in Protein Structures\n\t\t\n\t\t\tRomanALaskowski\n\t\t\n\t\t\n\t\t\tDavidSMoss\n\t\t\n\t\t\n\t\t\tJanetMThornton\n\t\t\n\t\t10.1006/jmbi.1993.1351\n\t\t8515464\n\t\tS0022-2836(83)71351-3\n\t\tark:/67375/6H6-MCM6F17Q-3\n\t\tCF98A7A685311C43127F8CA8F4C75F2726DFA64F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t231\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6c07f7723bebd8668dc55"},"refKey":24},
{"_key":"60c6c07f7723bebd8668dc59","_id":"references/60c6c07f7723bebd8668dc59","_rev":"_cfFl262---","tei":"\n\t\n\t\tThe CCP4 suite: programs for protein crystallography\n\t\t\n\t\t\tSBailey\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t50\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tand the Collaborative Computational Project\n\n","document":{"$oid":"60c6c07f7723bebd8668dc55"},"refKey":2},
{"_key":"60c6c0a17723bebd8668dc9a","_id":"references/60c6c0a17723bebd8668dc9a","_rev":"_cfFl27----","tei":"\n\t\n\t\tEVA: continuous automatic evaluation of protein structure prediction servers\n\t\t\n\t\t\tVAEyrich\n\t\t\n\t\t\n\t\t\tMAMarti-Renom\n\t\t\n\t\t\n\t\t\tDPrzybylski\n\t\t\n\t\t\n\t\t\tMSMadhusudhan\n\t\t\n\t\t\n\t\t\tAFiser\n\t\t\n\t\t\n\t\t\tFPazos\n\t\t\n\t\t\n\t\t\tAValencia\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tBRost\n\t\t\n\t\t10.1093/bioinformatics/17.12.1242\n\t\t11751240\n\t\t1460-2059\n\t\tark:/67375/HXZ-2DF2VHN9-7\n\t\tF5FB778E5EFD6713F5D48BE1F3219F63B7DFAFFD\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t17\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":173},
{"_key":"60c6c0a17723bebd8668dc9b","_id":"references/60c6c0a17723bebd8668dc9b","_rev":"_cfFl27K---","tei":"\n\t\n\t\tEVA: evaluation of protein structure prediction servers\n\t\t\n\t\t\tI.-YYKoh\n\t\t\n\t\t\n\t\t\tVAEyrich\n\t\t\n\t\t\n\t\t\tMAMarti-Renom\n\t\t\n\t\t\n\t\t\tDPrzybylski\n\t\t\n\t\t\n\t\t\tMSMadhusudhan\n\t\t\n\t\t\n\t\t\tENarayanan\n\t\t\n\t\t\n\t\t\tOGrana\n\t\t\n\t\t\n\t\t\tFPazos\n\t\t\n\t\t\n\t\t\tAValencia\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\t10.1093/nar/gkg619\n\t\t12824315\n\t\tPMC169025\n\t\tark:/67375/HXZ-410F61J4-X\n\t\tC96B70940A4C0645207CC226D8588719CB55BFBD\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":174},
{"_key":"60c6c0a17723bebd8668dc9c","_id":"references/60c6c0a17723bebd8668dc9c","_rev":"_cfFl27W---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t234\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":96},
{"_key":"60c6c0a17723bebd8668dc9d","_id":"references/60c6c0a17723bebd8668dc9d","_rev":"_cfFl27i---","tei":"\n\t\n\t\tModeling of loops in protein structures\n\t\t\n\t\t\tAndrásFiser\n\t\t\n\t\t\n\t\t\tRichardKinh GianDo\n\t\t\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t10.1110/ps.9.9.1753\n\t\t11045621\n\t\tPMC2144714\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t9\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":98},
{"_key":"60c6c0a17723bebd8668dc9e","_id":"references/60c6c0a17723bebd8668dc9e","_rev":"_cfFl27u---","tei":"\n\t\n\t\tEvolution and Physics in Comparative Protein Structure Modeling\n\t\t\n\t\t\tAndrásFiser\n\t\t\n\t\t\n\t\t\tMichaelFeig\n\t\t\n\t\t\n\t\t\tCharlesLBrooks\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1021/ar010061h\n\t\t12069626\n\t\t\n\t\n\t\n\t\tAccounts of Chemical Research\n\t\tAcc. Chem. Res.\n\t\t0001-4842\n\t\t1520-4898\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":99},
{"_key":"60c6c0a17723bebd8668dc9f","_id":"references/60c6c0a17723bebd8668dc9f","_rev":"_cfFl276---","tei":"\n\t\n\t\t\n\t\t\tRSanchez\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\tProc. Natl. Acad. Sci\n\t\t\t\tNatl. Acad. SciUSA\n\t\t\n\t\t\t\n\t\t\t95\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":28},
{"_key":"60c6c0a17723bebd8668dca0","_id":"references/60c6c0a17723bebd8668dca0","_rev":"_cfFl28G---","tei":"\n\t\n\t\tTools for comparative protein structure modeling and analysis\n\t\t\n\t\t\tNEswar\n\t\t\n\t\t\n\t\t\tBJohn\n\t\t\n\t\t\n\t\t\tNMirkovic\n\t\t\n\t\t\n\t\t\tAFiser\n\t\t\n\t\t\n\t\t\tVAIlyin\n\t\t\n\t\t\n\t\t\tUPieper\n\t\t\n\t\t\n\t\t\tACStuart\n\t\t\n\t\t\n\t\t\tMAMarti-Renom\n\t\t\n\t\t\n\t\t\tMSMadhusudhan\n\t\t\n\t\t\n\t\t\tBYerkovich\n\t\t\n\t\t10.1093/nar/gkg543\n\t\t12824331\n\t\tPMC168950\n\t\tark:/67375/HXZ-1VF4H4B7-F\n\t\t65302D2B545E04BAFD3DE7DF06454141EB626FB2\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":213},
{"_key":"60c6c0a17723bebd8668dca1","_id":"references/60c6c0a17723bebd8668dca1","_rev":"_cfFl28O---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tWRPearson\n\t\t\n\t\n\t\n\t\tMethods Mol. Biol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":35},
{"_key":"60c6c0a17723bebd8668dca2","_id":"references/60c6c0a17723bebd8668dca2","_rev":"_cfFl28a---","tei":"\n\t\n\t\t\n\t\tMODWEB\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":250},
{"_key":"60c6c0a17723bebd8668dca3","_id":"references/60c6c0a17723bebd8668dca3","_rev":"_cfFl28m---","tei":"\n\t\n\t\tImprovement of the GenTHREADER method for genomic fold recognition\n\t\t\n\t\t\tLJMcguffin\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t10.1093/bioinformatics/btg097\n\t\t12724298\n\t\t1460-2059\n\t\tark:/67375/HXZ-F89ZCJ5L-S\n\t\tB45FE436C92110AEFBD1B09A4D72C41B76DDEFB4\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":61},
{"_key":"60c6c0a17723bebd8668dca4","_id":"references/60c6c0a17723bebd8668dca4","_rev":"_cfFl28y---","tei":"\n\t\n\t\tDeinococcus does the two-step\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t10.1038/nrm2046\n\t\n\t\n\t\tNature Reviews Molecular Cell Biology\n\t\tNat Rev Mol Cell Biol\n\t\t1471-0072\n\t\t1471-0080\n\t\t\n\t\t\t7\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":70},
{"_key":"60c6c0a17723bebd8668dca5","_id":"references/60c6c0a17723bebd8668dca5","_rev":"_cfFl286---","tei":"\n\t\n\t\tIntegrated Tools for Structural and Sequence Alignment and Analysis\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tWalterRNovak\n\t\t\n\t\t\n\t\t\tPatriciaCBabbitt\n\t\t\n\t\t\n\t\t\tAndrewIJewett\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t\n\t\t\tTeriEKlein\n\t\t\n\t\t10.1142/9789814447331_0022\n\t\t\n\t\n\t\n\t\tBiocomputing 2000\n\t\t\t\t\n\t\t\tWORLD SCIENTIFIC\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":214},
{"_key":"60c6c0a17723bebd8668dca6","_id":"references/60c6c0a17723bebd8668dca6","_rev":"_cfFl29G---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDLipman\n\t\t\n\t\n\t\n\t\tJ. Nucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":36},
{"_key":"60c6c0a17723bebd8668dca7","_id":"references/60c6c0a17723bebd8668dca7","_rev":"_cfFl29S---","tei":"\n\t\n\t\tAccurate modeling of protein conformation by automatic segment matching\n\t\t\n\t\t\tMichaelLevitt\n\t\t\n\t\t10.1016/0022-2836(92)90964-l\n\t\t1640463\n\t\t0022-2836(92)90964-L\n\t\tark:/67375/6H6-12JLM08X-7\n\t\t6BD8FDF91CE446658D7BB606CECD39E246E7E070\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t226\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":91},
{"_key":"60c6c0a17723bebd8668dca8","_id":"references/60c6c0a17723bebd8668dca8","_rev":"_cfFl29e---","tei":"\n\t\n\t\tAnalysis and prediction of inter-strand packing distances between β-sheets of globular proteins\n\t\t\n\t\t\tHampapathaluANagarajaram\n\t\t\n\t\t\n\t\t\tBoojalaV BReddy\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t10.1093/protein/12.12.1055\n\t\t10611399\n\t\t1460-213X\n\t\tark:/67375/HXZ-VN4X29LK-8\n\t\t438B82F18008E9478346BB942EA2E722C406E73A\n\t\t\n\t\n\t\n\t\tProtein Engineering, Design and Selection\n\t\t1741-0126\n\t\t1741-0134\n\t\t\n\t\t\t12\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":82},
{"_key":"60c6c0a17723bebd8668dca9","_id":"references/60c6c0a17723bebd8668dca9","_rev":"_cfFl29q---","tei":"\n\t\n\t\tKnowledge based modelling of homologous proteins, part I: three-dimensional frameworks derived from the simultaneous superposition of multiple structures\n\t\t\n\t\t\tMJSutcliffe\n\t\t\n\t\t\n\t\t\tIHaneef\n\t\t\n\t\t\n\t\t\tDCarney\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1093/protein/1.5.377\n\t\t3508286\n\t\tark:/67375/HXZ-279J3B9G-K\n\t\t8F4F676FC1C957E696C2CE19EE552C5E6003FFD2\n\t\n\t\n\t\t"Protein Engineering, Design and Selection"\n\t\tProtein Eng Des Sel\n\t\t1741-0126\n\t\t1741-0134\n\t\t\n\t\t\t1\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":83},
{"_key":"60c6c0a17723bebd8668dcaa","_id":"references/60c6c0a17723bebd8668dcaa","_rev":"_cfFl29y---","tei":"\n\t\n\t\tKnowledge based modelling of homologous proteins, part II: rules for the conformations of substituted sidechains\n\t\t\n\t\t\tMJSutcliffe\n\t\t\n\t\t\n\t\t\tFR FHayes\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1093/protein/1.5.385\n\t\t3508287\n\t\tark:/67375/HXZ-KDH0RF6N-9\n\t\tB61A063C5AC61EEA9D2852E546A838BDD98AF567\n\t\n\t\n\t\t"Protein Engineering, Design and Selection"\n\t\tProtein Eng Des Sel\n\t\t1741-0126\n\t\t1741-0134\n\t\t\n\t\t\t1\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":84},
{"_key":"60c6c0a17723bebd8668dcab","_id":"references/60c6c0a17723bebd8668dcab","_rev":"_cfFl3-----","tei":"\n\t\n\t\tFragment Ranking in Modelling of Protein Structure\n\t\t\n\t\t\tChristopherMTopham\n\t\t\n\t\t\n\t\t\tAlasdairMcleod\n\t\t\n\t\t\n\t\t\tFrankEisenmenger\n\t\t\n\t\t\n\t\t\tJohnPOverington\n\t\t\n\t\t\n\t\t\tMarkSJohnson\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t10.1006/jmbi.1993.1018\n\t\t8421300\n\t\tS0022-2836(83)71018-1\n\t\tark:/67375/6H6-Q2C1N407-0\n\t\t121553B2D565F8060043ACA2E1FB678625236438\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t229\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":85},
{"_key":"60c6c0a17723bebd8668dcac","_id":"references/60c6c0a17723bebd8668dcac","_rev":"_cfFl3-K---","tei":"\n\t\n\t\tEnhanced genome annotation using structural profiles in the program 3D-PSSM 1 1Edited by J. Thornton\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\n\t\t\n\t\t\tRobertMMaccallum\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1006/jmbi.2000.3741\n\t\t10860755\n\t\tS0022-2836(00)93741-0\n\t\tark:/67375/6H6-8C85NF0G-7\n\t\t863E87373652E5CCB981F3BC92DECFEE467C24A8\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t299\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":71},
{"_key":"60c6c0a17723bebd8668dcad","_id":"references/60c6c0a17723bebd8668dcad","_rev":"_cfFl3-W---","tei":"\n\t\n\t\tHidden Markov models for detecting remote protein homologies\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tCBarrett\n\t\t\n\t\t\n\t\t\tRHughey\n\t\t\n\t\t10.1093/bioinformatics/14.10.846\n\t\t9927713\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t14\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":48},
{"_key":"60c6c0a17723bebd8668dcae","_id":"references/60c6c0a17723bebd8668dcae","_rev":"_cfFl3-i---","tei":"\n\t\n\t\tEnhancement of protein modeling by human intervention in applying the automatic programs 3D-JIGSAW and 3D-PSSM\n\t\t\n\t\t\tPaulABates\n\t\t\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\n\t\t\n\t\t\tRobertMMaccallum\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1002/prot.1168\n\t\t11835480\n\t\tark:/67375/WNG-9N6JWCTF-R\n\t\tA0C2A9BDBA1AD8948ADD8E159B092E34BBBD0B26\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t45\n\t\t\tS5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":86},
{"_key":"60c6c0a17723bebd8668dcaf","_id":"references/60c6c0a17723bebd8668dcaf","_rev":"_cfFl3-q---","tei":"\n\t\n\t\tFlexible ligand docking using conformational ensembles\n\t\t\n\t\t\tDavidMLorber\n\t\t\n\t\t\n\t\t\tBrianKShoichet\n\t\t\n\t\t10.1002/pro.5560070411\n\t\t9568900\n\t\tPMC2143983\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t7\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":189},
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{"_key":"60c6c0a17723bebd8668dcb2","_id":"references/60c6c0a17723bebd8668dcb2","_rev":"_cfFl3_O---","tei":"\n\t\n\t\tAlignment of protein sequences by their profiles\n\t\t\n\t\t\tMAMarti-Renom\n\t\t\n\t\t\n\t\t\tMSMadhusudhan\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\t10.1110/ps.03379804\n\t\t15044736\n\t\tPMC2280052\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t13\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a17723bebd8668dc99"},"refKey":47},
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{"_key":"60c6c0a47723bebd8668dcf2","_id":"references/60c6c0a47723bebd8668dcf2","_rev":"_cfFl3AK---","tei":"\n\t\n\t\tNVivo Qualitative Data Analysis Software; QSR International Pty Ltd\n\t\t\t\tMelbourne, Australia\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c0a47723bebd8668dcf1"},"refKey":34},
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{"_key":"60c6c1317723bebd8668dd87","_id":"references/60c6c1317723bebd8668dd87","_rev":"_cfFl3C2---","tei":"\n\t\n\t\tRDP4: detection and analysis of recombination patterns in virus genomes\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tBMurrell\n\t\t\n\t\t\n\t\t\tMGolden\n\t\t\n\t\t\n\t\t\tAKhoosal\n\t\t\n\t\t\n\t\t\tBMuhire\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t1\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c1317723bebd8668dd84"},"refKey":112},
{"_key":"60c6c1317723bebd8668dd88","_id":"references/60c6c1317723bebd8668dd88","_rev":"_cfFl3DC---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c1317723bebd8668dd84"},"refKey":68},
{"_key":"60c6c1317723bebd8668dd89","_id":"references/60c6c1317723bebd8668dd89","_rev":"_cfFl3DO---","tei":"\n\t\n\t\tThis paper presents the metagenomic tool MALT and is the first case study to demonstrate metagenomic detection of ancient pathogens in the absence of prior knowledge on the causative agent of an epidemic\n\t\t\n\t\t\tAJVågene\n\t\t\n\t\n\t\n\t\tNat. Ecol. Evol\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tSalmonella enterica genomes from victims of a major sixteenth-century epidemic in Mexico\n\n","document":{"$oid":"60c6c1317723bebd8668dd84"},"refKey":41},
{"_key":"60c6c1317723bebd8668dd8a","_id":"references/60c6c1317723bebd8668dd8a","_rev":"_cfFl3Da---","tei":"\n\t\n\t\tApplication of phylogenetic networks in evolutionary studies\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tDBryant\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c1317723bebd8668dd84"},"refKey":105},
{"_key":"60c6c1317723bebd8668dd8b","_id":"references/60c6c1317723bebd8668dd8b","_rev":"_cfFl3Dm---","tei":"\n\t\n\t\tMetagenomic microbial community profiling using unique clade-specific marker genes\n\t\t\n\t\t\tNicolaSegata\n\t\t\n\t\t\n\t\t\tLeviWaldron\n\t\t\n\t\t\n\t\t\tAnnalisaBallarini\n\t\t\n\t\t\n\t\t\tVagheeshNarasimhan\n\t\t\n\t\t\n\t\t\tOlivierJousson\n\t\t\n\t\t\n\t\t\tCurtisHuttenhower\n\t\t\n\t\t10.1038/nmeth.2066\n\t\t22688413\n\t\tPMC3443552\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6c1317723bebd8668dd84"},"refKey":70},
{"_key":"60c6c1317723bebd8668dd8c","_id":"references/60c6c1317723bebd8668dd8c","_rev":"_cfFl3Dy---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c1317723bebd8668dd84"},"refKey":127},
{"_key":"60c6c1317723bebd8668dd8d","_id":"references/60c6c1317723bebd8668dd8d","_rev":"_cfFl3E----","tei":"\n\t\n\t\tmetaBIT, an integrative and automated metagenomic pipeline for analysing microbial profiles from high-throughput sequencing shotgun data\n\t\t\n\t\t\tGuillaumeLouvel\n\t\t\n\t\t\n\t\t\tClioDer Sarkissian\n\t\t\n\t\t\n\t\t\tKristianHanghøj\n\t\t\n\t\t\n\t\t\tLudovicOrlando\n\t\t\n\t\t10.1111/1755-0998.12546\n\t\t27238636\n\t\n\t\n\t\tMolecular Ecology Resources\n\t\tMol Ecol Resour\n\t\t1755-098X\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6c1317723bebd8668dd84"},"refKey":71},
{"_key":"60c6c1367723bebd8668dda4","_id":"references/60c6c1367723bebd8668dda4","_rev":"_cfFl3EK---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tOMEGA. OpenEye Scientific Software\n\t\t\n\t\n\n","document":{"$oid":"60c6c1367723bebd8668dda3"},"refKey":31},
{"_key":"60c6c1367723bebd8668dda5","_id":"references/60c6c1367723bebd8668dda5","_rev":"_cfFl3EW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tQuacpac. Openeye Scientific\n\t\t\n\t\t\n\t\t\tSoftware\n\t\t\n\t\t\n\t\t\n\t\t\tSanta Fe, NM\n\t\t\n\t\n\n","document":{"$oid":"60c6c1367723bebd8668dda3"},"refKey":29},
{"_key":"60c6c1377723bebd8668dda6","_id":"references/60c6c1377723bebd8668dda6","_rev":"_cfFl3Ei---","tei":"\n\t\n\t\tCavityPlus: a web server for protein cavity detection with pharmacophore modelling, allosteric site identification and covalent ligand binding ability prediction\n\t\t\n\t\t\tYoujunXu\n\t\t\n\t\t\n\t\t\tShiweiWang\n\t\t\n\t\t\n\t\t\tQiwanHu\n\t\t\n\t\t\n\t\t\tShuaishiGao\n\t\t\n\t\t\n\t\t\tXiaominMa\n\t\t\n\t\t\n\t\t\tWeilinZhang\n\t\t\n\t\t\n\t\t\tYihangShen\n\t\t\n\t\t\n\t\t\tFangjinChen\n\t\t\n\t\t\n\t\t\tLuhuaLai\n\t\t\n\t\t\n\t\t\tJianfengPei\n\t\t\n\t\t10.1093/nar/gky380\n\t\t29750256\n\t\tPMC6031032\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6c1367723bebd8668dda3"},"refKey":34},
{"_key":"60c6c1377723bebd8668dda7","_id":"references/60c6c1377723bebd8668dda7","_rev":"_cfFl3Eu---","tei":"\n\t\n\t\t\n\t\t\n\t\n\t\n\t\tGraphPad Prism. GraphPad Software Inc\n\t\t\n\t\n\n","document":{"$oid":"60c6c1367723bebd8668dda3"},"refKey":38},
{"_key":"60c6c1407723bebd8668ddba","_id":"references/60c6c1407723bebd8668ddba","_rev":"_cfFl3E6---","tei":"\n\t\n\t\tPrediction of glycosylation across the human proteome and the correlation to protein function\n\t\t\n\t\t\tRamneekGupta\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t10.1142/9789812799623_0029\n\t\t\n\t\n\t\n\t\tBiocomputing 2002\n\t\t\t\t\n\t\t\tWORLD SCIENTIFIC\n\t\t\t\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c1407723bebd8668ddb9"},"refKey":12},
{"_key":"60c6c1407723bebd8668ddbb","_id":"references/60c6c1407723bebd8668ddbb","_rev":"_cfFl3FG---","tei":"\n\t\n\t\tPrediction, conservation analysis, and structural characterization of mammalian mucin-type O-glycosylation sites\n\t\t\n\t\t\tKarinJulenius\n\t\t\n\t\t\n\t\t\tAnneMølgaard\n\t\t\n\t\t\n\t\t\tRamneekGupta\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t10.1093/glycob/cwh151\n\t\t15385431\n\t\tark:/67375/HXZ-GQHMMDZZ-F\n\t\t7F751DD6FBCB3E354EEE50CF8E1C4A363B655A5D\n\t\t\n\t\t\n\t\n\t\n\t\tGlycobiology\n\t\t0959-6658\n\t\t1460-2423\n\t\t\n\t\t\t15\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6c1407723bebd8668ddb9"},"refKey":19},
{"_key":"60c6c1407723bebd8668ddbc","_id":"references/60c6c1407723bebd8668ddbc","_rev":"_cfFl3FS---","tei":"\n\t\n\t\tEMBOSS: The European Molecular Biology Open Software Suite\n\t\t\n\t\t\tPeterRice\n\t\t\n\t\t\n\t\t\tIanLongden\n\t\t\n\t\t\n\t\t\tAlanBleasby\n\t\t\n\t\t10.1016/s0168-9525(00)02024-2\n\t\t10827456\n\t\tS0168-9525(00)02024-2\n\t\tark:/67375/6H6-5DKFQFC8-B\n\t\t3C9902D8477EC7901934D84EDD53D81386C72D82\n\t\tS0168-9525(00)02024-2\n\t\t\n\t\n\t\n\t\tTrends in Genetics\n\t\tTrends in Genetics\n\t\t0168-9525\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6c1407723bebd8668ddb9"},"refKey":33},
{"_key":"60c6c1407723bebd8668ddbd","_id":"references/60c6c1407723bebd8668ddbd","_rev":"_cfFl3Fe---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJS€ Oding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.201175\n\t\t\n\t\n\t\n\t\tMolecular Systems Biology\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c1407723bebd8668ddb9"},"refKey":36},
{"_key":"60c6c1407723bebd8668ddbe","_id":"references/60c6c1407723bebd8668ddbe","_rev":"_cfFl3Fq---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/s0021889892009944\n\t\tark:/67375/WNG-1V02WKNX-V\n\t\t7FF6EABFE5D6E9AB8536E310B9782B625E4CA368\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c6c1407723bebd8668ddb9"},"refKey":23},
{"_key":"60c6c14d7723bebd8668ddde","_id":"references/60c6c14d7723bebd8668ddde","_rev":"_cfFl3F2---","tei":"\n\t\n\t\tTARA: Thermal-Aware Routing Algorithm for Implanted Sensor Networks\n\t\t\n\t\t\tQinghuiTang\n\t\t\n\t\t\n\t\t\tNaveenTummala\n\t\t\n\t\t\n\t\t\tSandeepK SGupta\n\t\t\n\t\t\n\t\t\tLorenSchwiebert\n\t\t\n\t\t10.1007/11502593_17\n\t\tark:/67375/HCB-JZWFB5DH-6\n\t\tC7A5F4C63E98A7792B534873B83BAED698990094\n\t\n\t\n\t\tDistributed Computing in Sensor Systems\n\t\t\t\tMarina del Rey, CA, USA; Berlin, Gemany\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c14d7723bebd8668dddd"},"refKey":44},
{"_key":"60c6c14d7723bebd8668dddf","_id":"references/60c6c14d7723bebd8668dddf","_rev":"_cfFl3GC---","tei":"\n\t\n\t\tA Practical Introduction to the OMNeT++ Simulation Framework\n\t\t\n\t\t\tAndrasVarga\n\t\t\n\t\t\n\t\t\tOmnet++\n\t\t\n\t\t10.1007/978-3-030-12842-5_1\n\t\n\t\n\t\tRecent Advances in Network Simulation\n\t\t\t\tBerlin, Germany\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c14d7723bebd8668dddd"},"refKey":57},
{"_key":"60c6c14d7723bebd8668dde0","_id":"references/60c6c14d7723bebd8668dde0","_rev":"_cfFl3GO---","tei":"\n\t\n\t\tAnybody: A self-organization protocol for body area networks\n\t\t\n\t\t\tTWatteyne\n\t\t\n\t\t\n\t\t\tIAugé-Blum\n\t\t\n\t\t\n\t\t\tMDohler\n\t\t\n\t\t\n\t\t\tDBarthel\n\t\t\n\t\n\t\n\t\tProceedings of the ICST 2nd International Conference on Body Area Networks\n\t\t\t\tthe ICST 2nd International Conference on Body Area NetworksFlorence, Italy\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c14d7723bebd8668dddd"},"refKey":46},
{"_key":"60c6c1577723bebd8668ddee","_id":"references/60c6c1577723bebd8668ddee","_rev":"_cfFl3Ga---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\tR: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c1577723bebd8668dded"},"refKey":11},
{"_key":"60c6c1627723bebd8668ddf3","_id":"references/60c6c1627723bebd8668ddf3","_rev":"_cfFl3Gm---","tei":"\n\t\n\t\tThe Immune Epitope Database and Analysis Resource: From Vision to Blueprint\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tJohnSidney\n\t\t\n\t\t\n\t\t\tPhilBourne\n\t\t\n\t\t\n\t\t\tHuynh-HoaBui\n\t\t\n\t\t\n\t\t\tSoerenBuus\n\t\t\n\t\t\n\t\t\tGraceDoh\n\t\t\n\t\t\n\t\t\tWardFleri\n\t\t\n\t\t\n\t\t\tMitchKronenberg\n\t\t\n\t\t\n\t\t\tRalphKubo\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tDavidNemazee\n\t\t\n\t\t\n\t\t\tJuliaVPonomarenko\n\t\t\n\t\t\n\t\t\tMuthuSathiamurthy\n\t\t\n\t\t\n\t\t\tStephenSchoenberger\n\t\t\n\t\t\n\t\t\tScottStewart\n\t\t\n\t\t\n\t\t\tPamelaSurko\n\t\t\n\t\t\n\t\t\tScottWay\n\t\t\n\t\t\n\t\t\tSteveWilson\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t10.1371/journal.pbio.0030091\n\t\t15760272\n\t\tPMC1065705\n\t\t\n\t\n\t\n\t\tPLoS Biology\n\t\tPLoS Biol\n\t\t1545-7885\n\t\t\n\t\t\t3\n\t\t\t3\n\t\t\te91\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6c1627723bebd8668ddf2"},"refKey":37},
{"_key":"60c6c1627723bebd8668ddf4","_id":"references/60c6c1627723bebd8668ddf4","_rev":"_cfFl3Gy---","tei":"\n\t\n\t\tBayesian Phylogenetics with BEAUti and the BEAST 1.7\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t10.1093/molbev/mss075\n\t\t22367748\n\t\tPMC3408070\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t29\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6c1627723bebd8668ddf2"},"refKey":35},
{"_key":"60c6c1627723bebd8668ddf5","_id":"references/60c6c1627723bebd8668ddf5","_rev":"_cfFl3H----","tei":"\n\t\n\t\tPredicting linear B‐cell epitopes using string kernels\n\t\t\n\t\t\tYasserEl‐manzalawy\n\t\t\n\t\t\n\t\t\tDrenaDobbs\n\t\t\n\t\t\n\t\t\tVasantHonavar\n\t\t\n\t\t10.1002/jmr.893\n\t\t18496882\n\t\tPMC2683948\n\t\tark:/67375/WNG-WGM67G2V-3\n\t\t6483283356B180D4365629B79073ABBEDE5C41A3\n\t\t\n\t\n\t\n\t\tJournal of Molecular Recognition\n\t\tJ. Mol. Recognit.\n\t\t0952-3499\n\t\t1099-1352\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6c1627723bebd8668ddf2"},"refKey":38},
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{"_key":"60c6c1827723bebd8668de06","_id":"references/60c6c1827723bebd8668de06","_rev":"_cfFl3He---","tei":"\n\t\n\t\tUltrafast and Memory-Efficient Alignment of Short DNA Sequences to the Human Genome\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c1827723bebd8668de05"},"refKey":13},
{"_key":"60c6c1827723bebd8668de07","_id":"references/60c6c1827723bebd8668de07","_rev":"_cfFl3Hq---","tei":"\n\t\n\t\tGoncalo Abecasis, Richard Durbin, and 1000 Genome Project Data Processing Subgroup\n\t\t\n\t\t\tHengLi\n\t\t\n\t\t\n\t\t\tBobHandsaker\n\t\t\n\t\t\n\t\t\tAlecWysoker\n\t\t\n\t\t\n\t\t\tTimFennell\n\t\t\n\t\t\n\t\t\tJueRuan\n\t\t\n\t\t\n\t\t\tNilsHomer\n\t\t\n\t\t\n\t\t\tGaborMarth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tThe Sequence Alignment/Map Format and SAMtools\n\n","document":{"$oid":"60c6c1827723bebd8668de05"},"refKey":15},
{"_key":"60c6c1827723bebd8668de08","_id":"references/60c6c1827723bebd8668de08","_rev":"_cfFl3H2---","tei":"\n\t\n\t\tAligning Sequence Reads, Clone Sequences and Assembly Contigs with BWA-MEM\n\t\t\n\t\t\tHengLi\n\t\t\n\t\tarXiv:1303.3997\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t3997\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tMinimap2: Pairwise Alignment for Nucleotide Sequences\n\n","document":{"$oid":"60c6c1827723bebd8668de05"},"refKey":14},
{"_key":"60c6c1827723bebd8668de09","_id":"references/60c6c1827723bebd8668de09","_rev":"_cfFl3I----","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: A MapReduce Framework for Analyzing next-Generation DNA Sequencing Data\n\t\t\n\t\t\tAaronMckenna\n\t\t\n\t\t\n\t\t\tMatthewHanna\n\t\t\n\t\t\n\t\t\tEricBanks\n\t\t\n\t\t\n\t\t\tAndreySivachenko\n\t\t\n\t\t\n\t\t\tKristianCibulskis\n\t\t\n\t\t\n\t\t\tAndrewKernytsky\n\t\t\n\t\t\n\t\t\tKiranGarimella\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\t\n\t\t\t20\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6c1827723bebd8668de05"},"refKey":16},
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{"_key":"60c6cb847723bebd8668e594","_id":"references/60c6cb847723bebd8668e594","_rev":"_cfFl3de---","tei":"\n\t\n\t\tThe positive impact of lockdown in Wuhan on containing the COVID-19 outbreak in China\n\t\t\n\t\t\tHLau\n\t\t\n\t\t\n\t\t\tVKhosrawipour\n\t\t\n\t\t\n\t\t\tPKocbach\n\t\t\n\t\t10.1093/jtm/taaa037/5808003\n\t\t\n\t\n\t\n\t\tJournal of travel\n\t\t\n\t\t\t2020\n\t\t\n\t\n\tAvailable at\n\n","document":{"$oid":"60c6cb847723bebd8668e58f"},"refKey":9},
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{"_key":"60c6d1197723bebd8668ea5f","_id":"references/60c6d1197723bebd8668ea5f","_rev":"_cfFl3rq---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d1197723bebd8668ea5a"},"refKey":95},
{"_key":"60c6d1197723bebd8668ea60","_id":"references/60c6d1197723bebd8668ea60","_rev":"_cfFl3r2---","tei":"\n\t\n\t\tAutomated de novo prediction of native-like RNA tertiary structures\n\t\t\n\t\t\tRDas\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\t10.1073/pnas.0703836104\n\t\t17726102\n\t\tPMC1955458\n\t\tdoi: 10.1073/ pnas.0703836104\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t104\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c6d1197723bebd8668ea5a"},"refKey":30},
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{"_key":"60c6d1197723bebd8668ea63","_id":"references/60c6d1197723bebd8668ea63","_rev":"_cfFl3sW---","tei":"\n\t\n\t\tCoarse-grained modeling of large RNA molecules with knowledge-based potentials and structural filters\n\t\t\n\t\t\tMAJonikas\n\t\t\n\t\t\n\t\t\tRJRadmer\n\t\t\n\t\t\n\t\t\tALaederach\n\t\t\n\t\t\n\t\t\tRDas\n\t\t\n\t\t\n\t\t\tSPearlman\n\t\t\n\t\t\n\t\t\tDHerschlag\n\t\t\n\t\t\n\t\t\tRBAltman\n\t\t\n\t\t10.1261/rna.1270809\n\t\t19144906\n\t\tPMC2648710\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t15\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6d1197723bebd8668ea5a"},"refKey":69},
{"_key":"60c6d1197723bebd8668ea64","_id":"references/60c6d1197723bebd8668ea64","_rev":"_cfFl3si---","tei":"\n\t\n\t\tVfoldLA: A web server for loop assembly-based prediction of putative 3D RNA structures\n\t\t\n\t\t\tXiaojunXu\n\t\t\n\t\t\n\t\t\tChenhanZhao\n\t\t\n\t\t\n\t\t\tShi-JieChen\n\t\t\t0000-0002-8093-7244\n\t\t\n\t\t10.1016/j.jsb.2019.06.002\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t207\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6d1197723bebd8668ea5a"},"refKey":220},
{"_key":"60c6d1197723bebd8668ea65","_id":"references/60c6d1197723bebd8668ea65","_rev":"_cfFl3su---","tei":"\n\t\n\t\tThe MC-Fold and MC-Sym pipeline infers RNA structure from sequence data\n\t\t\n\t\t\tMarcParisien\n\t\t\n\t\t\n\t\t\tFrançoisMajor\n\t\t\n\t\t10.1038/nature06684\n\t\t18322526\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t452\n\t\t\t7183\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c6d1197723bebd8668ea5a"},"refKey":136},
{"_key":"60c6d1197723bebd8668ea66","_id":"references/60c6d1197723bebd8668ea66","_rev":"_cfFl3s6---","tei":"\n\t\n\t\tProtein NMR Structure Determination with Automated NOE Assignment Using the New Software CANDID and the Torsion Angle Dynamics Algorithm DYANA\n\t\t\n\t\t\tTorstenHerrmann\n\t\t\n\t\t\n\t\t\tPeterGüntert\n\t\t\n\t\t\n\t\t\tKurtWüthrich\n\t\t\n\t\t10.1016/s0022-2836(02)00241-3\n\t\t12051947\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t319\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6d1197723bebd8668ea5a"},"refKey":55},
{"_key":"60c6d1197723bebd8668ea67","_id":"references/60c6d1197723bebd8668ea67","_rev":"_cfFl3tG---","tei":"\n\t\n\t\tiFoldRNA: three-dimensional RNA structure prediction and folding\n\t\t\n\t\t\tShantanuSharma\n\t\t\n\t\t\n\t\t\tFengDing\n\t\t\n\t\t\n\t\t\tNikolayVDokholyan\n\t\t\n\t\t10.1093/bioinformatics/btn328\n\t\t18579566\n\t\tPMC2559968\n\t\tark:/67375/HXZ-KD224PH9-G\n\t\t20B83B8D5A575C8DE330E28FA7EE4CBB41A81B5C\n\t\tdoi: 10. 1093/bioinformatics/btn328\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6d1197723bebd8668ea5a"},"refKey":165},
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{"_key":"60c6d1197723bebd8668ea69","_id":"references/60c6d1197723bebd8668ea69","_rev":"_cfFl3te---","tei":"\n\t\n\t\tRNA FRABASE 2.0: an advanced web-accessible database with the capacity to search the three-dimensional fragments within RNA structures\n\t\t\n\t\t\tMariuszPopenda\n\t\t\n\t\t\n\t\t\tMartaSzachniuk\n\t\t\n\t\t\n\t\t\tMarekBlazewicz\n\t\t\n\t\t\n\t\t\tSzymonWasik\n\t\t\n\t\t\n\t\t\tEdmundKBurke\n\t\t\n\t\t\n\t\t\tJacekBlazewicz\n\t\t\n\t\t\n\t\t\tRyszardWAdamiak\n\t\t\n\t\t10.1186/1471-2105-11-231\n\t\t20459631\n\t\tPMC2873543\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t231\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6d1197723bebd8668ea5a"},"refKey":141},
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{"_key":"60c6d4e77723bebd8668edc2","_id":"references/60c6d4e77723bebd8668edc2","_rev":"_cfFl34C---","tei":"\n\t\n\t\tMEGAN analysis of metagenomic data\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tAFAuch\n\t\t\n\t\t\n\t\t\tJQi\n\t\t\n\t\t\n\t\t\tSCSchuster\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t17\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":28},
{"_key":"60c6d4e77723bebd8668edc3","_id":"references/60c6d4e77723bebd8668edc3","_rev":"_cfFl34O---","tei":"\n\t\n\t\tThe metagenomics RAST server -a public resource for the automatic phylogenetic and functional analysis of metagenomes\n\t\t\n\t\t\tFMeyer\n\t\t\n\t\t\n\t\t\tDPaarmann\n\t\t\n\t\t\n\t\t\tD'Souza\n\t\t\n\t\t\n\t\t\tMOlson\n\t\t\n\t\t\n\t\t\tRGlass\n\t\t\n\t\t\n\t\t\tEMKubal\n\t\t\n\t\t\n\t\t\tM\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t9\n\t\t\t386\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":6},
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{"_key":"60c6d4e77723bebd8668edc6","_id":"references/60c6d4e77723bebd8668edc6","_rev":"_cfFl34y---","tei":"\n\t\n\t\tIntroducing DOTUR, a Computer Program for Defining Operational Taxonomic Units and Estimating Species Richness\n\t\t\n\t\t\tPDSchloss\n\t\t\n\t\t\n\t\t\tJHandelsman\n\t\t\n\t\t10.1128/aem.71.3.1501-1506.2005\n\t\t15746353\n\t\tPMC1065144\n\t\t\n\t\n\t\n\t\tApplied and Environmental Microbiology\n\t\tApplied and Environmental Microbiology\n\t\t0099-2240\n\t\t\n\t\t\t71\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":16},
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{"_key":"60c6d4e77723bebd8668edc8","_id":"references/60c6d4e77723bebd8668edc8","_rev":"_cfFl35G---","tei":"\n\t\n\t\tImproved microbial gene identification with GLIMMER\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tDHarmon\n\t\t\n\t\t\n\t\t\tSKasif\n\t\t\n\t\t\n\t\t\tOWhite\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t27\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":25},
{"_key":"60c6d4e77723bebd8668edc9","_id":"references/60c6d4e77723bebd8668edc9","_rev":"_cfFl35S---","tei":"\n\t\n\t\tFragGeneScan: predicting genes in short and error-prone reads\n\t\t\n\t\t\tMinaRho\n\t\t\n\t\t\n\t\t\tHaixuTang\n\t\t\n\t\t\n\t\t\tYuzhenYe\n\t\t\n\t\t10.1093/nar/gkq747\n\t\t20805240\n\t\tPMC2978382\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":26},
{"_key":"60c6d4e77723bebd8668edca","_id":"references/60c6d4e77723bebd8668edca","_rev":"_cfFl35e---","tei":"\n\t\n\t\tGeneMark.hmm: new solutions for gene finding\n\t\t\n\t\t\tAVLukashin\n\t\t\n\t\t\n\t\t\tMBorodovsky\n\t\t\n\t\t\n\t\t\tGenemark\n\t\t\n\t\t10.1093/nar/26.4.1107\n\t\t9461475\n\t\tPMC147337\n\t\tark:/67375/HXZ-68G8RQTG-0\n\t\t0042FF67A01C9649922BE71DE8C44E559AC35DEA\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t26\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":27},
{"_key":"60c6d4e77723bebd8668edcb","_id":"references/60c6d4e77723bebd8668edcb","_rev":"_cfFl35q---","tei":"\n\t\n\t\tEMBOSS: the European Molecular Biology Open Software Suite\n\t\t\n\t\t\tPRice\n\t\t\n\t\t\n\t\t\tILongden\n\t\t\n\t\t\n\t\t\tABleasby\n\t\t\n\t\n\t\n\t\tTrends Genet\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":38},
{"_key":"60c6d4e77723bebd8668edcc","_id":"references/60c6d4e77723bebd8668edcc","_rev":"_cfFl352---","tei":"\n\t\n\t\tAccelerated profile HMM searches\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t7\n\t\t\te1002195\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":23},
{"_key":"60c6d4e77723bebd8668edcd","_id":"references/60c6d4e77723bebd8668edcd","_rev":"_cfFl36C---","tei":"\n\t\n\t\tBLAT-the BLAST-like alignment tool\n\t\t\n\t\t\tWJKent\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":24},
{"_key":"60c6d4e77723bebd8668edce","_id":"references/60c6d4e77723bebd8668edce","_rev":"_cfFl36O---","tei":"\n\t\n\t\tIntroducing SONS, a Tool for Operational Taxonomic Unit-Based Comparisons of Microbial Community Memberships and Structures\n\t\t\n\t\t\tPDSchloss\n\t\t\n\t\t\n\t\t\tJHandelsman\n\t\t\n\t\t10.1128/aem.00474-06\n\t\t17021230\n\t\tPMC1610290\n\t\t\n\t\n\t\n\t\tApplied and Environmental Microbiology\n\t\tApplied and Environmental Microbiology\n\t\t0099-2240\n\t\t\n\t\t\t72\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":17},
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{"_key":"60c6d4e77723bebd8668edd0","_id":"references/60c6d4e77723bebd8668edd0","_rev":"_cfFl36i---","tei":"\n\t\n\t\tKraken: ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDEWood\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t3\n\t\t\tR46\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":36},
{"_key":"60c6d4e77723bebd8668edd1","_id":"references/60c6d4e77723bebd8668edd1","_rev":"_cfFl36u---","tei":"\n\t\n\t\tClinical PathoScope: rapid alignment and filtration for accurate pathogen identification in clinical samples using unassembled sequencing data\n\t\t\n\t\t\tAllysonLByrd\n\t\t\n\t\t\n\t\t\tJosephFPerez-Rogers\n\t\t\n\t\t\n\t\t\tSolaiappanManimaran\n\t\t\n\t\t\n\t\t\tEduardoCastro-Nallar\n\t\t\n\t\t\n\t\t\tIanToma\n\t\t\n\t\t\n\t\t\tTimMccaffrey\n\t\t\n\t\t\n\t\t\tMarcSiegel\n\t\t\n\t\t\n\t\t\tGaryBenson\n\t\t\n\t\t\n\t\t\tKeithACrandall\n\t\t\n\t\t\n\t\t\tWilliamJohnson\n\t\t\n\t\t10.1186/1471-2105-15-262\n\t\t25091138\n\t\tPMC4131054\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t262\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":35},
{"_key":"60c6d4e77723bebd8668edd2","_id":"references/60c6d4e77723bebd8668edd2","_rev":"_cfFl366---","tei":"\n\t\n\t\tMetaGeniE: Characterizing Human Clinical Samples Using Deep Metagenomic Sequencing\n\t\t\n\t\t\tArunRawat\n\t\t\n\t\t\n\t\t\tDavidMEngelthaler\n\t\t\n\t\t\n\t\t\tElizabethMDriebe\n\t\t\n\t\t\n\t\t\tPaulKeim\n\t\t\n\t\t\n\t\t\tJeffreyTFoster\n\t\t\n\t\t10.1371/journal.pone.0110915\n\t\t25365329\n\t\tPMC4218713\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t9\n\t\t\t11\n\t\t\te110915\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c6d4e77723bebd8668edc1"},"refKey":30},
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{"_key":"60c6d71c7723bebd8668efe9","_id":"references/60c6d71c7723bebd8668efe9","_rev":"_cfFl4Bi---","tei":"\n\t\n\t\tSwiss-model: homology modelling protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d71c7723bebd8668efe4"},"refKey":80},
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{"_key":"60c6d71c7723bebd8668efeb","_id":"references/60c6d71c7723bebd8668efeb","_rev":"_cfFl4B6---","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c6d71c7723bebd8668efe4"},"refKey":82},
{"_key":"60c6d71c7723bebd8668efec","_id":"references/60c6d71c7723bebd8668efec","_rev":"_cfFl4CG---","tei":"\n\t\n\t\tAnalysis of therapeutic targets for sars-cov-2 and discovery of potential drugs by computational methods\n\t\t\n\t\t\tCWu\n\t\t\n\t\t\n\t\t\tLYang\n\t\t\n\t\t\n\t\t\tYYang\n\t\t\n\t\n\t\n\t\tActa Pharm Sinica B\n\t\t\n\t\t\t10\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d71c7723bebd8668efe4"},"refKey":57},
{"_key":"60c6d71c7723bebd8668efed","_id":"references/60c6d71c7723bebd8668efed","_rev":"_cfFl4CS---","tei":"\n\t\n\t\tProbable pangolin origin of sars-cov-2 associated with the covid-19 outbreak\n\t\t\n\t\t\tTZhang\n\t\t\n\t\t\n\t\t\tQWu\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\n\t\n\t\tCurr Biol\n\t\t\n\t\t\t30\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d71c7723bebd8668efe4"},"refKey":58},
{"_key":"60c6d71c7723bebd8668efee","_id":"references/60c6d71c7723bebd8668efee","_rev":"_cfFl4Ce---","tei":"\n\t\n\t\tJalview version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDmaMartin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d71c7723bebd8668efe4"},"refKey":59},
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{"_key":"60c6d8fa7723bebd8668f132","_id":"references/60c6d8fa7723bebd8668f132","_rev":"_cfFl4Gy---","tei":"\n\t\n\t\tpknotsRG: RNA pseudoknot folding including near-optimal structures and sliding windows\n\t\t\n\t\t\tJReeder\n\t\t\n\t\t\n\t\t\tPSteffen\n\t\t\n\t\t\n\t\t\tRGiegerich\n\t\t\n\t\t10.1093/nar/gkm258\n\t\t17478505\n\t\tPMC1933184\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6d8fa7723bebd8668f12d"},"refKey":20},
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{"_key":"60c6d9677723bebd8668f169","_id":"references/60c6d9677723bebd8668f169","_rev":"_cfFl4Hq---","tei":"\n\t\n\t\tA consensus epitope prediction approach identifies the breadth of murine TCD8+-cell responses to vaccinia virus\n\t\t\n\t\t\tMagdaliniMoutaftsi\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tValeriePasquetto\n\t\t\n\t\t\n\t\t\tDavidCTscharke\n\t\t\n\t\t\n\t\t\tJohnSidney\n\t\t\n\t\t\n\t\t\tHuynh-HoaBui\n\t\t\n\t\t\n\t\t\tHowardGrey\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t10.1038/nbt1215\n\t\t16767078\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t24\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6d9677723bebd8668f168"},"refKey":37},
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{"_key":"60c6d9c87723bebd8668f1aa","_id":"references/60c6d9c87723bebd8668f1aa","_rev":"_cfFl4IO---","tei":"\n\t\n\t\tProtein identification and analysis tools on the ExPASy server\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\t\n\t\t\tMRWilkins\n\t\t\n\t\t\n\t\t\tRDAppel\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\n\t\n\t\tThe Proteomics Protocols Handbook\n\t\t\t\t\n\t\t\tJMWalker\n\t\t\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6d9c87723bebd8668f1a9"},"refKey":63},
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{"_key":"60c6de837723bebd8668f5c0","_id":"references/60c6de837723bebd8668f5c0","_rev":"_cfFl4TO---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6de837723bebd8668f5be"},"refKey":26},
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{"_key":"60c6e3767723bebd8668fb87","_id":"references/60c6e3767723bebd8668fb87","_rev":"_cfFl4n----","tei":"\n\t\n\t\tStatistical potential for assessment and prediction of protein structures\n\t\t\n\t\t\tMYShen\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e3767723bebd8668fb84"},"refKey":68},
{"_key":"60c6e3767723bebd8668fb88","_id":"references/60c6e3767723bebd8668fb88","_rev":"_cfFl4nK---","tei":"\n\t\n\t\tVERIFY3D: assessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\t\n\t\t\tRLüthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t277\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e3767723bebd8668fb84"},"refKey":15},
{"_key":"60c6e3767723bebd8668fb89","_id":"references/60c6e3767723bebd8668fb89","_rev":"_cfFl4nW---","tei":"\n\t\n\t\tStereochemistry of polypeptide chain configurations\n\t\t\n\t\t\tGNRamachandran\n\t\t\n\t\t\n\t\t\tCRamakrishnan\n\t\t\n\t\t\n\t\t\tVSasisekharan\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e3767723bebd8668fb84"},"refKey":63},
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{"_key":"60c6e3767723bebd8668fb8c","_id":"references/60c6e3767723bebd8668fb8c","_rev":"_cfFl4n6---","tei":"\n\t\n\t\tVerification of protein structures: patterns of nonbonded atomic interactions\n\t\t\n\t\t\tCColovos\n\t\t\n\t\t\n\t\t\tTOYeates\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e3767723bebd8668fb84"},"refKey":7},
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{"_key":"60c6e4557723bebd8668fc93","_id":"references/60c6e4557723bebd8668fc93","_rev":"_cfFl4rq---","tei":"\n\t\n\t\tFOX, `free objects for crystallography': a modular approach toab initiostructure determination from powder diffraction\n\t\t\n\t\t\tVincentFavre-Nicolin\n\t\t\n\t\t\n\t\t\tRadovanČerný\n\t\t\n\t\t10.1107/s0021889802015236\n\t\tark:/67375/WNG-LD9FLB86-3\n\t\t3F36F32C11290190872DAF306F55762E31E0AD36\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c6e4557723bebd8668fc91"},"refKey":14},
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{"_key":"60c6e7427723bebd8668ffd3","_id":"references/60c6e7427723bebd8668ffd3","_rev":"_cfFl4zC---","tei":"\n\t\n\t\tNot so different after all: a comparison of methods for detecting amino acid sites under selection\n\t\t\n\t\t\tKosakovskyPond\n\t\t\n\t\t\n\t\t\tSLFrost\n\t\t\n\t\t\n\t\t\tSD\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e7427723bebd8668ffd2"},"refKey":36},
{"_key":"60c6e7427723bebd8668ffd4","_id":"references/60c6e7427723bebd8668ffd4","_rev":"_cfFl4zK---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e7427723bebd8668ffd2"},"refKey":28},
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{"_key":"60c6e74f7723bebd8669000a","_id":"references/60c6e74f7723bebd8669000a","_rev":"_cfFl40m---","tei":"\n\t\n\t\tMolecular replacement withMOLREP\n\t\t\n\t\t\tAlexeiVagin\n\t\t\n\t\t\n\t\t\tAlexeiTeplyakov\n\t\t\n\t\t10.1107/s0907444909042589\n\t\t20057045\n\t\tark:/67375/WNG-L6BTFJCJ-Q\n\t\t60EE4E8298DFE164D9A3FFD8D1AC7E3F314D1948\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c6e74f7723bebd86690009"},"refKey":58},
{"_key":"60c6e74f7723bebd8669000b","_id":"references/60c6e74f7723bebd8669000b","_rev":"_cfFl40y---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tPavolSkubák\n\t\t\n\t\t\n\t\t\tAndreyALebedev\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tRobertoASteiner\n\t\t\n\t\t\n\t\t\tRobertANicholls\n\t\t\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tFeiLong\n\t\t\n\t\t\n\t\t\tAlexeiAVagin\n\t\t\n\t\t10.1107/s0907444911001314\n\t\t21460454\n\t\tPMC3069751\n\t\tark:/67375/WNG-803CZV1W-1\n\t\tA0888E7BC1F9B7777B324A0979A74D1B188F073A\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c6e74f7723bebd86690009"},"refKey":44},
{"_key":"60c6e74f7723bebd8669000c","_id":"references/60c6e74f7723bebd8669000c","_rev":"_cfFl41----","tei":"\n\t\n\t\tJLigand: a graphical tool for theCCP4 template-restraint library\n\t\t\n\t\t\tAndreyALebedev\n\t\t\n\t\t\n\t\t\tPaulYoung\n\t\t\n\t\t\n\t\t\tMichailNIsupov\n\t\t\n\t\t\n\t\t\tOlgaVMoroz\n\t\t\n\t\t\n\t\t\tAlexeyAVagin\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t10.1107/s090744491200251x\n\t\t22505263\n\t\tPMC3322602\n\t\tark:/67375/WNG-2DZXCQXM-4\n\t\t8FF576E29AA9F72A5B06325419A761F77EDBA3E7\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t68\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c6e74f7723bebd86690009"},"refKey":31},
{"_key":"60c6e74f7723bebd8669000d","_id":"references/60c6e74f7723bebd8669000d","_rev":"_cfFl41K---","tei":"\n\t\n\t\tOverview of theCCP4 suite and current developments\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tCharlesCBallard\n\t\t\n\t\t\n\t\t\tKevinDCowtan\n\t\t\n\t\t\n\t\t\tEleanorJDodson\n\t\t\n\t\t\n\t\t\tPaulEmsley\n\t\t\n\t\t\n\t\t\tPhilREvans\n\t\t\n\t\t\n\t\t\tRonanMKeegan\n\t\t\n\t\t\n\t\t\tEugeneBKrissinel\n\t\t\n\t\t\n\t\t\tAndrewG WLeslie\n\t\t\n\t\t\n\t\t\tAirlieMccoy\n\t\t\n\t\t\n\t\t\tStuartJMcnicholas\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tElizabethAPotterton\n\t\t\n\t\t\n\t\t\tHaroldRPowell\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tAlexeiVagin\n\t\t\n\t\t\n\t\t\tKeithSWilson\n\t\t\n\t\t10.1107/s0907444910045749\n\t\t21460441\n\t\tPMC3069738\n\t\tark:/67375/WNG-2WD8BNN1-X\n\t\tEA86D1B0B076B7089F0E9BB8FED9AAE79E2C4083\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c6e74f7723bebd86690009"},"refKey":60},
{"_key":"60c6e74f7723bebd8669000e","_id":"references/60c6e74f7723bebd8669000e","_rev":"_cfFl41W---","tei":"\n\t\n\t\tEnhanced fold recognition using efficient short fragment clustering\n\t\t\n\t\t\tEKrissinel\n\t\t\n\t\t27882309\n\t\n\t\n\t\tJournal of Molecular Biochemistry\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e74f7723bebd86690009"},"refKey":30},
{"_key":"60c6e7707723bebd86690034","_id":"references/60c6e7707723bebd86690034","_rev":"_cfFl41i---","tei":"\n\t\n\t\tNOAA’s HYSPLIT Atmospheric Transport and Dispersion Modeling System\n\t\t\n\t\t\tAFStein\n\t\t\n\t\t\n\t\t\tRRDraxler\n\t\t\n\t\t\n\t\t\tGDRolph\n\t\t\n\t\t\n\t\t\tBJ BStunder\n\t\t\n\t\t\n\t\t\tMDCohen\n\t\t\n\t\t\n\t\t\tFNgan\n\t\t\n\t\t10.1175/bams-d-14-00110.1\n\t\t\n\t\n\t\n\t\tBulletin of the American Meteorological Society\n\t\tBull. Amer. Meteor. Soc.\n\t\t0003-0007\n\t\t1520-0477\n\t\t\n\t\t\t96\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tAmerican Meteorological Society\n\t\t\n\t\n\n","document":{"$oid":"60c6e7707723bebd86690033"},"refKey":36},
{"_key":"60c6e7757723bebd8669003d","_id":"references/60c6e7757723bebd8669003d","_rev":"_cfFl41u---","tei":"\n\t\n\t\tBsoft: Image processing and molecular modeling for electron microscopy\n\t\t\n\t\t\tJBernardHeymann\n\t\t\n\t\t\n\t\t\tDavidMBelnap\n\t\t\n\t\t10.1016/j.jsb.2006.06.006\n\t\t17011211\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6e7757723bebd8669003c"},"refKey":16},
{"_key":"60c6e8a47723bebd866900af","_id":"references/60c6e8a47723bebd866900af","_rev":"_cfFl416---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6e8a47723bebd866900ae"},"refKey":47},
{"_key":"60c6e8ba7723bebd866900cb","_id":"references/60c6e8ba7723bebd866900cb","_rev":"_cfFl42C---","tei":"\n\t\n\t\tA comparison of Bayesian methods for haplotype reconstruction from population genotype data\n\t\t\n\t\t\tMStephens\n\t\t\n\t\t\n\t\t\tPDonnelly\n\t\t\n\t\n\t\n\t\tAm. J. Hum. Genet\n\t\t\n\t\t\t73\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e8ba7723bebd866900ca"},"refKey":31},
{"_key":"60c6e8d57723bebd866900e9","_id":"references/60c6e8d57723bebd866900e9","_rev":"_cfFl42O---","tei":"\n\t\n\t\tU-Net: Convolutional networks for biomedical image segmentation\n\t\t\n\t\t\tORonneberger\n\t\t\n\t\t\n\t\t\tPFischer\n\t\t\n\t\t\n\t\t\tTBrox\n\t\t\n\t\n\t\n\t\tProc. MICCAI\n\t\t\t\tMICCAICham, Switzerland\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e8d57723bebd866900e8"},"refKey":55},
{"_key":"60c6e8da7723bebd866900ef","_id":"references/60c6e8da7723bebd866900ef","_rev":"_cfFl42a---","tei":"\n\t\n\t\tPatient access to clinical notes in oncology: A mixed method analysis of oncologists’ attitudes and linguistic characteristics towards notes\n\t\t\n\t\t\tJordanMAlpert\n\t\t\n\t\t\n\t\t\tBonnyBMorris\n\t\t\n\t\t\n\t\t\tMariaDThomson\n\t\t\n\t\t\n\t\t\tKhalidMatin\n\t\t\n\t\t\n\t\t\tRoyTSabo\n\t\t\n\t\t\n\t\t\tRichardFBrown\n\t\t\n\t\t10.1016/j.pec.2019.05.008\n\t\n\t\n\t\tPatient Education and Counseling\n\t\tPatient Education and Counseling\n\t\t0738-3991\n\t\t\n\t\t\t102\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6e8da7723bebd866900ee"},"refKey":13},
{"_key":"60c6e8ee7723bebd866900f6","_id":"references/60c6e8ee7723bebd866900f6","_rev":"_cfFl42m---","tei":"\n\t\n\t\tGoing deeper with convolutions\n\t\t\n\t\t\tCSzegedy\n\t\t\n\t\t\n\t\t\tLWei\n\t\t\n\t\t\n\t\t\tJYangqing\n\t\t\n\t\t\n\t\t\tSPierre\n\t\t\n\t\t\n\t\t\tRScott\n\t\t\n\t\t\n\t\t\tADragomir\n\t\t\n\t\t\n\t\t\tEDumitru\n\t\t\n\t\t\n\t\t\tVVincent\n\t\t\n\t\t\n\t\t\tARabinovich\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the IEEE conference on computer vision and pattern recognition\n\t\t\t\tthe IEEE conference on computer vision and pattern recognition\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e8ee7723bebd866900f5"},"refKey":16},
{"_key":"60c6e9297723bebd8669013c","_id":"references/60c6e9297723bebd8669013c","_rev":"_cfFl42y---","tei":"\n\t\n\t\tMacromolecular TLS refinement in REFMAC at moderate resolutions\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tMZPapiz\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t374\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9297723bebd8669013b"},"refKey":25},
{"_key":"60c6e9297723bebd8669013d","_id":"references/60c6e9297723bebd8669013d","_rev":"_cfFl43----","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPart 2\n\n","document":{"$oid":"60c6e9297723bebd8669013b"},"refKey":26},
{"_key":"60c6e92b7723bebd86690146","_id":"references/60c6e92b7723bebd86690146","_rev":"_cfFl43K---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna. Available online at\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e92b7723bebd86690145"},"refKey":10},
{"_key":"60c6e92b7723bebd86690147","_id":"references/60c6e92b7723bebd86690147","_rev":"_cfFl43W---","tei":"\n\t\n\t\tAvailable online at\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tBryanJReadxl\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tRead Excel Files\n\n","document":{"$oid":"60c6e92b7723bebd86690145"},"refKey":20},
{"_key":"60c6e9ab7723bebd8669017e","_id":"references/60c6e9ab7723bebd8669017e","_rev":"_cfFl43e---","tei":"\n\t\n\t\tGoogle Earth Engine: Planetary-scale geospatial analysis for everyone\n\t\t\n\t\t\tNGorelick\n\t\t\n\t\t\n\t\t\tMHancher\n\t\t\n\t\t\n\t\t\tMDixon\n\t\t\n\t\t\n\t\t\tSIlyushchenko\n\t\t\n\t\t\n\t\t\tDThau\n\t\t\n\t\t\n\t\t\tRMoore\n\t\t\n\t\n\t\n\t\tRemote Sensing of Environment\n\t\t\n\t\t\t202\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9ab7723bebd8669017d"},"refKey":35},
{"_key":"60c6e9be7723bebd86690187","_id":"references/60c6e9be7723bebd86690187","_rev":"_cfFl43q---","tei":"\n\t\n\t\tCritical evaluation of search algorithms for automated molecular docking and database screening\n\t\t\n\t\t\tToddJ AEwing\n\t\t\n\t\t\n\t\t\tIrwinDKuntz\n\t\t\n\t\t10.1002/(sici)1096-987x(19970715)18:9<1175::aid-jcc6>3.0.co;2-o\n\t\tark:/67375/WNG-GMVC1B69-W\n\t\t4140C87862C8C4E6D87229B5F0BFD9F8F678C8B4\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t18\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":85},
{"_key":"60c6e9be7723bebd86690188","_id":"references/60c6e9be7723bebd86690188","_rev":"_cfFl432---","tei":"\n\t\n\t\tDOCK 4.0: Search strategies for automated molecular docking of flexible molecule databases\n\t\t\n\t\t\tTAEwing\n\t\t\n\t\t\n\t\t\tSMakino\n\t\t\n\t\t\n\t\t\tAGSkillman\n\t\t\n\t\t\n\t\t\tIKuntz\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":89},
{"_key":"60c6e9be7723bebd86690189","_id":"references/60c6e9be7723bebd86690189","_rev":"_cfFl44C---","tei":"\n\t\n\t\tPolyelectrolyte electrostatics: Salt dependence, entropic, and enthalpic contributions to free energy in the nonlinear Poisson-Boltzmann model\n\t\t\n\t\t\tKimASharp\n\t\t\n\t\t10.1002/bip.360360210\n\t\tark:/67375/WNG-GQZ9TCX4-D\n\t\tDB762F100ED93DF5DBBFDB7C9B311D39132233A9\n\t\n\t\n\t\tBiopolymers\n\t\tBiopolymers\n\t\t0006-3525\n\t\t1097-0282\n\t\t\n\t\t\t36\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":121},
{"_key":"60c6e9be7723bebd8669018a","_id":"references/60c6e9be7723bebd8669018a","_rev":"_cfFl44O---","tei":"\n\t\n\t\tElectrostatic Contributions to Heat Capacity Changes of DNA-Ligand Binding\n\t\t\n\t\t\tKellyGallagher\n\t\t\n\t\t\n\t\t\tKimSharp\n\t\t\n\t\t10.1016/s0006-3495(98)77566-6\n\t\t9675178\n\t\tPMC1299751\n\t\tS0006-3495(98)77566-6\n\t\tark:/67375/6H6-SLQXK40B-2\n\t\t19EA707D95C26E4C24A7FB5A51023598B1B47371\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t75\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":122},
{"_key":"60c6e9be7723bebd8669018b","_id":"references/60c6e9be7723bebd8669018b","_rev":"_cfFl44a---","tei":"\n\t\n\t\tVirtual Computational Chemistry Laboratory, Design and Description\n\t\t\n\t\t\tITetko\n\t\t\n\t\t\n\t\t\tJGasteiger\n\t\t\n\t\t\n\t\t\tRTodeschini\n\t\t\n\t\t\n\t\t\tAMauri\n\t\t\n\t\t\n\t\t\tDLivingstone\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":124},
{"_key":"60c6e9be7723bebd8669018c","_id":"references/60c6e9be7723bebd8669018c","_rev":"_cfFl44m---","tei":"\n\t\n\t\tGlide: a new approach for rapid, accurate docking and scoring. 1. Method and assessment of docking accuracy\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tJLBanks\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\t\n\t\t\tJJKlicic\n\t\t\n\t\n\t\n\t\tJ Med Chem\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":71},
{"_key":"60c6e9be7723bebd8669018d","_id":"references/60c6e9be7723bebd8669018d","_rev":"_cfFl44u---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":74},
{"_key":"60c6e9be7723bebd8669018e","_id":"references/60c6e9be7723bebd8669018e","_rev":"_cfFl446---","tei":"\n\t\n\t\tAutomated docking with grid-based energy evaluation\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tBrianKShoichet\n\t\t\n\t\t\n\t\t\tIrwinDKuntz\n\t\t\n\t\t10.1002/jcc.540130412\n\t\tark:/67375/WNG-0VR4D8ZF-L\n\t\t95E8006DBDEB9CB3877E593780F9264E6400FA92\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t13\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":119},
{"_key":"60c6e9be7723bebd8669018f","_id":"references/60c6e9be7723bebd8669018f","_rev":"_cfFl45G---","tei":"\n\t\n\t\tUCSF Chimera-A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":117},
{"_key":"60c6e9be7723bebd86690190","_id":"references/60c6e9be7723bebd86690190","_rev":"_cfFl45S---","tei":"\n\t\n\t\tFRED Pose Prediction and Virtual Screening Accuracy\n\t\t\n\t\t\tMarkMcgann\n\t\t\n\t\t10.1021/ci100436p\n\t\t21323318\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t51\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":68},
{"_key":"60c6e9be7723bebd86690191","_id":"references/60c6e9be7723bebd86690191","_rev":"_cfFl45e---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":75},
{"_key":"60c6e9be7723bebd86690192","_id":"references/60c6e9be7723bebd86690192","_rev":"_cfFl45q---","tei":"\n\t\n\t\tFlexible ligand docking using conformational ensembles\n\t\t\n\t\t\tDavidMLorber\n\t\t\n\t\t\n\t\t\tBrianKShoichet\n\t\t\n\t\t10.1002/pro.5560070411\n\t\t9568900\n\t\tPMC2143983\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t7\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":78},
{"_key":"60c6e9be7723bebd86690193","_id":"references/60c6e9be7723bebd86690193","_rev":"_cfFl452---","tei":"\n\t\n\t\tHierarchical Docking of Databases of Multiple Ligand Conformations\n\t\t\n\t\t\tDavidLorber\n\t\t\n\t\t\n\t\t\tBrianShoichet\n\t\t\n\t\t10.2174/1568026054637683\n\t\t16101414\n\t\tPMC1364474\n\t\t\n\t\n\t\n\t\tCurrent Topics in Medicinal Chemistry\n\t\tCTMC\n\t\t1568-0266\n\t\t\n\t\t\t5\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tBentham Science Publishers Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":79},
{"_key":"60c6e9be7723bebd86690194","_id":"references/60c6e9be7723bebd86690194","_rev":"_cfFl46----","tei":"\n\t\n\t\tRapid Context-Dependent Ligand Desolvation in Molecular Docking\n\t\t\n\t\t\tMichaelMMysinger\n\t\t\n\t\t\n\t\t\tBrianKShoichet\n\t\t\n\t\t10.1021/ci100214a\n\t\t20735049\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t50\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":91},
{"_key":"60c6e9be7723bebd86690195","_id":"references/60c6e9be7723bebd86690195","_rev":"_cfFl46K---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMCarchia\n\t\t\n\t\t\n\t\t\tMMMysinger\n\t\t\n\t\t\n\t\t\tRGColeman\n\t\t\n\t\t\n\t\t\tJJIrwin\n\t\t\n\t\t\n\t\t\tBKShoichet\n\t\t\n\t\tDOCK 3.6. UCSF\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":83},
{"_key":"60c6e9be7723bebd86690196","_id":"references/60c6e9be7723bebd86690196","_rev":"_cfFl46W---","tei":"\n\t\n\t\tAutomated Docking Screens: A Feasibility Study\n\t\t\n\t\t\tJohnJIrwin\n\t\t\n\t\t\n\t\t\tBrianKShoichet\n\t\t\n\t\t\n\t\t\tMichaelMMysinger\n\t\t\n\t\t\n\t\t\tNiuHuang\n\t\t\n\t\t\n\t\t\tFrancescoColizzi\n\t\t\n\t\t\n\t\t\tPascalWassam\n\t\t\n\t\t\n\t\t\tYiqunCao\n\t\t\n\t\t10.1021/jm9006966\n\t\t19719084\n\t\tPMC2745826\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t52\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":87},
{"_key":"60c6e9be7723bebd86690197","_id":"references/60c6e9be7723bebd86690197","_rev":"_cfFl46i---","tei":"\n\t\n\t\tConformer Generation with OMEGA: Learning from the Data Set and the Analysis of Failures\n\t\t\n\t\t\tPaulC DHawkins\n\t\t\n\t\t\n\t\t\tAnthonyNicholls\n\t\t\n\t\t10.1021/ci300314k\n\t\t23082786\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t52\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":82},
{"_key":"60c6e9be7723bebd86690198","_id":"references/60c6e9be7723bebd86690198","_rev":"_cfFl46u---","tei":"\n\t\n\t\tConformer Generation with OMEGA: Algorithm and Validation Using High Quality Structures from the Protein Databank and Cambridge Structural Database\n\t\t\n\t\t\tPaulC DHawkins\n\t\t\n\t\t\n\t\t\tAGeoffreySkillman\n\t\t\n\t\t\n\t\t\tGregoryLWarren\n\t\t\n\t\t\n\t\t\tBenjaminAEllingson\n\t\t\n\t\t\n\t\t\tMatthewTStahl\n\t\t\n\t\t10.1021/ci100031x\n\t\t20235588\n\t\tPMC2859685\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t50\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":103},
{"_key":"60c6e9be7723bebd86690199","_id":"references/60c6e9be7723bebd86690199","_rev":"_cfFl466---","tei":"\n\t\n\t\tAsparagine and glutamine: using hydrogen atom contacts in the choice of side-chain amide orientation\n\t\t\n\t\t\tJMWord\n\t\t\n\t\t\n\t\t\tSCLovell\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\t\n\t\t\t285\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":118},
{"_key":"60c6e9be7723bebd8669019a","_id":"references/60c6e9be7723bebd8669019a","_rev":"_cfFl47G---","tei":"\n\t\n\t\tProtein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons\n\t\t\n\t\t\tANicholls\n\t\t\n\t\t\n\t\t\tKSharp\n\t\t\n\t\t\n\t\t\tBHonig\n\t\t\n\t\n\t\n\t\tProteins: Struct Funct Genet\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":123},
{"_key":"60c6e9be7723bebd8669019b","_id":"references/60c6e9be7723bebd8669019b","_rev":"_cfFl47S---","tei":"\n\t\n\t\tImproved protein-ligand docking using GOLD\n\t\t\n\t\t\tMarcelLVerdonk\n\t\t\n\t\t\n\t\t\tJasonCCole\n\t\t\n\t\t\n\t\t\tMichaelJHartshorn\n\t\t\n\t\t\n\t\t\tChristopherWMurray\n\t\t\n\t\t\n\t\t\tRichardDTaylor\n\t\t\n\t\t10.1002/prot.10465\n\t\t12910460\n\t\tark:/67375/WNG-D94K499W-7\n\t\t602905DD6AF302ED980866A6C30DAA8C96AD605F\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t52\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":70},
{"_key":"60c6e9be7723bebd8669019c","_id":"references/60c6e9be7723bebd8669019c","_rev":"_cfFl47e---","tei":"\n\t\n\t\tExtra Precision Glide:'A ¨a ˆDocking and Scoring Incorporating a Model of Hydrophobic Enclosure for Protein'a `ı ´Ligand Complexes\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tMPRepasky\n\t\t\n\t\t\n\t\t\tLLFrye\n\t\t\n\t\t\n\t\t\tJRGreenwood\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\t\n\t\t\t49\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6e9be7723bebd86690186"},"refKey":73},
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{"_key":"60c6e9da7723bebd8669020b","_id":"references/60c6e9da7723bebd8669020b","_rev":"_cfFl47y---","tei":"\n\t\n\t\tBayesian Regression Models for Interval-censored Data in R\n\t\t\n\t\t\tCliffordAnderson-Bergman\n\t\t\n\t\t10.32614/rj-2017-050\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\tThe R Journal\n\t\t2073-4859\n\t\t\n\t\t\t9\n\t\t\t2\n\t\t\t487\n\t\t\t\n\t\t\tThe R Foundation\n\t\t\n\t\n\n","document":{"$oid":"60c6e9da7723bebd8669020a"},"refKey":17},
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{"_key":"60c6ea197723bebd86690229","_id":"references/60c6ea197723bebd86690229","_rev":"_cfFl48K---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6ea197723bebd86690228"},"refKey":33},
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{"_key":"60c6ea707723bebd86690253","_id":"references/60c6ea707723bebd86690253","_rev":"_cfFl48u---","tei":"\n\t\n\t\tConducting meta-analyses in R with the metafor package\n\t\t\n\t\t\tWViechtbauer\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6ea707723bebd86690252"},"refKey":96},
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{"_key":"60c6ea7a7723bebd8669025c","_id":"references/60c6ea7a7723bebd8669025c","_rev":"_cfFl49W---","tei":"\n\t\n\t\tMolProbity: More and better reference data for improved all-atom structure validation\n\t\t\n\t\t\tChristopherJWilliams\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\t0000-0001-8857-9464\n\t\t\n\t\t\n\t\t\tMichaelGPrisant\n\t\t\n\t\t\n\t\t\tLizbethLVideau\n\t\t\n\t\t\n\t\t\tLindsayNDeis\n\t\t\n\t\t\n\t\t\tVishalVerma\n\t\t\n\t\t\n\t\t\tDanielAKeedy\n\t\t\n\t\t\n\t\t\tBradleyJHintze\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tSwatiJain\n\t\t\n\t\t\n\t\t\tStevenMLewis\n\t\t\n\t\t\n\t\t\tWBryanArendall\n\t\t\n\t\t\n\t\t\tJackSnoeyink\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tSimonCLovell\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t10.1002/pro.3330\n\t\t29067766\n\t\tPMC5734394\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6ea7a7723bebd86690259"},"refKey":49},
{"_key":"60c6ea7a7723bebd8669025d","_id":"references/60c6ea7a7723bebd8669025d","_rev":"_cfFl49i---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJamesCPhillips\n\t\t\n\t\t\n\t\t\tRosemaryBraun\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tJamesGumbart\n\t\t\n\t\t\n\t\t\tEmadTajkhorshid\n\t\t\n\t\t\n\t\t\tElizabethVilla\n\t\t\n\t\t\n\t\t\tChristopheChipot\n\t\t\n\t\t\n\t\t\tRobertDSkeel\n\t\t\n\t\t\n\t\t\tLaxmikantKalé\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1002/jcc.20289\n\t\t16222654\n\t\tPMC2486339\n\t\tark:/67375/WNG-4VV0NHGH-L\n\t\t9CA05D9586DF2A6CDED3A7F227C6C9CF046796F7\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6ea7a7723bebd86690259"},"refKey":56},
{"_key":"60c6ea7a7723bebd8669025e","_id":"references/60c6ea7a7723bebd8669025e","_rev":"_cfFl49u---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c6ea7a7723bebd86690259"},"refKey":47},
{"_key":"60c6ea7a7723bebd8669025f","_id":"references/60c6ea7a7723bebd8669025f","_rev":"_cfFl5-----","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 1. Method and Assessment of Docking Accuracy\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tJayLBanks\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tJasnaJKlicic\n\t\t\n\t\t\n\t\t\tDanielTMainz\n\t\t\n\t\t\n\t\t\tMatthewPRepasky\n\t\t\n\t\t\n\t\t\tEricHKnoll\n\t\t\n\t\t\n\t\t\tMeeShelley\n\t\t\n\t\t\n\t\t\tJasonKPerry\n\t\t\n\t\t\n\t\t\tDavidEShaw\n\t\t\n\t\t\n\t\t\tPerryFrancis\n\t\t\n\t\t\n\t\t\tPeterSShenkin\n\t\t\n\t\t10.1021/jm0306430\n\t\t15027865\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c6ea7a7723bebd86690259"},"refKey":50},
{"_key":"60c6ea7a7723bebd86690260","_id":"references/60c6ea7a7723bebd86690260","_rev":"_cfFl5-O---","tei":"\n\t\n\t\tSimulations Using the CHARMM36 Additive Force Field\n\t\t\n\t\t\tJLee\n\t\t\n\t\t10.1021/acs.jctc.5b00935\n\t\n\t\n\t\tJ Chem Theory Comput\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6ea7a7723bebd86690259"},"refKey":57},
{"_key":"60c6ea7a7723bebd86690261","_id":"references/60c6ea7a7723bebd86690261","_rev":"_cfFl5-a---","tei":"\n\t\n\t\tOverview of theCCP4 suite and current developments\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tCharlesCBallard\n\t\t\n\t\t\n\t\t\tKevinDCowtan\n\t\t\n\t\t\n\t\t\tEleanorJDodson\n\t\t\n\t\t\n\t\t\tPaulEmsley\n\t\t\n\t\t\n\t\t\tPhilREvans\n\t\t\n\t\t\n\t\t\tRonanMKeegan\n\t\t\n\t\t\n\t\t\tEugeneBKrissinel\n\t\t\n\t\t\n\t\t\tAndrewG WLeslie\n\t\t\n\t\t\n\t\t\tAirlieMccoy\n\t\t\n\t\t\n\t\t\tStuartJMcnicholas\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tElizabethAPotterton\n\t\t\n\t\t\n\t\t\tHaroldRPowell\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tAlexeiVagin\n\t\t\n\t\t\n\t\t\tKeithSWilson\n\t\t\n\t\t10.1107/s0907444910045749\n\t\t21460441\n\t\tPMC3069738\n\t\tark:/67375/WNG-2WD8BNN1-X\n\t\tEA86D1B0B076B7089F0E9BB8FED9AAE79E2C4083\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c6ea7a7723bebd86690259"},"refKey":46},
{"_key":"60c6ea7a7723bebd86690262","_id":"references/60c6ea7a7723bebd86690262","_rev":"_cfFl5-q---","tei":"\n\t\n\t\tComparative Protein Modelling by Satisfaction of Spatial Restraints\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t10.1006/jmbi.1993.1626\n\t\t8254673\n\t\tS0022-2836(83)71626-8\n\t\tark:/67375/6H6-V8LLTQS6-L\n\t\t2C8C000B43453FC88FD8A84DE0D8EF341E168A46\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t234\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6ea7a7723bebd86690259"},"refKey":51},
{"_key":"60c6ea7b7723bebd86690276","_id":"references/60c6ea7b7723bebd86690276","_rev":"_cfFl5-6---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6ea7b7723bebd86690275"},"refKey":22},
{"_key":"60c6ea887723bebd86690285","_id":"references/60c6ea887723bebd86690285","_rev":"_cfFl5_K---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\tPubMed: 20057044\n\n","document":{"$oid":"60c6ea887723bebd86690284"},"refKey":39},
{"_key":"60c6ea887723bebd86690286","_id":"references/60c6ea887723bebd86690286","_rev":"_cfFl5_a---","tei":"\n\t\n\t\tEnhanced fold recognition using efficient short fragment clustering\n\t\t\n\t\t\tEKrissinel\n\t\t\n\t\n\t\n\t\tJ Mol Biochem\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 27882309\n\n","document":{"$oid":"60c6ea887723bebd86690284"},"refKey":41},
{"_key":"60c6ea887723bebd86690287","_id":"references/60c6ea887723bebd86690287","_rev":"_cfFl5_q---","tei":"\n\t\n\t\tData processing and analysis with the autoPROC toolbox\n\t\t\n\t\t\tCVonrhein\n\t\t\n\t\t\n\t\t\tCFlensburg\n\t\t\n\t\t\n\t\t\tPKeller\n\t\t\n\t\t\n\t\t\tASharff\n\t\t\n\t\t\n\t\t\tOSmart\n\t\t\n\t\t\n\t\t\tWPaciorek\n\t\t\n\t\t\n\t\t\tTWomack\n\t\t\n\t\t\n\t\t\tGBricogne\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t67\n\t\t\tPt4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 21460447\n\n","document":{"$oid":"60c6ea887723bebd86690284"},"refKey":34},
{"_key":"60c6ea887723bebd86690288","_id":"references/60c6ea887723bebd86690288","_rev":"_cfFl5_2---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\tPubMed: 20124702\n\n","document":{"$oid":"60c6ea887723bebd86690284"},"refKey":37},
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{"_key":"60c6ec107723bebd86690404","_id":"references/60c6ec107723bebd86690404","_rev":"_cfFl5Ea---","tei":"\n\t\n\t\tA robust multi-scale approach to quantitative susceptibility mapping\n\t\t\n\t\t\tJulioAcosta-Cabronero\n\t\t\n\t\t\n\t\t\tCarlosMilovic\n\t\t\n\t\t\n\t\t\tHendrikMattern\n\t\t\n\t\t\n\t\t\tCristianTejos\n\t\t\n\t\t\n\t\t\tOliverSpeck\n\t\t\n\t\t\n\t\t\tMartinaFCallaghan\n\t\t\n\t\t10.1016/j.neuroimage.2018.07.065\n\t\t30075277\n\t\tPMC6215336\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t183\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6ec107723bebd86690403"},"refKey":2},
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{"_key":"60c6ec347723bebd86690429","_id":"references/60c6ec347723bebd86690429","_rev":"_cfFl5Ey---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tProc. Int. Conf. Intell. Syst. Mol. Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6ec347723bebd86690428"},"refKey":54},
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{"_key":"60c6ec347723bebd8669042b","_id":"references/60c6ec347723bebd8669042b","_rev":"_cfFl5FG---","tei":"\n\t\n\t\tThe Pfam protein families database\n\t\t\n\t\t\tABateman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6ec347723bebd86690428"},"refKey":1},
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{"_key":"60c6ecf67723bebd866904f3","_id":"references/60c6ecf67723bebd866904f3","_rev":"_cfFl5Jm---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6ecf67723bebd866904f0"},"refKey":56},
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{"_key":"60c6ee857723bebd866905b8","_id":"references/60c6ee857723bebd866905b8","_rev":"_cfFl5M2---","tei":"\n\t\n\t\tMeta-analysis of diagnostic accuracy with mada\n\t\t\n\t\t\tPDoebler\n\t\t\n\t\t\n\t\t\tHHolling\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6ee857723bebd866905b7"},"refKey":5},
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{"_key":"60c6eeb87723bebd866905dd","_id":"references/60c6eeb87723bebd866905dd","_rev":"_cfFl5NO---","tei":"\n\t\n\t\tAutoGeneS: automatic gene selection using multi-objective optimization for RNA-seq deconvolution\n\t\t\n\t\t\tHAliee\n\t\t\n\t\t\n\t\t\tFTheis\n\t\t\n\t\t10.1101/2020.02.21.940650\n\t\t\n\t\t\t\n\t\t\n\t\n\tbioRxiv Preprint at\n\n","document":{"$oid":"60c6eeb87723bebd866905db"},"refKey":31},
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{"_key":"60c6eed27723bebd866905f6","_id":"references/60c6eed27723bebd866905f6","_rev":"_cfFl5Ny---","tei":"\n\t\n\t\tExtending the Generality of Molecular Dynamics Simulations on a Special-Purpose Machine\n\t\t\n\t\t\tDanielePScarpazza\n\t\t\n\t\t\n\t\t\tDouglasJIerardi\n\t\t\n\t\t\n\t\t\tAdamKLerer\n\t\t\n\t\t\n\t\t\tKennethMMackenzie\n\t\t\n\t\t\n\t\t\tAlbertCPan\n\t\t\n\t\t\n\t\t\tJosephABank\n\t\t\n\t\t\n\t\t\tEdmondChow\n\t\t\n\t\t\n\t\t\tRonODror\n\t\t\n\t\t\n\t\t\tJPGrossman\n\t\t\n\t\t\n\t\t\tDanielKillebrew\n\t\t\n\t\t\n\t\t\tMarkAMoraes\n\t\t\n\t\t\n\t\t\tCristianPredescu\n\t\t\n\t\t\n\t\t\tJohnKSalmon\n\t\t\n\t\t\n\t\t\tDavidEShaw\n\t\t\n\t\t10.1109/ipdps.2013.93\n\t\t\n\t\n\t\n\t\t2013 IEEE 27th International Symposium on Parallel and Distributed Processing\n\t\t\t\tBoston, Mass., USA; Boston, Mass\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6eed27723bebd866905f4"},"refKey":44},
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{"_key":"60c6eed37723bebd86690602","_id":"references/60c6eed37723bebd86690602","_rev":"_cfFl5Oq---","tei":"\n\t\n\t\tRVTESTS: an efficient and comprehensive tool for rare variant association analysis using sequence data: Table 1.\n\t\t\n\t\t\tXiaoweiZhan\n\t\t\n\t\t\n\t\t\tYounaHu\n\t\t\n\t\t\n\t\t\tBingshanLi\n\t\t\n\t\t\n\t\t\tGoncaloRAbecasis\n\t\t\n\t\t\n\t\t\tDajiangJLiu\n\t\t\n\t\t10.1093/bioinformatics/btw079\n\t\t27153000\n\t\tPMC4848408\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6eed37723bebd866905ff"},"refKey":85},
{"_key":"60c6eed37723bebd86690603","_id":"references/60c6eed37723bebd86690603","_rev":"_cfFl5O2---","tei":"\n\t\n\t\tInfernal 1.1: 100-fold faster RNA homology searches\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6eed37723bebd866905ff"},"refKey":51},
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{"_key":"60c6eed37723bebd86690608","_id":"references/60c6eed37723bebd86690608","_rev":"_cfFl5Py---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6eed37723bebd866905ff"},"refKey":39},
{"_key":"60c6eed37723bebd86690609","_id":"references/60c6eed37723bebd86690609","_rev":"_cfFl5Q----","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6eed37723bebd866905ff"},"refKey":24},
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{"_key":"60c6ef2c7723bebd86690648","_id":"references/60c6ef2c7723bebd86690648","_rev":"_cfFl5Ra---","tei":"\n\t\n\t\tVerification of protein structures: Patterns of nonbonded atomic interactions\n\t\t\n\t\t\tChrisColovos\n\t\t\n\t\t\n\t\t\tToddOYeates\n\t\t\n\t\t10.1002/pro.5560020916\n\t\t8401235\n\t\tPMC2142462\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t2\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6ef2c7723bebd86690642"},"refKey":43},
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{"_key":"60c6ef597723bebd8669069a","_id":"references/60c6ef597723bebd8669069a","_rev":"_cfFl5TO---","tei":"\n\t\n\t\tNonsurgical treatment and early return to activity leads to improved Achilles tendon fatigue mechanics and functional outcomes during early healing in an animal model\n\t\t\n\t\t\tBenjaminRFreedman\n\t\t\n\t\t\n\t\t\tJoshuaAGordon\n\t\t\n\t\t\n\t\t\tPanktiRBhatt\n\t\t\n\t\t\n\t\t\tAdamMPardes\n\t\t\n\t\t\n\t\t\tStephenJThomas\n\t\t\n\t\t\n\t\t\tJosephJSarver\n\t\t\n\t\t\n\t\t\tCorinneNRiggin\n\t\t\n\t\t\n\t\t\tJennicaJTucker\n\t\t\n\t\t\n\t\t\tAlexisWWilliams\n\t\t\n\t\t\n\t\t\tRobertCZanes\n\t\t\n\t\t\n\t\t\tMichaelWHast\n\t\t\n\t\t\n\t\t\tDanielCFarber\n\t\t\n\t\t\n\t\t\tKarinGSilbernagel\n\t\t\n\t\t\n\t\t\tLouisJSoslowsky\n\t\t\n\t\t10.1002/jor.23253\n\t\t27038306\n\t\tPMC5047851\n\t\t\n\t\n\t\n\t\tJournal of Orthopaedic Research\n\t\tJ. Orthop. Res.\n\t\t0736-0266\n\t\t1554-527X\n\t\t\n\t\t\t34\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6ef597723bebd86690699"},"refKey":11},
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{"_key":"60c6efe67723bebd866906e4","_id":"references/60c6efe67723bebd866906e4","_rev":"_cfFl5VC---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6efe67723bebd866906e1"},"refKey":60},
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{"_key":"60c6f03f7723bebd86690734","_id":"references/60c6f03f7723bebd86690734","_rev":"_cfFl5Vy---","tei":"\n\t\n\t\tAn environment for the teaching of reading based on research in equivalence and control by minimum units. ( Um Ambiente para o Ensino de Leitura baseado na Pesquisa em Equivalência e Controle por Unidades Mínimas)\n\t\t\n\t\t\tEPimentel\n\t\t\n\t\t\n\t\t\tDBaldani\n\t\t\n\t\t\n\t\t\tGPiccolo\n\t\t\n\t\t\n\t\t\tMHubner\n\t\t\n\t\n\t\n\t\tXX Simpósio Brasileiro de Informática na Educação\n\t\t\t\tFlorianópolis-SC, Brasil\n\t\t\n\t\t\t\n\t\t\n\t\n\tOriginal document in Portuguese\n\n","document":{"$oid":"60c6f03f7723bebd86690733"},"refKey":21},
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{"_key":"60c6f05d7723bebd86690741","_id":"references/60c6f05d7723bebd86690741","_rev":"_cfFl5WG---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJulieDThompson\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t\n\t\t\tTobyJGibson\n\t\t\n\t\t10.1093/nar/22.22.4673\n\t\t7984417\n\t\tPMC308517\n\t\tark:/67375/HXZ-F03BKBVP-7\n\t\t779EA0D5394D5256976CC2873144010B7F618F65\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t22\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6f05d7723bebd86690740"},"refKey":28},
{"_key":"60c6f05d7723bebd86690742","_id":"references/60c6f05d7723bebd86690742","_rev":"_cfFl5WS---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.2011.75\n\t\t21988835\n\t\tPMC3261699\n\t\t\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMolecular Systems Biology\n\t\t1744-4292\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6f05d7723bebd86690740"},"refKey":20},
{"_key":"60c6f05d7723bebd86690743","_id":"references/60c6f05d7723bebd86690743","_rev":"_cfFl5We---","tei":"\n\t\n\t\tA benchmark study of k-mer counting methods for high-throughput sequencing\n\t\t\n\t\t\tSwatiCManekar\n\t\t\t0000-0003-4682-7065\n\t\t\n\t\t\n\t\t\tShaileshRSathe\n\t\t\n\t\t10.1093/gigascience/giy125\n\t\t30346548\n\t\tPMC6280066\n\t\t\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\t2047-217X\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6f05d7723bebd86690740"},"refKey":11},
{"_key":"60c6f05d7723bebd86690744","_id":"references/60c6f05d7723bebd86690744","_rev":"_cfFl5Wq---","tei":"\n\t\n\t\tAn open-source k-mer based machine learning tool for fast and accurate subtyping of HIV-1 genomes\n\t\t\n\t\t\tStephenSolis-Reyes\n\t\t\t0000-0003-1694-4148\n\t\t\n\t\t\n\t\t\tMarianoAvino\n\t\t\n\t\t\n\t\t\tArtPoon\n\t\t\n\t\t\n\t\t\tLilaKari\n\t\t\n\t\t10.1371/journal.pone.0206409\n\t\t30427878\n\t\tPMC6235296\n\t\t\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\te0206409\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c6f05d7723bebd86690740"},"refKey":25},
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{"_key":"60c6f05d7723bebd86690746","_id":"references/60c6f05d7723bebd86690746","_rev":"_cfFl5XC---","tei":"\n\t\n\t\tAutomated subtyping of HIV-1 genetic sequences for clinical and surveillance purposes: Performance evaluation of the new REGA version 3 and seven other tools\n\t\t\n\t\t\tAndrea-ClemenciaPineda-Peña\n\t\t\n\t\t\n\t\t\tNunoRodriguesFaria\n\t\t\n\t\t\n\t\t\tStijnImbrechts\n\t\t\n\t\t\n\t\t\tPieterLibin\n\t\t\n\t\t\n\t\t\tAnaBarrosoAbecasis\n\t\t\n\t\t\n\t\t\tKoenDeforche\n\t\t\n\t\t\n\t\t\tArleyGómez-López\n\t\t\n\t\t\n\t\t\tRicardoJCamacho\n\t\t\n\t\t\n\t\t\tTulioDe Oliveira\n\t\t\n\t\t\n\t\t\tAnne-MiekeVandamme\n\t\t\n\t\t10.1016/j.meegid.2013.04.032\n\t\t23660484\n\t\t\n\t\n\t\n\t\tInfection, Genetics and Evolution\n\t\tInfection, Genetics and Evolution\n\t\t1567-1348\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6f05d7723bebd86690740"},"refKey":15},
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{"_key":"60c6f0b07723bebd866907de","_id":"references/60c6f0b07723bebd866907de","_rev":"_cfFl5Zy---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f0b07723bebd866907d5"},"refKey":17},
{"_key":"60c6f0d27723bebd86690846","_id":"references/60c6f0d27723bebd86690846","_rev":"_cfFl5a----","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f0d27723bebd86690845"},"refKey":14},
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{"_key":"60c6f1027723bebd86690874","_id":"references/60c6f1027723bebd86690874","_rev":"_cfFl5a2---","tei":"\n\t\n\t\tMetaboAnalyst 3.0—making metabolomics more meaningful\n\t\t\n\t\t\tJianguoXia\n\t\t\n\t\t\n\t\t\tIgorVSinelnikov\n\t\t\n\t\t\n\t\t\tBeomsooHan\n\t\t\n\t\t\n\t\t\tDavidSWishart\n\t\t\n\t\t10.1093/nar/gkv380\n\t\t25897128\n\t\tPMC4489235\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6f1027723bebd86690873"},"refKey":33},
{"_key":"60c6f13b7723bebd866908a7","_id":"references/60c6f13b7723bebd866908a7","_rev":"_cfFl5bC---","tei":"\n\t\n\t\tPsychoPy2: Experiments in behavior made easy\n\t\t\n\t\t\tJPeirce\n\t\t\n\t\t\n\t\t\tJRGray\n\t\t\n\t\t\n\t\t\tSSimpson\n\t\t\n\t\t\n\t\t\tMMacaskill\n\t\t\n\t\t\n\t\t\tRHöchenberger\n\t\t\n\t\t\n\t\t\tHSogo\n\t\t\n\t\t\n\t\t\tEKastman\n\t\t\n\t\t\n\t\t\tJKLindeløv\n\t\t\n\t\t10.3758/s13428-018-01193-y\n\t\n\t\n\t\tBehav. Res. Methods\n\t\t\n\t\t\t51\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f13b7723bebd866908a6"},"refKey":87},
{"_key":"60c6f13b7723bebd866908a8","_id":"references/60c6f13b7723bebd866908a8","_rev":"_cfFl5bS---","tei":"\n\t\n\t\tThe PREP pipeline: standardized preprocessing for large-scale EEG analysis\n\t\t\n\t\t\tNimaBigdely-Shamlo\n\t\t\n\t\t\n\t\t\tTimMullen\n\t\t\n\t\t\n\t\t\tChristianKothe\n\t\t\n\t\t\n\t\t\tKyung-MinSu\n\t\t\n\t\t\n\t\t\tKayARobbins\n\t\t\n\t\t10.3389/fninf.2015.00016\n\t\t26150785\n\t\tPMC4471356\n\t\t\n\t\n\t\n\t\tFrontiers in Neuroinformatics\n\t\tFront. Neuroinform.\n\t\t1662-5196\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c6f13b7723bebd866908a6"},"refKey":12},
{"_key":"60c6f1447723bebd866908b7","_id":"references/60c6f1447723bebd866908b7","_rev":"_cfFl5be---","tei":"\n\t\n\t\tMinimotif miner 2nd release: a database and web system for motif search\n\t\t\n\t\t\tSRajasekaran\n\t\t\n\t\t\n\t\t\tSBalla\n\t\t\n\t\t\n\t\t\tPGradie\n\t\t\n\t\t\n\t\t\tMRGryk\n\t\t\n\t\t\n\t\t\tKKadaveru\n\t\t\n\t\t\n\t\t\tVKundeti\n\t\t\n\t\t\n\t\t\tMWMaciejewski\n\t\t\n\t\t\n\t\t\tTMi\n\t\t\n\t\t\n\t\t\tNRubino\n\t\t\n\t\t\n\t\t\tJVyas\n\t\t\n\t\t\n\t\t\tMRSchiller\n\t\t\n\t\t10.1093/nar/gkn865\n\t\t18978024\n\t\tPMC2686579\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6f1447723bebd866908b6"},"refKey":10},
{"_key":"60c6f1507723bebd866908c2","_id":"references/60c6f1507723bebd866908c2","_rev":"_cfFl5bq---","tei":"\n\t\n\t\tEnrichment Map: A Network-Based Method for Gene-Set Enrichment Visualization and Interpretation\n\t\t\n\t\t\tDanieleMerico\n\t\t\n\t\t\n\t\t\tRuthIsserlin\n\t\t\n\t\t\n\t\t\tOliverStueker\n\t\t\n\t\t\n\t\t\tAndrewEmili\n\t\t\n\t\t\n\t\t\tGaryDBader\n\t\t\n\t\t10.1371/journal.pone.0013984\n\t\t21085593\n\t\tPMC2981572\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t5\n\t\t\t11\n\t\t\te13984\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c6f1507723bebd866908c1"},"refKey":31},
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{"_key":"60c6f15d7723bebd866908e6","_id":"references/60c6f15d7723bebd866908e6","_rev":"_cfFl5cC---","tei":"\n\t\n\t\tSCOP2 prototype: a new approach to protein structure mining\n\t\t\n\t\t\tAntoninaAndreeva\n\t\t\n\t\t\n\t\t\tDaveHoworth\n\t\t\n\t\t\n\t\t\tCyrusChothia\n\t\t\n\t\t\n\t\t\tEugeneKulesha\n\t\t\n\t\t\n\t\t\tAlexeyGMurzin\n\t\t\n\t\t10.1093/nar/gkt1242\n\t\t24293656\n\t\tPMC3964979\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl. Acids Res.\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6f15d7723bebd866908e4"},"refKey":1},
{"_key":"60c6f15d7723bebd866908e7","_id":"references/60c6f15d7723bebd866908e7","_rev":"_cfFl5cS---","tei":"\n\t\n\t\tThe history of the CATH structural classification of protein domains\n\t\t\n\t\t\tIanSillitoe\n\t\t\n\t\t\n\t\t\tNatalieDawson\n\t\t\n\t\t\n\t\t\tJanetThornton\n\t\t\t0000-0003-0824-4096\n\t\t\n\t\t\n\t\t\tChristineOrengo\n\t\t\n\t\t10.1016/j.biochi.2015.08.004\n\t\t26253692\n\t\tPMC4678953\n\t\n\t\n\t\tBiochimie\n\t\tBiochimie\n\t\t0300-9084\n\t\t\n\t\t\t119\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6f15d7723bebd866908e4"},"refKey":39},
{"_key":"60c6f15d7723bebd866908e8","_id":"references/60c6f15d7723bebd866908e8","_rev":"_cfFl5ce---","tei":"\n\t\n\t\tECOD: An Evolutionary Classification of Protein Domains\n\t\t\n\t\t\tHuaCheng\n\t\t\n\t\t\n\t\t\tRDustinSchaeffer\n\t\t\n\t\t\n\t\t\tYuxingLiao\n\t\t\n\t\t\n\t\t\tLisaNKinch\n\t\t\n\t\t\n\t\t\tJiminPei\n\t\t\n\t\t\n\t\t\tShuoyongShi\n\t\t\n\t\t\n\t\t\tBong-HyunKim\n\t\t\n\t\t\n\t\t\tNickVGrishin\n\t\t\n\t\t10.1371/journal.pcbi.1003926\n\t\t25474468\n\t\tPMC4256011\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t10\n\t\t\t12\n\t\t\te1003926\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c6f15d7723bebd866908e4"},"refKey":8},
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{"_key":"60c6f2197723bebd8669097b","_id":"references/60c6f2197723bebd8669097b","_rev":"_cfFl5dC---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallgr D\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f2197723bebd8669097a"},"refKey":45},
{"_key":"60c6f2197723bebd8669097c","_id":"references/60c6f2197723bebd8669097c","_rev":"_cfFl5dO---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f2197723bebd8669097a"},"refKey":48},
{"_key":"60c6f2607723bebd866909ab","_id":"references/60c6f2607723bebd866909ab","_rev":"_cfFl5da---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tJTBerryman\n\t\t\n\t\t\n\t\t\tRMBetz\n\t\t\n\t\t\n\t\t\tDSCerutti\n\t\t\n\t\t\n\t\t\tTADarden\n\t\t\n\t\t\n\t\t\tREDuke\n\t\t\n\t\t\n\t\t\tTJGiese\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tAWGoetz\n\t\t\n\t\t\n\t\t\tNHomeyer\n\t\t\n\t\n\t\n\t\tVersion\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\n","document":{"$oid":"60c6f2607723bebd866909aa"},"refKey":57},
{"_key":"60c6f2667723bebd866909bc","_id":"references/60c6f2667723bebd866909bc","_rev":"_cfFl5dm---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f2667723bebd866909bb"},"refKey":20},
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{"_key":"60c6f30e7723bebd86690a20","_id":"references/60c6f30e7723bebd86690a20","_rev":"_cfFl5eq---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f30e7723bebd86690a1f"},"refKey":5},
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{"_key":"60c6f3427723bebd86690a61","_id":"references/60c6f3427723bebd86690a61","_rev":"_cfFl5fa---","tei":"\n\t\n\t\tCollaboration gets the most out of software\n\t\t\n\t\t\tAMorin\n\t\t\n\t\n\t\n\t\tElife\n\t\t\n\t\t\t2\n\t\t\te01456\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3427723bebd86690a60"},"refKey":36},
{"_key":"60c6f3427723bebd86690a62","_id":"references/60c6f3427723bebd86690a62","_rev":"_cfFl5fm---","tei":"\n\t\n\t\tcisTEM: User-friendly software for single-particle image processing\n\t\t\n\t\t\tTimGrant\n\t\t\n\t\t\n\t\t\tAlexisRohou\n\t\t\t0000-0002-3343-9621\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\t0000-0002-1506-909X\n\t\t\n\t\t10.1101/257618\n\t\t\n\t\n\t\n\t\tElife\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6f3427723bebd86690a60"},"refKey":37},
{"_key":"60c6f3427723bebd86690a63","_id":"references/60c6f3427723bebd86690a63","_rev":"_cfFl5fy---","tei":"\n\t\n\t\tReal-time cryo-EM data pre-processing with Warp\n\t\t\n\t\t\tDimitryTegunov\n\t\t\t0000-0001-7019-3221\n\t\t\n\t\t\n\t\t\tPatrickCramer\n\t\t\n\t\t10.1101/338558\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6f3427723bebd86690a60"},"refKey":31},
{"_key":"60c6f3427723bebd86690a64","_id":"references/60c6f3427723bebd86690a64","_rev":"_cfFl5g----","tei":"\n\t\n\t\tAutomatic local resolution-based sharpening of cryo-EM maps\n\t\t\n\t\t\tErneyRamírez-Aportela\n\t\t\n\t\t\n\t\t\tJoseLuisVilas\n\t\t\n\t\t\n\t\t\tRobertoMelero\n\t\t\n\t\t\n\t\t\tPabloConesa\n\t\t\n\t\t\n\t\t\tMartaMartínez\n\t\t\n\t\t\n\t\t\tDavidMaluenda\n\t\t\n\t\t\n\t\t\tJavierMota\n\t\t\n\t\t\n\t\t\tAmayaJiménez\n\t\t\n\t\t\n\t\t\tJavierVargas\n\t\t\n\t\t\n\t\t\tRobertoMarabini\n\t\t\n\t\t\n\t\t\tJoseMariaCarazo\n\t\t\n\t\t\n\t\t\tCarlosOscar SSorzano\n\t\t\n\t\t10.1101/433284\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6f3427723bebd86690a60"},"refKey":32},
{"_key":"60c6f3557723bebd86690a85","_id":"references/60c6f3557723bebd86690a85","_rev":"_cfFl5gK---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c6f3557723bebd86690a84"},"refKey":33},
{"_key":"60c6f3557723bebd86690a86","_id":"references/60c6f3557723bebd86690a86","_rev":"_cfFl5gW---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c6f3557723bebd86690a84"},"refKey":35},
{"_key":"60c6f37a7723bebd86690a96","_id":"references/60c6f37a7723bebd86690a96","_rev":"_cfFl5ge---","tei":"\n\t\n\t\tPython Language Reference, version 2.7\n\t\t\n\t\t\n\t\n\tPython Software Foundation\n\n","document":{"$oid":"60c6f37a7723bebd86690a95"},"refKey":29},
{"_key":"60c6f37a7723bebd86690a97","_id":"references/60c6f37a7723bebd86690a97","_rev":"_cfFl5gq---","tei":"\n\t\n\t\tInterpolants in Nonlinear Theories Over the Reals\n\t\t\n\t\t\tSicunGao\n\t\t\n\t\t\n\t\t\tDamienZufferey\n\t\t\n\t\t10.1007/978-3-662-49674-9_41\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f37a7723bebd86690a95"},"refKey":24},
{"_key":"60c6f37a7723bebd86690a98","_id":"references/60c6f37a7723bebd86690a98","_rev":"_cfFl5g2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tWolframResearch\n\t\t\n\t\t\n\t\t\tInc\n\t\t\n\t\t\n\t\t\tMathematica\n\t\t\n\t\t12.0\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f37a7723bebd86690a95"},"refKey":25},
{"_key":"60c6f37a7723bebd86690a99","_id":"references/60c6f37a7723bebd86690a99","_rev":"_cfFl5hC---","tei":"\n\t\n\t\tGurobi Optimizer Reference Manual\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tGurobi Optimization, LLC\n\n","document":{"$oid":"60c6f37a7723bebd86690a95"},"refKey":9},
{"_key":"60c6f37a7723bebd86690a9a","_id":"references/60c6f37a7723bebd86690a9a","_rev":"_cfFl5hO---","tei":"\n\t\n\t\tUsing SeDuMi 1.02, a MATLAB Toolbox for Optimization over Symmetric Cones\n\t\t\n\t\t\tJFSturm\n\t\t\n\t\n\t\n\t\tOptimization methods and software\n\t\t\t\t\n\t\t\t\n\t\t\t11\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f37a7723bebd86690a95"},"refKey":30},
{"_key":"60c6f3867723bebd86690aaa","_id":"references/60c6f3867723bebd86690aaa","_rev":"_cfFl5he---","tei":"\n\t\n\t\tKraken: Ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDEWood\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\tR46\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3867723bebd86690aa9"},"refKey":17},
{"_key":"60c6f3867723bebd86690aab","_id":"references/60c6f3867723bebd86690aab","_rev":"_cfFl5hq---","tei":"\n\t\n\t\tInferring correlation networks from genomic survey data\n\t\t\n\t\t\tJFriedman\n\t\t\n\t\t\n\t\t\tEJAlm\n\t\t\n\t\n\t\n\t\tPLOS Comput. Biol\n\t\t\n\t\t\t8\n\t\t\te1002687\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3867723bebd86690aa9"},"refKey":19},
{"_key":"60c6f3867723bebd86690aac","_id":"references/60c6f3867723bebd86690aac","_rev":"_cfFl5h2---","tei":"\n\t\n\t\tNonpareil: a redundancy-based approach to assess the level of coverage in metagenomic datasets\n\t\t\n\t\t\tLuisMRodriguez-R\n\t\t\n\t\t\n\t\t\tKonstantinosTKonstantinidis\n\t\t\n\t\t10.1093/bioinformatics/btt584\n\t\t24123672\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6f3867723bebd86690aa9"},"refKey":13},
{"_key":"60c6f3867723bebd86690aad","_id":"references/60c6f3867723bebd86690aad","_rev":"_cfFl5iC---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3867723bebd86690aa9"},"refKey":16},
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{"_key":"60c6f38f7723bebd86690ac4","_id":"references/60c6f38f7723bebd86690ac4","_rev":"_cfFl5ia---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp. Ser\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f38f7723bebd86690ac3"},"refKey":4},
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{"_key":"60c6f3cd7723bebd86690b2d","_id":"references/60c6f3cd7723bebd86690b2d","_rev":"_cfFl5ji---","tei":"\n\t\n\t\t3DLigandSite: predicting ligandbinding sites using similar structures\n\t\t\n\t\t\tMNWass\n\t\t\n\t\t\n\t\t\tLAKalley\n\t\t\n\t\t\n\t\t\tMJ ESternberg\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3cd7723bebd86690b2b"},"refKey":59},
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{"_key":"60c6f3cd7723bebd86690b32","_id":"references/60c6f3cd7723bebd86690b32","_rev":"_cfFl5ka---","tei":"\n\t\n\t\tExPASy: the proteomics server for in-depth protein knowledge and analysis\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tIIvanyi\n\t\t\n\t\t\n\t\t\tRDAppel\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3cd7723bebd86690b2b"},"refKey":53},
{"_key":"60c6f3cd7723bebd86690b33","_id":"references/60c6f3cd7723bebd86690b33","_rev":"_cfFl5km---","tei":"\n\t\n\t\tAQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tJA CRullmann\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tRKaptein\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Biomol. NMR\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3cd7723bebd86690b2b"},"refKey":54},
{"_key":"60c6f3cd7723bebd86690b34","_id":"references/60c6f3cd7723bebd86690b34","_rev":"_cfFl5ky---","tei":"\n\t\n\t\tNCIPLOT: a program for plotting non covalent interaction regions\n\t\t\n\t\t\tJContreras-García\n\t\t\n\t\t\n\t\t\tERJohnson\n\t\t\n\t\t\n\t\t\tSKeinan\n\t\t\n\t\t\n\t\t\tRChaudret\n\t\t\n\t\t\n\t\t\tJ.-PPiquemal\n\t\t\n\t\t\n\t\t\tDNBeratan\n\t\t\n\t\t\n\t\t\tWYang\n\t\t\n\t\n\t\n\t\tJ. Chem. Theor. Comput\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3cd7723bebd86690b2b"},"refKey":45},
{"_key":"60c6f3cd7723bebd86690b35","_id":"references/60c6f3cd7723bebd86690b35","_rev":"_cfFl5l----","tei":"\n\t\n\t\tStructure validation challenges in chemical crystallography\n\t\t\n\t\t\tALSpek\n\t\t\n\t\t10.1107/s0108767311097479\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t67\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c6f3cd7723bebd86690b2b"},"refKey":38},
{"_key":"60c6f3cd7723bebd86690b36","_id":"references/60c6f3cd7723bebd86690b36","_rev":"_cfFl5lK---","tei":"\n\t\n\t\tThe ORCA program system Wiley Interdiscip\n\t\t\n\t\t\tFNeese\n\t\t\n\t\n\t\n\t\tRev.: Comput. Mol. Sci\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3cd7723bebd86690b2b"},"refKey":41},
{"_key":"60c6f3cd7723bebd86690b37","_id":"references/60c6f3cd7723bebd86690b37","_rev":"_cfFl5lW---","tei":"\n\t\n\t\tErrors in protein structures\n\t\t\n\t\t\tRobW WHooft\n\t\t\n\t\t\n\t\t\tGertVriend\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t\n\t\t\tEnriqueEAbola\n\t\t\n\t\t10.1038/381272a0\n\t\t8692262\n\t\tark:/67375/GT4-MH4C5DJN-F\n\t\t9C31354504B657A735E6F9CEEC92917D9141802D\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t381\n\t\t\t6580\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6f3cd7723bebd86690b2b"},"refKey":56},
{"_key":"60c6f3cd7723bebd86690b38","_id":"references/60c6f3cd7723bebd86690b38","_rev":"_cfFl5li---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tVLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3cd7723bebd86690b2b"},"refKey":48},
{"_key":"60c6f3cd7723bebd86690b39","_id":"references/60c6f3cd7723bebd86690b39","_rev":"_cfFl5lu---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f3cd7723bebd86690b2b"},"refKey":49},
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{"_key":"60c6f6c27723bebd86690e20","_id":"references/60c6f6c27723bebd86690e20","_rev":"_cfFl5wG---","tei":"\n\t\n\t\tPhaser crystallographic software\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f6c27723bebd86690e1e"},"refKey":23},
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{"_key":"60c6f6d27723bebd86690e34","_id":"references/60c6f6d27723bebd86690e34","_rev":"_cfFl5wy---","tei":"\n\t\n\t\tA linear complexity phasing method for thousands of genomes\n\t\t\n\t\t\tOlivierDelaneau\n\t\t\n\t\t\n\t\t\tJonathanMarchini\n\t\t\n\t\t\n\t\t\tJean-FrançoisZagury\n\t\t\n\t\t10.1038/nmeth.1785\n\t\t22138821\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c6f6d27723bebd86690e32"},"refKey":40},
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{"_key":"60c6f8b07723bebd86691035","_id":"references/60c6f8b07723bebd86691035","_rev":"_cfFl53G---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\t\tGenome\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tProject Data Processing\n\n","document":{"$oid":"60c6f8b07723bebd86691033"},"refKey":40},
{"_key":"60c6f8b07723bebd86691036","_id":"references/60c6f8b07723bebd86691036","_rev":"_cfFl53S---","tei":"\n\t\n\t\tFast gene set enrichment analysis\n\t\t\n\t\t\tGKorotkevich\n\t\t\n\t\t\n\t\t\tVSukhov\n\t\t\n\t\t\n\t\t\tASergushichev\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t60012\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f8b07723bebd86691033"},"refKey":34},
{"_key":"60c6f8b07723bebd86691037","_id":"references/60c6f8b07723bebd86691037","_rev":"_cfFl53e---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f8b07723bebd86691033"},"refKey":36},
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{"_key":"60c6f8b07723bebd86691039","_id":"references/60c6f8b07723bebd86691039","_rev":"_cfFl532---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f8b07723bebd86691033"},"refKey":17},
{"_key":"60c6f8b07723bebd8669103a","_id":"references/60c6f8b07723bebd8669103a","_rev":"_cfFl54C---","tei":"\n\t\n\t\tlimma powers differential expression analyses for RNA-sequencing and microarray studies\n\t\t\n\t\t\tMERitchie\n\t\t\n\t\t\n\t\t\tBPhipson\n\t\t\n\t\t\n\t\t\tDWu\n\t\t\n\t\t\n\t\t\tYHu\n\t\t\n\t\t\n\t\t\tCWLaw\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\te47\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f8b07723bebd86691033"},"refKey":65},
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{"_key":"60c6f8ff7723bebd86691074","_id":"references/60c6f8ff7723bebd86691074","_rev":"_cfFl54i---","tei":"\n\t\n\t\tRecent developments in the MAFFT multiple sequence alignment program\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tHToh\n\t\t\n\t\t10.1093/bib/bbn013\n\t\t18372315\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6f8ff7723bebd86691072"},"refKey":50},
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{"_key":"60c6f8ff7723bebd8669107c","_id":"references/60c6f8ff7723bebd8669107c","_rev":"_cfFl56C---","tei":"\n\t\n\t\tExploring network structure, dynamics, and function using NetworkX\n\t\t\n\t\t\tAAHagberg\n\t\t\n\t\t\n\t\t\tDASchult\n\t\t\n\t\t\n\t\t\tPJSwart\n\t\t\n\t\n\t\n\t\tProceedings of the 7th Phyton in Science Conference\n\t\t\t\tthe 7th Phyton in Science Conference\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f8ff7723bebd86691072"},"refKey":36},
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{"_key":"60c6f8ff7723bebd8669107f","_id":"references/60c6f8ff7723bebd8669107f","_rev":"_cfFl56i---","tei":"\n\t\n\t\tThe PyMol Molecular Graphics System\n\t\t\n\t\t\tLSchrödinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVersion 1.8\n\n","document":{"$oid":"60c6f8ff7723bebd86691072"},"refKey":78},
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{"_key":"60c6f9bf7723bebd86691112","_id":"references/60c6f9bf7723bebd86691112","_rev":"_cfFl57S---","tei":"\n\t\n\t\tA dynamic programming algorithm for RNA structure prediction including pseudoknots 1 1Edited by I. Tinoco\n\t\t\n\t\t\tElenaRivas\n\t\t\n\t\t\n\t\t\tSeanREddy\n\t\t\n\t\t10.1006/jmbi.1998.2436\n\t\t9925784\n\t\tS0022-2836(98)92436-6\n\t\tark:/67375/6H6-8BBVHDVB-8\n\t\t32753390B27921164FBA3E4055A8A72B3524A63F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t285\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6f9bf7723bebd86691110"},"refKey":22},
{"_key":"60c6f9bf7723bebd86691113","_id":"references/60c6f9bf7723bebd86691113","_rev":"_cfFl57e---","tei":"\n\t\n\t\tDesign, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics\n\t\t\n\t\t\tJReeder\n\t\t\n\t\t\n\t\t\tRGiegerich\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t5\n\t\t\t104\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6f9bf7723bebd86691110"},"refKey":20},
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{"_key":"60c6fafe7723bebd86691247","_id":"references/60c6fafe7723bebd86691247","_rev":"_cfFl6-a---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6fafe7723bebd86691242"},"refKey":1},
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{"_key":"60c6fafe7723bebd8669124d","_id":"references/60c6fafe7723bebd8669124d","_rev":"_cfFl6_e---","tei":"\n\t\n\t\tProtTest 3: fast selection of best-fit models of protein evolution\n\t\t\n\t\t\tDiegoDarriba\n\t\t\n\t\t\n\t\t\tGuillermoLTaboada\n\t\t\n\t\t\n\t\t\tRamónDoallo\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\t10.1093/bioinformatics/btr088\n\t\t21335321\n\t\tPMC5215816\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6fafe7723bebd86691242"},"refKey":50},
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{"_key":"60c6fb1d7723bebd86691296","_id":"references/60c6fb1d7723bebd86691296","_rev":"_cfFl6Cm---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6fb1d7723bebd8669128e"},"refKey":168},
{"_key":"60c6fb1d7723bebd86691297","_id":"references/60c6fb1d7723bebd86691297","_rev":"_cfFl6C2---","tei":"\n\t\n\t\tGROMACS: Fast, flexible, and free\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tGerritGroenhof\n\t\t\n\t\t\n\t\t\tAlanEMark\n\t\t\n\t\t\n\t\t\tHermanJ CBerendsen\n\t\t\n\t\t10.1002/jcc.20291\n\t\t16211538\n\t\tark:/67375/WNG-FZWKDCST-G\n\t\t1B9A91E56BE3B9919FC3D0665CD10F2EB65C307A\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c6fb1d7723bebd8669128e"},"refKey":221},
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{"_key":"60c6fbb57723bebd86691331","_id":"references/60c6fbb57723bebd86691331","_rev":"_cfFl6FO---","tei":"\n\t\n\t\tEvaluation of the FLEXX incremental construction algorithm for protein-ligand docking\n\t\t\n\t\t\tBerndKramer\n\t\t\n\t\t\n\t\t\tMatthiasRarey\n\t\t\n\t\t\n\t\t\tThomasLengauer\n\t\t\n\t\t10.1002/(sici)1097-0134(19991101)37:2<228::aid-prot8>3.0.co;2-8\n\t\t10584068\n\t\tark:/67375/WNG-DNV1NHD9-6\n\t\tC3D844326E9D8CB1E4E4612A7C0131826F92B065\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t37\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6fbb57723bebd8669132f"},"refKey":42},
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{"_key":"60c6fbc57723bebd86691345","_id":"references/60c6fbc57723bebd86691345","_rev":"_cfFl6Fm---","tei":"\n\t\n\t\tGeneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMeintjes\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\t10.1093/bioinformatics/bts199\n\t\t22543367\n\t\tPMC3371832\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6fbc57723bebd86691343"},"refKey":40},
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{"_key":"60c6fbfe7723bebd8669135d","_id":"references/60c6fbfe7723bebd8669135d","_rev":"_cfFl6G----","tei":"\n\t\n\t\tHow good are predictions of protein secondary structure?\n\t\t\n\t\t\tWolfgangKabsch\n\t\t\n\t\t\n\t\t\tChristianSander\n\t\t\n\t\t10.1016/0014-5793(82)80597-8\n\t\t6852232\n\t\n\t\n\t\tFEBS Letters\n\t\t0014-5793\n\t\t\n\t\t\t155\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c6fbfe7723bebd8669135b"},"refKey":26},
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{"_key":"60c6fc477723bebd866913a0","_id":"references/60c6fc477723bebd866913a0","_rev":"_cfFl6G2---","tei":"\n\t\n\t\tA synergy of the sine-cosine algorithm and particle swarm optimizer for improved global optimization and object tracking\n\t\t\n\t\t\tHathiramNenavath\n\t\t\t0000-0003-1632-2031\n\t\t\n\t\t\n\t\t\tDrRaviKumar Jatoth\n\t\t\n\t\t\n\t\t\tDrSwagatamDas\n\t\t\n\t\t10.1016/j.swevo.2018.02.011\n\t\n\t\n\t\tSwarm and Evolutionary Computation\n\t\tSwarm and Evolutionary Computation\n\t\t2210-6502\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6fc477723bebd8669139f"},"refKey":65},
{"_key":"60c6fc477723bebd866913a1","_id":"references/60c6fc477723bebd866913a1","_rev":"_cfFl6HC---","tei":"\n\t\n\t\tSCA: a sine cosine algorithm for solving optimization problems\n\t\t\n\t\t\tSMirjalili\n\t\t\n\t\n\t\n\t\tKnowl.-Based Syst\n\t\t\n\t\t\t96\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6fc477723bebd8669139f"},"refKey":45},
{"_key":"60c6fc647723bebd866913d6","_id":"references/60c6fc647723bebd866913d6","_rev":"_cfFl6HO---","tei":"\n\t\n\t\tFrom words to meaning to insight\n\t\t\n\t\t\tASmith\n\t\t\n\t\t\n\t\t\tLeximancer\n\t\t\n\t\t\n\t\t\t\n\t\t\tUniquest\n\t\t\tQueensland, Australia\n\t\t\n\t\n\n","document":{"$oid":"60c6fc647723bebd866913d5"},"refKey":35},
{"_key":"60c6fc757723bebd866913e0","_id":"references/60c6fc757723bebd866913e0","_rev":"_cfFl6Ha---","tei":"\n\t\n\t\tA reproducible evaluation of ANTs similarity metric performance in brain image registration\n\t\t\n\t\t\tBBAvants\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t54\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6fc757723bebd866913df"},"refKey":7},
{"_key":"60c6fdf97723bebd86691451","_id":"references/60c6fdf97723bebd86691451","_rev":"_cfFl6Hm---","tei":"\n\t\n\t\tUser-guided 3D active contour segmentation of anatomical structures: Significantly improved efficiency and reliability\n\t\t\n\t\t\tPaulAYushkevich\n\t\t\n\t\t\n\t\t\tJosephPiven\n\t\t\n\t\t\n\t\t\tHeatherCodyHazlett\n\t\t\n\t\t\n\t\t\tRachelGimpelSmith\n\t\t\n\t\t\n\t\t\tSeanHo\n\t\t\n\t\t\n\t\t\tJamesCGee\n\t\t\n\t\t\n\t\t\tGuidoGerig\n\t\t\n\t\t10.1016/j.neuroimage.2006.01.015\n\t\t16545965\n\t\t\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t31\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6fdf97723bebd86691450"},"refKey":16},
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{"_key":"60c6fe397723bebd86691490","_id":"references/60c6fe397723bebd86691490","_rev":"_cfFl6I----","tei":"\n\t\n\t\tValidation and development of COI metabarcoding primers for freshwater macroinvertebrate bioassessment\n\t\t\n\t\t\tVascoElbrecht\n\t\t\t0000-0003-4672-7099\n\t\t\n\t\t\n\t\t\tFlorianLeese\n\t\t\n\t\t10.7287/peerj.preprints.2044\n\t\t\n\t\t\n\t\t\t\n\t\t\tPeerJ\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6fe397723bebd8669148e"},"refKey":33},
{"_key":"60c6fe397723bebd86691491","_id":"references/60c6fe397723bebd86691491","_rev":"_cfFl6IK---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\t\n\t\t\t\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6fe397723bebd8669148e"},"refKey":35},
{"_key":"60c6fe397723bebd86691492","_id":"references/60c6fe397723bebd86691492","_rev":"_cfFl6IS---","tei":"\n\t\n\t\tFLASH: fast length adjustment of short reads to improve genome assemblies\n\t\t\n\t\t\tTMagoc\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t10.1093/bioinformatics/btr507\n\t\t21903629\n\t\tPMC3198573\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6fe397723bebd8669148e"},"refKey":46},
{"_key":"60c6fe397723bebd86691493","_id":"references/60c6fe397723bebd86691493","_rev":"_cfFl6Ie---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6fe397723bebd8669148e"},"refKey":39},
{"_key":"60c6fe397723bebd86691494","_id":"references/60c6fe397723bebd86691494","_rev":"_cfFl6Iq---","tei":"\n\t\n\t\tIntroducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities\n\t\t\n\t\t\tPDSchloss\n\t\t\n\t\t\n\t\t\tSLWestcott\n\t\t\n\t\t\n\t\t\tTRyabin\n\t\t\n\t\t\n\t\t\tJRHall\n\t\t\n\t\t\n\t\t\tMHartmann\n\t\t\n\t\t\n\t\t\tEBHollister\n\t\t\n\t\t\n\t\t\tRALesniewski\n\t\t\n\t\t\n\t\t\tBBOakley\n\t\t\n\t\t\n\t\t\tDHParks\n\t\t\n\t\t\n\t\t\tCJRobinson\n\t\t\n\t\t\n\t\t\tJWSahl\n\t\t\n\t\t\n\t\t\tBStres\n\t\t\n\t\t\n\t\t\tGGThallinger\n\t\t\n\t\t\n\t\t\tDJVan Horn\n\t\t\n\t\t\n\t\t\tCFWeber\n\t\t\n\t\t10.1128/aem.01541-09\n\t\t19801464\n\t\tPMC2786419\n\t\t\n\t\t\n\t\n\t\n\t\tApplied and Environmental Microbiology\n\t\tApplied and Environmental Microbiology\n\t\t0099-2240\n\t\t\n\t\t\t75\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c6fe397723bebd8669148e"},"refKey":47},
{"_key":"60c6fe397723bebd86691495","_id":"references/60c6fe397723bebd86691495","_rev":"_cfFl6I2---","tei":"\n\t\n\t\tnlme: linear and nonlinear mixed effects models\n\t\t\n\t\t\tJPinheiro\n\t\t\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tSDebroy\n\t\t\n\t\t\n\t\t\tDSarkar\n\t\t\n\t\t\n\t\t\tR Core\n\t\t\n\t\t\n\t\t\tTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 3.1-131. Comput software\n\n","document":{"$oid":"60c6fe397723bebd8669148e"},"refKey":54},
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{"_key":"60c6ff7d7723bebd866915df","_id":"references/60c6ff7d7723bebd866915df","_rev":"_cfFl6OW---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c6ff7d7723bebd866915da"},"refKey":17},
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{"_key":"60c6ff7d7723bebd866915e2","_id":"references/60c6ff7d7723bebd866915e2","_rev":"_cfFl6O2---","tei":"\n\t\n\t\tBCFtools/csq: haplotype-aware variant consequences\n\t\t\n\t\t\tPetrDanecek\n\t\t\n\t\t\n\t\t\tShaneAMccarthy\n\t\t\n\t\t10.1093/bioinformatics/btx100\n\t\t28205675\n\t\tPMC5870570\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6ff7d7723bebd866915da"},"refKey":78},
{"_key":"60c6ff817723bebd8669160c","_id":"references/60c6ff817723bebd8669160c","_rev":"_cfFl6PC---","tei":"\n\t\n\t\tEmotional intensity-based success prediction model for crowdfunded campaigns\n\t\t\n\t\t\tSFaralli\n\t\t\n\t\t\n\t\t\tSRittinghaus\n\t\t\n\t\t\n\t\t\tNSamsami\n\t\t\n\t\t\n\t\t\tDDistante\n\t\t\n\t\t\n\t\t\tERocha\n\t\t\n\t\t10.1016/j.ipm.2020.102394\n\t\tID 102394\n\t\t\n\t\n\t\n\t\tInf Process Manag\n\t\t\n\t\t\t58\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c6ff817723bebd8669160b"},"refKey":15},
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{"_key":"60c6ff9e7723bebd86691635","_id":"references/60c6ff9e7723bebd86691635","_rev":"_cfFl6Py---","tei":"\n\t\n\t\tRNA secondary structure prediction by centroids in a Boltzmann weighted ensemble\n\t\t\n\t\t\tYDing\n\t\t\n\t\t\n\t\t\tCYChan\n\t\t\n\t\t\n\t\t\tCELawrence\n\t\t\n\t\t10.1261/rna.2500605\n\t\t16043502\n\t\tPMC1370799\n\t\t\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t11\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c6ff9e7723bebd86691634"},"refKey":13},
{"_key":"60c6ff9e7723bebd86691636","_id":"references/60c6ff9e7723bebd86691636","_rev":"_cfFl6Q----","tei":"\n\t\n\t\tA statistical sampling algorithm for RNA secondary structure prediction\n\t\t\n\t\t\tYDing\n\t\t\n\t\t10.1093/nar/gkg938\n\t\t14654704\n\t\tPMC297010\n\t\tark:/67375/HXZ-6F1K9CS3-X\n\t\t0E4376270051297C6BD68875705461A31277F5EC\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c6ff9e7723bebd86691634"},"refKey":14},
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{"_key":"60c700267723bebd866916b9","_id":"references/60c700267723bebd866916b9","_rev":"_cfFl6RO---","tei":"\n\t\n\t\tMAFFT-DASH: integrated protein sequence and structural alignment\n\t\t\n\t\t\tJohnRozewicki\n\t\t\n\t\t\n\t\t\tSonglingLi\n\t\t\n\t\t\n\t\t\tKarlouMarAmada\n\t\t\n\t\t\n\t\t\tDaronMStandley\n\t\t\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\t0000-0003-4133-8393\n\t\t\n\t\t10.1093/nar/gkz342\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c700267723bebd866916b7"},"refKey":53},
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{"_key":"60c7002b7723bebd866916c6","_id":"references/60c7002b7723bebd866916c6","_rev":"_cfFl6S----","tei":"\n\t\n\t\tPAML 4: Phylogenetic Analysis by Maximum Likelihood\n\t\t\n\t\t\tZYang\n\t\t\n\t\t10.1093/molbev/msm088\n\t\t17483113\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7002b7723bebd866916c2"},"refKey":40},
{"_key":"60c7002b7723bebd866916c7","_id":"references/60c7002b7723bebd866916c7","_rev":"_cfFl6SK---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tIYBen-Shalom\n\t\t\n\t\t\n\t\t\tSRBrozell\n\t\t\n\t\t\n\t\t\tDSCerutti\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tVW DCruzeiro\n\t\t\n\t\t\n\t\t\tKollman\n\t\t\n\t\n\t\n\t\tP. A\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\n","document":{"$oid":"60c7002b7723bebd866916c2"},"refKey":6},
{"_key":"60c7002b7723bebd866916c8","_id":"references/60c7002b7723bebd866916c8","_rev":"_cfFl6SW---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t10.1093/nar/25.17.3389\n\t\t9254694\n\t\tPMC146917\n\t\tark:/67375/HXZ-50QJ2KXS-K\n\t\tA48E3FC193DA383D18E97DDF74E7811431AEE739\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t25\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7002b7723bebd866916c2"},"refKey":3},
{"_key":"60c7002b7723bebd866916c9","_id":"references/60c7002b7723bebd866916c9","_rev":"_cfFl6Si---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7002b7723bebd866916c2"},"refKey":12},
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{"_key":"60c700697723bebd866916f7","_id":"references/60c700697723bebd866916f7","_rev":"_cfFl6TO---","tei":"\n\t\n\t\tAutomated docking using a Lamarckian genetic algorithm and an empirical binding free energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tRSHalliday\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWEHart\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t19\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c700697723bebd866916f4"},"refKey":13},
{"_key":"60c700697723bebd866916f8","_id":"references/60c700697723bebd866916f8","_rev":"_cfFl6Ta---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Mol Graph\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c700697723bebd866916f4"},"refKey":9},
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{"_key":"60c700797723bebd86691711","_id":"references/60c700797723bebd86691711","_rev":"_cfFl6U----","tei":"\n\t\n\t\tAcademic Research Release 16.0, Help System, Coupled Field Analysis Guide\n\t\t\n\t\t\tAnsys ®\n\t\t\n\t\t\n\t\t\t\n\t\t\tANSYS, Inc\n\t\t\n\t\n\n","document":{"$oid":"60c700797723bebd86691710"},"refKey":38},
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{"_key":"60c700c07723bebd86691738","_id":"references/60c700c07723bebd86691738","_rev":"_cfFl6UW---","tei":"\n\t\n\t\tR: A Language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVienna: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c700c07723bebd86691737"},"refKey":35},
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{"_key":"60c700d17723bebd86691740","_id":"references/60c700d17723bebd86691740","_rev":"_cfFl6Uu---","tei":"\n\t\n\t\tElliPro: a new structure-based tool for the prediction of antibody epitopes\n\t\t\n\t\t\tJuliaPonomarenko\n\t\t\n\t\t\n\t\t\tHuynh-HoaBui\n\t\t\n\t\t\n\t\t\tWeiLi\n\t\t\n\t\t\n\t\t\tNicholasFusseder\n\t\t\n\t\t\n\t\t\tPhilipEBourne\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t10.1186/1471-2105-9-514\n\t\t19055730\n\t\tPMC2607291\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t514\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c700d17723bebd8669173e"},"refKey":33},
{"_key":"60c700d17723bebd86691741","_id":"references/60c700d17723bebd86691741","_rev":"_cfFl6U6---","tei":"\n\t\n\t\tSOPMA: significant improvements in protein secondary structure prediction by consensus prediction from multiple alignments\n\t\t\n\t\t\tCGeourjon\n\t\t\n\t\t\n\t\t\tGDeléage\n\t\t\n\t\t10.1093/bioinformatics/11.6.681\n\t\tark:/67375/HXZ-3NCG9X08-F\n\t\tF28C01AB29C5F411E08EAED1E7B846C54236DDE3\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t11\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c700d17723bebd8669173e"},"refKey":15},
{"_key":"60c700d17723bebd86691742","_id":"references/60c700d17723bebd86691742","_rev":"_cfFl6VG---","tei":"\n\t\n\t\tTemplate-based protein structure modeling using the RaptorX web server\n\t\t\n\t\t\tMortenKällberg\n\t\t\n\t\t\n\t\t\tHaipengWang\n\t\t\n\t\t\n\t\t\tShengWang\n\t\t\n\t\t\n\t\t\tJianPeng\n\t\t\n\t\t\n\t\t\tZhiyongWang\n\t\t\n\t\t\n\t\t\tHuiLu\n\t\t\n\t\t\n\t\t\tJinboXu\n\t\t\n\t\t10.1038/nprot.2012.085\n\t\t22814390\n\t\tPMC4730388\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t7\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c700d17723bebd8669173e"},"refKey":19},
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{"_key":"60c703127723bebd86691930","_id":"references/60c703127723bebd86691930","_rev":"_cfFl6bi---","tei":"\n\t\n\t\tPython tutorial, technical report CS-R9526, Centrum voor Wiskunde en Informatica (CWI)\n\t\t\n\t\t\tGVan Rossum\n\t\t\n\t\t\n\t\t\t\n\t\t\tAmsterdam\n\t\t\n\t\n\n","document":{"$oid":"60c703127723bebd8669192e"},"refKey":46},
{"_key":"60c703127723bebd86691931","_id":"references/60c703127723bebd86691931","_rev":"_cfFl6bu---","tei":"\n\t\n\t\tGeopandas/geopandas: V0. 6.1: Zenodo\n\t\t\n\t\t\tKJordahl\n\t\t\n\t\t\n\t\t\tBJd\n\t\t\n\t\t\n\t\t\tJWasserman\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c703127723bebd8669192e"},"refKey":47},
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{"_key":"60c703627723bebd86691983","_id":"references/60c703627723bebd86691983","_rev":"_cfFl6c2---","tei":"\n\t\n\t\tA Non-prenex, Non-clausal QBF Solver with Game-State Learning\n\t\t\n\t\t\tWilliamKlieber\n\t\t\n\t\t\n\t\t\tSamirSapra\n\t\t\n\t\t\n\t\t\tSicunGao\n\t\t\n\t\t\n\t\t\tEdmundClarke\n\t\t\n\t\t10.1007/978-3-642-14186-7_12\n\t\tark:/67375/HCB-8TXWDDNK-M\n\t\t624CDA38E82DD049697C23B3151C0DC365726F45\n\t\t\n\t\t\n\t\n\t\n\t\tTheory and Applications of Satisfiability Testing – SAT 2010\n\t\t\t\t\n\t\t\tOStrichman\n\t\t\tSSzeider\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t6175\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c703627723bebd86691982"},"refKey":32},
{"_key":"60c703767723bebd86691995","_id":"references/60c703767723bebd86691995","_rev":"_cfFl6d----","tei":"\n\t\n\t\tDevelopment of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform\n\t\t\n\t\t\tJamesJKozich\n\t\t\n\t\t\n\t\t\tSarahLWestcott\n\t\t\n\t\t\n\t\t\tNielsonTBaxter\n\t\t\n\t\t\n\t\t\tSarahKHighlander\n\t\t\n\t\t\n\t\t\tPatrickDSchloss\n\t\t\n\t\t10.1128/aem.01043-13\n\t\t23793624\n\t\tPMC3753973\n\t\t\n\t\n\t\n\t\tApplied and Environmental Microbiology\n\t\tAppl. Environ. Microbiol.\n\t\t0099-2240\n\t\t1098-5336\n\t\t\n\t\t\t79\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c703767723bebd86691994"},"refKey":72},
{"_key":"60c703767723bebd86691996","_id":"references/60c703767723bebd86691996","_rev":"_cfFl6dK---","tei":"\n\t\n\t\tVSEARCH: a versatile open source tool for metagenomics\n\t\t\n\t\t\tTorbjørnRognes\n\t\t\n\t\t\n\t\t\tTomášFlouri\n\t\t\n\t\t\n\t\t\tBenNichols\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tFrédéricMahé\n\t\t\n\t\t10.7717/peerj.2584\n\t\t27781170\n\t\tPMC5075697\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t4\n\t\t\te2584\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c703767723bebd86691994"},"refKey":74},
{"_key":"60c703877723bebd866919a0","_id":"references/60c703877723bebd866919a0","_rev":"_cfFl6dW---","tei":"\n\t\n\t\tSpidermiR: An R/Bioconductor Package for Integrative Analysis with miRNA Data\n\t\t\n\t\t\tClaudiaCava\n\t\t\n\t\t\n\t\t\tAntonioColaprico\n\t\t\n\t\t\n\t\t\tGloriaBertoli\n\t\t\n\t\t\n\t\t\tAlexGraudenzi\n\t\t\n\t\t\n\t\t\tTiagoSilva\n\t\t\n\t\t\n\t\t\tCatharinaOlsen\n\t\t\n\t\t\n\t\t\tHoutanNoushmehr\n\t\t\n\t\t\n\t\t\tGianlucaBontempi\n\t\t\n\t\t\n\t\t\tGiancarloMauri\n\t\t\t0000-0003-3520-4022\n\t\t\n\t\t\n\t\t\tIsabellaCastiglioni\n\t\t\n\t\t10.3390/ijms18020274\n\t\t28134831\n\t\tPMC5343810\n\t\t\n\t\n\t\n\t\tInternational Journal of Molecular Sciences\n\t\tIJMS\n\t\t1422-0067\n\t\t\n\t\t\t18\n\t\t\t2\n\t\t\t274\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c703877723bebd8669199f"},"refKey":26},
{"_key":"60c703877723bebd866919a1","_id":"references/60c703877723bebd866919a1","_rev":"_cfFl6di---","tei":"\n\t\n\t\tTCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data\n\t\t\n\t\t\tAntonioColaprico\n\t\t\n\t\t\n\t\t\tTiagoCSilva\n\t\t\n\t\t\n\t\t\tCatharinaOlsen\n\t\t\n\t\t\n\t\t\tLucianoGarofano\n\t\t\t0000-0001-8582-0865\n\t\t\n\t\t\n\t\t\tClaudiaCava\n\t\t\n\t\t\n\t\t\tDavideGarolini\n\t\t\n\t\t\n\t\t\tThaisSSabedot\n\t\t\n\t\t\n\t\t\tTathianeMMalta\n\t\t\n\t\t\n\t\t\tStefanoMPagnotta\n\t\t\n\t\t\n\t\t\tIsabellaCastiglioni\n\t\t\n\t\t\n\t\t\tMicheleCeccarelli\n\t\t\n\t\t\n\t\t\tGianlucaBontempi\n\t\t\n\t\t\n\t\t\tHoutanNoushmehr\n\t\t\n\t\t10.1093/nar/gkv1507\n\t\t26704973\n\t\tPMC4856967\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\te71. [CrossRef\n\n","document":{"$oid":"60c703877723bebd8669199f"},"refKey":20},
{"_key":"60c7039f7723bebd866919bc","_id":"references/60c7039f7723bebd866919bc","_rev":"_cfFl6du---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7039f7723bebd866919bb"},"refKey":8},
{"_key":"60c703a87723bebd866919d0","_id":"references/60c703a87723bebd866919d0","_rev":"_cfFl6d6---","tei":"\n\t\n\t\tThe GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function\n\t\t\n\t\t\tDavidWarde-Farley\n\t\t\n\t\t\n\t\t\tSylvaLDonaldson\n\t\t\n\t\t\n\t\t\tOviComes\n\t\t\n\t\t\n\t\t\tKhalidZuberi\n\t\t\n\t\t\n\t\t\tRashadBadrawi\n\t\t\n\t\t\n\t\t\tPaulineChao\n\t\t\n\t\t\n\t\t\tMaxFranz\n\t\t\n\t\t\n\t\t\tChrisGrouios\n\t\t\n\t\t\n\t\t\tFarzanaKazi\n\t\t\n\t\t\n\t\t\tChristianTannusLopes\n\t\t\n\t\t\n\t\t\tAnsonMaitland\n\t\t\n\t\t\n\t\t\tSaraMostafavi\n\t\t\n\t\t\n\t\t\tJasonMontojo\n\t\t\n\t\t\n\t\t\tQuentinShao\n\t\t\n\t\t\n\t\t\tGeorgeWright\n\t\t\n\t\t\n\t\t\tGaryDBader\n\t\t\n\t\t\n\t\t\tQuaidMorris\n\t\t\n\t\t10.1093/nar/gkq537\n\t\t20576703\n\t\tPMC2896186\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c703a87723bebd866919cf"},"refKey":17},
{"_key":"60c703a87723bebd866919d1","_id":"references/60c703a87723bebd866919d1","_rev":"_cfFl6eG---","tei":"\n\t\n\t\tFunctional Analysis of OMICs Data and Small Molecule Compounds in an Integrated “Knowledge-Based” Platform\n\t\t\n\t\t\tAlexeyDubovenko\n\t\t\n\t\t\n\t\t\tYuriNikolsky\n\t\t\n\t\t\n\t\t\tEugeneRakhmatulin\n\t\t\n\t\t\n\t\t\tTatianaNikolskaya\n\t\t\n\t\t10.1007/978-1-4939-7027-8_6\n\t\t28849560\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\tNew York, NY, USA\n\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c703a87723bebd866919cf"},"refKey":18},
{"_key":"60c703c67723bebd866919e9","_id":"references/60c703c67723bebd866919e9","_rev":"_cfFl6eS---","tei":"\n\t\n\t\tAndroid Application: UML Deployment\n\t\t\n\t\t\tAndroidDevelopers\n\t\t\n\t\t\n\t\n\t\n\t\tADMEC Institute: Top 10 Features of Android\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tThe Android Studio\n\n","document":{"$oid":"60c703c67723bebd866919e8"},"refKey":19},
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{"_key":"60c7041a7723bebd86691a20","_id":"references/60c7041a7723bebd86691a20","_rev":"_cfFl6e2---","tei":"\n\t\n\t\tDeciphering key features in protein structures with the new ENDscript server\n\t\t\n\t\t\tXavierRobert\n\t\t\n\t\t\n\t\t\tPatriceGouet\n\t\t\n\t\t10.1093/nar/gku316\n\t\t24753421\n\t\tPMC4086106\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7041a7723bebd86691a1d"},"refKey":28},
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{"_key":"60c7041a7723bebd86691a22","_id":"references/60c7041a7723bebd86691a22","_rev":"_cfFl6fO---","tei":"\n\t\n\t\tPrediction of Disordered RNA, DNA, and Protein Binding Regions Using DisoRDPbind\n\t\t\n\t\t\tZhenlingPeng\n\t\t\n\t\t\n\t\t\tChenWang\n\t\t\n\t\t\n\t\t\tVladimirNUversky\n\t\t\n\t\t\n\t\t\tLukaszKurgan\n\t\t\n\t\t10.1007/978-1-4939-6406-2_14\n\t\t27787828\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1484\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7041a7723bebd86691a1d"},"refKey":43},
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{"_key":"60c704397723bebd86691a5d","_id":"references/60c704397723bebd86691a5d","_rev":"_cfFl6gu---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBIOINFORMATICS\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c704397723bebd86691a5a"},"refKey":17},
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{"_key":"60c704ad7723bebd86691ac5","_id":"references/60c704ad7723bebd86691ac5","_rev":"_cfFl6hS---","tei":"\n\t\n\t\tGraphical exploratory data analysis of RNA secondary structure dynamics predicted by the massively parallel genetic algorithm\n\t\t\n\t\t\tBruceAShapiro\n\t\t\n\t\t\n\t\t\tWojciechKasprzak\n\t\t\n\t\t\n\t\t\tCalvinGrunewald\n\t\t\n\t\t\n\t\t\tJavedAman\n\t\t\n\t\t10.1016/j.jmgm.2006.04.004\n\t\t16725358\n\t\n\t\n\t\tJournal of Molecular Graphics and Modelling\n\t\tJournal of Molecular Graphics and Modelling\n\t\t1093-3263\n\t\t\n\t\t\t25\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c704ad7723bebd86691ac4"},"refKey":24},
{"_key":"60c704ad7723bebd86691ac6","_id":"references/60c704ad7723bebd86691ac6","_rev":"_cfFl6he---","tei":"\n\t\n\t\tRNA folding pathway functional intermediates: their prediction and analysis 1 1Edited by I. Tinoco\n\t\t\n\t\t\tBruceAShapiro\n\t\t\n\t\t\n\t\t\tDavidBengali\n\t\t\n\t\t\n\t\t\tWojciechKasprzak\n\t\t\n\t\t\n\t\t\tJinChuWu\n\t\t\n\t\t10.1006/jmbi.2001.4931\n\t\t11545583\n\t\tS0022-2836(01)94931-9\n\t\tark:/67375/6H6-R8WXQQ6V-C\n\t\tBDA9E92E43D7021FBA9037D545BA0D248558D6DB\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t312\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c704ad7723bebd86691ac4"},"refKey":33},
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{"_key":"60c704b07723bebd86691ad1","_id":"references/60c704b07723bebd86691ad1","_rev":"_cfFl6h2---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c704b07723bebd86691acf"},"refKey":30},
{"_key":"60c704b07723bebd86691ad2","_id":"references/60c704b07723bebd86691ad2","_rev":"_cfFl6iC---","tei":"\n\t\n\t\tChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tLGWang\n\t\t\n\t\t\n\t\t\tQYHe\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c704b07723bebd86691acf"},"refKey":72},
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{"_key":"60c705387723bebd86691b5f","_id":"references/60c705387723bebd86691b5f","_rev":"_cfFl6j----","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c705387723bebd86691b5e"},"refKey":97},
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{"_key":"60c705807723bebd86691bc2","_id":"references/60c705807723bebd86691bc2","_rev":"_cfFl6oa---","tei":"\n\t\n\t\tElliPro: a new structure-based tool for the prediction of antibody epitopes\n\t\t\n\t\t\tJPonomarenko\n\t\t\n\t\n\t\n\t\tBMC Bioinf\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t514\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c705807723bebd86691ba6"},"refKey":60},
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{"_key":"60c705807723bebd86691bc4","_id":"references/60c705807723bebd86691bc4","_rev":"_cfFl6oy---","tei":"\n\t\n\t\tNN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t10.1186/1471-2105-10-296\n\t\t19765293\n\t\tPMC2753847\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t296\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c705807723bebd86691ba6"},"refKey":20},
{"_key":"60c705807723bebd86691bc5","_id":"references/60c705807723bebd86691bc5","_rev":"_cfFl6p----","tei":"\n\t\n\t\tPrediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t10.1186/1471-2105-8-238\n\t\t17608956\n\t\tPMC1939856\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t238\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c705807723bebd86691ba6"},"refKey":21},
{"_key":"60c705807723bebd86691bc6","_id":"references/60c705807723bebd86691bc6","_rev":"_cfFl6pK---","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSudiptoSaha\n\t\t\n\t\t\n\t\t\tGpsjpsP SRaghava\n\t\t\n\t\t10.1002/prot.21078\n\t\t16894596\n\t\tark:/67375/WNG-PBJLFFDS-Q\n\t\t962AE5C732980F572DE0640D65F024AE7EF06A67\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t65\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c705807723bebd86691ba6"},"refKey":29},
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{"_key":"60c706257723bebd86691c53","_id":"references/60c706257723bebd86691c53","_rev":"_cfFl6pi---","tei":"\n\t\n\t\tJModelTest 2: More Models, New Heuristics and High-Performance Computing Europe PMC Funders Group\n\t\t\n\t\t\tDiegoDarriba\n\t\t\n\t\t\n\t\t\tGuillermoLTaboada\n\t\t\n\t\t\n\t\t\tRamónDoallo\n\t\t\n\t\t\n\t\t\tDavidPosada\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\t772\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c706257723bebd86691c51"},"refKey":7},
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{"_key":"60c706257723bebd86691c57","_id":"references/60c706257723bebd86691c57","_rev":"_cfFl6qO---","tei":"\n\t\n\t\tBioEdit: A User-Friendly Biological Sequence Alignment Editor and Analysis Program for Windows 95/98/NT\n\t\t\n\t\t\tThomasAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symposium (Series\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c706257723bebd86691c51"},"refKey":10},
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{"_key":"60c708407723bebd86691dff","_id":"references/60c708407723bebd86691dff","_rev":"_cfFl6we---","tei":"\n\t\n\t\tIn silico approach for predicting toxicity of peptides and proteins\n\t\t\n\t\t\tSGupta\n\t\t\n\t\t\n\t\t\tPKapoor\n\t\t\n\t\t\n\t\t\tKChaudhary\n\t\t\n\t\t\n\t\t\tAGautam\n\t\t\n\t\t\n\t\t\tRKumar\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t8\n\t\t\t9\n\t\t\te73957\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708407723bebd86691dfd"},"refKey":93},
{"_key":"60c708407723bebd86691e00","_id":"references/60c708407723bebd86691e00","_rev":"_cfFl6wq---","tei":"\n\t\n\t\tProtein Identification and Analysis Tools in the ExPASy Server\n\t\t\n\t\t\tMarcRWilkins\n\t\t\n\t\t\n\t\t\tElisabethGasteiger\n\t\t\n\t\t\n\t\t\tAmosBairoch\n\t\t\n\t\t\n\t\t\tJean-CharlesSanchez\n\t\t\n\t\t\n\t\t\tKeithLWilliams\n\t\t\n\t\t\n\t\t\tRonDAppel\n\t\t\n\t\t\n\t\t\tDenisFHochstrasser\n\t\t\n\t\t10.1385/1-59259-584-7:531\n\t\n\t\n\t\t2-D Proteome Analysis Protocols\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t2019\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708407723bebd86691dfd"},"refKey":156},
{"_key":"60c708407723bebd86691e01","_id":"references/60c708407723bebd86691e01","_rev":"_cfFl6w2---","tei":"\n\t\n\t\tUsing the PyMOL application to reinforce visual understanding of protein structure\n\t\t\n\t\t\tRERigsby\n\t\t\n\t\t\n\t\t\tABParker\n\t\t\n\t\n\t\n\t\tBiochem. Mol. Biol. Educ\n\t\t\n\t\t\t44\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708407723bebd86691dfd"},"refKey":118},
{"_key":"60c708597723bebd86691e4b","_id":"references/60c708597723bebd86691e4b","_rev":"_cfFl6xC---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tDanielPeterson\n\t\t\n\t\t\n\t\t\tAlanFilipski\n\t\t\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t10.1093/molbev/mst197\n\t\t24132122\n\t\tPMC3840312\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c708597723bebd86691e4a"},"refKey":20},
{"_key":"60c708597723bebd86691e4c","_id":"references/60c708597723bebd86691e4c","_rev":"_cfFl6xO---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c708597723bebd86691e4a"},"refKey":22},
{"_key":"60c708597723bebd86691e4d","_id":"references/60c708597723bebd86691e4d","_rev":"_cfFl6xa---","tei":"\n\t\n\t\tWelcome to the Tidyverse\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tMAverick\n\t\t\n\t\t\n\t\t\tJBryan\n\t\t\n\t\t\n\t\t\tWChang\n\t\t\n\t\t\n\t\t\tLMcgowan\n\t\t\n\t\t\n\t\t\tRFrançois\n\t\t\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\n\t\n\t\tJ Open Source Softw\n\t\t\n\t\t\t4\n\t\t\t43\n\t\t\t1686\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708597723bebd86691e4a"},"refKey":23},
{"_key":"60c708687723bebd86691e5c","_id":"references/60c708687723bebd86691e5c","_rev":"_cfFl6xm---","tei":"\n\t\n\t\tModel checking programs\n\t\t\n\t\t\tWVisser\n\t\t\n\t\t\n\t\t\tKHavelund\n\t\t\n\t\t\n\t\t\tGBrat\n\t\t\n\t\t\n\t\t\tSPark\n\t\t\n\t\t\n\t\t\tFLerda\n\t\t\n\t\t10.1023/A:1022920129859\n\t\t\n\t\n\t\n\t\tAutomated Software Engineering\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708687723bebd86691e5b"},"refKey":10},
{"_key":"60c708687723bebd86691e5d","_id":"references/60c708687723bebd86691e5d","_rev":"_cfFl6xy---","tei":"\n\t\n\t\tCOASTAL: Combining concolic and fuzzing for Java (competition contribution)\n\t\t\n\t\t\tWVisser\n\t\t\n\t\t\n\t\t\tJGeldenhuys\n\t\t\n\t\tBiere, A., Parker, D.\n\t\t\n\t\n\n","document":{"$oid":"60c708687723bebd86691e5b"},"refKey":12},
{"_key":"60c708687723bebd86691e5e","_id":"references/60c708687723bebd86691e5e","_rev":"_cfFl6y----","tei":"\n\t\n\t\tZ3: An Efficient SMT Solver\n\t\t\n\t\t\tLeonardoDe Moura\n\t\t\n\t\t\n\t\t\tNikolajBjørner\n\t\t\n\t\t10.1007/978-3-540-78800-3_24\n\t\tark:/67375/HCB-BGX9H9T2-R\n\t\t7BB1B75BDB0889CA31034580028766C10A96DC41\n\t\t\n\t\t\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708687723bebd86691e5b"},"refKey":2},
{"_key":"60c708a97723bebd86691eb9","_id":"references/60c708a97723bebd86691eb9","_rev":"_cfFl6yG---","tei":"\n\t\n\t\tMEGA6: Molecular evolutionary genetics analysis version 6. 0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708a97723bebd86691eb8"},"refKey":8},
{"_key":"60c708d57723bebd86691ece","_id":"references/60c708d57723bebd86691ece","_rev":"_cfFl6yS---","tei":"\n\t\n\t\tA laparoscopic surgery procedures trainer and evaluator\n\t\t\n\t\t\tCSutton\n\t\t\n\t\t\n\t\t\tRMccloy\n\t\t\n\t\t\n\t\t\tAMiddlebrook\n\t\t\n\t\t\n\t\t\tPChater\n\t\t\n\t\t\n\t\t\tWilsonMStone\n\t\t\n\t\t\n\t\t\tRMist\n\t\t\n\t\t\n\t\t\tVr\n\t\t\n\t\n\t\n\t\tStud Health Technol Inform\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tMedline: 10173070\n\n","document":{"$oid":"60c708d57723bebd86691ecd"},"refKey":19},
{"_key":"60c708d57723bebd86691ecf","_id":"references/60c708d57723bebd86691ecf","_rev":"_cfFl6ye---","tei":"\n\t\n\t\tMIST VR: a virtual reality trainer for laparoscopic surgery assesses performance\n\t\t\n\t\t\tMWilson\n\t\t\n\t\t\n\t\t\tAMiddlebrook\n\t\t\n\t\t\n\t\t\tCSutton\n\t\t\n\t\t\n\t\t\tRStone\n\t\t\n\t\t\n\t\t\tRMccloy\n\t\t\n\t\n\t\n\t\tAnn R Coll Surg Engl\n\t\t\n\t\t\t79\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tFREE Full text. Medline: 9422863\n\n","document":{"$oid":"60c708d57723bebd86691ecd"},"refKey":63},
{"_key":"60c708d57723bebd86691ed0","_id":"references/60c708d57723bebd86691ed0","_rev":"_cfFl6yq---","tei":"\n\t\n\t\tTraining the novice in laparoscopy\n\t\t\n\t\t\tMRAli\n\t\t\n\t\t\n\t\t\tYMowery\n\t\t\n\t\t\n\t\t\tBKaplan\n\t\t\n\t\t\n\t\t\tEJDemaria\n\t\t\n\t\t10.1007/s00464-002-8850-6\n\t\t12140638\n\t\tark:/67375/VQC-J6CK8171-L\n\t\tCF120A647682336F2CE15AC1F65576F1558FE073\n\t\n\t\n\t\tSurgical Endoscopy\n\t\tSurgical Endoscopy\n\t\t0930-2794\n\t\t1432-2218\n\t\t\n\t\t\t16\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\tMedline: 12140638\n\n","document":{"$oid":"60c708d57723bebd86691ecd"},"refKey":64},
{"_key":"60c708fc7723bebd86691ef5","_id":"references/60c708fc7723bebd86691ef5","_rev":"_cfFl6y2---","tei":"\n\t\n\t\tNon-classical protein secretion in bacteria\n\t\t\n\t\t\tJDBendtsen\n\t\t\n\t\t\n\t\t\tLKiemer\n\t\t\n\t\t\n\t\t\tAFausbøll\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t10.1186/1471-2180-58\n\t\t\n\t\n\t\n\t\tBMC Microbiol\n\t\t\n\t\t\t5\n\t\t\t58\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708fc7723bebd86691ef4"},"refKey":7},
{"_key":"60c708fc7723bebd86691ef6","_id":"references/60c708fc7723bebd86691ef6","_rev":"_cfFl6zC---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708fc7723bebd86691ef4"},"refKey":4},
{"_key":"60c708fc7723bebd86691ef7","_id":"references/60c708fc7723bebd86691ef7","_rev":"_cfFl6zO---","tei":"\n\t\n\t\tSMART 7: recent updates to the protein domain annotation resource\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tTDoerks\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708fc7723bebd86691ef4"},"refKey":50},
{"_key":"60c708fc7723bebd86691ef8","_id":"references/60c708fc7723bebd86691ef8","_rev":"_cfFl6za---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708fc7723bebd86691ef4"},"refKey":48},
{"_key":"60c708fc7723bebd86691ef9","_id":"references/60c708fc7723bebd86691ef9","_rev":"_cfFl6zm---","tei":"\n\t\n\t\tPSORTb 3.0: Improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes\n\t\t\n\t\t\tNYYu\n\t\t\n\t\t\n\t\t\tJRWagner\n\t\t\n\t\t\n\t\t\tMRLaird\n\t\t\n\t\t\n\t\t\tGMelli\n\t\t\n\t\t\n\t\t\tSRey\n\t\t\n\t\t\n\t\t\tRLo\n\t\t\n\t\t\n\t\t\tPDao\n\t\t\n\t\t\n\t\t\tSSahinalp\n\t\t\n\t\t\n\t\t\tMEster\n\t\t\n\t\t\n\t\t\tLJFoster\n\t\t\n\t\t\n\t\t\tFS LBrinkman\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c708fc7723bebd86691ef4"},"refKey":83},
{"_key":"60c708fc7723bebd86691efa","_id":"references/60c708fc7723bebd86691efa","_rev":"_cfFl6zy---","tei":"\n\t\n\t\tPrinciples governing amino acid composition of integral membrane proteins: application to topology prediction 1 1Edited by J. Thornton\n\t\t\n\t\t\tGáborETusnády\n\t\t\n\t\t\n\t\t\tIstvánSimon\n\t\t\n\t\t10.1006/jmbi.1998.2107\n\t\t9769220\n\t\tS0022-2836(98)92107-6\n\t\tark:/67375/6H6-20MCPDQ1-7\n\t\tB26AD6A9AE17562BB7CCAE3C11BFA5D311ED3771\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t283\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c708fc7723bebd86691ef4"},"refKey":73},
{"_key":"60c708fc7723bebd86691efb","_id":"references/60c708fc7723bebd86691efb","_rev":"_cfFl60----","tei":"\n\t\n\t\tPSLpred: prediction of subcellular localization of bacterial proteins\n\t\t\n\t\t\tMBhasin\n\t\t\n\t\t\n\t\t\tAGarg\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1093/bioinformatics/bti309\n\t\t15699023\n\t\tark:/67375/HXZ-H1L1597S-H\n\t\tE456EF63CF62D724FA93A57E3A8C248D8CAC867B\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c708fc7723bebd86691ef4"},"refKey":9},
{"_key":"60c709067723bebd86691f14","_id":"references/60c709067723bebd86691f14","_rev":"_cfFl60G---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\t\n\t\n\t\n\t\tVirus Evol [Internet]\n\t\t\n\t\t\t1\n\t\t\t2016\n\t\t\n\t\n\tcitado 11 de septiembre de 2020\n\n","document":{"$oid":"60c709067723bebd86691f13"},"refKey":19},
{"_key":"60c709067723bebd86691f15","_id":"references/60c709067723bebd86691f15","_rev":"_cfFl60S---","tei":"\n\t\n\t\tTreeTime: Maximum-likelihood phylodynamic analysis\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tVadimPuller\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\t0000-0003-2525-1407\n\t\t\n\t\t10.1093/ve/vex042\n\t\t29340210\n\t\tPMC5758920\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t42\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c709067723bebd86691f13"},"refKey":20},
{"_key":"60c709067723bebd86691f16","_id":"references/60c709067723bebd86691f16","_rev":"_cfFl60e---","tei":"\n\t\n\t\tModelFinder: fast model selection for accurate phylogenetic estimates\n\t\t\n\t\t\tSKalyaanamoorthy\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tTkfWong\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tLSJermiin\n\t\t\n\t\n\t\n\t\tNat Methods. junio de\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709067723bebd86691f13"},"refKey":18},
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{"_key":"60c709107723bebd86691f26","_id":"references/60c709107723bebd86691f26","_rev":"_cfFl602---","tei":"\n\t\n\t\tProtein structure and sequence reanalysis of 2019-nCoV genome refutes snakes as its intermediate host and the unique similarity between its spike protein insertions and HIV-1\n\t\t\n\t\t\tCZhang\n\t\t\n\t\t\n\t\t\tWZheng\n\t\t\n\t\t\n\t\t\tXHuang\n\t\t\n\t\t\n\t\t\tEWBell\n\t\t\n\t\t\n\t\t\tXZhou\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\n\t\n\t\tJ Proteome Res\n\t\t\n\t\t\t19\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709107723bebd86691f24"},"refKey":33},
{"_key":"60c709107723bebd86691f27","_id":"references/60c709107723bebd86691f27","_rev":"_cfFl61C---","tei":"\n\t\n\t\tImproved methods for predicting peptide binding affinity to MHC class II molecules\n\t\t\n\t\t\tKKJensen\n\t\t\n\t\t\n\t\t\tMAndreatta\n\t\t\n\t\t\n\t\t\tPMarcatili\n\t\t\n\t\t\n\t\t\tSBuus\n\t\t\n\t\t\n\t\t\tJAGreenbaum\n\t\t\n\t\t\n\t\t\tZYan\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunology\n\t\t\n\t\t\t154\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709107723bebd86691f24"},"refKey":44},
{"_key":"60c709107723bebd86691f28","_id":"references/60c709107723bebd86691f28","_rev":"_cfFl61O---","tei":"\n\t\n\t\tSea view version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709107723bebd86691f24"},"refKey":51},
{"_key":"60c709107723bebd86691f29","_id":"references/60c709107723bebd86691f29","_rev":"_cfFl61a---","tei":"\n\t\n\t\tGromacs: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSPáll\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\n\t\n\t\tSoftwareX\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709107723bebd86691f24"},"refKey":58},
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{"_key":"60c709167723bebd86691f4b","_id":"references/60c709167723bebd86691f4b","_rev":"_cfFl61u---","tei":"\n\t\n\t\tMatplotlib: A 2D Graphics Environment\n\t\t\n\t\t\tJDHunter\n\t\t\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709167723bebd86691f4a"},"refKey":21},
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{"_key":"60c709167723bebd86691f4d","_id":"references/60c709167723bebd86691f4d","_rev":"_cfFl62G---","tei":"\n\t\n\t\tData structures for statistical computing in python\n\t\t\n\t\t\tWMckinney\n\t\t\n\t\n\t\n\t\tProc. of the 9th Python in Science Conf\n\t\t\t\tof the 9th Python in Science Conf\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709167723bebd86691f4a"},"refKey":19},
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{"_key":"60c709487723bebd86691f70","_id":"references/60c709487723bebd86691f70","_rev":"_cfFl62e---","tei":"\n\t\n\t\tA LSTM-based method for stock returns prediction: A case study of China stock market\n\t\t\n\t\t\tKaiChen\n\t\t\n\t\t\n\t\t\tYiZhou\n\t\t\n\t\t\n\t\t\tFangyanDai\n\t\t\n\t\t10.1109/bigdata.2015.7364089\n\t\n\t\n\t\t2015 IEEE International Conference on Big Data (Big Data)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709487723bebd86691f6f"},"refKey":6},
{"_key":"60c709487723bebd86691f71","_id":"references/60c709487723bebd86691f71","_rev":"_cfFl62q---","tei":"\n\t\n\t\tStock Price Reaction to News and No-news: Drift and Reversal After Headlines\n\t\t\n\t\t\tWesleySChan\n\t\t\n\t\t10.2139/ssrn.262452\n\t\t\n\t\n\t\n\t\tSSRN Electronic Journal\n\t\tSSRN Journal\n\t\t1556-5068\n\t\t\n\t\t\t70\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c709487723bebd86691f6f"},"refKey":5},
{"_key":"60c709487723bebd86691f72","_id":"references/60c709487723bebd86691f72","_rev":"_cfFl622---","tei":"\n\t\n\t\tPredicting a stock portfolio with the multivariate Bayesian structural time series model: Do news or emotions matter?\n\t\t\n\t\t\tSRJammalamadaka\n\t\t\n\t\t\n\t\t\tJQiu\n\t\t\n\t\t\n\t\t\tNNing\n\t\t\n\t\n\t\n\t\tInt J. Artif. Intell\n\t\t\n\t\t\t17\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709487723bebd86691f6f"},"refKey":19},
{"_key":"60c709487723bebd86691f73","_id":"references/60c709487723bebd86691f73","_rev":"_cfFl63C---","tei":"\n\t\n\t\tAdam: A method for stochastic optimization\n\t\t\n\t\t\tDPKingma\n\t\t\n\t\t\n\t\t\tJBa\n\t\t\n\t\tarXiv:1412.6980\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c709487723bebd86691f6f"},"refKey":22},
{"_key":"60c7094c7723bebd86691f98","_id":"references/60c7094c7723bebd86691f98","_rev":"_cfFl63O---","tei":"\n\t\n\t\tFastTree 2 -Approximately Maximum-Likelihood Trees for Large Alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7094c7723bebd86691f97"},"refKey":23},
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{"_key":"60c709b57723bebd86691fde","_id":"references/60c709b57723bebd86691fde","_rev":"_cfFl63u---","tei":"\n\t\n\t\tImmune epitope database analysis resource\n\t\t\n\t\t\tYKim\n\t\t\n\t\t\n\t\t\tJPonomarenko\n\t\t\n\t\t\n\t\t\tZZhu\n\t\t\n\t\t\n\t\t\tDTamang\n\t\t\n\t\t\n\t\t\tPWang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709b57723bebd86691fdc"},"refKey":31},
{"_key":"60c709b57723bebd86691fdf","_id":"references/60c709b57723bebd86691fdf","_rev":"_cfFl636---","tei":"\n\t\n\t\tPeptide binding predictions for HLA DR, DP and DQ molecules\n\t\t\n\t\t\tPWang\n\t\t\n\t\t\n\t\t\tJSidney\n\t\t\n\t\t\n\t\t\tYKim\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t11\n\t\t\t568\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709b57723bebd86691fdc"},"refKey":32},
{"_key":"60c709b57723bebd86691fe0","_id":"references/60c709b57723bebd86691fe0","_rev":"_cfFl64G---","tei":"\n\t\n\t\tNetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11\n\t\t\n\t\t\tCLundegaard\n\t\t\n\t\t\n\t\t\tKLamberth\n\t\t\n\t\t\n\t\t\tMHarndahl\n\t\t\n\t\t\n\t\t\tSBuus\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709b57723bebd86691fdc"},"refKey":33},
{"_key":"60c709b57723bebd86691fe1","_id":"references/60c709b57723bebd86691fe1","_rev":"_cfFl64S---","tei":"\n\t\n\t\tReliable prediction of T-cell epitopes using neural networks with novel sequence representations\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t\n\t\t\tCLundegaard\n\t\t\n\t\t\n\t\t\tPWorning\n\t\t\n\t\t\n\t\t\tSLLauemoller\n\t\t\n\t\t\n\t\t\tKLamberth\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709b57723bebd86691fdc"},"refKey":34},
{"_key":"60c709b57723bebd86691fe2","_id":"references/60c709b57723bebd86691fe2","_rev":"_cfFl64e---","tei":"\n\t\n\t\tGenerating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t6\n\t\t\t132\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709b57723bebd86691fdc"},"refKey":35},
{"_key":"60c709b57723bebd86691fe3","_id":"references/60c709b57723bebd86691fe3","_rev":"_cfFl64q---","tei":"\n\t\n\t\tQuantitative peptide binding motifs for 19 human and mouse MHC class I molecules derived using positional scanning combinatorial peptide libraries\n\t\t\n\t\t\tJSidney\n\t\t\n\t\t\n\t\t\tEAssarsson\n\t\t\n\t\t\n\t\t\tCMoore\n\t\t\n\t\t\n\t\t\tSNgo\n\t\t\n\t\t\n\t\t\tCPinilla\n\t\t\n\t\n\t\n\t\tImmunome Res\n\t\t\n\t\t\t4\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709b57723bebd86691fdc"},"refKey":36},
{"_key":"60c709b57723bebd86691fe4","_id":"references/60c709b57723bebd86691fe4","_rev":"_cfFl642---","tei":"\n\t\n\t\tImproved prediction of signal peptides: SignalP 3.0\n\t\t\n\t\t\tJDBendtsen\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t340\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c709b57723bebd86691fdc"},"refKey":27},
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{"_key":"60c70a617723bebd86692061","_id":"references/60c70a617723bebd86692061","_rev":"_cfFl65K---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c70a617723bebd86692060"},"refKey":221},
{"_key":"60c70a617723bebd86692062","_id":"references/60c70a617723bebd86692062","_rev":"_cfFl65W---","tei":"\n\t\n\t\tLessons Learned in Empirical Scoring with smina from the CSAR 2011 Benchmarking Exercise\n\t\t\n\t\t\tDavidRyanKoes\n\t\t\n\t\t\n\t\t\tMatthewPBaumgartner\n\t\t\n\t\t\n\t\t\tCarlosJCamacho\n\t\t\n\t\t10.1021/ci300604z\n\t\t23379370\n\t\tPMC3726561\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t53\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c70a617723bebd86692060"},"refKey":121},
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{"_key":"60c70a6e7723bebd86692086","_id":"references/60c70a6e7723bebd86692086","_rev":"_cfFl65u---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70a6e7723bebd86692085"},"refKey":48},
{"_key":"60c70a6e7723bebd86692087","_id":"references/60c70a6e7723bebd86692087","_rev":"_cfFl656---","tei":"\n\t\n\t\tThe RAST Server: rapid annotations using subsystems technology\n\t\t\n\t\t\tRKAziz\n\t\t\n\t\t\n\t\t\tDBartels\n\t\t\n\t\t\n\t\t\tAABest\n\t\t\n\t\t\n\t\t\tMDejongh\n\t\t\n\t\t\n\t\t\tTDisz\n\t\t\n\t\t\n\t\t\tRAEdwards\n\t\t\n\t\t\n\t\t\tKFormsma\n\t\t\n\t\t\n\t\t\tSGerdes\n\t\t\n\t\t\n\t\t\tEMGlass\n\t\t\n\t\t\n\t\t\tMKubal\n\t\t\n\t\t\n\t\t\tFMeyer\n\t\t\n\t\t\n\t\t\tGJOlsen\n\t\t\n\t\t\n\t\t\tROlson\n\t\t\n\t\t\n\t\t\tALOsterman\n\t\t\n\t\t\n\t\t\tRAOverbeek\n\t\t\n\t\t\n\t\t\tLKMcneil\n\t\t\n\t\t\n\t\t\tDPaarmann\n\t\t\n\t\t\n\t\t\tTPaczian\n\t\t\n\t\t\n\t\t\tBParrello\n\t\t\n\t\t\n\t\t\tGDPusch\n\t\t\n\t\t\n\t\t\tCReich\n\t\t\n\t\t\n\t\t\tRStevens\n\t\t\n\t\t\n\t\t\tOVassieva\n\t\t\n\t\t\n\t\t\tVVonstein\n\t\t\n\t\t\n\t\t\tAWilke\n\t\t\n\t\t\n\t\t\tOZagnitko\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t9\n\t\t\t75\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70a6e7723bebd86692085"},"refKey":45},
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{"_key":"60c70a6e7723bebd8669208a","_id":"references/60c70a6e7723bebd8669208a","_rev":"_cfFl66i---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70a6e7723bebd86692085"},"refKey":46},
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{"_key":"60c70a7b7723bebd8669209f","_id":"references/60c70a7b7723bebd8669209f","_rev":"_cfFl67q---","tei":"\n\t\n\t\t\n\t\tChEMBL: A Large-Scale Bioactivity Database for Drug Discovery\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70a7b7723bebd86692099"},"refKey":71},
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{"_key":"60c70bec7723bebd86692252","_id":"references/60c70bec7723bebd86692252","_rev":"_cfFl7_K---","tei":"\n\t\n\t\tQuantitative comparison between the commercial software STRATOS® by Philips and a homemade software for voxel-dosimetry in radiopeptide therapy\n\t\t\n\t\t\tEGrassi\n\t\t\n\t\t\n\t\t\tFFioroni\n\t\t\n\t\t\n\t\t\tVFerri\n\t\t\n\t\t\n\t\t\tEMezzenga\n\t\t\n\t\t\n\t\t\tMASarti\n\t\t\n\t\t\n\t\t\tTPaulus\n\t\t\n\t\t\n\t\t\tNLanconelli\n\t\t\n\t\t\n\t\t\tAFilice\n\t\t\n\t\t\n\t\t\tAVersari\n\t\t\n\t\t\n\t\t\tMIori\n\t\t\n\t\t10.1016/j.ejmp.2014.10.002\n\t\t25457430\n\t\t\n\t\n\t\n\t\tPhysica Medica\n\t\tPhysica Medica\n\t\t1120-1797\n\t\t\n\t\t\t31\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c70bec7723bebd86692251"},"refKey":24},
{"_key":"60c70bf97723bebd86692270","_id":"references/60c70bf97723bebd86692270","_rev":"_cfFl7_W---","tei":"\n\t\n\t\tThe making of TPC-DS\n\t\t\n\t\t\tRONambiar\n\t\t\n\t\t\n\t\t\tMPoess\n\t\t\n\t\n\t\n\t\tProceedings of the 32nd International Conference on Very Large Data Bases\n\t\t\t\tthe 32nd International Conference on Very Large Data Bases\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70bf97723bebd8669226f"},"refKey":23},
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{"_key":"60c70bf97723bebd86692272","_id":"references/60c70bf97723bebd86692272","_rev":"_cfFl7_u---","tei":"\n\t\n\t\tA Practical Framework for Privacy-Preserving NoSQL Databases\n\t\t\n\t\t\tRicardoMacedo\n\t\t\n\t\t\n\t\t\tJoaoPaulo\n\t\t\n\t\t\n\t\t\tRogerioPontes\n\t\t\n\t\t\n\t\t\tBernardoPortela\n\t\t\n\t\t\n\t\t\tTiagoOliveira\n\t\t\n\t\t\n\t\t\tMiguelMatos\n\t\t\n\t\t\n\t\t\tRuiOliveira\n\t\t\n\t\t10.1109/srds.2017.10\n\t\t\n\t\n\t\n\t\t2017 IEEE 36th Symposium on Reliable Distributed Systems (SRDS)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70bf97723bebd8669226f"},"refKey":22},
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{"_key":"60c70c6d7723bebd866922cf","_id":"references/60c70c6d7723bebd866922cf","_rev":"_cfFl7Ae---","tei":"\n\t\n\t\tPLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses\n\t\t\n\t\t\tShaunPurcell\n\t\t\n\t\t\n\t\t\tBenjaminNeale\n\t\t\n\t\t\n\t\t\tKatheTodd-Brown\n\t\t\n\t\t\n\t\t\tLoriThomas\n\t\t\n\t\t\n\t\t\tManuelA RFerreira\n\t\t\n\t\t\n\t\t\tDavidBender\n\t\t\n\t\t\n\t\t\tJulianMaller\n\t\t\n\t\t\n\t\t\tPamelaSklar\n\t\t\n\t\t\n\t\t\tPaulI WDe Bakker\n\t\t\n\t\t\n\t\t\tMarkJDaly\n\t\t\n\t\t\n\t\t\tPakCSham\n\t\t\n\t\t10.1086/519795\n\t\t17701901\n\t\tPMC1950838\n\t\t\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c70c6d7723bebd866922ce"},"refKey":39},
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{"_key":"60c70e187723bebd866924f7","_id":"references/60c70e187723bebd866924f7","_rev":"_cfFl7HC---","tei":"\n\t\n\t\tUsefulness of the ElliPro epitope predictor program in defining the repertoire of HLA-ABC eplets\n\t\t\n\t\t\tReneJDuquesnoy\n\t\t\n\t\t\n\t\t\tMarilynMarrari\n\t\t\n\t\t10.1016/j.humimm.2017.03.005\n\t\t28336309\n\t\n\t\n\t\tHuman Immunology\n\t\tHuman Immunology\n\t\t0198-8859\n\t\t\n\t\t\t78\n\t\t\t7-8\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c70e187723bebd866924f4"},"refKey":15},
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{"_key":"60c70e287723bebd8669250c","_id":"references/60c70e287723bebd8669250c","_rev":"_cfFl7He---","tei":"\n\t\n\t\tDoor Opener/grabber-Covid-19/Corona by\n\t\t\n\t\t\t\"Ergonomic\n\t\t\n\t\t\n\t\t\tDeri\n\t\t\n\t\t\n\t\tSimonSolar2C-Thingiverse\n\t\t\n\t\t\t\n\t\t\t4\n\t\t\n\t\n\n","document":{"$oid":"60c70e287723bebd8669250b"},"refKey":102},
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{"_key":"60c70e397723bebd8669252b","_id":"references/60c70e397723bebd8669252b","_rev":"_cfFl7IG---","tei":"\n\t\n\t\tAn Overview of Ensembl\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tTDAndrews\n\t\t\n\t\t\n\t\t\tPBevan\n\t\t\n\t\t\n\t\t\tMCaccamo\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tLClarke\n\t\t\n\t\t\n\t\t\tGCoates\n\t\t\n\t\t\n\t\t\tJCuff\n\t\t\n\t\t\n\t\t\tVCurwen\n\t\t\n\t\t\n\t\t\tTCutts\n\t\t\n\t\t\n\t\t\tTDown\n\t\t\n\t\t\n\t\t\tEEyras\n\t\t\n\t\t\n\t\t\tXMFernandez-Suarez\n\t\t\n\t\t\n\t\t\tPGane\n\t\t\n\t\t\n\t\t\tBGibbins\n\t\t\n\t\t\n\t\t\tJGilbert\n\t\t\n\t\t\n\t\t\tMHammond\n\t\t\n\t\t\n\t\t\tHRHotz\n\t\t\n\t\t\n\t\t\tVIyer\n\t\t\n\t\t\n\t\t\tKJekosch\n\t\t\n\t\t\n\t\t\tAKahari\n\t\t\n\t\t\n\t\t\tAKasprzyk\n\t\t\n\t\t\n\t\t\tDKeefe\n\t\t\n\t\t\n\t\t\tSKeenan\n\t\t\n\t\t\n\t\t\tHLehvaslaiho\n\t\t\n\t\t\n\t\t\tGMcvicker\n\t\t\n\t\t\n\t\t\tCMelsopp\n\t\t\n\t\t\n\t\t\tPMeidl\n\t\t\n\t\t\n\t\t\tEMongin\n\t\t\n\t\t\n\t\t\tRPettett\n\t\t\n\t\t\n\t\t\tSPotter\n\t\t\n\t\t\n\t\t\tGProctor\n\t\t\n\t\t\n\t\t\tRaeMSearle\n\t\t\n\t\t\n\t\t\tSSlater\n\t\t\n\t\t\n\t\t\tGSmedley\n\t\t\n\t\t\n\t\t\tDSmith\n\t\t\n\t\t\n\t\t\tJSpooner\n\t\t\n\t\t\n\t\t\tWStabenau\n\t\t\n\t\t\n\t\t\tAStalker\n\t\t\n\t\t\n\t\t\tJStorey\n\t\t\n\t\t\n\t\t\tRUreta-Vidal\n\t\t\n\t\t\n\t\t\tAWoodwark\n\t\t\n\t\t\n\t\t\tKCCameron\n\t\t\n\t\t\n\t\t\tGDurbin\n\t\t\n\t\t\n\t\t\tRCox\n\t\t\n\t\t\n\t\t\tAHubbard\n\t\t\n\t\t\n\t\t\tTClamp\n\t\t\n\t\t\n\t\t\tM\n\t\t\n\t\t10.1101/gr.1860604\n\t\t15078858\n\t\tPMC479121\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t14\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c70e397723bebd8669252a"},"refKey":53},
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{"_key":"60c70e817723bebd86692562","_id":"references/60c70e817723bebd86692562","_rev":"_cfFl7J----","tei":"\n\t\n\t\tAssociation of HLA Class I and Class II Polymorphisms with Age-Related Macular Degeneration\n\t\t\n\t\t\tSriniVGoverdhan\n\t\t\n\t\t\n\t\t\tMartinWHowell\n\t\t\n\t\t\n\t\t\tRobertFMullins\n\t\t\n\t\t\n\t\t\tCliveOsmond\n\t\t\n\t\t\n\t\t\tPeterRHodgkins\n\t\t\n\t\t\n\t\t\tJamesSelf\n\t\t\n\t\t\n\t\t\tKimAvery\n\t\t\n\t\t\n\t\t\tAndrewJLotery\n\t\t\n\t\t10.1167/iovs.04-0928\n\t\t15851575\n\t\t\n\t\n\t\n\t\tInvestigative Opthalmology & Visual Science\n\t\tInvest. Ophthalmol. Vis. Sci.\n\t\t1552-5783\n\t\t\n\t\t\t46\n\t\t\t5\n\t\t\t1726\n\t\t\t\n\t\t\tAssociation for Research in Vision and Ophthalmology (ARVO)\n\t\t\n\t\n\n","document":{"$oid":"60c70e817723bebd86692561"},"refKey":16},
{"_key":"60c70e967723bebd86692574","_id":"references/60c70e967723bebd86692574","_rev":"_cfFl7JO---","tei":"\n\t\n\t\tBirth-death skyline plot reveals temporal changes of epidemic spread in HIV and hepatitis C virus (HCV)\n\t\t\n\t\t\tTStadler\n\t\t\n\t\t\n\t\t\tDKuhnert\n\t\t\n\t\t\n\t\t\tSBonhoeffer\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t10.1073/pnas.1207965110\n\t\t23248286\n\t\tPMC3538216\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t110\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c70e967723bebd86692573"},"refKey":21},
{"_key":"60c70e967723bebd86692575","_id":"references/60c70e967723bebd86692575","_rev":"_cfFl7Ja---","tei":"\n\t\n\t\tSpreaD3: interactive visualization of spatiotemporal history and trait evolutionary processes\n\t\t\n\t\t\tFBielejec\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tBVrancken\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70e967723bebd86692573"},"refKey":19},
{"_key":"60c70ef47723bebd866925aa","_id":"references/60c70ef47723bebd866925aa","_rev":"_cfFl7Jq---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c70ef47723bebd866925a9"},"refKey":19},
{"_key":"60c70ef47723bebd866925ab","_id":"references/60c70ef47723bebd866925ab","_rev":"_cfFl7J6---","tei":"\n\t\n\t\tBuilding Phylogenetic Trees from Molecular Data with MEGA\n\t\t\n\t\t\tBGHall\n\t\t\n\t\t10.1093/molbev/mst012\n\t\t23486614\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c70ef47723bebd866925a9"},"refKey":20},
{"_key":"60c70ef47723bebd866925ac","_id":"references/60c70ef47723bebd866925ac","_rev":"_cfFl7KG---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tDanielPeterson\n\t\t\n\t\t\n\t\t\tAlanFilipski\n\t\t\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t10.1093/molbev/mst197\n\t\t24132122\n\t\tPMC3840312\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c70ef47723bebd866925a9"},"refKey":21},
{"_key":"60c70f187723bebd866925bb","_id":"references/60c70f187723bebd866925bb","_rev":"_cfFl7KS---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\tID 550\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70f187723bebd866925ba"},"refKey":11},
{"_key":"60c70f287723bebd866925d5","_id":"references/60c70f287723bebd866925d5","_rev":"_cfFl7Ki---","tei":"\n\t\n\t\tCHARMM-GUI Membrane Builder for Mixed Bilayers and Its Application to Yeast Membranes\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tJosephBLim\n\t\t\n\t\t\n\t\t\tJefferyBKlauda\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1016/j.bpj.2009.04.013\n\t\t19580743\n\t\tPMC2711372\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t97\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c70f287723bebd866925d4"},"refKey":34},
{"_key":"60c70f287723bebd866925d6","_id":"references/60c70f287723bebd866925d6","_rev":"_cfFl7Ku---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c70f287723bebd866925d4"},"refKey":25},
{"_key":"60c70f287723bebd866925d7","_id":"references/60c70f287723bebd866925d7","_rev":"_cfFl7K6---","tei":"\n\t\n\t\tSchrödinger L The PyMOL molecular graphics system\n\t\t\n\t\n\n","document":{"$oid":"60c70f287723bebd866925d4"},"refKey":26},
{"_key":"60c70f407723bebd866925e8","_id":"references/60c70f407723bebd866925e8","_rev":"_cfFl7LG---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70f407723bebd866925e7"},"refKey":36},
{"_key":"60c70f677723bebd866925f4","_id":"references/60c70f677723bebd866925f4","_rev":"_cfFl7LS---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c70f677723bebd866925f3"},"refKey":6},
{"_key":"60c70f7e7723bebd86692600","_id":"references/60c70f7e7723bebd86692600","_rev":"_cfFl7Le---","tei":"\n\t\n\t\tHHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tAHauser\n\t\t\n\t\t\n\t\t\tJSo ¨ding\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70f7e7723bebd866925ff"},"refKey":52},
{"_key":"60c70f7e7723bebd86692601","_id":"references/60c70f7e7723bebd86692601","_rev":"_cfFl7Lq---","tei":"\n\t\n\t\tProtein homology detection by HMM-HMM comparison\n\t\t\n\t\t\tJSo ¨ding\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70f7e7723bebd866925ff"},"refKey":60},
{"_key":"60c70f7e7723bebd86692602","_id":"references/60c70f7e7723bebd86692602","_rev":"_cfFl7L2---","tei":"\n\t\n\t\tCLUSTAL W and CLUSTAL X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWilm, A. & other authors\n\n","document":{"$oid":"60c70f7e7723bebd866925ff"},"refKey":34},
{"_key":"60c70f7e7723bebd86692603","_id":"references/60c70f7e7723bebd86692603","_rev":"_cfFl7MC---","tei":"\n\t\n\t\tDeciphering key features in protein structures with the new ENDscript server\n\t\t\n\t\t\tXRobert\n\t\t\n\t\t\n\t\t\tPGouet\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70f7e7723bebd866925ff"},"refKey":53},
{"_key":"60c70f7e7723bebd86692604","_id":"references/60c70f7e7723bebd86692604","_rev":"_cfFl7MO---","tei":"\n\t\n\t\tScalable web services for the PSIPRED Protein Analysis Workbench\n\t\t\n\t\t\tDWBuchan\n\t\t\n\t\t\n\t\t\tFMinneci\n\t\t\n\t\t\n\t\t\tTCNugent\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70f7e7723bebd866925ff"},"refKey":4},
{"_key":"60c70f7e7723bebd86692605","_id":"references/60c70f7e7723bebd86692605","_rev":"_cfFl7Ma---","tei":"\n\t\n\t\tBio3d: an R package for the comparative analysis of protein structures\n\t\t\n\t\t\tBJGrant\n\t\t\n\t\t\n\t\t\tAPRodrigues\n\t\t\n\t\t\n\t\t\tKMElsawy\n\t\t\n\t\t\n\t\t\tJAMccammon\n\t\t\n\t\t\n\t\t\tLSCaves\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70f7e7723bebd866925ff"},"refKey":25},
{"_key":"60c70f7e7723bebd86692606","_id":"references/60c70f7e7723bebd86692606","_rev":"_cfFl7Mm---","tei":"\n\t\n\t\tPartitioning the Genetic Diversity of a Virus Family: Approach and Evaluation through a Case Study of Picornaviruses\n\t\t\n\t\t\tCLauber\n\t\t\n\t\t\n\t\t\tAEGorbalenya\n\t\t\n\t\t10.1128/jvi.07173-11\n\t\t22278230\n\t\tPMC3302503\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJournal of Virology\n\t\t0022-538X\n\t\t\n\t\t\t86\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c70f7e7723bebd866925ff"},"refKey":35},
{"_key":"60c70f7e7723bebd86692607","_id":"references/60c70f7e7723bebd86692607","_rev":"_cfFl7Mu---","tei":"\n\t\n\t\tHMMER web server: interactive sequence similarity searching\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\t&S RClements\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tsuppl\n\n","document":{"$oid":"60c70f7e7723bebd866925ff"},"refKey":19},
{"_key":"60c70f7e7723bebd86692608","_id":"references/60c70f7e7723bebd86692608","_rev":"_cfFl7M6---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70f7e7723bebd866925ff"},"refKey":16},
{"_key":"60c70f7e7723bebd86692609","_id":"references/60c70f7e7723bebd86692609","_rev":"_cfFl7NG---","tei":"\n\t\n\t\tThe Jpred 3 secondary structure prediction server\n\t\t\n\t\t\tCCole\n\t\t\n\t\t\n\t\t\tJDBarber\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server\n\n","document":{"$oid":"60c70f7e7723bebd866925ff"},"refKey":8},
{"_key":"60c70f857723bebd8669261e","_id":"references/60c70f857723bebd8669261e","_rev":"_cfFl7NS---","tei":"\n\t\n\t\tTransmissibility of 2019-ncov\n\t\t\n\t\t\tNImai\n\t\t\n\t\t\n\t\t\tACori\n\t\t\n\t\t\n\t\t\tIDorigatti\n\t\t\n\t\t\n\t\n\t\n\t\tInt J Infect Dis\n\t\t\n\t\t\t3\n\t\t\n\t\n\tReport\n\n","document":{"$oid":"60c70f857723bebd8669261d"},"refKey":5},
{"_key":"60c70f8d7723bebd86692626","_id":"references/60c70f8d7723bebd86692626","_rev":"_cfFl7Ne---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tZMOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70f8d7723bebd86692625"},"refKey":18},
{"_key":"60c70f8d7723bebd86692627","_id":"references/60c70f8d7723bebd86692627","_rev":"_cfFl7Nq---","tei":"\n\t\n\t\tAutomated MAD and MIR structure solution\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tJoelBerendzen\n\t\t\n\t\t10.1107/s0907444999000839\n\t\t10089316\n\t\tPMC2746121\n\t\tark:/67375/WNG-6990X6L4-P\n\t\t2FE8F0266CA4A6B01599B11B2A2306B9D6533034\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t55\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c70f8d7723bebd86692625"},"refKey":19},
{"_key":"60c70f977723bebd8669263b","_id":"references/60c70f977723bebd8669263b","_rev":"_cfFl7N2---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c70f977723bebd8669263a"},"refKey":90},
{"_key":"60c70fc27723bebd86692664","_id":"references/60c70fc27723bebd86692664","_rev":"_cfFl7OC---","tei":"\n\t\n\t\tTopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tGPertea\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tHPimentel\n\t\t\n\t\t\n\t\t\tRKelley\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t14\n\t\t\tR36\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70fc27723bebd86692663"},"refKey":36},
{"_key":"60c70fc27723bebd86692665","_id":"references/60c70fc27723bebd86692665","_rev":"_cfFl7OO---","tei":"\n\t\n\t\tDifferential analysis of gene regulation at transcript resolution with RNA-seq\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tDGHendrickson\n\t\t\n\t\t\n\t\t\tMSauvageau\n\t\t\n\t\t\n\t\t\tLGoff\n\t\t\n\t\t\n\t\t\tJLRinn\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c70fc27723bebd86692663"},"refKey":37},
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{"_key":"60c711a07723bebd866927e4","_id":"references/60c711a07723bebd866927e4","_rev":"_cfFl7SK---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/s0021889892009944\n\t\tark:/67375/WNG-1V02WKNX-V\n\t\t7FF6EABFE5D6E9AB8536E310B9782B625E4CA368\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c711a07723bebd866927e0"},"refKey":25},
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{"_key":"60c711a07723bebd866927e6","_id":"references/60c711a07723bebd866927e6","_rev":"_cfFl7Si---","tei":"\n\t\n\t\tSWISS-MODEL and the Swiss-Pdb Viewer: An environment for comparative protein modeling\n\t\t\n\t\t\tNicolasGuex\n\t\t\n\t\t\n\t\t\tManuelCPeitsch\n\t\t\n\t\t10.1002/elps.1150181505\n\t\t9504803\n\t\tark:/67375/WNG-JM4T1Z8G-K\n\t\t80A3D30408CDDCFAD6FB0CF212ABBA114995BAF3\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\tElectrophoresis\n\t\t0173-0835\n\t\t1522-2683\n\t\t\n\t\t\t18\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c711a07723bebd866927e0"},"refKey":24},
{"_key":"60c711b17723bebd86692804","_id":"references/60c711b17723bebd86692804","_rev":"_cfFl7Su---","tei":"\n\t\n\t\tModeling the MHC class I pathway by combining predictions of proteasomal cleavage,TAP transport and MHC class I binding\n\t\t\n\t\t\tSTenzer\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tSBulik\n\t\t\n\t\t\n\t\t\tOSchoor\n\t\t\n\t\t\n\t\t\tCLemmel\n\t\t\n\t\t\n\t\t\tMMSchatz\n\t\t\n\t\t\n\t\t\tP-MKloetzel\n\t\t\n\t\t\n\t\t\tH-GRammensee\n\t\t\n\t\t\n\t\t\tHSchild\n\t\t\n\t\t\n\t\t\tH-GHolzhütter\n\t\t\n\t\t10.1007/s00018-005-4528-2\n\t\t15868101\n\t\tark:/67375/VQC-G5PDXKZH-X\n\t\t82E3CDD8D35F3E8FCA00C0ECFC0A3DF05C7C7DDC\n\t\n\t\n\t\tCMLS Cellular and Molecular Life Sciences\n\t\tCMLS, Cell. Mol. Life Sci.\n\t\t1420-682X\n\t\t1420-9071\n\t\t\n\t\t\t62\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c711b17723bebd86692803"},"refKey":100},
{"_key":"60c711b17723bebd86692805","_id":"references/60c711b17723bebd86692805","_rev":"_cfFl7S6---","tei":"\n\t\n\t\tPrediction of MHC class I binding peptides using profile motifs\n\t\t\n\t\t\tPedroAReche\n\t\t\n\t\t\n\t\t\tJohn-PaulGlutting\n\t\t\n\t\t\n\t\t\tEllisLReinherz\n\t\t\n\t\t10.1016/s0198-8859(02)00432-9\n\t\t12175724\n\t\t\n\t\n\t\n\t\tHuman Immunology\n\t\tHuman Immunology\n\t\t0198-8859\n\t\t\n\t\t\t63\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c711b17723bebd86692803"},"refKey":36},
{"_key":"60c711b17723bebd86692806","_id":"references/60c711b17723bebd86692806","_rev":"_cfFl7TG---","tei":"\n\t\n\t\tAn integrative approach to CTL epitope prediction: A combined algorithm integrating MHC class I binding, TAP transport efficiency, and proteasomal cleavage predictions\n\t\t\n\t\t\tMetteVoldbyLarsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1002/eji.200425811\n\t\t15997466\n\t\n\t\n\t\tEuropean Journal of Immunology\n\t\tEur. J. Immunol.\n\t\t0014-2980\n\t\t1521-4141\n\t\t\n\t\t\t35\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c711b17723bebd86692803"},"refKey":99},
{"_key":"60c711b17723bebd86692807","_id":"references/60c711b17723bebd86692807","_rev":"_cfFl7TO---","tei":"\n\t\n\t\tPrediction of well-conserved HIV-1 ligands using a matrix-based algorithm, EpiMatrix\n\t\t\n\t\t\tJRSchafer\n\t\t\n\t\t\n\t\t\tBMJesdale\n\t\t\n\t\t\n\t\t\tJAGeorge\n\t\t\n\t\t\n\t\t\tNMKouttab\n\t\t\n\t\t10.1016/s0264-410x(98)00173-x\n\t\t9795396\n\t\tS0264-410X(98)00173-X\n\t\tark:/67375/6H6-0RFJQDW3-3\n\t\tDF0FA8E7918CB0DED165DA6AAD409B5474701D44\n\t\n\t\n\t\tVaccine\n\t\tVaccine\n\t\t0264-410X\n\t\t\n\t\t\t16\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c711b17723bebd86692803"},"refKey":34},
{"_key":"60c711b17723bebd86692808","_id":"references/60c711b17723bebd86692808","_rev":"_cfFl7Ta---","tei":"\n\t\n\t\tPrecise prediction of major histocompatibility complex class II-peptide interaction based on peptide side chain scanning\n\t\t\n\t\t\tJHammer\n\t\t\n\t\t\n\t\t\tEBono\n\t\t\n\t\t\n\t\t\tFGallazzi\n\t\t\n\t\t\n\t\t\tCBelunis\n\t\t\n\t\t\n\t\t\tZNagy\n\t\t\n\t\t\n\t\t\tFSinigaglia\n\t\t\n\t\t10.1084/jem.180.6.2353\n\t\t7964508\n\t\tPMC2191799\n\t\t\n\t\n\t\n\t\tJournal of Experimental Medicine\n\t\tJournal of Experimental Medicine\n\t\t0022-1007\n\t\t1540-9538\n\t\t\n\t\t\t180\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tRockefeller University Press\n\t\t\n\t\n\n","document":{"$oid":"60c711b17723bebd86692803"},"refKey":111},
{"_key":"60c711b17723bebd86692809","_id":"references/60c711b17723bebd86692809","_rev":"_cfFl7Tm---","tei":"\n\t\n\t\tImproved prediction of MHC class I and class II epitopes using a novel Gibbs sampling approach\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t\n\t\t\tCLundegaard\n\t\t\n\t\t\n\t\t\tPWorning\n\t\t\n\t\t\n\t\t\tCSHvid\n\t\t\n\t\t\n\t\t\tKLamberth\n\t\t\n\t\t\n\t\t\tSBuus\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t10.1093/bioinformatics/bth100\n\t\t14962912\n\t\tark:/67375/HXZ-BT7ND8R2-D\n\t\t9177F441C07BE2E503D0999BDA5709FC0087D6C6\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c711b17723bebd86692803"},"refKey":37},
{"_key":"60c711b17723bebd8669280a","_id":"references/60c711b17723bebd8669280a","_rev":"_cfFl7Ty---","tei":"\n\t\n\t\tTwo novel T cell epitope prediction algorithms based on MHC-binding motifs; comparison of predicted and published epitopes from Mycobacterium tuberculosis and HIV protein sequences\n\t\t\n\t\t\tGEMeister\n\t\t\n\t\t\n\t\t\tCGRoberts\n\t\t\n\t\t\n\t\t\tJABerzofsky\n\t\t\n\t\t\n\t\t\tDeGroot\n\t\t\n\t\t\n\t\t\tAS\n\t\t\n\t\t10.1016/0264-410x(94)00014-e\n\t\t7483779\n\t\t0264-410X(94)00014-E\n\t\tark:/67375/6H6-J552GPHH-H\n\t\tEE676FAEB7D7A60C287E51EE6C49B25933B3A8DB\n\t\n\t\n\t\tVaccine\n\t\t0264-410X\n\t\t\n\t\t\t13\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c711b17723bebd86692803"},"refKey":31},
{"_key":"60c711b17723bebd8669280b","_id":"references/60c711b17723bebd8669280b","_rev":"_cfFl7U----","tei":"\n\t\n\t\tScheme for ranking potential HLA-A2 binding peptides based on independent binding of individual peptide side-chains\n\t\t\n\t\t\tKCParker\n\t\t\n\t\t\n\t\t\tMABednarek\n\t\t\n\t\t\n\t\t\tJEColigan\n\t\t\n\t\n\t\n\t\tJ Immunol\n\t\t\n\t\t\t152\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c711b17723bebd86692803"},"refKey":32},
{"_key":"60c711b17723bebd8669280c","_id":"references/60c711b17723bebd8669280c","_rev":"_cfFl7UK---","tei":"\n\t\n\t\tPeptide binding specificity of major histocompatibility complex class I resolved into an array of apparently independent subspecificities: quantitation by peptide libraries and improved prediction of binding\n\t\t\n\t\t\tAnetteStryhn\n\t\t\n\t\t\n\t\t\tLarsØstergaardPedersen\n\t\t\n\t\t\n\t\t\tTinaRomme\n\t\t\n\t\t\n\t\t\tCharlotteBisgaardHolm\n\t\t\n\t\t\n\t\t\tArneHolm\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t10.1002/eji.1830260836\n\t\t8765039\n\t\n\t\n\t\tEuropean Journal of Immunology\n\t\tEur. J. Immunol.\n\t\t0014-2980\n\t\t1521-4141\n\t\t\n\t\t\t26\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c711b17723bebd86692803"},"refKey":33},
{"_key":"60c711b17723bebd8669280d","_id":"references/60c711b17723bebd8669280d","_rev":"_cfFl7UW---","tei":"\n\t\n\t\tMHC motif viewer\n\t\t\n\t\t\tNicolasRapin\n\t\t\n\t\t\n\t\t\tIlkaHoof\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1007/s00251-008-0330-2\n\t\t18766337\n\t\tPMC2613509\n\t\tark:/67375/VQC-G77NK18F-V\n\t\t90E3124DA345DAF42203FA2BF3180F18EFBD07FD\n\t\n\t\n\t\tImmunogenetics\n\t\tImmunogenetics\n\t\t0093-7711\n\t\t1432-1211\n\t\t\n\t\t\t60\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c711b17723bebd86692803"},"refKey":128},
{"_key":"60c711e17723bebd86692844","_id":"references/60c711e17723bebd86692844","_rev":"_cfFl7Ui---","tei":"\n\t\n\t\tBindingDB in 2015: a public database for medicinal chemistry, computational chemistry and systems pharmacology\n\t\t\n\t\t\tMKGilson\n\t\t\n\t\t\n\t\t\tTLiu\n\t\t\n\t\t\n\t\t\tMBaitaluk\n\t\t\n\t\t\n\t\t\tGNicola\n\t\t\n\t\t\n\t\t\tLHwang\n\t\t\n\t\t\n\t\t\tJChong\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t44\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c711e17723bebd86692843"},"refKey":60},
{"_key":"60c711e17723bebd86692845","_id":"references/60c711e17723bebd86692845","_rev":"_cfFl7Uu---","tei":"\n\t\n\t\tMapping the human protein interactome\n\t\t\n\t\t\tDanielFigeys\n\t\t\n\t\t10.1038/cr.2008.72\n\t\t18574500\n\t\t\n\t\n\t\n\t\tCell Research\n\t\tCell Res\n\t\t1001-0602\n\t\t1748-7838\n\t\t\n\t\t\t18\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c711e17723bebd86692843"},"refKey":62},
{"_key":"60c711e17723bebd86692846","_id":"references/60c711e17723bebd86692846","_rev":"_cfFl7U6---","tei":"\n\t\n\t\tChEMBL: towards direct deposition of bioassay data\n\t\t\n\t\t\tDavidMendez\n\t\t\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tAPatríciaBento\n\t\t\n\t\t\n\t\t\tJonChambers\n\t\t\n\t\t\n\t\t\tMarleenDe veij\n\t\t\n\t\t\n\t\t\tEloyFélix\n\t\t\n\t\t\n\t\t\tMaríaPaulaMagariños\n\t\t\n\t\t\n\t\t\tJuanFMosquera\n\t\t\n\t\t\n\t\t\tPrudenceMutowo\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tMaríaGordillo-Marañón\n\t\t\n\t\t\n\t\t\tFionaHunter\n\t\t\n\t\t\n\t\t\tLauraJunco\n\t\t\n\t\t\n\t\t\tGraceMugumbate\n\t\t\n\t\t\n\t\t\tMilagrosRodriguez-Lopez\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tNicolasBosc\n\t\t\n\t\t\n\t\t\tChrisJRadoux\n\t\t\n\t\t\n\t\t\tAldoSegura-Cabrera\n\t\t\n\t\t\n\t\t\tAnneHersey\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t10.1093/nar/gky1075\n\t\t30398643\n\t\tPMC6323927\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c711e17723bebd86692843"},"refKey":56},
{"_key":"60c711e17723bebd86692847","_id":"references/60c711e17723bebd86692847","_rev":"_cfFl7VG---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c711e17723bebd86692843"},"refKey":83},
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{"_key":"60c714247723bebd86692a7a","_id":"references/60c714247723bebd86692a7a","_rev":"_cfFl7d2---","tei":"\n\t\n\t\tPredicting antigen-specificity of single T-cells based on TCR CDR3 regions\n\t\t\n\t\t\tDavidSFischer\n\t\t\t0000-0002-1293-7656\n\t\t\n\t\t\n\t\t\tYihanWu\n\t\t\n\t\t\n\t\t\tBenjaminSchubert\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\t0000-0002-2419-1943\n\t\t\n\t\t10.1101/734053\n\t\t\n\t\n\t\n\t\tMolecular Systems Biology\n\t\t\n\t\t\t16\n\t\t\te9416\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c714247723bebd86692a79"},"refKey":55},
{"_key":"60c714247723bebd86692a7b","_id":"references/60c714247723bebd86692a7b","_rev":"_cfFl7eC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tFChollet\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c714247723bebd86692a79"},"refKey":61},
{"_key":"60c714247723bebd86692a7c","_id":"references/60c714247723bebd86692a7c","_rev":"_cfFl7eK---","tei":"\n\t\n\t\tDetermining epitope specificity of T cell receptors with TCRGP\n\t\t\n\t\t\tEmmiJokinen\n\t\t\n\t\t\n\t\t\tJaniHuuhtanen\n\t\t\n\t\t\n\t\t\tSatuMustjoki\n\t\t\t0000-0002-0816-8241\n\t\t\n\t\t\n\t\t\tMarkusHeinonen\n\t\t\n\t\t\n\t\t\tHarriLähdesmäki\n\t\t\n\t\t10.1101/542332\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t542332\n\t\t\n\t\n\n","document":{"$oid":"60c714247723bebd86692a79"},"refKey":54},
{"_key":"60c714387723bebd86692a9e","_id":"references/60c714387723bebd86692a9e","_rev":"_cfFl7eW---","tei":"\n\t\n\t\tOn Unification of QBF Resolution-Based Calculi\n\t\t\n\t\t\tOlafBeyersdorff\n\t\t\n\t\t\n\t\t\tLeroyChew\n\t\t\n\t\t\n\t\t\tMikolášJanota\n\t\t\n\t\t10.1007/978-3-662-44465-8_8\n\t\t\n\t\t\n\t\n\t\n\t\tMathematical Foundations of Computer Science 2014\n\t\t\t\t\n\t\t\tECsuhaj-Varjú\n\t\t\tMDietzfelbinger\n\t\t\tZÉsik\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t8635\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c714387723bebd86692a9d"},"refKey":4},
{"_key":"60c714387723bebd86692a9f","_id":"references/60c714387723bebd86692a9f","_rev":"_cfFl7em---","tei":"\n\t\n\t\tSolving QBF with Counterexample Guided Refinement\n\t\t\n\t\t\tMikolášJanota\n\t\t\n\t\t\n\t\t\tWilliamKlieber\n\t\t\n\t\t\n\t\t\tJoaoMarques-Silva\n\t\t\n\t\t\n\t\t\tEdmundClarke\n\t\t\n\t\t10.1007/978-3-642-31612-8_10\n\t\t\n\t\n\t\n\t\tTheory and Applications of Satisfiability Testing – SAT 2012\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t234\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c714387723bebd86692a9d"},"refKey":20},
{"_key":"60c714517723bebd86692aa5","_id":"references/60c714517723bebd86692aa5","_rev":"_cfFl7ey---","tei":"\n\t\n\t\tThe Phenix software for automated determination of macromolecular structures\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tSwatiJain\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertDOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1016/j.ymeth.2011.07.005\n\t\t21821126\n\t\tPMC3193589\n\t\t\n\t\n\t\n\t\tMethods\n\t\tMethods\n\t\t1046-2023\n\t\t\n\t\t\t55\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c714517723bebd86692aa4"},"refKey":12},
{"_key":"60c714517723bebd86692aa6","_id":"references/60c714517723bebd86692aa6","_rev":"_cfFl7f----","tei":"\n\t\n\t\tPRODRG: a tool for high-throughput crystallography of protein–ligand complexes\n\t\t\n\t\t\tAlexanderWSchüttelkopf\n\t\t\n\t\t\n\t\t\tDaanM FVan Aalten\n\t\t\n\t\t10.1107/s0907444904011679\n\t\t15272157\n\t\tark:/67375/WNG-J9MS5GGL-6\n\t\tCE37CA58819FD0F7246DFD68AE1121C167870207\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t60\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tPt 8\n\n","document":{"$oid":"60c714517723bebd86692aa4"},"refKey":53},
{"_key":"60c714517723bebd86692aa7","_id":"references/60c714517723bebd86692aa7","_rev":"_cfFl7fK---","tei":"\n\t\n\t\tFeatures and development ofCoot\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tBLohkamp\n\t\t\n\t\t\n\t\t\tWGScott\n\t\t\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\t10.1107/s0907444910007493\n\t\t20383002\n\t\tPMC2852313\n\t\tark:/67375/WNG-4658WRB9-0\n\t\t6B136294AE117C6FB959A120894F40DE1ECB411A\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tPt 4\n\n","document":{"$oid":"60c714517723bebd86692aa4"},"refKey":11},
{"_key":"60c714907723bebd86692ae5","_id":"references/60c714907723bebd86692ae5","_rev":"_cfFl7fW---","tei":"\n\t\n\t\trms: Regression modeling strategies\n\t\t\n\t\t\tFEHarrellJr\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c714907723bebd86692ae4"},"refKey":19},
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{"_key":"60c714a47723bebd86692af5","_id":"references/60c714a47723bebd86692af5","_rev":"_cfFl7ge---","tei":"\n\t\n\t\tDynalign: an algorithm for finding the secondary structure common to two RNA sequences\n\t\t\n\t\t\tDavidHMathews\n\t\t\n\t\t\n\t\t\tDouglasHTurner\n\t\t\n\t\t10.1006/jmbi.2001.5351\n\t\t11902836\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t317\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c714a47723bebd86692aef"},"refKey":19},
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{"_key":"60c7150c7723bebd86692b1b","_id":"references/60c7150c7723bebd86692b1b","_rev":"_cfFl7hC---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7150c7723bebd86692b19"},"refKey":44},
{"_key":"60c715197723bebd86692b3f","_id":"references/60c715197723bebd86692b3f","_rev":"_cfFl7hO---","tei":"\n\t\n\t\tUser-guided 3D active contour segmentation of anatomical structures: significantly improved efficiency and reliability\n\t\t\n\t\t\tPAYushkevich\n\t\t\n\t\t\n\t\t\tJPiven\n\t\t\n\t\t\n\t\t\tHCHazlett\n\t\t\n\t\n\t\n\t\tNeuroimage\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c715197723bebd86692b3e"},"refKey":24},
{"_key":"60c715307723bebd86692b50","_id":"references/60c715307723bebd86692b50","_rev":"_cfFl7ha---","tei":"\n\t\n\t\tUCSF Chimera, MODELLER, and IMP: An integrated modeling system\n\t\t\n\t\t\tZhengYang\n\t\t\n\t\t\n\t\t\tKerenLasker\n\t\t\n\t\t\n\t\t\tDinaSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tBenWebb\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2011.09.006\n\t\t21963794\n\t\tPMC3410985\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t179\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c715307723bebd86692b4f"},"refKey":38},
{"_key":"60c715307723bebd86692b51","_id":"references/60c715307723bebd86692b51","_rev":"_cfFl7hm---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c715307723bebd86692b4f"},"refKey":36},
{"_key":"60c715307723bebd86692b52","_id":"references/60c715307723bebd86692b52","_rev":"_cfFl7hy---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tTGur\n\t\t\n\t\t\n\t\t\tNMadhusoodanan\n\t\t\n\t\t\n\t\t\tPBasutkar\n\t\t\n\t\t\n\t\t\tAR NTivey\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t10.1093/nar/gkz268\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c715307723bebd86692b4f"},"refKey":25},
{"_key":"60c715307723bebd86692b53","_id":"references/60c715307723bebd86692b53","_rev":"_cfFl7i----","tei":"\n\t\n\t\tadmetSAR: A Comprehensive Source and Free Tool for Assessment of Chemical ADMET Properties\n\t\t\n\t\t\tFeixiongCheng\n\t\t\n\t\t\n\t\t\tWeihuaLi\n\t\t\n\t\t\n\t\t\tYadiZhou\n\t\t\n\t\t\n\t\t\tJieShen\n\t\t\n\t\t\n\t\t\tZengruiWu\n\t\t\n\t\t\n\t\t\tGuixiaLiu\n\t\t\n\t\t\n\t\t\tPhilipWLee\n\t\t\n\t\t\n\t\t\tYunTang\n\t\t\n\t\t10.1021/ci300367a\n\t\t23092397\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t52\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c715307723bebd86692b4f"},"refKey":42},
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{"_key":"60c715307723bebd86692b55","_id":"references/60c715307723bebd86692b55","_rev":"_cfFl7iW---","tei":"\n\t\n\t\tDeciphering key features in protein structures with the new ENDscript server\n\t\t\n\t\t\tXavierRobert\n\t\t\n\t\t\n\t\t\tPatriceGouet\n\t\t\n\t\t10.1093/nar/gku316\n\t\t24753421\n\t\tPMC4086106\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c715307723bebd86692b4f"},"refKey":30},
{"_key":"60c715307723bebd86692b56","_id":"references/60c715307723bebd86692b56","_rev":"_cfFl7ii---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c715307723bebd86692b4f"},"refKey":27},
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{"_key":"60c715887723bebd86692bc4","_id":"references/60c715887723bebd86692bc4","_rev":"_cfFl7jG---","tei":"\n\t\n\t\tAnalysis of Complex Survey Samples\n\t\t\n\t\t\tTLumley\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2.2;\n\n","document":{"$oid":"60c715887723bebd86692bc2"},"refKey":30},
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{"_key":"60c715887723bebd86692bc6","_id":"references/60c715887723bebd86692bc6","_rev":"_cfFl7ja---","tei":"\n\t\n\t\tsurvey: analysis of complex survey samples\n\t\t\n\t\t\tTLumley\n\t\t\n\t\t\n\t\n\tR package version 4.0; 2020\n\n","document":{"$oid":"60c715887723bebd86692bc2"},"refKey":32},
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{"_key":"60c715887723bebd86692bc9","_id":"references/60c715887723bebd86692bc9","_rev":"_cfFl7jy---","tei":"\n\t\n\t\tDe novo transcript sequence reconstruction from RNA-seq using the trinity platform for reference generation and analysis\n\t\t\n\t\t\tBJHaas\n\t\t\n\t\t\n\t\t\tAPapanicolaou\n\t\t\n\t\t\n\t\t\tMYassour\n\t\t\n\t\t\n\t\t\tMGrabherr\n\t\t\n\t\t\n\t\t\tPDBlood\n\t\t\n\t\t\n\t\t\tJBowden\n\t\t\n\t\t\n\t\t\tMBCouger\n\t\t\n\t\t\n\t\t\tDEccles\n\t\t\n\t\t\n\t\t\tBLi\n\t\t\n\t\t\n\t\t\tMLieber\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t8\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c715887723bebd86692bc7"},"refKey":17},
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{"_key":"60c715af7723bebd86692c00","_id":"references/60c715af7723bebd86692c00","_rev":"_cfFl7kS---","tei":"\n\t\n\t\tRecent segmental duplications in the human genome\n\t\t\n\t\t\tJABailey\n\t\t\n\t\t\n\t\t\tZGu\n\t\t\n\t\t\n\t\t\tRAClark\n\t\t\n\t\t\n\t\t\tKReinert\n\t\t\n\t\t\n\t\t\tRVSamonte\n\t\t\n\t\t\n\t\t\tSSchwartz\n\t\t\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t297\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c715af7723bebd86692bfd"},"refKey":73},
{"_key":"60c715af7723bebd86692c01","_id":"references/60c715af7723bebd86692c01","_rev":"_cfFl7ke---","tei":"\n\t\n\t\tTOPAL 2.0: improved detection of mosaic sequences within multiple alignments\n\t\t\n\t\t\tGMcguire\n\t\t\n\t\t\n\t\t\tFWright\n\t\t\n\t\t10.1093/bioinformatics/16.2.130\n\t\t10842734\n\t\t1367-4803\n\t\tark:/67375/HXZ-SWQ16855-5\n\t\t3D2B7BCB1BF2EE144B9E18CFF612252F91C3254F\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c715af7723bebd86692bfd"},"refKey":69},
{"_key":"60c715af7723bebd86692c02","_id":"references/60c715af7723bebd86692c02","_rev":"_cfFl7kq---","tei":"\n\t\n\t\tTOPALi: software for automatic identification of recombinant sequences within DNA multiple alignments\n\t\t\n\t\t\tIMilne\n\t\t\n\t\t\n\t\t\tFWright\n\t\t\n\t\t\n\t\t\tGRowe\n\t\t\n\t\t\n\t\t\tDFMarshall\n\t\t\n\t\t\n\t\t\tDHusmeier\n\t\t\n\t\t\n\t\t\tGMcguire\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c715af7723bebd86692bfd"},"refKey":70},
{"_key":"60c715af7723bebd86692c03","_id":"references/60c715af7723bebd86692c03","_rev":"_cfFl7ky---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c715af7723bebd86692bfd"},"refKey":60},
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{"_key":"60c715b37723bebd86692c1f","_id":"references/60c715b37723bebd86692c1f","_rev":"_cfFl7mi---","tei":"\n\t\n\t\tUniqueness ofab initioshape determination in small-angle scattering\n\t\t\n\t\t\tVladimirVVolkov\n\t\t\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t10.1107/s0021889803000268\n\t\tark:/67375/WNG-2N76ZP8B-G\n\t\t2D083EEC03184EC205B1DA5CD3E0ED83285B2FA5\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t36\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c715b37723bebd86692c16"},"refKey":62},
{"_key":"60c715bb7723bebd86692c45","_id":"references/60c715bb7723bebd86692c45","_rev":"_cfFl7mu---","tei":"\n\t\n\t\tAnnotation Pipeline\n\t\t\n\t\t\tTAltman\n\t\t\n\t\t\n\t\t\tCoronavirus\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c715bb7723bebd86692c44"},"refKey":37},
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{"_key":"60c715bb7723bebd86692c48","_id":"references/60c715bb7723bebd86692c48","_rev":"_cfFl7nO---","tei":"\n\t\n\t\tmosdepth: quick coverage calculation for genomes and exomes\n\t\t\n\t\t\tBrentSPedersen\n\t\t\t0000-0003-1786-2216\n\t\t\n\t\t\n\t\t\tAaronRQuinlan\n\t\t\t0000-0003-1756-0859\n\t\t\n\t\t10.1101/185843\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c715bb7723bebd86692c44"},"refKey":33},
{"_key":"60c715bb7723bebd86692c49","_id":"references/60c715bb7723bebd86692c49","_rev":"_cfFl7na---","tei":"\n\t\n\t\tParallelization of MAFFT for large-scale multiple sequence alignments. en\n\t\t\n\t\t\tTNakamura\n\t\t\n\t\t\n\t\t\tKDYamada\n\t\t\n\t\t\n\t\t\tKTomii\n\t\t\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\n\t\n\t\tPublisher: Oxford Academic\n\t\t1367-4803\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBioinformatics\n\n","document":{"$oid":"60c715bb7723bebd86692c44"},"refKey":54},
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{"_key":"60c715bb7723bebd86692c51","_id":"references/60c715bb7723bebd86692c51","_rev":"_cfFl7oy---","tei":"\n\t\n\t\tA Fast and Symmetric DUST Implementation to Mask Low-Complexity DNA Sequences\n\t\t\n\t\t\tAleksandrMorgulis\n\t\t\n\t\t\n\t\t\tEMichaelGertz\n\t\t\n\t\t\n\t\t\tAlejandroASchäffer\n\t\t\n\t\t\n\t\t\tRichaAgarwala\n\t\t\n\t\t10.1089/cmb.2006.13.1028\n\t\t16796549\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t13\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c715bb7723bebd86692c44"},"refKey":25},
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{"_key":"60c715bb7723bebd86692c53","_id":"references/60c715bb7723bebd86692c53","_rev":"_cfFl7pK---","tei":"\n\t\n\t\tA fast, scalable, MinHash-based k-mer tool to assess Sequence Read Archive next generation sequence submissions\n\t\t\n\t\t\tKSKatz\n\t\t\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\tPublisher: Cold Spring Harbor Laboratory\n\n","document":{"$oid":"60c715bb7723bebd86692c44"},"refKey":16},
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{"_key":"60c715bb7723bebd86692c56","_id":"references/60c715bb7723bebd86692c56","_rev":"_cfFl7pq---","tei":"\n\t\n\t\tBiosyntheticSPAdes: reconstructing biosynthetic gene clusters from assembly graphs\n\t\t\n\t\t\tDmitryMeleshko\n\t\t\t0000-0002-7398-9820\n\t\t\n\t\t\n\t\t\tHoseinMohimani\n\t\t\t0000-0003-3980-2505\n\t\t\n\t\t\n\t\t\tVittorioTracanna\n\t\t\n\t\t\n\t\t\tImanHajirasouliha\n\t\t\n\t\t\n\t\t\tMarnixHMedema\n\t\t\n\t\t\n\t\t\tAntonKorobeynikov\n\t\t\t0000-0002-2937-9259\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1101/gr.243477.118\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t29\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c715bb7723bebd86692c44"},"refKey":31},
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{"_key":"60c716a17723bebd86692daa","_id":"references/60c716a17723bebd86692daa","_rev":"_cfFl7ui---","tei":"\n\t\n\t\tMutationTaster evaluates disease-causing potential of sequence alterations\n\t\t\n\t\t\tJMSchwarz\n\t\t\n\t\t\n\t\t\tCRödelsperger\n\t\t\n\t\t\n\t\t\tMSchuelke\n\t\t\n\t\t\n\t\t\tDSeelow\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c716a17723bebd86692da6"},"refKey":24},
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{"_key":"60c716a77723bebd86692db6","_id":"references/60c716a77723bebd86692db6","_rev":"_cfFl7u6---","tei":"\n\t\n\t\tPatchDock and SymmDock: servers for rigid and symmetric docking\n\t\t\n\t\t\tDSchneidman-Duhovny\n\t\t\n\t\t\n\t\t\tYInbar\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tHJWolfson\n\t\t\n\t\t10.1093/nar/gki481\n\t\t15980490\n\t\tPMC1160241\n\t\tark:/67375/HXZ-5SHH9NN3-T\n\t\t69025555577394917D43758F4E26C6EAF09BA9A4\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c716a77723bebd86692db4"},"refKey":37},
{"_key":"60c716a77723bebd86692db7","_id":"references/60c716a77723bebd86692db7","_rev":"_cfFl7vG---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c716a77723bebd86692db4"},"refKey":50},
{"_key":"60c716a77723bebd86692db8","_id":"references/60c716a77723bebd86692db8","_rev":"_cfFl7vO---","tei":"\n\t\n\t\tLigand docking and binding site analysis with PyMOL and Autodock/Vina\n\t\t\n\t\t\tDanielSeeliger\n\t\t\n\t\t\n\t\t\tBertLDe Groot\n\t\t\n\t\t10.1007/s10822-010-9352-6\n\t\t20401516\n\t\tPMC2881210\n\t\tark:/67375/VQC-DJ1XJHQ0-F\n\t\t3DA675CD417E345F29EFB6CC4EA712C2B6A6F1D4\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t24\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c716a77723bebd86692db4"},"refKey":39},
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{"_key":"60c716a77723bebd86692dbb","_id":"references/60c716a77723bebd86692dbb","_rev":"_cfFl7vy---","tei":"\n\t\n\t\tData set for phylogenetic tree and RAMPAGE Ramachandran plot analysis of SODs in Gossypium raimondii and G. arboreum\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tMinxuanXia\n\t\t\n\t\t\n\t\t\tJieChen\n\t\t\n\t\t\n\t\t\tFenniDeng\n\t\t\n\t\t\n\t\t\tRuiYuan\n\t\t\n\t\t\n\t\t\tXiaopeiZhang\n\t\t\n\t\t\n\t\t\tFafuShen\n\t\t\n\t\t10.1016/j.dib.2016.05.025\n\t\t27672674\n\t\tPMC5030311\n\t\t\n\t\n\t\n\t\tData in Brief\n\t\tData in Brief\n\t\t2352-3409\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c716a77723bebd86692db4"},"refKey":48},
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{"_key":"60c716a87723bebd86692de7","_id":"references/60c716a87723bebd86692de7","_rev":"_cfFl7wG---","tei":"\n\t\n\t\tPredicting subcellular localization of proteins using machine-learned classifiers\n\t\t\n\t\t\tZLu\n\t\t\n\t\t\n\t\t\tDSzafron\n\t\t\n\t\t\n\t\t\tRGreiner\n\t\t\n\t\t\n\t\t\tPLu\n\t\t\n\t\t\n\t\t\tDSWishart\n\t\t\n\t\t\n\t\t\tBPoulin\n\t\t\n\t\t10.1093/bioinformatics/bth026\n\t\t14990451\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c716a87723bebd86692de5"},"refKey":28},
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{"_key":"60c718877723bebd86692fa4","_id":"references/60c718877723bebd86692fa4","_rev":"_cfFl73y---","tei":"\n\t\n\t\tThe liability threshold model for censored twin data\n\t\t\n\t\t\tKlausKHolst\n\t\t\t0000-0002-1364-6789\n\t\t\n\t\t\n\t\t\tThomasHScheike\n\t\t\n\t\t\n\t\t\tJacobBHjelmborg\n\t\t\n\t\t10.1016/j.csda.2015.01.014\n\t\t\n\t\n\t\n\t\tComputational Statistics & Data Analysis\n\t\tComputational Statistics & Data Analysis\n\t\t0167-9473\n\t\t\n\t\t\t93\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c718877723bebd86692fa3"},"refKey":6},
{"_key":"60c718d07723bebd86692fc9","_id":"references/60c718d07723bebd86692fc9","_rev":"_cfFl736---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c718d07723bebd86692fc8"},"refKey":12},
{"_key":"60c718e27723bebd86692fd2","_id":"references/60c718e27723bebd86692fd2","_rev":"_cfFl74G---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\t\n\t\t\tAVPyshkin\n\t\t\n\t\t\n\t\t\tAVSirotkin\n\t\t\n\t\t\n\t\t\tNVyahhi\n\t\t\n\t\t\n\t\t\tGTesler\n\t\t\n\t\t\n\t\t\tMAAlekseyev\n\t\t\n\t\t\n\t\t\tPAPevzner\n\t\t\n\t\n\t\n\t\tJ. Comput. Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c718e27723bebd86692fd1"},"refKey":5},
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{"_key":"60c718e27723bebd86692fd4","_id":"references/60c718e27723bebd86692fd4","_rev":"_cfFl74e---","tei":"\n\t\n\t\tMEGAHIT v1.0: a fast and scalable metagenome assembler driven by advanced methodologies and community practices\n\t\t\n\t\t\tDLi\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tCMLiu\n\t\t\n\t\t\n\t\t\tCMLeung\n\t\t\n\t\t\n\t\t\tHFTing\n\t\t\n\t\t\n\t\t\tKSadakane\n\t\t\n\t\t\n\t\t\tHYamashita\n\t\t\n\t\t\n\t\t\tTWLam\n\t\t\n\t\n\t\n\t\tMethods\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c718e27723bebd86692fd1"},"refKey":31},
{"_key":"60c718e27723bebd86692fd5","_id":"references/60c718e27723bebd86692fd5","_rev":"_cfFl74q---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1101/274100\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c718e27723bebd86692fd1"},"refKey":8},
{"_key":"60c718e27723bebd86692fd6","_id":"references/60c718e27723bebd86692fd6","_rev":"_cfFl742---","tei":"\n\t\n\t\tMEGAN analysis of metagenomic data\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tAFAuch\n\t\t\n\t\t\n\t\t\tJQi\n\t\t\n\t\t\n\t\t\tSCSchuster\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c718e27723bebd86692fd1"},"refKey":21},
{"_key":"60c718e27723bebd86692fd7","_id":"references/60c718e27723bebd86692fd7","_rev":"_cfFl75C---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBBuchfink\n\t\t\n\t\t\n\t\t\tCXie\n\t\t\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c718e27723bebd86692fd1"},"refKey":7},
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{"_key":"60c718e27723bebd86692fd9","_id":"references/60c718e27723bebd86692fd9","_rev":"_cfFl75a---","tei":"\n\t\n\t\tProbabilistic Inference of Viral Quasispecies Subject to Recombination\n\t\t\n\t\t\tArminTöpfer\n\t\t\n\t\t\n\t\t\tOsvaldoZagordi\n\t\t\n\t\t\n\t\t\tSandhyaPrabhakaran\n\t\t\n\t\t\n\t\t\tVolkerRoth\n\t\t\n\t\t\n\t\t\tEranHalperin\n\t\t\n\t\t\n\t\t\tNikoBeerenwinkel\n\t\t\n\t\t10.1089/cmb.2012.0232\n\t\t23383997\n\t\tPMC3576916\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t20\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c718e27723bebd86692fd1"},"refKey":51},
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{"_key":"60c718e77723bebd86693006","_id":"references/60c718e77723bebd86693006","_rev":"_cfFl756---","tei":"\n\t\n\t\tVisualizing density maps with UCSF Chimera\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2006.06.010\n\t\t16963278\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c718e77723bebd86693005"},"refKey":9},
{"_key":"60c718e77723bebd86693007","_id":"references/60c718e77723bebd86693007","_rev":"_cfFl76G---","tei":"\n\t\n\t\tDoG Picker and TiltPicker: Software tools to facilitate particle selection in single particle electron microscopy\n\t\t\n\t\t\tNRVoss\n\t\t\n\t\t\n\t\t\tCKYoshioka\n\t\t\n\t\t\n\t\t\tMRadermacher\n\t\t\n\t\t\n\t\t\tCSPotter\n\t\t\n\t\t\n\t\t\tBCarragher\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t166\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c718e77723bebd86693005"},"refKey":40},
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{"_key":"60c7197c7723bebd86693065","_id":"references/60c7197c7723bebd86693065","_rev":"_cfFl76m---","tei":"\n\t\n\t\tBLAST: at the core of a powerful and diverse set of sequence analysis tools\n\t\t\n\t\t\tSMcginnis\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t10.1093/nar/gkh435\n\t\t15215342\n\t\tPMC441573\n\t\tark:/67375/HXZ-DNQRBT4D-X\n\t\t85C52E7BD297069F378D827F9C4501FB5D43BAD6\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7197c7723bebd86693064"},"refKey":14},
{"_key":"60c7197c7723bebd86693066","_id":"references/60c7197c7723bebd86693066","_rev":"_cfFl76y---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDM AMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btp033\n\t\t19151095\n\t\tPMC2672624\n\t\tark:/67375/HXZ-5L762ZQS-N\n\t\t984BAD740626CEADBD2E31F4094D8E18B07D49EA\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7197c7723bebd86693064"},"refKey":30},
{"_key":"60c7197c7723bebd86693067","_id":"references/60c7197c7723bebd86693067","_rev":"_cfFl77----","tei":"\n\t\n\t\tThe HHpred interactive server for protein homology detection and structure prediction\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\t10.1093/nar/gki408\n\t\t15980461\n\t\tPMC1160169\n\t\tark:/67375/HXZ-VQ80LLMR-1\n\t\t661899669D797C6691F2952A9CF1677A1BB8E9C3\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7197c7723bebd86693064"},"refKey":25},
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{"_key":"60c719897723bebd86693078","_id":"references/60c719897723bebd86693078","_rev":"_cfFl77e---","tei":"\n\t\n\t\tCLUSTAL: a package for performing multiple sequence alignment on a microcomputer\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tPMSharp\n\t\t\n\t\n\t\n\t\tGene\n\t\t\n\t\t\t73\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c719897723bebd86693075"},"refKey":25},
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{"_key":"60c719a17723bebd8669309a","_id":"references/60c719a17723bebd8669309a","_rev":"_cfFl78C---","tei":"\n\t\n\t\tMimoPro: a more efficient Web-based tool for epitope prediction using phage display libraries\n\t\t\n\t\t\tWenChen\n\t\t\n\t\t\n\t\t\tPingSun\n\t\t\n\t\t\n\t\t\tYangLu\n\t\t\n\t\t\n\t\t\tWilliamWGuo\n\t\t\n\t\t\n\t\t\tYanHuang\n\t\t\n\t\t\n\t\t\tZhiMa\n\t\t\n\t\t10.1186/1471-2105-12-199\n\t\t21609501\n\t\tPMC3124435\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t199\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c719a17723bebd86693099"},"refKey":11},
{"_key":"60c719a17723bebd8669309b","_id":"references/60c719a17723bebd8669309b","_rev":"_cfFl78O---","tei":"\n\t\n\t\tPep-3D-Search: a method for B-cell epitope prediction based on mimotope analysis\n\t\t\n\t\t\tYanXinHuang\n\t\t\n\t\t\n\t\t\tYongLiBao\n\t\t\n\t\t\n\t\t\tShuYanGuo\n\t\t\n\t\t\n\t\t\tYanWang\n\t\t\n\t\t\n\t\t\tChunGuangZhou\n\t\t\n\t\t\n\t\t\tYuXinLi\n\t\t\n\t\t10.1186/1471-2105-9-538\n\t\t19087303\n\t\tPMC2639436\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t538\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c719a17723bebd86693099"},"refKey":10},
{"_key":"60c719a17723bebd8669309c","_id":"references/60c719a17723bebd8669309c","_rev":"_cfFl78W---","tei":"\n\t\n\t\tAutomated Detection of Conformational Epitopes Using Phage Display Peptide Sequences\n\t\t\n\t\t\tSurendraSNegi\n\t\t\n\t\t\n\t\t\tWernerBraun\n\t\t\n\t\t10.4137/bbi.s2745\n\t\t\n\t\n\t\n\t\tBioinformatics and Biology Insights\n\t\tBioinform Biol Insights\n\t\t1177-9322\n\t\t\n\t\t\t3\n\t\t\t3\n\t\t\tBBI.S2745\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c719a17723bebd86693099"},"refKey":8},
{"_key":"60c719a17723bebd8669309d","_id":"references/60c719a17723bebd8669309d","_rev":"_cfFl78i---","tei":"\n\t\n\t\tEpitope mapping using combinatorial phage-display libraries: a graph-based algorithm\n\t\t\n\t\t\tItayMayrose\n\t\t\n\t\t\n\t\t\tTomerShlomi\n\t\t\n\t\t\n\t\t\tNimrodDRubinstein\n\t\t\n\t\t\n\t\t\tJonathanMGershoni\n\t\t\n\t\t\n\t\t\tEytanRuppin\n\t\t\n\t\t\n\t\t\tRodedSharan\n\t\t\n\t\t\n\t\t\tTalPupko\n\t\t\n\t\t10.1093/nar/gkl975\n\t\t17151070\n\t\tPMC1761437\n\t\tark:/67375/HXZ-GHNK9TZC-8\n\t\t3E72DD9DC003FA7E5821E2E7573CCEC832771896\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c719a17723bebd86693099"},"refKey":9},
{"_key":"60c719a17723bebd8669309e","_id":"references/60c719a17723bebd8669309e","_rev":"_cfFl78u---","tei":"\n\t\n\t\tA Model Quality Service Training Program for Recreational Food Service Employees in a University Setting\n\t\t\n\t\t\tSusanSHubbard\n\t\t\n\t\t\n\t\t\tPauletteMPopovich\n\t\t\n\t\t10.1300/j278v03n04_05\n\t\n\t\n\t\tJournal of College & University Foodservice\n\t\tJournal of College & University Foodservice\n\t\t1053-8739\n\t\t\n\t\t\t3\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tThe Haworth Press\n\t\t\n\t\t\n\t\t\tNACCESS Computer Program, University College London\n\t\t\n\t\n\n","document":{"$oid":"60c719a17723bebd86693099"},"refKey":14},
{"_key":"60c719a17723bebd8669309f","_id":"references/60c719a17723bebd8669309f","_rev":"_cfFl786---","tei":"\n\t\n\t\tStepwise prediction of conformational discontinuous B-cell epitopes using the Mapitope algorithm\n\t\t\n\t\t\tErezMBublil\n\t\t\n\t\t\n\t\t\tNataliaTarnovitskiFreund\n\t\t\n\t\t\n\t\t\tItayMayrose\n\t\t\n\t\t\n\t\t\tOsnatPenn\n\t\t\n\t\t\n\t\t\tAnnaRoitburd-Berman\n\t\t\n\t\t\n\t\t\tNimrodDRubinstein\n\t\t\n\t\t\n\t\t\tTalPupko\n\t\t\n\t\t\n\t\t\tJonathanMGershoni\n\t\t\n\t\t10.1002/prot.21387\n\t\t17427229\n\t\tark:/67375/WNG-08VJQBRD-7\n\t\tF0BCAEFA6CC92CD60A361DEB0B8FCD3F3245AA94\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t68\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c719a17723bebd86693099"},"refKey":5},
{"_key":"60c719a17723bebd866930a0","_id":"references/60c719a17723bebd866930a0","_rev":"_cfFl79G---","tei":"\n\t\n\t\tDeciphering epitope specificities within polyserum using affinity selection of random peptides and a novel algorithm based on pattern recognition theory\n\t\t\n\t\t\tDimitriADenisov\n\t\t\n\t\t\n\t\t\tGalinaFDenisova\n\t\t\n\t\t\n\t\t\tAlinaLelic\n\t\t\n\t\t\n\t\t\tMarkBLoeb\n\t\t\n\t\t\n\t\t\tJonathanLBramson\n\t\t\n\t\t10.1016/j.molimm.2008.10.013\n\t\t19038455\n\t\n\t\n\t\tMolecular Immunology\n\t\tMolecular Immunology\n\t\t0161-5890\n\t\t\n\t\t\t46\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c719a17723bebd86693099"},"refKey":6},
{"_key":"60c719a17723bebd866930a1","_id":"references/60c719a17723bebd866930a1","_rev":"_cfFl79O---","tei":"\n\t\n\t\tSiteLight: Binding-site prediction using phage display libraries\n\t\t\n\t\t\tInbalHalperin\n\t\t\n\t\t\n\t\t\tHaimWolfson\n\t\t\n\t\t\n\t\t\tRuthNussinov\n\t\t\n\t\t10.1110/ps.0237103\n\t\t12824481\n\t\tPMC2323941\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t12\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c719a17723bebd86693099"},"refKey":7},
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{"_key":"60c719b17723bebd866930e3","_id":"references/60c719b17723bebd866930e3","_rev":"_cfFl8-----","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c719b17723bebd866930e1"},"refKey":31},
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{"_key":"60c71aa17723bebd8669320f","_id":"references/60c71aa17723bebd8669320f","_rev":"_cfFl8EK---","tei":"\n\t\n\t\tTranslating embeddings for modeling multi-relational data\n\t\t\n\t\t\tABordes\n\t\t\n\t\t\n\t\t\tNUsunier\n\t\t\n\t\t\n\t\t\tAGarcia-Duran\n\t\t\n\t\t\n\t\t\tJWeston\n\t\t\n\t\t\n\t\t\tOYakhnenko\n\t\t\n\t\n\t\n\t\tProceedings of the 26th International Conference on Neural Information Processing Systems\n\t\t\t\tthe 26th International Conference on Neural Information Processing Systems\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71aa17723bebd8669320c"},"refKey":3},
{"_key":"60c71ac67723bebd86693227","_id":"references/60c71ac67723bebd86693227","_rev":"_cfFl8EW---","tei":"\n\t\n\t\tIntaRNA 2.0: enhanced and customizable prediction of RNA–RNA interactions\n\t\t\n\t\t\tMartinMann\n\t\t\n\t\t\n\t\t\tPatrickRWright\n\t\t\n\t\t\n\t\t\tRolfBackofen\n\t\t\n\t\t10.1093/nar/gkx279\n\t\t28472523\n\t\tPMC5570192\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c71ac67723bebd86693226"},"refKey":46},
{"_key":"60c71ad17723bebd86693235","_id":"references/60c71ad17723bebd86693235","_rev":"_cfFl8Ee---","tei":"\n\t\n\t\tAutomatic planning of head and neck treatment plans\n\t\t\n\t\t\tIHazell\n\t\t\n\t\t\n\t\t\tKBzdusek\n\t\t\n\t\t\n\t\t\tPKumar\n\t\t\n\t\n\t\n\t\tJ Appl Clin Med Phys\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71ad17723bebd86693234"},"refKey":13},
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{"_key":"60c71ade7723bebd86693242","_id":"references/60c71ade7723bebd86693242","_rev":"_cfFl8E2---","tei":"\n\t\n\t\tCollaborative Computational Project, N. 4. The CCP4 Suite: Programs for Protein Crystallography\n\t\n\t\n\t\tActa Crystall\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71ade7723bebd86693240"},"refKey":38},
{"_key":"60c71ade7723bebd86693243","_id":"references/60c71ade7723bebd86693243","_rev":"_cfFl8FC---","tei":"\n\t\n\t\tProcessing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71ade7723bebd86693240"},"refKey":34},
{"_key":"60c71b467723bebd86693285","_id":"references/60c71b467723bebd86693285","_rev":"_cfFl8FK---","tei":"\n\t\n\t\tOpen-source analytics tools for studying the COVID-19 coronavirus outbreak\n\t\t\n\t\t\tTZWu\n\t\t\n\t\t\n\t\t\tXJGe\n\t\t\n\t\t\n\t\t\tGCYu\n\t\t\n\t\t\n\t\t\tEQHu\n\t\t\n\t\t10.1101/2020.02.25.20027433\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71b467723bebd86693284"},"refKey":35},
{"_key":"60c71b487723bebd8669328b","_id":"references/60c71b487723bebd8669328b","_rev":"_cfFl8FW---","tei":"\n\t\n\t\tVideo-based AI for beat-to-beat assessment of cardiac function\n\t\t\n\t\t\tDOuyang\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t580\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71b487723bebd8669328a"},"refKey":35},
{"_key":"60c71b657723bebd86693293","_id":"references/60c71b657723bebd86693293","_rev":"_cfFl8Fi---","tei":"\n\t\n\t\tASReml-R reference manual. VSN International Ltd\n\t\t\n\t\t\tDGButler\n\t\t\n\t\t\n\t\t\tBRCullis\n\t\t\n\t\t\n\t\t\tARGilmour\n\t\t\n\t\t\n\t\t\tBJGogel\n\t\t\n\t\t\n\t\t\tRThompson\n\t\t\n\t\t\n\t\t\t\n\t\t\tHemel Hempstead\n\t\t\n\t\n\n","document":{"$oid":"60c71b657723bebd86693292"},"refKey":8},
{"_key":"60c71b8e7723bebd866932ab","_id":"references/60c71b8e7723bebd866932ab","_rev":"_cfFl8Fq---","tei":"\n\t\n\t\tConducting meta-analyses in R with the metafor package\n\t\t\n\t\t\tWViechtbauer\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71b8e7723bebd866932aa"},"refKey":46},
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{"_key":"60c71b987723bebd866932b4","_id":"references/60c71b987723bebd866932b4","_rev":"_cfFl8GC---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c71b987723bebd866932b3"},"refKey":16},
{"_key":"60c71bd37723bebd866932d6","_id":"references/60c71bd37723bebd866932d6","_rev":"_cfFl8GO---","tei":"\n\t\n\t\tPLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\t\n\t\t\tNealeBTodd-Brown\n\t\t\n\t\t\n\t\t\tKThomas\n\t\t\n\t\t\n\t\t\tLFerreira\n\t\t\n\t\t\n\t\t\tMarBender\n\t\t\n\t\t\n\t\t\tD\n\t\t\n\t\t17701901\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t81\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71bd37723bebd866932d5"},"refKey":24},
{"_key":"60c71bd37723bebd866932d7","_id":"references/60c71bd37723bebd866932d7","_rev":"_cfFl8Ga---","tei":"\n\t\n\t\tPrincipal components analysis corrects for stratification in genome-wide association studies\n\t\t\n\t\t\tALPrice\n\t\t\n\t\t\n\t\t\tNJPatterson\n\t\t\n\t\t\n\t\t\tRMPlenge\n\t\t\n\t\t\n\t\t\tMEWeinblatt\n\t\t\n\t\t\n\t\t\tNAShadick\n\t\t\n\t\t\n\t\t\tDReich\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71bd37723bebd866932d5"},"refKey":22},
{"_key":"60c71be57723bebd866932f1","_id":"references/60c71be57723bebd866932f1","_rev":"_cfFl8Gi---","tei":"\n\t\n\t\tComputing adjusted risk ratios and risk differences in Stata\n\t\t\n\t\t\tECNorton\n\t\t\n\t\t\n\t\t\tMMMiller\n\t\t\n\t\t\n\t\t\tLCKleinman\n\t\t\n\t\n\t\n\t\tThe Stata Journal\n\t\t\n\t\t\t13\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71be57723bebd866932f0"},"refKey":5},
{"_key":"60c71bec7723bebd866932fa","_id":"references/60c71bec7723bebd866932fa","_rev":"_cfFl8Gu---","tei":"\n\t\n\t\tDplyr: A Grammar of Data Manipulation\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR Package Version 0.7.4\n\n","document":{"$oid":"60c71bec7723bebd866932f9"},"refKey":18},
{"_key":"60c71bec7723bebd866932fb","_id":"references/60c71bec7723bebd866932fb","_rev":"_cfFl8G6---","tei":"\n\t\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\tA Language and Environment for Statistical Computing; R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71bec7723bebd866932f9"},"refKey":16},
{"_key":"60c71bec7723bebd866932fc","_id":"references/60c71bec7723bebd866932fc","_rev":"_cfFl8HG---","tei":"\n\t\n\t\tEstimated Marginal Means, Aka Least-Squares Means\n\t\t\n\t\t\tRLenth\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR Package Version 1.2.3\n\n","document":{"$oid":"60c71bec7723bebd866932f9"},"refKey":17},
{"_key":"60c71bec7723bebd866932fd","_id":"references/60c71bec7723bebd866932fd","_rev":"_cfFl8HO---","tei":"\n\t\n\t\tGgplot2 elegant graphics for data analysis introduction\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t10.1007/978-0-387-98141-3\n\t\n\t\n\t\tUse R\n\t\t\t\tNew York, NY, USA\n\t\t\n\t\t\tSpringer\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71bec7723bebd866932f9"},"refKey":19},
{"_key":"60c71c067723bebd86693316","_id":"references/60c71c067723bebd86693316","_rev":"_cfFl8Ha---","tei":"\n\t\n\t\tmice: Multivariate Imputation by Chained Equations inR\n\t\t\n\t\t\tStefVanBuuren\n\t\t\n\t\t\n\t\t\tKarinGroothuis-Oudshoorn\n\t\t\n\t\t10.18637/jss.v045.i03\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t45\n\t\t\t3\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c71c067723bebd86693315"},"refKey":13},
{"_key":"60c71c077723bebd86693319","_id":"references/60c71c077723bebd86693319","_rev":"_cfFl8Hm---","tei":"\n\t\n\t\tPermutMatrix: a graphical environment to arrange gene expression profiles in optimal linear order\n\t\t\n\t\t\tGCaraux\n\t\t\n\t\t\n\t\t\tSPinloche\n\t\t\n\t\t10.1093/bioinformatics/bti141\n\t\t15546938\n\t\tark:/67375/HXZ-M6VRVKQ4-R\n\t\t43082EB94A9FF7BBB36CDBC1D69154A387018AC0\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c71c077723bebd86693318"},"refKey":23},
{"_key":"60c71c097723bebd86693325","_id":"references/60c71c097723bebd86693325","_rev":"_cfFl8Hy---","tei":"\n\t\n\t\tFast and accurate entity recognition with iterated dilated convolutions\n\t\t\n\t\t\tEStrubell\n\t\t\n\t\t\n\t\t\tPVerga\n\t\t\n\t\t\n\t\t\tDBelanger\n\t\t\n\t\t\n\t\t\tAMccallum\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71c097723bebd86693324"},"refKey":22},
{"_key":"60c71c167723bebd8669332d","_id":"references/60c71c167723bebd8669332d","_rev":"_cfFl8H6---","tei":"\n\t\n\t\tAn enhanced agent based model of the immune system response\n\t\t\n\t\t\tVBaldazzi\n\t\t\n\t\t\n\t\t\tFCastiglione\n\t\t\n\t\t\n\t\t\tMBernaschi\n\t\t\n\t\t10.1016/j.cellimm.2006.12.006\n\t\t17416357\n\t\n\t\n\t\tCellular Immunology\n\t\tCellular Immunology\n\t\t0008-8749\n\t\t\n\t\t\t244\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":6},
{"_key":"60c71c167723bebd8669332e","_id":"references/60c71c167723bebd8669332e","_rev":"_cfFl8IG---","tei":"\n\t\n\t\tDesign and implementation of an immune system simulator\n\t\t\n\t\t\tMBernaschi\n\t\t\n\t\t\n\t\t\tFCastiglione\n\t\t\n\t\t10.1016/s0010-4825(01)00011-7\n\t\t11535199\n\t\tS0010-4825(01)00011-7\n\t\tark:/67375/6H6-3P5KBWBF-F\n\t\tDDDF7010D7796ECA14A170117712D4FD77707B31\n\t\n\t\n\t\tComputers in Biology and Medicine\n\t\tComputers in Biology and Medicine\n\t\t0010-4825\n\t\t\n\t\t\t31\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":15},
{"_key":"60c71c167723bebd8669332f","_id":"references/60c71c167723bebd8669332f","_rev":"_cfFl8IS---","tei":"\n\t\n\t\tThe transition between immune and disease states in a cellular automaton model of clonal immune response\n\t\t\n\t\t\tMicheleBezzi\n\t\t\n\t\t\n\t\t\tFrancoCelada\n\t\t\n\t\t\n\t\t\tStefanoRuffo\n\t\t\n\t\t\n\t\t\tPhilipESeiden\n\t\t\n\t\t10.1016/s0378-4371(97)00290-2\n\t\tS0378-4371(97)00290-2\n\t\tark:/67375/6H6-DS0PT1WK-W\n\t\tEEFDAEC16F64F1CB29B47B607056B2178F052A75\n\t\t\n\t\n\t\n\t\tPhysica A: Statistical Mechanics and its Applications\n\t\tPhysica A: Statistical Mechanics and its Applications\n\t\t0378-4371\n\t\t\n\t\t\t245\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":16},
{"_key":"60c71c167723bebd86693330","_id":"references/60c71c167723bebd86693330","_rev":"_cfFl8Ie---","tei":"\n\t\n\t\tA computer model of cellular interactions in the immune system\n\t\t\n\t\t\tFrancoCelada\n\t\t\n\t\t\n\t\t\tPhilipESeiden\n\t\t\n\t\t10.1016/0167-5699(92)90135-t\n\t\t1575893\n\t\t0167-5699(92)90135-T\n\t\tark:/67375/6H6-7KHKDK98-0\n\t\tB0B8422C0771513E4F00A2C9803096F43C17695B\n\t\n\t\n\t\tImmunology Today\n\t\tImmunology Today\n\t\t0167-5699\n\t\t\n\t\t\t13\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":21},
{"_key":"60c71c167723bebd86693331","_id":"references/60c71c167723bebd86693331","_rev":"_cfFl8Im---","tei":"\n\t\n\t\tAffinity maturation and hypermutation in a simulation of the humoral immune response\n\t\t\n\t\t\tFrancoCelada\n\t\t\n\t\t\n\t\t\tPhilipESeiden\n\t\t\n\t\t10.1002/eji.1830260626\n\t\t8647216\n\t\n\t\n\t\tEuropean Journal of Immunology\n\t\tEur. J. Immunol.\n\t\t0014-2980\n\t\t1521-4141\n\t\t\n\t\t\t26\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":22},
{"_key":"60c71c167723bebd86693332","_id":"references/60c71c167723bebd86693332","_rev":"_cfFl8Iy---","tei":"\n\t\n\t\tModeling immune cognition\n\t\t\n\t\t\tFCelada\n\t\t\n\t\t\n\t\t\tPESeiden\n\t\t\n\t\t10.1109/icsmc.1998.726677\n\t\n\t\n\t\tSMC'98 Conference Proceedings. 1998 IEEE International Conference on Systems, Man, and Cybernetics (Cat. No.98CH36218)\n\t\t\t\tSan Diego, CA\n\t\t\n\t\t\tIEEE\n\t\t\t1998. 1998\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":23},
{"_key":"60c71c167723bebd86693333","_id":"references/60c71c167723bebd86693333","_rev":"_cfFl8J----","tei":"\n\t\n\t\tSimulating the immune system\n\t\t\n\t\t\tSHKleinstein\n\t\t\n\t\t\n\t\t\tPESeiden\n\t\t\n\t\t10.1109/5992.852392\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\tComput. Sci. Eng.\n\t\t1521-9615\n\t\t\n\t\t\t2\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":56},
{"_key":"60c71c167723bebd86693334","_id":"references/60c71c167723bebd86693334","_rev":"_cfFl8JK---","tei":"\n\t\n\t\tA systematic approach to vaccine complexity using an automaton model of the cellular and humoral immune system\n\t\t\n\t\t\tBrynjaKohler\n\t\t\n\t\t\n\t\t\tRobertoPuzone\n\t\t\n\t\t\n\t\t\tPhilipESeiden\n\t\t\n\t\t\n\t\t\tFrancoCelada\n\t\t\n\t\t10.1016/s0264-410x(00)00225-5\n\t\t11115710\n\t\tS0264-410X(00)00225-5\n\t\tark:/67375/6H6-9R2Q4DH9-K\n\t\t04176A59811CE580B417BB6800037C125AD26265\n\t\n\t\n\t\tVaccine\n\t\tVaccine\n\t\t0264-410X\n\t\t\n\t\t\t19\n\t\t\t7-8\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":57},
{"_key":"60c71c167723bebd86693335","_id":"references/60c71c167723bebd86693335","_rev":"_cfFl8JS---","tei":"\n\t\n\t\tA model for simulating cognate recognition and response in the immune system\n\t\t\n\t\t\tPhilipESeiden\n\t\t\n\t\t\n\t\t\tFrancoCelada\n\t\t\n\t\t10.1016/s0022-5193(05)80737-4\n\t\t1287364\n\t\tS0022-5193(05)80737-4\n\t\tark:/67375/6H6-DS29B40R-F\n\t\tF5A65E40F3EC24710353DFCDA32845498C27712C\n\t\n\t\n\t\tJournal of Theoretical Biology\n\t\tJournal of Theoretical Biology\n\t\t0022-5193\n\t\t\n\t\t\t158\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":88},
{"_key":"60c71c167723bebd86693336","_id":"references/60c71c167723bebd86693336","_rev":"_cfFl8Je---","tei":"\n\t\n\t\tModeling Intercellular Interactions in Early Mycobacterium Infection\n\t\t\n\t\t\tChristinaWarrender\n\t\t\n\t\t\n\t\t\tStephanieForrest\n\t\t\n\t\t\n\t\t\tFrederickKoster\n\t\t\n\t\t10.1007/s11538-006-9103-y\n\t\t17086496\n\t\tark:/67375/VQC-P5MX78HM-J\n\t\tC48BE4923EBC6DC69FD2672C3769F66D38DC4FAB\n\t\n\t\n\t\tBulletin of Mathematical Biology\n\t\tBull. Math. Biol.\n\t\t0092-8240\n\t\t1522-9602\n\t\t\n\t\t\t68\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":101},
{"_key":"60c71c167723bebd86693337","_id":"references/60c71c167723bebd86693337","_rev":"_cfFl8Jq---","tei":"\n\t\n\t\tHomeostasis of peripheral immune effectors\n\t\t\n\t\t\tCWarrender\n\t\t\n\t\t\n\t\t\tSForrest\n\t\t\n\t\t\n\t\t\tLSegel\n\t\t\n\t\t10.1016/j.bulm.2004.02.003\n\t\t15522343\n\t\tark:/67375/VQC-19RMNDP2-5\n\t\t9F7317279533ACBB3906ECB47BB4EFA6CF4B2CB1\n\t\n\t\n\t\tBulletin of Mathematical Biology\n\t\tBulletin of Mathematical Biology\n\t\t0092-8240\n\t\t\n\t\t\t66\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":102},
{"_key":"60c71c167723bebd86693338","_id":"references/60c71c167723bebd86693338","_rev":"_cfFl8J2---","tei":"\n\t\n\t\tModeling Intercellular Interactions in Early Mycobacterium Infection\n\t\t\n\t\t\tChristinaWarrender\n\t\t\n\t\t\n\t\t\tStephanieForrest\n\t\t\n\t\t\n\t\t\tFrederickKoster\n\t\t\n\t\t10.1007/s11538-006-9103-y\n\t\t17086496\n\t\tark:/67375/VQC-P5MX78HM-J\n\t\tC48BE4923EBC6DC69FD2672C3769F66D38DC4FAB\n\t\n\t\n\t\tBulletin of Mathematical Biology\n\t\tBull. Math. Biol.\n\t\t0092-8240\n\t\t1522-9602\n\t\t\n\t\t\t68\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\t\n\t\t\tComputer Science Department, University of New Mexico\n\t\t\n\t\n\tPhD thesis\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":103},
{"_key":"60c71c167723bebd86693339","_id":"references/60c71c167723bebd86693339","_rev":"_cfFl8K----","tei":"\n\t\n\t\t\n\t\t\tCEWarrender\n\t\t\n\t\tCyCells, Free open-source GNU GPL software available online on SourceForge.net\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":104},
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{"_key":"60c71c167723bebd8669333b","_id":"references/60c71c167723bebd8669333b","_rev":"_cfFl8KW---","tei":"\n\t\n\t\tA virtual look at Epstein–Barr virus infection: Simulation mechanism\n\t\t\n\t\t\tMShapiro\n\t\t\n\t\t\n\t\t\tKADuca\n\t\t\n\t\t\n\t\t\tKLee\n\t\t\n\t\t\n\t\t\tEDelgado-Eckert\n\t\t\n\t\t\n\t\t\tJHawkins\n\t\t\n\t\t\n\t\t\tASJarrah\n\t\t\n\t\t\n\t\t\tRLaubenbacher\n\t\t\n\t\t\n\t\t\tNFPolys\n\t\t\n\t\t\n\t\t\tVHadinoto\n\t\t\n\t\t\n\t\t\tDAThorley-Lawson\n\t\t\n\t\t10.1016/j.jtbi.2008.01.032\n\t\t18371986\n\t\tPMC2515170\n\t\t\n\t\n\t\n\t\tJournal of Theoretical Biology\n\t\tJournal of Theoretical Biology\n\t\t0022-5193\n\t\t\n\t\t\t252\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":89},
{"_key":"60c71c167723bebd8669333c","_id":"references/60c71c167723bebd8669333c","_rev":"_cfFl8Ki---","tei":"\n\t\n\t\tThe immune system as a complex system: description and simulation of the interactions of its constituents\n\t\t\n\t\t\tMMeier-Schellersheim\n\t\t\n\t\t\n\t\t\t\n\t\t\tHamburg, Germany\n\t\t\n\t\t\n\t\t\tPhysics Department, University of Hamburg\n\t\t\n\t\n\tPhD thesis\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":67},
{"_key":"60c71c167723bebd8669333d","_id":"references/60c71c167723bebd8669333d","_rev":"_cfFl8Kq---","tei":"\n\t\n\t\tSIMMUNE, a tool for simulating and analyzing immune system behavior\n\t\t\n\t\t\tMMeier-Schellersheim\n\t\t\n\t\t\n\t\t\tGMack\n\t\t\n\t\t<arXiv:cs.MA/9903017>\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":68},
{"_key":"60c71c167723bebd8669333e","_id":"references/60c71c167723bebd8669333e","_rev":"_cfFl8K2---","tei":"\n\t\n\t\tA computerized model for the self-non-self discrimination at the level of the Th (Th genesis). I. The origin of 'primer' effector Th cells\n\t\t\n\t\t\tMCohn\n\t\t\n\t\t\n\t\t\tRELangman\n\t\t\n\t\t\n\t\t\tJJMata\n\t\t\n\t\t10.1093/intimm/dxf078\n\t\t12356676\n\t\tPMC1360151\n\t\tark:/67375/HXZ-M7RD29MQ-K\n\t\tA74407216B33AFB5A85D9412CF26F4E907C2F57B\n\t\t\n\t\n\t\n\t\tInternational Immunology\n\t\tInternational Immunology\n\t\t0953-8178\n\t\t1460-2377\n\t\t\n\t\t\t14\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":25},
{"_key":"60c71c167723bebd8669333f","_id":"references/60c71c167723bebd8669333f","_rev":"_cfFl8LC---","tei":"\n\t\n\t\tA computerized model for the self-non-self discrimination at the level of the Th (Th genesis). II. The behavior of the system upon encounter with non-self antigens\n\t\t\n\t\t\tRELangman\n\t\t\n\t\t\n\t\t\tJJMata\n\t\t\n\t\t\n\t\t\tMCohn\n\t\t\n\t\t10.1093/intimm/dxg059\n\t\t12697660\n\t\tPMC1457092\n\t\tark:/67375/HXZ-R56D1PPP-H\n\t\t53A8780CBD081B340A18F72F6C0C993A864F6E2C\n\t\t\n\t\n\t\n\t\tInternational Immunology\n\t\t1460-2377\n\t\t\n\t\t\t15\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":59},
{"_key":"60c71c167723bebd86693340","_id":"references/60c71c167723bebd86693340","_rev":"_cfFl8LO---","tei":"\n\t\n\t\tCellular automata-based modeling program: synthetic immune system\n\t\t\n\t\t\tJamesMata\n\t\t\n\t\t\n\t\t\tMelvinCohn\n\t\t\n\t\t10.1111/j.1600-065x.2007.00511.x\n\t\t17367344\n\t\tark:/67375/WNG-JX647P0L-W\n\t\t1D9004563AC11CD54C1CD238C2421F71DFBC1315\n\t\n\t\n\t\tImmunological Reviews\n\t\t0105-2896\n\t\t\n\t\t\t216\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c71c167723bebd8669332c"},"refKey":66},
{"_key":"60c71c217723bebd86693353","_id":"references/60c71c217723bebd86693353","_rev":"_cfFl8LW---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c71c217723bebd86693352"},"refKey":18},
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{"_key":"60c71cae7723bebd86693367","_id":"references/60c71cae7723bebd86693367","_rev":"_cfFl8Lu---","tei":"\n\t\n\t\tBillion-scale similarity search with GPUs\n\t\t\n\t\t\tJeffJohnson\n\t\t\n\t\t\n\t\t\tMatthijsDouze\n\t\t\n\t\t\n\t\t\tHerveJegou\n\t\t\n\t\t10.1109/tbdata.2019.2921572\n\t\tarXiv:1702.08734\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Big Data\n\t\tIEEE Trans. Big Data\n\t\t2372-2096\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c71cae7723bebd86693366"},"refKey":2},
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{"_key":"60c71ff77723bebd86693621","_id":"references/60c71ff77723bebd86693621","_rev":"_cfFl8XC---","tei":"\n\t\n\t\tOpenair e an R package for air quality data analysis\n\t\t\n\t\t\tDCCarslaw\n\t\t\n\t\t\n\t\t\tKRopkins\n\t\t\n\t\n\t\n\t\tEnviron. Model. Softw. 27e28\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c71ff77723bebd86693620"},"refKey":11},
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{"_key":"60c720407723bebd86693656","_id":"references/60c720407723bebd86693656","_rev":"_cfFl8Xm---","tei":"\n\t\n\t\tIntegrated analysis of single cell transcriptomic data across conditions, technologies, and species\n\t\t\n\t\t\tAndrewButler\n\t\t\t0000-0003-3608-0463\n\t\t\n\t\t\n\t\t\tRahulSatija\n\t\t\t0000-0001-9448-8833\n\t\t\n\t\t10.1101/164889\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c720407723bebd86693655"},"refKey":41},
{"_key":"60c720407723bebd86693657","_id":"references/60c720407723bebd86693657","_rev":"_cfFl8Xy---","tei":"\n\t\n\t\tGEOquery: a bridge between the Gene Expression Omnibus (GEO) and BioConductor\n\t\t\n\t\t\tSDavis\n\t\t\n\t\t\n\t\t\tPSMeltzer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c720407723bebd86693655"},"refKey":34},
{"_key":"60c720407723bebd86693658","_id":"references/60c720407723bebd86693658","_rev":"_cfFl8Y----","tei":"\n\t\n\t\tThe sva package for removing batch effects and other unwanted variation in high-throughput experiments\n\t\t\n\t\t\tJTLeek\n\t\t\n\t\t\n\t\t\tWEJohnson\n\t\t\n\t\t\n\t\t\tHSParker\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c720407723bebd86693655"},"refKey":37},
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{"_key":"60c7237b7723bebd86693940","_id":"references/60c7237b7723bebd86693940","_rev":"_cfFl8ea---","tei":"\n\t\n\t\tThe HHpred interactive server for protein homology detection and structure prediction\n\t\t\n\t\t\tJSöding\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\n\t\n\t\tNucl. Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7237b7723bebd8669393f"},"refKey":50},
{"_key":"60c723a77723bebd86693967","_id":"references/60c723a77723bebd86693967","_rev":"_cfFl8eq---","tei":"\n\t\n\t\tAn interactive web-based dashboard to track COVID-19 in real time\n\t\t\n\t\t\tEDong\n\t\t\n\t\t\n\t\t\tHDu\n\t\t\n\t\t\n\t\t\tLGardner\n\t\t\n\t\t10.1016/S1473-\n\t\t\n\t\n\t\n\t\tLancet Infect Dis\n\t\t\n\t\t\t20\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c723a77723bebd86693966"},"refKey":20},
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{"_key":"60c723bb7723bebd86693972","_id":"references/60c723bb7723bebd86693972","_rev":"_cfFl8fG---","tei":"\n\t\n\t\tMEGA 3: integrated software for molecular evolutionary genetics analysis and sequence alignment\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c723bb7723bebd86693970"},"refKey":24},
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{"_key":"60c724ed7723bebd86693a42","_id":"references/60c724ed7723bebd86693a42","_rev":"_cfFl8ha---","tei":"\n\t\n\t\tKalign 3: multiple sequence alignment of large datasets\n\t\t\n\t\t\tTLassmann\n\t\t\n\t\t10.1093/bioinformatics/btz795\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c724ed7723bebd86693a40"},"refKey":29},
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{"_key":"60c726047723bebd86693b22","_id":"references/60c726047723bebd86693b22","_rev":"_cfFl8kS---","tei":"\n\t\n\t\tsna: tools for social network analysis\n\t\t\n\t\t\tCTButts\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package v. 2.3 -2. See\n\n","document":{"$oid":"60c726047723bebd86693b20"},"refKey":44},
{"_key":"60c726047723bebd86693b23","_id":"references/60c726047723bebd86693b23","_rev":"_cfFl8ka---","tei":"\n\t\n\t\tMuMIn: multi-model inference\n\t\t\n\t\t\t´kBarton\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package. 1.13.4. See\n\n","document":{"$oid":"60c726047723bebd86693b20"},"refKey":48},
{"_key":"60c726047723bebd86693b24","_id":"references/60c726047723bebd86693b24","_rev":"_cfFl8km---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tRDevelopment Core\n\t\t\n\t\t\n\t\t\tTeam\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c726047723bebd86693b20"},"refKey":46},
{"_key":"60c726047723bebd86693b25","_id":"references/60c726047723bebd86693b25","_rev":"_cfFl8ky---","tei":"\n\t\n\t\tMixed-effects models in S and S-PLUS\n\t\t\n\t\t\tJCPinheiro\n\t\t\n\t\t\n\t\t\tDMBates\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\t528\n\t\t\tBerlin, Germany\n\t\t\n\t\n\n","document":{"$oid":"60c726047723bebd86693b20"},"refKey":59},
{"_key":"60c726047723bebd86693b26","_id":"references/60c726047723bebd86693b26","_rev":"_cfFl8l----","tei":"\n\t\n\t\tGuidelines for estimating repeatability\n\t\t\n\t\t\tMatthewEWolak\n\t\t\n\t\t\n\t\t\tDaphneJFairbairn\n\t\t\n\t\t\n\t\t\tYaleRPaulsen\n\t\t\n\t\t10.1111/j.2041-210x.2011.00125.x\n\t\n\t\n\t\tMethods in Ecology and Evolution\n\t\t2041-210X\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c726047723bebd86693b20"},"refKey":58},
{"_key":"60c7265b7723bebd86693b42","_id":"references/60c7265b7723bebd86693b42","_rev":"_cfFl8lK---","tei":"\n\t\n\t\tThe BioGRID interaction database: 2019 update\n\t\t\n\t\t\tROughtred\n\t\t\n\t\t\n\t\t\tCStark\n\t\t\n\t\t\n\t\t\tB.-JBreitkreutz\n\t\t\n\t\t\n\t\t\tJRust\n\t\t\n\t\t\n\t\t\tLBoucher\n\t\t\n\t\t\n\t\t\tCChang\n\t\t\n\t\t10.1093/nar/gky1079\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7265b7723bebd86693b41"},"refKey":65},
{"_key":"60c7265b7723bebd86693b43","_id":"references/60c7265b7723bebd86693b43","_rev":"_cfFl8lW---","tei":"\n\t\n\t\tCytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t10.1101/gr.1239303\n\t\t14597658\n\t\tPMC403769\n\t\tdoi: 10.1101/ gr.1239303\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7265b7723bebd86693b41"},"refKey":71},
{"_key":"60c7265b7723bebd86693b44","_id":"references/60c7265b7723bebd86693b44","_rev":"_cfFl8li---","tei":"\n\t\n\t\tEnsembl 2018\n\t\t\n\t\t\tDanielRZerbino\n\t\t\t0000-0001-5350-3056\n\t\t\n\t\t\n\t\t\tPremanandAchuthan\n\t\t\n\t\t\n\t\t\tWasiuAkanni\n\t\t\t0000-0002-2075-2387\n\t\t\n\t\t\n\t\t\tMRidwanAmode\n\t\t\n\t\t\n\t\t\tDanielBarrell\n\t\t\n\t\t\n\t\t\tJyothishBhai\n\t\t\n\t\t\n\t\t\tKonstantinosBillis\n\t\t\t0000-0001-8568-4306\n\t\t\n\t\t\n\t\t\tCarlaCummins\n\t\t\n\t\t\n\t\t\tAstridGall\n\t\t\n\t\t\n\t\t\tCarlosGarcíaGirón\n\t\t\t0000-0002-0935-7271\n\t\t\n\t\t\n\t\t\tLaurentGil\n\t\t\n\t\t\n\t\t\tLeoGordon\n\t\t\n\t\t\n\t\t\tLeanneHaggerty\n\t\t\n\t\t\n\t\t\tErinHaskell\n\t\t\n\t\t\n\t\t\tThibautHourlier\n\t\t\t0000-0003-4894-7773\n\t\t\n\t\t\n\t\t\tOsagieGIzuogu\n\t\t\n\t\t\n\t\t\tSophieHJanacek\n\t\t\n\t\t\n\t\t\tThomasJuettemann\n\t\t\t0000-0002-9035-5301\n\t\t\n\t\t\n\t\t\tJimmyKiangTo\n\t\t\n\t\t\n\t\t\tMatthewRLaird\n\t\t\n\t\t\n\t\t\tIliasLavidas\n\t\t\n\t\t\n\t\t\tZhichengLiu\n\t\t\n\t\t\n\t\t\tJaneELoveland\n\t\t\t0000-0002-7669-2934\n\t\t\n\t\t\n\t\t\tThomasMaurel\n\t\t\n\t\t\n\t\t\tWilliamMclaren\n\t\t\n\t\t\n\t\t\tBenjaminMoore\n\t\t\n\t\t\n\t\t\tJonathanMudge\n\t\t\n\t\t\n\t\t\tDanielNMurphy\n\t\t\t0000-0002-8004-6505\n\t\t\n\t\t\n\t\t\tVictoriaNewman\n\t\t\n\t\t\n\t\t\tMichaelNuhn\n\t\t\t0000-0001-9753-7995\n\t\t\n\t\t\n\t\t\tDenyeOgeh\n\t\t\n\t\t\n\t\t\tChuangKeeOng\n\t\t\n\t\t\n\t\t\tAnneParker\n\t\t\n\t\t\n\t\t\tMateusPatricio\n\t\t\n\t\t\n\t\t\tHarpreetSinghRiat\n\t\t\n\t\t\n\t\t\tHelenSchuilenburg\n\t\t\n\t\t\n\t\t\tDanSheppard\n\t\t\n\t\t\n\t\t\tHelenSparrow\n\t\t\n\t\t\n\t\t\tKieronTaylor\n\t\t\n\t\t\n\t\t\tAnjaThormann\n\t\t\n\t\t\n\t\t\tAlessandroVullo\n\t\t\n\t\t\n\t\t\tBrandonWalts\n\t\t\n\t\t\n\t\t\tAmonidaZadissa\n\t\t\t0000-0001-5310-8830\n\t\t\n\t\t\n\t\t\tAdamFrankish\n\t\t\n\t\t\n\t\t\tSarahEHunt\n\t\t\n\t\t\n\t\t\tMyrtoKostadima\n\t\t\n\t\t\n\t\t\tNicholasLangridge\n\t\t\n\t\t\n\t\t\tFergalJMartin\n\t\t\t0000-0002-1672-050X\n\t\t\n\t\t\n\t\t\tMatthieuMuffato\n\t\t\n\t\t\n\t\t\tEmilyPerry\n\t\t\t0000-0003-0776-4428\n\t\t\n\t\t\n\t\t\tMagaliRuffier\n\t\t\t0000-0002-8386-1580\n\t\t\n\t\t\n\t\t\tDanMStaines\n\t\t\n\t\t\n\t\t\tStephenJTrevanion\n\t\t\n\t\t\n\t\t\tBronwenLAken\n\t\t\n\t\t\n\t\t\tFionaCunningham\n\t\t\t0000-0002-7445-2419\n\t\t\n\t\t\n\t\t\tAndrewYates\n\t\t\n\t\t\n\t\t\tPaulFlicek\n\t\t\t0000-0002-3897-7955\n\t\t\n\t\t10.1093/nar/gkx1098\n\t\t29155950\n\t\tPMC5753206\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7265b7723bebd86693b41"},"refKey":85},
{"_key":"60c7265b7723bebd86693b45","_id":"references/60c7265b7723bebd86693b45","_rev":"_cfFl8lq---","tei":"\n\t\n\t\tclusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tLi-GenWang\n\t\t\n\t\t\n\t\t\tYanyanHan\n\t\t\n\t\t\n\t\t\tQing-YuHe\n\t\t\n\t\t10.1089/omi.2011.0118\n\t\t22455463\n\t\tPMC3339379\n\t\t\n\t\n\t\n\t\tOMICS: A Journal of Integrative Biology\n\t\tOMICS: A Journal of Integrative Biology\n\t\t1536-2310\n\t\t1557-8100\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c7265b7723bebd86693b41"},"refKey":82},
{"_key":"60c726637723bebd86693b53","_id":"references/60c726637723bebd86693b53","_rev":"_cfFl8l2---","tei":"\n\t\n\t\tnCov2019: An R package for accessing coronavirus statistics\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\t2020\n\t\t\n\t\n\tcited\n\n","document":{"$oid":"60c726637723bebd86693b52"},"refKey":3},
{"_key":"60c726637723bebd86693b54","_id":"references/60c726637723bebd86693b54","_rev":"_cfFl8mC---","tei":"\n\t\n\t\tForecasting with exponential smoothing : the state space approach. Springer series in statistics\n\t\t\n\t\t\tRJHyndman\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer. xiii\n\t\t\t359\n\t\t\tp\n\t\t\tBerlin\n\t\t\n\t\n\n","document":{"$oid":"60c726637723bebd86693b52"},"refKey":10},
{"_key":"60c7267a7723bebd86693b65","_id":"references/60c7267a7723bebd86693b65","_rev":"_cfFl8mO---","tei":"\n\t\n\t\tPsyToolkit: a novel web-based method for running online questionnaires and reaction-time experiments\n\t\t\n\t\t\tGStoet\n\t\t\n\t\t10.1177/0098628316677643\n\t\n\t\n\t\tTeach. Psychol\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7267a7723bebd86693b64"},"refKey":48},
{"_key":"60c726927723bebd86693b6a","_id":"references/60c726927723bebd86693b6a","_rev":"_cfFl8ma---","tei":"\n\t\n\t\tR/qtl2: software for mapping quantitative trait loci with high-dimensional data and multi-parent populations\n\t\t\n\t\t\tKarlWBroman\n\t\t\t0000-0002-4914-6671\n\t\t\n\t\t\n\t\t\tDanielMGatti\n\t\t\t0000-0003-0667-9926\n\t\t\n\t\t\n\t\t\tPetrSimecek\n\t\t\t0000-0002-2922-7183\n\t\t\n\t\t\n\t\t\tNicholasAFurlotte\n\t\t\t0000-0002-9096-6276\n\t\t\n\t\t\n\t\t\tPjotrPrins\n\t\t\t0000-0002-8021-9162\n\t\t\n\t\t\n\t\t\tŚaunakSen\n\t\t\t0000-0003-4519-6361\n\t\t\n\t\t\n\t\t\tBrianSYandell\n\t\t\t0000-0002-8774-9377\n\t\t\n\t\t\n\t\t\tGaryAChurchill\n\t\t\t0000-0001-9190-9284\n\t\t\n\t\t10.1101/414748\n\t\t\n\t\n\t\n\t\tR/qtl2: Software for Mapping Quantitative Trait Loci with High-Dimensional Data and Multiparent Populations\n\t\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t\n\t\t\t211\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c726927723bebd86693b69"},"refKey":9},
{"_key":"60c726927723bebd86693b6b","_id":"references/60c726927723bebd86693b6b","_rev":"_cfFl8mi---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMächler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c726927723bebd86693b69"},"refKey":4},
{"_key":"60c726927723bebd86693b6c","_id":"references/60c726927723bebd86693b6c","_rev":"_cfFl8mu---","tei":"\n\t\n\t\tThe Effects of Sex and Diet on Physiology and Liver Gene Expression in Diversity Outbred Mice\n\t\t\n\t\t\tDanielMGatti\n\t\t\n\t\t\n\t\t\tPetrSimecek\n\t\t\n\t\t\n\t\t\tLisaSomes\n\t\t\n\t\t\n\t\t\tCliftonTJeffrey\n\t\t\n\t\t\n\t\t\tMatthewJVincent\n\t\t\n\t\t\n\t\t\tKwangbomChoi\n\t\t\n\t\t\n\t\t\tXingyaoChen\n\t\t\n\t\t\n\t\t\tGaryAChurchill\n\t\t\n\t\t\n\t\t\tKarenLSvenson\n\t\t\n\t\t10.1101/098657\n\t\t\n\t\n\t\n\t\tQuantitative Trait Locus Mapping Methods for Diversity Outbred Mice. G3 (Bethesda)\n\t\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c726927723bebd86693b69"},"refKey":20},
{"_key":"60c726a27723bebd86693b85","_id":"references/60c726a27723bebd86693b85","_rev":"_cfFl8m6---","tei":"\n\t\n\t\tSaTScan TM user guide for version 9\n\t\t\n\t\t\tMKulldorff\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c726a27723bebd86693b84"},"refKey":18},
{"_key":"60c726d87723bebd86693ba5","_id":"references/60c726d87723bebd86693ba5","_rev":"_cfFl8nC---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c726d87723bebd86693ba4"},"refKey":40},
{"_key":"60c7270c7723bebd86693bbb","_id":"references/60c7270c7723bebd86693bbb","_rev":"_cfFl8nO---","tei":"\n\t\n\t\tGPOWER: A general power analysis program\n\t\t\n\t\t\tEErdfelder\n\t\t\n\t\t\n\t\t\tFFaul\n\t\t\n\t\t\n\t\t\tABuchner\n\t\t\n\t\n\t\n\t\tBehavior Research Methods, Instruments, and Computers\n\t\t\n\t\t\t28\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7270c7723bebd86693bba"},"refKey":28},
{"_key":"60c7272d7723bebd86693bcc","_id":"references/60c7272d7723bebd86693bcc","_rev":"_cfFl8na---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7272d7723bebd86693bcb"},"refKey":45},
{"_key":"60c7272d7723bebd86693bcd","_id":"references/60c7272d7723bebd86693bcd","_rev":"_cfFl8nm---","tei":"\n\t\n\t\tStatistical Inference for Partially Observed Markov Processes via theRPackagepomp\n\t\t\n\t\t\tAaronAKing\n\t\t\n\t\t\n\t\t\tDaoNguyen\n\t\t\n\t\t\n\t\t\tEdwardLIonides\n\t\t\n\t\t10.18637/jss.v069.i12\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t69\n\t\t\t12\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\tstat.ME\n\n","document":{"$oid":"60c7272d7723bebd86693bcb"},"refKey":46},
{"_key":"60c727727723bebd86693bf7","_id":"references/60c727727723bebd86693bf7","_rev":"_cfFl8nu---","tei":"\n\t\n\t\tMedical Image Processing, Analysis and Visualization in clinical research\n\t\t\n\t\t\tMJMcauliffe\n\t\t\n\t\t\n\t\t\tFMLalonde\n\t\t\n\t\t\n\t\t\tDMcgarry\n\t\t\n\t\t\n\t\t\tWGandler\n\t\t\n\t\t\n\t\t\tKCsaky\n\t\t\n\t\t\n\t\t\tBLTrus\n\t\t\n\t\t10.1109/cbms.2001.941749\n\t\n\t\n\t\tProceedings 14th IEEE Symposium on Computer-Based Medical Systems. CBMS 2001\n\t\t\t\t14th IEEE Symposium on Computer-Based Medical Systems. CBMS 2001\n\t\t\n\t\t\tIEEE Comput. Soc\n\t\t\t2001\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c727727723bebd86693bf6"},"refKey":9},
{"_key":"60c727a77723bebd86693c0e","_id":"references/60c727a77723bebd86693c0e","_rev":"_cfFl8n6---","tei":"\n\t\n\t\tViewer discretion advised: is YouTube a friend or foe in surgical education?\n\t\t\n\t\t\tHAlejandroRodriguez\n\t\t\n\t\t\n\t\t\tMonicaTYoung\n\t\t\n\t\t\n\t\t\tHopeTJackson\n\t\t\n\t\t\n\t\t\tBrantKOelschlager\n\t\t\n\t\t\n\t\t\tAndrewSWright\n\t\t\n\t\t10.1007/s00464-017-5853-x\n\t\t28916948\n\t\n\t\n\t\tSurgical Endoscopy\n\t\tSurg Endosc\n\t\t0930-2794\n\t\t1432-2218\n\t\t\n\t\t\t32\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c727a77723bebd86693c0d"},"refKey":11},
{"_key":"60c727a77723bebd86693c0f","_id":"references/60c727a77723bebd86693c0f","_rev":"_cfFl8oG---","tei":"\n\t\n\t\tConcerns of Quality and Safety in Public Domain Surgical Education Videos: An Assessment of the Critical View of Safety in Frequently Used Laparoscopic Cholecystectomy Videos\n\t\t\n\t\t\tShanleyBDeal\n\t\t\n\t\t\n\t\t\tAdnanAAlseidi\n\t\t\n\t\t10.1016/j.jamcollsurg.2017.08.016\n\t\t28882684\n\t\n\t\n\t\tJournal of the American College of Surgeons\n\t\tJournal of the American College of Surgeons\n\t\t1072-7515\n\t\t\n\t\t\t225\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c727a77723bebd86693c0d"},"refKey":12},
{"_key":"60c727d07723bebd86693c1c","_id":"references/60c727d07723bebd86693c1c","_rev":"_cfFl8oO---","tei":"\n\t\n\t\tThe Hungarian Method for the Assignment Problem\n\t\t\n\t\t\tHaroldWKuhn\n\t\t\n\t\t10.1007/978-3-540-68279-0_2\n\t\tark:/67375/HCB-HXS8CZ75-8\n\t\tC630D51B873119AB5D8A753F54D7CC1E0B257706\n\t\t\n\t\n\t\n\t\t50 Years of Integer Programming 1958-2008\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c727d07723bebd86693c1b"},"refKey":13},
{"_key":"60c727d07723bebd86693c1d","_id":"references/60c727d07723bebd86693c1d","_rev":"_cfFl8oa---","tei":"\n\t\n\t\tReal-time pose estimation accelerated with NVIDIA TensorRT\n\t\t\n\t\t\n\t\n\tNVIDIA\n\n","document":{"$oid":"60c727d07723bebd86693c1b"},"refKey":2},
{"_key":"60c727e47723bebd86693c39","_id":"references/60c727e47723bebd86693c39","_rev":"_cfFl8om---","tei":"\n\t\n\t\tComunica: A Modular SPARQL Query Engine for the Web\n\t\t\n\t\t\tRubenTaelman\n\t\t\n\t\t\n\t\t\tJoachimVan Herwegen\n\t\t\n\t\t\n\t\t\tMielVander Sande\n\t\t\n\t\t\n\t\t\tRubenVerborgh\n\t\t\n\t\t10.1007/978-3-030-00668-6_15\n\t\t1007/978-3-030-00668-6 15\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tDVrandečić\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11137\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c727e47723bebd86693c38"},"refKey":25},
{"_key":"60c727e47723bebd86693c3a","_id":"references/60c727e47723bebd86693c3a","_rev":"_cfFl8ou---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tBDe Meester\n\t\t\n\t\t\n\t\t\tPHeyvaert\n\t\t\n\t\t\n\t\t\tADimou\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tYARRRML. Unofficial draft, imec -Ghent University -IDLab\n\t\t\n\t\n\n","document":{"$oid":"60c727e47723bebd86693c38"},"refKey":5},
{"_key":"60c727e47723bebd86693c3b","_id":"references/60c727e47723bebd86693c3b","_rev":"_cfFl8o6---","tei":"\n\t\n\t\tDeclarative Rules for Linked Data Generation at Your Fingertips!\n\t\t\n\t\t\tPieterHeyvaert\n\t\t\n\t\t\n\t\t\tBenDe Meester\n\t\t\n\t\t\n\t\t\tAnastasiaDimou\n\t\t\n\t\t\n\t\t\tRubenVerborgh\n\t\t\n\t\t10.1007/978-3-319-98192-5_40\n\t\t\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tAGangemi\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11155\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c727e47723bebd86693c38"},"refKey":14},
{"_key":"60c727f07723bebd86693c55","_id":"references/60c727f07723bebd86693c55","_rev":"_cfFl8pG---","tei":"\n\t\n\t\tJoinpoint Regression Program, Version 4.2.0.2. Washington, DC: Statistical Research and Applications Branch, National Cancer Institute\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c727f07723bebd86693c54"},"refKey":12},
{"_key":"60c727fa7723bebd86693c5a","_id":"references/60c727fa7723bebd86693c5a","_rev":"_cfFl8pS---","tei":"\n\t\n\t\tVerification of protein structures: patterns of nonbonded atomic interactions\n\t\t\n\t\t\tCColovos\n\t\t\n\t\t\n\t\t\tTOYeates\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c727fa7723bebd86693c59"},"refKey":3},
{"_key":"60c727fa7723bebd86693c5b","_id":"references/60c727fa7723bebd86693c5b","_rev":"_cfFl8pa---","tei":"\n\t\n\t\tPython: a programming language for software integration and development\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics and Modelling\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c727fa7723bebd86693c59"},"refKey":38},
{"_key":"60c727fa7723bebd86693c5c","_id":"references/60c727fa7723bebd86693c5c","_rev":"_cfFl8pm---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c727fa7723bebd86693c59"},"refKey":17},
{"_key":"60c728007723bebd86693c7b","_id":"references/60c728007723bebd86693c7b","_rev":"_cfFl8py---","tei":"\n\t\n\t\tBayesian population\n\t\t\n\t\t\tPZeidman\n\t\t\n\t\t\n\t\t\tEHSilson\n\t\t\n\t\t\n\t\t\tDSSchwarzkopf\n\t\t\n\t\t\n\t\t\tCIBaker\n\t\t\n\t\t\n\t\t\tWPenny\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728007723bebd86693c7a"},"refKey":86},
{"_key":"60c728007723bebd86693c7c","_id":"references/60c728007723bebd86693c7c","_rev":"_cfFl8q----","tei":"\n\t\n\t\tAdvances in functional and structural MR image analysis and implementation as FSL\n\t\t\n\t\t\tStephenMSmith\n\t\t\n\t\t\n\t\t\tMarkJenkinson\n\t\t\n\t\t\n\t\t\tMarkWWoolrich\n\t\t\n\t\t\n\t\t\tChristianFBeckmann\n\t\t\n\t\t\n\t\t\tTimothyE JBehrens\n\t\t\n\t\t\n\t\t\tHeidiJohansen-Berg\n\t\t\n\t\t\n\t\t\tPeterRBannister\n\t\t\n\t\t\n\t\t\tMarilenaDe Luca\n\t\t\n\t\t\n\t\t\tIvanaDrobnjak\n\t\t\n\t\t\n\t\t\tDavidEFlitney\n\t\t\n\t\t\n\t\t\tRamiKNiazy\n\t\t\n\t\t\n\t\t\tJamesSaunders\n\t\t\n\t\t\n\t\t\tJohnVickers\n\t\t\n\t\t\n\t\t\tYongyueZhang\n\t\t\n\t\t\n\t\t\tNicolaDe Stefano\n\t\t\n\t\t\n\t\t\tJMichaelBrady\n\t\t\n\t\t\n\t\t\tPaulMMatthews\n\t\t\n\t\t10.1016/j.neuroimage.2004.07.051\n\t\t15501092\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c728007723bebd86693c7a"},"refKey":75},
{"_key":"60c728007723bebd86693c7d","_id":"references/60c728007723bebd86693c7d","_rev":"_cfFl8qG---","tei":"\n\t\n\t\tBayesian analysis of neuroimaging data in FSL\n\t\t\n\t\t\tMarkWWoolrich\n\t\t\n\t\t\n\t\t\tSaadJbabdi\n\t\t\n\t\t\n\t\t\tBrianPatenaude\n\t\t\n\t\t\n\t\t\tMichaelChappell\n\t\t\n\t\t\n\t\t\tSalimaMakni\n\t\t\n\t\t\n\t\t\tTimothyBehrens\n\t\t\n\t\t\n\t\t\tChristianBeckmann\n\t\t\n\t\t\n\t\t\tMarkJenkinson\n\t\t\n\t\t\n\t\t\tStephenMSmith\n\t\t\n\t\t10.1016/j.neuroimage.2008.10.055\n\t\t19059349\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t45\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c728007723bebd86693c7a"},"refKey":82},
{"_key":"60c728007723bebd86693c7e","_id":"references/60c728007723bebd86693c7e","_rev":"_cfFl8qS---","tei":"\n\t\n\t\tAutomatic Physiological Waveform Processing for fMRI Noise Correction and Analysis\n\t\t\n\t\t\tDanielJKelley\n\t\t\n\t\t\n\t\t\tTerrenceROakes\n\t\t\n\t\t\n\t\t\tLarryLGreischar\n\t\t\n\t\t\n\t\t\tMooKChung\n\t\t\n\t\t\n\t\t\tJohnMOllinger\n\t\t\n\t\t\n\t\t\tAndrewLAlexander\n\t\t\n\t\t\n\t\t\tStevenEShelton\n\t\t\n\t\t\n\t\t\tNedHKalin\n\t\t\n\t\t\n\t\t\tRichardJDavidson\n\t\t\n\t\t10.1371/journal.pone.0001751\n\t\t18347739\n\t\tPMC2268243\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t3\n\t\t\t3\n\t\t\te1751\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c728007723bebd86693c7a"},"refKey":37},
{"_key":"60c728007723bebd86693c7f","_id":"references/60c728007723bebd86693c7f","_rev":"_cfFl8qe---","tei":"\n\t\n\t\tImage‐based method for retrospective correction of physiological motion effects in fMRI: RETROICOR\n\t\t\n\t\t\tGaryHGlover\n\t\t\n\t\t\n\t\t\tTie‐qiangLi\n\t\t\n\t\t\n\t\t\tDavidRess\n\t\t\n\t\t10.1002/1522-2594(200007)44:1<162::aid-mrm23>3.3.co;2-5\n\t\n\t\n\t\tMagnetic Resonance in Medicine\n\t\tMagn. Reson. Med.\n\t\t0740-3194\n\t\t1522-2594\n\t\t\n\t\t\t44\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c728007723bebd86693c7a"},"refKey":20},
{"_key":"60c7282b7723bebd86693cb3","_id":"references/60c7282b7723bebd86693cb3","_rev":"_cfFl8qq---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7282b7723bebd86693cb2"},"refKey":92},
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{"_key":"60c7282b7723bebd86693cb5","_id":"references/60c7282b7723bebd86693cb5","_rev":"_cfFl8rC---","tei":"\n\t\n\t\tHMMER web server: interactive sequence similarity searching\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tJClements\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7282b7723bebd86693cb2"},"refKey":94},
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{"_key":"60c7285b7723bebd86693cce","_id":"references/60c7285b7723bebd86693cce","_rev":"_cfFl8rW---","tei":"\n\t\n\t\tMeta-analysis macros for SAS, SPSS, and Stata (Version\n\t\t\n\t\t\n\t\t\t\n\t\t\t5\n\t\t\n\t\n\n","document":{"$oid":"60c7285b7723bebd86693ccc"},"refKey":17},
{"_key":"60c7285d7723bebd86693cd5","_id":"references/60c7285d7723bebd86693cd5","_rev":"_cfFl8ri---","tei":"\n\t\n\t\tRelease 2020-1\n\t\t\n\t\t\tSchrödinger\n\t\t\n\t\t\n\t\t\t\n\t\t\tSchrödinger LLC\n\t\t\tNew York, NY\n\t\t\n\t\n\n","document":{"$oid":"60c7285d7723bebd86693cd4"},"refKey":30},
{"_key":"60c728ba7723bebd86693d31","_id":"references/60c728ba7723bebd86693d31","_rev":"_cfFl8ru---","tei":"\n\t\n\t\tGraphical Tools for Network Meta-Analysis in STATA\n\t\t\n\t\t\tAnnaChaimani\n\t\t\n\t\t\n\t\t\tJulianP THiggins\n\t\t\n\t\t\n\t\t\tDimitrisMavridis\n\t\t\n\t\t\n\t\t\tPanagiotaSpyridonos\n\t\t\n\t\t\n\t\t\tGeorgiaSalanti\n\t\t\n\t\t10.1371/journal.pone.0076654\n\t\t24098547\n\t\tPMC3789683\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t10\n\t\t\te76654\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c728ba7723bebd86693d30"},"refKey":23},
{"_key":"60c728ba7723bebd86693d32","_id":"references/60c728ba7723bebd86693d32","_rev":"_cfFl8r6---","tei":"\n\t\n\t\tNetwork meta-analysis: application and practice using Stata\n\t\t\n\t\t\tSungryulShim\n\t\t\n\t\t\n\t\t\tByung-HoYoon\n\t\t\n\t\t\n\t\t\tIn-SooShin\n\t\t\n\t\t\n\t\t\tJong-MyonBae\n\t\t\n\t\t10.4178/epih.e2017047\n\t\t29092392\n\t\tPMC5733388\n\t\t\n\t\t\n\t\n\t\n\t\tEpidemiology and Health\n\t\tEpidemiol Health\n\t\t2092-7193\n\t\t\n\t\t\t39\n\t\t\te2017047\n\t\t\t\n\t\t\tKorean Society of Epidemiology\n\t\t\n\t\n\n","document":{"$oid":"60c728ba7723bebd86693d30"},"refKey":25},
{"_key":"60c728ba7723bebd86693d33","_id":"references/60c728ba7723bebd86693d33","_rev":"_cfFl8sG---","tei":"\n\t\n\t\tNetwork Meta-Analysis Using R: A Review of Currently Available Automated Packages\n\t\t\n\t\t\tBinodNeupane\n\t\t\n\t\t\n\t\t\tDanielleRicher\n\t\t\n\t\t\n\t\t\tAshleyJoelBonner\n\t\t\n\t\t\n\t\t\tTaddeleKibret\n\t\t\n\t\t\n\t\t\tJosephBeyene\n\t\t\n\t\t10.1371/journal.pone.0115065\n\t\t25541687\n\t\tPMC4277278\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t9\n\t\t\t12\n\t\t\te115065\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c728ba7723bebd86693d30"},"refKey":26},
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{"_key":"60c728c97723bebd86693d4c","_id":"references/60c728c97723bebd86693d4c","_rev":"_cfFl8sm---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":49},
{"_key":"60c728c97723bebd86693d4d","_id":"references/60c728c97723bebd86693d4d","_rev":"_cfFl8sy---","tei":"\n\t\n\t\tErratum: SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tBinghangLiu\n\t\t\n\t\t\n\t\t\tYinlongXie\n\t\t\n\t\t\n\t\t\tZhenyuLi\n\t\t\n\t\t\n\t\t\tWeihuaHuang\n\t\t\n\t\t\n\t\t\tJianyingYuan\n\t\t\n\t\t\n\t\t\tGuangzhuHe\n\t\t\n\t\t\n\t\t\tYanxiangChen\n\t\t\n\t\t\n\t\t\tQiPan\n\t\t\n\t\t\n\t\t\tYunjieLiu\n\t\t\n\t\t\n\t\t\tJingboTang\n\t\t\n\t\t\n\t\t\tGengxiongWu\n\t\t\n\t\t\n\t\t\tHaoZhang\n\t\t\n\t\t\n\t\t\tYujianShi\n\t\t\n\t\t\n\t\t\tYongLiu\n\t\t\n\t\t\n\t\t\tChangYu\n\t\t\n\t\t\n\t\t\tBoWang\n\t\t\n\t\t\n\t\t\tYaoLu\n\t\t\n\t\t\n\t\t\tChangleiHan\n\t\t\n\t\t\n\t\t\tDavidWCheung\n\t\t\n\t\t\n\t\t\tSiu-MingYiu\n\t\t\n\t\t\n\t\t\tShaoliangPeng\n\t\t\n\t\t\n\t\t\tZhuXiaoqian\n\t\t\n\t\t\n\t\t\tGuangmingLiu\n\t\t\n\t\t\n\t\t\tXiangkeLiao\n\t\t\n\t\t\n\t\t\tYingruiLi\n\t\t\n\t\t\n\t\t\tHuanmingYang\n\t\t\n\t\t\n\t\t\tJianWang\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t\n\t\t\tJunWang\n\t\t\n\t\t10.1186/s13742-015-0069-2\n\t\t26161257\n\t\tPMC4496933\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\tGigaSci\n\t\t2047-217X\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t18\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":47},
{"_key":"60c728c97723bebd86693d4e","_id":"references/60c728c97723bebd86693d4e","_rev":"_cfFl8t----","tei":"\n\t\n\t\tImprovement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments\n\t\t\n\t\t\tGTalavera\n\t\t\n\t\t\n\t\t\tJCastresana\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t56\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":82},
{"_key":"60c728c97723bebd86693d4f","_id":"references/60c728c97723bebd86693d4f","_rev":"_cfFl8tK---","tei":"\n\t\n\t\tSelection of conserved blocks from multiple alignments for their use in phylogenetic analysis\n\t\t\n\t\t\tJCastresana\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t17\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":83},
{"_key":"60c728c97723bebd86693d50","_id":"references/60c728c97723bebd86693d50","_rev":"_cfFl8tS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tFCunningham\n\t\t\n\t\t\n\t\t\tMRAmode\n\t\t\n\t\t\n\t\t\tDBarrell\n\t\t\n\t\t\n\t\t\tKBeal\n\t\t\n\t\t\n\t\t\tKBillis\n\t\t\n\t\t\n\t\t\tSBrent\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":57},
{"_key":"60c728c97723bebd86693d51","_id":"references/60c728c97723bebd86693d51","_rev":"_cfFl8te---","tei":"\n\t\n\t\tTreeFam: a curated database of phylogenetic trees of animal gene families\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tACoghlan\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tLJCoin\n\t\t\n\t\t\n\t\t\tJKHeriche\n\t\t\n\t\t\n\t\t\tLOsmotherly\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t34\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tsuppl\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":74},
{"_key":"60c728c97723bebd86693d52","_id":"references/60c728c97723bebd86693d52","_rev":"_cfFl8tq---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":90},
{"_key":"60c728c97723bebd86693d53","_id":"references/60c728c97723bebd86693d53","_rev":"_cfFl8t2---","tei":"\n\t\n\t\tParaAT: a parallel tool for constructing multiple protein-coding DNA alignments\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tJXiao\n\t\t\n\t\t\n\t\t\tJWu\n\t\t\n\t\t\n\t\t\tHZhang\n\t\t\n\t\t\n\t\t\tGLiu\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\n\t\n\t\tBiochem Biophys Res Commun\n\t\t\n\t\t\t419\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":39},
{"_key":"60c728c97723bebd86693d54","_id":"references/60c728c97723bebd86693d54","_rev":"_cfFl8uC---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":61},
{"_key":"60c728c97723bebd86693d55","_id":"references/60c728c97723bebd86693d55","_rev":"_cfFl8uK---","tei":"\n\t\n\t\tA method and server for predicting damaging missense mutations\n\t\t\n\t\t\tIAAdzhubei\n\t\t\n\t\t\n\t\t\tSSchmidt\n\t\t\n\t\t\n\t\t\tLPeshkin\n\t\t\n\t\t\n\t\t\tVERamensky\n\t\t\n\t\t\n\t\t\tAGerasimova\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t7\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":86},
{"_key":"60c728c97723bebd86693d56","_id":"references/60c728c97723bebd86693d56","_rev":"_cfFl8uW---","tei":"\n\t\n\t\tOrthology Detection Combining Clustering and Synteny for Very Large Datasets\n\t\t\n\t\t\tMarcusLechner\n\t\t\n\t\t\n\t\t\tMaribelHernandez-Rosales\n\t\t\n\t\t\n\t\t\tDanielDoerr\n\t\t\n\t\t\n\t\t\tNicolasWieseke\n\t\t\n\t\t\n\t\t\tAnnelyseThévenin\n\t\t\n\t\t\n\t\t\tJensStoye\n\t\t\n\t\t\n\t\t\tRolandKHartmann\n\t\t\n\t\t\n\t\t\tSonjaJProhaska\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t10.1371/journal.pone.0105015\n\t\t25137074\n\t\tPMC4138177\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\te105015\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":84},
{"_key":"60c728c97723bebd86693d57","_id":"references/60c728c97723bebd86693d57","_rev":"_cfFl8ui---","tei":"\n\t\n\t\ttRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence\n\t\t\n\t\t\tTMLowe\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":60},
{"_key":"60c728c97723bebd86693d58","_id":"references/60c728c97723bebd86693d58","_rev":"_cfFl8uu---","tei":"\n\t\n\t\tInfernal 1.0: inference of RNA alignments\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tDLKolbe\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t10.1093/bioinformatics/btp326\n\t\tPMC2912718\n\t\tark:/67375/HXZ-C1Q8Z89R-Z\n\t\t35E179293422FAC344C7CAFBA3CBE84FA2B8BA41\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":62},
{"_key":"60c728c97723bebd86693d59","_id":"references/60c728c97723bebd86693d59","_rev":"_cfFl8u2---","tei":"\n\t\n\t\tTandem repeats finder: a program to analyze DNA sequences\n\t\t\n\t\t\tGBenson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t573\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":54},
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{"_key":"60c728c97723bebd86693d5b","_id":"references/60c728c97723bebd86693d5b","_rev":"_cfFl8vO---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":95},
{"_key":"60c728c97723bebd86693d5c","_id":"references/60c728c97723bebd86693d5c","_rev":"_cfFl8va---","tei":"\n\t\n\t\tImproved pairwise alignment of genomic DNA\n\t\t\n\t\t\tRSHarris\n\t\t\n\t\t\n\t\n\tPh.D. thesis\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":91},
{"_key":"60c728c97723bebd86693d5d","_id":"references/60c728c97723bebd86693d5d","_rev":"_cfFl8vi---","tei":"\n\t\n\t\tThe variant call format and VCFtools\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tAAuton\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tCAAlbers\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728c97723bebd86693d49"},"refKey":96},
{"_key":"60c728d47723bebd86693d93","_id":"references/60c728d47723bebd86693d93","_rev":"_cfFl8vu---","tei":"\n\t\n\t\tstructureViz: linking Cytoscape and UCSF Chimera\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tPCBabbitt\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\t10.1093/bioinformatics/btm329\n\t\t17623706\n\t\tark:/67375/HXZ-DH47XHJW-D\n\t\tF2B78B21CC88F37B28A98F8DA25F7B6EA28E2D03\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c728d47723bebd86693d92"},"refKey":40},
{"_key":"60c728e87723bebd86693daa","_id":"references/60c728e87723bebd86693daa","_rev":"_cfFl8v6---","tei":"\n\t\n\t\tComparing accessibility evaluation plug-ins\n\t\t\n\t\t\tTFrazão\n\t\t\n\t\t\n\t\t\tCDuarte\n\t\t\n\t\t10.1145/3371300.3383346\n\t\t\n\t\n\t\n\t\tAssociation for Computing Machinery\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c728e87723bebd86693da9"},"refKey":2},
{"_key":"60c7292a7723bebd86693dc9","_id":"references/60c7292a7723bebd86693dc9","_rev":"_cfFl8wG---","tei":"\n\t\n\t\tCytoscape.js: a graph theory library for visualisation and analysis\n\t\t\n\t\t\tMaxFranz\n\t\t\n\t\t\n\t\t\tChristianTLopes\n\t\t\n\t\t\n\t\t\tGerardoHuck\n\t\t\n\t\t\n\t\t\tYueDong\n\t\t\n\t\t\n\t\t\tOnurSumer\n\t\t\n\t\t\n\t\t\tGaryDBader\n\t\t\n\t\t10.1093/bioinformatics/btv557\n\t\t26415722\n\t\tPMC4708103\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t2\n\t\t\tbtv557\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7292a7723bebd86693dc8"},"refKey":40},
{"_key":"60c7293a7723bebd86693de4","_id":"references/60c7293a7723bebd86693de4","_rev":"_cfFl8wS---","tei":"\n\t\n\t\tHIV Signature and Sequence Variation Analysis\n\t\t\n\t\t\tBKorber\n\t\t\n\t\n\t\n\t\tComputational Analysis of HIV Molecular Sequences\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7293a7723bebd86693de3"},"refKey":18},
{"_key":"60c7293a7723bebd86693de5","_id":"references/60c7293a7723bebd86693de5","_rev":"_cfFl8wa---","tei":"\n\t\n\t\tPredicting functional effect of human missense mutations using PolyPhen-2\n\t\t\n\t\t\tIAAdzhubei\n\t\t\n\t\t\n\t\t\tSSchmidt\n\t\t\n\t\t\n\t\t\tVEPeshkin\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t7\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7293a7723bebd86693de3"},"refKey":19},
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{"_key":"60c729497723bebd86693df9","_id":"references/60c729497723bebd86693df9","_rev":"_cfFl8wy---","tei":"\n\t\n\t\tBEAST: Bayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t10.1186/1471-2148-7-214\n\t\t17996036\n\t\tPMC2247476\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t214\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c729497723bebd86693df8"},"refKey":11},
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{"_key":"60c729af7723bebd86693e53","_id":"references/60c729af7723bebd86693e53","_rev":"_cfFl8y----","tei":"\n\t\n\t\tDeep learning face attributes in the wild\n\t\t\n\t\t\tZLiu\n\t\t\n\t\t\n\t\t\tPLuo\n\t\t\n\t\t\n\t\t\tXWang\n\t\t\n\t\t\n\t\t\tXTang\n\t\t\n\t\n\t\n\t\tProceedings of International Conference on Computer Vision (ICCV)\n\t\t\t\tInternational Conference on Computer Vision (ICCV)\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c729af7723bebd86693e52"},"refKey":7},
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{"_key":"60c72ad07723bebd86693f29","_id":"references/60c72ad07723bebd86693f29","_rev":"_cfFl81S---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c72ad07723bebd86693f28"},"refKey":3},
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{"_key":"60c72b427723bebd86693f82","_id":"references/60c72b427723bebd86693f82","_rev":"_cfFl82e---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c72b427723bebd86693f80"},"refKey":49},
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{"_key":"60c72cca7723bebd86694103","_id":"references/60c72cca7723bebd86694103","_rev":"_cfFl86a---","tei":"\n\t\n\t\tFuze: towards facilitating exploit generation for kernel use-after-free vulnerabilities\n\t\t\n\t\t\tWWu\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tJXu\n\t\t\n\t\t\n\t\t\tXXing\n\t\t\n\t\t\n\t\t\tXGong\n\t\t\n\t\t\n\t\t\tWZou\n\t\t\n\t\n\t\n\t\t27th USENIX Security Symposium (USENIX Security 18)\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c72cca7723bebd86694102"},"refKey":25},
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{"_key":"60c72cff7723bebd86694174","_id":"references/60c72cff7723bebd86694174","_rev":"_cfFl87q---","tei":"\n\t\n\t\tThe Genotype-Tissue Expression (GTEx) project\n\t\t\n\t\t\tJohnLonsdale\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJeffreyThomas\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tMikeSalvatore\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tRebeccaPhillips\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tEdmundLo\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSaboorShad\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tRichardHasz\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tGaryWalters\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tFernandoGarcia\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tNancyYoung\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tBarbaraFoster\n\t\t\t\n\t\t\t\tGTEx 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Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tGregKorzeniewski\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tCharlesShive\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDavidTabor\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tLiqunQi\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tKevinGroch\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSreenathNampally\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSteveBuia\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAngelaZimmerman\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tAnnaSmith\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tRobinBurges\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tKarnaRobinson\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tKimValentino\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tDeborahBradbury\n\t\t\t\n\t\t\t\tGTEx 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Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSusanEKoester\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tARogerLittle\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tPatrickKBender\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tThomasLehner\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tYinYao\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tCarolynCCompton\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJimmieBVaught\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tSherilynSawyer\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tNicoleCLockhart\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tJoanneDemchok\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t\n\t\t\tHelenFMoore\n\t\t\t\n\t\t\t\tGTEx Consortium\n\t\t\t\n\t\t\n\t\t10.1038/ng.2653\n\t\t23715323\n\t\tPMC4010069\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t45\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c72cff7723bebd86694173"},"refKey":11},
{"_key":"60c72cff7723bebd86694175","_id":"references/60c72cff7723bebd86694175","_rev":"_cfFl872---","tei":"\n\t\n\t\tThe Gene Ontology Resource: 20 years and still GOing strong\n\t\t10.1093/nar/gky1055\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tThe Gene Ontology Consortium. PubMed\n\n","document":{"$oid":"60c72cff7723bebd86694173"},"refKey":12},
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{"_key":"60c72d8f7723bebd866941e2","_id":"references/60c72d8f7723bebd866941e2","_rev":"_cfFl88u---","tei":"\n\t\n\t\tSignalP 4.0: discriminating signal peptides from transmembrane regions\n\t\t\n\t\t\tTNPetersen\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c72d8f7723bebd866941e0"},"refKey":21},
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{"_key":"60c72d8f7723bebd866941e7","_id":"references/60c72d8f7723bebd866941e7","_rev":"_cfFl89m---","tei":"\n\t\n\t\tPHYLIP (Phylogeny Inference Package) version 3.6. Distributed by the author\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\t\n\t\t\t\n\t\t\tSeattle\n\t\t\n\t\t\n\t\t\tDepartment of Genome Sciences, University of Washington\n\t\t\n\t\n\n","document":{"$oid":"60c72d8f7723bebd866941e0"},"refKey":31},
{"_key":"60c72d8f7723bebd866941e8","_id":"references/60c72d8f7723bebd866941e8","_rev":"_cfFl89y---","tei":"\n\t\n\t\tPredicting coiled coils from protein sequences\n\t\t\n\t\t\tALupas\n\t\t\n\t\t\n\t\t\tMVan Dyke\n\t\t\n\t\t\n\t\t\tJStock\n\t\t\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t252\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c72d8f7723bebd866941e0"},"refKey":23},
{"_key":"60c72d8f7723bebd866941e9","_id":"references/60c72d8f7723bebd866941e9","_rev":"_cfFl9-----","tei":"\n\t\n\t\tPaircoil2: improved prediction of coiled coils from sequence\n\t\t\n\t\t\tAVMcdonnell\n\t\t\n\t\t\n\t\t\tTJiang\n\t\t\n\t\t\n\t\t\tAEKeating\n\t\t\n\t\t\n\t\t\tBBerger\n\t\t\n\t\t10.1093/bioinformatics/bti797\n\t\t16317077\n\t\tark:/67375/HXZ-TZ7FLZQ4-D\n\t\tF918314F9DAE279047716717C47C174FEEFA94A4\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c72d8f7723bebd866941e0"},"refKey":24},
{"_key":"60c72dec7723bebd86694214","_id":"references/60c72dec7723bebd86694214","_rev":"_cfFl9-K---","tei":"\n\t\n\t\tEntrezpy: a Python library to dynamically interact with the NCBI Entrez databases\n\t\t\n\t\t\tJanPBuchmann\n\t\t\t0000-0002-6842-1229\n\t\t\n\t\t\n\t\t\tEdwardCHolmes\n\t\t\n\t\t10.1093/bioinformatics/btz385\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c72dec7723bebd86694213"},"refKey":16},
{"_key":"60c72e2a7723bebd8669422d","_id":"references/60c72e2a7723bebd8669422d","_rev":"_cfFl9-W---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c72e2a7723bebd8669422c"},"refKey":0},
{"_key":"60c72e2a7723bebd8669422e","_id":"references/60c72e2a7723bebd8669422e","_rev":"_cfFl9-i---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tCCamacho\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c72e2a7723bebd8669422c"},"refKey":7},
{"_key":"60c72e2a7723bebd8669422f","_id":"references/60c72e2a7723bebd8669422f","_rev":"_cfFl9-q---","tei":"\n\t\n\t\tHiLive – Real-Time Mapping of Illumina Reads while Sequencing\n\t\t\n\t\t\tMartinSLindner\n\t\t\n\t\t\n\t\t\tBenjaminStrauch\n\t\t\n\t\t\n\t\t\tJakobMSchulze\n\t\t\n\t\t\n\t\t\tSimonTausch\n\t\t\n\t\t\n\t\t\tPiotrWDabrowski\n\t\t\n\t\t\n\t\t\tAndreasNitsche\n\t\t\n\t\t\n\t\t\tBernhardYRenard\n\t\t\n\t\t10.1093/bioinformatics/btw659\n\t\t27794555\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t6\n\t\t\tbtw659\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c72e2a7723bebd8669422c"},"refKey":22},
{"_key":"60c72e2a7723bebd86694230","_id":"references/60c72e2a7723bebd86694230","_rev":"_cfFl9-2---","tei":"\n\t\n\t\tPaPrBaG: A machine learning approach for the detection of novel pathogens from NGS data\n\t\t\n\t\t\tCarlusDeneke\n\t\t\n\t\t\n\t\t\tRobertRentzsch\n\t\t\n\t\t\n\t\t\tBernhardYRenard\n\t\t\n\t\t10.1038/srep39194\n\t\t28051068\n\t\tPMC5209729\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t39194\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c72e2a7723bebd8669422c"},"refKey":9},
{"_key":"60c72e2a7723bebd86694231","_id":"references/60c72e2a7723bebd86694231","_rev":"_cfFl9_C---","tei":"\n\t\n\t\tFast gapped-read alignment with bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c72e2a7723bebd8669422c"},"refKey":18},
{"_key":"60c72e2a7723bebd86694232","_id":"references/60c72e2a7723bebd86694232","_rev":"_cfFl9_O---","tei":"\n\t\n\t\tPAIPline: pathogen identification in metagenomic and clinical next generation sequencing samples\n\t\t\n\t\t\tAndreasAndrusch\n\t\t\n\t\t\n\t\t\tPiotrWDabrowski\n\t\t\n\t\t\n\t\t\tJeanetteKlenner\n\t\t\n\t\t\n\t\t\tSimonHTausch\n\t\t\n\t\t\n\t\t\tClaudiaKohl\n\t\t\n\t\t\n\t\t\tAbdallaAOsman\n\t\t\n\t\t\n\t\t\tBernhardYRenard\n\t\t\n\t\t\n\t\t\tAndreasNitsche\n\t\t\n\t\t10.1093/bioinformatics/bty595\n\t\t30423069\n\t\tPMC6129269\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c72e2a7723bebd8669422c"},"refKey":1},
{"_key":"60c72e2a7723bebd86694233","_id":"references/60c72e2a7723bebd86694233","_rev":"_cfFl9_a---","tei":"\n\t\n\t\tPathoLive - Real time pathogen identification from metagenomic Illumina datasets\n\t\t\n\t\t\tSimonHTausch\n\t\t\t0000-0002-6874-233X\n\t\t\n\t\t\n\t\t\tTobiasPLoka\n\t\t\t0000-0001-6380-5875\n\t\t\n\t\t\n\t\t\tJakobMSchulze\n\t\t\n\t\t\n\t\t\tAndreasAndrusch\n\t\t\n\t\t\n\t\t\tJeanetteKlenner\n\t\t\n\t\t\n\t\t\tPiotrWDabrowski\n\t\t\n\t\t\n\t\t\tMartinSLindner\n\t\t\n\t\t\n\t\t\tAndreasNitsche\n\t\t\n\t\t\n\t\t\tBernhardYRenard\n\t\t\t0000-0003-4589-9809\n\t\t\n\t\t10.1101/402370\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t402370\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c72e2a7723bebd8669422c"},"refKey":34},
{"_key":"60c72e2a7723bebd86694234","_id":"references/60c72e2a7723bebd86694234","_rev":"_cfFl9_i---","tei":"\n\t\n\t\tDeePaC: predicting pathogenic potential of novel DNA with reverse-complement neural networks\n\t\t\n\t\t\tJakubMBartoszewicz\n\t\t\t0000-0001-6893-2371\n\t\t\n\t\t\n\t\t\tAnjaSeidel\n\t\t\n\t\t\n\t\t\tRobertRentzsch\n\t\t\n\t\t\n\t\t\tBernhardYRenard\n\t\t\n\t\t10.1093/bioinformatics/btz541\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t36\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c72e2a7723bebd8669422c"},"refKey":2},
{"_key":"60c72e2a7723bebd86694235","_id":"references/60c72e2a7723bebd86694235","_rev":"_cfFl9_u---","tei":"\n\t\n\t\tReliable variant calling during runtime of Illumina sequencing\n\t\t\n\t\t\tTobiasPLoka\n\t\t\t0000-0001-6380-5875\n\t\t\n\t\t\n\t\t\tSimonHTausch\n\t\t\t0000-0002-6874-233X\n\t\t\n\t\t\n\t\t\tBernhardYRenard\n\t\t\t0000-0003-4589-9809\n\t\t\n\t\t10.1101/387662\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c72e2a7723bebd8669422c"},"refKey":24},
{"_key":"60c72e2a7723bebd86694236","_id":"references/60c72e2a7723bebd86694236","_rev":"_cfFl9_6---","tei":"\n\t\n\t\tBioconda: A sustainable and comprehensive software distribution for the life sciences\n\t\t\n\t\t\tBjörnGrüning\n\t\t\n\t\t\n\t\t\tRyanDale\n\t\t\n\t\t\n\t\t\tAndreasSjödin\n\t\t\n\t\t\n\t\t\tBradAChapman\n\t\t\n\t\t\n\t\t\tJillianRowe\n\t\t\n\t\t\n\t\t\tChristopherHTomkins-Tinch\n\t\t\n\t\t\n\t\t\tRenanValieris\n\t\t\n\t\t\n\t\t\tAdamCaprez\n\t\t\n\t\t\n\t\t\tBéréniceBatut\n\t\t\n\t\t\n\t\t\tMathiasHaudgaard\n\t\t\n\t\t\n\t\t\tThomasCokelaer\n\t\t\n\t\t\n\t\t\tKyleABeauchamp\n\t\t\n\t\t\n\t\t\tBrentSPedersen\n\t\t\n\t\t\n\t\t\tYouriHoogstrate\n\t\t\n\t\t\n\t\t\tAnthonyBretaudeau\n\t\t\n\t\t\n\t\t\tDevonRyan\n\t\t\n\t\t\n\t\t\tGildasLeCorguillé\n\t\t\n\t\t\n\t\t\tDilmuratYusuf\n\t\t\n\t\t\n\t\t\tSebastianLuna-Valero\n\t\t\n\t\t\n\t\t\tRoryKirchner\n\t\t\n\t\t\n\t\t\tKarelBrinda\n\t\t\n\t\t\n\t\t\tThomasWollmann\n\t\t\n\t\t\n\t\t\tMartinRaden\n\t\t\n\t\t\n\t\t\tSimonJ VanHeeringen\n\t\t\n\t\t\n\t\t\tNicolaSoranzo\n\t\t\n\t\t\n\t\t\tLorenaPantano\n\t\t\n\t\t\n\t\t\tZacharyCharlop-Powers\n\t\t\n\t\t\n\t\t\tPerUnneberg\n\t\t\n\t\t\n\t\t\tMatthiasDeSmet\n\t\t\n\t\t\n\t\t\tMarcelMartin\n\t\t\n\t\t\n\t\t\tGregVonKuster\n\t\t\n\t\t\n\t\t\tTiagoAntao\n\t\t\n\t\t\n\t\t\tMiladMiladi\n\t\t\n\t\t\n\t\t\tKevinThornton\n\t\t\n\t\t\n\t\t\tChristianBrueffer\n\t\t\n\t\t\n\t\t\tMariusVan 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{"_key":"60c731e87723bebd8669465d","_id":"references/60c731e87723bebd8669465d","_rev":"_cfFl9LS---","tei":"\n\t\n\t\tQUAST: quality assessment tool for genome assemblies\n\t\t\n\t\t\tAGurevich\n\t\t\n\t\t\n\t\t\tVSaveliev\n\t\t\n\t\t\n\t\t\tNVyahhi\n\t\t\n\t\t\n\t\t\tGTesler\n\t\t\n\t\n\t\n\t\tBioinform\n\t\t\n\t\t\t29\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c731e87723bebd8669465b"},"refKey":32},
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{"_key":"60c733d07723bebd86694974","_id":"references/60c733d07723bebd86694974","_rev":"_cfFl9Qe---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c733d07723bebd86694973"},"refKey":31},
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{"_key":"60c733d07723bebd86694976","_id":"references/60c733d07723bebd86694976","_rev":"_cfFl9Q2---","tei":"\n\t\n\t\tSecond-generation PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tCCChang\n\t\t\n\t\n\t\n\t\tGigascience\n\t\t\n\t\t\t4\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c733d07723bebd86694973"},"refKey":34},
{"_key":"60c733dd7723bebd86694990","_id":"references/60c733dd7723bebd86694990","_rev":"_cfFl9RC---","tei":"\n\t\n\t\tThe EMBL-EBI search and sequence analysis tools APIs in 2019\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tYMPark\n\t\t\n\t\t\n\t\t\tJLee\n\t\t\n\t\t\n\t\t\tNBuso\n\t\t\n\t\t\n\t\t\tTGur\n\t\t\n\t\t\n\t\t\tNMadhusoodanan\n\t\t\n\t\t\n\t\t\tPBasutkar\n\t\t\n\t\t\n\t\t\tAR NTivey\n\t\t\n\t\t\n\t\t\tSCPotter\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t10.1093/nar/gkz268\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c733dd7723bebd8669498f"},"refKey":45},
{"_key":"60c734067723bebd866949c5","_id":"references/60c734067723bebd866949c5","_rev":"_cfFl9RK---","tei":"\n\t\n\t\tPEPstrMOD: structure prediction of peptides containing natural, non-natural and modified residues\n\t\t\n\t\t\tSandeepSingh\n\t\t\n\t\t\n\t\t\tHarinderSingh\n\t\t\n\t\t\n\t\t\tAbhishekTuknait\n\t\t\n\t\t\n\t\t\tKumardeepChaudhary\n\t\t\n\t\t\n\t\t\tBalvinderSingh\n\t\t\n\t\t\n\t\t\tSKumaran\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1186/s13062-015-0103-4\n\t\t26690490\n\t\tPMC4687368\n\t\t\n\t\t\n\t\n\t\n\t\tBiology Direct\n\t\tBiol Direct\n\t\t1745-6150\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t73\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c734067723bebd866949c4"},"refKey":54},
{"_key":"60c734067723bebd866949c6","_id":"references/60c734067723bebd866949c6","_rev":"_cfFl9RW---","tei":"\n\t\n\t\tProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tMWiederstein\n\t\t\n\t\t\n\t\t\tMJSippl\n\t\t\n\t\t10.1093/nar/gkm290\n\t\t17517781\n\t\tPMC1933241\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tNucl Acids Res\n\n","document":{"$oid":"60c734067723bebd866949c4"},"refKey":48},
{"_key":"60c734067723bebd866949c7","_id":"references/60c734067723bebd866949c7","_rev":"_cfFl9Ri---","tei":"\n\t\n\t\tDevelopment of epitope-based peptide vaccine against novel coronavirus 2019 (Sars-Cov-2): immunoinformatics approach\n\t\t\n\t\t\tMBhattacharya\n\t\t\n\t\t\n\t\t\tARSharma\n\t\t\n\t\t\n\t\t\tPPatra\n\t\t\n\t\t\n\t\t\tPGhosh\n\t\t\n\t\t\n\t\t\tGSharma\n\t\t\n\t\t\n\t\t\tBCPatra\n\t\t\n\t\t\n\t\t\tSSLee\n\t\t\n\t\t\n\t\t\tCChakraborty\n\t\t\n\t\t10.1002/jmv.25736\n\t\t\n\t\n\t\n\t\tJ Med Virol\n\t\t\n\t\t\t92\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c734067723bebd866949c4"},"refKey":49},
{"_key":"60c734067723bebd866949c8","_id":"references/60c734067723bebd866949c8","_rev":"_cfFl9Ru---","tei":"\n\t\n\t\tA Sars-Cov-2 vaccine candidate\n\t\t\n\t\t\tMBhattacharya\n\t\t\n\t\t\n\t\t\tARSharma\n\t\t\n\t\t\n\t\t\tPPatra\n\t\t\n\t\t\n\t\t\tPGhosh\n\t\t\n\t\t\n\t\t\tGSharma\n\t\t\n\t\t\n\t\t\tBCPatra\n\t\t\n\t\t\n\t\t\tRPSaha\n\t\t\n\t\t\n\t\t\tSSLee\n\t\t\n\t\t\n\t\t\tCChakraborty\n\t\t\n\t\t10.1016/j.imu.2020.100394\n\t\t\n\t\n\t\n\t\tInform Med Unlocked\n\t\t\n\t\t\t20\n\t\t\t100394\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c734067723bebd866949c4"},"refKey":50},
{"_key":"60c734067723bebd866949c9","_id":"references/60c734067723bebd866949c9","_rev":"_cfFl9R6---","tei":"\n\t\n\t\tAn overview of the Amber biomolecular simulation package\n\t\t\n\t\t\tRomeliaSalomon-Ferrer\n\t\t\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tRossCWalker\n\t\t\n\t\t10.1002/wcms.1121\n\t\tark:/67375/WNG-RPHGZ0WJ-4\n\t\t6D40431B7AB4C0FCAC13327EB5EA4FFE063A965F\n\t\t\n\t\n\t\n\t\tWiley Interdisciplinary Reviews: Computational Molecular Science\n\t\tWIREs Comput Mol Sci\n\t\t1759-0876\n\t\t\n\t\t\t3\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c734067723bebd866949c4"},"refKey":55},
{"_key":"60c734067723bebd866949ca","_id":"references/60c734067723bebd866949ca","_rev":"_cfFl9SC---","tei":"\n\t\n\t\tCHARMM-GUI: A web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tTaehoonKim\n\t\t\n\t\t\n\t\t\tVidyashankaraGIyer\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.20945\n\t\t18351591\n\t\tark:/67375/WNG-B51MBQFN-X\n\t\t3C9C30FE6273AB7B8632EBBA4EF6F91FEFB8F531\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c734067723bebd866949c4"},"refKey":56},
{"_key":"60c734067723bebd866949cb","_id":"references/60c734067723bebd866949cb","_rev":"_cfFl9SO---","tei":"\n\t\n\t\tCHARMM-GUI 10 years for biomolecular modeling and simulation\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tXiCheng\n\t\t\n\t\t\n\t\t\tJuminLee\n\t\t\n\t\t\n\t\t\tSeonghoonKim\n\t\t\n\t\t\n\t\t\tSang-JunPark\n\t\t\n\t\t\n\t\t\tDhilonSPatel\n\t\t\n\t\t\n\t\t\tAndrewHBeaven\n\t\t\n\t\t\n\t\t\tKyuIlLee\n\t\t\n\t\t\n\t\t\tHuanRui\n\t\t\n\t\t\n\t\t\tSoohyungPark\n\t\t\n\t\t\n\t\t\tHuiSunLee\n\t\t\n\t\t\n\t\t\tBenoîtRoux\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t\n\t\t\tJeffreyBKlauda\n\t\t\n\t\t\n\t\t\tYifeiQi\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.24660\n\t\t27862047\n\t\tPMC5403596\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t38\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c734067723bebd866949c4"},"refKey":57},
{"_key":"60c734067723bebd866949cc","_id":"references/60c734067723bebd866949cc","_rev":"_cfFl9Sa---","tei":"\n\t\n\t\tImproving protein fold recognition and template-based modeling by employing probabilistic-based matching between predicted one-dimensional structural properties of query and corresponding native properties of templates\n\t\t\n\t\t\tYYang\n\t\t\n\t\t\n\t\t\tEFaraggi\n\t\t\n\t\t\n\t\t\tHZhao\n\t\t\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t10.1093/bioinformatics/btr350\n\t\t21666270\n\t\tPMC3137224\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c734067723bebd866949c4"},"refKey":44},
{"_key":"60c7345b7723bebd86694a17","_id":"references/60c7345b7723bebd86694a17","_rev":"_cfFl9Sm---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tKJBowers\n\t\t\n\t\t\n\t\t\tDEChow\n\t\t\n\t\t\n\t\t\tHXu\n\t\t\n\t\t\n\t\t\tRODror\n\t\t\n\t\t\n\t\t\tMPEastwood\n\t\t\n\t\t\n\t\t\tBAGregersen\n\t\t\n\t\t\n\t\t\tJLKlepeis\n\t\t\n\t\t\n\t\t\tIKolossvary\n\t\t\n\t\t\n\t\t\tMAMoraes\n\t\t\n\t\t\n\t\t\tFDSacerdoti\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7345b7723bebd86694a16"},"refKey":8},
{"_key":"60c7345b7723bebd86694a18","_id":"references/60c7345b7723bebd86694a18","_rev":"_cfFl9Sy---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7345b7723bebd86694a16"},"refKey":50},
{"_key":"60c7345b7723bebd86694a19","_id":"references/60c7345b7723bebd86694a19","_rev":"_cfFl9S6---","tei":"\n\t\n\t\tAutomated docking using a Lamarckian genetic algorithm and an empirical binding free energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tRSHalliday\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWEHart\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t\n\t\t\tNM; -B O'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\t\n\t\t\tCMorley\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t\n\t\n\t\n\t\tAID-JCC10 > 3.0. CO;2\n\t\t\t\t\n\t\t\t\n\t\t\t19\n\t\t\t33\n\t\t\n\t\n\tJournal of Cheminformatics\n\n","document":{"$oid":"60c7345b7723bebd86694a16"},"refKey":39},
{"_key":"60c7345b7723bebd86694a1a","_id":"references/60c7345b7723bebd86694a1a","_rev":"_cfFl9TG---","tei":"\n\t\n\t\tEvaluation of AutoDock and AutoDock Vina on the CASF-2013 Benchmark\n\t\t\n\t\t\tThomasGaillard\n\t\t\t0000-0002-5224-546X\n\t\t\n\t\t10.1021/acs.jcim.8b00312\n\t\t29989806\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t58\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c7345b7723bebd86694a16"},"refKey":17},
{"_key":"60c734717723bebd86694a3f","_id":"references/60c734717723bebd86694a3f","_rev":"_cfFl9TS---","tei":"\n\t\n\t\tConserved Seed Pairing, Often Flanked by Adenosines, Indicates that Thousands of Human Genes are MicroRNA Targets\n\t\t\n\t\t\tBPLewis\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t120\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 15652477\n\n","document":{"$oid":"60c734717723bebd86694a3e"},"refKey":39},
{"_key":"60c734717723bebd86694a40","_id":"references/60c734717723bebd86694a40","_rev":"_cfFl9Te---","tei":"\n\t\n\t\tWeak seed-pairing stability and high target-site abundance decrease the proficiency of lsy-6 and other microRNAs\n\t\t\n\t\t\tDMGarcia\n\t\t\n\t\n\t\n\t\tNat Struct Mol Biol\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 21909094\n\n","document":{"$oid":"60c734717723bebd86694a3e"},"refKey":40},
{"_key":"60c734887723bebd86694aa6","_id":"references/60c734887723bebd86694aa6","_rev":"_cfFl9Tq---","tei":"\n\t\n\t\tPsychoPy—Psychophysics software in Python\n\t\t\n\t\t\tJonathanWPeirce\n\t\t\n\t\t10.1016/j.jneumeth.2006.11.017\n\t\t17254636\n\t\tPMC2018741\n\t\t\n\t\n\t\n\t\tJournal of Neuroscience Methods\n\t\tJournal of Neuroscience Methods\n\t\t0165-0270\n\t\t\n\t\t\t162\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c734887723bebd86694aa5"},"refKey":7},
{"_key":"60c734887723bebd86694aa7","_id":"references/60c734887723bebd86694aa7","_rev":"_cfFl9Ty---","tei":"\n\t\n\t\tOpenSesame: An open-source, graphical experiment builder for the social sciences\n\t\t\n\t\t\tSebastiaanMathôt\n\t\t\n\t\t\n\t\t\tDanielSchreij\n\t\t\n\t\t\n\t\t\tJanTheeuwes\n\t\t\n\t\t10.3758/s13428-011-0168-7\n\t\t22083660\n\t\tPMC3356517\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehav Res\n\t\t1554-3528\n\t\t\n\t\t\t44\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c734887723bebd86694aa5"},"refKey":6},
{"_key":"60c734887723bebd86694aa8","_id":"references/60c734887723bebd86694aa8","_rev":"_cfFl9U----","tei":"\n\t\n\t\tPsychophysics in a Web browser? Comparing response times collected with JavaScript and Psychophysics Toolbox in a visual search task\n\t\t\n\t\t\tJoshuaRDe Leeuw\n\t\t\n\t\t\n\t\t\tBenjaminAMotz\n\t\t\n\t\t10.3758/s13428-015-0567-2\n\t\t25761390\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehav Res\n\t\tJ. R., & Motz, B. A.\n\t\t1554-3528\n\t\t\n\t\t\t48\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\tjsPsych: A JavaScript library for creating behavioral experiments in a Web browser. Behavior Research Methods\n\n","document":{"$oid":"60c734887723bebd86694aa5"},"refKey":1},
{"_key":"60c734887723bebd86694aa9","_id":"references/60c734887723bebd86694aa9","_rev":"_cfFl9UK---","tei":"\n\t\n\t\tlab.js: A free, open, online study builder\n\t\t\n\t\t\tFelixHenninger\n\t\t\n\t\t\n\t\t\tYuryShevchenko\n\t\t\n\t\t\n\t\t\tUlfKaiMertens\n\t\t\n\t\t\n\t\t\tPascalJKieslich\n\t\t\t0000-0002-0853-9364\n\t\t\n\t\t\n\t\t\tBenjaminEHilbig\n\t\t\n\t\t10.31234/osf.io/fqr49\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCenter for Open Science\n\t\t\n\t\n\n","document":{"$oid":"60c734887723bebd86694aa5"},"refKey":3},
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{"_key":"60c7348c7723bebd86694af7","_id":"references/60c7348c7723bebd86694af7","_rev":"_cfFl9Ui---","tei":"\n\t\n\t\t\n\t\t\tMAbadi\n\t\t\n\t\t\n\t\t\tAAgarwal\n\t\t\n\t\t\n\t\t\tPBarham\n\t\t\n\t\t\n\t\t\tEBrevdo\n\t\t\n\t\t\n\t\t\tZChen\n\t\t\n\t\t\n\t\t\tCCitro\n\t\t\n\t\t1603.04467\n\t\tLarge-scale machine learning on heterogeneous distributed systems. arXiv preprint arXiv\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7348c7723bebd86694af6"},"refKey":40},
{"_key":"60c7348c7723bebd86694af8","_id":"references/60c7348c7723bebd86694af8","_rev":"_cfFl9Uq---","tei":"\n\t\n\t\tPython 3 Reference Manual\n\t\t\n\t\t\tGVan Rossum\n\t\t\n\t\t\n\t\t\tFLDrake\n\t\t\n\t\t\n\t\t\t\n\t\t\tCreateSpace\n\t\t\tScotts Valley, CA\n\t\t\n\t\n\n","document":{"$oid":"60c7348c7723bebd86694af6"},"refKey":41},
{"_key":"60c7348c7723bebd86694af9","_id":"references/60c7348c7723bebd86694af9","_rev":"_cfFl9U2---","tei":"\n\t\n\t\tScikit-learn: Machine learning in Python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tVMichel\n\t\t\n\t\t\n\t\t\tBThirion\n\t\t\n\t\t\n\t\t\tOGrisel\n\t\t\n\t\n\t\n\t\tMach Learn Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7348c7723bebd86694af6"},"refKey":39},
{"_key":"60c734df7723bebd86694b2a","_id":"references/60c734df7723bebd86694b2a","_rev":"_cfFl9VC---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c734df7723bebd86694b29"},"refKey":30},
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{"_key":"60c7350d7723bebd86694b5c","_id":"references/60c7350d7723bebd86694b5c","_rev":"_cfFl9VW---","tei":"\n\t\n\t\tPanel data econometrics in R: The plm package\n\t\t\n\t\t\tYCroissant\n\t\t\n\t\t\n\t\t\tGMillo\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7350d7723bebd86694b5b"},"refKey":28},
{"_key":"60c7350e7723bebd86694b5f","_id":"references/60c7350e7723bebd86694b5f","_rev":"_cfFl9Vi---","tei":"\n\t\n\t\tLymphocyte Cc Chemokine Receptor 9 and Epithelial Thymus-Expressed Chemokine (Teck) Expression Distinguish the Small Intestinal Immune Compartment\n\t\t\n\t\t\tEricJKunkel\n\t\t\n\t\t\n\t\t\tJamesJCampbell\n\t\t\n\t\t\n\t\t\tGuttormHaraldsen\n\t\t\n\t\t\n\t\t\tJunliangPan\n\t\t\n\t\t\n\t\t\tJudieBoisvert\n\t\t\n\t\t\n\t\t\tArthurIRoberts\n\t\t\n\t\t\n\t\t\tEllenCEbert\n\t\t\n\t\t\n\t\t\tMarkAVierra\n\t\t\n\t\t\n\t\t\tStuartBGoodman\n\t\t\n\t\t\n\t\t\tMarkCGenovese\n\t\t\n\t\t\n\t\t\tAndyJWardlaw\n\t\t\n\t\t\n\t\t\tHarryBGreenberg\n\t\t\n\t\t\n\t\t\tChristinaMParker\n\t\t\n\t\t\n\t\t\tEugeneCButcher\n\t\t\n\t\t\n\t\t\tDavidPAndrew\n\t\t\n\t\t\n\t\t\tWilliamWAgace\n\t\t\n\t\t10.1084/jem.192.5.761\n\t\t10974041\n\t\tPMC2193265\n\t\t\n\t\n\t\n\t\tThe Journal of Experimental Medicine\n\t\tJ Exp Med\n\t\t0022-1007\n\t\t1540-9538\n\t\t\n\t\t\t192\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tRockefeller University Press\n\t\t\n\t\n\tReferences\n\n","document":{"$oid":"60c7350e7723bebd86694b5e"},"refKey":6},
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{"_key":"60c735a27723bebd86694ba8","_id":"references/60c735a27723bebd86694ba8","_rev":"_cfFl9WO---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tWBryanArendall\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tDanielAKeedy\n\t\t\n\t\t\n\t\t\tRobertMImmormino\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tLauraWMurray\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t10.1107/s0907444909042073\n\t\t20057044\n\t\tPMC2803126\n\t\tark:/67375/WNG-BJVGXQ30-W\n\t\t581B530166BA83A1EC7EFD28535AB1F9DD0F6CFB\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c735a27723bebd86694ba7"},"refKey":51},
{"_key":"60c735a27723bebd86694ba9","_id":"references/60c735a27723bebd86694ba9","_rev":"_cfFl9Wa---","tei":"\n\t\n\t\tEMRinger: side chain–directed model and map validation for 3D cryo-electron microscopy\n\t\t\n\t\t\tBenjaminABarad\n\t\t\t0000-0002-1016-862X\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\t0000-0002-5080-2859\n\t\t\n\t\t10.1038/nmeth.3541\n\t\t26280328\n\t\tPMC4589481\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c735a27723bebd86694ba7"},"refKey":52},
{"_key":"60c735a27723bebd86694baa","_id":"references/60c735a27723bebd86694baa","_rev":"_cfFl9Wm---","tei":"\n\t\n\t\tElectron counting and beam-induced motion correction enable near-atomic-resolution single-particle cryo-EM\n\t\t\n\t\t\tXuemingLi\n\t\t\n\t\t\n\t\t\tPaulMooney\n\t\t\n\t\t\n\t\t\tShawnZheng\n\t\t\n\t\t\n\t\t\tChristopherRBooth\n\t\t\n\t\t\n\t\t\tMichaelBBraunfeld\n\t\t\n\t\t\n\t\t\tSanderGubbens\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t10.1038/nmeth.2472\n\t\t23644547\n\t\tPMC3684049\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c735a27723bebd86694ba7"},"refKey":45},
{"_key":"60c736107723bebd86694bfd","_id":"references/60c736107723bebd86694bfd","_rev":"_cfFl9Wy---","tei":"\n\t\n\t\tEfficient estimation of word representations in vector space\n\t\t\n\t\t\tTMikolov\n\t\t\n\t\t\n\t\t\tKChen\n\t\t\n\t\t\n\t\t\tGCorrado\n\t\t\n\t\t\n\t\t\tJDean\n\t\t\n\t\tarXiv:1301.3781\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c736107723bebd86694bfc"},"refKey":9},
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{"_key":"60c736487723bebd86694c11","_id":"references/60c736487723bebd86694c11","_rev":"_cfFl9XK---","tei":"\n\t\n\t\tTimeTree: A resource for timelines, timetrees, and divergence times\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMSuleski\n\t\t\n\t\t\n\t\t\tSBHedges\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c736487723bebd86694c0f"},"refKey":51},
{"_key":"60c736487723bebd86694c12","_id":"references/60c736487723bebd86694c12","_rev":"_cfFl9XS---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\tR: A Language and Environment for Statistical Computing (R Foundation for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c736487723bebd86694c0f"},"refKey":53},
{"_key":"60c736487723bebd86694c13","_id":"references/60c736487723bebd86694c13","_rev":"_cfFl9Xe---","tei":"\n\t\n\t\tThin-plate regression splines\n\t\t\n\t\t\tSNWood\n\t\t\n\t\n\t\n\t\tJ. R. Stat. Soc. B\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c736487723bebd86694c0f"},"refKey":54},
{"_key":"60c736487723bebd86694c14","_id":"references/60c736487723bebd86694c14","_rev":"_cfFl9Xq---","tei":"\n\t\n\t\t\n\t\t\tRReeve\n\t\t\n\t\tarXiv:14046520v3\n\t\tHow to partition diversity\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c736487723bebd86694c0f"},"refKey":29},
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{"_key":"60c737707723bebd86694d26","_id":"references/60c737707723bebd86694d26","_rev":"_cfFl9ca---","tei":"\n\t\n\t\tmMass data miner: an open source alternative for mass spectrometric data analysis\n\t\t\n\t\t\tMartinStrohalm\n\t\t\n\t\t\n\t\t\tMartinHassman\n\t\t\n\t\t\n\t\t\tBedřichKošata\n\t\t\n\t\t\n\t\t\tMilanKodíček\n\t\t\n\t\t10.1002/rcm.3444\n\t\t18293430\n\t\tark:/67375/WNG-5P0XZMF5-T\n\t\tC348454E438CFEBC5C815C4B696FF16DD30CB981\n\t\n\t\n\t\tRapid Communications in Mass Spectrometry\n\t\tRapid Commun. Mass Spectrom.\n\t\t0951-4198\n\t\t1097-0231\n\t\t\n\t\t\t22\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c737707723bebd86694d24"},"refKey":37},
{"_key":"60c737707723bebd86694d27","_id":"references/60c737707723bebd86694d27","_rev":"_cfFl9cm---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSöding\n\t\t\n\t\n\t\n\t\tMol. Syst. Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c737707723bebd86694d24"},"refKey":44},
{"_key":"60c7377b7723bebd86694d34","_id":"references/60c7377b7723bebd86694d34","_rev":"_cfFl9cy---","tei":"\n\t\n\t\tCore Team. R: a language and environment for statistical computing R Foundation for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c7377b7723bebd86694d33"},"refKey":14},
{"_key":"60c737827723bebd86694d36","_id":"references/60c737827723bebd86694d36","_rev":"_cfFl9d----","tei":"\n\t\n\t\tSecond-generation PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tChristopherCChang\n\t\t\n\t\t\n\t\t\tCarsonCChow\n\t\t\n\t\t\n\t\t\tLaurentCamTellier\n\t\t\n\t\t\n\t\t\tShashaankVattikuti\n\t\t\n\t\t\n\t\t\tShaunMPurcell\n\t\t\n\t\t\n\t\t\tJamesJLee\n\t\t\n\t\t10.1186/s13742-015-0047-8\n\t\t25722852\n\t\tPMC4342193\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\tGigaSci\n\t\t2047-217X\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t7\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c737827723bebd86694d35"},"refKey":15},
{"_key":"60c737827723bebd86694d37","_id":"references/60c737827723bebd86694d37","_rev":"_cfFl9dK---","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBoLi\n\t\t\n\t\t\n\t\t\tColinNDewey\n\t\t\n\t\t10.1186/1471-2105-12-323\n\t\t21816040\n\t\tPMC3163565\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t323\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c737827723bebd86694d35"},"refKey":29},
{"_key":"60c737827723bebd86694d38","_id":"references/60c737827723bebd86694d38","_rev":"_cfFl9dW---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c737827723bebd86694d35"},"refKey":30},
{"_key":"60c737827723bebd86694d39","_id":"references/60c737827723bebd86694d39","_rev":"_cfFl9di---","tei":"\n\t\n\t\tedgeR: a Bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t10.1093/bioinformatics/btp616\n\t\t19910308\n\t\tPMC2796818\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c737827723bebd86694d35"},"refKey":43},
{"_key":"60c737827723bebd86694d3a","_id":"references/60c737827723bebd86694d3a","_rev":"_cfFl9du---","tei":"\n\t\n\t\tSoftware for Computing and Annotating Genomic Ranges\n\t\t\n\t\t\tMichaelLawrence\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tHervéPagès\n\t\t\n\t\t\n\t\t\tPatrickAboyoun\n\t\t\n\t\t\n\t\t\tMarcCarlson\n\t\t\n\t\t\n\t\t\tRobertGentleman\n\t\t\n\t\t\n\t\t\tMartinTMorgan\n\t\t\n\t\t\n\t\t\tVincentJCarey\n\t\t\n\t\t10.1371/journal.pcbi.1003118\n\t\t23950696\n\t\tPMC3738458\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\te1003118\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c737827723bebd86694d35"},"refKey":27},
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{"_key":"60c737de7723bebd86694ddf","_id":"references/60c737de7723bebd86694ddf","_rev":"_cfFl9ee---","tei":"\n\t\n\t\tA Lite BERT for Self-supervised Learning of Language Representations\n\t\t\n\t\t\tZLan\n\t\t\n\t\t\n\t\t\tMChen\n\t\t\n\t\t\n\t\t\tSGoodman\n\t\t\n\t\t\n\t\t\tKGimpel\n\t\t\n\t\t\n\t\t\tPSharma\n\t\t\n\t\t\n\t\t\tRSoricut\n\t\t\n\t\t\n\t\t\tAlbert\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c737de7723bebd86694dde"},"refKey":50},
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{"_key":"60c737e87723bebd86694de5","_id":"references/60c737e87723bebd86694de5","_rev":"_cfFl9e2---","tei":"\n\t\n\t\tUsing the ACT-R Cognitive Architecture in Combination With fMRI Data\n\t\t\n\t\t\tJelmerPBorst\n\t\t\n\t\t\n\t\t\tJohnRAnderson\n\t\t\n\t\t10.1007/978-1-4939-2236-9_17\n\t\n\t\n\t\tAn Introduction to Model-Based Cognitive Neuroscience\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c737e87723bebd86694de4"},"refKey":8},
{"_key":"60c737e87723bebd86694de6","_id":"references/60c737e87723bebd86694de6","_rev":"_cfFl9fC---","tei":"\n\t\n\t\tThe iCub humanoid robot: An open-systems platform for research in cognitive development\n\t\t\n\t\t\tGMetta\n\t\t\n\t\t\n\t\t\tLNatale\n\t\t\n\t\t\n\t\t\tFNori\n\t\t\n\t\t\n\t\t\tGSandini\n\t\t\n\t\t\n\t\t\tDVernon\n\t\t\n\t\t\n\t\t\tLFadiga\n\t\t\n\t\t\n\t\t\tCVon Hofsten\n\t\t\n\t\t\n\t\t\tKRosander\n\t\t\n\t\t\n\t\t\tMLopes\n\t\t\n\t\t\n\t\t\tJSantos-Victor\n\t\t\n\t\n\t\n\t\tNeural Networks\n\t\t\n\t\t\t23\n\t\t\t8-9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c737e87723bebd86694de4"},"refKey":48},
{"_key":"60c737e87723bebd86694de7","_id":"references/60c737e87723bebd86694de7","_rev":"_cfFl9fK---","tei":"\n\t\n\t\tThe iCub Platform: A Tool for Studying Intrinsically Motivated Learning\n\t\t\n\t\t\tLorenzoNatale\n\t\t\n\t\t\n\t\t\tFrancescoNori\n\t\t\n\t\t\n\t\t\tGiorgioMetta\n\t\t\n\t\t\n\t\t\tMatteoFumagalli\n\t\t\n\t\t\n\t\t\tSerenaIvaldi\n\t\t\n\t\t\n\t\t\tUgoPattacini\n\t\t\n\t\t\n\t\t\tMarcoRandazzo\n\t\t\n\t\t\n\t\t\tAlexanderSchmitz\n\t\t\n\t\t\n\t\t\tGiulioSandini\n\t\t\n\t\t10.1007/978-3-642-32375-1_17\n\t\n\t\n\t\tIntrinsically Motivated Learning in Natural and Artificial Systems\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c737e87723bebd86694de4"},"refKey":54},
{"_key":"60c7385e7723bebd86694e03","_id":"references/60c7385e7723bebd86694e03","_rev":"_cfFl9fW---","tei":"\n\t\n\t\tMAFFT online service: Multiple sequence alignment, interactive sequence choice and visualization\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tJRozewicki\n\t\t\n\t\t\n\t\t\tKDYamada\n\t\t\n\t\n\t\n\t\tBrief. Bioinform\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7385e7723bebd86694e02"},"refKey":44},
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{"_key":"60c738ae7723bebd86694e65","_id":"references/60c738ae7723bebd86694e65","_rev":"_cfFl9g6---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c738ae7723bebd86694e64"},"refKey":15},
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{"_key":"60c7394e7723bebd86694ef8","_id":"references/60c7394e7723bebd86694ef8","_rev":"_cfFl9hy---","tei":"\n\t\n\t\tDoGSiteScorer: a web server for automatic binding site prediction, analysis and druggability assessment\n\t\t\n\t\t\tAVolkamer\n\t\t\n\t\t\n\t\t\tDKuhn\n\t\t\n\t\t\n\t\t\tFRippmann\n\t\t\n\t\t\n\t\t\tMRarey\n\t\t\n\t\t10.1093/bioinformatics/bts310\n\t\t22628523\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7394e7723bebd86694ef7"},"refKey":41},
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{"_key":"60c73ee27723bebd866953c8","_id":"references/60c73ee27723bebd866953c8","_rev":"_cfFl9ui---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c73ee27723bebd866953c7"},"refKey":15},
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{"_key":"60c73fab7723bebd86695492","_id":"references/60c73fab7723bebd86695492","_rev":"_cfFl9wy---","tei":"\n\t\n\t\tDassault Syst emes BIOVIA, discovery studio modelling environment\n\t\t\n\t\t\tPPilot\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tRelease\n\n","document":{"$oid":"60c73fab7723bebd86695491"},"refKey":13},
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{"_key":"60c7407b7723bebd866955c4","_id":"references/60c7407b7723bebd866955c4","_rev":"_cfFl9yi---","tei":"\n\t\n\t\tThe MaxQuant computational platform for mass spectrometry-based shotgun proteomics\n\t\t\n\t\t\tSTyanova\n\t\t\n\t\t\n\t\t\tTTemu\n\t\t\n\t\t\n\t\t\tJCox\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7407b7723bebd866955c2"},"refKey":76},
{"_key":"60c7407b7723bebd866955c5","_id":"references/60c7407b7723bebd866955c5","_rev":"_cfFl9yu---","tei":"\n\t\n\t\tNetMHCpan 4.0: Improved peptide-MHC class I interaction predictions integrating eluted ligand and peptide binding affinity data\n\t\t\n\t\t\tVanessaJurtz\n\t\t\t0000-0003-4452-6605\n\t\t\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1101/149518\n\t\t\n\t\n\t\n\t\tJ.I\n\t\t\n\t\t\t199\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7407b7723bebd866955c2"},"refKey":43},
{"_key":"60c7407b7723bebd866955c6","_id":"references/60c7407b7723bebd866955c6","_rev":"_cfFl9y2---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7407b7723bebd866955c2"},"refKey":44},
{"_key":"60c7407b7723bebd866955c7","_id":"references/60c7407b7723bebd866955c7","_rev":"_cfFl9zC---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tL-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tVonHaeseler\n\t\t\n\t\t\n\t\t\tAMinh\n\t\t\n\t\t\n\t\t\tBQ\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7407b7723bebd866955c2"},"refKey":62},
{"_key":"60c7407b7723bebd866955c8","_id":"references/60c7407b7723bebd866955c8","_rev":"_cfFl9zO---","tei":"\n\t\n\t\tProbCons: Probabilistic consistency-based multiple sequence alignment\n\t\t\n\t\t\tCBDo\n\t\t\n\t\t\n\t\t\tMspMahabhashyam\n\t\t\n\t\t\n\t\t\tMBrudno\n\t\t\n\t\t\n\t\t\tSBatzoglou\n\t\t\n\t\t10.1101/gr.2821705\n\t\t15687296\n\t\tPMC546535\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t15\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7407b7723bebd866955c2"},"refKey":19},
{"_key":"60c740887723bebd866955e8","_id":"references/60c740887723bebd866955e8","_rev":"_cfFl9za---","tei":"\n\t\n\t\tG*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t10.3758/bf03193146\n\t\t17695343\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c740887723bebd866955e7"},"refKey":5},
{"_key":"60c740887723bebd866955e9","_id":"references/60c740887723bebd866955e9","_rev":"_cfFl9zi---","tei":"\n\t\n\t\tdplyr: A Grammar of Data Manipulation (Version R package version 0.8.3). Available online at\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tRFrancois\n\t\t\n\t\t\n\t\t\tLHenry\n\t\t\n\t\t\n\t\t\tKMüller\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c740887723bebd866955e7"},"refKey":25},
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{"_key":"60c740887723bebd866955eb","_id":"references/60c740887723bebd866955eb","_rev":"_cfFl9z6---","tei":"\n\t\n\t\tpsych: Procedures for Personality and Psychological Research (Version R package version 1.8.12)\n\t\t\n\t\t\tWRRevelle\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tAvailable online at\n\n","document":{"$oid":"60c740887723bebd866955e7"},"refKey":19},
{"_key":"60c740887723bebd866955ec","_id":"references/60c740887723bebd866955ec","_rev":"_cfFl90G---","tei":"\n\t\n\t\tsjstats: Statistical Functions for Regression Models (Version Version 0\n\t\t\n\t\t\tDLüdecke\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t17\n\t\t\n\t\n\n","document":{"$oid":"60c740887723bebd866955e7"},"refKey":11},
{"_key":"60c740977723bebd86695606","_id":"references/60c740977723bebd86695606","_rev":"_cfFl90O---","tei":"\n\t\n\t\tFastTree 2dapproximately maximumlikelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c740977723bebd86695605"},"refKey":9},
{"_key":"60c740977723bebd86695607","_id":"references/60c740977723bebd86695607","_rev":"_cfFl90a---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c740977723bebd86695605"},"refKey":6},
{"_key":"60c740977723bebd86695608","_id":"references/60c740977723bebd86695608","_rev":"_cfFl90m---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c740977723bebd86695605"},"refKey":7},
{"_key":"60c740977723bebd86695609","_id":"references/60c740977723bebd86695609","_rev":"_cfFl90y---","tei":"\n\t\n\t\tRecent developments in the MAFFT multiple sequence alignment program\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tHToh\n\t\t\n\t\t10.1093/bib/bbn013\n\t\t18372315\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c740977723bebd86695605"},"refKey":8},
{"_key":"60c740977723bebd8669560a","_id":"references/60c740977723bebd8669560a","_rev":"_cfFl906---","tei":"\n\t\n\t\tRAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c740977723bebd86695605"},"refKey":10},
{"_key":"60c740bf7723bebd86695630","_id":"references/60c740bf7723bebd86695630","_rev":"_cfFl91G---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSDavis\n\t\t\n\t\t\n\t\t\tPSMeltzer\n\t\t\n\t\t\n\t\t\tGeoquery\n\t\t\n\t\n\t\n\t\tGene Expression Omnibus (GEO) and BioConductor. Bioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c740bf7723bebd8669562f"},"refKey":49},
{"_key":"60c740bf7723bebd86695631","_id":"references/60c740bf7723bebd86695631","_rev":"_cfFl91S---","tei":"\n\t\n\t\tDOSE: an R/Bioconductor package for disease ontology semantic and enrichment analysis\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tLGWang\n\t\t\n\t\t\n\t\t\tGRYan\n\t\t\n\t\t\n\t\t\tQYHe\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c740bf7723bebd8669562f"},"refKey":57},
{"_key":"60c740bf7723bebd86695632","_id":"references/60c740bf7723bebd86695632","_rev":"_cfFl91e---","tei":"\n\t\n\t\thypeR: an R package for geneset enrichment workflows\n\t\t\n\t\t\tAnthonyFederico\n\t\t\n\t\t\n\t\t\tStefanoMonti\n\t\t\n\t\t10.1093/bioinformatics/btz700\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c740bf7723bebd8669562f"},"refKey":56},
{"_key":"60c740bf7723bebd86695633","_id":"references/60c740bf7723bebd86695633","_rev":"_cfFl91q---","tei":"\n\t\n\t\tMultiple Testing using SAM and Efron's Empirical Bayes Approaches. R package version 1.62.0 (R Foundation for Statistical Computing\n\t\t\n\t\t\tHSchwender\n\t\t\n\t\t\n\t\t\tSiggenes\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c740bf7723bebd8669562f"},"refKey":51},
{"_key":"60c740bf7723bebd86695634","_id":"references/60c740bf7723bebd86695634","_rev":"_cfFl91y---","tei":"\n\t\n\t\taffy-analysis of Affymetrix GeneChip data at the probe level\n\t\t\n\t\t\tLGautier\n\t\t\n\t\t\n\t\t\tLCope\n\t\t\n\t\t\n\t\t\tBMBolstad\n\t\t\n\t\t\n\t\t\tRAIrizarry\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c740bf7723bebd8669562f"},"refKey":48},
{"_key":"60c740d07723bebd86695671","_id":"references/60c740d07723bebd86695671","_rev":"_cfFl92----","tei":"\n\t\n\t\t\n\t\t\tABruns\n\t\t\n\t\t\n\t\t\tJBurgess\n\t\t\n\t\t\n\t\t\tJBanks\n\t\t\n\t\t\n\t\t\tDTjondronegoro\n\t\t\n\t\t\n\t\t\tADreiling\n\t\t\n\t\t\n\t\t\tJHartley\n\t\t\n\t\t\n\t\tTracking Infrastructure for Social Media Analysis\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\taccessed 2019-06-01\n\n","document":{"$oid":"60c740d07723bebd86695670"},"refKey":19},
{"_key":"60c741297723bebd86695699","_id":"references/60c741297723bebd86695699","_rev":"_cfFl92K---","tei":"\n\t\n\t\tMAST: A flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA-seq data.\n\t\t\n\t\t\tGregFinak\n\t\t\t0000-0003-4341-9090\n\t\t\n\t\t\n\t\t\tAndrewMcdavid\n\t\t\t0000-0002-6581-1213\n\t\t\n\t\t\n\t\t\tMasanaoYajima\n\t\t\t0000-0002-7583-3707\n\t\t\n\t\t\n\t\t\tJingyuanDeng\n\t\t\n\t\t\n\t\t\tVivianGersuk\n\t\t\n\t\t\n\t\t\tAlexKShalek\n\t\t\n\t\t\n\t\t\tChloeKSlichter\n\t\t\n\t\t\n\t\t\tHannahWMiller\n\t\t\n\t\t\n\t\t\tMJuliannaMcelrath\n\t\t\n\t\t\n\t\t\tMartinPrlic\n\t\t\n\t\t\n\t\t\tPeterLinsley\n\t\t\n\t\t\n\t\t\tRaphaelGottardo\n\t\t\t0000-0002-3867-0232\n\t\t\n\t\t10.1101/020842\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t16\n\t\t\t278\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c741297723bebd86695698"},"refKey":20},
{"_key":"60c741297723bebd8669569a","_id":"references/60c741297723bebd8669569a","_rev":"_cfFl92W---","tei":"\n\t\n\t\tThe molecular signatures database (MSigDB) hallmark gene set collection\n\t\t\n\t\t\tALiberzon\n\t\t\n\t\t\n\t\t\tCBirger\n\t\t\n\t\t\n\t\t\tHThorvaldsdóttir\n\t\t\n\t\t\n\t\t\tMGhandi\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\n\t\n\t\tCell Syst\n\t\t\n\t\t\t1\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c741297723bebd86695698"},"refKey":22},
{"_key":"60c741297723bebd8669569b","_id":"references/60c741297723bebd8669569b","_rev":"_cfFl92i---","tei":"\n\t\n\t\tclusterProfiler: an R package for comparing biological themes among gene clusters\n\t\t\n\t\t\tGYu\n\t\t\n\t\t\n\t\t\tLGWang\n\t\t\n\t\t\n\t\t\tYHan\n\t\t\n\t\t\n\t\t\tQYHe\n\t\t\n\t\n\t\n\t\tOmics\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c741297723bebd86695698"},"refKey":21},
{"_key":"60c7415b7723bebd866956c3","_id":"references/60c7415b7723bebd866956c3","_rev":"_cfFl92u---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System. DeLano Scientific\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tSan Carlos, CA\n\t\t\n\t\n\n","document":{"$oid":"60c7415b7723bebd866956c2"},"refKey":55},
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{"_key":"60c747c97723bebd86695c62","_id":"references/60c747c97723bebd86695c62","_rev":"_cfFm-JO---","tei":"\n\t\n\t\tProtein Structure Comparison by Alignment of Distance Matrices\n\t\t\n\t\t\tLiisaHolm\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t10.1006/jmbi.1993.1489\n\t\t8377180\n\t\tS0022-2836(83)71489-0\n\t\tark:/67375/6H6-5NMGJ0F4-B\n\t\t940D949842E037D0316F736ED968D0E75F5A5D1D\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t233\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c747c97723bebd86695c60"},"refKey":14},
{"_key":"60c747c97723bebd86695c63","_id":"references/60c747c97723bebd86695c63","_rev":"_cfFm-Ja---","tei":"\n\t\n\t\tCrystal structure of cat muscle pyruvate kinase at a resolution of 2.6 Å\n\t\t\n\t\t\tDavidIStuart\n\t\t\n\t\t\n\t\t\tMichaelLevine\n\t\t\n\t\t\n\t\t\tHilaryMuirhead\n\t\t\n\t\t\n\t\t\tDavidKStammers\n\t\t\n\t\t10.1016/0022-2836(79)90416-9\n\t\t537059\n\t\t0022-2836(79)90416-9\n\t\tark:/67375/6H6-2R0057Q9-J\n\t\t9ADBEEA3222EC2CA9E7A5CCCB298BC1DBEF72354\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t134\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c747c97723bebd86695c60"},"refKey":15},
{"_key":"60c747c97723bebd86695c64","_id":"references/60c747c97723bebd86695c64","_rev":"_cfFm-Ji---","tei":"\n\t\n\t\tAutomatic comparison and classification of protein structures\n\t\t\n\t\t\tJanneRavantti\n\t\t\n\t\t\n\t\t\tDennisBamford\n\t\t\n\t\t\n\t\t\tDavidIStuart\n\t\t\n\t\t10.1016/j.jsb.2013.05.007\n\t\t23707633\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t183\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c747c97723bebd86695c60"},"refKey":16},
{"_key":"60c747e57723bebd86695c76","_id":"references/60c747e57723bebd86695c76","_rev":"_cfFm-Ju---","tei":"\n\t\n\t\tPrediction of N-glycosylation sites in human proteins\n\t\t\n\t\t\tRGupta\n\t\t\n\t\t\n\t\t\tEJung\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c747e57723bebd86695c75"},"refKey":11},
{"_key":"60c747ff7723bebd86695c99","_id":"references/60c747ff7723bebd86695c99","_rev":"_cfFm-J6---","tei":"\n\t\n\t\tLDAPrototype: Prototype of Multiple Latent Dirichlet Allocation Runs\n\t\t\n\t\t\tJRieger\n\t\t\n\t\t10.5281/zenodo.3604359\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c747ff7723bebd86695c98"},"refKey":14},
{"_key":"60c747ff7723bebd86695c9a","_id":"references/60c747ff7723bebd86695c9a","_rev":"_cfFm-KG---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c747ff7723bebd86695c98"},"refKey":13},
{"_key":"60c747ff7723bebd86695c9b","_id":"references/60c747ff7723bebd86695c9b","_rev":"_cfFm-KO---","tei":"\n\t\n\t\t\n\t\t\tLKoppers\n\t\t\n\t\t\n\t\t\tJRieger\n\t\t\n\t\t\n\t\t\tKBoczek\n\t\t\n\t\t\n\t\t\tGVon Nordheim\n\t\t\n\t\t10.5281/zenodo.3591068\n\t\t\n\t\ttosca: Tools for Statistical Content Analysis\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c747ff7723bebd86695c98"},"refKey":9},
{"_key":"60c748297723bebd86695cc2","_id":"references/60c748297723bebd86695cc2","_rev":"_cfFm-Ka---","tei":"\n\t\n\t\tNonparametric statistical testing of EEG- and MEG-data\n\t\t\n\t\t\tEricMaris\n\t\t\n\t\t\n\t\t\tRobertOostenveld\n\t\t\n\t\t10.1016/j.jneumeth.2007.03.024\n\t\t17517438\n\t\n\t\n\t\tJournal of Neuroscience Methods\n\t\tJournal of Neuroscience Methods\n\t\t0165-0270\n\t\t\n\t\t\t164\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c748297723bebd86695cc1"},"refKey":49},
{"_key":"60c748297723bebd86695cc3","_id":"references/60c748297723bebd86695cc3","_rev":"_cfFm-Km---","tei":"\n\t\n\t\tFieldTrip: Open Source Software for Advanced Analysis of MEG, EEG, and Invasive Electrophysiological Data\n\t\t\n\t\t\tRobertOostenveld\n\t\t\t0000-0002-1974-1293\n\t\t\n\t\t\n\t\t\tPascalFries\n\t\t\n\t\t\n\t\t\tEricMaris\n\t\t\n\t\t\n\t\t\tJan-MathijsSchoffelen\n\t\t\n\t\t10.1155/2011/156869\n\t\t21253357\n\t\tPMC3021840\n\t\t\n\t\n\t\n\t\tComputational Intelligence and Neuroscience\n\t\tComputational Intelligence and Neuroscience\n\t\t1687-5265\n\t\t1687-5273\n\t\t\n\t\t\t2011\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c748297723bebd86695cc1"},"refKey":58},
{"_key":"60c748297723bebd86695cc4","_id":"references/60c748297723bebd86695cc4","_rev":"_cfFm-Ky---","tei":"\n\t\n\t\tEEGLAB: an open source toolbox for analysis of single-trial EEG dynamics including independent component analysis\n\t\t\n\t\t\tArnaudDelorme\n\t\t\n\t\t\n\t\t\tScottMakeig\n\t\t\n\t\t10.1016/j.jneumeth.2003.10.009\n\t\t15102499\n\t\t\n\t\n\t\n\t\tJournal of Neuroscience Methods\n\t\tJournal of Neuroscience Methods\n\t\t0165-0270\n\t\t\n\t\t\t134\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c748297723bebd86695cc1"},"refKey":17},
{"_key":"60c7482c7723bebd86695ccf","_id":"references/60c7482c7723bebd86695ccf","_rev":"_cfFm-K6---","tei":"\n\t\n\t\tA Greedy Algorithm for Aligning DNA Sequences\n\t\t\n\t\t\tZhengZhang\n\t\t\n\t\t\n\t\t\tScottSchwartz\n\t\t\n\t\t\n\t\t\tLukasWagner\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t10.1089/10665270050081478\n\t\t10890397\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t7\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c7482c7723bebd86695cce"},"refKey":41},
{"_key":"60c7484b7723bebd86695ce8","_id":"references/60c7484b7723bebd86695ce8","_rev":"_cfFm-LG---","tei":"\n\t\n\t\tQuiescent Consistency: Defining and Verifying Relaxed Linearizability\n\t\t\n\t\t\tJohnDerrick\n\t\t\n\t\t\n\t\t\tBrijeshDongol\n\t\t\n\t\t\n\t\t\tGerhardSchellhorn\n\t\t\n\t\t\n\t\t\tBogdanTofan\n\t\t\n\t\t\n\t\t\tOlegTravkin\n\t\t\n\t\t\n\t\t\tHeikeWehrheim\n\t\t\n\t\t10.1007/978-3-319-06410-9_15\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\tFM. Lecture Notes in Computer Science\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t8442\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7484b7723bebd86695ce7"},"refKey":9},
{"_key":"60c748557723bebd86695d2b","_id":"references/60c748557723bebd86695d2b","_rev":"_cfFm-LS---","tei":"\n\t\n\t\t\n\t\tThe R Project for Statistical Computing. Available at\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c748557723bebd86695d2a"},"refKey":16},
{"_key":"60c748797723bebd86695d42","_id":"references/60c748797723bebd86695d42","_rev":"_cfFm-Le---","tei":"\n\t\n\t\tHashtagger+: Efficient High-Coverage Social Tagging of Streaming News\n\t\t\n\t\t\tBichenShi\n\t\t\t0000-0002-2965-3449\n\t\t\n\t\t\n\t\t\tGevorgPoghosyan\n\t\t\n\t\t\n\t\t\tGeorgianaIfrim\n\t\t\t0000-0002-8400-2972\n\t\t\n\t\t\n\t\t\tNeilHurley\n\t\t\n\t\t10.1109/tkde.2017.2754253\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Knowledge and Data Engineering\n\t\tIEEE Trans. Knowl. Data Eng.\n\t\t1041-4347\n\t\t\n\t\t\t30\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c748797723bebd86695d41"},"refKey":126},
{"_key":"60c748947723bebd86695d61","_id":"references/60c748947723bebd86695d61","_rev":"_cfFm-Lm---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1101/274100\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c748947723bebd86695d60"},"refKey":4},
{"_key":"60c748a37723bebd86695d73","_id":"references/60c748a37723bebd86695d73","_rev":"_cfFm-Ly---","tei":"\n\t\n\t\tPackage 'randomForest'. Cran Repos\n\t\t\n\t\t\tLBreiman\n\t\t\n\t\t\n\t\t\tACutler\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c748a37723bebd86695d72"},"refKey":6},
{"_key":"60c748e97723bebd86695d95","_id":"references/60c748e97723bebd86695d95","_rev":"_cfFm-M----","tei":"\n\t\n\t\tDiscovering statistics using SPSS\n\t\t\n\t\t\tAField\n\t\t\n\t\t\n\t\t\t\n\t\t\tSage publications ltd\n\t\t\n\t\n\n","document":{"$oid":"60c748e97723bebd86695d94"},"refKey":15},
{"_key":"60c749077723bebd86695da9","_id":"references/60c749077723bebd86695da9","_rev":"_cfFm-MK---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tD3\n\t\t\n\t\t\n\t\t\tJs\n\t\t\n\t\t\n\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c749077723bebd86695da8"},"refKey":22},
{"_key":"60c749257723bebd86695dc3","_id":"references/60c749257723bebd86695dc3","_rev":"_cfFm-MS---","tei":"\n\t\n\t\tNetCGlyc 1.0: prediction of mammalian C-mannosylation sites\n\t\t\n\t\t\tKJulenius\n\t\t\n\t\n\t\n\t\tGlycobiology\n\t\t\n\t\t\t17\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c749257723bebd86695dc2"},"refKey":13},
{"_key":"60c749257723bebd86695dc4","_id":"references/60c749257723bebd86695dc4","_rev":"_cfFm-Me---","tei":"\n\t\n\t\tThe HHpred interactive server for protein homology detection and structure prediction\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c749257723bebd86695dc2"},"refKey":27},
{"_key":"60c749257723bebd86695dc5","_id":"references/60c749257723bebd86695dc5","_rev":"_cfFm-Mq---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c749257723bebd86695dc2"},"refKey":9},
{"_key":"60c749257723bebd86695dc6","_id":"references/60c749257723bebd86695dc6","_rev":"_cfFm-M2---","tei":"\n\t\n\t\tSequence and structure-based prediction of eukaryotic protein phosphorylation sites\n\t\t\n\t\t\tNBlom\n\t\t\n\t\t\n\t\t\tSGammeltoft\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t294\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c749257723bebd86695dc2"},"refKey":4},
{"_key":"60c749257723bebd86695dc7","_id":"references/60c749257723bebd86695dc7","_rev":"_cfFm-NC---","tei":"\n\t\n\t\tIPknot: fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming\n\t\t\n\t\t\tKengoSato\n\t\t\n\t\t\n\t\t\tYukiKato\n\t\t\n\t\t\n\t\t\tMichiakiHamada\n\t\t\n\t\t\n\t\t\tTatsuyaAkutsu\n\t\t\n\t\t\n\t\t\tKiyoshiAsai\n\t\t\n\t\t10.1093/bioinformatics/btr215\n\t\t21685106\n\t\tPMC3117384\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c749257723bebd86695dc2"},"refKey":24},
{"_key":"60c749257723bebd86695dc8","_id":"references/60c749257723bebd86695dc8","_rev":"_cfFm-NK---","tei":"\n\t\n\t\tGeneMark: web software for gene finding in prokaryotes, eukaryotes and viruses\n\t\t\n\t\t\tJBesemer\n\t\t\n\t\t\n\t\t\tMBorodovsky\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c749257723bebd86695dc2"},"refKey":1},
{"_key":"60c749257723bebd86695dc9","_id":"references/60c749257723bebd86695dc9","_rev":"_cfFm-NW---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c749257723bebd86695dc2"},"refKey":14},
{"_key":"60c749257723bebd86695dca","_id":"references/60c749257723bebd86695dca","_rev":"_cfFm-Ni---","tei":"\n\t\n\t\tSignalP 4.0: discriminating signal peptides from transmembrane regions\n\t\t\n\t\t\tTNPetersen\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t8\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c749257723bebd86695dc2"},"refKey":23},
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{"_key":"60c749797723bebd86695e04","_id":"references/60c749797723bebd86695e04","_rev":"_cfFm-N2---","tei":"\n\t\n\t\tMachine learning for neuroimaging with scikit-learn\n\t\t\n\t\t\tAlexandreAbraham\n\t\t\n\t\n\t\n\t\tFrontiers in neuroinformatics\n\t\t\n\t\t\t8\n\t\t\t14\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c749797723bebd86695e03"},"refKey":12},
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{"_key":"60c74adc7723bebd86695f16","_id":"references/60c74adc7723bebd86695f16","_rev":"_cfFm-SO---","tei":"\n\t\n\t\tA Fast Flexible Docking Method using an Incremental Construction Algorithm\n\t\t\n\t\t\tMatthiasRarey\n\t\t\n\t\t\n\t\t\tBerndKramer\n\t\t\n\t\t\n\t\t\tThomasLengauer\n\t\t\n\t\t\n\t\t\tGerhardKlebe\n\t\t\n\t\t10.1006/jmbi.1996.0477\n\t\t8780787\n\t\tS0022-2836(96)90477-5\n\t\tark:/67375/6H6-KZF2QWF4-4\n\t\tF66F5BD4CAA28D99062DF70CF99157C7E2F4FDFD\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t261\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c74adc7723bebd86695f13"},"refKey":195},
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{"_key":"60c74d1b7723bebd86696136","_id":"references/60c74d1b7723bebd86696136","_rev":"_cfFm-Yq---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, version 1\n\t\t\n\t\n\n","document":{"$oid":"60c74d1b7723bebd86696135"},"refKey":49},
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{"_key":"60c74d567723bebd86696177","_id":"references/60c74d567723bebd86696177","_rev":"_cfFm-aG---","tei":"\n\t\n\t\tTorsion angle dynamics for NMR structure calculation with the new program DYANA\n\t\t\n\t\t\tPGuntert\n\t\t\n\t\t\n\t\t\tCMumenthaler\n\t\t\n\t\t\n\t\t\tKWuthrich\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t273\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c74d567723bebd86696175"},"refKey":43},
{"_key":"60c74d567723bebd86696178","_id":"references/60c74d567723bebd86696178","_rev":"_cfFm-aS---","tei":"\n\t\n\t\tProtein NMR Structure Determination with Automated NOE Assignment Using the New Software CANDID and the Torsion Angle Dynamics Algorithm DYANA\n\t\t\n\t\t\tTorstenHerrmann\n\t\t\n\t\t\n\t\t\tPeterGüntert\n\t\t\n\t\t\n\t\t\tKurtWüthrich\n\t\t\n\t\t10.1016/s0022-2836(02)00241-3\n\t\t12051947\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t319\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c74d567723bebd86696175"},"refKey":44},
{"_key":"60c74d567723bebd86696179","_id":"references/60c74d567723bebd86696179","_rev":"_cfFm-ai---","tei":"\n\t\n\t\tProtein backbone angle restraints from searching a database for chemical shift and sequence homology\n\t\t\n\t\t\tGCornilescu\n\t\t\n\t\t\n\t\t\tFDelaglio\n\t\t\n\t\t\n\t\t\tABax\n\t\t\n\t\n\t\n\t\tJ. Biomol. NMR\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c74d567723bebd86696175"},"refKey":42},
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{"_key":"60c74d957723bebd8669619f","_id":"references/60c74d957723bebd8669619f","_rev":"_cfFm-b2---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c74d957723bebd8669619d"},"refKey":11},
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{"_key":"60c74fd07723bebd866963ba","_id":"references/60c74fd07723bebd866963ba","_rev":"_cfFm-h2---","tei":"\n\t\n\t\tSecond-generation PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tChristopherCChang\n\t\t\n\t\t\n\t\t\tCarsonCChow\n\t\t\n\t\t\n\t\t\tLaurentCamTellier\n\t\t\n\t\t\n\t\t\tShashaankVattikuti\n\t\t\n\t\t\n\t\t\tShaunMPurcell\n\t\t\n\t\t\n\t\t\tJamesJLee\n\t\t\n\t\t10.1186/s13742-015-0047-8\n\t\t25722852\n\t\tPMC4342193\n\t\ts13742-015-0047-8\n\t\t\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\tGigaSci\n\t\t2047-217X\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c74fd07723bebd866963b7"},"refKey":47},
{"_key":"60c74fd77723bebd866963c9","_id":"references/60c74fd77723bebd866963c9","_rev":"_cfFm-iC---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c74fd77723bebd866963c8"},"refKey":6},
{"_key":"60c74fee7723bebd866963de","_id":"references/60c74fee7723bebd866963de","_rev":"_cfFm-iO---","tei":"\n\t\n\t\tWebQTL: rapid exploratory analysis of gene expression and genetic networks for brain and behavior\n\t\t\n\t\t\tElissaJChesler\n\t\t\n\t\t\n\t\t\tLuLu\n\t\t\n\t\t\n\t\t\tJintaoWang\n\t\t\n\t\t\n\t\t\tRobertWWilliams\n\t\t\n\t\t\n\t\t\tKennethFManly\n\t\t\n\t\t10.1038/nn0504-485\n\t\t15114364\n\t\n\t\n\t\tNature Neuroscience\n\t\tNat Neurosci\n\t\t1097-6256\n\t\t1546-1726\n\t\t\n\t\t\t7\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c74fee7723bebd866963dd"},"refKey":12},
{"_key":"60c74fee7723bebd866963df","_id":"references/60c74fee7723bebd866963df","_rev":"_cfFm-ia---","tei":"\n\t\n\t\tWebQTL: Web-Based Complex Trait Analysis\n\t\t\n\t\t\tJintaoWang\n\t\t\n\t\t\n\t\t\tRobertW.Williams\n\t\t\n\t\t\n\t\t\tKennethFManly\n\t\t\n\t\t10.1385/ni:1:4:299\n\t\t15043217\n\t\n\t\n\t\tNeuroinformatics\n\t\tNI\n\t\t1539-2791\n\t\t\n\t\t\t1\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c74fee7723bebd866963dd"},"refKey":100},
{"_key":"60c74fee7723bebd866963e0","_id":"references/60c74fee7723bebd866963e0","_rev":"_cfFm-ii---","tei":"\n\t\n\t\tWEB-based GEne SeT AnaLysis Toolkit (WebGestalt): update 2013\n\t\t\n\t\t\tJingWang\n\t\t\n\t\t\n\t\t\tDexterDuncan\n\t\t\n\t\t\n\t\t\tZhiaoShi\n\t\t\n\t\t\n\t\t\tBingZhang\n\t\t\n\t\t10.1093/nar/gkt439\n\t\t23703215\n\t\tPMC3692109\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c74fee7723bebd866963dd"},"refKey":101},
{"_key":"60c74ff67723bebd866963ee","_id":"references/60c74ff67723bebd866963ee","_rev":"_cfFm-iu---","tei":"\n\t\n\t\tWhole-Brain Diffusion-Tensor Changes in Parkinsonian Patients with Impulse Control Disorders\n\t\t\n\t\t\tHyeBinYoo\n\t\t\n\t\t\n\t\t\tJee-YoungLee\n\t\t\n\t\t\n\t\t\tJaeSungLee\n\t\t\n\t\t\n\t\t\tHyejinKang\n\t\t\n\t\t\n\t\t\tYuKyeongKim\n\t\t\n\t\t\n\t\t\tInChanSong\n\t\t\n\t\t\n\t\t\tDongSooLee\n\t\t\n\t\t\n\t\t\tBeomSeokJeon\n\t\t\n\t\t10.3988/jcn.2015.11.1.42\n\t\t25628736\n\t\tPMC4302178\n\t\t\n\t\n\t\n\t\tJournal of Clinical Neurology\n\t\tJ Clin Neurol\n\t\t1738-6586\n\t\t2005-5013\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t42\n\t\t\t\n\t\t\tKorean Neurological Association (KAMJE)\n\t\t\n\t\n\n","document":{"$oid":"60c74ff67723bebd866963ed"},"refKey":72},
{"_key":"60c7513d7723bebd86696463","_id":"references/60c7513d7723bebd86696463","_rev":"_cfFm-i6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tEricBbmri-\n\t\t\n\t\t\n\t\t\tBbmri Negotiator\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7513d7723bebd86696462"},"refKey":4},
{"_key":"60c751887723bebd86696491","_id":"references/60c751887723bebd86696491","_rev":"_cfFm-jC---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c751887723bebd86696490"},"refKey":4},
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{"_key":"60c751a67723bebd8669649c","_id":"references/60c751a67723bebd8669649c","_rev":"_cfFm-ja---","tei":"\n\t\n\t\tAutomated ASPECTS on Noncontrast CT Scans in Patients with Acute Ischemic Stroke Using Machine Learning\n\t\t\n\t\t\tHKuang\n\t\t\t0000-0001-7341-9871\n\t\t\n\t\t\n\t\t\tMNajm\n\t\t\t0000-0003-3074-4791\n\t\t\n\t\t\n\t\t\tDChakraborty\n\t\t\t0000-0003-1867-6116\n\t\t\n\t\t\n\t\t\tNMaraj\n\t\t\t0000-0002-5846-7637\n\t\t\n\t\t\n\t\t\tSISohn\n\t\t\t0000-0002-6900-1242\n\t\t\n\t\t\n\t\t\tMGoyal\n\t\t\t0000-0001-9060-2109\n\t\t\n\t\t\n\t\t\tMDHill\n\t\t\t0000-0002-6269-1543\n\t\t\n\t\t\n\t\t\tAMDemchuk\n\t\t\t0000-0002-4930-7789\n\t\t\n\t\t\n\t\t\tBKMenon\n\t\t\t0000-0002-3466-496X\n\t\t\n\t\t\n\t\t\tWQiu\n\t\t\t0000-0001-7827-8270\n\t\t\n\t\t10.3174/ajnr.a5889\n\t\t30498017\n\t\t\n\t\n\t\n\t\tAmerican Journal of Neuroradiology\n\t\tAJNR Am J Neuroradiol\n\t\t0195-6108\n\t\t1936-959X\n\t\t\n\t\t\t40\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society of Neuroradiology (ASNR)\n\t\t\n\t\n\n","document":{"$oid":"60c751a67723bebd8669649a"},"refKey":20},
{"_key":"60c751a67723bebd8669649d","_id":"references/60c751a67723bebd8669649d","_rev":"_cfFm-jm---","tei":"\n\t\n\t\tDevelopment of Computer Aids ASPECTS System for Acute Ischemic Stroke Patient: A Preliminary Study\n\t\t\n\t\t\tJenn-LungSu\n\t\t\n\t\t\n\t\t\tLungChan\n\t\t\n\t\t\n\t\t\tSYHuang\n\t\t\n\t\t10.1007/978-981-10-7554-4_35\n\t\n\t\n\t\tIFMBE Proceedings\n\t\t\t\tPenang, Malaysia\n\t\t\n\t\t\tSpringer Singapore\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c751a67723bebd8669649a"},"refKey":21},
{"_key":"60c751d97723bebd866964cc","_id":"references/60c751d97723bebd866964cc","_rev":"_cfFm-ju---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c751d97723bebd866964cb"},"refKey":78},
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{"_key":"60c751d97723bebd866964ce","_id":"references/60c751d97723bebd866964ce","_rev":"_cfFm-kG---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tProc. Int. Conf. Intell. Syst. Mol. Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c751d97723bebd866964cb"},"refKey":75},
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{"_key":"60c752337723bebd8669651f","_id":"references/60c752337723bebd8669651f","_rev":"_cfFm-ka---","tei":"\n\t\n\t\tFiji: an opensource platform for biological-image analysis\n\t\t\n\t\t\tJSchindelin\n\t\t\n\t\t\n\t\t\tIArganda-Carreras\n\t\t\n\t\t\n\t\t\tEFrise\n\t\t\n\t\t\n\t\t\tVKaynig\n\t\t\n\t\t\n\t\t\tMLongair\n\t\t\n\t\t\n\t\t\tTPietzsch\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tResearch Support, N.I.H., Extramural Research Support\n\n","document":{"$oid":"60c752337723bebd8669651e"},"refKey":37},
{"_key":"60c7523f7723bebd86696529","_id":"references/60c7523f7723bebd86696529","_rev":"_cfFm-km---","tei":"\n\t\n\t\tProfiling Tumor Infiltrating Immune Cells with CIBERSORT\n\t\t\n\t\t\tBinbinChen\n\t\t\n\t\t\n\t\t\tMichaelSKhodadoust\n\t\t\n\t\t\n\t\t\tChihLongLiu\n\t\t\n\t\t\n\t\t\tAaronMNewman\n\t\t\n\t\t\n\t\t\tAshAAlizadeh\n\t\t\n\t\t10.1007/978-1-4939-7493-1_12\n\t\t29344893\n\t\tPMC5895181\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1711\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7523f7723bebd86696528"},"refKey":25},
{"_key":"60c752647723bebd86696541","_id":"references/60c752647723bebd86696541","_rev":"_cfFm-ky---","tei":"\n\t\n\t\tLoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cellpopulation heterogeneity from high-throughput sequencing datasets\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tPP KAw\n\t\t\n\t\t\n\t\t\tDBertrand\n\t\t\n\t\t\n\t\t\tGH TYeo\n\t\t\n\t\t\n\t\t\tSHOng\n\t\t\n\t\t\n\t\t\tCHWong\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c752647723bebd86696540"},"refKey":88},
{"_key":"60c752647723bebd86696542","_id":"references/60c752647723bebd86696542","_rev":"_cfFm-l----","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\tPMID. 24695404:684\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c752647723bebd86696540"},"refKey":11},
{"_key":"60c752647723bebd86696543","_id":"references/60c752647723bebd86696543","_rev":"_cfFm-lG---","tei":"\n\t\n\t\tABySS: a parallel assembler for short read sequence data\n\t\t\n\t\t\tJTSimpson\n\t\t\n\t\t\n\t\t\tKWong\n\t\t\n\t\t\n\t\t\tSDJackman\n\t\t\n\t\t\n\t\t\tJESchein\n\t\t\n\t\t\n\t\t\tSJ MJones\n\t\t\n\t\t\n\t\t\tIBirol\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c752647723bebd86696540"},"refKey":79},
{"_key":"60c752647723bebd86696544","_id":"references/60c752647723bebd86696544","_rev":"_cfFm-lS---","tei":"\n\t\n\t\tMaking the leap: maq to BWA\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tMass Genomics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c752647723bebd86696540"},"refKey":56},
{"_key":"60c752647723bebd86696545","_id":"references/60c752647723bebd86696545","_rev":"_cfFm-le---","tei":"\n\t\n\t\tAttenuation and immunogenicity in humans of a live dengue virus type-4 vaccine candidate with a 30 nucleotide deletion in its 3'-untranslated region.\n\t\t\n\t\t\tAPDurbin\n\t\t\n\t\t\n\t\t\tMJReynolds\n\t\t\n\t\t\n\t\t\tRMChanock\n\t\t\n\t\t\n\t\t\tSSWhitehead\n\t\t\n\t\t\n\t\t\tBRMurphy\n\t\t\n\t\t\n\t\t\tWRElkins\n\t\t\n\t\t\n\t\t\tDWVaughn\n\t\t\n\t\t\n\t\t\tWSun\n\t\t\n\t\t\n\t\t\tRMen\n\t\t\n\t\t\n\t\t\tCJLai\n\t\t\n\t\t\n\t\t\tBThumar\n\t\t\n\t\t\n\t\t\tRAKarron\n\t\t\n\t\t\n\t\t\tJRPerreault\n\t\t\n\t\t10.4269/ajtmh.2001.65.405\n\t\t\n\t\n\t\n\t\tThe American Journal of Tropical Medicine and Hygiene\n\t\t0002-9637\n\t\t1476-1645\n\t\t\n\t\t\t65\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society of Tropical Medicine and Hygiene\n\t\t\n\t\n\n","document":{"$oid":"60c752647723bebd86696540"},"refKey":28},
{"_key":"60c752647723bebd86696546","_id":"references/60c752647723bebd86696546","_rev":"_cfFm-lm---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c752647723bebd86696540"},"refKey":73},
{"_key":"60c752657723bebd86696555","_id":"references/60c752657723bebd86696555","_rev":"_cfFm-ly---","tei":"\n\t\n\t\tThe Nordic Cochrane Centre. Review manager (RevMan). 5.3. Copenhagen: the Cochrane collaboration\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c752657723bebd86696554"},"refKey":19},
{"_key":"60c752707723bebd86696558","_id":"references/60c752707723bebd86696558","_rev":"_cfFm-m----","tei":"\n\t\n\t\tComparative Protein Structure Modeling Using MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1002/cpps.20\n\t\t27801516\n\t\t\n\t\n\t\n\t\tCurr. Prot. Prot. Sci\n\t\t\n\t\t\t86\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c752707723bebd86696557"},"refKey":166},
{"_key":"60c753047723bebd8669656f","_id":"references/60c753047723bebd8669656f","_rev":"_cfFm-mK---","tei":"\n\t\n\t\t\n\t\t\tSasLixoft\n\t\t\n\t\tMonolix v2019r2\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c753047723bebd8669656e"},"refKey":26},
{"_key":"60c753307723bebd86696587","_id":"references/60c753307723bebd86696587","_rev":"_cfFm-mS---","tei":"\n\t\n\t\tUsing search engine technology for the analysis of microarray experiments\n\t\t\n\t\t\tJLMorrison\n\t\t\n\t\t\n\t\t\tRBreitling\n\t\t\n\t\t\n\t\t\tDJHigham\n\t\t\n\t\t\n\t\t\tDRGilbert\n\t\t\n\t\t\n\t\t\tGenerank\n\t\t\n\t\t10.1186/1471-2105-6-233\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c753307723bebd86696586"},"refKey":14},
{"_key":"60c753307723bebd86696588","_id":"references/60c753307723bebd86696588","_rev":"_cfFm-me---","tei":"\n\t\n\t\tclusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tLi-GenWang\n\t\t\n\t\t\n\t\t\tYanyanHan\n\t\t\n\t\t\n\t\t\tQing-YuHe\n\t\t\n\t\t10.1089/omi.2011.0118\n\t\t22455463\n\t\tPMC3339379\n\t\t\n\t\n\t\n\t\tOMICS: A Journal of Integrative Biology\n\t\tOMICS: A Journal of Integrative Biology\n\t\t1536-2310\n\t\t1557-8100\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c753307723bebd86696586"},"refKey":20},
{"_key":"60c753627723bebd866965a1","_id":"references/60c753627723bebd866965a1","_rev":"_cfFm-mq---","tei":"\n\t\n\t\tSentiment strength detection in short informal text\n\t\t\n\t\t\tMThelwall\n\t\t\n\t\t\n\t\t\tKBuckley\n\t\t\n\t\t\n\t\t\tGPaltoglou\n\t\t\n\t\t\n\t\t\tDCai\n\t\t\n\t\t\n\t\t\tAKappas\n\t\t\n\t\n\t\n\t\tJ Am Soc Inf Sci Technol\n\t\t\n\t\t\t61\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c753627723bebd866965a0"},"refKey":33},
{"_key":"60c753627723bebd866965a2","_id":"references/60c753627723bebd866965a2","_rev":"_cfFm-my---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tApi-FacebookGraph\n\t\t\n\t\t\n\t\t\tDevelopers\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c753627723bebd866965a0"},"refKey":29},
{"_key":"60c7536b7723bebd866965ae","_id":"references/60c7536b7723bebd866965ae","_rev":"_cfFm-n----","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7536b7723bebd866965ad"},"refKey":24},
{"_key":"60c7536b7723bebd866965af","_id":"references/60c7536b7723bebd866965af","_rev":"_cfFm-nK---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7536b7723bebd866965ad"},"refKey":40},
{"_key":"60c7536b7723bebd866965b0","_id":"references/60c7536b7723bebd866965b0","_rev":"_cfFm-nW---","tei":"\n\t\n\t\tOpen Babel\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\t\n\t\t\tCMorley\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\n\t\n\t\tJ. Cheminform\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7536b7723bebd866965ad"},"refKey":38},
{"_key":"60c7536b7723bebd866965b1","_id":"references/60c7536b7723bebd866965b1","_rev":"_cfFm-ne---","tei":"\n\t\n\t\tSchrödinger Release 2019-1: Maestro\n\t\t\n\t\t\tSchrödinger\n\t\t\n\t\t\n\t\t\t\n\t\t\tSchrödinger, LLC\n\t\t\tNew York, NY\n\t\t\n\t\n\n","document":{"$oid":"60c7536b7723bebd866965ad"},"refKey":45},
{"_key":"60c7536b7723bebd866965b2","_id":"references/60c7536b7723bebd866965b2","_rev":"_cfFm-nq---","tei":"\n\t\n\t\tSoftware news and updates carma: A molecular dynamics analysis program\n\t\t\n\t\t\tNicholasMGlykos\n\t\t\n\t\t10.1002/jcc.20482\n\t\t16917862\n\t\tark:/67375/WNG-VJWVV9Z6-4\n\t\t1F1BFF69AFC72CEF9E1EF09419EC3CFABE32B965\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t27\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7536b7723bebd866965ad"},"refKey":18},
{"_key":"60c753747723bebd866965d7","_id":"references/60c753747723bebd866965d7","_rev":"_cfFm-n2---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLLWang\n\t\t\n\t\t\n\t\t\tMCoon\n\t\t\n\t\t\n\t\t\tTNguyen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\n\t\n\t\tFly\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tiso-2; iso-3\n\n","document":{"$oid":"60c753747723bebd866965d6"},"refKey":13},
{"_key":"60c753747723bebd866965d8","_id":"references/60c753747723bebd866965d8","_rev":"_cfFm-oC---","tei":"\n\t\n\t\tUsing Drosophila melanogaster as a Model for Genotoxic Chemical Mutational Studies with a New Program, SnpSift\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tViralMPatel\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t10.3389/fgene.2012.00035\n\t\t22435069\n\t\tPMC3304048\n\t\t\n\t\n\t\n\t\tFrontiers in Genetics\n\t\tFront. Gene.\n\t\t1664-8021\n\t\t\n\t\t\t3\n\t\t\t35\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c753747723bebd866965d6"},"refKey":14},
{"_key":"60c753787723bebd866965e9","_id":"references/60c753787723bebd866965e9","_rev":"_cfFm-oK---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c753787723bebd866965e8"},"refKey":19},
{"_key":"60c753a27723bebd86696602","_id":"references/60c753a27723bebd86696602","_rev":"_cfFm-oW---","tei":"\n\t\n\t\tMAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data\n\t\t\n\t\t\tGregFinak\n\t\t\n\t\t\n\t\t\tAndrewMcdavid\n\t\t\n\t\t\n\t\t\tMasanaoYajima\n\t\t\n\t\t\n\t\t\tJingyuanDeng\n\t\t\n\t\t\n\t\t\tVivianGersuk\n\t\t\n\t\t\n\t\t\tAlexKShalek\n\t\t\n\t\t\n\t\t\tChloeKSlichter\n\t\t\n\t\t\n\t\t\tHannahWMiller\n\t\t\n\t\t\n\t\t\tMJulianaMcelrath\n\t\t\n\t\t\n\t\t\tMartinPrlic\n\t\t\n\t\t\n\t\t\tPeterSLinsley\n\t\t\n\t\t\n\t\t\tRaphaelGottardo\n\t\t\n\t\t10.1186/s13059-015-0844-5\n\t\t26653891\n\t\tPMC4676162\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t278\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c753a27723bebd86696601"},"refKey":25},
{"_key":"60c753a27723bebd86696603","_id":"references/60c753a27723bebd86696603","_rev":"_cfFm-oi---","tei":"\n\t\n\t\tThe Molecular Signatures Database Hallmark Gene Set Collection\n\t\t\n\t\t\tArthurLiberzon\n\t\t\n\t\t\n\t\t\tChetBirger\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdóttir\n\t\t\n\t\t\n\t\t\tMahmoudGhandi\n\t\t\n\t\t\n\t\t\tJillPMesirov\n\t\t\n\t\t\n\t\t\tPabloTamayo\n\t\t\n\t\t10.1016/j.cels.2015.12.004\n\t\t26771021\n\t\tPMC4707969\n\t\t\n\t\n\t\n\t\tCell Systems\n\t\tCell Systems\n\t\t2405-4712\n\t\t\n\t\t\t1\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c753a27723bebd86696601"},"refKey":27},
{"_key":"60c753a27723bebd86696604","_id":"references/60c753a27723bebd86696604","_rev":"_cfFm-ou---","tei":"\n\t\n\t\tclusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tLi-GenWang\n\t\t\n\t\t\n\t\t\tYanyanHan\n\t\t\n\t\t\n\t\t\tQing-YuHe\n\t\t\n\t\t10.1089/omi.2011.0118\n\t\t22455463\n\t\tPMC3339379\n\t\t\n\t\n\t\n\t\tOMICS: A Journal of Integrative Biology\n\t\tOMICS: A Journal of Integrative Biology\n\t\t1536-2310\n\t\t1557-8100\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c753a27723bebd86696601"},"refKey":26},
{"_key":"60c753a57723bebd86696615","_id":"references/60c753a57723bebd86696615","_rev":"_cfFm-o2---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c753a57723bebd86696614"},"refKey":33},
{"_key":"60c753a97723bebd86696618","_id":"references/60c753a97723bebd86696618","_rev":"_cfFm-pC---","tei":"\n\t\n\t\tA python library for fitting 1D continuous piecewise linear functions\n\t\t\n\t\t\tCJekel\n\t\t\n\t\t\n\t\t\tGVenter\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c753a97723bebd86696617"},"refKey":26},
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{"_key":"60c758387723bebd86696901","_id":"references/60c758387723bebd86696901","_rev":"_cfFm-yy---","tei":"\n\t\n\t\tWebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tEJJaehnig\n\t\t\n\t\t\n\t\t\tZShi\n\t\t\n\t\t\n\t\t\tBZhang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c758387723bebd86696900"},"refKey":61},
{"_key":"60c758387723bebd86696902","_id":"references/60c758387723bebd86696902","_rev":"_cfFm-z----","tei":"\n\t\n\t\tSTRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c758387723bebd86696900"},"refKey":68},
{"_key":"60c758487723bebd86696923","_id":"references/60c758487723bebd86696923","_rev":"_cfFm-zK---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/s0021889892009944\n\t\tark:/67375/WNG-1V02WKNX-V\n\t\t7FF6EABFE5D6E9AB8536E310B9782B625E4CA368\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c758487723bebd86696922"},"refKey":29},
{"_key":"60c758487723bebd86696924","_id":"references/60c758487723bebd86696924","_rev":"_cfFm-zW---","tei":"\n\t\n\t\tPOLYVIEW: a flexible visualization tool for structural and functional annotations of proteins\n\t\t\n\t\t\tAAPorollo\n\t\t\n\t\t\n\t\t\tRAdamczak\n\t\t\n\t\t\n\t\t\tJMeller\n\t\t\n\t\t10.1093/bioinformatics/bth248\n\t\t15073023\n\t\tark:/67375/HXZ-X2B805RH-R\n\t\tE79D1599F7E2E0BD06448199BDCC866BBE733E3E\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c758487723bebd86696922"},"refKey":44},
{"_key":"60c7584b7723bebd8669693f","_id":"references/60c7584b7723bebd8669693f","_rev":"_cfFm-ze---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7584b7723bebd8669693e"},"refKey":11},
{"_key":"60c7584b7723bebd86696940","_id":"references/60c7584b7723bebd86696940","_rev":"_cfFm-zq---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7584b7723bebd8669693e"},"refKey":2},
{"_key":"60c7584b7723bebd86696941","_id":"references/60c7584b7723bebd86696941","_rev":"_cfFm-z2---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7584b7723bebd8669693e"},"refKey":26},
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{"_key":"60c758577723bebd86696957","_id":"references/60c758577723bebd86696957","_rev":"_cfFm-0K---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c758577723bebd86696956"},"refKey":42},
{"_key":"60c758b47723bebd86696991","_id":"references/60c758b47723bebd86696991","_rev":"_cfFm-0a---","tei":"\n\t\n\t\tSwissADME: a free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules\n\t\t\n\t\t\tAntoineDaina\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t10.1038/srep42717\n\t\t28256516\n\t\tPMC5335600\n\t\t\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t42717\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c758b47723bebd86696990"},"refKey":5},
{"_key":"60c758b47723bebd86696992","_id":"references/60c758b47723bebd86696992","_rev":"_cfFm-0m---","tei":"\n\t\n\t\tpkCSM: Predicting Small-Molecule Pharmacokinetic and Toxicity Properties Using Graph-Based Signatures\n\t\t\n\t\t\tDouglasE VPires\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t\n\t\t\tDavidBAscher\n\t\t\n\t\t10.1021/acs.jmedchem.5b00104\n\t\t25860834\n\t\tPMC4434528\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t58\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c758b47723bebd86696990"},"refKey":6},
{"_key":"60c758b87723bebd86696996","_id":"references/60c758b87723bebd86696996","_rev":"_cfFm-0y---","tei":"\n\t\n\t\tThe R0 package: a toolbox to estimate reproduction numbers for epidemic outbreaks. BMC medical informatics and decision making\n\t\t\n\t\t\tTObadia\n\t\t\n\t\t\n\t\t\tRHaneef\n\t\t\n\t\t\n\t\t\tBoe\n\t\t\n\t\t\n\t\t\tPy\n\t\t\n\t\t\n\t\t\t\n\t\t\t12\n\t\t\t147\n\t\t\n\t\n\n","document":{"$oid":"60c758b87723bebd86696995"},"refKey":9},
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{"_key":"60c758c47723bebd86696b02","_id":"references/60c758c47723bebd86696b02","_rev":"_cfFm-1W---","tei":"\n\t\n\t\tGROMACS: fast, flexible, and free\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tGGroenhof\n\t\t\n\t\t\n\t\t\tAEMark\n\t\t\n\t\t\n\t\t\tHJBerendsen\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c758c47723bebd86696b00"},"refKey":25},
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{"_key":"60c758c47723bebd86696b04","_id":"references/60c758c47723bebd86696b04","_rev":"_cfFm-1u---","tei":"\n\t\n\t\ta high-throughput and highly parallel open source molecular simulation toolkit\n\t\t\n\t\t\tSPronk\n\t\t\n\t\t\n\t\t\tSPall\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tPLarsson\n\t\t\n\t\t\n\t\t\tPBjelkmar\n\t\t\n\t\t\n\t\t\tRApostolov\n\t\t\n\t\t\n\t\t\tMRShirts\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tPMKasson\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\tGROMACS 4.5\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c758c47723bebd86696b00"},"refKey":27},
{"_key":"60c758c47723bebd86696b05","_id":"references/60c758c47723bebd86696b05","_rev":"_cfFm-16---","tei":"\n\t\n\t\tDeLano WL The PyMOL molecular graphics system\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c758c47723bebd86696b00"},"refKey":37},
{"_key":"60c758c67723bebd86696b23","_id":"references/60c758c67723bebd86696b23","_rev":"_cfFm-2G---","tei":"\n\t\n\t\tVega-Lite: A Grammar of Interactive Graphics\n\t\t\n\t\t\tArvindSatyanarayan\n\t\t\t0000-0001-5564-635X\n\t\t\n\t\t\n\t\t\tDominikMoritz\n\t\t\t0000-0002-3110-1053\n\t\t\n\t\t\n\t\t\tKanitWongsuphasawat\n\t\t\n\t\t\n\t\t\tJefferyHeer\n\t\t\n\t\t10.31219/osf.io/mqzyx\n\t\t\n\t\n\t\n\t\tIEEE Trans Visual Comput Graph\n\t\t\n\t\t\t23\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCenter for Open Science\n\t\t\n\t\n\n","document":{"$oid":"60c758c67723bebd86696b22"},"refKey":10},
{"_key":"60c759107723bebd86696b46","_id":"references/60c759107723bebd86696b46","_rev":"_cfFm-2S---","tei":"\n\t\n\t\tdms-view: Interactive visualization tool for deep mutational scanning data\n\t\t\n\t\t\tSKHilton\n\t\t\n\t\t\n\t\t\tJHuddleston\n\t\t\n\t\t\n\t\t\tABlack\n\t\t\n\t\t\n\t\t\tKNorth\n\t\t\n\t\t\n\t\t\tASDingens\n\t\t\n\t\t\n\t\t\tTBedford\n\t\t\n\t\t\n\t\t\tJDBloom\n\t\t\n\t\n\t\n\t\tJ. Open Source Softw\n\t\t\n\t\t\t5\n\t\t\t2353\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c759107723bebd86696b45"},"refKey":34},
{"_key":"60c759107723bebd86696b47","_id":"references/60c759107723bebd86696b47","_rev":"_cfFm-2e---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1101/274100\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c759107723bebd86696b45"},"refKey":30},
{"_key":"60c759107723bebd86696b48","_id":"references/60c759107723bebd86696b48","_rev":"_cfFm-2m---","tei":"\n\t\n\t\tSnakemake—a scalable bioinformatics workflow engine\n\t\t\n\t\t\tJohannesKöster\n\t\t\n\t\t\n\t\t\tSvenRahmann\n\t\t\n\t\t10.1093/bioinformatics/bty350\n\t\t29788404\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c759107723bebd86696b45"},"refKey":29},
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{"_key":"60c7597b7723bebd86696c04","_id":"references/60c7597b7723bebd86696c04","_rev":"_cfFm-8----","tei":"\n\t\n\t\tThe Human Epigenome Browser at Washington University\n\t\t\n\t\t\tXinZhou\n\t\t\n\t\t\n\t\t\tBrettMaricque\n\t\t\n\t\t\n\t\t\tMingchaoXie\n\t\t\n\t\t\n\t\t\tDaofengLi\n\t\t\n\t\t\n\t\t\tVasaviSundaram\n\t\t\n\t\t\n\t\t\tEricAMartin\n\t\t\n\t\t\n\t\t\tBrianCKoebbe\n\t\t\n\t\t\n\t\t\tCydneyNielsen\n\t\t\n\t\t\n\t\t\tMartinHirst\n\t\t\n\t\t\n\t\t\tPeggyFarnham\n\t\t\n\t\t\n\t\t\tRobertMKuhn\n\t\t\n\t\t\n\t\t\tJingchunZhu\n\t\t\n\t\t\n\t\t\tIvanSmirnov\n\t\t\n\t\t\n\t\t\tWJamesKent\n\t\t\n\t\t\n\t\t\tDavidHaussler\n\t\t\n\t\t\n\t\t\tPamelaA FMadden\n\t\t\n\t\t\n\t\t\tJosephFCostello\n\t\t\n\t\t\n\t\t\tTingWang\n\t\t\n\t\t10.1038/nmeth.1772\n\t\t22127213\n\t\tPMC3552640\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t8\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7597b7723bebd86696c00"},"refKey":12},
{"_key":"60c759a97723bebd86696c13","_id":"references/60c759a97723bebd86696c13","_rev":"_cfFm-8K---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c759a97723bebd86696c12"},"refKey":24},
{"_key":"60c759a97723bebd86696c14","_id":"references/60c759a97723bebd86696c14","_rev":"_cfFm-8W---","tei":"\n\t\n\t\tBinPacker: Packing-Based De Novo Transcriptome Assembly from RNA-seq Data\n\t\t\n\t\t\tJuntaoLiu\n\t\t\n\t\t\n\t\t\tGuojunLi\n\t\t\n\t\t\n\t\t\tZhengChang\n\t\t\n\t\t\n\t\t\tTingYu\n\t\t\n\t\t\n\t\t\tBingqiangLiu\n\t\t\n\t\t\n\t\t\tRickMcmullen\n\t\t\n\t\t\n\t\t\tPengyinChen\n\t\t\n\t\t\n\t\t\tXiuzhenHuang\n\t\t\n\t\t10.1371/journal.pcbi.1004772\n\t\t26894997\n\t\tPMC4760927\n\t\t\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\te1004772\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c759a97723bebd86696c12"},"refKey":37},
{"_key":"60c759a97723bebd86696c15","_id":"references/60c759a97723bebd86696c15","_rev":"_cfFm-8i---","tei":"\n\t\n\t\tBridger: a new framework for de novo transcriptome assembly using RNA-seq data\n\t\t\n\t\t\tZChang\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c759a97723bebd86696c12"},"refKey":38},
{"_key":"60c759a97723bebd86696c16","_id":"references/60c759a97723bebd86696c16","_rev":"_cfFm-8u---","tei":"\n\t\n\t\trnaSPAdes: a de novo transcriptome assembler and its application to RNA-Seq data\n\t\t\n\t\t\tSKannan\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\t\n\t\t\t41\n\t\t\t420208\n\t\t\t\n\t\t\n\t\n\tShannon: An Information-Optimal de Novo RNA-Seq Assembler\n\n","document":{"$oid":"60c759a97723bebd86696c12"},"refKey":39},
{"_key":"60c759a97723bebd86696c17","_id":"references/60c759a97723bebd86696c17","_rev":"_cfFm-82---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\n\t\n\t\tJournal of computational biology: a journal of computational molecular cell biology\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c759a97723bebd86696c12"},"refKey":40},
{"_key":"60c759a97723bebd86696c18","_id":"references/60c759a97723bebd86696c18","_rev":"_cfFm-9C---","tei":"\n\t\n\t\tIDBA-tran: a more robust de novo de Bruijn graph assembler for transcriptomes with uneven expression levels\n\t\t\n\t\t\tYuPeng\n\t\t\n\t\t\n\t\t\tHenryC MLeung\n\t\t\n\t\t\n\t\t\tSiu-MingYiu\n\t\t\n\t\t\n\t\t\tMing-JuLv\n\t\t\n\t\t\n\t\t\tXin-GuangZhu\n\t\t\n\t\t\n\t\t\tFrancisY LChin\n\t\t\n\t\t10.1093/bioinformatics/btt219\n\t\t23813001\n\t\tPMC3694675\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c759a97723bebd86696c12"},"refKey":41},
{"_key":"60c759a97723bebd86696c19","_id":"references/60c759a97723bebd86696c19","_rev":"_cfFm-9O---","tei":"\n\t\n\t\tSOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads\n\t\t\n\t\t\tYXie\n\t\t\n\t\t\n\t\t\tGWu\n\t\t\n\t\t\n\t\t\tJTang\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tJPatterson\n\t\t\n\t\t\n\t\t\tSLiu\n\t\t\n\t\t\n\t\t\tWHuang\n\t\t\n\t\t\n\t\t\tGHe\n\t\t\n\t\t\n\t\t\tSGu\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tXZhou\n\t\t\n\t\t\n\t\t\tT-WLam\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tXXu\n\t\t\n\t\t\n\t\t\tNull-SWong\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t10.1093/bioinformatics/btu077\n\t\t24532719\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c759a97723bebd86696c12"},"refKey":42},
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{"_key":"60c759a97723bebd86696c1b","_id":"references/60c759a97723bebd86696c1b","_rev":"_cfFm-9m---","tei":"\n\t\n\t\tFull-length transcriptome assembly from RNA-Seq data without a reference genome\n\t\t\n\t\t\tManfredGGrabherr\n\t\t\n\t\t\n\t\t\tBrianJHaas\n\t\t\n\t\t\n\t\t\tMoranYassour\n\t\t\n\t\t\n\t\t\tJoshuaZLevin\n\t\t\n\t\t\n\t\t\tDawnAThompson\n\t\t\n\t\t\n\t\t\tIdoAmit\n\t\t\n\t\t\n\t\t\tXianAdiconis\n\t\t\n\t\t\n\t\t\tLinFan\n\t\t\n\t\t\n\t\t\tRaktimaRaychowdhury\n\t\t\n\t\t\n\t\t\tQiandongZeng\n\t\t\n\t\t\n\t\t\tZehuaChen\n\t\t\n\t\t\n\t\t\tEvanMauceli\n\t\t\n\t\t\n\t\t\tNirHacohen\n\t\t\n\t\t\n\t\t\tAndreasGnirke\n\t\t\n\t\t\n\t\t\tNicholasRhind\n\t\t\n\t\t\n\t\t\tFedericaDi Palma\n\t\t\n\t\t\n\t\t\tBruceWBirren\n\t\t\n\t\t\n\t\t\tChadNusbaum\n\t\t\n\t\t\n\t\t\tKerstinLindblad-Toh\n\t\t\n\t\t\n\t\t\tNirFriedman\n\t\t\n\t\t\n\t\t\tAvivRegev\n\t\t\n\t\t10.1038/nbt.1883\n\t\t21572440\n\t\tPMC3571712\n\t\t\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c759a97723bebd86696c12"},"refKey":44},
{"_key":"60c759ec7723bebd86696c4c","_id":"references/60c759ec7723bebd86696c4c","_rev":"_cfFm-9u---","tei":"\n\t\n\t\tWebLogo: a sequence logo generator\n\t\t\n\t\t\tGECrooks\n\t\t\n\t\t\n\t\t\tGHon\n\t\t\n\t\t\n\t\t\tJ.-MChandonia\n\t\t\n\t\t\n\t\t\tSEBrenner\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c759ec7723bebd86696c4b"},"refKey":6},
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{"_key":"60c75a247723bebd86696c63","_id":"references/60c75a247723bebd86696c63","_rev":"_cfFm_-m---","tei":"\n\t\n\t\tAn image-based modeling framework for patient-specific computational hemodynamics\n\t\t\n\t\t\tLAntiga\n\t\t\n\t\t\n\t\t\tMPiccinelli\n\t\t\n\t\t\n\t\t\tLBotti\n\t\t\n\t\t\n\t\t\tBEne-Iordache\n\t\t\n\t\t\n\t\t\tARemuzzi\n\t\t\n\t\t\n\t\t\tDASteinman\n\t\t\n\t\n\t\n\t\tMedical & biological engineering & computing\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 19002516\n\n","document":{"$oid":"60c75a247723bebd86696c62"},"refKey":13},
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{"_key":"60c75a407723bebd86696cb1","_id":"references/60c75a407723bebd86696cb1","_rev":"_cfFm__e---","tei":"\n\t\n\t\t\n\t\t\tDMeyer\n\t\t\n\t\t\n\t\t\tEDimitriadou\n\t\t\n\t\t\n\t\t\tKHornik\n\t\t\n\t\t\n\t\t\tAWeingessel\n\t\t\n\t\t\n\t\t\tF ;Leisch\n\t\t\n\t\t\n\t\t\tTu Wien\n\t\t\n\t\t\n\t\te1071: Misc functions of the Department Statistics, Probability Theory Group (Formerly: E1071)\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 1.6-8\n\n","document":{"$oid":"60c75a407723bebd86696cb0"},"refKey":61},
{"_key":"60c75a627723bebd86696ccd","_id":"references/60c75a627723bebd86696ccd","_rev":"_cfFm__q---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPAGoloboff\n\t\t\n\t\tver. 1.5.1\n\t\t\n\t\t\t\n\t\t\tAmerican Museum of Natural History\n\t\t\tNona; New York\n\t\t\n\t\n\n","document":{"$oid":"60c75a627723bebd86696ccc"},"refKey":17},
{"_key":"60c75a627723bebd86696cce","_id":"references/60c75a627723bebd86696cce","_rev":"_cfFm__y---","tei":"\n\t\n\t\tUnusual mitochondrial DNA polymorphism in two local populations of blue tit (Parus caeruleus)\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\t\n\t\t\tMASunderland\n\t\t\n\t\t\n\t\t\tPTaberlet\n\t\t\n\t\t\n\t\t\tAMeyer\n\t\t\n\t\t\n\t\t\tJBouvet\n\t\t\n\t\n\t\n\t\tMol. Ecol\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tPAUP*\n\t\t\n\t\n\tPhylogenetic Analysis Using Parsimony (*and other methods), version 4b10\n\n","document":{"$oid":"60c75a627723bebd86696ccc"},"refKey":54},
{"_key":"60c75a6c7723bebd86696ce4","_id":"references/60c75a6c7723bebd86696ce4","_rev":"_cfFm_A----","tei":"\n\t\n\t\tPackage 'fmsb'\n\t\t\n\t\t\tMNakazawa\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75a6c7723bebd86696ce3"},"refKey":1},
{"_key":"60c75aad7723bebd86696d0c","_id":"references/60c75aad7723bebd86696d0c","_rev":"_cfFm_AK---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75aad7723bebd86696d0b"},"refKey":16},
{"_key":"60c75aad7723bebd86696d0d","_id":"references/60c75aad7723bebd86696d0d","_rev":"_cfFm_AW---","tei":"\n\t\n\t\tMesquite: a modular system for evolutionary analysis\n\t\t\n\t\t\tYMaddison\n\t\t\n\t\t\n\t\t\tDMaddison\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75aad7723bebd86696d0b"},"refKey":26},
{"_key":"60c75aad7723bebd86696d0e","_id":"references/60c75aad7723bebd86696d0e","_rev":"_cfFm_Ae---","tei":"\n\t\n\t\tBioEdit: a user friendly biological sequence alignment editor and analyses program for windows 95/98/N\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tJ. Nucl. Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75aad7723bebd86696d0b"},"refKey":17},
{"_key":"60c75aad7723bebd86696d0f","_id":"references/60c75aad7723bebd86696d0f","_rev":"_cfFm_Aq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75aad7723bebd86696d0b"},"refKey":32},
{"_key":"60c75aad7723bebd86696d10","_id":"references/60c75aad7723bebd86696d10","_rev":"_cfFm_A2---","tei":"\n\t\n\t\tMEGA3, 1: integrated software for molecular evolutionary genetics analysis and sequence alignment\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tBrief. Bioinform\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75aad7723bebd86696d0b"},"refKey":22},
{"_key":"60c75aad7723bebd86696d11","_id":"references/60c75aad7723bebd86696d11","_rev":"_cfFm_BC---","tei":"\n\t\n\t\tDnaSP, DNA polymorphism analyses by the coalescent and other methods\n\t\t\n\t\t\tJRozas\n\t\t\n\t\t\n\t\t\tJCSánchez-Delbarrio\n\t\t\n\t\t\n\t\t\tXMesseguer\n\t\t\n\t\t\n\t\t\tRRozas\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75aad7723bebd86696d0b"},"refKey":34},
{"_key":"60c75aad7723bebd86696d12","_id":"references/60c75aad7723bebd86696d12","_rev":"_cfFm_BK---","tei":"\n\t\n\t\tModeltest: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75aad7723bebd86696d0b"},"refKey":31},
{"_key":"60c75aad7723bebd86696d1c","_id":"references/60c75aad7723bebd86696d1c","_rev":"_cfFm_BW---","tei":"\n\t\n\t\tLIAN 3.0: detecting linkage disequilibrium in multilocus data\n\t\t\n\t\t\tBHaubold\n\t\t\n\t\t\n\t\t\tRRHudson\n\t\t\n\t\n\t\n\t\tLinkage Analysis. Bioinformatics\n\t\t\n\t\t\t16\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75aad7723bebd86696d1b"},"refKey":26},
{"_key":"60c75aad7723bebd86696d1d","_id":"references/60c75aad7723bebd86696d1d","_rev":"_cfFm_Bi---","tei":"\n\t\n\t\tMAFFT online service: multiple sequence alignment, interactive sequence choice and visualization\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tJRozewicki\n\t\t\n\t\t\n\t\t\tKDYamada\n\t\t\n\t\t\n\t\t\t\n\t\t\tBrief Bioinform\n\t\t\n\t\n\n","document":{"$oid":"60c75aad7723bebd86696d1b"},"refKey":22},
{"_key":"60c75aae7723bebd86696d25","_id":"references/60c75aae7723bebd86696d25","_rev":"_cfFm_Bu---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPartnersHealthcare\n\t\t\n\t\t\n\t\t\tGithub\n\t\t\n\t\taccessed 2020-09-09\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75aae7723bebd86696d24"},"refKey":12},
{"_key":"60c75ac37723bebd86696d57","_id":"references/60c75ac37723bebd86696d57","_rev":"_cfFm_B2---","tei":"\n\t\n\t\tMultiple sequence alignment with the clustal series of programs\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tHSugawara\n\t\t\n\t\t\n\t\t\tTKoike\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75ac37723bebd86696d56"},"refKey":22},
{"_key":"60c75ad17723bebd86696d70","_id":"references/60c75ad17723bebd86696d70","_rev":"_cfFm_CC---","tei":"\n\t\n\t\tABySS: a parallel assembler for short read sequence data\n\t\t\n\t\t\tJTSimpson\n\t\t\n\t\t\n\t\t\tKWong\n\t\t\n\t\t\n\t\t\tSDJackman\n\t\t\n\t\t\n\t\t\tJESchein\n\t\t\n\t\t\n\t\t\tSJJones\n\t\t\n\t\t\n\t\t\tIBirol\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75ad17723bebd86696d6f"},"refKey":41},
{"_key":"60c75ad17723bebd86696d71","_id":"references/60c75ad17723bebd86696d71","_rev":"_cfFm_CO---","tei":"\n\t\n\t\tVelvet: algorithms for de novo short read assembly using de Bruijn graphs\n\t\t\n\t\t\tDRZerbino\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75ad17723bebd86696d6f"},"refKey":51},
{"_key":"60c75ad17723bebd86696d72","_id":"references/60c75ad17723bebd86696d72","_rev":"_cfFm_Ca---","tei":"\n\t\n\t\tMeta-IDBA: a de Novo assembler for metagenomic data\n\t\t\n\t\t\tYPeng\n\t\t\n\t\t\n\t\t\tHC MLeung\n\t\t\n\t\t\n\t\t\tSMYiu\n\t\t\n\t\t\n\t\t\tFY LChin\n\t\t\n\t\t10.1093/bioinformatics/btr216\n\t\t21685107\n\t\tPMC3117360\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c75ad17723bebd86696d6f"},"refKey":36},
{"_key":"60c75ad17723bebd86696d73","_id":"references/60c75ad17723bebd86696d73","_rev":"_cfFm_Cm---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75ad17723bebd86696d6f"},"refKey":44},
{"_key":"60c75ad17723bebd86696d74","_id":"references/60c75ad17723bebd86696d74","_rev":"_cfFm_Cu---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75ad17723bebd86696d6f"},"refKey":14},
{"_key":"60c75b067723bebd86696d9b","_id":"references/60c75b067723bebd86696d9b","_rev":"_cfFm_C6---","tei":"\n\t\n\t\tOutliers in clinical chemistry quality-control schemes\n\t\t\n\t\t\tMjrHealy\n\t\t\n\t\n\t\n\t\tClin Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75b067723bebd86696d9a"},"refKey":31},
{"_key":"60c75b4a7723bebd86696dc7","_id":"references/60c75b4a7723bebd86696dc7","_rev":"_cfFm_DG---","tei":"\n\t\n\t\tNetMHCpan 4.0: Improved peptide-MHC class I interaction predictions integrating eluted ligand and peptide binding affinity data\n\t\t\n\t\t\tVanessaJurtz\n\t\t\t0000-0003-4452-6605\n\t\t\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1101/149518\n\t\t\n\t\n\t\n\t\tJ Immunol\n\t\t\n\t\t\t199\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c75b4a7723bebd86696dc6"},"refKey":22},
{"_key":"60c75b4a7723bebd86696dc8","_id":"references/60c75b4a7723bebd86696dc8","_rev":"_cfFm_DS---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\n\t\n\t\tProc National Acad Sci\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75b4a7723bebd86696dc6"},"refKey":54},
{"_key":"60c75b4a7723bebd86696dc9","_id":"references/60c75b4a7723bebd86696dc9","_rev":"_cfFm_Da---","tei":"\n\t\n\t\tFactoMineR : An R Package for Multivariate Analysis\n\t\t\n\t\t\tSLê\n\t\t\n\t\t\n\t\t\tJJosse\n\t\t\n\t\t\n\t\t\tFHusson\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75b4a7723bebd86696dc6"},"refKey":28},
{"_key":"60c75b4a7723bebd86696dca","_id":"references/60c75b4a7723bebd86696dca","_rev":"_cfFm_Dm---","tei":"\n\t\n\t\trtracklayer: an R package for interfacing with genome browsers\n\t\t\n\t\t\tMLawrence\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\t\n\t\t\tVCarey\n\t\t\n\t\t10.1093/bioinformatics/btp328\n\t\t19468054\n\t\tPMC2705236\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c75b4a7723bebd86696dc6"},"refKey":26},
{"_key":"60c75b5f7723bebd86696df1","_id":"references/60c75b5f7723bebd86696df1","_rev":"_cfFm_Dy---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75b5f7723bebd86696df0"},"refKey":47},
{"_key":"60c75b5f7723bebd86696df2","_id":"references/60c75b5f7723bebd86696df2","_rev":"_cfFm_E----","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: A new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75b5f7723bebd86696df0"},"refKey":48},
{"_key":"60c75b5f7723bebd86696df3","_id":"references/60c75b5f7723bebd86696df3","_rev":"_cfFm_EG---","tei":"\n\t\n\t\tBase-calling of automated sequencer traces using phred. II. Error probabilities\n\t\t\n\t\t\tBEwing\n\t\t\n\t\t\n\t\t\tPGreen\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75b5f7723bebd86696df0"},"refKey":45},
{"_key":"60c75b5f7723bebd86696df4","_id":"references/60c75b5f7723bebd86696df4","_rev":"_cfFm_ES---","tei":"\n\t\n\t\tBase-calling of automated sequencer traces using phred. I. Accuracy assessment\n\t\t\n\t\t\tBEwing\n\t\t\n\t\t\n\t\t\tLHillier\n\t\t\n\t\t\n\t\t\tMCWendl\n\t\t\n\t\t\n\t\t\tPGreen\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75b5f7723bebd86696df0"},"refKey":46},
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{"_key":"60c75bbd7723bebd86696e3d","_id":"references/60c75bbd7723bebd86696e3d","_rev":"_cfFm_E2---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75bbd7723bebd86696e3c"},"refKey":9},
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{"_key":"60c75bbd7723bebd86696e40","_id":"references/60c75bbd7723bebd86696e40","_rev":"_cfFm_FW---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75bbd7723bebd86696e3c"},"refKey":10},
{"_key":"60c75bbd7723bebd86696e41","_id":"references/60c75bbd7723bebd86696e41","_rev":"_cfFm_Fi---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c75bbd7723bebd86696e3c"},"refKey":8},
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{"_key":"60c75c067723bebd86696e89","_id":"references/60c75c067723bebd86696e89","_rev":"_cfFm_HC---","tei":"\n\t\n\t\tPROMALS3D: a tool for multiple protein sequence and structure alignments\n\t\t\n\t\t\tJiminPei\n\t\t\n\t\t\n\t\t\tBong-HyunKim\n\t\t\n\t\t\n\t\t\tNickVGrishin\n\t\t\n\t\t10.1093/nar/gkn072\n\t\t18287115\n\t\tPMC2367709\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c75c067723bebd86696e87"},"refKey":49},
{"_key":"60c75c097723bebd86696ebd","_id":"references/60c75c097723bebd86696ebd","_rev":"_cfFm_HO---","tei":"\n\t\n\t\tDevelopment of a spatially explicit approach for mapping ecosystem services in the Brazilian Savanna – MapES\n\t\t\n\t\t\tJorgeEnoch Furquim WerneckLima\n\t\t\n\t\t\n\t\t\tFabianaDe Gois Aquino\n\t\t\n\t\t\n\t\t\tThiagoAvelarChaves\n\t\t\n\t\t\n\t\t\tCarstenLorz\n\t\t\n\t\t10.1016/j.ecolind.2017.07.028\n\t\n\t\n\t\tEcological Indicators\n\t\tEcological Indicators\n\t\t1470-160X\n\t\t\n\t\t\t82\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c75c097723bebd86696ebc"},"refKey":80},
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{"_key":"60c75db27723bebd86697039","_id":"references/60c75db27723bebd86697039","_rev":"_cfFm_PC---","tei":"\n\t\n\t\tModeling survival data: Extending the Cox model\n\t\t\n\t\t\tMTerry\n\t\t\n\t\t\n\t\t\tPatriciaMTherneau\n\t\t\n\t\t\n\t\t\tGrambsch\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c75db27723bebd86697036"},"refKey":20},
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{"_key":"60c75e987723bebd86697065","_id":"references/60c75e987723bebd86697065","_rev":"_cfFm_P6---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inf\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75e987723bebd86697064"},"refKey":9},
{"_key":"60c75e9e7723bebd86697069","_id":"references/60c75e9e7723bebd86697069","_rev":"_cfFm_QG---","tei":"\n\t\n\t\tA probability-based approach for high-throughput protein phosphorylation analysis and site localization\n\t\t\n\t\t\tSABeausoleil\n\t\t\n\t\t\n\t\t\tJVillen\n\t\t\n\t\t\n\t\t\tSAGerber\n\t\t\n\t\t\n\t\t\tJRush\n\t\t\n\t\t\n\t\t\tSPGygi\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c75e9e7723bebd86697068"},"refKey":27},
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{"_key":"60c760a07723bebd8669725f","_id":"references/60c760a07723bebd8669725f","_rev":"_cfFm_VO---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c760a07723bebd8669725e"},"refKey":34},
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{"_key":"60c760b97723bebd8669727e","_id":"references/60c760b97723bebd8669727e","_rev":"_cfFm_V6---","tei":"\n\t\n\t\tA crucial role of angiotensin converting enzyme 2 (ACE2) in SARS coronavirus–induced lung injury\n\t\t\n\t\t\tKeijiKuba\n\t\t\n\t\t\n\t\t\tYumikoImai\n\t\t\n\t\t\n\t\t\tShuanRao\n\t\t\n\t\t\n\t\t\tHongGao\n\t\t\n\t\t\n\t\t\tFengGuo\n\t\t\n\t\t\n\t\t\tBinGuan\n\t\t\n\t\t\n\t\t\tYiHuan\n\t\t\n\t\t\n\t\t\tPengYang\n\t\t\n\t\t\n\t\t\tYanliZhang\n\t\t\n\t\t\n\t\t\tWeiDeng\n\t\t\n\t\t\n\t\t\tLinlinBao\n\t\t\n\t\t\n\t\t\tBinlinZhang\n\t\t\n\t\t\n\t\t\tGuangLiu\n\t\t\n\t\t\n\t\t\tZhongWang\n\t\t\n\t\t\n\t\t\tMarkChappell\n\t\t\n\t\t\n\t\t\tYanxinLiu\n\t\t\n\t\t\n\t\t\tDexianZheng\n\t\t\n\t\t\n\t\t\tAndreasLeibbrandt\n\t\t\n\t\t\n\t\t\tTeijiWada\n\t\t\n\t\t\n\t\t\tArthurSSlutsky\n\t\t\n\t\t\n\t\t\tDepeiLiu\n\t\t\n\t\t\n\t\t\tChuanQin\n\t\t\n\t\t\n\t\t\tChengyuJiang\n\t\t\n\t\t\n\t\t\tJosefMPenninger\n\t\t\n\t\t10.1038/nm1267\n\t\t16007097\n\t\t\n\t\t\n\t\n\t\n\t\tNature Medicine\n\t\tNat Med\n\t\t1078-8956\n\t\t1546-170X\n\t\t\n\t\t\t11\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c760b97723bebd8669727b"},"refKey":31},
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{"_key":"60c760da7723bebd866972f1","_id":"references/60c760da7723bebd866972f1","_rev":"_cfFm_Wm---","tei":"\n\t\n\t\tPhyutility: a phyloinformatics tool for trees, alignments and molecular data\n\t\t\n\t\t\tSASmith\n\t\t\n\t\t\n\t\t\tCWDunn\n\t\t\n\t\t10.1093/bioinformatics/btm619\n\t\t18227120\n\t\tark:/67375/HXZ-06W1XNTD-N\n\t\t9615EEA1ABDC5A19B5B2FE7D0DE480C2360AC997\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c760da7723bebd866972ee"},"refKey":24},
{"_key":"60c760da7723bebd866972f2","_id":"references/60c760da7723bebd866972f2","_rev":"_cfFm_Wy---","tei":"\n\t\n\t\tIDconverter and IDClight: Conversion and annotation of gene and protein IDs\n\t\t\n\t\t\tAndreuAlibés\n\t\t\n\t\t\n\t\t\tPatricioYankilevich\n\t\t\n\t\t\n\t\t\tAndrésCañada\n\t\t\n\t\t\n\t\t\tRamónDíaz-Uriarte\n\t\t\n\t\t10.1186/1471-2105-8-9\n\t\t17214880\n\t\tPMC1779800\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c760da7723bebd866972ee"},"refKey":6},
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{"_key":"60c761057723bebd86697320","_id":"references/60c761057723bebd86697320","_rev":"_cfFm_Xq---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c761057723bebd8669731d"},"refKey":24},
{"_key":"60c761057723bebd86697321","_id":"references/60c761057723bebd86697321","_rev":"_cfFm_Xy---","tei":"\n\t\n\t\tThe rapid generation of mutation data matrices from protein sequences\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t\n\t\t\tWilliamRTaylor\n\t\t\n\t\t\n\t\t\tJanetMThornton\n\t\t\n\t\t10.1093/bioinformatics/8.3.275\n\t\tark:/67375/HXZ-2WWTBQ8F-1\n\t\t50935DD797396FA944A833D921B6CB09DE017022\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t8\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c761057723bebd8669731d"},"refKey":25},
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{"_key":"60c7612e7723bebd86697340","_id":"references/60c7612e7723bebd86697340","_rev":"_cfFm_Yq---","tei":"\n\t\n\t\tNeuroendocrine Liver Metastases\n\t\t\n\t\t\tSrinevasKReddy\n\t\t\n\t\t\n\t\t\tBryanMClary\n\t\t\n\t\t10.1016/j.suc.2010.04.016\n\t\t20637952\n\t\n\t\n\t\tSurgical Clinics of North America\n\t\tSurgical Clinics of North America\n\t\t0039-6109\n\t\t\n\t\t\t90\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed: 20637952\n\n","document":{"$oid":"60c7612e7723bebd8669733d"},"refKey":14},
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{"_key":"60c7612e7723bebd86697344","_id":"references/60c7612e7723bebd86697344","_rev":"_cfFm_ZC---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7612e7723bebd86697341"},"refKey":18},
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{"_key":"60c7636b7723bebd86697604","_id":"references/60c7636b7723bebd86697604","_rev":"_cfFm_fO---","tei":"\n\t\n\t\tNIH image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7636b7723bebd86697603"},"refKey":32},
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{"_key":"60c764bb7723bebd8669771a","_id":"references/60c764bb7723bebd8669771a","_rev":"_cfFm_jm---","tei":"\n\t\n\t\tg_membed: Efficient insertion of a membrane protein into an equilibrated lipid bilayer with minimal perturbation\n\t\t\n\t\t\tMaartenGWolf\n\t\t\n\t\t\n\t\t\tMartinHoefling\n\t\t\n\t\t\n\t\t\tCamiloAponte-Santamaría\n\t\t\n\t\t\n\t\t\tHelmutGrubmüller\n\t\t\n\t\t\n\t\t\tGerritGroenhof\n\t\t\n\t\t10.1002/jcc.21507\n\t\t20336801\n\t\tark:/67375/WNG-S7TK80LT-T\n\t\t22EB8143BFF2D7BD54DAA22CA3DD12536B6D1C0F\n\t\tdoi:10.1002/ jcc.21507\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c764bb7723bebd86697716"},"refKey":42},
{"_key":"60c764bb7723bebd8669771b","_id":"references/60c764bb7723bebd8669771b","_rev":"_cfFm_ju---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c764bb7723bebd86697716"},"refKey":24},
{"_key":"60c764bb7723bebd86697737","_id":"references/60c764bb7723bebd86697737","_rev":"_cfFm_j6---","tei":"\n\t\n\t\tThe MR-Base platform supports systematic causal inference across the human phenome\n\t\t\n\t\t\tGibranHemani\n\t\t\t0000-0003-0920-1055\n\t\t\n\t\t\n\t\t\tJieZheng\n\t\t\t0000-0002-6623-6839\n\t\t\n\t\t\n\t\t\tBenjaminElsworth\n\t\t\n\t\t\n\t\t\tKaitlinHWade\n\t\t\t0000-0003-3362-6280\n\t\t\n\t\t\n\t\t\tValeriiaHaberland\n\t\t\n\t\t\n\t\t\tDenisBaird\n\t\t\t0000-0003-4600-6013\n\t\t\n\t\t\n\t\t\tCharlesLaurin\n\t\t\n\t\t\n\t\t\tStephenBurgess\n\t\t\t0000-0001-5365-8760\n\t\t\n\t\t\n\t\t\tJackBowden\n\t\t\n\t\t\n\t\t\tRyanLangdon\n\t\t\n\t\t\n\t\t\tVanessaYTan\n\t\t\t0000-0001-7938-127X\n\t\t\n\t\t\n\t\t\tJamesYarmolinsky\n\t\t\n\t\t\n\t\t\tHashemAShihab\n\t\t\n\t\t\n\t\t\tNicholasJTimpson\n\t\t\n\t\t\n\t\t\tDavidMEvans\n\t\t\n\t\t\n\t\t\tCarolineRelton\n\t\t\t0000-0003-2052-4840\n\t\t\n\t\t\n\t\t\tRichardMMartin\n\t\t\t0000-0002-7992-7719\n\t\t\n\t\t\n\t\t\tGeorgeDavey Smith\n\t\t\t0000-0002-1407-8314\n\t\t\n\t\t\n\t\t\tTomRGaunt\n\t\t\t0000-0003-0924-3247\n\t\t\n\t\t\n\t\t\tPhilipCHaycock\n\t\t\t0000-0001-5001-3350\n\t\t\n\t\t10.7554/elife.34408\n\t\t29846171\n\t\tPMC5976434\n\t\n\t\n\t\teLife\n\t\t2050-084X\n\t\t\n\t\t\t7\n\t\t\te34408\n\t\t\t\n\t\t\teLife Sciences Publications, Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c764bb7723bebd86697736"},"refKey":49},
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{"_key":"60c7656e7723bebd866977d1","_id":"references/60c7656e7723bebd866977d1","_rev":"_cfFm_mG---","tei":"\n\t\n\t\tThe HADDOCK2.2 Web Server: User-Friendly Integrative Modeling of Biomolecular Complexes\n\t\t\n\t\t\tGcpC PVan Zundert\n\t\t\n\t\t\n\t\t\tJP G L MRodrigues\n\t\t\n\t\t\n\t\t\tMTrellet\n\t\t\n\t\t\n\t\t\tCSchmitz\n\t\t\n\t\t\n\t\t\tPLKastritis\n\t\t\n\t\t\n\t\t\tEKaraca\n\t\t\n\t\t\n\t\t\tAS JMelquiond\n\t\t\n\t\t\n\t\t\tMVan Dijk\n\t\t\n\t\t\n\t\t\tSJDe Vries\n\t\t\n\t\t\n\t\t\tAM J JBonvin\n\t\t\n\t\t10.1016/j.jmb.2015.09.014\n\t\t26410586\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t428\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7656e7723bebd866977d0"},"refKey":53},
{"_key":"60c7656e7723bebd866977d2","_id":"references/60c7656e7723bebd866977d2","_rev":"_cfFm_mS---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7656e7723bebd866977d0"},"refKey":38},
{"_key":"60c7656e7723bebd866977e1","_id":"references/60c7656e7723bebd866977e1","_rev":"_cfFm_me---","tei":"\n\t\n\t\tThe Global Epidemic and Mobility Model (GLEAMviz)\n\t\t\n\t\t\n\t\t\t\n\t\t\t28\n\t\t\n\t\n\n","document":{"$oid":"60c7656e7723bebd866977e0"},"refKey":47},
{"_key":"60c765727723bebd866977e9","_id":"references/60c765727723bebd866977e9","_rev":"_cfFm_mm---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c765727723bebd866977e8"},"refKey":16},
{"_key":"60c7657c7723bebd866977f6","_id":"references/60c7657c7723bebd866977f6","_rev":"_cfFm_my---","tei":"\n\t\n\t\tDatavyu (Version 1.2.2) [Software\n\t\t\n\t\t\tJLingeman\n\t\t\n\t\t\n\t\t\tCFreeman\n\t\t\n\t\t\n\t\t\tKEAdolph\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7657c7723bebd866977f5"},"refKey":22},
{"_key":"60c765887723bebd86697802","_id":"references/60c765887723bebd86697802","_rev":"_cfFm_n----","tei":"\n\t\n\t\tXCMS: Processing Mass Spectrometry Data for Metabolite Profiling Using Nonlinear Peak Alignment, Matching, and Identification\n\t\t\n\t\t\tColinASmith\n\t\t\n\t\t\n\t\t\tElizabethJWant\n\t\t\n\t\t\n\t\t\tGraceO'maille\n\t\t\n\t\t\n\t\t\tRubenAbagyan\n\t\t\n\t\t\n\t\t\tGarySiuzdak\n\t\t\n\t\t10.1021/ac051437y\n\t\t16448051\n\t\n\t\n\t\tAnalytical Chemistry\n\t\tAnal. Chem.\n\t\t0003-2700\n\t\t1520-6882\n\t\t\n\t\t\t78\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c765887723bebd86697801"},"refKey":30},
{"_key":"60c765887723bebd86697803","_id":"references/60c765887723bebd86697803","_rev":"_cfFm_nK---","tei":"\n\t\n\t\tCorrection of mass calibration gaps in liquid chromatography–mass spectrometry metabolomics data\n\t\t\n\t\t\tHPaulBenton\n\t\t\n\t\t\n\t\t\tElizabethJWant\n\t\t\n\t\t\n\t\t\tTimothyM DEbbels\n\t\t\n\t\t10.1093/bioinformatics/btq441\n\t\t20671148\n\t\tark:/67375/HXZ-BNJLJH8K-Q\n\t\tF71E45F611B93A07E7D838D7619250B0F1D82911\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c765887723bebd86697801"},"refKey":31},
{"_key":"60c765887723bebd86697804","_id":"references/60c765887723bebd86697804","_rev":"_cfFm_nW---","tei":"\n\t\n\t\tHighly sensitive feature detection for high resolution LC/MS\n\t\t\n\t\t\tRalfTautenhahn\n\t\t\n\t\t\n\t\t\tChristophBottcher\n\t\t\n\t\t\n\t\t\tSteffenNeumann\n\t\t\n\t\t10.1186/1471-2105-9-504\n\t\t19040729\n\t\tPMC2639432\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t504\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c765887723bebd86697801"},"refKey":32},
{"_key":"60c765917723bebd86697809","_id":"references/60c765917723bebd86697809","_rev":"_cfFm_ni---","tei":"\n\t\n\t\tNo Evidence for Extensions to the Standard Cosmological Model\n\t\t\n\t\t\tAlanHeavens\n\t\t\n\t\t\n\t\t\tYabebalFantaye\n\t\t\n\t\t\n\t\t\tElenaSellentin\n\t\t\n\t\t\n\t\t\tHansEggers\n\t\t\n\t\t\n\t\t\tZafiirahHosenie\n\t\t\n\t\t\n\t\t\tSteveKroon\n\t\t\n\t\t\n\t\t\tArrykrishnaMootoovaloo\n\t\t\n\t\t10.1103/physrevlett.119.101301\n\t\tarXiv:1704.03472\n\t\t28949174\n\t\t\n\t\n\t\n\t\tPhysical Review Letters\n\t\tPhys. Rev. Lett.\n\t\t0031-9007\n\t\t1079-7114\n\t\t\n\t\t\t119\n\t\t\t10\n\t\t\t\n\t\t\tAmerican Physical Society (APS)\n\t\t\n\t\n\tstat.CO\n\n","document":{"$oid":"60c765917723bebd86697808"},"refKey":70},
{"_key":"60c765e87723bebd86697836","_id":"references/60c765e87723bebd86697836","_rev":"_cfFm_nu---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: Assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c765e87723bebd86697835"},"refKey":0},
{"_key":"60c765e87723bebd86697837","_id":"references/60c765e87723bebd86697837","_rev":"_cfFm_n6---","tei":"\n\t\n\t\tMEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c765e87723bebd86697835"},"refKey":16},
{"_key":"60c765ee7723bebd8669783d","_id":"references/60c765ee7723bebd8669783d","_rev":"_cfFm_oG---","tei":"\n\t\n\t\tAligning Short Sequencing Reads with Bowtie\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t10.1002/0471250953.bi1107s32\n\t\t21154709\n\t\tPMC3010897\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Bioinformatics Chapter\n\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":42},
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{"_key":"60c765ee7723bebd8669783f","_id":"references/60c765ee7723bebd8669783f","_rev":"_cfFm_oe---","tei":"\n\t\n\t\tMetLab: An In Silico Experimental Design, Simulation and Analysis Tool for Viral Metagenomics Studies\n\t\t\n\t\t\tMartinNorling\n\t\t\n\t\t\n\t\t\tOskarEKarlsson-Lindsjö\n\t\t\t0000-0003-1068-981X\n\t\t\n\t\t\n\t\t\tHadrienGourlé\n\t\t\n\t\t\n\t\t\tErikBongcam-Rudloff\n\t\t\n\t\t\n\t\t\tJulietteHayer\n\t\t\n\t\t10.1371/journal.pone.0160334\n\t\t27479078\n\t\tPMC4968819\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t11\n\t\t\t8\n\t\t\te0160334\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":58},
{"_key":"60c765ee7723bebd86697840","_id":"references/60c765ee7723bebd86697840","_rev":"_cfFm_om---","tei":"\n\t\n\t\tTaxonomer: an interactive metagenomics analysis portal for universal pathogen detection and host mRNA expression profiling\n\t\t\n\t\t\tStevenFlygare\n\t\t\n\t\t\n\t\t\tKeithSimmon\n\t\t\n\t\t\n\t\t\tChaseMiller\n\t\t\n\t\t\n\t\t\tYiQiao\n\t\t\n\t\t\n\t\t\tBrettKennedy\n\t\t\n\t\t\n\t\t\tTonyaDi Sera\n\t\t\n\t\t\n\t\t\tErinHGraf\n\t\t\n\t\t\n\t\t\tKeithDTardif\n\t\t\n\t\t\n\t\t\tAurélieKapusta\n\t\t\n\t\t\n\t\t\tShawnRynearson\n\t\t\n\t\t\n\t\t\tChrisStockmann\n\t\t\n\t\t\n\t\t\tKristaQueen\n\t\t\n\t\t\n\t\t\tSuxiangTong\n\t\t\n\t\t\n\t\t\tKarlVVoelkerding\n\t\t\n\t\t\n\t\t\tAnneBlaschke\n\t\t\n\t\t\n\t\t\tCarrieLByington\n\t\t\n\t\t\n\t\t\tSeemaJain\n\t\t\n\t\t\n\t\t\tAndrewPavia\n\t\t\n\t\t\n\t\t\tKrowAmpofo\n\t\t\n\t\t\n\t\t\tKarenEilbeck\n\t\t\n\t\t\n\t\t\tGaborMarth\n\t\t\n\t\t\n\t\t\tMarkYandell\n\t\t\n\t\t\n\t\t\tRobertSchlaberg\n\t\t\n\t\t10.1186/s13059-016-0969-1\n\t\t27224977\n\t\tPMC4880956\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t111\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":22},
{"_key":"60c765ee7723bebd86697841","_id":"references/60c765ee7723bebd86697841","_rev":"_cfFm_oy---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":45},
{"_key":"60c765ee7723bebd86697842","_id":"references/60c765ee7723bebd86697842","_rev":"_cfFm_p----","tei":"\n\t\n\t\tChallenges in homology search: HMMER3 and convergent evolution of coiled-coil regions\n\t\t\n\t\t\tJainaMistry\n\t\t\n\t\t\n\t\t\tRobertDFinn\n\t\t\n\t\t\n\t\t\tSeanREddy\n\t\t\n\t\t\n\t\t\tAlexBateman\n\t\t\n\t\t\n\t\t\tMarcoPunta\n\t\t\n\t\t10.1093/nar/gkt263\n\t\t23598997\n\t\tPMC3695513\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":51},
{"_key":"60c765ee7723bebd86697843","_id":"references/60c765ee7723bebd86697843","_rev":"_cfFm_pO---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":0},
{"_key":"60c765ee7723bebd86697844","_id":"references/60c765ee7723bebd86697844","_rev":"_cfFm_pa---","tei":"\n\t\n\t\tClassification of DNA sequences using Bloom filters\n\t\t\n\t\t\tHenrikStranneheim\n\t\t\n\t\t\n\t\t\tMaxKäller\n\t\t\n\t\t\n\t\t\tTobiasAllander\n\t\t\n\t\t\n\t\t\tBjörnAndersson\n\t\t\n\t\t\n\t\t\tLarsArvestad\n\t\t\n\t\t\n\t\t\tJoakimLundeberg\n\t\t\n\t\t10.1093/bioinformatics/btq230\n\t\t20472541\n\t\tPMC2887045\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":87},
{"_key":"60c765ee7723bebd86697845","_id":"references/60c765ee7723bebd86697845","_rev":"_cfFm_pq---","tei":"\n\t\n\t\tScalable metagenomic taxonomy classification using a reference genome database\n\t\t\n\t\t\tSashaKAmes\n\t\t\n\t\t\n\t\t\tDavidAHysom\n\t\t\n\t\t\n\t\t\tSheaNGardner\n\t\t\n\t\t\n\t\t\tGScottLloyd\n\t\t\n\t\t\n\t\t\tMayaBGokhale\n\t\t\n\t\t\n\t\t\tJonathanEAllen\n\t\t\n\t\t10.1093/bioinformatics/btt389\n\t\t23828782\n\t\tPMC3753567\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":2},
{"_key":"60c765ee7723bebd86697846","_id":"references/60c765ee7723bebd86697846","_rev":"_cfFm_p6---","tei":"\n\t\n\t\tFast and sensitive protein alignment using DIAMOND\n\t\t\n\t\t\tBenjaminBuchfink\n\t\t\n\t\t\n\t\t\tChaoXie\n\t\t\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t10.1038/nmeth.3176\n\t\t25402007\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":7},
{"_key":"60c765ee7723bebd86697847","_id":"references/60c765ee7723bebd86697847","_rev":"_cfFm_qG---","tei":"\n\t\n\t\tKraken: ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDerrickEWood\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2014-15-3-r46\n\t\t24580807\n\t\tPMC4053813\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t15\n\t\t\t3\n\t\t\tR46\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":100},
{"_key":"60c765ee7723bebd86697848","_id":"references/60c765ee7723bebd86697848","_rev":"_cfFm_qW---","tei":"\n\t\n\t\tMEGAN analysis of metagenomic data\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tAFAuch\n\t\t\n\t\t\n\t\t\tJQi\n\t\t\n\t\t\n\t\t\tSCSchuster\n\t\t\n\t\t10.1101/gr.5969107\n\t\t17255551\n\t\tPMC1800929\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t17\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":34},
{"_key":"60c765ee7723bebd86697849","_id":"references/60c765ee7723bebd86697849","_rev":"_cfFm_qm---","tei":"\n\t\n\t\tIdentification of Novel Viruses Using VirusHunter -- an Automated Data Analysis Pipeline\n\t\t\n\t\t\tGuoyanZhao\n\t\t\n\t\t\n\t\t\tSiddharthKrishnamurthy\n\t\t\n\t\t\n\t\t\tZhengqiuCai\n\t\t\n\t\t\n\t\t\tVsevolodLPopov\n\t\t\n\t\t\n\t\t\tAmeliaPTravassos Da Rosa\n\t\t\n\t\t\n\t\t\tHildaGuzman\n\t\t\n\t\t\n\t\t\tSongCao\n\t\t\n\t\t\n\t\t\tHerbertWVirgin\n\t\t\n\t\t\n\t\t\tRobertBTesh\n\t\t\n\t\t\n\t\t\tDavidWang\n\t\t\n\t\t10.1371/journal.pone.0078470\n\t\t24167629\n\t\tPMC3805514\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t10\n\t\t\te78470\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":106},
{"_key":"60c765ee7723bebd8669784a","_id":"references/60c765ee7723bebd8669784a","_rev":"_cfFm_q2---","tei":"\n\t\n\t\tAn ensemble strategy that significantly improves de novo assembly of microbial genomes from metagenomic next-generation sequencing data\n\t\t\n\t\t\tXutaoDeng\n\t\t\n\t\t\n\t\t\tSamiaNNaccache\n\t\t\n\t\t\n\t\t\tTerryNg\n\t\t\n\t\t\n\t\t\tScotFederman\n\t\t\n\t\t\n\t\t\tLinlinLi\n\t\t\n\t\t\n\t\t\tCharlesYChiu\n\t\t\n\t\t\n\t\t\tEricLDelwart\n\t\t\n\t\t10.1093/nar/gkv002\n\t\t25586223\n\t\tPMC4402509\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":17},
{"_key":"60c765ee7723bebd8669784b","_id":"references/60c765ee7723bebd8669784b","_rev":"_cfFm_rC---","tei":"\n\t\n\t\tMePIC, Metagenomic Pathogen Identification for Clinical Specimens\n\t\t\n\t\t\tFumihikoTakeuchi\n\t\t\n\t\t\n\t\t\tTsuyoshiSekizuka\n\t\t\n\t\t\n\t\t\tAkifumiYamashita\n\t\t\n\t\t\n\t\t\tYumikoOgasawara\n\t\t\n\t\t\n\t\t\tKatsumiMizuta\n\t\t\n\t\t\n\t\t\tMakotoKuroda\n\t\t\n\t\t10.7883/yoken.67.62\n\t\t24451106\n\t\t\n\t\n\t\n\t\tJapanese Journal of Infectious Diseases\n\t\tJpn J Infect Dis\n\t\t1344-6304\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tEditorial Committee of Japanese Journal of Infectious Diseases, National Institute of Infectious Dis\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":88},
{"_key":"60c765ee7723bebd8669784c","_id":"references/60c765ee7723bebd8669784c","_rev":"_cfFm_rS---","tei":"\n\t\n\t\tVirusSeeker, a computational pipeline for virus discovery and virome composition analysis\n\t\t\n\t\t\tGuoyanZhao\n\t\t\n\t\t\n\t\t\tGuangWu\n\t\t\n\t\t\n\t\t\tEfremSLim\n\t\t\n\t\t\n\t\t\tLindsayDroit\n\t\t\n\t\t\n\t\t\tSiddharthKrishnamurthy\n\t\t\n\t\t\n\t\t\tDanHBarouch\n\t\t\n\t\t\n\t\t\tHerbertWVirgin\n\t\t\n\t\t\n\t\t\tDavidWang\n\t\t\n\t\t10.1016/j.virol.2017.01.005\n\t\t28110145\n\t\tPMC5326578\n\t\n\t\n\t\tVirology\n\t\tVirology\n\t\t0042-6822\n\t\t\n\t\t\t503\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":107},
{"_key":"60c765ee7723bebd8669784d","_id":"references/60c765ee7723bebd8669784d","_rev":"_cfFm_ri---","tei":"\n\t\n\t\tViromeScan: a new tool for metagenomic viral community profiling\n\t\t\n\t\t\tSimoneRampelli\n\t\t\t0000-0002-5655-6695\n\t\t\n\t\t\n\t\t\tMatteoSoverini\n\t\t\n\t\t\n\t\t\tSilviaTurroni\n\t\t\n\t\t\n\t\t\tSaraQuercia\n\t\t\n\t\t\n\t\t\tElenaBiagi\n\t\t\n\t\t\n\t\t\tPatriziaBrigidi\n\t\t\n\t\t\n\t\t\tMarcoCandela\n\t\t\n\t\t10.1186/s12864-016-2446-3\n\t\t26932765\n\t\tPMC4774116\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t165\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":67},
{"_key":"60c765ee7723bebd8669784e","_id":"references/60c765ee7723bebd8669784e","_rev":"_cfFm_ru---","tei":"\n\t\n\t\tMetaShot: an accurate workflow for taxon classification of host-associated microbiome from shotgun metagenomic data\n\t\t\n\t\t\tBFosso\n\t\t\n\t\t\n\t\t\tMSantamaria\n\t\t\n\t\t\n\t\t\tMD’antonio\n\t\t\n\t\t\n\t\t\tDLovero\n\t\t\n\t\t\n\t\t\tGCorrado\n\t\t\n\t\t\n\t\t\tEVizza\n\t\t\n\t\t\n\t\t\tNPassaro\n\t\t\n\t\t\n\t\t\tARGarbuglia\n\t\t\n\t\t\n\t\t\tMRCapobianchi\n\t\t\n\t\t\n\t\t\tMCrescenzi\n\t\t\n\t\t\n\t\t\tGValiente\n\t\t\n\t\t\n\t\t\tGPesole\n\t\t\n\t\t10.1093/bioinformatics/btx036\n\t\t28130230\n\t\tPMC5447231\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\tbtx036\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c765ee7723bebd8669783c"},"refKey":23},
{"_key":"60c765fc7723bebd8669788e","_id":"references/60c765fc7723bebd8669788e","_rev":"_cfFm_r6---","tei":"\n\t\n\t\tFrom reads to genes to pathways: differential expression analysis of RNA-Seq experiments using Rsubread and the edgeR quasi-likelihood pipeline\n\t\t\n\t\t\tYunshunChen\n\t\t\n\t\t\n\t\t\tAaronT LLun\n\t\t\t0000-0002-3564-4813\n\t\t\n\t\t\n\t\t\tGordonKSmyth\n\t\t\t0000-0001-9221-2892\n\t\t\n\t\t10.12688/f1000research.8987.1\n\t\t27508061\n\t\tPMC4934518\n\t\t\n\t\n\t\n\t\tF1000Research\n\t\tF1000Res\n\t\t2046-1402\n\t\t\n\t\t\t5\n\t\t\t1438\n\t\t\t\n\t\t\tF1000 ( Faculty of 1000 Ltd)\n\t\t\n\t\n\n","document":{"$oid":"60c765fc7723bebd8669788d"},"refKey":45},
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{"_key":"60c765fc7723bebd86697890","_id":"references/60c765fc7723bebd86697890","_rev":"_cfFm_sW---","tei":"\n\t\n\t\tBBMap: A Fast, Accurate, Splice-Aware Aligner. United States\n\t\t\n\t\t\tBBushnell\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t13\n\t\t\n\t\n\n","document":{"$oid":"60c765fc7723bebd8669788d"},"refKey":44},
{"_key":"60c765fc7723bebd86697891","_id":"references/60c765fc7723bebd86697891","_rev":"_cfFm_si---","tei":"\n\t\n\t\tSystematic and Integrative Analysis of Large Gene Lists Using DAVID Bioinformatics Resources\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t4\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c765fc7723bebd8669788d"},"refKey":47},
{"_key":"60c765fc7723bebd86697892","_id":"references/60c765fc7723bebd86697892","_rev":"_cfFm_su---","tei":"\n\t\n\t\tPANTHER version 14: More genomes, a new PANTHER GO-slim and improvements in enrichment analysis tools\n\t\t\n\t\t\tHMi\n\t\t\n\t\t\n\t\t\tAMuruganujan\n\t\t\n\t\t\n\t\t\tDEbert\n\t\t\n\t\t\n\t\t\tXHuang\n\t\t\n\t\t\n\t\t\tPDThomas\n\t\t\n\t\t10.1093/nar/gky1038\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c765fc7723bebd8669788d"},"refKey":48},
{"_key":"60c765fc7723bebd86697893","_id":"references/60c765fc7723bebd86697893","_rev":"_cfFm_s6---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c765fc7723bebd8669788d"},"refKey":51},
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{"_key":"60c7661b7723bebd866978c9","_id":"references/60c7661b7723bebd866978c9","_rev":"_cfFm_te---","tei":"\n\t\n\t\tData-Driven Phenotypic Dissection of AML Reveals Progenitor-like Cells that Correlate with Prognosis\n\t\t\n\t\t\tJHLevine\n\t\t\n\t\t\n\t\t\tEFSimonds\n\t\t\n\t\t\n\t\t\tSCBendall\n\t\t\n\t\t\n\t\t\tKLDavis\n\t\t\n\t\t\n\t\t\tADAmir El\n\t\t\n\t\t\n\t\t\tMDTadmor\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t162\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7661b7723bebd866978c8"},"refKey":19},
{"_key":"60c7664f7723bebd866978e9","_id":"references/60c7664f7723bebd866978e9","_rev":"_cfFm_tq---","tei":"\n\t\n\t\tU-net: Convolutional networks for biomedical image segmentation\n\t\t\n\t\t\tORonneberger\n\t\t\n\t\t\n\t\t\tPFischer\n\t\t\n\t\t\n\t\t\tTBrox\n\t\t\n\t\n\t\n\t\tProceedings of the International Conference on Medical Image Computing and Computer-Assisted Intervention\n\t\t\t\tthe International Conference on Medical Image Computing and Computer-Assisted Intervention\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7664f7723bebd866978e8"},"refKey":35},
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{"_key":"60c767237723bebd86697a03","_id":"references/60c767237723bebd86697a03","_rev":"_cfFm_yO---","tei":"\n\t\n\t\tBayesian phylogenetics with BEAUti and the BEAST 1.7\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c767237723bebd86697a01"},"refKey":20},
{"_key":"60c767237723bebd86697a04","_id":"references/60c767237723bebd86697a04","_rev":"_cfFm_yW---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c767237723bebd86697a01"},"refKey":29},
{"_key":"60c767237723bebd86697a05","_id":"references/60c767237723bebd86697a05","_rev":"_cfFm_yi---","tei":"\n\t\n\t\tBBMap short read aligner, and other bioinformatic tools\n\t\t\n\t\t\tBBushnell\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c767237723bebd86697a01"},"refKey":3},
{"_key":"60c767417723bebd86697a28","_id":"references/60c767417723bebd86697a28","_rev":"_cfFm_yu---","tei":"\n\t\n\t\tWGCNA: an R package for weighted correlation network analysis\n\t\t\n\t\t\tPLangfelder\n\t\t\n\t\t\n\t\t\tSHorvath\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c767417723bebd86697a27"},"refKey":20},
{"_key":"60c767417723bebd86697a29","_id":"references/60c767417723bebd86697a29","_rev":"_cfFm_y6---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c767417723bebd86697a27"},"refKey":14},
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{"_key":"60c767667723bebd86697a3f","_id":"references/60c767667723bebd86697a3f","_rev":"_cfFm_zi---","tei":"\n\t\n\t\tGrofit: Fitting biological growth curves\n\t\t\n\t\t\tMatthiasKahm\n\t\t\n\t\t\n\t\t\tGuidoHasenbrink\n\t\t\n\t\t\n\t\t\tHellaLichtenberg-Frate\n\t\t\n\t\t\n\t\t\tJostLudwig\n\t\t\n\t\t\n\t\t\tMaikKschischo\n\t\t\n\t\t10.1038/npre.2010.4508.1\n\t\t\n\t\t\n\t\n\t\n\t\tNature Precedings\n\t\tNat Prec\n\t\t1756-0357\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c767667723bebd86697a3e"},"refKey":80},
{"_key":"60c7676b7723bebd86697a42","_id":"references/60c7676b7723bebd86697a42","_rev":"_cfFm_zu---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7676b7723bebd86697a41"},"refKey":108},
{"_key":"60c767747723bebd86697a50","_id":"references/60c767747723bebd86697a50","_rev":"_cfFm_z6---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c767747723bebd86697a4f"},"refKey":14},
{"_key":"60c767747723bebd86697a51","_id":"references/60c767747723bebd86697a51","_rev":"_cfFm_0K---","tei":"\n\t\n\t\tBCFtools/RoH: a hidden Markov model approach for detecting autozygosity from next-generation sequencing data\n\t\t\n\t\t\tVagheeshNarasimhan\n\t\t\n\t\t\n\t\t\tPetrDanecek\n\t\t\n\t\t\n\t\t\tAylwynScally\n\t\t\n\t\t\n\t\t\tYaliXue\n\t\t\n\t\t\n\t\t\tChrisTyler-Smith\n\t\t\n\t\t\n\t\t\tRichardDurbin\n\t\t\n\t\t10.1093/bioinformatics/btw044\n\t\t26826718\n\t\tPMC4892413\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c767747723bebd86697a4f"},"refKey":15},
{"_key":"60c767747723bebd86697a52","_id":"references/60c767747723bebd86697a52","_rev":"_cfFm_0W---","tei":"\n\t\n\t\tPhyD3: a phylogenetic tree viewer with extended phyloXML support for functional genomics data visualization\n\t\t\n\t\t\tŁukaszKreft\n\t\t\n\t\t\n\t\t\tAlexanderBotzki\n\t\t\n\t\t\n\t\t\tFrederikCoppens\n\t\t\n\t\t\n\t\t\tKlaasVandepoele\n\t\t\n\t\t\n\t\t\tMichielVan Bel\n\t\t\n\t\t10.1093/bioinformatics/btx324\n\t\t28525531\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c767747723bebd86697a4f"},"refKey":19},
{"_key":"60c767747723bebd86697a53","_id":"references/60c767747723bebd86697a53","_rev":"_cfFm_0m---","tei":"\n\t\n\t\tVersatile and open software for comparing large genomes\n\t\t\n\t\t\tSKurtz\n\t\t\n\t\t10.1186/gb-2004-5-2-r12\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c767747723bebd86697a4f"},"refKey":16},
{"_key":"60c767747723bebd86697a54","_id":"references/60c767747723bebd86697a54","_rev":"_cfFm_02---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c767747723bebd86697a4f"},"refKey":12},
{"_key":"60c767747723bebd86697a55","_id":"references/60c767747723bebd86697a55","_rev":"_cfFm_1C---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tAdrianPlatts\n\t\t\n\t\t\n\t\t\tLeLilyWang\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tLuanWang\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\tPMC3679285\n\t\t\n\t\t\n\t\n\t\n\t\tFly\n\t\tFly\n\t\t1933-6934\n\t\t1933-6942\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c767747723bebd86697a4f"},"refKey":17},
{"_key":"60c767817723bebd86697a81","_id":"references/60c767817723bebd86697a81","_rev":"_cfFm_1S---","tei":"\n\t\n\t\tAn image-based modeling framework for patient-specific computational hemodynamics\n\t\t\n\t\t\tLAntiga\n\t\t\n\t\t\n\t\t\tMPiccinelli\n\t\t\n\t\t\n\t\t\tLBotti\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c767817723bebd86697a80"},"refKey":15},
{"_key":"60c7678a7723bebd86697a87","_id":"references/60c7678a7723bebd86697a87","_rev":"_cfFm_1i---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t19\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7678a7723bebd86697a86"},"refKey":10},
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{"_key":"60c767d67723bebd86697aba","_id":"references/60c767d67723bebd86697aba","_rev":"_cfFm_2W---","tei":"\n\t\n\t\tAPI design for machine learning software: Experiences from the scikit-learn project\n\t\t\n\t\t\tLBuitinck\n\t\t\n\t\t\n\t\t\tGLouppe\n\t\t\n\t\t\n\t\t\tMBlondel\n\t\t\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tAMueller\n\t\t\n\t\t\n\t\t\tOGrisel\n\t\t\n\t\t\n\t\t\tVNiculae\n\t\t\n\t\t\n\t\t\tPPrettenhofer\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\t\n\t\t\tJGrobler\n\t\t\n\t\n\t\n\t\tProceedings of the ECML PKDD Workshop: Languages for Data Mining and Machine Learning\n\t\t\t\tthe ECML PKDD Workshop: Languages for Data Mining and Machine LearningPrague, Czech Republic\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c767d67723bebd86697ab8"},"refKey":37},
{"_key":"60c767d67723bebd86697abb","_id":"references/60c767d67723bebd86697abb","_rev":"_cfFm_2m---","tei":"\n\t\n\t\tEconometric and statistical modeling with python\n\t\t\n\t\t\tSSeabold\n\t\t\n\t\t\n\t\t\tJPerktold\n\t\t\n\t\t\n\t\t\tStatsmodels\n\t\t\n\t\n\t\n\t\tProceedings of the 9th Python in Science Conference\n\t\t\t\tthe 9th Python in Science ConferenceAustin, TX, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c767d67723bebd86697ab8"},"refKey":38},
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{"_key":"60c768127723bebd86697ae7","_id":"references/60c768127723bebd86697ae7","_rev":"_cfFm_3W---","tei":"\n\t\n\t\tPredicting HLA class II antigen presentation through integrated deep learning\n\t\t\n\t\t\tBChen\n\t\t\n\t\t\n\t\t\tMSKhodadoust\n\t\t\n\t\t\n\t\t\tNOlsson\n\t\t\n\t\t\n\t\t\tLEWagar\n\t\t\n\t\t\n\t\t\tEFast\n\t\t\n\t\t\n\t\t\tCLLiu\n\t\t\n\t\t10.1038/s41587-019-0280-2\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c768127723bebd86697ae4"},"refKey":37},
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{"_key":"60c7684e7723bebd86697b08","_id":"references/60c7684e7723bebd86697b08","_rev":"_cfFm_36---","tei":"\n\t\n\t\tLocating proteins in the cell using TargetP, SignalP and related tools\n\t\t\n\t\t\tOEmanuelsson\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7684e7723bebd86697b07"},"refKey":12},
{"_key":"60c7684e7723bebd86697b09","_id":"references/60c7684e7723bebd86697b09","_rev":"_cfFm_4G---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positionspecific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7684e7723bebd86697b07"},"refKey":37},
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{"_key":"60c768717723bebd86697b52","_id":"references/60c768717723bebd86697b52","_rev":"_cfFm_42---","tei":"\n\t\n\t\tLarge-scale validation of methods for cytotoxic T-lymphocyte epitope prediction\n\t\t\n\t\t\tMetteVLarsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tSorenBuus\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1186/1471-2105-8-424\n\t\t17973982\n\t\tPMC2194739\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c768717723bebd86697b51"},"refKey":25},
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{"_key":"60c768cc7723bebd86697b9f","_id":"references/60c768cc7723bebd86697b9f","_rev":"_cfFm_5a---","tei":"\n\t\n\t\tThe SWISS-MODEL Workspace: a web-based environment for protein structure homology modelling\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c768cc7723bebd86697b9c"},"refKey":1},
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{"_key":"60c768e87723bebd86697bb8","_id":"references/60c768e87723bebd86697bb8","_rev":"_cfFm_5y---","tei":"\n\t\n\t\tThe psychophysics toolbox\n\t\t\n\t\t\tDHBrainard\n\t\t\n\t\n\t\n\t\tSpatial Vision\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c768e87723bebd86697bb7"},"refKey":0},
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{"_key":"60c769027723bebd86697bcf","_id":"references/60c769027723bebd86697bcf","_rev":"_cfFm_6W---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c769027723bebd86697bcd"},"refKey":10},
{"_key":"60c7690d7723bebd86697bde","_id":"references/60c7690d7723bebd86697bde","_rev":"_cfFm_6i---","tei":"\n\t\n\t\tThe Bigamist\n\t\t\n\t\t\tTHastie\n\t\t\n\t\t\n\t\t\tJQian\n\t\t\n\t\t\n\t\t\tGlmnet Vignette\n\t\t\n\t\t10.1007/978-1-84457-552-7\n\t\t\n\t\t\n\t\t\t\n\t\t\tBritish Film Institute\n\t\t\n\t\n\n","document":{"$oid":"60c7690d7723bebd86697bdd"},"refKey":61},
{"_key":"60c769447723bebd86697c03","_id":"references/60c769447723bebd86697c03","_rev":"_cfFm_6u---","tei":"\n\t\n\t\tThe Lagrangian particle dispersion model FLEXPART-WRF version 3.1\n\t\t\n\t\t\tJBrioude\n\t\t\n\t\t\n\t\t\tDArnold\n\t\t\n\t\t\n\t\t\tAStohl\n\t\t\t0000-0002-2524-5755\n\t\t\n\t\t\n\t\t\tMCassiani\n\t\t\n\t\t\n\t\t\tDMorton\n\t\t\n\t\t\n\t\t\tPSeibert\n\t\t\n\t\t\n\t\t\tWAngevine\n\t\t\n\t\t\n\t\t\tSEvan\n\t\t\n\t\t\n\t\t\tADingwell\n\t\t\t0000-0001-7909-0640\n\t\t\n\t\t\n\t\t\tJDFast\n\t\t\n\t\t\n\t\t\tRCEaster\n\t\t\n\t\t\n\t\t\tIPisso\n\t\t\t0000-0002-0056-7897\n\t\t\n\t\t\n\t\t\tJBurkhart\n\t\t\t0000-0002-5587-1693\n\t\t\n\t\t\n\t\t\tGWotawa\n\t\t\t0000-0002-4786-1209\n\t\t\n\t\t10.5194/gmd-6-1889-2013\n\t\t\n\t\t\n\t\n\t\n\t\tGeoscientific Model Development\n\t\tGeosci. Model Dev.\n\t\t1991-9603\n\t\t\n\t\t\t6\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCopernicus GmbH\n\t\t\n\t\n\n","document":{"$oid":"60c769447723bebd86697c02"},"refKey":5},
{"_key":"60c769447723bebd86697c04","_id":"references/60c769447723bebd86697c04","_rev":"_cfFm_66---","tei":"\n\t\n\t\tTechnical note: The Lagrangian particle dispersion model FLEXPART version 6.2\n\t\t\n\t\t\tAStohl\n\t\t\n\t\t\n\t\t\tCForster\n\t\t\n\t\t\n\t\t\tAFrank\n\t\t\n\t\t\n\t\t\tPSeibert\n\t\t\n\t\t\n\t\t\tGWotawa\n\t\t\n\t\t10.5194/acpd-5-4739-2005\n\t\t\n\t\n\t\n\t\tAtmospheric Chemistry and Physics Discussions\n\t\tAtmos. Chem. Phys. Discuss.\n\t\t1680-7375\n\t\t\n\t\t\t5\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tCopernicus GmbH\n\t\t\n\t\n\n","document":{"$oid":"60c769447723bebd86697c02"},"refKey":37},
{"_key":"60c769447723bebd86697c05","_id":"references/60c769447723bebd86697c05","_rev":"_cfFm_7G---","tei":"\n\t\n\t\tA Lagrangian partic le dispersion model compatible with WRF. 7 th Annual WRF User's Workshop\n\t\t\n\t\t\tJDFast\n\t\t\n\t\t\n\t\t\tRCEaster\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c769447723bebd86697c02"},"refKey":10},
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{"_key":"60c769c47723bebd86697c60","_id":"references/60c769c47723bebd86697c60","_rev":"_cfFm_7e---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMarkJamesAbraham\n\t\t\t0000-0001-6363-2521\n\t\t\n\t\t\n\t\t\tTeemuMurtola\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1016/j.softx.2015.06.001\n\t\n\t\n\t\tSoftwareX\n\t\tSoftwareX\n\t\t2352-7110\n\t\t\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tSoftwareX 2015, 1−2, 19−25\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":61},
{"_key":"60c769c47723bebd86697c61","_id":"references/60c769c47723bebd86697c61","_rev":"_cfFm_7q---","tei":"\n\t\n\t\tGROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tCarstenKutzner\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1021/ct700301q\n\t\t26620784\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":121},
{"_key":"60c769c47723bebd86697c62","_id":"references/60c769c47723bebd86697c62","_rev":"_cfFm_72---","tei":"\n\t\n\t\tUsing AutoDock for Ligand-Receptor Docking\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/0471250953.bi0814s24\n\t\t19085980\n\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\tCurrent protocols in bioinformatics 2008, 24, 8.14. 1− 8.14. 40\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":145},
{"_key":"60c769c47723bebd86697c63","_id":"references/60c769c47723bebd86697c63","_rev":"_cfFm_8----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tWForli\n\t\t\n\t\t\n\t\t\tSHalliday\n\t\t\n\t\t\n\t\t\tRBelew\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t\n\t\t\t\n\t\t\tCiteseer\n\t\t\tIn\n\t\t\n\t\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":151},
{"_key":"60c769c47723bebd86697c64","_id":"references/60c769c47723bebd86697c64","_rev":"_cfFm_8K---","tei":"\n\t\n\t\tComparison of Ligand Affinity Ranking Using AutoDock-GPU and MM-GBSA Scores in the D3R Grand Challenge 4\n\t\t\n\t\t\tLéaEl Khoury\n\t\t\n\t\t\n\t\t\tDiogoSantos-Martins\n\t\t\t0000-0003-4622-3747\n\t\t\n\t\t\n\t\t\tSukanyaSasmal\n\t\t\n\t\t\n\t\t\tJéromeEberhardt\n\t\t\n\t\t\n\t\t\tGiuliaBianco\n\t\t\n\t\t\n\t\t\tFrancescaAlessandraAmbrosio\n\t\t\n\t\t\n\t\t\tLeonardoSolis-Vasquez\n\t\t\n\t\t\n\t\t\tAndreasKoch\n\t\t\n\t\t\n\t\t\tStefanoForli\n\t\t\n\t\t\n\t\t\tDavidMobley\n\t\t\n\t\t10.26434/chemrxiv.8309690.v1\n\t\t\n\t\n\t\n\t\tJ. Comput.-Aided Mol. Des\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":72},
{"_key":"60c769c47723bebd86697c65","_id":"references/60c769c47723bebd86697c65","_rev":"_cfFm_8W---","tei":"\n\t\n\t\tAccelerating AutoDock4 with GPUs and Gradient-Based Local Search\n\t\t\n\t\t\tDiogoSantos-Martins\n\t\t\t0000-0003-4622-3747\n\t\t\n\t\t\n\t\t\tLeonardoSolis-Vasquez\n\t\t\n\t\t\n\t\t\tAndreasKoch\n\t\t\n\t\t\n\t\t\tStefanoForli\n\t\t\t0000-0002-5964-7111\n\t\t\n\t\t10.26434/chemrxiv.9702389\n\t\t\n\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":74},
{"_key":"60c769c47723bebd86697c66","_id":"references/60c769c47723bebd86697c66","_rev":"_cfFm_8i---","tei":"\n\t\n\t\tSWEETLEAD: an In Silico Database of Approved Drugs, Regulated Chemicals, and Herbal Isolates for Computer-Aided Drug Discovery\n\t\t\n\t\t\tPaulANovick\n\t\t\n\t\t\n\t\t\tOscarFOrtiz\n\t\t\n\t\t\n\t\t\tJaredPoelman\n\t\t\n\t\t\n\t\t\tAmirYAbdulhay\n\t\t\n\t\t\n\t\t\tVijaySPande\n\t\t\n\t\t10.1371/journal.pone.0079568\n\t\t24223973\n\t\tPMC3815155\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t11\n\t\t\te79568\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\tJ. Chem. Inf. Model\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":138},
{"_key":"60c769c47723bebd86697c67","_id":"references/60c769c47723bebd86697c67","_rev":"_cfFm_8u---","tei":"\n\t\n\t\tSWEETLEAD: an In Silico Database of Approved Drugs, Regulated Chemicals, and Herbal Isolates for Computer-Aided Drug Discovery\n\t\t\n\t\t\tPaulANovick\n\t\t\n\t\t\n\t\t\tOscarFOrtiz\n\t\t\n\t\t\n\t\t\tJaredPoelman\n\t\t\n\t\t\n\t\t\tAmirYAbdulhay\n\t\t\n\t\t\n\t\t\tVijaySPande\n\t\t\n\t\t10.1371/journal.pone.0079568\n\t\t24223973\n\t\tPMC3815155\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t11\n\t\t\te79568\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":139},
{"_key":"60c769c47723bebd86697c68","_id":"references/60c769c47723bebd86697c68","_rev":"_cfFm_86---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tEBressert\n\t\t\n\t\t\n\t\t\tNumpyScipy\n\t\t\n\t\t\n\t\t\tAn Overview for Developers\n\t\t\n\t\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":135},
{"_key":"60c769c47723bebd86697c69","_id":"references/60c769c47723bebd86697c69","_rev":"_cfFm_9G---","tei":"\n\t\n\t\tVinaMPI: Facilitating multiple receptor high-throughput virtual docking on high-performance computers\n\t\t\n\t\t\tSallyREllingson\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tJeromeBaudry\n\t\t\n\t\t10.1002/jcc.23367\n\t\t23813626\n\t\tark:/67375/WNG-Q7X4W1XJ-1\n\t\t17F04335D831FEF10DCC77A9AD214FFBDCD56246\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t34\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":143},
{"_key":"60c769c47723bebd86697c6a","_id":"references/60c769c47723bebd86697c6a","_rev":"_cfFm_9S---","tei":"\n\t\n\t\tOptimization of parameters for molecular dynamics simulation using smooth particle-mesh Ewald in GROMACS 4.5\n\t\t\n\t\t\tMarkJAbraham\n\t\t\n\t\t\n\t\t\tJillEGready\n\t\t\n\t\t10.1002/jcc.21773\n\t\t21469158\n\t\tark:/67375/WNG-J9PFQ0ZR-J\n\t\t5BDB49083DF1A0F8F0C88FE81F37A1190B65F846\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t32\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c769c47723bebd86697c5f"},"refKey":123},
{"_key":"60c769ff7723bebd86697ca5","_id":"references/60c769ff7723bebd86697ca5","_rev":"_cfFm_9a---","tei":"\n\t\n\t\tFLASH: fast length adjustment of short reads to improve genome assemblies\n\t\t\n\t\t\tTMagoč\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c769ff7723bebd86697ca4"},"refKey":44},
{"_key":"60c769ff7723bebd86697ca6","_id":"references/60c769ff7723bebd86697ca6","_rev":"_cfFm_9m---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\n\t\n\t\tJ. Comput. Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c769ff7723bebd86697ca4"},"refKey":2},
{"_key":"60c769ff7723bebd86697ca7","_id":"references/60c769ff7723bebd86697ca7","_rev":"_cfFm_9y---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c769ff7723bebd86697ca4"},"refKey":6},
{"_key":"60c769ff7723bebd86697ca8","_id":"references/60c769ff7723bebd86697ca8","_rev":"_cfFmA-----","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c769ff7723bebd86697ca4"},"refKey":39},
{"_key":"60c769ff7723bebd86697ca9","_id":"references/60c769ff7723bebd86697ca9","_rev":"_cfFmA-K---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tKLagesen\n\t\t\n\t\t\n\t\t\tPHallin\n\t\t\n\t\t\n\t\t\tEARødland\n\t\t\n\t\t\n\t\t\tH.-HStaerfeldt\n\t\t\n\t\t\n\t\t\tTRognes\n\t\t\n\t\t\n\t\t\tDWUssery\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c769ff7723bebd86697ca4"},"refKey":36},
{"_key":"60c769ff7723bebd86697caa","_id":"references/60c769ff7723bebd86697caa","_rev":"_cfFmA-W---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c769ff7723bebd86697ca4"},"refKey":1},
{"_key":"60c76a427723bebd86697cd6","_id":"references/60c76a427723bebd86697cd6","_rev":"_cfFmA-i---","tei":"\n\t\n\t\tSyuzhet: An R package for the extraction of sentiment and sentiment-based plot arcs from text\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\tR Foundation for Statistical Computing\n\n","document":{"$oid":"60c76a427723bebd86697cd5"},"refKey":19},
{"_key":"60c76a4a7723bebd86697cdd","_id":"references/60c76a4a7723bebd86697cdd","_rev":"_cfFmA-q---","tei":"\n\t\n\t\tNidovirus Entry into Cells\n\t\t\n\t\t\tBerendJanBosch\n\t\t\n\t\t\n\t\t\tPeterJ MRottier\n\t\t\n\t\t10.1128/9781555815790.ch11\n\t\n\t\n\t\tNidoviruses\n\t\t\t\t\n\t\t\tSPerlman\n\t\t\tTJGallagher & E\n\t\t\tSnijder\n\t\t\n\t\tWashington, DC\n\t\t\n\t\t\tAmerican Society of Microbiology\n\t\t\t2008\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76a4a7723bebd86697cdc"},"refKey":1},
{"_key":"60c76a7a7723bebd86697d0f","_id":"references/60c76a7a7723bebd86697d0f","_rev":"_cfFmA-2---","tei":"\n\t\n\t\tAutodock4 and AutoDockTools4: automated docking with selective receptor flexiblity\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tMEPique\n\t\t\n\t\n\t\n\t\tJ. Computational Chemistry\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76a7a7723bebd86697d0e"},"refKey":29},
{"_key":"60c76a7a7723bebd86697d10","_id":"references/60c76a7a7723bebd86697d10","_rev":"_cfFmA_C---","tei":"\n\t\n\t\tDocking study, synthesis and antimicrobial evaluation of some novel 4-anilinoquinazoline derivatives\n\t\t\n\t\t\tRNasab\n\t\t\n\t\t\n\t\t\tFHassanzadeh\n\t\t\n\t\t\n\t\t\tGKhodarahmi\n\t\t\n\t\n\t\n\t\tRes. Pharm. Sci\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76a7a7723bebd86697d0e"},"refKey":33},
{"_key":"60c76a7a7723bebd86697d11","_id":"references/60c76a7a7723bebd86697d11","_rev":"_cfFmA_O---","tei":"\n\t\n\t\tThe Amber biomolecular simulation programs\n\t\t\n\t\t\tDACase\n\t\t\t\n\t\t\t\tAMBER. Amber 2019 reference manual\n\t\t\t\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\t\n\t\t\t\tAMBER. Amber 2019 reference manual\n\t\t\t\n\t\t\n\t\t\n\t\t\tTDarden\n\t\t\t\n\t\t\t\tAMBER. Amber 2019 reference manual\n\t\t\t\n\t\t\n\t\t\n\t\n\t\n\t\tJ. Chem. Inf. Model\n\t\t\n\t\t\t53\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tJ Comput Chem.\n\n","document":{"$oid":"60c76a7a7723bebd86697d0e"},"refKey":35},
{"_key":"60c76a8e7723bebd86697d22","_id":"references/60c76a8e7723bebd86697d22","_rev":"_cfFmA_a---","tei":"\n\t\n\t\tAutoDockVina: improving the speed and accuracy of docking with a new scoring function, efficient optimization and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76a8e7723bebd86697d21"},"refKey":39},
{"_key":"60c76a8e7723bebd86697d23","_id":"references/60c76a8e7723bebd86697d23","_rev":"_cfFmA_m---","tei":"\n\t\n\t\tDiscovery studio\n\t\t\n\t\t\tDSBiovia\n\t\t\n\t\t\n\t\t\t\n\t\t\tBiovia, San Diego\n\t\t\n\t\n\n","document":{"$oid":"60c76a8e7723bebd86697d21"},"refKey":33},
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{"_key":"60c76a8f7723bebd86697d2e","_id":"references/60c76a8f7723bebd86697d2e","_rev":"_cfFmA_6---","tei":"\n\t\n\t\tA new method for multiclass support vector machines\n\t\t\n\t\t\tDAnguita\n\t\t\n\t\t\n\t\t\tSRidella\n\t\t\n\t\t\n\t\t\tDSterpi\n\t\t\n\t\t10.1109/ijcnn.2004.1379940\n\t\tIJCNN: 2004\n\t\n\t\n\t\t2004 IEEE International Joint Conference on Neural Networks (IEEE Cat. No.04CH37541)\n\t\t\t\tBudapest, Hungary\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\n\t\n\n","document":{"$oid":"60c76a8f7723bebd86697d2c"},"refKey":49},
{"_key":"60c76ab37723bebd86697d46","_id":"references/60c76ab37723bebd86697d46","_rev":"_cfFmAAG---","tei":"\n\t\n\t\tIdentification of Suitable Natural Inhibitor against Influenza A (H1N1) Neuraminidase Protein by Molecular Docking\n\t\t\n\t\t\tMaheswataSahoo\n\t\t\n\t\t\n\t\t\tLingarajaJena\n\t\t\n\t\t\n\t\t\tSuryaNarayanRath\n\t\t\n\t\t\n\t\t\tSatishKumar\n\t\t\n\t\t10.5808/gi.2016.14.3.96\n\t\t27729839\n\t\tPMC5056903\n\t\t\n\t\n\t\n\t\tGenomics & Informatics\n\t\tGenomics Inform\n\t\t2234-0742\n\t\t\n\t\t\t14\n\t\t\t3\n\t\t\t96\n\t\t\t\n\t\t\tKorea Genome Organization\n\t\t\n\t\n\n","document":{"$oid":"60c76ab37723bebd86697d45"},"refKey":67},
{"_key":"60c76b1f7723bebd86697da1","_id":"references/60c76b1f7723bebd86697da1","_rev":"_cfFmAAS---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c76b1f7723bebd86697da0"},"refKey":10},
{"_key":"60c76b2e7723bebd86697db2","_id":"references/60c76b2e7723bebd86697db2","_rev":"_cfFmAAe---","tei":"\n\t\n\t\tThe role of the airline transportation network in the prediction and predictability of global epidemics\n\t\t\n\t\t\tVittoriaColizza\n\t\t\n\t\t\n\t\t\tAlainBarrat\n\t\t\n\t\t\n\t\t\tMarcBarthélemy\n\t\t\n\t\t\n\t\t\tAlessandroVespignani\n\t\t\n\t\t10.1073/pnas.0510525103\n\t\t16461461\n\t\tPMC1413717\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tPNAS\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t103\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c76b2e7723bebd86697db1"},"refKey":2},
{"_key":"60c76b2e7723bebd86697db3","_id":"references/60c76b2e7723bebd86697db3","_rev":"_cfFmAAq---","tei":"\n\t\n\t\tModeling the spatial spread of infectious diseases: The GLobal Epidemic and Mobility computational model\n\t\t\n\t\t\tDuyguBalcan\n\t\t\n\t\t\n\t\t\tBrunoGonçalves\n\t\t\n\t\t\n\t\t\tHaoHu\n\t\t\n\t\t\n\t\t\tJoséJRamasco\n\t\t\n\t\t\n\t\t\tVittoriaColizza\n\t\t\n\t\t\n\t\t\tAlessandroVespignani\n\t\t\n\t\t10.1016/j.jocs.2010.07.002\n\t\t21415939\n\t\tPMC3056392\n\t\t\n\t\n\t\n\t\tJournal of Computational Science\n\t\tJournal of Computational Science\n\t\t1877-7503\n\t\t\n\t\t\t1\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c76b2e7723bebd86697db1"},"refKey":3},
{"_key":"60c76b2e7723bebd86697db4","_id":"references/60c76b2e7723bebd86697db4","_rev":"_cfFmAA2---","tei":"\n\t\n\t\tModelling disease outbreaks in realistic urban social networks\n\t\t\n\t\t\tSEubank\n\t\t\n\t\t\n\t\t\tHGuclu\n\t\t\n\t\t\n\t\t\tVS AKumar\n\t\t\n\t\t\n\t\t\tMVMarathe\n\t\t\n\t\t\n\t\t\tASrinivasan\n\t\t\n\t\t\n\t\t\tZToroczkai\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t429\n\t\t\t6988\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76b2e7723bebd86697db1"},"refKey":4},
{"_key":"60c76b407723bebd86697dd0","_id":"references/60c76b407723bebd86697dd0","_rev":"_cfFmABC---","tei":"\n\t\n\t\tStrength and tempo of selection revealed in viral gene genealogies\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tSarahCobey\n\t\t\n\t\t\n\t\t\tMercedesPascual\n\t\t\n\t\t10.1186/1471-2148-11-220\n\t\t21787390\n\t\tPMC3199772\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c76b407723bebd86697dcf"},"refKey":0},
{"_key":"60c76b407723bebd86697dd1","_id":"references/60c76b407723bebd86697dd1","_rev":"_cfFmABK---","tei":"\n\t\n\t\tSANTA-SIM: Simulating Viral Sequence Evolution Dynamics Under Selection and Recombination\n\t\t\n\t\t\tAbbasJariani\n\t\t\n\t\t\n\t\t\tChristopherWarth\n\t\t\n\t\t\n\t\t\tKoenDeforche\n\t\t\n\t\t\n\t\t\tPieterLibin\n\t\t\n\t\t\n\t\t\tAlexeiJ Drummond\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tFrederickAMatsen\n\t\t\n\t\t\n\t\t\tKristofTheys\n\t\t\n\t\t10.1101/348508\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t3\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c76b407723bebd86697dcf"},"refKey":16},
{"_key":"60c76b407723bebd86697dd2","_id":"references/60c76b407723bebd86697dd2","_rev":"_cfFmABW---","tei":"\n\t\n\t\tDatamonkey 2.0: A Modern Web Application for Characterizing Selective and Other Evolutionary Processes\n\t\t\n\t\t\tStevenWeaver\n\t\t\n\t\t\n\t\t\tStephenDShank\n\t\t\n\t\t\n\t\t\tStephanieJSpielman\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tSpencerVMuse\n\t\t\n\t\t\n\t\t\tSergeiLKosakovsky Pond\n\t\t\n\t\t10.1093/molbev/msx335\n\t\t29301006\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c76b407723bebd86697dcf"},"refKey":43},
{"_key":"60c76b407723bebd86697dd3","_id":"references/60c76b407723bebd86697dd3","_rev":"_cfFmABi---","tei":"\n\t\n\t\tDetecting Individual Sites Subject to Episodic Diversifying Selection\n\t\t\n\t\t\tMurrell\n\t\t\n\t\t\n\t\t\tJoelOBen\n\t\t\n\t\t\n\t\t\tSashaWertheim\n\t\t\n\t\t\n\t\t\tThomasMoola\n\t\t\n\t\t\n\t\t\tKonradWeighill\n\t\t\n\t\t\n\t\t\tSergeiL KosakovskyScheffler\n\t\t\n\t\t\n\t\t\tPond\n\t\t\n\t\n\t\n\t\tPLoS Genetics\n\t\t\n\t\t\t8\n\t\t\t7\n\t\t\te1002764\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76b407723bebd86697dcf"},"refKey":32},
{"_key":"60c76b407723bebd86697dd4","_id":"references/60c76b407723bebd86697dd4","_rev":"_cfFmABu---","tei":"\n\t\n\t\tMAFFT: A Novel Method for Rapid Multiple Sequence Alignment Based on Fast Fourier Transform\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\n\t\t\n\t\t\tKazuharuMisawa\n\t\t\n\t\t\n\t\t\tKei-IchiKuma\n\t\t\n\t\t\n\t\t\tTakashiMiyata\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76b407723bebd86697dcf"},"refKey":17},
{"_key":"60c76b407723bebd86697dd5","_id":"references/60c76b407723bebd86697dd5","_rev":"_cfFmAB6---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tNguyen\n\t\t\n\t\t\n\t\t\tHeikoALam-Tung\n\t\t\n\t\t\n\t\t\tSchmidt\n\t\t\n\t\t\n\t\t\tBui QuangArndt Von Haeseler\n\t\t\n\t\t\n\t\t\tMinh\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76b407723bebd86697dcf"},"refKey":33},
{"_key":"60c76b407723bebd86697dd6","_id":"references/60c76b407723bebd86697dd6","_rev":"_cfFmACG---","tei":"\n\t\n\t\tTreeTime: Maximum-likelihood phylodynamic analysis\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tVadimPuller\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\t0000-0003-2525-1407\n\t\t\n\t\t10.1093/ve/vex042\n\t\t29340210\n\t\tPMC5758920\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t42\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c76b407723bebd86697dcf"},"refKey":39},
{"_key":"60c76b587723bebd86697deb","_id":"references/60c76b587723bebd86697deb","_rev":"_cfFmACO---","tei":"\n\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing. R Core Team.: R Foundation for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\taccessed 2021-03-05\n\n","document":{"$oid":"60c76b587723bebd86697dea"},"refKey":17},
{"_key":"60c76b657723bebd86697df5","_id":"references/60c76b657723bebd86697df5","_rev":"_cfFmACa---","tei":"\n\t\n\t\tStatistical measures were proposed for identifying longitudinal patterns of change in quantitative health indicators\n\t\t\n\t\t\tKarenLeffondré\n\t\t\n\t\t\n\t\t\tMichalAbrahamowicz\n\t\t\n\t\t\n\t\t\tArmelleRegeasse\n\t\t\n\t\t\n\t\t\tGillianAHawker\n\t\t\n\t\t\n\t\t\tElizabethMBadley\n\t\t\n\t\t\n\t\t\tJaneMccusker\n\t\t\n\t\t\n\t\t\tEricBelzile\n\t\t\n\t\t10.1016/j.jclinepi.2004.02.012\n\t\t15528056\n\t\n\t\n\t\tJournal of Clinical Epidemiology\n\t\tJournal of Clinical Epidemiology\n\t\t0895-4356\n\t\t\n\t\t\t57\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c76b657723bebd86697df4"},"refKey":2},
{"_key":"60c76ba17723bebd86697e17","_id":"references/60c76ba17723bebd86697e17","_rev":"_cfFmACm---","tei":"\n\t\n\t\tBigraphER: Rewriting and Analysis Engine for Bigraphs\n\t\t\n\t\t\tMicheleSevegnani\n\t\t\n\t\t\n\t\t\tMuffyCalder\n\t\t\n\t\t10.1007/978-3-319-41540-6_27\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tSChaudhuri\n\t\t\tAFarzan\n\t\t\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t9780\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76ba17723bebd86697e16"},"refKey":18},
{"_key":"60c76ba17723bebd86697e18","_id":"references/60c76ba17723bebd86697e18","_rev":"_cfFmACy---","tei":"\n\t\n\t\tSpatial Logics for Bigraphs\n\t\t\n\t\t\tGiovanniConforti\n\t\t\n\t\t\n\t\t\tDamianoMacedonio\n\t\t\n\t\t\n\t\t\tVladimiroSassone\n\t\t\n\t\t10.1007/11523468_62\n\t\tark:/67375/HCB-Z2KV3TV5-L\n\t\t9CC2B1393BC03E72C001F2F3422CF1ABCA48C7A9\n\t\t\n\t\t\n\t\n\t\n\t\tAutomata, Languages and Programming\n\t\t\t\t\n\t\t\tMYung\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t3580\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76ba17723bebd86697e16"},"refKey":7},
{"_key":"60c76c087723bebd86697e67","_id":"references/60c76c087723bebd86697e67","_rev":"_cfFmAD----","tei":"\n\t\n\t\tStata/IC [Statistical Software]. Version 16.1. College\n\t\t\t\tStation, Texas; StatCorp, LLC\n\t\t\n\t\n\n","document":{"$oid":"60c76c087723bebd86697e66"},"refKey":12},
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{"_key":"60c76c097723bebd86697e6c","_id":"references/60c76c097723bebd86697e6c","_rev":"_cfFmADi---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Appl Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76c097723bebd86697e69"},"refKey":63},
{"_key":"60c76c097723bebd86697e6d","_id":"references/60c76c097723bebd86697e6d","_rev":"_cfFmADq---","tei":"\n\t\n\t\tRecent changes to the MOSFLM package for processing film and image plate data\n\t\t\n\t\t\tALeslie\n\t\t\n\t\n\t\n\t\tJiont CCP4 ESF-EAMCB Newsletter. Protein Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76c097723bebd86697e69"},"refKey":58},
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{"_key":"60c76c1b7723bebd86697e85","_id":"references/60c76c1b7723bebd86697e85","_rev":"_cfFmAEO---","tei":"\n\t\n\t\tDECIPHER: harnessing local sequence context to improve protein multiple sequence alignment\n\t\t\n\t\t\tErikSWright\n\t\t\n\t\t10.1186/s12859-015-0749-z\n\t\t26445311\n\t\tPMC4595117\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t322\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c76c1b7723bebd86697e84"},"refKey":20},
{"_key":"60c76c1b7723bebd86697e86","_id":"references/60c76c1b7723bebd86697e86","_rev":"_cfFmAEa---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c76c1b7723bebd86697e84"},"refKey":25},
{"_key":"60c76c1b7723bebd86697e87","_id":"references/60c76c1b7723bebd86697e87","_rev":"_cfFmAEm---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c76c1b7723bebd86697e84"},"refKey":23},
{"_key":"60c76c1b7723bebd86697e88","_id":"references/60c76c1b7723bebd86697e88","_rev":"_cfFmAEy---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c76c1b7723bebd86697e84"},"refKey":21},
{"_key":"60c76c5f7723bebd86697eb2","_id":"references/60c76c5f7723bebd86697eb2","_rev":"_cfFmAE6---","tei":"\n\t\n\t\tNovel coronavirus: Where we are and what we know\n\t\t\n\t\t\tZJCheng\n\t\t\n\t\t\n\t\t\tJShan\n\t\t\n\t\t10.1007/s15010-020-01401-y\n\t\n\t\n\t\tInfection\n\t\t\n\t\t\t\n\t\t\n\t\n\tPublished Online\n\n","document":{"$oid":"60c76c5f7723bebd86697eb1"},"refKey":14},
{"_key":"60c76c657723bebd86697ede","_id":"references/60c76c657723bebd86697ede","_rev":"_cfFmAFG---","tei":"\n\t\n\t\tThe ChEMBL database in 2017\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tAnneHersey\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tAPatríciaBento\n\t\t\n\t\t\n\t\t\tJonChambers\n\t\t\n\t\t\n\t\t\tDavidMendez\n\t\t\n\t\t\n\t\t\tPrudenceMutowo\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tLouisaJBellis\n\t\t\n\t\t\n\t\t\tElenaCibrián-Uhalte\n\t\t\n\t\t\n\t\t\tMarkDavies\n\t\t\n\t\t\n\t\t\tNathanDedman\n\t\t\n\t\t\n\t\t\tAnneliKarlsson\n\t\t\n\t\t\n\t\t\tMaríaPaulaMagariños\n\t\t\n\t\t\n\t\t\tJohnPOverington\n\t\t\n\t\t\n\t\t\tGeorgePapadatos\n\t\t\t0000-0002-8314-7061\n\t\t\n\t\t\n\t\t\tInesSmit\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t10.1093/nar/gkw1074\n\t\t27899562\n\t\tPMC5210557\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c76c657723bebd86697edd"},"refKey":24},
{"_key":"60c76c657723bebd86697edf","_id":"references/60c76c657723bebd86697edf","_rev":"_cfFmAFS---","tei":"\n\t\n\t\tDocking Covalent Inhibitors: A Parameter Free Approach To Pose Prediction and Scoring\n\t\t\n\t\t\tKaiZhu\n\t\t\n\t\t\n\t\t\tKennethWBorrelli\n\t\t\n\t\t\n\t\t\tJeremyRGreenwood\n\t\t\n\t\t\n\t\t\tTylerDay\n\t\t\n\t\t\n\t\t\tRobertAbel\n\t\t\n\t\t\n\t\t\tRamySFarid\n\t\t\n\t\t\n\t\t\tEdwardHarder\n\t\t\n\t\t10.1021/ci500118s\n\t\t24916536\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t54\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c76c657723bebd86697edd"},"refKey":91},
{"_key":"60c76c6f7723bebd86697ef1","_id":"references/60c76c6f7723bebd86697ef1","_rev":"_cfFmAFe---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Compu. Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76c6f7723bebd86697ef0"},"refKey":24},
{"_key":"60c76cbd7723bebd86697f24","_id":"references/60c76cbd7723bebd86697f24","_rev":"_cfFmAFq---","tei":"\n\t\n\t\tClustal Omega\n\t\t\n\t\t\tFabianSievers\n\t\t\n\t\t\n\t\t\tDesmondGHiggins\n\t\t\n\t\t10.1002/0471250953.bi0313s48\n\t\t25501942\n\t\n\t\n\t\tCurr. Protoc. Bioinformat\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c76cbd7723bebd86697f23"},"refKey":34},
{"_key":"60c76cbd7723bebd86697f25","_id":"references/60c76cbd7723bebd86697f25","_rev":"_cfFmAF2---","tei":"\n\t\n\t\tProtein homology detection by HMM-HMM comparison\n\t\t\n\t\t\tJSoding\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76cbd7723bebd86697f23"},"refKey":35},
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{"_key":"60c76cbd7723bebd86697f27","_id":"references/60c76cbd7723bebd86697f27","_rev":"_cfFmAGO---","tei":"\n\t\n\t\tGromacs: A Parallel Computer for Molecular Dynamics Simulations\n\t\t\n\t\t\tHBekker\n\t\t\n\t\t\n\t\t\tHBerendsen\n\t\t\n\t\t\n\t\t\tEDijkstra\n\t\t\n\t\t\n\t\t\tSAchterop\n\t\t\n\t\t\n\t\t\tRVan Drunen\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tASijbers\n\t\t\n\t\t\n\t\t\tHKeegstra\n\t\t\n\t\t\n\t\t\tBReitsma\n\t\t\n\t\t\n\t\t\tMRenardus\n\t\t\n\t\n\t\n\t\tPhysics Computing, World Scientific Singapore\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76cbd7723bebd86697f23"},"refKey":29},
{"_key":"60c76cbd7723bebd86697f28","_id":"references/60c76cbd7723bebd86697f28","_rev":"_cfFmAGa---","tei":"\n\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tTADe Beer\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tThe SWISS-MODEL Repository-new features and functionality\n\t\t\t\t\n\t\t\t\n\t\t\t45\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76cbd7723bebd86697f23"},"refKey":22},
{"_key":"60c76cbd7723bebd86697f29","_id":"references/60c76cbd7723bebd86697f29","_rev":"_cfFmAGi---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\t\n\t\t\tFTHeer\n\t\t\n\t\t\n\t\t\tTA PDe Beer\n\t\t\n\t\t\n\t\t\tCRempfer\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tRLepore\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76cbd7723bebd86697f23"},"refKey":23},
{"_key":"60c76d3c7723bebd86697f59","_id":"references/60c76d3c7723bebd86697f59","_rev":"_cfFmAGu---","tei":"\n\t\n\t\tExpanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t\n\t\t\tJSabina\n\t\t\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t\n\t\t\tDHTurner\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t288\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76d3c7723bebd86697f58"},"refKey":29},
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{"_key":"60c76d877723bebd86697f84","_id":"references/60c76d877723bebd86697f84","_rev":"_cfFmAHS---","tei":"\n\t\n\t\tCOVOID': A flexible, freely available stochastic individual contact model for exploring COVID-19 intervention and control strategies\n\t\t\n\t\t\tTChurches\n\t\t\n\t\t\n\t\t\tLJorm\n\t\t\n\t\n\t\n\t\tJMIR Public Health and Surveillance\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76d877723bebd86697f83"},"refKey":4},
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{"_key":"60c76dde7723bebd86697fb3","_id":"references/60c76dde7723bebd86697fb3","_rev":"_cfFmAHq---","tei":"\n\t\n\t\tFurther progress in ICTVdB, a universal virus database\n\t\t\n\t\t\tCBuchen-Osmond\n\t\t\n\t\n\t\n\t\tArch. Virol\n\t\t\n\t\t\t142\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76dde7723bebd86697fb2"},"refKey":17},
{"_key":"60c76dec7723bebd86697fd1","_id":"references/60c76dec7723bebd86697fd1","_rev":"_cfFmAHy---","tei":"\n\t\n\t\tAutomated empirical optimizations of software and the ATLAS project\n\t\t\n\t\t\tRCWhaley\n\t\t\n\t\t\n\t\t\tAPetitet\n\t\t\n\t\t\n\t\t\tJDongarra\n\t\t\n\t\t10.1016/S0167-8191(00)00087-9\n\t\tS0167-8191(00)00087-9\n\t\t\n\t\n\t\n\t\tParallel Comput\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76dec7723bebd86697fd0"},"refKey":22},
{"_key":"60c76dec7723bebd86697fd2","_id":"references/60c76dec7723bebd86697fd2","_rev":"_cfFmAI----","tei":"\n\t\n\t\tPATUS: A Code Generation and Autotuning Framework for Parallel Iterative Stencil Computations on Modern Microarchitectures\n\t\t\n\t\t\tMatthiasChristen\n\t\t\n\t\t\n\t\t\tOlafSchenk\n\t\t\n\t\t\n\t\t\tHelmarBurkhart\n\t\t\n\t\t10.1109/ipdps.2011.70\n\t\t\n\t\n\t\n\t\t2011 IEEE International Parallel & Distributed Processing Symposium\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c76dec7723bebd86697fd0"},"refKey":5},
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{"_key":"60c770d87723bebd86698222","_id":"references/60c770d87723bebd86698222","_rev":"_cfFmAOe---","tei":"\n\t\n\t\tA travel guide to Cytoscape plugins\n\t\t\n\t\t\tRSaito\n\t\t\n\t\t\n\t\t\tMESmoot\n\t\t\n\t\t\n\t\t\tKOno\n\t\t\n\t\t\n\t\t\tJRuscheinski\n\t\t\n\t\t\n\t\t\tP-LWang\n\t\t\n\t\t\n\t\t\tSLotia\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c770d87723bebd86698220"},"refKey":25},
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{"_key":"60c771247723bebd86698265","_id":"references/60c771247723bebd86698265","_rev":"_cfFmAPC---","tei":"\n\t\n\t\tAn Empirical Study of Branching Heuristics through the Lens of Global Learning Rate\n\t\t\n\t\t\tJiaLiang\n\t\t\n\t\t\n\t\t\tHariGovind\n\t\t\n\t\t\n\t\t\tPascalPoupart\n\t\t\n\t\t\n\t\t\tKrzysztofCzarnecki\n\t\t\n\t\t\n\t\t\tVijayGanesh\n\t\t\n\t\t10.24963/ijcai.2018/745\n\t\t\n\t\n\t\n\t\tProceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence\n\t\t\t\tthe Twenty-Seventh International Joint Conference on Artificial Intelligence\n\t\t\n\t\t\tInternational Joint Conferences on Artificial Intelligence Organization\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c771247723bebd86698264"},"refKey":8},
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{"_key":"60c771dd7723bebd86698312","_id":"references/60c771dd7723bebd86698312","_rev":"_cfFmASG---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tBjörnLarsson\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1006/jmbi.2000.4315\n\t\t11152613\n\t\tS0022-2836(00)94315-8\n\t\tark:/67375/6H6-ZB6KWVJ7-M\n\t\t172A90B8F942FA711EF8E2CF5DB2DE13B7F2D351\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c771dd7723bebd86698310"},"refKey":14},
{"_key":"60c771dd7723bebd86698313","_id":"references/60c771dd7723bebd86698313","_rev":"_cfFmASS---","tei":"\n\t\n\t\tScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins\n\t\t\n\t\t\tEDe Castro\n\t\t\n\t\t\n\t\t\tCJ ASigrist\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\t\n\t\t\tVBulliard\n\t\t\n\t\t\n\t\t\tPSLangendijk-Genevaux\n\t\t\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t\n\t\t\tNHulo\n\t\t\n\t\t10.1093/nar/gkl124\n\t\t16845026\n\t\tPMC1538847\n\t\tark:/67375/HXZ-HTDR7K5Q-M\n\t\tA57C64211EDBC40A580B24632C9ACC76BECEA5B1\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c771dd7723bebd86698310"},"refKey":6},
{"_key":"60c771dd7723bebd86698314","_id":"references/60c771dd7723bebd86698314","_rev":"_cfFmASe---","tei":"\n\t\n\t\tPredicting coiled coils from protein sequences\n\t\t\n\t\t\tALupas\n\t\t\n\t\t\n\t\t\tMVan Dyke\n\t\t\n\t\t\n\t\t\tJStock\n\t\t\n\t\t10.1126/science.252.5009.1162\n\t\t2031185\n\t\n\t\n\t\tScience\n\t\tScience\n\t\t0036-8075\n\t\t1095-9203\n\t\t\n\t\t\t252\n\t\t\t5009\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c771dd7723bebd86698310"},"refKey":17},
{"_key":"60c771e37723bebd8669831f","_id":"references/60c771e37723bebd8669831f","_rev":"_cfFmASq---","tei":"\n\t\n\t\tPractical Considerations for Building GROMOS-Compatible Small-Molecule Topologies\n\t\t\n\t\t\tJustinALemkul\n\t\t\n\t\t\n\t\t\tWilliamJAllen\n\t\t\n\t\t\n\t\t\tDavidRBevan\n\t\t\n\t\t10.1021/ci100335w\n\t\t21117688\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t50\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c771e37723bebd8669831e"},"refKey":17},
{"_key":"60c771e37723bebd86698320","_id":"references/60c771e37723bebd86698320","_rev":"_cfFmAS2---","tei":"\n\t\n\t\tGoing further than Lipinski's rule in drug design\n\t\t\n\t\t\tWPWalters\n\t\t\n\t\t10.1517/17460441.2012.648612\n\t\t22468912\n\t\t\n\t\n\t\n\t\tExpert Opinion on Drug Discovery\n\t\tExpert Opinion on Drug Discovery\n\t\t1746-0441\n\t\t1746-045X\n\t\t\n\t\t\t7\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma Healthcare\n\t\t\n\t\n\n","document":{"$oid":"60c771e37723bebd8669831e"},"refKey":35},
{"_key":"60c771e37723bebd86698321","_id":"references/60c771e37723bebd86698321","_rev":"_cfFmATC---","tei":"\n\t\n\t\tBDDCS, the Rule of 5 and drugability\n\t\t\n\t\t\tLeslieZBenet\n\t\t\n\t\t\n\t\t\tChelseaMHosey\n\t\t\n\t\t\n\t\t\tOlegUrsu\n\t\t\n\t\t\n\t\t\tTudorIOprea\n\t\t\n\t\t10.1016/j.addr.2016.05.007\n\t\t27182629\n\t\tPMC4910824\n\t\t\n\t\t\n\t\n\t\n\t\tAdvanced Drug Delivery Reviews\n\t\tAdvanced Drug Delivery Reviews\n\t\t0169-409X\n\t\t\n\t\t\t101\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c771e37723bebd8669831e"},"refKey":3},
{"_key":"60c772427723bebd8669836d","_id":"references/60c772427723bebd8669836d","_rev":"_cfFmATO---","tei":"\n\t\n\t\tNetwork pharmacology and molecular docking analyses on Lianhua Qingwen capsule indicate Akt1 is a potential target to treat and prevent COVID-19\n\t\t\n\t\t\tQDXia\n\t\t\n\t\t\n\t\t\tYXun\n\t\t\n\t\t\n\t\t\tJLLu\n\t\t\n\t\tID e12949\n\t\n\t\n\t\tCell Proliferation\n\t\t\n\t\t\t53\n\t\t\t12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c772427723bebd8669836c"},"refKey":11},
{"_key":"60c772427723bebd8669836e","_id":"references/60c772427723bebd8669836e","_rev":"_cfFmATa---","tei":"\n\t\n\t\tTarget Identification of Active Constituents of Shen Qi Wan to Treat Kidney Yang Deficiency Using Computational Target Fishing and Network Pharmacology\n\t\t\n\t\t\tJieYingZhang\n\t\t\n\t\t\n\t\t\tChunLanHong\n\t\t\n\t\t\n\t\t\tHongShuChen\n\t\t\n\t\t\n\t\t\tXiaoJieZhou\n\t\t\n\t\t\n\t\t\tYuJiaZhang\n\t\t\n\t\t\n\t\t\tThomasEfferth\n\t\t\n\t\t\n\t\t\tYuanXiaoYang\n\t\t\n\t\t\n\t\t\tChangYuLi\n\t\t\n\t\t10.3389/fphar.2019.00650\n\t\t\n\t\n\t\n\t\tFrontiers in Pharmacology\n\t\tFront. Pharmacol.\n\t\t1663-9812\n\t\t\n\t\t\t10\n\t\t\t650\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c772427723bebd8669836c"},"refKey":21},
{"_key":"60c7724f7723bebd86698381","_id":"references/60c7724f7723bebd86698381","_rev":"_cfFmATm---","tei":"\n\t\n\t\tVarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing\n\t\t\n\t\t\tDCKoboldt\n\t\t\n\t\t\n\t\t\tQZhang\n\t\t\n\t\t\n\t\t\tDELarson\n\t\t\n\t\t\n\t\t\tDShen\n\t\t\n\t\t\n\t\t\tMDMclellan\n\t\t\n\t\t\n\t\t\tLLin\n\t\t\n\t\t\n\t\t\tCAMiller\n\t\t\n\t\t\n\t\t\tERMardis\n\t\t\n\t\t\n\t\t\tLDing\n\t\t\n\t\t\n\t\t\tRKWilson\n\t\t\n\t\t10.1101/gr.129684.111\n\t\t22300766\n\t\tPMC3290792\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t22\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7724f7723bebd86698380"},"refKey":182},
{"_key":"60c7724f7723bebd86698382","_id":"references/60c7724f7723bebd86698382","_rev":"_cfFmATy---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\t10.1093/bioinformatics/btr509\n\t\t21903627\n\t\tPMC3198575\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7724f7723bebd86698380"},"refKey":173},
{"_key":"60c7724f7723bebd86698383","_id":"references/60c7724f7723bebd86698383","_rev":"_cfFmAU----","tei":"\n\t\n\t\tGenome Project Data Processing Subgroup The Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7724f7723bebd86698380"},"refKey":183},
{"_key":"60c7724f7723bebd86698384","_id":"references/60c7724f7723bebd86698384","_rev":"_cfFmAUK---","tei":"\n\t\n\t\tSpolPred: rapid and accurate prediction of Mycobacterium tuberculosis spoligotypes from short genomic sequences\n\t\t\n\t\t\tFrancescColl\n\t\t\n\t\t\n\t\t\tKimMallard\n\t\t\n\t\t\n\t\t\tMarkDPreston\n\t\t\n\t\t\n\t\t\tStephenBentley\n\t\t\n\t\t\n\t\t\tJulianParkhill\n\t\t\n\t\t\n\t\t\tRuthMcnerney\n\t\t\n\t\t\n\t\t\tNigelMartin\n\t\t\n\t\t\n\t\t\tTaaneGClark\n\t\t\n\t\t10.1093/bioinformatics/bts544\n\t\t23014632\n\t\tPMC3496340\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7724f7723bebd86698380"},"refKey":238},
{"_key":"60c7724f7723bebd86698385","_id":"references/60c7724f7723bebd86698385","_rev":"_cfFmAUW---","tei":"\n\t\n\t\tSpoTyping: fast and accurate in silico Mycobacterium spoligotyping from sequence reads\n\t\t\n\t\t\tEryuXia\n\t\t\n\t\t\n\t\t\tYik-YingTeo\n\t\t\n\t\t\n\t\t\tRick Twee-HeeOng\n\t\t\n\t\t10.1186/s13073-016-0270-7\n\t\t26883915\n\t\tPMC4756441\n\t\t\n\t\n\t\n\t\tGenome Medicine\n\t\tGenome Med\n\t\t1756-994X\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7724f7723bebd86698380"},"refKey":239},
{"_key":"60c7724f7723bebd86698386","_id":"references/60c7724f7723bebd86698386","_rev":"_cfFmAUi---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7724f7723bebd86698380"},"refKey":172},
{"_key":"60c7724f7723bebd86698387","_id":"references/60c7724f7723bebd86698387","_rev":"_cfFmAUy---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows–Wheeler transform\n\t\t\n\t\t\tHengLi\n\t\t\n\t\t\n\t\t\tRichardDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp698\n\t\t20080505\n\t\tPMC2828108\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7724f7723bebd86698380"},"refKey":174},
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{"_key":"60c7740c7723bebd866984f5","_id":"references/60c7740c7723bebd866984f5","_rev":"_cfFmAaa---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\t: R Foundation for Statistical Computing. accessed 2020-11-28\n\n","document":{"$oid":"60c7740c7723bebd866984f3"},"refKey":34},
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{"_key":"60c7756b7723bebd866986a9","_id":"references/60c7756b7723bebd866986a9","_rev":"_cfFmAgK---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7756b7723bebd866986a6"},"refKey":61},
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{"_key":"60c775947723bebd866986d5","_id":"references/60c775947723bebd866986d5","_rev":"_cfFmAg6---","tei":"\n\t\n\t\tStructure validation by Ca geometry: phi,psi and Cb deviation\n\t\t\n\t\t\tSCLovell\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tWBArendall 3rd\n\t\t\n\t\t\n\t\t\tPIDe Bakker\n\t\t\n\t\t\n\t\t\tJMWord\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c775947723bebd866986d3"},"refKey":23},
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{"_key":"60c775fc7723bebd86698725","_id":"references/60c775fc7723bebd86698725","_rev":"_cfFmAhO---","tei":"\n\t\n\t\tOn the physical geometry concept at the basis of space/time geostatistical hydrology\n\t\t\n\t\t\tGChristakos\n\t\t\n\t\t\n\t\t\tDTHristopulos\n\t\t\n\t\t\n\t\t\tPBogaert\n\t\t\n\t\t10.1016/s0309-1708(00)00020-8\n\t\tS0309-1708(00)00020-8\n\t\tark:/67375/6H6-577V6Q3L-S\n\t\t0D78B00A53470421F97C0211B767FE8F94B131DE\n\t\t\n\t\n\t\n\t\tAdvances in Water Resources\n\t\tAdvances in Water Resources\n\t\t0309-1708\n\t\t\n\t\t\t23\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c775fc7723bebd86698724"},"refKey":20},
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{"_key":"60c776df7723bebd86698803","_id":"references/60c776df7723bebd86698803","_rev":"_cfFmAk----","tei":"\n\t\n\t\tBicPAMS: software for biological data analysis with pattern-based biclustering\n\t\t\n\t\t\tRuiHenriques\n\t\t\n\t\t\n\t\t\tFranciscoLFerreira\n\t\t\n\t\t\n\t\t\tSaraCMadeira\n\t\t\n\t\t10.1186/s12859-017-1493-3\n\t\t28153040\n\t\tPMC5290636\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t18\n\t\t\t1\n\t\t\t82\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c776df7723bebd86698802"},"refKey":14},
{"_key":"60c776df7723bebd86698804","_id":"references/60c776df7723bebd86698804","_rev":"_cfFmAkG---","tei":"\n\t\n\t\tBSig: evaluating the statistical significance of biclustering solutions\n\t\t\n\t\t\tRHenriques\n\t\t\n\t\t\n\t\t\tSCMadeira\n\t\t\n\t\n\t\n\t\tData Min. Knowl. Disc\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c776df7723bebd86698802"},"refKey":17},
{"_key":"60c777247723bebd8669882d","_id":"references/60c777247723bebd8669882d","_rev":"_cfFmAkS---","tei":"\n\t\n\t\tExpanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t\n\t\t\tJSabina\n\t\t\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t\n\t\t\tDHTurner\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t288\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c777247723bebd8669882c"},"refKey":37},
{"_key":"60c777247723bebd8669882e","_id":"references/60c777247723bebd8669882e","_rev":"_cfFmAke---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c777247723bebd8669882c"},"refKey":53},
{"_key":"60c777d27723bebd86698889","_id":"references/60c777d27723bebd86698889","_rev":"_cfFmAkq---","tei":"\n\t\n\t\tA simple and practical algorithm for differentially private data release\n\t\t\n\t\t\tMHardt\n\t\t\n\t\t\n\t\t\tKLigett\n\t\t\n\t\t\n\t\t\tFMcsherry\n\t\t\n\t\n\t\n\t\tAdvances in Neural Information Processing Systems\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c777d27723bebd86698888"},"refKey":11},
{"_key":"60c777f87723bebd866988a1","_id":"references/60c777f87723bebd866988a1","_rev":"_cfFmAk2---","tei":"\n\t\n\t\tInvestigation of the freely available easy-to-use software "EZR" for medical statistics\n\t\t\n\t\t\tYKanda\n\t\t\n\t\n\t\n\t\tBone Marrow Transplant\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c777f87723bebd866988a0"},"refKey":19},
{"_key":"60c7785d7723bebd866988c3","_id":"references/60c7785d7723bebd866988c3","_rev":"_cfFmAlC---","tei":"\n\t\n\t\tSeverity Assessment and Progression Prediction of COVID-19 Patients based on the LesionEncoder Framework and Chest CT\n\t\t\n\t\t\tY.-ZFeng\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7785d7723bebd866988c2"},"refKey":19},
{"_key":"60c7785d7723bebd866988c4","_id":"references/60c7785d7723bebd866988c4","_rev":"_cfFmAlO---","tei":"\n\t\n\t\tScikit-learn: Machine Learning in {P}ython\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\n\t\n\t\tJ. Mach. Learn. Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7785d7723bebd866988c2"},"refKey":39},
{"_key":"60c7785d7723bebd866988c5","_id":"references/60c7785d7723bebd866988c5","_rev":"_cfFmAlW---","tei":"\n\t\n\t\tXGBoost: A Scalable Tree Boosting System\n\t\t\n\t\t\tTChen\n\t\t\n\t\t\n\t\t\tCGuestrin\n\t\t\n\t\n\t\n\t\tProceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\t\tthe 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7785d7723bebd866988c2"},"refKey":28},
{"_key":"60c778677723bebd866988ce","_id":"references/60c778677723bebd866988ce","_rev":"_cfFmAli---","tei":"\n\t\n\t\tCSSE GitHub-CSSEGISandData/COVID-19: Novel Coronavirus (COVID-19) Cases (data repository\n\t\t\n\t\t\tJohnsHopkins\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778677723bebd866988cd"},"refKey":15},
{"_key":"60c7786b7723bebd866988dd","_id":"references/60c7786b7723bebd866988dd","_rev":"_cfFmAlu---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7786b7723bebd866988dc"},"refKey":28},
{"_key":"60c778d37723bebd86698902","_id":"references/60c778d37723bebd86698902","_rev":"_cfFmAl6---","tei":"\n\t\n\t\tHaploview: analysis and visualization of LD and haplotype maps\n\t\t\n\t\t\tJCBarrett\n\t\t\n\t\t\n\t\t\tBFry\n\t\t\n\t\t\n\t\t\tJMaller\n\t\t\n\t\t\n\t\t\tMJDaly\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 15297300\n\n","document":{"$oid":"60c778d37723bebd86698901"},"refKey":25},
{"_key":"60c778d77723bebd8669890b","_id":"references/60c778d77723bebd8669890b","_rev":"_cfFmAmG---","tei":"\n\t\n\t\tFast gapped-read alignment with bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":15},
{"_key":"60c778d77723bebd8669890c","_id":"references/60c778d77723bebd8669890c","_rev":"_cfFmAmS---","tei":"\n\t\n\t\tLoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cellpopulation heterogeneity from high-throughput sequencing datasets\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tPpkAw\n\t\t\n\t\t\n\t\t\tDBertrand\n\t\t\n\t\t\n\t\t\tGhtYeo\n\t\t\n\t\t\n\t\t\tSHOng\n\t\t\n\t\t\n\t\t\tCHWong\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":26},
{"_key":"60c778d77723bebd8669890d","_id":"references/60c778d77723bebd8669890d","_rev":"_cfFmAme---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: a MapReduce framework for analyzing nextgeneration DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tASivachenko\n\t\t\n\t\t\n\t\t\tKCibulskis\n\t\t\n\t\t\n\t\t\tAKernytsky\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":23},
{"_key":"60c778d77723bebd8669890e","_id":"references/60c778d77723bebd8669890e","_rev":"_cfFmAmm---","tei":"\n\t\n\t\tA framework for variation discovery and genotyping using next-generation DNA sequencing data\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tRPoplin\n\t\t\n\t\t\n\t\t\tK VGarimella\n\t\t\n\t\t\n\t\t\tJRMaguire\n\t\t\n\t\t\n\t\t\tCHartl\n\t\t\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":24},
{"_key":"60c778d77723bebd8669890f","_id":"references/60c778d77723bebd8669890f","_rev":"_cfFmAmy---","tei":"\n\t\n\t\tFrom FastQ Data to High-Confidence Variant Calls: The Genome Analysis Toolkit Best Practices Pipeline\n\t\t\n\t\t\tGAVan Der Auwera\n\t\t\n\t\t\n\t\t\tMOCarneiro\n\t\t\n\t\t\n\t\t\tCHartl\n\t\t\n\t\t\n\t\t\tRPoplin\n\t\t\n\t\t\n\t\t\tGDel Angel\n\t\t\n\t\t\n\t\t\tALevy-Moonshine\n\t\t\n\t\t10.1002/0471250953.bi1110s43.\n\t\t11.10.1-11.10.33\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":25},
{"_key":"60c778d77723bebd86698910","_id":"references/60c778d77723bebd86698910","_rev":"_cfFmAn----","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":14},
{"_key":"60c778d77723bebd86698911","_id":"references/60c778d77723bebd86698911","_rev":"_cfFmAnK---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":28},
{"_key":"60c778d77723bebd86698912","_id":"references/60c778d77723bebd86698912","_rev":"_cfFmAnW---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":19},
{"_key":"60c778d77723bebd86698913","_id":"references/60c778d77723bebd86698913","_rev":"_cfFmAni---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":16},
{"_key":"60c778d77723bebd86698914","_id":"references/60c778d77723bebd86698914","_rev":"_cfFmAnu---","tei":"\n\t\n\t\tGenome sequence assembly using trace signals and additional sequence information\n\t\t\n\t\t\tBChevreux\n\t\t\n\t\t\n\t\t\tTWetter\n\t\t\n\t\t\n\t\t\tSSuhai\n\t\t\n\t\n\t\n\t\tComput Sci Biol Proc Ger Conf Bioinforma\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":17},
{"_key":"60c778d77723bebd86698915","_id":"references/60c778d77723bebd86698915","_rev":"_cfFmAn6---","tei":"\n\t\n\t\tSnippy: fast bacterial variant calling from NGS reads\n\t\t\n\t\t\tTSeemann\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":22},
{"_key":"60c778d77723bebd86698916","_id":"references/60c778d77723bebd86698916","_rev":"_cfFmAoG---","tei":"\n\t\n\t\tAssembling Single-Cell Genomes and Mini-Metagenomes From Chimeric MDA Products\n\t\t\n\t\t\tSergeyNurk\n\t\t\n\t\t\n\t\t\tAntonBankevich\n\t\t\n\t\t\n\t\t\tDmitryAntipov\n\t\t\n\t\t\n\t\t\tAlexeyAGurevich\n\t\t\n\t\t\n\t\t\tAntonKorobeynikov\n\t\t\n\t\t\n\t\t\tAllaLapidus\n\t\t\n\t\t\n\t\t\tAndreyDPrjibelski\n\t\t\n\t\t\n\t\t\tAlexeyPyshkin\n\t\t\n\t\t\n\t\t\tAlexanderSirotkin\n\t\t\n\t\t\n\t\t\tYakovSirotkin\n\t\t\n\t\t\n\t\t\tRamunasStepanauskas\n\t\t\n\t\t\n\t\t\tScottRClingenpeel\n\t\t\n\t\t\n\t\t\tTanjaWoyke\n\t\t\n\t\t\n\t\t\tJeffreySMclean\n\t\t\n\t\t\n\t\t\tRogerLasken\n\t\t\n\t\t\n\t\t\tGlennTesler\n\t\t\n\t\t\n\t\t\tMaxAAlekseyev\n\t\t\n\t\t\n\t\t\tPavelAPevzner\n\t\t\n\t\t10.1089/cmb.2013.0084\n\t\t24093227\n\t\tPMC3791033\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t20\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":18},
{"_key":"60c778d77723bebd86698917","_id":"references/60c778d77723bebd86698917","_rev":"_cfFmAoW---","tei":"\n\t\n\t\tProkka: rapid prokaryotic genome annotation\n\t\t\n\t\t\tTSeemann\n\t\t\n\t\t10.1093/bioinformatics/btu153\n\t\t24642063\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c778d77723bebd8669890a"},"refKey":21},
{"_key":"60c778ee7723bebd86698940","_id":"references/60c778ee7723bebd86698940","_rev":"_cfFmAoi---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778ee7723bebd8669893f"},"refKey":42},
{"_key":"60c778fd7723bebd86698943","_id":"references/60c778fd7723bebd86698943","_rev":"_cfFmAou---","tei":"\n\t\n\t\tConducting meta-analyses in R with the metafor package\n\t\t\n\t\t\tWViechtbauer\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c778fd7723bebd86698942"},"refKey":19},
{"_key":"60c778fd7723bebd8669894a","_id":"references/60c778fd7723bebd8669894a","_rev":"_cfFmAo6---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c778fd7723bebd86698949"},"refKey":13},
{"_key":"60c779077723bebd86698950","_id":"references/60c779077723bebd86698950","_rev":"_cfFmApG---","tei":"\n\t\n\t\tMplus User's Guide\n\t\t\n\t\t\tMuthénLinda\n\t\t\n\t\t\n\t\t\tKMuthén\n\t\t\n\t\t\n\t\t\tBO\n\t\t\n\t\tMuthén & Muthén\n\t\t\n\t\t\t\n\t\t\tLos Angeles, CA\n\t\t\n\t\n\n","document":{"$oid":"60c779077723bebd8669894f"},"refKey":33},
{"_key":"60c779117723bebd86698955","_id":"references/60c779117723bebd86698955","_rev":"_cfFmApS---","tei":"\n\t\n\t\tThe cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data: Figure 1.\n\t\t\n\t\t\tEthanCerami\n\t\t\n\t\t\n\t\t\tJianjiongGao\n\t\t\n\t\t\n\t\t\tUgurDogrusoz\n\t\t\n\t\t\n\t\t\tBenjaminEGross\n\t\t\n\t\t\n\t\t\tSelcukOnurSumer\n\t\t\n\t\t\n\t\t\tBülentArmanAksoy\n\t\t\n\t\t\n\t\t\tAndersJacobsen\n\t\t\n\t\t\n\t\t\tCaitlinJByrne\n\t\t\n\t\t\n\t\t\tMichaelLHeuer\n\t\t\n\t\t\n\t\t\tErikLarsson\n\t\t\n\t\t\n\t\t\tYevgeniyAntipin\n\t\t\n\t\t\n\t\t\tBorisReva\n\t\t\n\t\t\n\t\t\tArthurPGoldberg\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t\n\t\t\tNikolausSchultz\n\t\t\n\t\t10.1158/2159-8290.cd-12-0095\n\t\t22588877\n\t\tPMC3956037\n\t\t\n\t\n\t\n\t\tCancer Discovery\n\t\tCancer Discovery\n\t\t2159-8274\n\t\t2159-8290\n\t\t\n\t\t\t2\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c779117723bebd86698954"},"refKey":64},
{"_key":"60c779117723bebd86698956","_id":"references/60c779117723bebd86698956","_rev":"_cfFmApe---","tei":"\n\t\n\t\tIntegrative Analysis of Complex Cancer Genomics and Clinical Profiles Using the cBioPortal\n\t\t\n\t\t\tJGao\n\t\t\n\t\t\n\t\t\tBAAksoy\n\t\t\n\t\t\n\t\t\tUDogrusoz\n\t\t\n\t\t\n\t\t\tGDresdner\n\t\t\n\t\t\n\t\t\tBGross\n\t\t\n\t\t\n\t\t\tSOSumer\n\t\t\n\t\t\n\t\t\tYSun\n\t\t\n\t\t\n\t\t\tAJacobsen\n\t\t\n\t\t\n\t\t\tRSinha\n\t\t\n\t\t\n\t\t\tELarsson\n\t\t\n\t\t\n\t\t\tECerami\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\t\n\t\t\tNSchultz\n\t\t\n\t\t10.1126/scisignal.2004088\n\t\t23550210\n\t\tPMC4160307\n\t\t\n\t\n\t\n\t\tScience Signaling\n\t\tScience Signaling\n\t\t1945-0877\n\t\t1937-9145\n\t\t\n\t\t\t6\n\t\t\t269\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for the Advancement of Science (AAAS)\n\t\t\n\t\n\n","document":{"$oid":"60c779117723bebd86698954"},"refKey":65},
{"_key":"60c7793d7723bebd8669897b","_id":"references/60c7793d7723bebd8669897b","_rev":"_cfFmApq---","tei":"\n\t\n\t\tConducting meta-analyses in R with the metafor package\n\t\t\n\t\t\tWViechtbauer\n\t\t\n\t\n\t\n\t\tJ Statist Software\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7793d7723bebd8669897a"},"refKey":31},
{"_key":"60c779867723bebd866989a2","_id":"references/60c779867723bebd866989a2","_rev":"_cfFmAp2---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779867723bebd866989a1"},"refKey":19},
{"_key":"60c779a37723bebd866989ba","_id":"references/60c779a37723bebd866989ba","_rev":"_cfFmAqC---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallographica. Section D: Biological Crystallography\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779a37723bebd866989b9"},"refKey":51},
{"_key":"60c779a37723bebd866989bb","_id":"references/60c779a37723bebd866989bb","_rev":"_cfFmAqO---","tei":"\n\t\n\t\tProcheck -a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779a37723bebd866989b9"},"refKey":32},
{"_key":"60c779c67723bebd866989de","_id":"references/60c779c67723bebd866989de","_rev":"_cfFmAqa---","tei":"\n\t\n\t\tA GPU compatible quasi-Monte Carlo integrator interfaced to pySecDec\n\t\t\n\t\t\tSBorowka\n\t\t\t0000-0003-4482-1962\n\t\t\n\t\t\n\t\t\tGHeinrich\n\t\t\t0000-0002-0834-3011\n\t\t\n\t\t\n\t\t\tSJahn\n\t\t\n\t\t\n\t\t\tSPJones\n\t\t\n\t\t\n\t\t\tMKerner\n\t\t\n\t\t\n\t\t\tJSchlenk\n\t\t\n\t\t10.1016/j.cpc.2019.02.015\n\t\tarXiv:1811.11720v1\n\t\t\n\t\n\t\n\t\tComputer Physics Communications\n\t\tComputer Physics Communications\n\t\t0010-4655\n\t\t\n\t\t\t240\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPreprint:\n\thep-ph\n\n","document":{"$oid":"60c779c67723bebd866989dd"},"refKey":4},
{"_key":"60c779c67723bebd866989df","_id":"references/60c779c67723bebd866989df","_rev":"_cfFmAqm---","tei":"\n\t\n\t\tAn adaptive algorithm for numerical integration over an n-dimensional cube\n\t\t\n\t\t\tLDe Ridder\n\t\t\n\t\t\n\t\t\tPVan Dooren\n\t\t\n\t\n\t\n\t\tJ. Comput. Appl. Math\n\t\t\n\t\t\t2\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779c67723bebd866989dd"},"refKey":6},
{"_key":"60c779c67723bebd866989e0","_id":"references/60c779c67723bebd866989e0","_rev":"_cfFmAqy---","tei":"\n\t\n\t\tQUADPACK. A Subroutine Package for Automatic Integration\n\t\t\n\t\t\tRPiessens\n\t\t\n\t\t\n\t\t\tEDe Doncker\n\t\t\n\t\t\n\t\t\tCWÜberhuber\n\t\t\n\t\t\n\t\t\tDKKahaner\n\t\t\n\t\t10.1007/978-3-642-61786-7\n\t\t\n\t\n\t\n\t\tSpringer Series in Computational Mathematics\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c779c67723bebd866989dd"},"refKey":28},
{"_key":"60c779c67723bebd866989e1","_id":"references/60c779c67723bebd866989e1","_rev":"_cfFmAr----","tei":"\n\t\n\t\tRemarks on algorithm 006: An adaptive algorithm for numerical integration over an N-dimensional rectangular region\n\t\t\n\t\t\tACGenz\n\t\t\n\t\t\n\t\t\tAAMalik\n\t\t\n\t\t10.1016/0771-050x(80)90039-x\n\t\n\t\n\t\tJournal of Computational and Applied Mathematics\n\t\tJournal of Computational and Applied Mathematics\n\t\t0377-0427\n\t\t\n\t\t\t6\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c779c67723bebd866989dd"},"refKey":13},
{"_key":"60c779c67723bebd866989e2","_id":"references/60c779c67723bebd866989e2","_rev":"_cfFmArG---","tei":"\n\t\n\t\tAlgorithm 698; DCUHRE: an adaptive multidemensional integration routine for a vector of integrals\n\t\t\n\t\t\tJarleBerntsen\n\t\t\n\t\t\n\t\t\tTerjeOEspelid\n\t\t\n\t\t\n\t\t\tAlanGenz\n\t\t\n\t\t10.1145/210232.210234\n\t\n\t\n\t\tACM Transactions on Mathematical Software\n\t\tACM Trans. Math. Softw.\n\t\t0098-3500\n\t\t\n\t\t\t17\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c779c67723bebd866989dd"},"refKey":2},
{"_key":"60c779c67723bebd866989e3","_id":"references/60c779c67723bebd866989e3","_rev":"_cfFmArS---","tei":"\n\t\n\t\tAlgorithm 958: lattice builder: a general software tool for constructing rank-1 lattice rules\n\t\t\n\t\t\tPL'equyer\n\t\t\n\t\t\n\t\t\tDMunger\n\t\t\n\t\n\t\n\t\tACM Trans. Math. Softw\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779c67723bebd866989dd"},"refKey":21},
{"_key":"60c779c67723bebd866989e4","_id":"references/60c779c67723bebd866989e4","_rev":"_cfFmAre---","tei":"\n\t\n\t\tAutomated one-loop calculations in four and D dimensions\n\t\t\n\t\t\tTHahn\n\t\t\n\t\t\n\t\t\tMPérez-Victoria\n\t\t\n\t\t10.1016/s0010-4655(98)00173-8\n\t\tS0010-4655(98)00173-8\n\t\tark:/67375/6H6-VMR4SSNR-2\n\t\t9B7502B5DB7054D7F80E6F6C6785FC6E6159E410\n\t\thep-ph/9807565\n\t\t\n\t\n\t\n\t\tComputer Physics Communications\n\t\tComputer Physics Communications\n\t\t0010-4655\n\t\t\n\t\t\t118\n\t\t\t2-3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c779c67723bebd866989dd"},"refKey":16},
{"_key":"60c779d07723bebd86698a12","_id":"references/60c779d07723bebd86698a12","_rev":"_cfFmArq---","tei":"\n\t\n\t\tJack intelligent agentscomponents for intelligent agents in Java\n\t\t\n\t\t\tPBusetta\n\t\t\n\t\t\n\t\t\tRRönnquist\n\t\t\n\t\t\n\t\t\tAHodgson\n\t\t\n\t\t\n\t\t\tALucas\n\t\t\n\t\n\t\n\t\tAgentLink News Lett\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779d07723bebd86698a11"},"refKey":9},
{"_key":"60c779d07723bebd86698a13","_id":"references/60c779d07723bebd86698a13","_rev":"_cfFmAr2---","tei":"\n\t\n\t\tJADE-A FIPA-compliant agent framework\n\t\t\n\t\t\tFBellifemine\n\t\t\n\t\t\n\t\t\tAPoggi\n\t\t\n\t\t\n\t\t\tGRimassa\n\t\t\n\t\n\t\n\t\tProceedings of PAAM\n\t\t\n\t\t\t99\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779d07723bebd86698a11"},"refKey":2},
{"_key":"60c779d07723bebd86698a14","_id":"references/60c779d07723bebd86698a14","_rev":"_cfFmAsC---","tei":"\n\t\n\t\tBDI Agent Programming in AgentSpeak Using Jason\n\t\t\n\t\t\tRafaelHBordini\n\t\t\n\t\t\n\t\t\tJomiFHübner\n\t\t\n\t\t10.1007/11750734_9\n\t\tark:/67375/HCB-FNV2J6PP-9\n\t\tE5F23FEB30BD388CCAEEBD3D6156DDEBE8FB64BF\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\tHoboken\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t8\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779d07723bebd86698a11"},"refKey":6},
{"_key":"60c779e47723bebd86698a23","_id":"references/60c779e47723bebd86698a23","_rev":"_cfFmAsO---","tei":"\n\t\n\t\taLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity\n\t\t\n\t\t\tShigehiroKuraku\n\t\t\n\t\t\n\t\t\tChristianMZmasek\n\t\t\n\t\t\n\t\t\tOsamuNishimura\n\t\t\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\n\t\t10.1093/nar/gkt389\n\t\t23677614\n\t\tPMC3692103\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c779e47723bebd86698a22"},"refKey":10},
{"_key":"60c779f57723bebd86698a2d","_id":"references/60c779f57723bebd86698a2d","_rev":"_cfFmAsa---","tei":"\n\t\n\t\tTraining in the year of the eye: the impact of the COVID-19 pandemic on ophthalmic education\n\t\t\n\t\t\tSKBakshi\n\t\t\n\t\t\n\t\t\tACHo\n\t\t\n\t\t\n\t\t\tJChodosh\n\t\t\n\t\t\n\t\t\tATFung\n\t\t\n\t\t\n\t\t\tRvpChan\n\t\t\n\t\t\n\t\t\tDswTing\n\t\t\n\t\n\t\n\t\tBr J Ophthalmol\n\t\t\n\t\t\t104\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779f57723bebd86698a2c"},"refKey":2},
{"_key":"60c779f57723bebd86698a2e","_id":"references/60c779f57723bebd86698a2e","_rev":"_cfFmAsm---","tei":"\n\t\n\t\tCOVID-19 crisis and residency education: a moment to seize the opportunity and create a new road map!\n\t\t\n\t\t\tAKGrover\n\t\t\n\t\n\t\n\t\tIndian J Ophthalmol\n\t\t\n\t\t\t68\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779f57723bebd86698a2c"},"refKey":11},
{"_key":"60c779f57723bebd86698a2f","_id":"references/60c779f57723bebd86698a2f","_rev":"_cfFmAsy---","tei":"\n\t\n\t\tCommentary: Restructuring residency training in ophthalmology during COVID-19 era: challenges and opportunities\n\t\t\n\t\t\tAKumar\n\t\t\n\t\t\n\t\t\tDAgarwal\n\t\t\n\t\n\t\n\t\tIndian J Ophthalmol\n\t\t\n\t\t\t68\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779f57723bebd86698a2c"},"refKey":16},
{"_key":"60c779f57723bebd86698a30","_id":"references/60c779f57723bebd86698a30","_rev":"_cfFmAt----","tei":"\n\t\n\t\tMedical education Amid the COVID-19 pandemic\n\t\t\n\t\t\tPKSahi\n\t\t\n\t\t\n\t\t\tDMishra\n\t\t\n\t\t\n\t\t\tTSingh\n\t\t\n\t\n\t\n\t\tIndian Pediatr\n\t\t\n\t\t\t57\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779f57723bebd86698a2c"},"refKey":24},
{"_key":"60c779f57723bebd86698a31","_id":"references/60c779f57723bebd86698a31","_rev":"_cfFmAtG---","tei":"\n\t\n\t\tAcademic ophthalmology during and after the COVID-19 Pandemic\n\t\t\n\t\t\tTYWong\n\t\t\n\t\t\n\t\t\tFBandello\n\t\t\n\t\n\t\n\t\tOphthalmol\n\t\t\n\t\t\t127\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779f57723bebd86698a2c"},"refKey":35},
{"_key":"60c779ff7723bebd86698a3e","_id":"references/60c779ff7723bebd86698a3e","_rev":"_cfFmAtS---","tei":"\n\t\n\t\tOpen Babel: an open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\t\n\t\t\tCMorley\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c779ff7723bebd86698a3d"},"refKey":38},
{"_key":"60c77a107723bebd86698b18","_id":"references/60c77a107723bebd86698b18","_rev":"_cfFmAte---","tei":"\n\t\n\t\tG*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences\n\t\t\n\t\t\tFranzFaul\n\t\t\n\t\t\n\t\t\tEdgarErdfelder\n\t\t\n\t\t\n\t\t\tAlbert-GeorgLang\n\t\t\n\t\t\n\t\t\tAxelBuchner\n\t\t\n\t\t10.3758/bf03193146\n\t\t17695343\n\t\t\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\tBehavior Research Methods\n\t\t1554-351X\n\t\t1554-3528\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c77a107723bebd86698b17"},"refKey":7},
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{"_key":"60c77b877723bebd86698c98","_id":"references/60c77b877723bebd86698c98","_rev":"_cfFmAym---","tei":"\n\t\n\t\tCreating 3-Dimensional Molecular Models to Help Students Visualize Stereoselective Reaction Pathways\n\t\t\n\t\t\tMO'brien\n\t\t\n\t\t10.1021/acs.jchemed.6b00250\n\t\t\n\t\n\t\n\t\tJournal of Chemical Education\n\t\tJ. Chem. Educ.\n\t\t0021-9584\n\t\t1938-1328\n\t\t\n\t\t\t93\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c77b877723bebd86698c95"},"refKey":32},
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{"_key":"60c77b877723bebd86698c9b","_id":"references/60c77b877723bebd86698c9b","_rev":"_cfFmAzK---","tei":"\n\t\n\t\tBiomolecules come alive: a computerbased laboratory experiment for chemistry students\n\t\t\n\t\t\tNLHaworth\n\t\t\n\t\t\n\t\t\tLLMartin\n\t\t\n\t\n\t\n\t\tJ Chem Educ\n\t\t\n\t\t\t95\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77b877723bebd86698c95"},"refKey":30},
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{"_key":"60c77b877723bebd86698c9f","_id":"references/60c77b877723bebd86698c9f","_rev":"_cfFmAz6---","tei":"\n\t\n\t\tTwo-dimensional atomic and molecular orbital displays using Mathematica\n\t\t\n\t\t\tRandolphCooper\n\t\t\n\t\t\n\t\t\tJosephCasanova\n\t\t\n\t\t10.1021/ed068p487\n\t\n\t\n\t\tJournal of Chemical Education\n\t\tJ. Chem. Educ.\n\t\t0021-9584\n\t\t1938-1328\n\t\t\n\t\t\t68\n\t\t\t6\n\t\t\t487\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c77b877723bebd86698c95"},"refKey":28},
{"_key":"60c77b877723bebd86698ca0","_id":"references/60c77b877723bebd86698ca0","_rev":"_cfFmA0G---","tei":"\n\t\n\t\tThe 3Dmoljs Learning Environment: A Classroom Response System for 3D Chemical Structures\n\t\t\n\t\t\tKSeshadri\n\t\t\n\t\t\n\t\t\tPLiu\n\t\t\n\t\t\n\t\t\tDRKoes\n\t\t\n\t\n\t\n\t\tJ Chem Educ\n\t\t\n\t\t\t97\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77b877723bebd86698c95"},"refKey":23},
{"_key":"60c77b897723bebd86698cc2","_id":"references/60c77b897723bebd86698cc2","_rev":"_cfFmA0S---","tei":"\n\t\n\t\tExploring the SARS-CoV-2 virus-host-drug interactome for drug repurposing\n\t\t\n\t\t\tSSadegh\n\t\t\n\t\t\n\t\t\tJMatschinske\n\t\t\n\t\t\n\t\t\tDBBlumenthal\n\t\t\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t11\n\t\t\t3518\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77b897723bebd86698cc1"},"refKey":57},
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{"_key":"60c77b897723bebd86698cc4","_id":"references/60c77b897723bebd86698cc4","_rev":"_cfFmA0q---","tei":"\n\t\n\t\tMolAICal: a soft tool for 3D drug design of protein targets by artificial intelligence and classical algorithm\n\t\t\n\t\t\tQBai\n\t\t\n\t\t\n\t\t\tSTan\n\t\t\n\t\t\n\t\t\tTXu\n\t\t\n\t\t10.1093/bib/bbaa161\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t2020\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77b897723bebd86698cc1"},"refKey":46},
{"_key":"60c77b947723bebd86698cd4","_id":"references/60c77b947723bebd86698cd4","_rev":"_cfFmA02---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77b947723bebd86698cd3"},"refKey":11},
{"_key":"60c77b9c7723bebd86698d88","_id":"references/60c77b9c7723bebd86698d88","_rev":"_cfFmA1C---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77b9c7723bebd86698d87"},"refKey":28},
{"_key":"60c77b9c7723bebd86698d89","_id":"references/60c77b9c7723bebd86698d89","_rev":"_cfFmA1O---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77b9c7723bebd86698d87"},"refKey":29},
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{"_key":"60c77b9c7723bebd86698d8b","_id":"references/60c77b9c7723bebd86698d8b","_rev":"_cfFmA1q---","tei":"\n\t\n\t\tPhylogenetic Analysis Using Parsimony (*and Other Methods). Vers. 4.0\n\t\t\n\t\t\tDLSwofford\n\t\t\n\t\t\n\t\t\tPaup*\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tSinauer Associates\n\t\t\tSunderland, Massachusetts\n\t\t\n\t\n\n","document":{"$oid":"60c77b9c7723bebd86698d87"},"refKey":30},
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{"_key":"60c77bee7723bebd86698dd1","_id":"references/60c77bee7723bebd86698dd1","_rev":"_cfFmA2C---","tei":"\n\t\n\t\tSoftware survey: VOSviewer, a computer program for bibliometric mapping\n\t\t\n\t\t\tNJVan Eck\n\t\t\n\t\t\n\t\t\tLWaltman\n\t\t\n\t\t\n\t\t\tEWach\n\t\t\n\t\t\n\t\t\tRWard\n\t\t\n\t\n\t\n\t\tScientometrics\n\t\t\n\t\t\t84\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tLearning about qualitative document analysis\n\n","document":{"$oid":"60c77bee7723bebd86698dd0"},"refKey":42},
{"_key":"60c77bee7723bebd86698dd2","_id":"references/60c77bee7723bebd86698dd2","_rev":"_cfFmA2O---","tei":"\n\t\n\t\tExamining the usage, citation, and diffusion patterns of bibliometric mapping software: A comparative study of three tools\n\t\t\n\t\t\tXuelianPan\n\t\t\n\t\t\n\t\t\tErjiaYan\n\t\t\n\t\t\n\t\t\tMingCui\n\t\t\n\t\t\n\t\t\tWeinaHua\n\t\t\t0000-0001-5850-4461\n\t\t\n\t\t10.1016/j.joi.2018.03.005\n\t\n\t\n\t\tJournal of Informetrics\n\t\tJournal of Informetrics\n\t\t1751-1577\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c77bee7723bebd86698dd0"},"refKey":34},
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{"_key":"60c77c817723bebd86698e51","_id":"references/60c77c817723bebd86698e51","_rev":"_cfFmA3e---","tei":"\n\t\n\t\tNIH image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77c817723bebd86698e50"},"refKey":75},
{"_key":"60c77cb67723bebd86698e7f","_id":"references/60c77cb67723bebd86698e7f","_rev":"_cfFmA3u---","tei":"\n\t\n\t\tA new lumped structure photochemical mechanism for large-scale applications\n\t\t\n\t\t\tRAZaveri\n\t\t\n\t\t\n\t\t\tLKPeters\n\t\t\n\t\n\t\n\t\tJ. Geophys. Res. Atmos\n\t\t\n\t\t\t104\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77cb67723bebd86698e7e"},"refKey":59},
{"_key":"60c77cb67723bebd86698e80","_id":"references/60c77cb67723bebd86698e80","_rev":"_cfFmA36---","tei":"\n\t\n\t\tModel for simulating aerosol Interactions and chemistry (MOSAIC)\n\t\t\n\t\t\tRAZaveri\n\t\t\n\t\t\n\t\t\tRCEaster\n\t\t\n\t\t\n\t\t\tJDFast\n\t\t\n\t\t\n\t\t\tLKPeters\n\t\t\n\t\n\t\n\t\tJ. Geophys. Res. Atmos\n\t\t\n\t\t\t113\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77cb67723bebd86698e7e"},"refKey":58},
{"_key":"60c77cd57723bebd86698e97","_id":"references/60c77cd57723bebd86698e97","_rev":"_cfFmA4K---","tei":"\n\t\n\t\tAPE 5.0: An Environment for Modern Phylogenetics and Evolutionary Analyses in R'\n\t\t\n\t\t\tEParadis\n\t\t\n\t\t\n\t\t\tKSchliep\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77cd57723bebd86698e96"},"refKey":36},
{"_key":"60c77cd57723bebd86698e98","_id":"references/60c77cd57723bebd86698e98","_rev":"_cfFmA4e---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLTNguyen\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77cd57723bebd86698e96"},"refKey":33},
{"_key":"60c77cd57723bebd86698e99","_id":"references/60c77cd57723bebd86698e99","_rev":"_cfFmA4u---","tei":"\n\t\n\t\tPhangorn: Phylogenetic Analysis in R'\n\t\t\n\t\t\tKPSchliep\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77cd57723bebd86698e96"},"refKey":41},
{"_key":"60c77cd57723bebd86698e9a","_id":"references/60c77cd57723bebd86698e9a","_rev":"_cfFmA5----","tei":"\n\t\n\t\tEnsembl\n\t\t\n\t\t\tDRZerbino\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77cd57723bebd86698e96"},"refKey":55},
{"_key":"60c77cd57723bebd86698e9b","_id":"references/60c77cd57723bebd86698e9b","_rev":"_cfFmA5O---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77cd57723bebd86698e96"},"refKey":25},
{"_key":"60c77cf87723bebd86698ecb","_id":"references/60c77cf87723bebd86698ecb","_rev":"_cfFmA5a---","tei":"\n\t\n\t\tThe Insight ToolKit image registration framework\n\t\t\n\t\t\tBrianBAvants\n\t\t\n\t\t\n\t\t\tNicholasJTustison\n\t\t\n\t\t\n\t\t\tMichaelStauffer\n\t\t\n\t\t\n\t\t\tGangSong\n\t\t\n\t\t\n\t\t\tBaohuaWu\n\t\t\n\t\t\n\t\t\tJamesCGee\n\t\t\n\t\t10.3389/fninf.2014.00044\n\t\t24817849\n\t\tPMC4009425\n\t\t\n\t\n\t\n\t\tFrontiers in Neuroinformatics\n\t\tFront. Neuroinform.\n\t\t1662-5196\n\t\t\n\t\t\t8\n\t\t\t44\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\tpublished Online First: Epub Date\n\n","document":{"$oid":"60c77cf87723bebd86698eca"},"refKey":4},
{"_key":"60c77d1e7723bebd86698ee6","_id":"references/60c77d1e7723bebd86698ee6","_rev":"_cfFmA5q---","tei":"\n\t\n\t\tGurobi optimizer reference manual\n\t\t\n\t\t\tLlc Gurobi Optimization\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77d1e7723bebd86698ee5"},"refKey":22},
{"_key":"60c77d1e7723bebd86698ee7","_id":"references/60c77d1e7723bebd86698ee7","_rev":"_cfFmA52---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHengLi\n\t\t\n\t\t\n\t\t\tBobHandsaker\n\t\t\n\t\t\n\t\t\tAlecWysoker\n\t\t\n\t\t\n\t\t\tTimFennell\n\t\t\n\t\t\n\t\t\tJueRuan\n\t\t\n\t\t\n\t\t\tNilsHomer\n\t\t\n\t\t\n\t\t\tGaborMarth\n\t\t\n\t\t\n\t\t\tGoncaloAbecasis\n\t\t\n\t\t\n\t\t\tRichardDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77d1e7723bebd86698ee5"},"refKey":23},
{"_key":"60c77d207723bebd86698eff","_id":"references/60c77d207723bebd86698eff","_rev":"_cfFmA6G---","tei":"\n\t\n\t\tMatplotlib: A 2d graphics environment\n\t\t\n\t\t\tJDHunter\n\t\t\n\t\n\t\n\t\tComputing in Science & Engineering\n\t\t\n\t\t\t9\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77d207723bebd86698efe"},"refKey":80},
{"_key":"60c77d207723bebd86698f00","_id":"references/60c77d207723bebd86698f00","_rev":"_cfFmA6S---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPauliVirtanen\n\t\t\n\t\t\n\t\t\tRalfGommers\n\t\t\n\t\t\n\t\t\tTravisEOliphant\n\t\t\n\t\t\n\t\t\tMattHaberland\n\t\t\n\t\t\n\t\t\tTylerReddy\n\t\t\n\t\t\n\t\t\tDavidCournapeau\n\t\t\n\t\t\n\t\t\tEvgeniBurovski\n\t\t\n\t\t\n\t\t\tPearuPeterson\n\t\t\n\t\t\n\t\t\tWarrenWeckesser\n\t\t\n\t\t\n\t\t\tJonathanBright\n\t\t\n\t\t\n\t\t\tJStéfan\n\t\t\n\t\t\n\t\t\tMatthewVan Der Walt\n\t\t\n\t\t\n\t\t\tJoshuaBrett\n\t\t\n\t\t\n\t\t\tKJarrodWilson\n\t\t\n\t\t\n\t\t\tNikolayMillman\n\t\t\n\t\t\n\t\t\tMayorov\n\t\t\n\t\t\n\t\t\tRJAndrew\n\t\t\n\t\t\n\t\t\tEricNelson\n\t\t\n\t\t\n\t\t\tRobertJones\n\t\t\n\t\t\n\t\t\tEricKern\n\t\t\n\t\t\n\t\t\tC JLarson\n\t\t\n\t\t\n\t\t\tİlhanCarey\n\t\t\n\t\t\n\t\t\tYuPolat\n\t\t\n\t\t\n\t\t\tEricWFeng\n\t\t\n\t\t\n\t\t\tJakeMoore\n\t\t\n\t\t\n\t\t\tDenisVan-Derplas\n\t\t\n\t\t\n\t\t\tJosefLaxalde\n\t\t\n\t\t\n\t\t\tRobertPerktold\n\t\t\n\t\t\n\t\t\tIanCimrman\n\t\t\n\t\t\n\t\t\tEAHenriksen\n\t\t\n\t\t\n\t\t\tCharlesRQuintero\n\t\t\n\t\t\n\t\t\tAnneMHarris\n\t\t\n\t\t\n\t\t\tAntônioHArchibald\n\t\t\n\t\t\n\t\t\tFabianRibeiro\n\t\t\n\t\t\n\t\t\tPedregosa\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tPaul van Mulbregt\n\t\t\n\t\n\tand SciPy 1.0 Contributors. SciPy 1.0: Fundamental Algorithms for Scientific Computing in Python\n\n","document":{"$oid":"60c77d207723bebd86698efe"},"refKey":77},
{"_key":"60c77d207723bebd86698f01","_id":"references/60c77d207723bebd86698f01","_rev":"_cfFmA6i---","tei":"\n\t\n\t\tArray programming with NumPy\n\t\t\n\t\t\tCharlesRHarris\n\t\t\n\t\t\n\t\t\tKJarrodMillman\n\t\t\n\t\t\n\t\t\tJSt'efan\n\t\t\n\t\t\n\t\t\tRalfVan Der Walt\n\t\t\n\t\t\n\t\t\tPauliGommers\n\t\t\n\t\t\n\t\t\tDavidVirtanen\n\t\t\n\t\t\n\t\t\tEricCournapeau\n\t\t\n\t\t\n\t\t\tJulianWieser\n\t\t\n\t\t\n\t\t\tSebastianTaylor\n\t\t\n\t\t\n\t\t\tNathanielJBerg\n\t\t\n\t\t\n\t\t\tRobertSmith\n\t\t\n\t\t\n\t\t\tMattiKern\n\t\t\n\t\t\n\t\t\tStephanPicus\n\t\t\n\t\t\n\t\t\tMartenHHoyer\n\t\t\n\t\t\n\t\t\tMatthewVan Kerkwijk\n\t\t\n\t\t\n\t\t\tAllanBrett\n\t\t\n\t\t\n\t\t\tJaimeHaldane\n\t\t\n\t\t\n\t\t\tMarkFern\n\t\t\n\t\t\n\t\t\tPearuWiebe\n\t\t\n\t\t\n\t\t\tPeterson\n\t\t\n\t\t\n\t\t\tGPierre\n\t\t\n\t\t\n\t\t\tKevin'erard-Marchant\n\t\t\n\t\t\n\t\t\tTylerSheppard\n\t\t\n\t\t\n\t\t\tWarrenReddy\n\t\t\n\t\t\n\t\t\tHameerWeckesser\n\t\t\n\t\t\n\t\t\tChristophAbbasi\n\t\t\n\t\t\n\t\t\tTravisEGohlke\n\t\t\n\t\t\n\t\t\tOliphant\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t585\n\t\t\t7825\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77d207723bebd86698efe"},"refKey":78},
{"_key":"60c77d207723bebd86698f02","_id":"references/60c77d207723bebd86698f02","_rev":"_cfFmA6u---","tei":"\n\t\n\t\tNumba: A llvm-based python jit compiler\n\t\t\n\t\t\tAntoineSiu Kwan Lam\n\t\t\n\t\t\n\t\t\tStanleyPitrou\n\t\t\n\t\t\n\t\t\tSeibert\n\t\t\n\t\n\t\n\t\tProceedings of the Second Workshop on the LLVM Compiler Infrastructure in HPC\n\t\t\t\tthe Second Workshop on the LLVM Compiler Infrastructure in HPC\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77d207723bebd86698efe"},"refKey":79},
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{"_key":"60c77d457723bebd86698f59","_id":"references/60c77d457723bebd86698f59","_rev":"_cfFmA7S---","tei":"\n\t\n\t\tModeling of loops in protein structures\n\t\t\n\t\t\tAndrásFiser\n\t\t\n\t\t\n\t\t\tRichardKinh GianDo\n\t\t\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t10.1110/ps.9.9.1753\n\t\t11045621\n\t\tPMC2144714\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t9\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c77d457723bebd86698f57"},"refKey":55},
{"_key":"60c77d457723bebd86698f5a","_id":"references/60c77d457723bebd86698f5a","_rev":"_cfFmA7e---","tei":"\n\t\n\t\tComparative protein modeling by satisfaction of spatial restraints\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tTBlundell\n\t\t\n\t\t10.1107/s0108767396095578\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t52\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c77d457723bebd86698f57"},"refKey":56},
{"_key":"60c77d4e7723bebd86698f65","_id":"references/60c77d4e7723bebd86698f65","_rev":"_cfFmA7q---","tei":"\n\t\n\t\tAnalysis of complex survey samples\n\t\t\n\t\t\tTLumley\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77d4e7723bebd86698f64"},"refKey":10},
{"_key":"60c77d527723bebd86698f68","_id":"references/60c77d527723bebd86698f68","_rev":"_cfFmA72---","tei":"\n\t\n\t\tMAFFT online service: multiple sequence alignment, interactive sequence choice and visualization\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\t0000-0003-4133-8393\n\t\t\n\t\t\n\t\t\tJohnRozewicki\n\t\t\n\t\t\n\t\t\tKazunoriDYamada\n\t\t\n\t\t10.1093/bib/bbx108\n\t\t28968734\n\t\t\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t20\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c77d527723bebd86698f67"},"refKey":25},
{"_key":"60c77d617723bebd86698f82","_id":"references/60c77d617723bebd86698f82","_rev":"_cfFmA8C---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77d617723bebd86698f81"},"refKey":21},
{"_key":"60c77e207723bebd86698fb9","_id":"references/60c77e207723bebd86698fb9","_rev":"_cfFmA8O---","tei":"\n\t\n\t\tThe Amber biomolecular simulation programs\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tTDarden\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tKMMerz\n\t\t\n\t\t\n\t\t\tJr\n\t\t\n\t\t\n\t\t\tAOnufriev\n\t\t\n\t\t\n\t\t\tCSimmerling\n\t\t\n\t\t\n\t\t\tBWang\n\t\t\n\t\t\n\t\t\tRJWoods\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77e207723bebd86698fb8"},"refKey":36},
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{"_key":"60c77e207723bebd86698fbb","_id":"references/60c77e207723bebd86698fbb","_rev":"_cfFmA8m---","tei":"\n\t\n\t\tComparison of multiple Amber force fields and development of improved protein backbone parameters\n\t\t\n\t\t\tVHornak\n\t\t\n\t\t\n\t\t\tRAbel\n\t\t\n\t\t\n\t\t\tAOkur\n\t\t\n\t\t\n\t\t\tBStrockbine\n\t\t\n\t\t\n\t\t\tARoitberg\n\t\t\n\t\t\n\t\t\tCSimmerling\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77e207723bebd86698fb8"},"refKey":39},
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{"_key":"60c77e447723bebd86698fe4","_id":"references/60c77e447723bebd86698fe4","_rev":"_cfFmA9----","tei":"\n\t\n\t\tDetection of SARS-CoV-2 with SHERLOCK One-Pot Testing\n\t\t\n\t\t\tJJoung\n\t\t\n\t\t\n\t\t\tALadha\n\t\t\n\t\t\n\t\t\tMSaito\n\t\t\n\t\t\n\t\t\tNGKim\n\t\t\n\t\t\n\t\t\tAEWoolley\n\t\t\n\t\t\n\t\t\tMSegel\n\t\t\n\t\t\n\t\t\tRP JBarretto\n\t\t\n\t\t\n\t\t\tARanu\n\t\t\n\t\t\n\t\t\tRKMacrae\n\t\t\n\t\t\n\t\t\tGFaure\n\t\t\n\t\t10.1056/NEJMc2026172\n\t\n\t\n\t\tN. Engl. J. Med\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77e447723bebd86698fe3"},"refKey":114},
{"_key":"60c77e577723bebd86698ff0","_id":"references/60c77e577723bebd86698ff0","_rev":"_cfFmA9G---","tei":"\n\t\n\t\tImproved peak-calling with MACS2\n\t\t\n\t\t\tJMGasper\n\t\t\n\t\t10.1101/496521\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c77e577723bebd86698fef"},"refKey":63},
{"_key":"60c77e577723bebd86698ff1","_id":"references/60c77e577723bebd86698ff1","_rev":"_cfFmA9S---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77e577723bebd86698fef"},"refKey":62},
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{"_key":"60c77e577723bebd86698ff3","_id":"references/60c77e577723bebd86698ff3","_rev":"_cfFmA9q---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77e577723bebd86698fef"},"refKey":77},
{"_key":"60c77e667723bebd86699008","_id":"references/60c77e667723bebd86699008","_rev":"_cfFmA92---","tei":"\n\t\n\t\tglmmADMB: generalized linear mixed models using AD Model Builder\n\t\t\n\t\t\tHJSkaug\n\t\t\n\t\t\n\t\t\tDAFournier\n\t\t\n\t\t\n\t\t\tANielsen\n\t\t\n\t\t\n\t\t\tAMagnusson\n\t\t\n\t\t\n\t\t\tBMBolker\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 0.7.7. <http://r-forge.r-project.org/projects/glmmadmb/>\n\n","document":{"$oid":"60c77e667723bebd86699007"},"refKey":55},
{"_key":"60c77f477723bebd8669906f","_id":"references/60c77f477723bebd8669906f","_rev":"_cfFmB-C---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tTGojobori\n\t\t\n\t\t\n\t\t\t;SKumar\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tBriefBioinform\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77f477723bebd8669906e"},"refKey":25},
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{"_key":"60c77f987723bebd8669909a","_id":"references/60c77f987723bebd8669909a","_rev":"_cfFmB-W---","tei":"\n\t\n\t\tMaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification\n\t\t\n\t\t\tJCox\n\t\t\n\t\t\n\t\t\tMMann\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c77f987723bebd86699099"},"refKey":36},
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{"_key":"60c77f9c7723bebd866990ca","_id":"references/60c77f9c7723bebd866990ca","_rev":"_cfFmB-y---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVienna: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c77f9c7723bebd866990c9"},"refKey":42},
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{"_key":"60c77fc87723bebd866990f8","_id":"references/60c77fc87723bebd866990f8","_rev":"_cfFmB_q---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tBjörnLarsson\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1006/jmbi.2000.4315\n\t\t11152613\n\t\tS0022-2836(00)94315-8\n\t\tark:/67375/6H6-ZB6KWVJ7-M\n\t\t172A90B8F942FA711EF8E2CF5DB2DE13B7F2D351\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c77fc87723bebd866990f7"},"refKey":34},
{"_key":"60c77fc87723bebd866990f9","_id":"references/60c77fc87723bebd866990f9","_rev":"_cfFmB_2---","tei":"\n\t\n\t\tA Combined Transmembrane Topology and Signal Peptide Prediction Method\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1016/j.jmb.2004.03.016\n\t\t15111065\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t338\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c77fc87723bebd866990f7"},"refKey":37},
{"_key":"60c77fc87723bebd866990fa","_id":"references/60c77fc87723bebd866990fa","_rev":"_cfFmBAC---","tei":"\n\t\n\t\tTransmembrane protein topology prediction using support vector machines\n\t\t\n\t\t\tTimothyNugent\n\t\t\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t10.1186/1471-2105-10-159\n\t\t19470175\n\t\tPMC2700806\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c77fc87723bebd866990f7"},"refKey":35},
{"_key":"60c77fc87723bebd866990fb","_id":"references/60c77fc87723bebd866990fb","_rev":"_cfFmBAS---","tei":"\n\t\n\t\tThe TOPCONS web server for consensus prediction of membrane protein topology and signal peptides\n\t\t\n\t\t\tKonstantinosDTsirigos\n\t\t\n\t\t\n\t\t\tChristophPeters\n\t\t\n\t\t\n\t\t\tNanjiangShu\n\t\t\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tArneElofsson\n\t\t\n\t\t10.1093/nar/gkv485\n\t\t25969446\n\t\tPMC4489233\n\t\tdoi:10.1093/ nar/gkv485\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c77fc87723bebd866990f7"},"refKey":38},
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{"_key":"60c77fc87723bebd866990fd","_id":"references/60c77fc87723bebd866990fd","_rev":"_cfFmBAu---","tei":"\n\t\n\t\tMolecular code for transmembrane-helix recognition by the Sec61 translocon\n\t\t\n\t\t\tTaraHessa\n\t\t\n\t\t\n\t\t\tNadjaMMeindl-Beinker\n\t\t\n\t\t\n\t\t\tAndreasBernsel\n\t\t\n\t\t\n\t\t\tHyunKim\n\t\t\n\t\t\n\t\t\tYokoSato\n\t\t\n\t\t\n\t\t\tMirjamLerch-Bader\n\t\t\n\t\t\n\t\t\tIngmarieNilsson\n\t\t\n\t\t\n\t\t\tStephenHWhite\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t10.1038/nature06387\n\t\t18075582\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t450\n\t\t\t7172\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c77fc87723bebd866990f7"},"refKey":32},
{"_key":"60c77fc87723bebd866990fe","_id":"references/60c77fc87723bebd866990fe","_rev":"_cfFmBA6---","tei":"\n\t\n\t\tRecognition of transmembrane helices by the endoplasmic reticulum translocon\n\t\t\n\t\t\tTaraHessa\n\t\t\n\t\t\n\t\t\tHyunKim\n\t\t\n\t\t\n\t\t\tKarlBihlmaier\n\t\t\n\t\t\n\t\t\tCarolinaLundin\n\t\t\n\t\t\n\t\t\tJorritBoekel\n\t\t\n\t\t\n\t\t\tHelenaAndersson\n\t\t\n\t\t\n\t\t\tIngmarieNilsson\n\t\t\n\t\t\n\t\t\tStephenHWhite\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t10.1038/nature03216\n\t\t15674282\n\t\tark:/67375/GT4-MQ83TFP6-6\n\t\t505824C86BCB61F9BD35CA8CC21A4BF360681D48\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t433\n\t\t\t7024\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c77fc87723bebd866990f7"},"refKey":33},
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{"_key":"60c780227723bebd8669915b","_id":"references/60c780227723bebd8669915b","_rev":"_cfFmBBm---","tei":"\n\t\n\t\tAutomatic time series forecasting: The forecast Package for R\n\t\t\n\t\t\tRJHyndman\n\t\t\n\t\t\n\t\t\tYKhandakar\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t27\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c780227723bebd8669915a"},"refKey":11},
{"_key":"60c780577723bebd8669917e","_id":"references/60c780577723bebd8669917e","_rev":"_cfFmBB2---","tei":"\n\t\n\t\tA New Statistical Method for Haplotype Reconstruction from Population Data\n\t\t\n\t\t\tMatthewStephens\n\t\t\n\t\t\n\t\t\tNicholasJSmith\n\t\t\n\t\t\n\t\t\tPeterDonnelly\n\t\t\n\t\t10.1086/319501\n\t\t11254454\n\t\tPMC1275651\n\t\tS0002-9297(07)61424-4\n\t\tark:/67375/6H6-X5JLLHRW-V\n\t\t96F1F729A6531FC5522F82CE025C2539C1235EF6\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t68\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c780577723bebd8669917d"},"refKey":37},
{"_key":"60c780577723bebd8669917f","_id":"references/60c780577723bebd8669917f","_rev":"_cfFmBCC---","tei":"\n\t\n\t\tAccounting for Decay of Linkage Disequilibrium in Haplotype Inference and Missing-Data Imputation\n\t\t\n\t\t\tMatthewStephens\n\t\t\n\t\t\n\t\t\tPaulScheet\n\t\t\n\t\t10.1086/428594\n\t\t15700229\n\t\tPMC1196397\n\t\t\n\t\n\t\n\t\tThe American Journal of Human Genetics\n\t\tThe American Journal of Human Genetics\n\t\t0002-9297\n\t\t\n\t\t\t76\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c780577723bebd8669917d"},"refKey":36},
{"_key":"60c780577723bebd86699180","_id":"references/60c780577723bebd86699180","_rev":"_cfFmBCO---","tei":"\n\t\n\t\tHaploview: analysis and visualization of LD and haplotype maps\n\t\t\n\t\t\tJCBarrett\n\t\t\n\t\t\n\t\t\tBFry\n\t\t\n\t\t\n\t\t\tJMaller\n\t\t\n\t\t\n\t\t\tMJDaly\n\t\t\n\t\t10.1093/bioinformatics/bth457\n\t\t15297300\n\t\tark:/67375/HXZ-3SPSWFJX-W\n\t\t3295380AF8929390661554EBE01C16C6085BCB3C\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c780577723bebd8669917d"},"refKey":1},
{"_key":"60c780577723bebd86699181","_id":"references/60c780577723bebd86699181","_rev":"_cfFmBCa---","tei":"\n\t\n\t\tMedian-joining networks for inferring intraspecific phylogenies\n\t\t\n\t\t\tHJBandelt\n\t\t\n\t\t\n\t\t\tPForster\n\t\t\n\t\t\n\t\t\tARohl\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c780577723bebd8669917d"},"refKey":0},
{"_key":"60c780577723bebd86699182","_id":"references/60c780577723bebd86699182","_rev":"_cfFmBCq---","tei":"\n\t\n\t\tUnrooted genealogical tree probabilities in the infinitely-many-sites model\n\t\t\n\t\t\tRCGriffiths\n\t\t\n\t\t\n\t\t\tSimonTavaré\n\t\t\n\t\t10.1016/0025-5564(94)00044-z\n\t\t7734858\n\t\t0025-5564(94)00044-Z\n\t\tark:/67375/6H6-XK7GGXZ3-H\n\t\tF34C8D69BD3E5518F9D48CC6D40F6DCB88563774\n\t\n\t\n\t\tMathematical Biosciences\n\t\tMathematical Biosciences\n\t\t0025-5564\n\t\t\n\t\t\t127\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c780577723bebd8669917d"},"refKey":13},
{"_key":"60c780577723bebd86699183","_id":"references/60c780577723bebd86699183","_rev":"_cfFmBC2---","tei":"\n\t\n\t\tSampling theory for neutral alleles in a varying environment\n\t\t\n\t\t\tRCGriffiths\n\t\t\n\t\t\n\t\t\tSTavare\n\t\t\n\t\t10.1098/rstb.1994.0079\n\t\n\t\n\t\tPhilos Trans R Soc Lond B Biol Sci\n\t\t\n\t\t\t344\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c780577723bebd8669917d"},"refKey":12},
{"_key":"60c780577723bebd86699184","_id":"references/60c780577723bebd86699184","_rev":"_cfFmBDC---","tei":"\n\t\n\t\tlibsequence: a C++ class library for evolutionary genetic analysis\n\t\t\n\t\t\tKThornton\n\t\t\n\t\t10.1093/bioinformatics/btg316\n\t\t14630667\n\t\tark:/67375/HXZ-3LFMKN5D-V\n\t\t77BFF3AE1235BC8977BE7B8640A9D6A003FC8587\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c780577723bebd8669917d"},"refKey":41},
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{"_key":"60c780787723bebd8669919d","_id":"references/60c780787723bebd8669919d","_rev":"_cfFmBDa---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\n\t\n\t\tInterJournal Complex Systems\n\t\t\n\t\t\t1695\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c780787723bebd8669919c"},"refKey":45},
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{"_key":"60c781227723bebd86699219","_id":"references/60c781227723bebd86699219","_rev":"_cfFmBHO---","tei":"\n\t\n\t\tThe Modest Toolset: An Integrated Environment for Quantitative Modelling and Verification\n\t\t\n\t\t\tArndHartmanns\n\t\t\n\t\t\n\t\t\tHolgerHermanns\n\t\t\n\t\t10.1007/978-3-642-54862-8_51\n\t\t\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\t\n\t\t\tEÁbrahám\n\t\t\tKHavelund\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t8413\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c781227723bebd86699212"},"refKey":5},
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{"_key":"60c781407723bebd86699283","_id":"references/60c781407723bebd86699283","_rev":"_cfFmBHu---","tei":"\n\t\n\t\tThe Dresden Azzembler for Long Reads Project\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tdazzler blog\n\n","document":{"$oid":"60c781407723bebd86699282"},"refKey":20},
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{"_key":"60c781407723bebd86699286","_id":"references/60c781407723bebd86699286","_rev":"_cfFmBIS---","tei":"\n\t\n\t\tConstructing Similarity Graphs from Large-Scale Biological Sequence Collections\n\t\t\n\t\t\tJaroslawZola\n\t\t\n\t\t10.1109/ipdpsw.2014.63\n\t\n\t\n\t\t2014 IEEE International Parallel & Distributed Processing Symposium Workshops\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c781407723bebd86699282"},"refKey":32},
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{"_key":"60c781837723bebd866992d5","_id":"references/60c781837723bebd866992d5","_rev":"_cfFmBJK---","tei":"\n\t\n\t\tA new generation of information retrieval tools for biologists: the example of the ExPASy WWW server\n\t\t\n\t\t\tRonDAppel\n\t\t\n\t\t\n\t\t\tAmosBairoch\n\t\t\n\t\t\n\t\t\tDenisFHochstrasser\n\t\t\n\t\t10.1016/0968-0004(94)90153-8\n\t\t8073505\n\t\t0968-0004(94)90153-8\n\t\tark:/67375/6H6-7KX1DSZ3-Z\n\t\t0DC3B9DAB8AC8D6A1FE350CCFA16BC09B0191381\n\t\n\t\n\t\tTrends in Biochemical Sciences\n\t\tTrends in Biochemical Sciences\n\t\t0968-0004\n\t\t\n\t\t\t19\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c781837723bebd866992d3"},"refKey":1},
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{"_key":"60c782037723bebd86699356","_id":"references/60c782037723bebd86699356","_rev":"_cfFmBKe---","tei":"\n\t\n\t\tBioMart – biological queries made easy\n\t\t\n\t\t\tDamianSmedley\n\t\t\n\t\t\n\t\t\tSyedHaider\n\t\t\n\t\t\n\t\t\tBenoitBallester\n\t\t\n\t\t\n\t\t\tRichardHolland\n\t\t\n\t\t\n\t\t\tDarinLondon\n\t\t\n\t\t\n\t\t\tGudmundurThorisson\n\t\t\n\t\t\n\t\t\tArekKasprzyk\n\t\t\n\t\t10.1186/1471-2164-10-22\n\t\t19144180\n\t\tPMC2649164\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t22\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c782037723bebd86699353"},"refKey":52},
{"_key":"60c782157723bebd8669936d","_id":"references/60c782157723bebd8669936d","_rev":"_cfFmBKm---","tei":"\n\t\n\t\tBioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucl. Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c782157723bebd8669936c"},"refKey":23},
{"_key":"60c782157723bebd8669936e","_id":"references/60c782157723bebd8669936e","_rev":"_cfFmBKy---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c782157723bebd8669936c"},"refKey":26},
{"_key":"60c782157723bebd8669936f","_id":"references/60c782157723bebd8669936f","_rev":"_cfFmBL----","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c782157723bebd8669936c"},"refKey":24},
{"_key":"60c782157723bebd86699370","_id":"references/60c782157723bebd86699370","_rev":"_cfFmBLK---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c782157723bebd8669936c"},"refKey":25},
{"_key":"60c782157723bebd86699371","_id":"references/60c782157723bebd86699371","_rev":"_cfFmBLW---","tei":"\n\t\n\t\tContacts-based prediction of binding affinity in protein–protein complexes\n\t\t\n\t\t\tAnnaVangone\n\t\t\n\t\t\n\t\t\tAlexandreMjjBonvin\n\t\t\t0000-0001-7369-1322\n\t\t\n\t\t10.7554/elife.07454\n\t\t26193119\n\t\tPMC4523921\n\t\n\t\n\t\teLife\n\t\t2050-084X\n\t\t\n\t\t\t4\n\t\t\te07454\n\t\t\t\n\t\t\teLife Sciences Publications, Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c782157723bebd8669936c"},"refKey":27},
{"_key":"60c782157723bebd86699372","_id":"references/60c782157723bebd86699372","_rev":"_cfFmBLi---","tei":"\n\t\n\t\tPRODIGY: a web server for predicting the binding affinity of protein–protein complexes\n\t\t\n\t\t\tLiCXue\n\t\t\n\t\t\n\t\t\tJoãoPglmRodrigues\n\t\t\n\t\t\n\t\t\tPanagiotisLKastritis\n\t\t\n\t\t\n\t\t\tAlexandreMjjBonvin\n\t\t\n\t\t\n\t\t\tAnnaVangone\n\t\t\n\t\t10.1093/bioinformatics/btw514\n\t\t27503228\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\tbtw514\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c782157723bebd8669936c"},"refKey":28},
{"_key":"60c782177723bebd86699381","_id":"references/60c782177723bebd86699381","_rev":"_cfFmBLu---","tei":"\n\t\n\t\tComparison of Rosetta flexible-backbone computational protein design methods on binding interactions\n\t\t\n\t\t\tDCase\n\t\t\n\t\t\n\t\t\tIBen-Shalom\n\t\t\n\t\t\n\t\t\tSBrozell\n\t\t\n\t\t\n\t\t\tDCerutti\n\t\t\n\t\t\n\t\t\tTCheatham\n\t\t\n\t\t\n\t\t\tVIii; Cruzeiro\n\t\t\n\t\t\n\t\t\tTDarden\n\t\t\n\t\t\n\t\t\tRDuke\n\t\t\n\t\t\n\t\t\tDGhoreishi\n\t\t\n\t\t\n\t\t\tMGilson\n\t\t\n\t\t10.1002/prot.25790\n\t\n\t\n\t\tProteins: Struct., Funct., Bioinf\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\tAMBER\n\n","document":{"$oid":"60c782177723bebd86699380"},"refKey":35},
{"_key":"60c782337723bebd8669939b","_id":"references/60c782337723bebd8669939b","_rev":"_cfFmBL6---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c782337723bebd8669939a"},"refKey":5},
{"_key":"60c782337723bebd8669939c","_id":"references/60c782337723bebd8669939c","_rev":"_cfFmBMG---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1093/bioinformatics/bty407\n\t\t29790939\n\t\tPMC6247931\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c782337723bebd8669939a"},"refKey":10},
{"_key":"60c782337723bebd8669939d","_id":"references/60c782337723bebd8669939d","_rev":"_cfFmBMS---","tei":"\n\t\n\t\tTreeTime: Maximum-likelihood phylodynamic analysis\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tVadimPuller\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\t0000-0003-2525-1407\n\t\t\n\t\t10.1093/ve/vex042\n\t\t29340210\n\t\tPMC5758920\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c782337723bebd8669939a"},"refKey":11},
{"_key":"60c782427723bebd866993b2","_id":"references/60c782427723bebd866993b2","_rev":"_cfFmBMe---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tGBunko ´czi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tBHintze\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c782427723bebd866993b1"},"refKey":12},
{"_key":"60c782427723bebd866993b3","_id":"references/60c782427723bebd866993b3","_rev":"_cfFmBMq---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tPSkuba ´k\n\t\t\n\t\t\n\t\t\tAALebedev\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tRASteiner\n\t\t\n\t\t\n\t\t\tRANicholls\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tFLong\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c782427723bebd866993b1"},"refKey":17},
{"_key":"60c7826c7723bebd866993d6","_id":"references/60c7826c7723bebd866993d6","_rev":"_cfFmBM2---","tei":"\n\t\n\t\tPyMC: Bayesian Stochastic Modelling in Python\n\t\t\n\t\t\tAPatil\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7826c7723bebd866993d5"},"refKey":10},
{"_key":"60c782a07723bebd866993e3","_id":"references/60c782a07723bebd866993e3","_rev":"_cfFmBNC---","tei":"\n\t\n\t\tA molecular epidemiological study of respiratory viruses detected in Japanese children with acute wheezing illness\n\t\t\n\t\t\tAsakoFujitsuka\n\t\t\n\t\t\n\t\t\tHiroyukiTsukagoshi\n\t\t\n\t\t\n\t\t\tMikaArakawa\n\t\t\n\t\t\n\t\t\tKazukoGoto-Sugai\n\t\t\n\t\t\n\t\t\tAkihideRyo\n\t\t\n\t\t\n\t\t\tYoshimichiOkayama\n\t\t\n\t\t\n\t\t\tKatsumiMizuta\n\t\t\n\t\t\n\t\t\tAtsuyoshiNishina\n\t\t\n\t\t\n\t\t\tMasakazuYoshizumi\n\t\t\n\t\t\n\t\t\tYoichiKaburagi\n\t\t\n\t\t\n\t\t\tMasahiroNoda\n\t\t\n\t\t\n\t\t\tMasatoTashiro\n\t\t\n\t\t\n\t\t\tNobuhikoOkabe\n\t\t\n\t\t\n\t\t\tMasaakiMori\n\t\t\n\t\t\n\t\t\tShumpeiYokota\n\t\t\n\t\t\n\t\t\tHirokazuKimura\n\t\t\n\t\t10.1186/1471-2334-11-168\n\t\t21663657\n\t\tPMC3123215\n\t\t\n\t\n\t\n\t\tBMC Infectious Diseases\n\t\tBMC Infect Dis\n\t\t1471-2334\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t168\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c782a07723bebd866993e2"},"refKey":13},
{"_key":"60c782a67723bebd866993ea","_id":"references/60c782a67723bebd866993ea","_rev":"_cfFmBNO---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c782a67723bebd866993e9"},"refKey":23},
{"_key":"60c782a67723bebd866993eb","_id":"references/60c782a67723bebd866993eb","_rev":"_cfFmBNa---","tei":"\n\t\n\t\tA framework for variation discovery and genotyping using next-generation DNA sequencing data\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tRPoplin\n\t\t\n\t\t\n\t\t\tK VGarimella\n\t\t\n\t\t\n\t\t\tJRMaguire\n\t\t\n\t\t\n\t\t\tCHartl\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c782a67723bebd866993e9"},"refKey":9},
{"_key":"60c782a67723bebd866993ec","_id":"references/60c782a67723bebd866993ec","_rev":"_cfFmBNi---","tei":"\n\t\n\t\tFast and accurate relatedness estimation from high-throughput sequencing data in the presence of inbreeding\n\t\t\n\t\t\tKristianHanghøj\n\t\t\t0000-0003-1941-5495\n\t\t\n\t\t\n\t\t\tIdaMoltke\n\t\t\t0000-0001-7052-8554\n\t\t\n\t\t\n\t\t\tPhilipAlstrupAndersen\n\t\t\n\t\t\n\t\t\tAndreaManica\n\t\t\t0000-0003-1895-450X\n\t\t\n\t\t\n\t\t\tThorfinnSandKorneliussen\n\t\t\t0000-0001-7576-5380\n\t\t\n\t\t10.1093/gigascience/giz034\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\t2047-217X\n\t\t\n\t\t\t8\n\t\t\t5\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c782a67723bebd866993e9"},"refKey":13},
{"_key":"60c782a67723bebd866993ed","_id":"references/60c782a67723bebd866993ed","_rev":"_cfFmBNu---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c782a67723bebd866993e9"},"refKey":35},
{"_key":"60c782a67723bebd866993ee","_id":"references/60c782a67723bebd866993ee","_rev":"_cfFmBN6---","tei":"\n\t\n\t\tFastUniq: A Fast De Novo Duplicates Removal Tool for Paired Short Reads\n\t\t\n\t\t\tHaibinXu\n\t\t\n\t\t\n\t\t\tXiangLuo\n\t\t\n\t\t\n\t\t\tJunQian\n\t\t\n\t\t\n\t\t\tXiaohuiPang\n\t\t\n\t\t\n\t\t\tJingyuanSong\n\t\t\n\t\t\n\t\t\tGuangruiQian\n\t\t\n\t\t\n\t\t\tJinhuiChen\n\t\t\n\t\t\n\t\t\tShilinChen\n\t\t\n\t\t10.1371/journal.pone.0052249\n\t\t23284954\n\t\tPMC3527383\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t7\n\t\t\t12\n\t\t\te52249\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c782a67723bebd866993e9"},"refKey":40},
{"_key":"60c782a67723bebd866993ef","_id":"references/60c782a67723bebd866993ef","_rev":"_cfFmBOG---","tei":"\n\t\n\t\tThe variant call format and VCFtools\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tAAuton\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tCAAlbers\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c782a67723bebd866993e9"},"refKey":8},
{"_key":"60c782a67723bebd866993f0","_id":"references/60c782a67723bebd866993f0","_rev":"_cfFmBOS---","tei":"\n\t\n\t\tPEAR: a fast and accurate Illumina Paired-End reAd mergeR\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tKKobert\n\t\t\n\t\t\n\t\t\tTFlouri\n\t\t\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c782a67723bebd866993e9"},"refKey":41},
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{"_key":"60c783977723bebd86699460","_id":"references/60c783977723bebd86699460","_rev":"_cfFmBQ6---","tei":"\n\t\n\t\tMuscle: A multiple sequence alignment method with reduced time and space complexity\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1186/1471-2105-5-113\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c783977723bebd8669945e"},"refKey":36},
{"_key":"60c783977723bebd86699461","_id":"references/60c783977723bebd86699461","_rev":"_cfFmBRG---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c783977723bebd8669945e"},"refKey":37},
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{"_key":"60c783aa7723bebd86699485","_id":"references/60c783aa7723bebd86699485","_rev":"_cfFmBT6---","tei":"\n\t\n\t\tVirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data\n\t\t\n\t\t\tJRen\n\t\t\n\t\t\n\t\t\tNAAhlgren\n\t\t\n\t\t\n\t\t\tYYLu\n\t\t\n\t\t\n\t\t\t\n\t\t\t5\n\t\t\t69\n\t\t\n\t\n\n","document":{"$oid":"60c783aa7723bebd8669947a"},"refKey":2},
{"_key":"60c783aa7723bebd86699486","_id":"references/60c783aa7723bebd86699486","_rev":"_cfFmBUG---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t357\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c783aa7723bebd8669947a"},"refKey":11},
{"_key":"60c783aa7723bebd86699487","_id":"references/60c783aa7723bebd86699487","_rev":"_cfFmBUS---","tei":"\n\t\n\t\tViromeScan: a new tool for metagenomic viral community profiling\n\t\t\n\t\t\tSimoneRampelli\n\t\t\t0000-0002-5655-6695\n\t\t\n\t\t\n\t\t\tMatteoSoverini\n\t\t\n\t\t\n\t\t\tSilviaTurroni\n\t\t\n\t\t\n\t\t\tSaraQuercia\n\t\t\n\t\t\n\t\t\tElenaBiagi\n\t\t\n\t\t\n\t\t\tPatriziaBrigidi\n\t\t\n\t\t\n\t\t\tMarcoCandela\n\t\t\n\t\t10.1186/s12864-016-2446-3\n\t\t26932765\n\t\tPMC4774116\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t165\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c783aa7723bebd8669947a"},"refKey":3},
{"_key":"60c783aa7723bebd86699488","_id":"references/60c783aa7723bebd86699488","_rev":"_cfFmBUa---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c783aa7723bebd8669947a"},"refKey":14},
{"_key":"60c783aa7723bebd86699489","_id":"references/60c783aa7723bebd86699489","_rev":"_cfFmBUm---","tei":"\n\t\n\t\tHoloVir: A Workflow for Investigating the Diversity and Function of Viruses in Invertebrate Holobionts\n\t\t\n\t\t\tPatrickWLaffy\n\t\t\n\t\t\n\t\t\tElishaMWood-Charlson\n\t\t\n\t\t\n\t\t\tDmitrijTuraev\n\t\t\n\t\t\n\t\t\tKarenDWeynberg\n\t\t\n\t\t\n\t\t\tEmmanuelleSBotté\n\t\t\n\t\t\n\t\t\tMadeleineJ HVan Oppen\n\t\t\n\t\t\n\t\t\tNicoleSWebster\n\t\t\n\t\t\n\t\t\tThomasRattei\n\t\t\n\t\t10.3389/fmicb.2016.00822\n\t\t27375564\n\t\tPMC4899465\n\t\t\n\t\n\t\n\t\tFrontiers in Microbiology\n\t\tFront. Microbiol.\n\t\t1664-302X\n\t\t\n\t\t\t7\n\t\t\t822\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c783aa7723bebd8669947a"},"refKey":4},
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{"_key":"60c783aa7723bebd8669948c","_id":"references/60c783aa7723bebd8669948c","_rev":"_cfFmBVK---","tei":"\n\t\n\t\tAbstract C60: The integrative genomics viewer\n\t\t\n\t\t\tJamesRobinson\n\t\t\n\t\t\n\t\t\tHelgaThorvaldsdottir\n\t\t\n\t\t\n\t\t\tMarc‐danieNazaire\n\t\t\n\t\t\n\t\t\tWendyWinckler\n\t\t\n\t\t\n\t\t\tMichaelReich\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tJillMesirov\n\t\t\n\t\t10.1158/0008-5472.fbcr09-c60\n\t\n\t\n\t\tPoster Presentations - Proffered Abstracts\n\t\t\t\t\n\t\t\tAmerican Association for Cancer Research\n\t\t\t\n\t\t\t29\n\t\t\t24\n\t\t\n\t\n\n","document":{"$oid":"60c783aa7723bebd8669947a"},"refKey":15},
{"_key":"60c783aa7723bebd8669948d","_id":"references/60c783aa7723bebd8669948d","_rev":"_cfFmBVW---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c783aa7723bebd8669947a"},"refKey":30},
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{"_key":"60c783aa7723bebd86699490","_id":"references/60c783aa7723bebd86699490","_rev":"_cfFmBV6---","tei":"\n\t\n\t\tGenome Detective: an automated system for virus identification from high-throughput sequencing data\n\t\t\n\t\t\tMichaelVilsker\n\t\t\n\t\t\n\t\t\tYumnaMoosa\n\t\t\n\t\t\n\t\t\tSamNooij\n\t\t\n\t\t\n\t\t\tVagnerFonseca\n\t\t\n\t\t\n\t\t\tYoikaGhysens\n\t\t\n\t\t\n\t\t\tKorneelDumon\n\t\t\n\t\t\n\t\t\tRafPauwels\n\t\t\n\t\t\n\t\t\tLuizCarlosAlcantara\n\t\t\n\t\t\n\t\t\tEwoutVanden Eynden\n\t\t\n\t\t\n\t\t\tAnne-MiekeVandamme\n\t\t\n\t\t\n\t\t\tKoenDeforche\n\t\t\n\t\t\n\t\t\tTulioDe Oliveira\n\t\t\t0000-0002-3027-5254\n\t\t\n\t\t10.1093/bioinformatics/bty695\n\t\t30124794\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c783aa7723bebd8669947a"},"refKey":8},
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{"_key":"60c784c57723bebd86699541","_id":"references/60c784c57723bebd86699541","_rev":"_cfFmBWe---","tei":"\n\t\n\t\tlmerTest Package: Tests in Linear Mixed Effects Models\n\t\t\n\t\t\tAlexandraKuznetsova\n\t\t\n\t\t\n\t\t\tPerBBrockhoff\n\t\t\n\t\t\n\t\t\tRuneH BChristensen\n\t\t\n\t\t10.18637/jss.v082.i13\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t82\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c784c57723bebd8669953f"},"refKey":36},
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{"_key":"60c785007723bebd8669958a","_id":"references/60c785007723bebd8669958a","_rev":"_cfFmBW2---","tei":"\n\t\n\t\tA comparison of heterogeneity variance estimators in combining results of studies\n\t\t\n\t\t\tKurexSidik\n\t\t\n\t\t\n\t\t\tJeffreyNJonkman\n\t\t\n\t\t10.1002/sim.2688\n\t\t16955539\n\t\tark:/67375/WNG-CDBP87CD-J\n\t\tCA5A2E132697C0BD4EDE31C587B4EC6541762FAD\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t1097-0258\n\t\t\n\t\t\t26\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c785007723bebd86699589"},"refKey":17},
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{"_key":"60c786607723bebd866996ab","_id":"references/60c786607723bebd866996ab","_rev":"_cfFmBbu---","tei":"\n\t\n\t\tImproved microbial gene identification with GLIMMER\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c786607723bebd866996a5"},"refKey":16},
{"_key":"60c786607723bebd866996ac","_id":"references/60c786607723bebd866996ac","_rev":"_cfFmBb6---","tei":"\n\t\n\t\tThe PROSITE database\n\t\t\n\t\t\tLFalquet\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c786607723bebd866996a5"},"refKey":23},
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{"_key":"60c789557723bebd86699923","_id":"references/60c789557723bebd86699923","_rev":"_cfFmBiC---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)--a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789557723bebd86699922"},"refKey":27},
{"_key":"60c789657723bebd86699933","_id":"references/60c789657723bebd86699933","_rev":"_cfFmBiO---","tei":"\n\t\n\t\tIBM SPSS Statistics for Windows, Version 25\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t\n\t\t\t\n\t\t\tArmonk, NY\n\t\t\n\t\n\n","document":{"$oid":"60c789657723bebd86699932"},"refKey":30},
{"_key":"60c789b97723bebd8669994f","_id":"references/60c789b97723bebd8669994f","_rev":"_cfFmBia---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789b97723bebd8669994e"},"refKey":17},
{"_key":"60c789b97723bebd86699950","_id":"references/60c789b97723bebd86699950","_rev":"_cfFmBim---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789b97723bebd8669994e"},"refKey":18},
{"_key":"60c789b97723bebd86699951","_id":"references/60c789b97723bebd86699951","_rev":"_cfFmBiy---","tei":"\n\t\n\t\tVelvet: algorithms for de novo short read assembly using de Bruijn graphs\n\t\t\n\t\t\tDRZerbino\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789b97723bebd8669994e"},"refKey":19},
{"_key":"60c789b97723bebd86699952","_id":"references/60c789b97723bebd86699952","_rev":"_cfFmBj----","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789b97723bebd8669994e"},"refKey":20},
{"_key":"60c789b97723bebd86699953","_id":"references/60c789b97723bebd86699953","_rev":"_cfFmBjK---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789b97723bebd8669994e"},"refKey":15},
{"_key":"60c789d67723bebd8669997c","_id":"references/60c789d67723bebd8669997c","_rev":"_cfFmBjS---","tei":"\n\t\n\t\tEpi Info TM , A Database and Statistics Program for Public Health Professionals\n\t\t\n\t\t\tAGDean\n\t\t\n\t\t\n\t\t\tTGArner\n\t\t\n\t\t\n\t\t\tGGSunki\n\t\t\n\t\t\n\t\t\tRFriedman\n\t\t\n\t\t\n\t\t\tMLantinga\n\t\t\n\t\t\n\t\t\tSSangam\n\t\t\n\t\t\n\t\t\tJCZubieta\n\t\t\n\t\t\n\t\t\tKMSullivan\n\t\t\n\t\t\n\t\t\tKABrendel\n\t\t\n\t\t\n\t\t\tZGao\n\t\t\n\t\t\n\t\t\tNFontaine\n\t\t\n\t\t\n\t\t\tMShu\n\t\t\n\t\t\n\t\t\tGFuller\n\t\t\n\t\t\n\t\t\tDCSmith\n\t\t\n\t\t\n\t\t\tDANitschke\n\t\t\n\t\t\n\t\t\tRFFagan\n\t\t\n\t\n\t\n\t\tCenters for Disease Control and Prevention\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789d67723bebd8669997b"},"refKey":1},
{"_key":"60c789d67723bebd8669997d","_id":"references/60c789d67723bebd8669997d","_rev":"_cfFmBje---","tei":"\n\t\n\t\tBioEdit: a user friendly biological sequence alignment editor and analysis program for windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucl. Acids. Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789d67723bebd8669997b"},"refKey":4},
{"_key":"60c789d67723bebd8669997e","_id":"references/60c789d67723bebd8669997e","_rev":"_cfFmBjq---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789d67723bebd8669997b"},"refKey":22},
{"_key":"60c789d67723bebd8669997f","_id":"references/60c789d67723bebd8669997f","_rev":"_cfFmBj2---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789d67723bebd8669997b"},"refKey":20},
{"_key":"60c789e77723bebd86699994","_id":"references/60c789e77723bebd86699994","_rev":"_cfFmBkC---","tei":"\n\t\n\t\tVuRLE: Automatic Vulnerability Detection and Repair by Learning from Examples\n\t\t\n\t\t\tSiqiMa\n\t\t\n\t\t\n\t\t\tFerdianThung\n\t\t\n\t\t\n\t\t\tDavidLo\n\t\t\n\t\t\n\t\t\tCongSun\n\t\t\n\t\t\n\t\t\tRobertHDeng\n\t\t\n\t\t10.1007/978-3-319-66399-9_13\n\t\t\n\t\n\t\n\t\tComputer Security – ESORICS 2017\n\t\t\t\t\n\t\t\tSNFoley\n\t\t\tDGollmann\n\t\t\tESnekkenes\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t10493\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c789e77723bebd86699993"},"refKey":9},
{"_key":"60c78a217723bebd866999c9","_id":"references/60c78a217723bebd866999c9","_rev":"_cfFmBkO---","tei":"\n\t\n\t\tNetwork meta-analysis with R\n\t\t\n\t\t\tGRücker\n\t\t\n\t\t\n\t\t\tGSchwarzer\n\t\t\n\t\t\n\t\t\tUKrahn\n\t\t\n\t\t\n\t\t\tJKönig\n\t\t\n\t\t\n\t\t\tNetmeta\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78a217723bebd866999c8"},"refKey":112},
{"_key":"60c78a217723bebd866999ca","_id":"references/60c78a217723bebd866999ca","_rev":"_cfFmBka---","tei":"\n\t\n\t\tA language and environment for statistical computing. Vienna: R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78a217723bebd866999c8"},"refKey":113},
{"_key":"60c78a217723bebd866999cb","_id":"references/60c78a217723bebd866999cb","_rev":"_cfFmBkm---","tei":"\n\t\n\t\tBetter duplicate detection for systematic reviewers: evaluation of Systematic Review Assistant-Deduplication Module\n\t\t\n\t\t\tJohnRathbone\n\t\t\n\t\t\n\t\t\tMattCarter\n\t\t\n\t\t\n\t\t\tTammyHoffmann\n\t\t\n\t\t\n\t\t\tPaulGlasziou\n\t\t\n\t\t10.1186/2046-4053-4-6\n\t\t25588387\n\t\tPMC4320616\n\t\t\n\t\n\t\n\t\tSystematic Reviews\n\t\tSyst Rev\n\t\t2046-4053\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t6\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c78a217723bebd866999c8"},"refKey":91},
{"_key":"60c78a297723bebd866999d5","_id":"references/60c78a297723bebd866999d5","_rev":"_cfFmBky---","tei":"\n\t\n\t\tPHENIX: building new software for automated crystallographic structure determination\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tThomasRIoerger\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tJamesCSacchettini\n\t\t\n\t\t\n\t\t\tNicholasKSauter\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t10.1107/s0907444902016657\n\t\t12393927\n\t\tark:/67375/WNG-3W8K0539-S\n\t\t1BB2BD3D445677BF052D0C04730E4570A2FED3AE\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t58\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c78a297723bebd866999d4"},"refKey":0},
{"_key":"60c78a297723bebd866999d6","_id":"references/60c78a297723bebd866999d6","_rev":"_cfFmBl----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGWinter\n\t\t\n\t\t\n\t\t\tDGWaterman\n\t\t\n\t\t\n\t\t\tJMParkhurst\n\t\t\n\t\t\n\t\t\tASBrewster\n\t\t\n\t\t\n\t\t\tRJGildea\n\t\t\n\t\t\n\t\t\tMGerstel\n\t\t\n\t\t\n\t\t\tLFuentes-Montero\n\t\t\n\t\t\n\t\t\tMVollmar\n\t\t\n\t\t\n\t\t\tTMichels-Clark\n\t\t\n\t\t\n\t\t\tYoungId\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78a297723bebd866999d4"},"refKey":72},
{"_key":"60c78a297723bebd866999d7","_id":"references/60c78a297723bebd866999d7","_rev":"_cfFmBlK---","tei":"\n\t\n\t\tEMAN2: An extensible image processing suite for electron microscopy\n\t\t\n\t\t\tGuangTang\n\t\t\n\t\t\n\t\t\tLiweiPeng\n\t\t\n\t\t\n\t\t\tPhilipRBaldwin\n\t\t\n\t\t\n\t\t\tDeepinderSMann\n\t\t\n\t\t\n\t\t\tWenJiang\n\t\t\n\t\t\n\t\t\tIanRees\n\t\t\n\t\t\n\t\t\tStevenJLudtke\n\t\t\n\t\t10.1016/j.jsb.2006.05.009\n\t\t16859925\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c78a297723bebd866999d4"},"refKey":66},
{"_key":"60c78a297723bebd866999d8","_id":"references/60c78a297723bebd866999d8","_rev":"_cfFmBlS---","tei":"\n\t\n\t\tSemi-automated selection of cryo-EM particles in RELION-1.3\n\t\t\n\t\t\tShwScheres\n\t\t\n\t\t10.1016/j.jsb.2014.11.010\n\t\t25486611\n\t\tPMC4318617\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t189\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c78a297723bebd866999d4"},"refKey":56},
{"_key":"60c78a297723bebd866999d9","_id":"references/60c78a297723bebd866999d9","_rev":"_cfFmBle---","tei":"\n\t\n\t\tMotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tKlimentAVerba\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1038/nmeth.4193\n\t\t28250466\n\t\tPMC5494038\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c78a297723bebd866999d4"},"refKey":78},
{"_key":"60c78a297723bebd866999da","_id":"references/60c78a297723bebd866999da","_rev":"_cfFmBlq---","tei":"\n\t\n\t\tXPREP: Data preparation and reciprocal space exploration\n\t\t\n\t\t\tBruker-Axs\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78a297723bebd866999d4"},"refKey":9},
{"_key":"60c78a297723bebd866999db","_id":"references/60c78a297723bebd866999db","_rev":"_cfFmBl2---","tei":"\n\t\n\t\tVisualizing density maps with UCSF Chimera\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2006.06.010\n\t\t16963278\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c78a297723bebd866999d4"},"refKey":24},
{"_key":"60c78a487723bebd86699a0f","_id":"references/60c78a487723bebd86699a0f","_rev":"_cfFmBmC---","tei":"\n\t\n\t\tKOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases\n\t\t\n\t\t\tCXie\n\t\t\n\t\t\n\t\t\tXMao\n\t\t\n\t\t\n\t\t\tJHuang\n\t\t\n\t\t\n\t\t\tYDing\n\t\t\n\t\t\n\t\t\tJWu\n\t\t\n\t\t\n\t\t\tSDong\n\t\t\n\t\t\n\t\t\tLKong\n\t\t\n\t\t\n\t\t\tGGao\n\t\t\n\t\t\n\t\t\tCYLi\n\t\t\n\t\t\n\t\t\tLWei\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78a487723bebd86699a0e"},"refKey":18},
{"_key":"60c78a487723bebd86699a10","_id":"references/60c78a487723bebd86699a10","_rev":"_cfFmBmO---","tei":"\n\t\n\t\tBiNGO: a Cytoscape plugin to assess over representation of gene ontology categories in biological networks\n\t\t\n\t\t\tSMaere\n\t\t\n\t\t\n\t\t\tKHeymans\n\t\t\n\t\t\n\t\t\tMKuiper\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78a487723bebd86699a0e"},"refKey":17},
{"_key":"60c78a597723bebd86699a1e","_id":"references/60c78a597723bebd86699a1e","_rev":"_cfFmBma---","tei":"\n\t\n\t\tCOVID-19 pandemic response, laboratory data reporting: CARES Act section 18115\n\t\t\n\t\t\tUS\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tDepartment of Health and Human Services\n\n","document":{"$oid":"60c78a597723bebd86699a1d"},"refKey":9},
{"_key":"60c78a597723bebd86699a1f","_id":"references/60c78a597723bebd86699a1f","_rev":"_cfFmBmm---","tei":"\n\t\n\t\t\n\t\t\n\t\t\t-Uthealth\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78a597723bebd86699a1d"},"refKey":8},
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{"_key":"60c78a5e7723bebd86699a64","_id":"references/60c78a5e7723bebd86699a64","_rev":"_cfFmBn----","tei":"\n\t\n\t\tIBM ® SPSS ® AMOS TM user's guide\n\t\t\n\t\t\tJLArbuckle\n\t\t\n\t\t10.1037/dev0000095\n\t\t\n\t\t\t\n\t\t\tIBM Corporation\n\t\t\n\t\n\n","document":{"$oid":"60c78a5e7723bebd86699a63"},"refKey":2},
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{"_key":"60c78b117723bebd86699ad9","_id":"references/60c78b117723bebd86699ad9","_rev":"_cfFmBpi---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c78b117723bebd86699ad6"},"refKey":79},
{"_key":"60c78b127723bebd86699ae2","_id":"references/60c78b127723bebd86699ae2","_rev":"_cfFmBpq---","tei":"\n\t\n\t\tIntrinsically unstructured proteins and their functions\n\t\t\n\t\t\tHJDyson\n\t\t\n\t\t\n\t\t\tPEWright\n\t\t\n\t\n\t\n\t\tNat. Rev. Mol. Cell Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78b127723bebd86699ae1"},"refKey":16},
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{"_key":"60c78bf57723bebd86699bc1","_id":"references/60c78bf57723bebd86699bc1","_rev":"_cfFmBvW---","tei":"\n\t\n\t\tAn empirical Bayesian framework for somatic mutation detection from cancer genome sequencing data\n\t\t\n\t\t\tYuichiShiraishi\n\t\t\n\t\t\n\t\t\tYusukeSato\n\t\t\n\t\t\n\t\t\tKenichiChiba\n\t\t\n\t\t\n\t\t\tYusukeOkuno\n\t\t\n\t\t\n\t\t\tYasunobuNagata\n\t\t\n\t\t\n\t\t\tKenichiYoshida\n\t\t\n\t\t\n\t\t\tNorioShiba\n\t\t\n\t\t\n\t\t\tYasuhideHayashi\n\t\t\n\t\t\n\t\t\tHarukiKume\n\t\t\n\t\t\n\t\t\tYukioHomma\n\t\t\n\t\t\n\t\t\tMasashiSanada\n\t\t\n\t\t\n\t\t\tSeishiOgawa\n\t\t\n\t\t\n\t\t\tSatoruMiyano\n\t\t\n\t\t10.1093/nar/gkt126\n\t\t23471004\n\t\tPMC3627598\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c78bf57723bebd86699bc0"},"refKey":21},
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{"_key":"60c78c407723bebd86699bf5","_id":"references/60c78c407723bebd86699bf5","_rev":"_cfFmBwC---","tei":"\n\t\n\t\tCo-training Embeddings of Knowledge Graphs and Entity Descriptions for Cross-lingual Entity Alignment\n\t\t\n\t\t\tMuhaoChen\n\t\t\n\t\t\n\t\t\tYingtaoTian\n\t\t\n\t\t\n\t\t\tKai-WeiChang\n\t\t\n\t\t\n\t\t\tStevenSkiena\n\t\t\n\t\t\n\t\t\tCarloZaniolo\n\t\t\n\t\t10.24963/ijcai.2018/556\n\t\t\n\t\n\t\n\t\tProceedings of the Twenty-Seventh International Joint Conference on Artificial Intelligence\n\t\t\t\tthe Twenty-Seventh International Joint Conference on Artificial Intelligence\n\t\t\n\t\t\tInternational Joint Conferences on Artificial Intelligence Organization\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78c407723bebd86699bf2"},"refKey":3},
{"_key":"60c78c437723bebd86699c00","_id":"references/60c78c437723bebd86699c00","_rev":"_cfFmBwO---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78c437723bebd86699bff"},"refKey":22},
{"_key":"60c78c487723bebd86699c10","_id":"references/60c78c487723bebd86699c10","_rev":"_cfFmBwe---","tei":"\n\t\n\t\tmixtools: an R package for analyzing finite mixture models\n\t\t\n\t\t\tTBenaglia\n\t\t\n\t\t\n\t\t\tDChauveau\n\t\t\n\t\t\n\t\t\tDRHunter\n\t\t\n\t\t\n\t\t\tDSYoung\n\t\t\n\t\t10.1099/vir.0.068106-0\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78c487723bebd86699c0f"},"refKey":4},
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{"_key":"60c78c527723bebd86699c22","_id":"references/60c78c527723bebd86699c22","_rev":"_cfFmBxO---","tei":"\n\t\n\t\tVirtual screening of inhibitors against Envelope glycoprotein of Chikungunya Virus: a drug repositioning approach\n\t\t\n\t\t\tGarimaAgarwal\n\t\t\n\t\t10.6026/97320630015439\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformation\n\t\tBioinformation\n\t\t0973-8894\n\t\t0973-2063\n\t\t\n\t\t\t15\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tBiomedical Informatics\n\t\t\n\t\n\n","document":{"$oid":"60c78c527723bebd86699c1e"},"refKey":1},
{"_key":"60c78c527723bebd86699c23","_id":"references/60c78c527723bebd86699c23","_rev":"_cfFmBxa---","tei":"\n\t\n\t\tStructure prediction of transferrin receptor protein 1 (TfR1) by homology modelling, docking, and molecular dynamics simulation studies\n\t\t\n\t\t\tMAAl-Refaei\n\t\t\n\t\t\n\t\t\tRMMakki\n\t\t\n\t\t\n\t\t\tHMAli\n\t\t\n\t\t10.1016/j.heliyon.2020.e03221\n\t\t\n\t\n\t\n\t\tHeliyon\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78c527723bebd86699c1e"},"refKey":6},
{"_key":"60c78c527723bebd86699c24","_id":"references/60c78c527723bebd86699c24","_rev":"_cfFmBxm---","tei":"\n\t\n\t\tMolecular Docking and Dynamics Simulation of Protein β-Tubulin and Antifungal Cyclic Lipopeptides\n\t\t\n\t\t\tNubiaNoemiCob-Calan\n\t\t\n\t\t\n\t\t\tLuzAmericaChi-Uluac\n\t\t\t0000-0002-2606-0357\n\t\t\n\t\t\n\t\t\tFilibertoOrtiz-Chi\n\t\t\t0000-0002-2859-7633\n\t\t\n\t\t\n\t\t\tDanielCerqueda-García\n\t\t\t0000-0003-1544-5662\n\t\t\n\t\t\n\t\t\tGabrielNavarrete-Vázquez\n\t\t\t0000-0001-5344-4762\n\t\t\n\t\t\n\t\t\tEsaúRuiz-Sánchez\n\t\t\t0000-0003-0245-3305\n\t\t\n\t\t\n\t\t\tEmanuelHernández-Núñez\n\t\t\t0000-0002-7467-7538\n\t\t\n\t\t10.3390/molecules24183387\n\t\t\n\t\t\n\t\n\t\n\t\tMolecules\n\t\tMolecules\n\t\t1420-3049\n\t\t\n\t\t\t24\n\t\t\t18\n\t\t\t3387\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c78c527723bebd86699c1e"},"refKey":24},
{"_key":"60c78c527723bebd86699c25","_id":"references/60c78c527723bebd86699c25","_rev":"_cfFmBxy---","tei":"\n\t\n\t\tBilateral optic neuropathy after erythematous rash. Bilateral anterior optic neuropathy due to RMSF\n\t\t\n\t\t\tSMNazarian\n\t\t\n\t\t\n\t\t\tKYShaon\n\t\t\n\t\t\n\t\t\tJDSchwankhaus\n\t\t\n\t\t\n\t\t\tJGChacko\n\t\t\n\t\t\n\t\t\tPAHudgins\n\t\t\n\t\t\n\t\t\tDJBrat\n\t\t\n\t\t10.1097/WNO.0000000000000261\n\t\t\n\t\n\t\n\t\tJournal of Neuro-Ophthalmology: The Official Journal of the North American Neuro-Ophthalmology Society\n\t\t\n\t\t\t35\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78c527723bebd86699c1e"},"refKey":53},
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{"_key":"60c78da67723bebd86699cf4","_id":"references/60c78da67723bebd86699cf4","_rev":"_cfFmB0----","tei":"\n\t\n\t\tSoftware survey: VOSviewer, a computer program for bibliometric mapping\n\t\t\n\t\t\tNeesJanVan Eck\n\t\t\n\t\t\n\t\t\tLudoWaltman\n\t\t\n\t\t10.1007/s11192-009-0146-3\n\t\t20585380\n\t\tPMC2883932\n\t\tark:/67375/VQC-8X87T0TL-D\n\t\tDC112260644E1E345B37DC3D68B3E9728A97835E\n\t\t\n\t\t\n\t\n\t\n\t\tScientometrics\n\t\tScientometrics\n\t\t0138-9130\n\t\t1588-2861\n\t\t\n\t\t\t84\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c78da67723bebd86699cf3"},"refKey":20},
{"_key":"60c78da67723bebd86699cf5","_id":"references/60c78da67723bebd86699cf5","_rev":"_cfFmB0K---","tei":"\n\t\n\t\tSoftware framework for topic modelling with large corpora\n\t\t\n\t\t\tRR ˇehůřrek\n\t\t\n\t\t\n\t\t\tPSojka\n\t\t\n\t\n\t\n\t\tProceedings of the LREC 2010 Workshop on New Challenges for NLP Frameworks\n\t\t\t\tthe LREC 2010 Workshop on New Challenges for NLP FrameworksValletta, Malta: ELRA\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78da67723bebd86699cf3"},"refKey":27},
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{"_key":"60c78db67723bebd86699d03","_id":"references/60c78db67723bebd86699d03","_rev":"_cfFmB0i---","tei":"\n\t\n\t\tPollux: platform independent error correction of single and mixed genomes\n\t\t\n\t\t\tEricMarinier\n\t\t\n\t\t\n\t\t\tDanielGBrown\n\t\t\n\t\t\n\t\t\tBrendanJMcconkey\n\t\t\n\t\t10.1186/s12859-014-0435-6\n\t\t25592313\n\t\tPMC4307147\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t10\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c78db67723bebd86699d02"},"refKey":43},
{"_key":"60c78db67723bebd86699d04","_id":"references/60c78db67723bebd86699d04","_rev":"_cfFmB0q---","tei":"\n\t\n\t\tCutadapt removes adapter sequences from high-throughput sequencing reads\n\t\t\n\t\t\tMMartin\n\t\t\n\t\n\t\n\t\tEMBnet J\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78db67723bebd86699d02"},"refKey":44},
{"_key":"60c78db67723bebd86699d05","_id":"references/60c78db67723bebd86699d05","_rev":"_cfFmB02---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78db67723bebd86699d02"},"refKey":47},
{"_key":"60c78db67723bebd86699d06","_id":"references/60c78db67723bebd86699d06","_rev":"_cfFmB1C---","tei":"\n\t\n\t\tBEDTools: a flexible suite of utilities for comparing genomic features\n\t\t\n\t\t\tARQuinlan\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78db67723bebd86699d02"},"refKey":40},
{"_key":"60c78db67723bebd86699d07","_id":"references/60c78db67723bebd86699d07","_rev":"_cfFmB1O---","tei":"\n\t\n\t\tBatchPrimer3: A high throughput web application for PCR and sequencing primer design\n\t\t\n\t\t\tFrankMYou\n\t\t\n\t\t\n\t\t\tNaxinHuo\n\t\t\n\t\t\n\t\t\tYongGu\n\t\t\n\t\t\n\t\t\tMing-ChengLuo\n\t\t\n\t\t\n\t\t\tYaqinMa\n\t\t\n\t\t\n\t\t\tDaveHane\n\t\t\n\t\t\n\t\t\tGerardRLazo\n\t\t\n\t\t\n\t\t\tJanDvorak\n\t\t\n\t\t\n\t\t\tOlinDAnderson\n\t\t\n\t\t10.1186/1471-2105-9-253\n\t\t18510760\n\t\tPMC2438325\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t253\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c78db67723bebd86699d02"},"refKey":41},
{"_key":"60c78db67723bebd86699d08","_id":"references/60c78db67723bebd86699d08","_rev":"_cfFmB1a---","tei":"\n\t\n\t\tThe Genome Analysis toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tASivachenko\n\t\t\n\t\t\n\t\t\tKCibulskis\n\t\t\n\t\t\n\t\t\tAKernytsky\n\t\t\n\t\t\n\t\t\tKGarimella\n\t\t\n\t\t\n\t\t\tDAltshuler\n\t\t\n\t\t\n\t\t\tSGabriel\n\t\t\n\t\t\n\t\t\tMDaly\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78db67723bebd86699d02"},"refKey":45},
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{"_key":"60c78e197723bebd86699d71","_id":"references/60c78e197723bebd86699d71","_rev":"_cfFmB2S---","tei":"\n\t\n\t\traxmlGUI: a graphical front-end for RAxML\n\t\t\n\t\t\tDSilvestro\n\t\t\n\t\t\n\t\t\tIMichalak\n\t\t\n\t\n\t\n\t\tOrganisms Diversity & Evolution\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78e197723bebd86699d70"},"refKey":37},
{"_key":"60c78e197723bebd86699d72","_id":"references/60c78e197723bebd86699d72","_rev":"_cfFmB2e---","tei":"\n\t\n\t\tAliView: a fast and lightweight alignment viewer and editor for large datasets\n\t\t\n\t\t\tALarsson\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78e197723bebd86699d70"},"refKey":18},
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{"_key":"60c78f077723bebd86699e08","_id":"references/60c78f077723bebd86699e08","_rev":"_cfFmB3G---","tei":"\n\t\n\t\tTesting the reliability and efficiency of the pilot mixed methods appraisal tool (MMAT) for systematic mixed studies review\n\t\t\n\t\t\tRPace\n\t\t\n\t\t\n\t\t\tPPluye\n\t\t\n\t\t\n\t\t\tGBartlett\n\t\t\n\t\t\n\t\t\tACMacaulay\n\t\t\n\t\t\n\t\t\tJSalsberg\n\t\t\n\t\t\n\t\t\tJJagosh\n\t\t\n\t\t\n\t\t\tRSeller\n\t\t\n\t\n\t\n\t\tInt J Nurs Stud\n\t\t\n\t\t\t49\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78f077723bebd86699e07"},"refKey":39},
{"_key":"60c78f137723bebd86699e11","_id":"references/60c78f137723bebd86699e11","_rev":"_cfFmB3S---","tei":"\n\t\n\t\t\n\t\t\tSBird\n\t\t\n\t\t\n\t\t\tEKlein\n\t\t\n\t\t\n\t\t\tELoper\n\t\t\n\t\tNatural Language Processing with Python\n\t\t\t\tSebastopol, CA, USA\n\t\t\n\t\t\tO'Reilly Media, Inc\n\t\t\t\n\t\t\n\t\n\t1st ed.\n\n","document":{"$oid":"60c78f137723bebd86699e10"},"refKey":20},
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{"_key":"60c78fa47723bebd86699e47","_id":"references/60c78fa47723bebd86699e47","_rev":"_cfFmB3u---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78fa47723bebd86699e46"},"refKey":16},
{"_key":"60c78fa47723bebd86699e48","_id":"references/60c78fa47723bebd86699e48","_rev":"_cfFmB36---","tei":"\n\t\n\t\tDNA Sequence Polymorphism Analysis Using DnaSP\n\t\t\n\t\t\tJulioRozas\n\t\t\n\t\t10.1007/978-1-59745-251-9_17\n\t\t19378153\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78fa47723bebd86699e46"},"refKey":20},
{"_key":"60c78fa47723bebd86699e49","_id":"references/60c78fa47723bebd86699e49","_rev":"_cfFmB4G---","tei":"\n\t\n\t\tAnalysis of codon usage\n\t\t\n\t\t\tJF\n\t\t\n\t\t\n\t\t\tP\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of Nottingham, UK.\n\t\t\n\t\n\tPhD Thesis\n\n","document":{"$oid":"60c78fa47723bebd86699e46"},"refKey":18},
{"_key":"60c78fa47723bebd86699e4a","_id":"references/60c78fa47723bebd86699e4a","_rev":"_cfFmB4S---","tei":"\n\t\n\t\tArlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows\n\t\t\n\t\t\tLExcoffier\n\t\t\n\t\t\n\t\t\tHELischer\n\t\t\n\t\n\t\n\t\tMol Ecol Resour\n\t\t\n\t\t\t10\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c78fa47723bebd86699e46"},"refKey":22},
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{"_key":"60c7970f7723bebd8669a63d","_id":"references/60c7970f7723bebd8669a63d","_rev":"_cfFmCPm---","tei":"\n\t\n\t\tComplex heatmaps reveal patterns and correlations in multidimensional genomic data\n\t\t\n\t\t\tZuguangGu\n\t\t\n\t\t\n\t\t\tRolandEils\n\t\t\n\t\t\n\t\t\tMatthiasSchlesner\n\t\t\n\t\t10.1093/bioinformatics/btw313\n\t\t27207943\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7970f7723bebd8669a63c"},"refKey":33},
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{"_key":"60c797d67723bebd8669a716","_id":"references/60c797d67723bebd8669a716","_rev":"_cfFmCSe---","tei":"\n\t\n\t\tGeneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMeintjes\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\t10.1093/bioinformatics/bts199\n\t\t22543367\n\t\tPMC3371832\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c797d67723bebd8669a715"},"refKey":80},
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{"_key":"60c797d67723bebd8669a718","_id":"references/60c797d67723bebd8669a718","_rev":"_cfFmCS2---","tei":"\n\t\n\t\tA combinatorial distance-constraint approach to predicting protein tertiary models from known secondary structure\n\t\t\n\t\t\tGarethChelvanayagam\n\t\t\n\t\t\n\t\t\tLukasKnecht\n\t\t\n\t\t\n\t\t\tThomasJenny\n\t\t\n\t\t\n\t\t\tStevenABenner\n\t\t\n\t\t\n\t\t\tGastonHGonnet\n\t\t\n\t\t10.1016/s1359-0278(98)00023-6\n\t\t9562545\n\t\tS1359-0278(98)00023-6\n\t\tark:/67375/6H6-KXVPVD0X-6\n\t\t1B7A462EAFDAA7563D1BFC95C1A75733C63CFC53\n\t\tS1359-0278(98)00023-6\n\t\t\n\t\n\t\n\t\tFolding and Design\n\t\tFolding and Design\n\t\t1359-0278\n\t\t\n\t\t\t3\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c797d67723bebd8669a715"},"refKey":83},
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{"_key":"60c797d67723bebd8669a71a","_id":"references/60c797d67723bebd8669a71a","_rev":"_cfFmCTO---","tei":"\n\t\n\t\tMolecular modelling of miraculin: Structural analyses and functional hypotheses\n\t\t\n\t\t\tAntonellaPaladino\n\t\t\n\t\t\n\t\t\tSusanCostantini\n\t\t\n\t\t\n\t\t\tGiovanniColonna\n\t\t\n\t\t\n\t\t\tAngeloMFacchiano\n\t\t\n\t\t10.1016/j.bbrc.2007.12.102\n\t\t18158914\n\t\t\n\t\n\t\n\t\tBiochemical and Biophysical Research Communications\n\t\tBiochemical and Biophysical Research Communications\n\t\t0006-291X\n\t\t\n\t\t\t367\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c797d67723bebd8669a715"},"refKey":85},
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{"_key":"60c79abb7723bebd8669a9b9","_id":"references/60c79abb7723bebd8669a9b9","_rev":"_cfFmCai---","tei":"\n\t\n\t\tEvaluation of Online Consumer Health Information for Idiopathic Scoliosis Identified by a GoogleTM Search\n\t\t\n\t\t\tSCHeady\n\t\t\n\t\t\n\t\t\tMAWeaver\n\t\t\n\t\t\n\t\t\tGMBerg\n\t\t\n\t\t\n\t\t\tEMManlove\n\t\t\n\t\t\n\t\t\tJEThuener\n\t\t\n\t\t\n\t\t\tDCBurton\n\t\t\n\t\t10.17161/kjm.v11i4.8705\n\t\n\t\n\t\tKans. J. Med\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79abb7723bebd8669a9b4"},"refKey":41},
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{"_key":"60c79b077723bebd8669a9f9","_id":"references/60c79b077723bebd8669a9f9","_rev":"_cfFmCba---","tei":"\n\t\n\t\tEMBOSS: The European Molecular Biology Open Software Suite\n\t\t\n\t\t\tPeterRice\n\t\t\n\t\t\n\t\t\tIanLongden\n\t\t\n\t\t\n\t\t\tAlanBleasby\n\t\t\n\t\t10.1016/s0168-9525(00)02024-2\n\t\t10827456\n\t\tS0168-9525(00)02024-2\n\t\tark:/67375/6H6-5DKFQFC8-B\n\t\t3C9902D8477EC7901934D84EDD53D81386C72D82\n\t\t\n\t\n\t\n\t\tTrends in Genetics\n\t\tTrends in Genetics\n\t\t0168-9525\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c79b077723bebd8669a9f5"},"refKey":14},
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{"_key":"60c79bff7723bebd8669aad3","_id":"references/60c79bff7723bebd8669aad3","_rev":"_cfFmCge---","tei":"\n\t\n\t\tConSurf: Identification of Functional Regions in Proteins by Surface-Mapping of Phylogenetic Information\n\t\t\n\t\t\tFGlaser\n\t\t\n\t\t\n\t\t\tTPupko\n\t\t\n\t\t\n\t\t\tIPaz\n\t\t\n\t\t\n\t\t\tREBell\n\t\t\n\t\t\n\t\t\tDBechor-Shental\n\t\t\n\t\t\n\t\t\tEMartz\n\t\t\n\t\t\n\t\t\tNBen-Tal\n\t\t\n\t\t10.1093/bioinformatics/19.1.163\n\t\t12499312\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c79bff7723bebd8669aad1"},"refKey":19},
{"_key":"60c79c047723bebd8669aadd","_id":"references/60c79c047723bebd8669aadd","_rev":"_cfFmCgq---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c79c047723bebd8669aadc"},"refKey":30},
{"_key":"60c79c047723bebd8669aade","_id":"references/60c79c047723bebd8669aade","_rev":"_cfFmCg2---","tei":"\n\t\n\t\tSwissParam: A fast force field generation tool for small organic molecules\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t\n\t\t\tMichelACuendet\n\t\t\n\t\t\n\t\t\tAurélienGrosdidier\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t10.1002/jcc.21816\n\t\t21541964\n\t\tark:/67375/WNG-JXRH4SZ3-4\n\t\tE1E8474DD5A97FF89630C525576EEF2F52348B29\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c79c047723bebd8669aadc"},"refKey":42},
{"_key":"60c79c8d7723bebd8669ab38","_id":"references/60c79c8d7723bebd8669ab38","_rev":"_cfFmChC---","tei":"\n\t\n\t\tCOVID-19 pandemic and mental health consequences: Systematic review of the current evidence\n\t\t\n\t\t\tWViechtbauer\n\t\t\n\t\t10.18637/jss.v036.i03\n\t\tdoi:10.1016/j.bbi.2020.05.048\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tVindegaard, N., & Benros, M. E.\n\t\t\n\t\t\t1\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBrain, Behavior, and Immunity\n\n","document":{"$oid":"60c79c8d7723bebd8669ab37"},"refKey":71},
{"_key":"60c79ce57723bebd8669acf7","_id":"references/60c79ce57723bebd8669acf7","_rev":"_cfFmChO---","tei":"\n\t\n\t\tWetrace-a privacy-preserving mobile covid-19 tracing approach and application\n\t\t\n\t\t\tDeCarli\n\t\t\n\t\t\n\t\t\tAFranco\n\t\t\n\t\t\n\t\t\tMGassmann\n\t\t\n\t\t\n\t\t\tAKiller\n\t\t\n\t\t\n\t\t\tCRodrigues\n\t\t\n\t\t\n\t\t\tBScheid\n\t\t\n\t\t\n\t\t\tE\n\t\t\n\t\tarXiv:2004.08812\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c79ce57723bebd8669acf6"},"refKey":11},
{"_key":"60c79ce57723bebd8669acf8","_id":"references/60c79ce57723bebd8669acf8","_rev":"_cfFmCha---","tei":"\n\t\n\t\tEthertwin: Blockchain-based secure digital twin information management\n\t\t\n\t\t\tBPutz\n\t\t\n\t\t\n\t\t\tMDietz\n\t\t\n\t\t\n\t\t\tPEmpl\n\t\t\n\t\t\n\t\t\tGPernul\n\t\t\n\t\n\t\n\t\tInformation Processing & Management\n\t\t\n\t\t\t58\n\t\t\t1\n\t\t\t102425\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79ce57723bebd8669acf6"},"refKey":36},
{"_key":"60c79ce57723bebd8669acf9","_id":"references/60c79ce57723bebd8669acf9","_rev":"_cfFmChm---","tei":"\n\t\n\t\tElasticsearch: the definitive guide: a distributed real-time search and analytics engine\n\t\t\n\t\t\tCGormley\n\t\t\n\t\t\n\t\t\tZTong\n\t\t\n\t\t\n\t\t\t\n\t\t\tPackt Publishing Ltd\n\t\t\n\t\n\tAkka essentials\n\n","document":{"$oid":"60c79ce57723bebd8669acf6"},"refKey":17},
{"_key":"60c79ce57723bebd8669acfa","_id":"references/60c79ce57723bebd8669acfa","_rev":"_cfFmChy---","tei":"\n\t\n\t\tCassandra: a decentralized structured storage system\n\t\t\n\t\t\tALakshman\n\t\t\n\t\t\n\t\t\tPMalik\n\t\t\n\t\n\t\n\t\tOperating Systems Review\n\t\t\n\t\t\t44\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79ce57723bebd8669acf6"},"refKey":27},
{"_key":"60c79ce57723bebd8669acfb","_id":"references/60c79ce57723bebd8669acfb","_rev":"_cfFmCi----","tei":"\n\t\n\t\tThe Scala Programming Language\n\t\t\n\t\t\tStrapdata\n\t\t\n\t\t\n\t\n\t\n\t\tstrapdata/elassandra. GitHub\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79ce57723bebd8669acf6"},"refKey":39},
{"_key":"60c79ce77723bebd8669ad10","_id":"references/60c79ce77723bebd8669ad10","_rev":"_cfFmCiK---","tei":"\n\t\n\t\tThe Scleroderma Patient-centered Intervention Network (SPIN) Cohort: protocol for a cohort multiple randomised controlled trial (cmRCT) design to support trials of psychosocial and rehabilitation interventions in a rare disease context\n\t\t\n\t\t\tLindaKwakkenbos\n\t\t\n\t\t\n\t\t\tLisaRJewett\n\t\t\n\t\t\n\t\t\tMurrayBaron\n\t\t\n\t\t\n\t\t\tSusanJBartlett\n\t\t\n\t\t\n\t\t\tDanFurst\n\t\t\n\t\t\n\t\t\tKarenGottesman\n\t\t\n\t\t\n\t\t\tDineshKhanna\n\t\t\n\t\t\n\t\t\tVanessaLMalcarne\n\t\t\n\t\t\n\t\t\tMaureenDMayes\n\t\t\n\t\t\n\t\t\tLucMouthon\n\t\t\n\t\t\n\t\t\tSergePoiraudeau\n\t\t\n\t\t\n\t\t\tMaureenSauve\n\t\t\n\t\t\n\t\t\tWarrenRNielson\n\t\t\n\t\t\n\t\t\tJanetLPoole\n\t\t\n\t\t\n\t\t\tShervinAssassi\n\t\t\n\t\t\n\t\t\tIsabelleBoutron\n\t\t\n\t\t\n\t\t\tCarolynElls\n\t\t\n\t\t\n\t\t\tCorneliaHmVan Den Ende\n\t\t\n\t\t\n\t\t\tMarieHudson\n\t\t\n\t\t\n\t\t\tAnnImpens\n\t\t\n\t\t\n\t\t\tAnnettKörner\n\t\t\n\t\t\n\t\t\tCatarinaLeite\n\t\t\n\t\t\n\t\t\tAngelaCosta Maia\n\t\t\n\t\t\n\t\t\tCindyMendelson\n\t\t\n\t\t\n\t\t\tJanetPope\n\t\t\n\t\t\n\t\t\tRussellJSteele\n\t\t\n\t\t\n\t\t\tMariaESuarez-Almazor\n\t\t\n\t\t\n\t\t\tSaraAhmed\n\t\t\n\t\t\n\t\t\tStephanieCoronado-Montoya\n\t\t\n\t\t\n\t\t\tVanessaCDelisle\n\t\t\n\t\t\n\t\t\tShadiGholizadeh\n\t\t\n\t\t\n\t\t\tYeonaJang\n\t\t\n\t\t\n\t\t\tBrookeLevis\n\t\t\n\t\t\n\t\t\tKatherineMilette\n\t\t\n\t\t\n\t\t\tSarahDMills\n\t\t\n\t\t\n\t\t\tIlyaRazykov\n\t\t\n\t\t\n\t\t\tRinaSFox\n\t\t\n\t\t\n\t\t\tBrettDThombs\n\t\t\n\t\t10.1136/bmjopen-2013-003563\n\t\t23929922\n\t\tPMC3740254\n\t\t\n\t\n\t\n\t\tBMJ Open\n\t\tBMJ Open\n\t\t2044-6055\n\t\t\n\t\t\t3\n\t\t\t8\n\t\t\te003563\n\t\t\t\n\t\t\tBMJ\n\t\t\n\t\n\n","document":{"$oid":"60c79ce77723bebd8669ad0f"},"refKey":20},
{"_key":"60c79d057723bebd8669ad25","_id":"references/60c79d057723bebd8669ad25","_rev":"_cfFmCiW---","tei":"\n\t\n\t\tAllele-specific copy number analysis of tumors\n\t\t\n\t\t\tPVan Loo\n\t\t\n\t\t\n\t\t\tSHNordgard\n\t\t\n\t\t\n\t\t\tOCLingjaerde\n\t\t\n\t\t\n\t\t\tHGRussnes\n\t\t\n\t\t\n\t\t\tIHRye\n\t\t\n\t\t\n\t\t\tWSun\n\t\t\n\t\t\n\t\t\tVJWeigman\n\t\t\n\t\t\n\t\t\tPMarynen\n\t\t\n\t\t\n\t\t\tAZetterberg\n\t\t\n\t\t\n\t\t\tBNaume\n\t\t\n\t\t\n\t\t\tCMPerou\n\t\t\n\t\t\n\t\t\tA-LBorresen-Dale\n\t\t\n\t\t\n\t\t\tVNKristensen\n\t\t\n\t\t10.1073/pnas.1009843107\n\t\t20837533\n\t\tPMC2947907\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t107\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c79d057723bebd8669ad24"},"refKey":14},
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{"_key":"60c79d057723bebd8669ad28","_id":"references/60c79d057723bebd8669ad28","_rev":"_cfFmCi2---","tei":"\n\t\n\t\tModel-based clustering and data transformations for gene expression data\n\t\t\n\t\t\tKYYeung\n\t\t\n\t\t\n\t\t\tCFraley\n\t\t\n\t\t\n\t\t\tAMurua\n\t\t\n\t\t\n\t\t\tAERaftery\n\t\t\n\t\t\n\t\t\tWLRuzzo\n\t\t\n\t\t10.1093/bioinformatics/17.10.977\n\t\t11673243\n\t\t1460-2059\n\t\tark:/67375/HXZ-J4D8923Q-S\n\t\tA582DBA78280E6AD86E70DB50DD5AEE0450B2CDF\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t17\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c79d057723bebd8669ad24"},"refKey":20},
{"_key":"60c79d057723bebd8669ad29","_id":"references/60c79d057723bebd8669ad29","_rev":"_cfFmCjC---","tei":"\n\t\n\t\tBioconductor: open software development for computational biology and bioinformatics\n\t\t\n\t\t\tRCGentleman\n\t\t\n\t\t\n\t\t\tVJCarey\n\t\t\n\t\t\n\t\t\tDMBates\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t5\n\t\t\tR80\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79d057723bebd8669ad24"},"refKey":18},
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{"_key":"60c79d2c7723bebd8669ad44","_id":"references/60c79d2c7723bebd8669ad44","_rev":"_cfFmCja---","tei":"\n\t\n\t\tProcessing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79d2c7723bebd8669ad43"},"refKey":30},
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{"_key":"60c79d2c7723bebd8669ad46","_id":"references/60c79d2c7723bebd8669ad46","_rev":"_cfFmCjy---","tei":"\n\t\n\t\tARP⧸wARP and Automatic Interpretation of Protein Electron Density Maps\n\t\t\n\t\t\tRichardJMorris\n\t\t\n\t\t\n\t\t\tAnastassisPerrakis\n\t\t\n\t\t\n\t\t\tVictorSLamzin\n\t\t\n\t\t10.1016/s0076-6879(03)74011-7\n\t\t14696376\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t374\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79d2c7723bebd8669ad43"},"refKey":33},
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{"_key":"60c79d347723bebd8669ad52","_id":"references/60c79d347723bebd8669ad52","_rev":"_cfFmCkS---","tei":"\n\t\n\t\tCOVID-19 Docking Server: A meta server for docking small molecules, peptides and antibodies against potential targets of COVID-19\n\t\t\n\t\t\tRKong\n\t\t\n\t\t\n\t\t\tGYang\n\t\t\n\t\t\n\t\t\tRXue\n\t\t\n\t\t\n\t\t\tMLiu\n\t\t\n\t\t\n\t\t\tFWang\n\t\t\n\t\t\n\t\t\tJHu\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t2020\n\t\t\n\t\n\tin press\n\n","document":{"$oid":"60c79d347723bebd8669ad51"},"refKey":21},
{"_key":"60c79d347723bebd8669ad53","_id":"references/60c79d347723bebd8669ad53","_rev":"_cfFmCke---","tei":"\n\t\n\t\tOpen babel: an open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\t\n\t\t\tCMorley\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\n\t\n\t\tJ Cheminform\n\t\t\n\t\t\t3\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79d347723bebd8669ad51"},"refKey":19},
{"_key":"60c79d567723bebd8669ad79","_id":"references/60c79d567723bebd8669ad79","_rev":"_cfFmCkq---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79d567723bebd8669ad78"},"refKey":25},
{"_key":"60c79d857723bebd8669ad85","_id":"references/60c79d857723bebd8669ad85","_rev":"_cfFmCk2---","tei":"\n\t\n\t\tFastTree 2-approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79d857723bebd8669ad84"},"refKey":38},
{"_key":"60c79d857723bebd8669ad86","_id":"references/60c79d857723bebd8669ad86","_rev":"_cfFmClC---","tei":"\n\t\n\t\tMiXCR: software for comprehensive adaptive immunity profiling\n\t\t\n\t\t\tDABolotin\n\t\t\n\t\t\n\t\t\tSPoslavsky\n\t\t\n\t\t\n\t\t\tIMitrophanov\n\t\t\n\t\t\n\t\t\tMShugay\n\t\t\n\t\t\n\t\t\tIZMamedov\n\t\t\n\t\t\n\t\t\tEVPutintseva\n\t\t\n\t\t\n\t\t\tDMChudakov\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79d857723bebd8669ad84"},"refKey":3},
{"_key":"60c79d857723bebd8669ad87","_id":"references/60c79d857723bebd8669ad87","_rev":"_cfFmClO---","tei":"\n\t\n\t\tMouse T cell repertoires as statistical ensembles: overall characterization and age dependence\n\t\t\n\t\t\tZacharySethna\n\t\t\n\t\t\n\t\t\tYuvalElhanati\n\t\t\n\t\t\n\t\t\tCrissySDudgeon\n\t\t\n\t\t\n\t\t\tCurtisGCallan\n\t\t\n\t\t\n\t\t\tArnoldLevine\n\t\t\n\t\t\n\t\t\tThierryMora\n\t\t\n\t\t\n\t\t\tAleksandraWalczak\n\t\t\n\t\t10.1101/086884\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c79d857723bebd8669ad84"},"refKey":42},
{"_key":"60c79ddf7723bebd8669adca","_id":"references/60c79ddf7723bebd8669adca","_rev":"_cfFmCla---","tei":"\n\t\n\t\tSWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information\n\t\t\n\t\t\tMarcoBiasini\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tKonstantinArnold\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tTobiasSchmidt\n\t\t\n\t\t\n\t\t\tFlorianKiefer\n\t\t\n\t\t\n\t\t\tTizianoGalloCassarino\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\n\t\t10.1093/nar/gku340\n\t\t24782522\n\t\tPMC4086089\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c79ddf7723bebd8669adc9"},"refKey":2},
{"_key":"60c79ddf7723bebd8669adcb","_id":"references/60c79ddf7723bebd8669adcb","_rev":"_cfFmClm---","tei":"\n\t\n\t\tCOVID-19 spike-host cell receptor GRP78 binding site prediction\n\t\t\n\t\t\tIMIbrahim\n\t\t\n\t\t\n\t\t\tDHAbdelmalek\n\t\t\n\t\t\n\t\t\tMEElshahat\n\t\t\n\t\t\n\t\t\tAAElfiky\n\t\t\n\t\t10.1016/j.jinf.2020.02.026\n\t\t\n\t\n\t\n\t\tJournal of Infection\n\t\t\n\t\t\t80\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79ddf7723bebd8669adc9"},"refKey":19},
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{"_key":"60c79e307723bebd8669ae25","_id":"references/60c79e307723bebd8669ae25","_rev":"_cfFmCmq---","tei":"\n\t\n\t\tJane: a new tool for the cophylogeny reconstruction problem\n\t\t\n\t\t\tCConow\n\t\t\n\t\n\t\n\t\tAlgorithms for Molecular Biology: AMB\n\t\t\n\t\t\t5\n\t\t\t16\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79e307723bebd8669ae24"},"refKey":5},
{"_key":"60c79e307723bebd8669ae26","_id":"references/60c79e307723bebd8669ae26","_rev":"_cfFmCn----","tei":"\n\t\n\t\tExploring network structure, dynamics, and function using NetworkX\n\t\t\n\t\t\tAAHagberg\n\t\t\n\t\t\n\t\t\tDASchult\n\t\t\n\t\t\n\t\t\tPJSwart\n\t\t\n\t\n\t\n\t\tProceedings of 7th Python in Science Conference (SciPy2008)\n\t\t\t\t\n\t\t\tGVaroquaux\n\t\t\tTVaught\n\t\t\tJMillman\n\t\t\n\t\t7th Python in Science Conference (SciPy2008)Pasadena, CA\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79e307723bebd8669ae24"},"refKey":18},
{"_key":"60c79e307723bebd8669ae27","_id":"references/60c79e307723bebd8669ae27","_rev":"_cfFmCnS---","tei":"\n\t\n\t\tA parameter-adaptive dynamic programming approach for inferring cophylogenies\n\t\t\n\t\t\tDanielMerkle\n\t\t\n\t\t\n\t\t\tMartinMiddendorf\n\t\t\n\t\t\n\t\t\tNicolasWieseke\n\t\t\n\t\t10.1186/1471-2105-11-s1-s60\n\t\t20122236\n\t\tPMC3009534\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\tS1\n\t\t\tS60\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c79e307723bebd8669ae24"},"refKey":39},
{"_key":"60c79e307723bebd8669ae28","_id":"references/60c79e307723bebd8669ae28","_rev":"_cfFmCna---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79e307723bebd8669ae24"},"refKey":50},
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{"_key":"60c79eaf7723bebd8669ae92","_id":"references/60c79eaf7723bebd8669ae92","_rev":"_cfFmCoK---","tei":"\n\t\n\t\tNormalization of real-time quantitative reverse transcription-PCR data: a model-based variance estimation approach to identify genes suited for normalization, applied to bladder and colon cancer data sets\n\t\t\n\t\t\tCLAndersen\n\t\t\n\t\t\n\t\t\tJLJensen\n\t\t\n\t\t\n\t\t\tTFOrntoft\n\t\t\n\t\n\t\n\t\tCancer Res\n\t\t\n\t\t\t64\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c79eaf7723bebd8669ae91"},"refKey":28},
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{"_key":"60c79ebb7723bebd8669aeb3","_id":"references/60c79ebb7723bebd8669aeb3","_rev":"_cfFmCoi---","tei":"\n\t\n\t\t\n\t\n\t\n\t\tStata Statistical Software: Release\n\t\t\n\t\t\t12\n\t\t\n\t\n\n","document":{"$oid":"60c79ebb7723bebd8669aeb1"},"refKey":19},
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{"_key":"60c79ec47723bebd8669aeb9","_id":"references/60c79ec47723bebd8669aeb9","_rev":"_cfFmCo6---","tei":"\n\t\n\t\tPrinciples for computational design of binding antibodies\n\t\t\n\t\t\tDrorBaran\n\t\t\t0000-0002-2458-3840\n\t\t\n\t\t\n\t\t\tMGabrielePszolla\n\t\t\n\t\t\n\t\t\tGideonDLapidoth\n\t\t\n\t\t\n\t\t\tChristofferNorn\n\t\t\n\t\t\n\t\t\tOrlyDym\n\t\t\n\t\t\n\t\t\tTamarUnger\n\t\t\n\t\t\n\t\t\tShiraAlbeck\n\t\t\n\t\t\n\t\t\tMichaelDTyka\n\t\t\n\t\t\n\t\t\tSarelJFleishman\n\t\t\n\t\t10.1073/pnas.1707171114\n\t\t28973872\n\t\tPMC5642698\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProc Natl Acad Sci USA\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t114\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c79ec47723bebd8669aeb7"},"refKey":52},
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{"_key":"60c7a0d27723bebd8669b087","_id":"references/60c7a0d27723bebd8669b087","_rev":"_cfFmCtS---","tei":"\n\t\n\t\tIndustrial-strength natural language processing in Python: spaCy. Version 2.3.0 [software\n\t\t\n\t\t\tExplosionaiGmbh\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7a0d27723bebd8669b086"},"refKey":18},
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{"_key":"60c7a2bc7723bebd8669b1d7","_id":"references/60c7a2bc7723bebd8669b1d7","_rev":"_cfFmCyC---","tei":"\n\t\n\t\tGROMACS: fast, flexible and free\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tGGroenhof\n\t\t\n\t\t\n\t\t\tAEMark\n\t\t\n\t\t\n\t\t\tHJ CBerendsen\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7a2bc7723bebd8669b1d5"},"refKey":27},
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{"_key":"60c7a2d07723bebd8669b1ec","_id":"references/60c7a2d07723bebd8669b1ec","_rev":"_cfFmCyy---","tei":"\n\t\n\t\tAutomated batch fiducial-less tilt-series alignment in Appion using Protomo\n\t\t\n\t\t\tAlexJNoble\n\t\t\n\t\t\n\t\t\tScottMStagg\n\t\t\n\t\t10.1016/j.jsb.2015.10.003\n\t\t26455557\n\t\tPMC4633401\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t192\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7a2d07723bebd8669b1ea"},"refKey":2},
{"_key":"60c7a2d07723bebd8669b1ed","_id":"references/60c7a2d07723bebd8669b1ed","_rev":"_cfFmCz----","tei":"\n\t\n\t\tRELION: implementation of a Bayesian approach to cryo-EM structure determination\n\t\t\n\t\t\tSHScheres\n\t\t\n\t\n\t\n\t\tJ Struct Biol\n\t\t\n\t\t\t180\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7a2d07723bebd8669b1ea"},"refKey":5},
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{"_key":"60c7a2e77723bebd8669b22f","_id":"references/60c7a2e77723bebd8669b22f","_rev":"_cfFmC0C---","tei":"\n\t\n\t\tTiming of community mitigation and changes in reported COVID-19 and community mobility-four\n\t\t\n\t\t\tALasry\n\t\t\n\t\t10.15585/mmwr.mm6915e2\n\t\n\t\n\t\tMorb. Mortal. Wkly. Rep\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7a2e77723bebd8669b22d"},"refKey":44},
{"_key":"60c7a30e7723bebd8669b247","_id":"references/60c7a30e7723bebd8669b247","_rev":"_cfFmC0O---","tei":"\n\t\n\t\tSAS User's Guide: Statistics, Version 5 Edition\n\t\t\n\t\t\tAnon\n\t\t\n\t\n\t\n\t\tSAS Institute Corp\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7a30e7723bebd8669b246"},"refKey":0},
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{"_key":"60c7a31e7723bebd8669b256","_id":"references/60c7a31e7723bebd8669b256","_rev":"_cfFmC0y---","tei":"\n\t\n\t\tMS1, MS2, and SQT—three unified, compact, and easily parsed file formats for the storage of shotgun proteomic spectra and identifications\n\t\t\n\t\t\tWHayesMcdonald\n\t\t\n\t\t\n\t\t\tDavidLTabb\n\t\t\n\t\t\n\t\t\tRovshanGSadygov\n\t\t\n\t\t\n\t\t\tMichaelJMaccoss\n\t\t\n\t\t\n\t\t\tJohnVenable\n\t\t\n\t\t\n\t\t\tJohannesGraumann\n\t\t\n\t\t\n\t\t\tJeffRJohnson\n\t\t\n\t\t\n\t\t\tDanielCociorva\n\t\t\n\t\t\n\t\t\tJohnRYates\n\t\t\n\t\t10.1002/rcm.1603\n\t\t15317041\n\t\tark:/67375/WNG-217XZC17-5\n\t\t9E938300C3E0D61B887A11D10D927957127388D6\n\t\n\t\n\t\tRapid Communications in Mass Spectrometry\n\t\tRapid Commun. Mass Spectrom.\n\t\t0951-4198\n\t\t1097-0231\n\t\t\n\t\t\t18\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7a31e7723bebd8669b255"},"refKey":206},
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{"_key":"60c7a33a7723bebd8669b273","_id":"references/60c7a33a7723bebd8669b273","_rev":"_cfFmC1K---","tei":"\n\t\n\t\tRpact: confirmatory adaptive clinical trial design and analysis\n\t\t\n\t\t\tGWassmer\n\t\t\n\t\t\n\t\t\tFPahlke\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2.0.6\n\n","document":{"$oid":"60c7a33a7723bebd8669b272"},"refKey":203},
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{"_key":"60c7a4a57723bebd8669b40a","_id":"references/60c7a4a57723bebd8669b40a","_rev":"_cfFmC7a---","tei":"\n\t\n\t\tDADA2: High resolution sample inference from amplicon data\n\t\t\n\t\t\tBenjaminJCallahan\n\t\t\n\t\t\n\t\t\tPaulJMcmurdie\n\t\t\n\t\t\n\t\t\tMichaelJRosen\n\t\t\n\t\t\n\t\t\tAndrewWHan\n\t\t\n\t\t\n\t\t\tAmyJJohnson\n\t\t\n\t\t\n\t\t\tSusanPHolmes\n\t\t\n\t\t10.1101/024034\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t581\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7a4a57723bebd8669b409"},"refKey":40},
{"_key":"60c7a4a57723bebd8669b40b","_id":"references/60c7a4a57723bebd8669b40b","_rev":"_cfFmC7m---","tei":"\n\t\n\t\tErratum: MetaPhlAn2 for enhanced metagenomic taxonomic profiling\n\t\t\n\t\t\tDuyTinTruong\n\t\t\n\t\t\n\t\t\tEricAFranzosa\n\t\t\n\t\t\n\t\t\tTimothyLTickle\n\t\t\n\t\t\n\t\t\tMatthiasScholz\n\t\t\n\t\t\n\t\t\tGeorgeWeingart\n\t\t\n\t\t\n\t\t\tEdoardoPasolli\n\t\t\n\t\t\n\t\t\tAdrianTett\n\t\t\n\t\t\n\t\t\tCurtisHuttenhower\n\t\t\n\t\t\n\t\t\tNicolaSegata\n\t\t\n\t\t10.1038/nmeth0116-101b\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t13\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7a4a57723bebd8669b409"},"refKey":39},
{"_key":"60c7a4a57723bebd8669b40c","_id":"references/60c7a4a57723bebd8669b40c","_rev":"_cfFmC7y---","tei":"\n\t\n\t\tMetagenomic microbial community profiling using unique clade-specific marker genes\n\t\t\n\t\t\tNicolaSegata\n\t\t\n\t\t\n\t\t\tLeviWaldron\n\t\t\n\t\t\n\t\t\tAnnalisaBallarini\n\t\t\n\t\t\n\t\t\tVagheeshNarasimhan\n\t\t\n\t\t\n\t\t\tOlivierJousson\n\t\t\n\t\t\n\t\t\tCurtisHuttenhower\n\t\t\n\t\t10.1038/nmeth.2066\n\t\t22688413\n\t\tPMC3443552\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7a4a57723bebd8669b409"},"refKey":48},
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{"_key":"60c7a4f87723bebd8669b4a1","_id":"references/60c7a4f87723bebd8669b4a1","_rev":"_cfFmC9m---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\t1016/0263-7855(96)00018-5\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7a4f87723bebd8669b4a0"},"refKey":24},
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{"_key":"60c7a4f87723bebd8669b4a3","_id":"references/60c7a4f87723bebd8669b4a3","_rev":"_cfFmD-----","tei":"\n\t\n\t\tLigScore: a novel scoring function for predicting binding affinities\n\t\t\n\t\t\tAndréKrammer\n\t\t\n\t\t\n\t\t\tPaulDKirchhoff\n\t\t\n\t\t\n\t\t\tXJiang\n\t\t\n\t\t\n\t\t\tCMVenkatachalam\n\t\t\n\t\t\n\t\t\tMarvinWaldman\n\t\t\n\t\t10.1016/j.jmgm.2004.11.007\n\t\t15781182\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics and Modelling\n\t\tJournal of Molecular Graphics and Modelling\n\t\t1093-3263\n\t\t\n\t\t\t23\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7a4f87723bebd8669b4a0"},"refKey":35},
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{"_key":"60c7a74b7723bebd8669b6a0","_id":"references/60c7a74b7723bebd8669b6a0","_rev":"_cfFmDEm---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7a74b7723bebd8669b69b"},"refKey":101},
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{"_key":"60c7a79d7723bebd8669b6f1","_id":"references/60c7a79d7723bebd8669b6f1","_rev":"_cfFmDFq---","tei":"\n\t\n\t\tKMC 3: counting and manipulating k-mer statistics\n\t\t\n\t\t\tMarekKokot\n\t\t\n\t\t\n\t\t\tMaciejDługosz\n\t\t\n\t\t\n\t\t\tSebastianDeorowicz\n\t\t\n\t\t10.1093/bioinformatics/btx304\n\t\t28472236\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7a79d7723bebd8669b6ed"},"refKey":54},
{"_key":"60c7a79d7723bebd8669b6f2","_id":"references/60c7a79d7723bebd8669b6f2","_rev":"_cfFmDF2---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7a79d7723bebd8669b6ed"},"refKey":80},
{"_key":"60c7a79d7723bebd8669b6f3","_id":"references/60c7a79d7723bebd8669b6f3","_rev":"_cfFmDGC---","tei":"\n\t\n\t\tMerCat: a versatile k-mer counter and diversity estimator for database-independent property analysis obtained from metagenomic and/or metatranscriptomic sequencing data\n\t\t\n\t\t\tRichardAllenWhite Iii\n\t\t\n\t\t\n\t\t\tAjayPanyala\n\t\t\n\t\t\n\t\t\tKevinGlass\n\t\t\n\t\t\n\t\t\tSeanColby\n\t\t\n\t\t\n\t\t\tKurtRGlaesemann\n\t\t\t0000-0002-9512-1395\n\t\t\n\t\t\n\t\t\tChristerJansson\n\t\t\n\t\t\n\t\t\tJanetKJansson\n\t\t\n\t\t10.7287/peerj.preprints.2825v1\n\t\t\n\t\t\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\tPeerJ Prepr. 2017, 5, e2825v1. [CrossRef\n\n","document":{"$oid":"60c7a79d7723bebd8669b6ed"},"refKey":56},
{"_key":"60c7a79d7723bebd8669b6f4","_id":"references/60c7a79d7723bebd8669b6f4","_rev":"_cfFmDGO---","tei":"\n\t\n\t\tMMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets\n\t\t\n\t\t\tMartinSteinegger\n\t\t\t0000-0001-8781-9753\n\t\t\n\t\t\n\t\t\tJohannesSöding\n\t\t\t0000-0001-9642-8244\n\t\t\n\t\t10.1038/nbt.3988\n\t\t29035372\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7a79d7723bebd8669b6ed"},"refKey":57},
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{"_key":"60c7a79d7723bebd8669b6f6","_id":"references/60c7a79d7723bebd8669b6f6","_rev":"_cfFmDGm---","tei":"\n\t\n\t\tRASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes\n\t\t\n\t\t\tThomasBrettin\n\t\t\n\t\t\n\t\t\tJamesJDavis\n\t\t\n\t\t\n\t\t\tTerryDisz\n\t\t\n\t\t\n\t\t\tRobertAEdwards\n\t\t\n\t\t\n\t\t\tSvetlanaGerdes\n\t\t\n\t\t\n\t\t\tGaryJOlsen\n\t\t\n\t\t\n\t\t\tRobertOlson\n\t\t\n\t\t\n\t\t\tRossOverbeek\n\t\t\n\t\t\n\t\t\tBruceParrello\n\t\t\n\t\t\n\t\t\tGordonDPusch\n\t\t\n\t\t\n\t\t\tMaulikShukla\n\t\t\n\t\t\n\t\t\tJamesAThomason\n\t\t\n\t\t\n\t\t\tRickStevens\n\t\t\n\t\t\n\t\t\tVeronikaVonstein\n\t\t\n\t\t\n\t\t\tAliceRWattam\n\t\t\n\t\t\n\t\t\tFangfangXia\n\t\t\n\t\t10.1038/srep08365\n\t\t25666585\n\t\tPMC4322359\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tSci. Rep. 2015, 5, 8365. [CrossRef. PubMed\n\n","document":{"$oid":"60c7a79d7723bebd8669b6ed"},"refKey":53},
{"_key":"60c7a79d7723bebd8669b6f7","_id":"references/60c7a79d7723bebd8669b6f7","_rev":"_cfFmDGy---","tei":"\n\t\n\t\t0: Fundamental Algorithms for Scientific Computing in Python\n\t\t\n\t\t\tPVirtanen\n\t\t\n\t\t\n\t\t\tRGommers\n\t\t\n\t\t\n\t\t\tTEOliphant\n\t\t\n\t\t\n\t\t\tMHaberland\n\t\t\n\t\t\n\t\t\tTReddy\n\t\t\n\t\t\n\t\t\tDCournapeau\n\t\t\n\t\t\n\t\t\tEBurovski\n\t\t\n\t\t\n\t\t\tPPeterson\n\t\t\n\t\t\n\t\t\tWWeckesser\n\t\t\n\t\t\n\t\t\tJBright\n\t\t\n\t\t10.1038/s41592-019-0686-2\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tet al. SciPy 1.. PubMed\n\n","document":{"$oid":"60c7a79d7723bebd8669b6ed"},"refKey":65},
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{"_key":"60c7aabb7723bebd8669bb51","_id":"references/60c7aabb7723bebd8669bb51","_rev":"_cfFmDQW---","tei":"\n\t\n\t\tEvaluation of methods for the prediction of membrane spanning regions\n\t\t\n\t\t\tSMoller\n\t\t\n\t\t\n\t\t\tMdrD RCroning\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\t10.1093/bioinformatics/18.1.218\n\t\t1460-2059\n\t\tark:/67375/HXZ-T4LBLFXS-3\n\t\t2DD7E64BA177DD7080797CACBCD772E676470C9B\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t18\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7aabb7723bebd8669bb50"},"refKey":15},
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{"_key":"60c7ac6e7723bebd8669bcad","_id":"references/60c7ac6e7723bebd8669bcad","_rev":"_cfFmDW2---","tei":"\n\t\n\t\tmiRviewer: a multispecies microRNA homologous viewer\n\t\t\n\t\t\tAdamKiezun\n\t\t\n\t\t\n\t\t\tShayArtzi\n\t\t\n\t\t\n\t\t\tShiraModai\n\t\t\n\t\t\n\t\t\tNaamaVolk\n\t\t\n\t\t\n\t\t\tOferIsakov\n\t\t\n\t\t\n\t\t\tNoamShomron\n\t\t\n\t\t10.1186/1756-0500-5-92\n\t\t22330228\n\t\tPMC3292992\n\t\t\n\t\n\t\n\t\tBMC Research Notes\n\t\tBMC Research Notes\n\t\t1756-0500\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t92\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7ac6e7723bebd8669bcac"},"refKey":20},
{"_key":"60c7acc57723bebd8669bd0d","_id":"references/60c7acc57723bebd8669bd0d","_rev":"_cfFmDXC---","tei":"\n\t\n\t\tVisualizing density maps with UCSF Chimera\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2006.06.010\n\t\t16963278\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7acc57723bebd8669bd0c"},"refKey":64},
{"_key":"60c7acc57723bebd8669bd0e","_id":"references/60c7acc57723bebd8669bd0e","_rev":"_cfFmDXO---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7acc57723bebd8669bd0c"},"refKey":73},
{"_key":"60c7acc57723bebd8669bd0f","_id":"references/60c7acc57723bebd8669bd0f","_rev":"_cfFmDXa---","tei":"\n\t\n\t\tAutomated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\t0000-0001-5025-9596\n\t\t\n\t\t\n\t\t\tYifanSong\n\t\t\n\t\t\n\t\t\tBenjaminABarad\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t10.1101/050286\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t5\n\t\t\te17219\n\t\t\n\t\n\n","document":{"$oid":"60c7acc57723bebd8669bd0c"},"refKey":67},
{"_key":"60c7acc57723bebd8669bd10","_id":"references/60c7acc57723bebd8669bd10","_rev":"_cfFmDXi---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7acc57723bebd8669bd0c"},"refKey":71},
{"_key":"60c7acc57723bebd8669bd11","_id":"references/60c7acc57723bebd8669bd11","_rev":"_cfFmDXu---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7acc57723bebd8669bd0c"},"refKey":77},
{"_key":"60c7acc97723bebd8669bd23","_id":"references/60c7acc97723bebd8669bd23","_rev":"_cfFmDX6---","tei":"\n\t\n\t\tFunRich: An open access standalone functional enrichment and interaction network analysis tool\n\t\t\n\t\t\tMPathan\n\t\t\n\t\t\n\t\t\tSKeerthikumar\n\t\t\n\t\t\n\t\t\tCSAng\n\t\t\n\t\t\n\t\t\tLGangoda\n\t\t\n\t\t\n\t\t\tCYQuek\n\t\t\n\t\t\n\t\t\tNAWilliamson\n\t\t\n\t\t\n\t\t\tDMouradov\n\t\t\n\t\t\n\t\t\tOMSieber\n\t\t\n\t\t\n\t\t\tRJSimpson\n\t\t\n\t\t\n\t\t\tASalim\n\t\t\n\t\t\n\t\t\tABacic\n\t\t\n\t\t\n\t\t\tAFHill\n\t\t\n\t\t\n\t\t\tDAStroud\n\t\t\n\t\t\n\t\t\tMTRyan\n\t\t\n\t\t\n\t\t\tJIAgbinya\n\t\t\n\t\t\n\t\t\tJMMariadason\n\t\t\n\t\t\n\t\t\tAWBurgess\n\t\t\n\t\t\n\t\t\tSMathivanan\n\t\t\n\t\n\t\n\t\tProteomics\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7acc97723bebd8669bd22"},"refKey":103},
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{"_key":"60c7acf07723bebd8669bd3e","_id":"references/60c7acf07723bebd8669bd3e","_rev":"_cfFmDYS---","tei":"\n\t\n\t\tDifferential expression analysis of multifactor RNA-Seq experiments with respect to biological variation\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7acf07723bebd8669bd3d"},"refKey":46},
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{"_key":"60c7acf07723bebd8669bd40","_id":"references/60c7acf07723bebd8669bd40","_rev":"_cfFmDYm---","tei":"\n\t\n\t\tMapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt\n\t\t\n\t\t\tSDurinck\n\t\t\n\t\t\n\t\t\tPTSpellman\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7acf07723bebd8669bd3d"},"refKey":49},
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{"_key":"60c7ad0f7723bebd8669bd56","_id":"references/60c7ad0f7723bebd8669bd56","_rev":"_cfFmDZ----","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ad0f7723bebd8669bd54"},"refKey":2},
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{"_key":"60c7ad0f7723bebd8669bd58","_id":"references/60c7ad0f7723bebd8669bd58","_rev":"_cfFmDZS---","tei":"\n\t\n\t\tVSEARCH: a versatile open source tool for metagenomics\n\t\t\n\t\t\tTorbjørnRognes\n\t\t\n\t\t\n\t\t\tTomášFlouri\n\t\t\n\t\t\n\t\t\tBenNichols\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tFrédéricMahé\n\t\t\n\t\t10.7287/peerj.preprints.2409\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t\n\t\t\t4\n\t\t\te2584\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c7ad0f7723bebd8669bd54"},"refKey":33},
{"_key":"60c7ad0f7723bebd8669bd59","_id":"references/60c7ad0f7723bebd8669bd59","_rev":"_cfFmDZe---","tei":"\n\t\n\t\tDADA2: High resolution sample inference from amplicon data\n\t\t\n\t\t\tBenjaminJCallahan\n\t\t\n\t\t\n\t\t\tPaulJMcmurdie\n\t\t\n\t\t\n\t\t\tMichaelJRosen\n\t\t\n\t\t\n\t\t\tAndrewWHan\n\t\t\n\t\t\n\t\t\tAmyJJohnson\n\t\t\n\t\t\n\t\t\tSusanPHolmes\n\t\t\n\t\t10.1101/024034\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t13\n\t\t\t581\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7ad0f7723bebd8669bd54"},"refKey":9},
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{"_key":"60c7ad597723bebd8669bd94","_id":"references/60c7ad597723bebd8669bd94","_rev":"_cfFmDZ2---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7ad597723bebd8669bd92"},"refKey":32},
{"_key":"60c7ad597723bebd8669bd95","_id":"references/60c7ad597723bebd8669bd95","_rev":"_cfFmDa----","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\n\t\n\t\tVienna: R Foundation for Statistical Computing\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ad597723bebd8669bd93"},"refKey":29},
{"_key":"60c7ad597723bebd8669bd96","_id":"references/60c7ad597723bebd8669bd96","_rev":"_cfFmDaK---","tei":"\n\t\n\t\tNetwork analyses structure genetic diversity in independent genetic worlds\n\t\t\n\t\t\tSHalary\n\t\t\n\t\t\n\t\t\tJWLeigh\n\t\t\n\t\t\n\t\t\tBCheaib\n\t\t\n\t\t\n\t\t\tPLopez\n\t\t\n\t\t\n\t\t\tEBapteste\n\t\t\n\t\t10.1073/pnas.0908978107\n\t\t20007769\n\t\tPMC2806761\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t107\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c7ad597723bebd8669bd92"},"refKey":15},
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{"_key":"60c7ad7c7723bebd8669bdc8","_id":"references/60c7ad7c7723bebd8669bdc8","_rev":"_cfFmDbO---","tei":"\n\t\n\t\tMEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tBrief. Bioinform\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ad7c7723bebd8669bdc7"},"refKey":25},
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{"_key":"60c7adbd7723bebd8669bdf3","_id":"references/60c7adbd7723bebd8669bdf3","_rev":"_cfFmDbi---","tei":"\n\t\n\t\tImproved method for predicting linear B-cell epitopes\n\t\t\n\t\t\tJepLarsen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunome Res\n\t\t\n\t\t\t2\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7adbd7723bebd8669bdf2"},"refKey":7},
{"_key":"60c7adbd7723bebd8669bdf4","_id":"references/60c7adbd7723bebd8669bdf4","_rev":"_cfFmDbu---","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSSaha\n\t\t\n\t\t\n\t\t\tGpsRaghava\n\t\t\n\t\n\t\n\t\tProteins Struct Funct Bioinforma\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7adbd7723bebd8669bdf2"},"refKey":6},
{"_key":"60c7adbd7723bebd8669bdf5","_id":"references/60c7adbd7723bebd8669bdf5","_rev":"_cfFmDb6---","tei":"\n\t\n\t\tBepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes\n\t\t\n\t\t\tMartinClosterJespersen\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t10.1093/nar/gkx346\n\t\t28472356\n\t\tPMC5570230\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7adbd7723bebd8669bdf2"},"refKey":10},
{"_key":"60c7adbd7723bebd8669bdf6","_id":"references/60c7adbd7723bebd8669bdf6","_rev":"_cfFmDcG---","tei":"\n\t\n\t\tPredicting linear B-cell epitopes using amino acid anchoring pair composition\n\t\t\n\t\t\tWeikeShen\n\t\t\n\t\t\n\t\t\tYuanCao\n\t\t\n\t\t\n\t\t\tLeiCha\n\t\t\n\t\t\n\t\t\tXufeiZhang\n\t\t\n\t\t\n\t\t\tXiaominYing\n\t\t\n\t\t\n\t\t\tWeiZhang\n\t\t\n\t\t\n\t\t\tKunGe\n\t\t\n\t\t\n\t\t\tWujuLi\n\t\t\n\t\t\n\t\t\tLiZhong\n\t\t\n\t\t10.1186/s13040-015-0047-3\n\t\t26029265\n\t\tPMC4449562\n\t\t\n\t\n\t\n\t\tBioData Mining\n\t\tBioData Mining\n\t\t1756-0381\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t14\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7adbd7723bebd8669bdf2"},"refKey":9},
{"_key":"60c7adbd7723bebd8669bdf7","_id":"references/60c7adbd7723bebd8669bdf7","_rev":"_cfFmDcO---","tei":"\n\t\n\t\tSVM-based prediction of linear B-cell epitopes using Bayes Feature Extraction\n\t\t\n\t\t\tLawrenceJkWee\n\t\t\n\t\t\n\t\t\tDianeSimarmata\n\t\t\n\t\t\n\t\t\tYiu-WingKam\n\t\t\n\t\t\n\t\t\tLisaFpNg\n\t\t\n\t\t\n\t\t\tJooChuanTong\n\t\t\n\t\t10.1186/1471-2164-11-s4-s21\n\t\t21143805\n\t\tPMC3005920\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t11\n\t\t\tSuppl 4\n\t\t\tS21\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7adbd7723bebd8669bdf2"},"refKey":14},
{"_key":"60c7adbd7723bebd8669bdf8","_id":"references/60c7adbd7723bebd8669bdf8","_rev":"_cfFmDca---","tei":"\n\t\n\t\tSVMTriP: A Method to Predict Antigenic Epitopes Using Support Vector Machine to Integrate Tri-Peptide Similarity and Propensity\n\t\t\n\t\t\tBoYao\n\t\t\n\t\t\n\t\t\tLinZhang\n\t\t\n\t\t\n\t\t\tShideLiang\n\t\t\n\t\t\n\t\t\tChiZhang\n\t\t\n\t\t10.1371/journal.pone.0045152\n\t\t22984622\n\t\tPMC3440317\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t7\n\t\t\t9\n\t\t\te45152\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c7adbd7723bebd8669bdf2"},"refKey":16},
{"_key":"60c7adbd7723bebd8669bdf9","_id":"references/60c7adbd7723bebd8669bdf9","_rev":"_cfFmDcm---","tei":"\n\t\n\t\tImproved Method for Linear B-Cell Epitope Prediction Using Antigen’s Primary Sequence\n\t\t\n\t\t\tHarinderSingh\n\t\t\n\t\t\n\t\t\tHifzurRahmanAnsari\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1371/journal.pone.0062216\n\t\t23667458\n\t\tPMC3646881\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t5\n\t\t\te62216\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c7adbd7723bebd8669bdf2"},"refKey":8},
{"_key":"60c7adcc7723bebd8669be1d","_id":"references/60c7adcc7723bebd8669be1d","_rev":"_cfFmDcy---","tei":"\n\t\n\t\tInteractive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c7adcc7723bebd8669be1c"},"refKey":18},
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{"_key":"60c7adcc7723bebd8669be20","_id":"references/60c7adcc7723bebd8669be20","_rev":"_cfFmDdS---","tei":"\n\t\n\t\tTreeTime: Maximum-likelihood phylodynamic analysis\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tVadimPuller\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\t0000-0003-2525-1407\n\t\t\n\t\t10.1093/ve/vex042\n\t\t29340210\n\t\tPMC5758920\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\t2057-1577\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t42\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7adcc7723bebd8669be1c"},"refKey":15},
{"_key":"60c7ade77723bebd8669be33","_id":"references/60c7ade77723bebd8669be33","_rev":"_cfFmDde---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ade77723bebd8669be32"},"refKey":29},
{"_key":"60c7adf37723bebd8669be40","_id":"references/60c7adf37723bebd8669be40","_rev":"_cfFmDdq---","tei":"\n\t\n\t\tPractical statistics for medical research\n\t\t\n\t\t\tDGAltman\n\t\t\n\t\t\n\t\t\t\n\t\t\tChapman and Hall\n\t\t\t624\n\t\t\tLondon\n\t\t\n\t\n\n","document":{"$oid":"60c7adf37723bebd8669be3f"},"refKey":65},
{"_key":"60c7ae537723bebd8669be80","_id":"references/60c7ae537723bebd8669be80","_rev":"_cfFmDd2---","tei":"\n\t\n\t\tUncovering epidemiological dynamics in heterogeneous host populations using phylogenetic methods\n\t\t\n\t\t\tTanjaStadler\n\t\t\n\t\t\n\t\t\tSebastianBonhoeffer\n\t\t\n\t\t10.1098/rstb.2012.0198\n\t\t23382421\n\t\tPMC3678323\n\t\t\n\t\n\t\n\t\tPhilosophical Transactions of the Royal Society B: Biological Sciences\n\t\tPhil. Trans. R. Soc. B\n\t\t0962-8436\n\t\t1471-2970\n\t\t\n\t\t\t368\n\t\t\t1614\n\t\t\t20120198\n\t\t\t\n\t\t\tThe Royal Society\n\t\t\n\t\n\n","document":{"$oid":"60c7ae537723bebd8669be7f"},"refKey":4},
{"_key":"60c7ae537723bebd8669be81","_id":"references/60c7ae537723bebd8669be81","_rev":"_cfFmDe----","tei":"\n\t\n\t\tBirth-death skyline plot reveals temporal changes of epidemic spread in HIV and hepatitis C virus (HCV)\n\t\t\n\t\t\tTStadler\n\t\t\n\t\t\n\t\t\tDKuhnert\n\t\t\n\t\t\n\t\t\tSBonhoeffer\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t10.1073/pnas.1207965110\n\t\t23248286\n\t\tPMC3538216\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t110\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c7ae537723bebd8669be7f"},"refKey":3},
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{"_key":"60c7af157723bebd8669bf68","_id":"references/60c7af157723bebd8669bf68","_rev":"_cfFmDjO---","tei":"\n\t\n\t\tA Bayesian view on cryo-EM structure determination\n\t\t\n\t\t\tSjorsHScheres\n\t\t\n\t\t10.1109/isbi.2012.6235807\n\t\n\t\n\t\t2012 9th IEEE International Symposium on Biomedical Imaging (ISBI)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t415\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7af157723bebd8669bf63"},"refKey":89},
{"_key":"60c7af157723bebd8669bf69","_id":"references/60c7af157723bebd8669bf69","_rev":"_cfFmDja---","tei":"\n\t\n\t\tLikelihood-based classification of cryo-EM images using FREALIGN\n\t\t\n\t\t\tDmitryLyumkis\n\t\t\n\t\t\n\t\t\tAxelFBrilot\n\t\t\n\t\t\n\t\t\tDouglasLTheobald\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\n\t\t10.1016/j.jsb.2013.07.005\n\t\t23872434\n\t\tPMC3824613\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t183\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7af157723bebd8669bf63"},"refKey":11},
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{"_key":"60c7b24c7723bebd8669c30f","_id":"references/60c7b24c7723bebd8669c30f","_rev":"_cfFmD0K---","tei":"\n\t\n\t\tal Reference simulations of noncanonical nucleic acids with different χ variants of the AMBER force field: quadruplex DNA, quadruplex RNA and Z-DNA\n\t\t\n\t\t\tMKrepl\n\t\t\n\t\t\n\t\t\tMZgarbová\n\t\t\n\t\t\n\t\t\tPStadlbauer\n\t\t\n\t\t\n\t\t\tMOtyepka\n\t\t\n\t\t\n\t\t\tPBanáš\n\t\t\n\t\t\n\t\t\tJKoča\n\t\t\n\t\t23197943\n\t\n\t\n\t\tJ Chem Theory Comput\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b24c7723bebd8669c308"},"refKey":97},
{"_key":"60c7b24c7723bebd8669c310","_id":"references/60c7b24c7723bebd8669c310","_rev":"_cfFmD0W---","tei":"\n\t\n\t\tToward Improved Description of DNA Backbone: Revisiting Epsilon and Zeta Torsion Force Field Parameters\n\t\t\n\t\t\tMZgarbová\n\t\t\n\t\t\n\t\t\tFJLuque\n\t\t\n\t\t\n\t\t\tJSponer\n\t\t\n\t\t\n\t\t\tCheatham Te 3rd\n\t\t\n\t\t\n\t\t\tMOtyepka\n\t\t\n\t\t\n\t\t\tPJurečka\n\t\t\n\t\t24058302\n\t\n\t\n\t\tJ Chem Theory Comput\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b24c7723bebd8669c308"},"refKey":98},
{"_key":"60c7b24c7723bebd8669c311","_id":"references/60c7b24c7723bebd8669c311","_rev":"_cfFmD0i---","tei":"\n\t\n\t\tRefinement of the Cornell et al. Nucleic Acids Force Field Based on Reference Quantum Chemical Calculations of Glycosidic Torsion Profiles\n\t\t\n\t\t\tMarieZgarbová\n\t\t\n\t\t\n\t\t\tMichalOtyepka\n\t\t\n\t\t\n\t\t\tJiříŠponer\n\t\t\n\t\t\n\t\t\tArnoštMládek\n\t\t\n\t\t\n\t\t\tPavelBanáš\n\t\t\n\t\t\n\t\t\tThomasECheatham\n\t\t\n\t\t\n\t\t\tPetrJurečka\n\t\t\n\t\t10.1021/ct200162x\n\t\t21921995\n\t\tPMC3171997\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t7\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c7b24c7723bebd8669c308"},"refKey":99},
{"_key":"60c7b24c7723bebd8669c312","_id":"references/60c7b24c7723bebd8669c312","_rev":"_cfFmD0u---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tTADarden\n\t\t\n\t\t\n\t\t\tCheatham Te 3rd\n\t\t\n\t\t\n\t\t\tCLSimmerling\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tREDuke\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tRCWalker\n\t\t\n\t\t\n\t\t\tWZhang\n\t\t\n\t\t\n\t\t\tKMMerz\n\t\t\n\t\n\t\n\t\tAMBER\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\n","document":{"$oid":"60c7b24c7723bebd8669c308"},"refKey":122},
{"_key":"60c7b24c7723bebd8669c313","_id":"references/60c7b24c7723bebd8669c313","_rev":"_cfFmD06---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tATBrunger\n\t\t\n\t\t\n\t\t\tX-PlorVer\n\t\t\n\t\t\n\t\t\t\n\t\t\t851\n\t\t\tNewYork\n\t\t\n\t\t\n\t\t\tYale University\n\t\t\n\t\n\n","document":{"$oid":"60c7b24c7723bebd8669c308"},"refKey":92},
{"_key":"60c7b2577723bebd8669c328","_id":"references/60c7b2577723bebd8669c328","_rev":"_cfFmD1G---","tei":"\n\t\n\t\tBioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b2577723bebd8669c327"},"refKey":13},
{"_key":"60c7b2577723bebd8669c329","_id":"references/60c7b2577723bebd8669c329","_rev":"_cfFmD1S---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b2577723bebd8669c327"},"refKey":14},
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{"_key":"60c7b2697723bebd8669c33e","_id":"references/60c7b2697723bebd8669c33e","_rev":"_cfFmD2----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\n\t\n\t\tCCP4 Newsletter on Protein Crystallography\n\t\t\n\t\t\t40\n\t\t\t82\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b2697723bebd8669c33b"},"refKey":42},
{"_key":"60c7b29b7723bebd8669c380","_id":"references/60c7b29b7723bebd8669c380","_rev":"_cfFmD2K---","tei":"\n\t\n\t\tApplication of localized molecular orbitals to the solution of semiempirical self-consistent field equations\n\t\t\n\t\t\tJamesJ PStewart\n\t\t\n\t\t10.1002/(sici)1097-461x(1996)58:2<133::aid-qua2>3.0.co;2-z\n\t\tark:/67375/WNG-7P7SVWKB-H\n\t\tBE77D6DFE4CF0133789C28AB51D37F80C2E71F71\n\t\n\t\n\t\tInternational Journal of Quantum Chemistry\n\t\tInt. J. Quantum Chem.\n\t\t0020-7608\n\t\t1097-461X\n\t\t\n\t\t\t58\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7b29b7723bebd8669c37f"},"refKey":22},
{"_key":"60c7b29b7723bebd8669c381","_id":"references/60c7b29b7723bebd8669c381","_rev":"_cfFmD2W---","tei":"\n\t\n\t\tThe ChEMBL database in 2017\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tAnneHersey\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tAPatríciaBento\n\t\t\n\t\t\n\t\t\tJonChambers\n\t\t\n\t\t\n\t\t\tDavidMendez\n\t\t\n\t\t\n\t\t\tPrudenceMutowo\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tLouisaJBellis\n\t\t\n\t\t\n\t\t\tElenaCibrián-Uhalte\n\t\t\n\t\t\n\t\t\tMarkDavies\n\t\t\n\t\t\n\t\t\tNathanDedman\n\t\t\n\t\t\n\t\t\tAnneliKarlsson\n\t\t\n\t\t\n\t\t\tMaríaPaulaMagariños\n\t\t\n\t\t\n\t\t\tJohnPOverington\n\t\t\n\t\t\n\t\t\tGeorgePapadatos\n\t\t\t0000-0002-8314-7061\n\t\t\n\t\t\n\t\t\tInesSmit\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t10.1093/nar/gkw1074\n\t\t27899562\n\t\tPMC5210557\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7b29b7723bebd8669c37f"},"refKey":16},
{"_key":"60c7b3157723bebd8669c3c7","_id":"references/60c7b3157723bebd8669c3c7","_rev":"_cfFmD2i---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b3157723bebd8669c3c6"},"refKey":10},
{"_key":"60c7b3157723bebd8669c3c8","_id":"references/60c7b3157723bebd8669c3c8","_rev":"_cfFmD2q---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b3157723bebd8669c3c6"},"refKey":20},
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{"_key":"60c7b3157723bebd8669c3ca","_id":"references/60c7b3157723bebd8669c3ca","_rev":"_cfFmD3C---","tei":"\n\t\n\t\tSide-chain-directed model and map validation for 3D Electron Cryomicroscopy\n\t\t\n\t\t\tBenjaminABarad\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\n\t\t10.1101/014738\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7b3157723bebd8669c3c6"},"refKey":4},
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{"_key":"60c7b32a7723bebd8669c3e3","_id":"references/60c7b32a7723bebd8669c3e3","_rev":"_cfFmD3i---","tei":"\n\t\n\t\tSecondary Cloud AutoML\n\t\t\n\t\t\tAlphabet_IncCloudAutoml\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b32a7723bebd8669c3e2"},"refKey":1},
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{"_key":"60c7b7d57723bebd8669c8d3","_id":"references/60c7b7d57723bebd8669c8d3","_rev":"_cfFmEEa---","tei":"\n\t\n\t\tGenome annotation transfer utility (GATU): rapid annotation of viral genomes using a closely related reference genome\n\t\t\n\t\t\tVTcherepanov\n\t\t\n\t\t\n\t\t\tAEhlers\n\t\t\n\t\t\n\t\t\tCUpton\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t7\n\t\t\t150\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b7d57723bebd8669c8d0"},"refKey":75},
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{"_key":"60c7b7d57723bebd8669c8d5","_id":"references/60c7b7d57723bebd8669c8d5","_rev":"_cfFmEEy---","tei":"\n\t\n\t\tErratum to “pLoc-mVirus: Predict subcellular localization of multi-location virus proteins via incorporating the optimal GO information into general PseAAC” [Gene 628 (2017) 315–321]\n\t\t\n\t\t\tXiangCheng\n\t\t\n\t\t\n\t\t\tXuanXiao\n\t\t\n\t\t\n\t\t\tKuo-ChenChou\n\t\t\n\t\t10.1016/j.gene.2017.11.060\n\t\t29190459\n\t\n\t\n\t\tGene\n\t\tGene\n\t\t0378-1119\n\t\t\n\t\t\t646\n\t\t\t234\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7b7d57723bebd8669c8d0"},"refKey":21},
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{"_key":"60c7b7d57723bebd8669c8d9","_id":"references/60c7b7d57723bebd8669c8d9","_rev":"_cfFmEFe---","tei":"\n\t\n\t\tVisitor, An Informatic Pipeline for Analysis of Viral siRNA Sequencing Datasets\n\t\t\n\t\t\tChristopheAntoniewski\n\t\t\n\t\t10.1007/978-1-61779-037-9_7\n\t\t21431682\n\t\n\t\n\t\tAntiviral RNAi\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t721\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b7d57723bebd8669c8d0"},"refKey":6},
{"_key":"60c7b7d57723bebd8669c8da","_id":"references/60c7b7d57723bebd8669c8da","_rev":"_cfFmEFq---","tei":"\n\t\n\t\tviRome: an R package for the visualization and analysis of viral small RNA sequence datasets\n\t\t\n\t\t\tMWatson\n\t\t\n\t\t\n\t\t\tESchnettler\n\t\t\n\t\t\n\t\t\tAKohl\n\t\t\n\t\t10.1093/bioinformatics/btt297\n\t\t23709497\n\t\tPMC3712215\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7b7d57723bebd8669c8d0"},"refKey":84},
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{"_key":"60c7b7d57723bebd8669c8dc","_id":"references/60c7b7d57723bebd8669c8dc","_rev":"_cfFmEG----","tei":"\n\t\n\t\tEPIMHC: a curated database of MHC-binding peptides for customized computational vaccinology\n\t\t\n\t\t\tPAReche\n\t\t\n\t\t\n\t\t\tHZhang\n\t\t\n\t\t\n\t\t\tJ-PGlutting\n\t\t\n\t\t\n\t\t\tELReinherz\n\t\t\n\t\t10.1093/bioinformatics/bti269\n\t\t15657103\n\t\tark:/67375/HXZ-8BQJP62N-R\n\t\tA44604943B20386D4A1BEEE84348E718481A00CA\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7b7d57723bebd8669c8d0"},"refKey":53},
{"_key":"60c7b7d57723bebd8669c8dd","_id":"references/60c7b7d57723bebd8669c8dd","_rev":"_cfFmEGK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b7d57723bebd8669c8d0"},"refKey":4},
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{"_key":"60c7b7d57723bebd8669c8df","_id":"references/60c7b7d57723bebd8669c8df","_rev":"_cfFmEGi---","tei":"\n\t\n\t\tViral genome organizer: a system for analyzing complete viral genomes\n\t\t\n\t\t\tChrisUpton\n\t\t\n\t\t\n\t\t\tDuncanHogg\n\t\t\n\t\t\n\t\t\tDavidPerrin\n\t\t\n\t\t\n\t\t\tMatthewBoone\n\t\t\n\t\t\n\t\t\tNomiLHarris\n\t\t\n\t\t10.1016/s0168-1702(00)00210-0\n\t\t11074125\n\t\tS0168-1702(00)00210-0\n\t\tark:/67375/6H6-64XMD660-1\n\t\t48DE5DB0C5D3EC872A9C1D714D8CDB6FF8989DA5\n\t\n\t\n\t\tVirus Research\n\t\tVirus Research\n\t\t0168-1702\n\t\t\n\t\t\t70\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7b7d57723bebd8669c8d0"},"refKey":79},
{"_key":"60c7b7d57723bebd8669c8e0","_id":"references/60c7b7d57723bebd8669c8e0","_rev":"_cfFmEGq---","tei":"\n\t\n\t\tZCURVE: a new system for recognizing protein-coding genes in bacterial and archaeal genomes\n\t\t\n\t\t\tF-BBGuo\n\t\t\n\t\t\n\t\t\tCTZhang\n\t\t\n\t\t10.1093/nar/gkg254\n\t\t12626720\n\t\tPMC152858\n\t\tark:/67375/HXZ-QSL55SFP-8\n\t\t8B63197F0991B75A8213382E8D1362204FEBCCC4\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7b7d57723bebd8669c8d0"},"refKey":30},
{"_key":"60c7b7d57723bebd8669c8e1","_id":"references/60c7b7d57723bebd8669c8e1","_rev":"_cfFmEG2---","tei":"\n\t\n\t\tA statistical model for HIV-1 sequence classification using the subtype analyser (STAR)\n\t\t\n\t\t\tREMyers\n\t\t\n\t\t\n\t\t\tCVGale\n\t\t\n\t\t\n\t\t\tAHarrison\n\t\t\n\t\t\n\t\t\tYTakeuchi\n\t\t\n\t\t\n\t\t\tPKellam\n\t\t\n\t\t10.1093/bioinformatics/bti569\n\t\t16046498\n\t\tark:/67375/HXZ-CCCZ54J3-7\n\t\t22A3F30648C9ECED3696A65810BE064A73FD57D0\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7b7d57723bebd8669c8d0"},"refKey":45},
{"_key":"60c7b8067723bebd8669c94c","_id":"references/60c7b8067723bebd8669c94c","_rev":"_cfFmEHC---","tei":"\n\t\n\t\tThe {PyMOL} Molecular Graphics System, Version~1\n\t\t\n\t\t\tLlcSchrödinger\n\t\t\n\t\t\n\t\t\t\n\t\t\t8\n\t\t\n\t\n\n","document":{"$oid":"60c7b8067723bebd8669c94b"},"refKey":19},
{"_key":"60c7b8067723bebd8669c94d","_id":"references/60c7b8067723bebd8669c94d","_rev":"_cfFmEHO---","tei":"\n\t\n\t\tA completely reimplemented MPI Bioinformatics Toolkit with a new HHpred server at its core\n\t\t\n\t\t\tLZimmermann\n\t\t\n\t\t\n\t\t\tAStephens\n\t\t\n\t\t\n\t\t\tSZNam\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t430\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b8067723bebd8669c94b"},"refKey":17},
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{"_key":"60c7b8067723bebd8669c94f","_id":"references/60c7b8067723bebd8669c94f","_rev":"_cfFmEHi---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis across computing platforms\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tCKnyaz\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMega X\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b8067723bebd8669c94b"},"refKey":13},
{"_key":"60c7b8067723bebd8669c950","_id":"references/60c7b8067723bebd8669c950","_rev":"_cfFmEHu---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b8067723bebd8669c94b"},"refKey":16},
{"_key":"60c7b82c7723bebd8669c97e","_id":"references/60c7b82c7723bebd8669c97e","_rev":"_cfFmEH6---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b82c7723bebd8669c97d"},"refKey":12},
{"_key":"60c7b8387723bebd8669c985","_id":"references/60c7b8387723bebd8669c985","_rev":"_cfFmEIG---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\tdoi:10.1016/ S0022-2836(05)80360-2\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7b8387723bebd8669c984"},"refKey":17},
{"_key":"60c7b8387723bebd8669c986","_id":"references/60c7b8387723bebd8669c986","_rev":"_cfFmEIS---","tei":"\n\t\n\t\tVelvet: Algorithms for de novo short read assembly using de Bruijn graphs\n\t\t\n\t\t\tDRZerbino\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t10.1101/gr.074492.107\n\t\t18349386\n\t\tPMC2336801\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t18\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7b8387723bebd8669c984"},"refKey":16},
{"_key":"60c7b8387723bebd8669c987","_id":"references/60c7b8387723bebd8669c987","_rev":"_cfFmEIe---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7b8387723bebd8669c984"},"refKey":21},
{"_key":"60c7b8387723bebd8669c988","_id":"references/60c7b8387723bebd8669c988","_rev":"_cfFmEIq---","tei":"\n\t\n\t\tImprovement of Phylogenies after Removing Divergent and Ambiguously Aligned Blocks from Protein Sequence Alignments\n\t\t\n\t\t\tGerardTalavera\n\t\t\n\t\t\n\t\t\tJoseCastresana\n\t\t\n\t\t10.1080/10635150701472164\n\t\t17654362\n\t\tark:/67375/HXZ-BPXFB4NP-V\n\t\t7F66247F6AFD2D644E2E779ED931A9CAA1AC8D80\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t56\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7b8387723bebd8669c984"},"refKey":22},
{"_key":"60c7b8387723bebd8669c989","_id":"references/60c7b8387723bebd8669c989","_rev":"_cfFmEI2---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7b8387723bebd8669c984"},"refKey":25},
{"_key":"60c7b8387723bebd8669c98a","_id":"references/60c7b8387723bebd8669c98a","_rev":"_cfFmEJC---","tei":"\n\t\n\t\tThe HHpred interactive server for protein homology detection and structure prediction\n\t\t\n\t\t\tJSöding\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\t10.1093/nar/gki162\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t33\n\t\t\t15980461\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7b8387723bebd8669c984"},"refKey":31},
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{"_key":"60c7ba0e7723bebd8669cb1a","_id":"references/60c7ba0e7723bebd8669cb1a","_rev":"_cfFmENy---","tei":"\n\t\n\t\tPAST: paleontological statistics software package for education and data analysis\n\t\t\n\t\t\tØHammer\n\t\t\n\t\t\n\t\t\tDA THarper\n\t\t\n\t\t\n\t\t\tPDRyan\n\t\t\n\t\n\t\n\t\tPalae. Electron\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ba0e7723bebd8669cb19"},"refKey":17},
{"_key":"60c7ba497723bebd8669cb42","_id":"references/60c7ba497723bebd8669cb42","_rev":"_cfFmEO----","tei":"\n\t\n\t\tExpanded sequence dependence of thermodynamic parameters provides robust prediction of RNA secondary structure\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t\n\t\t\tJSabina\n\t\t\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t\n\t\t\tDHTurner\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t288\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ba497723bebd8669cb41"},"refKey":28},
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{"_key":"60c7ba4c7723bebd8669cb4d","_id":"references/60c7ba4c7723bebd8669cb4d","_rev":"_cfFmEOi---","tei":"\n\t\n\t\tRELION: Implementation of a Bayesian Approach to Cryo-EM Structure Determination\n\t\t\n\t\t\tSH WScheres\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t2012\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ba4c7723bebd8669cb4b"},"refKey":56},
{"_key":"60c7ba4c7723bebd8669cb4e","_id":"references/60c7ba4c7723bebd8669cb4e","_rev":"_cfFmEOu---","tei":"\n\t\n\t\tUCSF Chimera--a Visualization System for Exploratory Research and Analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ba4c7723bebd8669cb4b"},"refKey":81},
{"_key":"60c7ba4c7723bebd8669cb4f","_id":"references/60c7ba4c7723bebd8669cb4f","_rev":"_cfFmEO6---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7ba4c7723bebd8669cb4b"},"refKey":55},
{"_key":"60c7ba677723bebd8669cb61","_id":"references/60c7ba677723bebd8669cb61","_rev":"_cfFmEPG---","tei":"\n\t\n\t\tTimeTree: a resource for timelines, timetrees, and divergence times\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMSuleski\n\t\t\n\t\t\n\t\t\tSBHedges\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t34\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ba677723bebd8669cb60"},"refKey":58},
{"_key":"60c7ba7c7723bebd8669cb7a","_id":"references/60c7ba7c7723bebd8669cb7a","_rev":"_cfFmEPS---","tei":"\n\t\n\t\tSchrödinger Release\n\t\t\t\tGlide, Schrödinger, LLC, New York, NY, USA\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ba7c7723bebd8669cb79"},"refKey":69},
{"_key":"60c7ba9b7723bebd8669cb97","_id":"references/60c7ba9b7723bebd8669cb97","_rev":"_cfFmEPe---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ba9b7723bebd8669cb96"},"refKey":28},
{"_key":"60c7bab27723bebd8669cba1","_id":"references/60c7bab27723bebd8669cba1","_rev":"_cfFmEPq---","tei":"\n\t\n\t\tSalmonella Vaccine Vectors Displaying Delayed Antigen Synthesis In Vivo To Enhance Immunogenicity\n\t\t\n\t\t\tSWang\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tGScarpellini\n\t\t\n\t\t\n\t\t\tWKong\n\t\t\n\t\t\n\t\t\tHShi\n\t\t\n\t\t\n\t\t\tC-HBaek\n\t\t\n\t\t\n\t\t\tBGunn\n\t\t\n\t\t\n\t\t\tS-YWanda\n\t\t\n\t\t\n\t\t\tKLRoland\n\t\t\n\t\t\n\t\t\tXZhang\n\t\t\n\t\t\n\t\t\tPSenechal-Willis\n\t\t\n\t\t\n\t\t\tRCurtiss\n\t\t\n\t\t10.1128/iai.00444-10\n\t\t20605977\n\t\tPMC2937466\n\t\t\n\t\n\t\n\t\tInfection and Immunity\n\t\tInfection and Immunity\n\t\t0019-9567\n\t\t\n\t\t\t78\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c7bab27723bebd8669cba0"},"refKey":32},
{"_key":"60c7baca7723bebd8669cbac","_id":"references/60c7baca7723bebd8669cbac","_rev":"_cfFmEPy---","tei":"\n\t\n\t\tPredicting linear B‐cell epitopes using string kernels\n\t\t\n\t\t\tYasserEl‐manzalawy\n\t\t\n\t\t\n\t\t\tDrenaDobbs\n\t\t\n\t\t\n\t\t\tVasantHonavar\n\t\t\n\t\t10.1002/jmr.893\n\t\t18496882\n\t\tPMC2683948\n\t\tark:/67375/WNG-WGM67G2V-3\n\t\t6483283356B180D4365629B79073ABBEDE5C41A3\n\t\t\n\t\n\t\n\t\tJournal of Molecular Recognition\n\t\tJ. Mol. Recognit.\n\t\t0952-3499\n\t\t1099-1352\n\t\t\n\t\t\t21\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7baca7723bebd8669cbab"},"refKey":38},
{"_key":"60c7baca7723bebd8669cbad","_id":"references/60c7baca7723bebd8669cbad","_rev":"_cfFmEQ----","tei":"\n\t\n\t\tImproved method for predicting linear B-cell epitopes\n\t\t\n\t\t\tJE PLarsen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunome Res\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7baca7723bebd8669cbab"},"refKey":37},
{"_key":"60c7baca7723bebd8669cbae","_id":"references/60c7baca7723bebd8669cbae","_rev":"_cfFmEQK---","tei":"\n\t\n\t\tSopma Secondary Structure Prediction Method\n\t\t\n\t\t\tPBLyonnais\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7baca7723bebd8669cbab"},"refKey":33},
{"_key":"60c7baca7723bebd8669cbaf","_id":"references/60c7baca7723bebd8669cbaf","_rev":"_cfFmEQW---","tei":"\n\t\n\t\tScalable web services for the PSIPRED protein analysis workbench\n\t\t\n\t\t\tDWBuchan\n\t\t\n\t\t\n\t\t\tFMinneci\n\t\t\n\t\t\n\t\t\tTCNugent\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7baca7723bebd8669cbab"},"refKey":34},
{"_key":"60c7baca7723bebd8669cbb0","_id":"references/60c7baca7723bebd8669cbb0","_rev":"_cfFmEQi---","tei":"\n\t\n\t\tThe Phyre2 web portal for protein modeling, prediction and analysis\n\t\t\n\t\t\tLAKelley\n\t\t\n\t\t\n\t\t\tSMezulis\n\t\t\n\t\t\n\t\t\tCMYates\n\t\t\n\t\t\n\t\t\tMNWass\n\t\t\n\t\t\n\t\t\tMJSternberg\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7baca7723bebd8669cbab"},"refKey":35},
{"_key":"60c7baca7723bebd8669cbb1","_id":"references/60c7baca7723bebd8669cbb1","_rev":"_cfFmEQu---","tei":"\n\t\n\t\tEbola virus can be effectively neutralized by antibody produced in natural human infection\n\t\t\n\t\t\tTMaruyama\n\t\t\n\t\t\n\t\t\tLLRodriguez\n\t\t\n\t\t\n\t\t\tPBJahrling\n\t\t\n\t\t\n\t\t\tASanchez\n\t\t\n\t\t\n\t\t\tASKhan\n\t\t\n\t\t\n\t\t\tSTNichol\n\t\t\n\t\n\t\n\t\tJ. Virol\n\t\t\n\t\t\t73\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7baca7723bebd8669cbab"},"refKey":44},
{"_key":"60c7baca7723bebd8669cbb2","_id":"references/60c7baca7723bebd8669cbb2","_rev":"_cfFmEQ2---","tei":"\n\t\n\t\tJPred4: a protein secondary structure prediction server\n\t\t\n\t\t\tADrozdetskiy\n\t\t\n\t\t\n\t\t\tCCole\n\t\t\n\t\t\n\t\t\tJProcter\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c7baca7723bebd8669cbab"},"refKey":36},
{"_key":"60c7bae87723bebd8669cbe9","_id":"references/60c7bae87723bebd8669cbe9","_rev":"_cfFmERC---","tei":"\n\t\n\t\tAre you maximizing the use of video in your content marketing strategy? Forbes\n\t\t\n\t\t\tAWagner\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bae87723bebd8669cbe8"},"refKey":6},
{"_key":"60c7baf47723bebd8669cbf5","_id":"references/60c7baf47723bebd8669cbf5","_rev":"_cfFmERO---","tei":"\n\t\n\t\tTowards autonomic semantic-based management of distributed applications\n\t\t\n\t\t\tWFunika\n\t\t\n\t\n\t\n\t\tComput. Sci\n\t\t\n\t\t\t11\n\t\t\t51\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7baf47723bebd8669cbf4"},"refKey":9},
{"_key":"60c7bb0d7723bebd8669cc00","_id":"references/60c7bb0d7723bebd8669cc00","_rev":"_cfFmERa---","tei":"\n\t\n\t\t'SEEDY' (Simulation of Evolutionary and Epidemiological Dynamics): An R Package to Follow Accumulation of Within-Host Mutation in Pathogens\n\t\t\n\t\t\tColinJWorby\n\t\t\n\t\t\n\t\t\tTimothyDRead\n\t\t\n\t\t10.1371/journal.pone.0129745\n\t\t26075402\n\t\tPMC4467979\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\te0129745\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c7bb0d7723bebd8669cbff"},"refKey":26},
{"_key":"60c7bb217723bebd8669cc0b","_id":"references/60c7bb217723bebd8669cc0b","_rev":"_cfFmERm---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\t\n\t\t\t\tR Core Team\n\t\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c7bb217723bebd8669cc0a"},"refKey":21},
{"_key":"60c7bb227723bebd8669cc0d","_id":"references/60c7bb227723bebd8669cc0d","_rev":"_cfFmERu---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bb227723bebd8669cc0c"},"refKey":33},
{"_key":"60c7bb227723bebd8669cc0e","_id":"references/60c7bb227723bebd8669cc0e","_rev":"_cfFmER6---","tei":"\n\t\n\t\tSmall-molecule library screening by docking with PyRx\n\t\t\n\t\t\tSDallakyan\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tMethods Mol. Biol\n\t\t\n\t\t\t1263\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bb227723bebd8669cc0c"},"refKey":22},
{"_key":"60c7bb227723bebd8669cc0f","_id":"references/60c7bb227723bebd8669cc0f","_rev":"_cfFmESG---","tei":"\n\t\n\t\tSwissParam: a fast force field generation tool for small organic molecules\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tMACuendet\n\t\t\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bb227723bebd8669cc0c"},"refKey":96},
{"_key":"60c7bb227723bebd8669cc10","_id":"references/60c7bb227723bebd8669cc10","_rev":"_cfFmESS---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bb227723bebd8669cc0c"},"refKey":79},
{"_key":"60c7bb4b7723bebd8669cc5b","_id":"references/60c7bb4b7723bebd8669cc5b","_rev":"_cfFmESe---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t2020\n\t\t\tVienna, Austria\n\t\t\n\t\n\t: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c7bb4b7723bebd8669cc5a"},"refKey":54},
{"_key":"60c7bb4b7723bebd8669cc5c","_id":"references/60c7bb4b7723bebd8669cc5c","_rev":"_cfFmESq---","tei":"\n\t\n\t\tScalable Visualization Methods for Modern Generalized Additive Models\n\t\t\n\t\t\tMatteoFasiolo\n\t\t\n\t\t\n\t\t\tRaphaëlNedellec\n\t\t\n\t\t\n\t\t\tYannigGoude\n\t\t\n\t\t\n\t\t\tSimonNWood\n\t\t\t0000-0002-2034-7453\n\t\t\n\t\t10.1080/10618600.2019.1629942\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational and Graphical Statistics\n\t\tJournal of Computational and Graphical Statistics\n\t\t1061-8600\n\t\t1537-2715\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c7bb4b7723bebd8669cc5a"},"refKey":58},
{"_key":"60c7bb4b7723bebd8669cc5d","_id":"references/60c7bb4b7723bebd8669cc5d","_rev":"_cfFmES2---","tei":"\n\t\n\t\tSmoothing parameter and model selection for general smooth models (with discussion)\n\t\t\n\t\t\tSNWood\n\t\t\n\t\t\n\t\t\tNPya\n\t\t\n\t\t\n\t\t\tBSaefken\n\t\t\n\t\n\t\n\t\tJ Am Stat Assoc\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bb4b7723bebd8669cc5a"},"refKey":57},
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{"_key":"60c7bb6c7723bebd8669cc7a","_id":"references/60c7bb6c7723bebd8669cc7a","_rev":"_cfFmETO---","tei":"\n\t\n\t\tA dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tECHolmes\n\t\t\n\t\t\n\t\t\tAO'toole\n\t\t\n\t\t\n\t\t\tVHill\n\t\t\n\t\t\n\t\t\tJTMccrone\n\t\t\n\t\t\n\t\t\tCRuis\n\t\t\n\t\t\n\t\t\tLDu Plessis\n\t\t\n\t\t\n\t\t\tOGPybus\n\t\t\n\t\t10.1038/s41564-020-0770-5\n\t\tdoi: 10.1038/ s41564-020-0770-5\n\t\n\t\n\t\tNat Microbiol\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bb6c7723bebd8669cc79"},"refKey":28},
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{"_key":"60c7bb957723bebd8669ccdb","_id":"references/60c7bb957723bebd8669ccdb","_rev":"_cfFmEUK---","tei":"\n\t\n\t\tSerial interval of novel coronavirus (2019-ncov) infections. medRxiv\n\t\t\n\t\t\tHNishiura\n\t\t\n\t\t\n\t\t\tNMLinton\n\t\t\n\t\t\n\t\t\tARAkhmetzhanov\n\t\t\n\t\t10.1101/2020.02.03.20019497\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bb957723bebd8669ccda"},"refKey":11},
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{"_key":"60c7bbce7723bebd8669cce8","_id":"references/60c7bbce7723bebd8669cce8","_rev":"_cfFmEUq---","tei":"\n\t\n\t\tHMMER web server: interactive sequence similarity searching\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tJClements\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t10.1093/nar/gkr367\n\t\t21593126\n\t\tPMC3125773\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t39\n\t\t\tsuppl\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bbce7723bebd8669cce5"},"refKey":26},
{"_key":"60c7bbde7723bebd8669ccfc","_id":"references/60c7bbde7723bebd8669ccfc","_rev":"_cfFmEU2---","tei":"\n\t\n\t\tlmerTest package: tests in linear mixed effects models\n\t\t\n\t\t\tAKuznetsova\n\t\t\n\t\t\n\t\t\tPBBrockhoff\n\t\t\n\t\t\n\t\t\tRhbChristensen\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t82\n\t\t\t26\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bbde7723bebd8669ccfb"},"refKey":32},
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{"_key":"60c7bbf47723bebd8669cd09","_id":"references/60c7bbf47723bebd8669cd09","_rev":"_cfFmEVi---","tei":"\n\t\n\t\t\n\t\t\tSDray\n\t\t\n\t\t\n\t\t\tDBauman\n\t\t\n\t\t\n\t\t\tGBlanchet\n\t\t\n\t\t\n\t\t\tDBorcard\n\t\t\n\t\t\n\t\t\tSClappe\n\t\t\n\t\t\n\t\t\tGGuenard\n\t\t\n\t\t\n\t\tMultivariate Multiscale Spatial Analysis\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c7bbf47723bebd8669cd05"},"refKey":87},
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{"_key":"60c7bbf47723bebd8669cd0b","_id":"references/60c7bbf47723bebd8669cd0b","_rev":"_cfFmEV2---","tei":"\n\t\n\t\tResidual Diagnostics for Hierarchical (Multi-Level /Mixed) Regression Models. R package\n\t\t\n\t\t\tFHartig\n\t\t\n\t\t\n\t\t\tDharma\n\t\t\n\t\t\n\t\t\n\t\n\tInternet] 2020\n\n","document":{"$oid":"60c7bbf47723bebd8669cd05"},"refKey":82},
{"_key":"60c7bc197723bebd8669cd22","_id":"references/60c7bc197723bebd8669cd22","_rev":"_cfFmEWC---","tei":"\n\t\n\t\tgrowthrates: Estimate Growth Rates from Experimental Data\n\t\t\n\t\t\tTPetzoldt\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 0.8.1.\n\n","document":{"$oid":"60c7bc197723bebd8669cd21"},"refKey":68},
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{"_key":"60c7bc387723bebd8669cd54","_id":"references/60c7bc387723bebd8669cd54","_rev":"_cfFmEWu---","tei":"\n\t\n\t\tUtilizing quantum biological techniques on a quantum processing unit for improved protein binding site determination\n\t\t\n\t\t\tSSandeep\n\t\t\n\t\t\n\t\t\tVGupta\n\t\t\n\t\t\n\t\t\tTKeenan\n\t\t\n\t\n\t\n\t\tBioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc387723bebd8669cd53"},"refKey":31},
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{"_key":"60c7bc387723bebd8669cd56","_id":"references/60c7bc387723bebd8669cd56","_rev":"_cfFmEXG---","tei":"\n\t\n\t\tAll-atom empirical potential for molecular modeling and dynamics studies of proteins\n\t\t\n\t\t\tADMackerellJr\n\t\t\n\t\t\n\t\t\tDBashford\n\t\t\n\t\t\n\t\t\tMBellott\n\t\t\n\t\t\n\t\t\tRLDunbrackJr\n\t\t\n\t\t\n\t\t\tJDEvanseck\n\t\t\n\t\t\n\t\t\tMJField\n\t\t\n\t\t\n\t\t\tSFischer\n\t\t\n\t\t\n\t\t\tJGao\n\t\t\n\t\t\n\t\t\tHGuo\n\t\t\n\t\t\n\t\t\tSHa\n\t\t\n\t\n\t\n\t\tThe journal of physical chemistry B\n\t\t\n\t\t\t102\n\t\t\t18\n\t\t\t18\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc387723bebd8669cd53"},"refKey":22},
{"_key":"60c7bc387723bebd8669cd57","_id":"references/60c7bc387723bebd8669cd57","_rev":"_cfFmEXS---","tei":"\n\t\n\t\tSimultaneous prediction of protein folding and docking at high resolution\n\t\t\n\t\t\tRhijuDas\n\t\t\n\t\t\n\t\t\tIngemarAndré\n\t\t\n\t\t\n\t\t\tYangShen\n\t\t\n\t\t\n\t\t\tYibingWu\n\t\t\n\t\t\n\t\t\tAlexanderLemak\n\t\t\n\t\t\n\t\t\tSonalBansal\n\t\t\n\t\t\n\t\t\tCherylHArrowsmith\n\t\t\n\t\t\n\t\t\tThomasSzyperski\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t10.1073/pnas.0904407106\n\t\t19864631\n\t\tPMC2770007\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tPNAS\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t106\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c7bc387723bebd8669cd53"},"refKey":12},
{"_key":"60c7bc387723bebd8669cd58","_id":"references/60c7bc387723bebd8669cd58","_rev":"_cfFmEXa---","tei":"\n\t\n\t\tDocking unbound proteins using shape complementarity, desolvation, and electrostatics\n\t\t\n\t\t\tRongChen\n\t\t\n\t\t\n\t\t\tZhipingWeng\n\t\t\n\t\t10.1002/prot.10092\n\t\t11948782\n\t\tark:/67375/WNG-TSBW8XKT-V\n\t\t2ABEA9648B1C6F957CF869D72DEC51C467860DD3\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t47\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7bc387723bebd8669cd53"},"refKey":10},
{"_key":"60c7bc387723bebd8669cd59","_id":"references/60c7bc387723bebd8669cd59","_rev":"_cfFmEXm---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPyspark\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc387723bebd8669cd53"},"refKey":1},
{"_key":"60c7bc417723bebd8669cd91","_id":"references/60c7bc417723bebd8669cd91","_rev":"_cfFmEXy---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bc417723bebd8669cd90"},"refKey":13},
{"_key":"60c7bc417723bebd8669cd92","_id":"references/60c7bc417723bebd8669cd92","_rev":"_cfFmEY----","tei":"\n\t\n\t\tBMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments\n\t\t\n\t\t\tAlexisCriscuolo\n\t\t\n\t\t\n\t\t\tSimonettaGribaldo\n\t\t\n\t\t10.1186/1471-2148-10-210\n\t\t20626897\n\t\tPMC3017758\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Evolutionary Biology\n\t\tBMC Evol Biol\n\t\t1471-2148\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t210\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7bc417723bebd8669cd90"},"refKey":20},
{"_key":"60c7bc417723bebd8669cd93","_id":"references/60c7bc417723bebd8669cd93","_rev":"_cfFmEYG---","tei":"\n\t\n\t\tAdvantages of combined transmembrane topology and signal peptide prediction--the Phobius web server\n\t\t\n\t\t\tLKall\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tEL LSonnhammer\n\t\t\n\t\t10.1093/nar/gkm256\n\t\t17483518\n\t\tPMC1933244\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bc417723bebd8669cd90"},"refKey":19},
{"_key":"60c7bc417723bebd8669cd94","_id":"references/60c7bc417723bebd8669cd94","_rev":"_cfFmEYS---","tei":"\n\t\n\t\tFastME 2.0: A Comprehensive, Accurate, and Fast Distance-Based Phylogeny Inference Program: Table 1.\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tRichardDesper\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/molbev/msv150\n\t\t26130081\n\t\tPMC4576710\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bc417723bebd8669cd90"},"refKey":21},
{"_key":"60c7bc417723bebd8669cd95","_id":"references/60c7bc417723bebd8669cd95","_rev":"_cfFmEYe---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDmaM AMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btp033\n\t\t19151095\n\t\tPMC2672624\n\t\tark:/67375/HXZ-5L762ZQS-N\n\t\t984BAD740626CEADBD2E31F4094D8E18B07D49EA\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bc417723bebd8669cd90"},"refKey":14},
{"_key":"60c7bc5b7723bebd8669cda7","_id":"references/60c7bc5b7723bebd8669cda7","_rev":"_cfFmEYq---","tei":"\n\t\n\t\tUCSF Chimera -A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc5b7723bebd8669cda6"},"refKey":8},
{"_key":"60c7bc5b7723bebd8669cda8","_id":"references/60c7bc5b7723bebd8669cda8","_rev":"_cfFmEYy---","tei":"\n\t\n\t\tUCSF Chimera home page\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc5b7723bebd8669cda6"},"refKey":9},
{"_key":"60c7bc5b7723bebd8669cda9","_id":"references/60c7bc5b7723bebd8669cda9","_rev":"_cfFmEZ----","tei":"\n\t\n\t\tVina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tOlsonAutodock\n\t\t\n\t\t\n\t\t\tAJ\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc5b7723bebd8669cda6"},"refKey":15},
{"_key":"60c7bc5b7723bebd8669cdaa","_id":"references/60c7bc5b7723bebd8669cdaa","_rev":"_cfFmEZK---","tei":"\n\t\n\t\tAutodock Vina Molecular docking and virtual screening program\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc5b7723bebd8669cda6"},"refKey":16},
{"_key":"60c7bc5b7723bebd8669cdab","_id":"references/60c7bc5b7723bebd8669cdab","_rev":"_cfFmEZW---","tei":"\n\t\n\t\tMultiple sequence alignment EMBL-EBI\n\t\t\n\t\t\tClustalOmega\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc5b7723bebd8669cda6"},"refKey":6},
{"_key":"60c7bc5b7723bebd8669cdac","_id":"references/60c7bc5b7723bebd8669cdac","_rev":"_cfFmEZe---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\n\t\n\t\tMol Syst Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc5b7723bebd8669cda6"},"refKey":7},
{"_key":"60c7bc7f7723bebd8669cde2","_id":"references/60c7bc7f7723bebd8669cde2","_rev":"_cfFmEZq---","tei":"\n\t\n\t\tVirusDetect: An automated pipeline for efficient virus discovery using deep sequencing of small RNAs\n\t\t\n\t\t\tYiZheng\n\t\t\n\t\t\n\t\t\tShanGao\n\t\t\n\t\t\n\t\t\tChellappanPadmanabhan\n\t\t\n\t\t\n\t\t\tRugangLi\n\t\t\n\t\t\n\t\t\tMarcoGalvez\n\t\t\n\t\t\n\t\t\tDinaGutierrez\n\t\t\n\t\t\n\t\t\tSegundoFuentes\n\t\t\n\t\t\n\t\t\tKai-ShuLing\n\t\t\n\t\t\n\t\t\tJanKreuze\n\t\t\n\t\t\n\t\t\tZhangjunFei\n\t\t\n\t\t10.1016/j.virol.2016.10.017\n\t\t27825033\n\t\t\n\t\n\t\n\t\tVirology\n\t\tVirology\n\t\t0042-6822\n\t\t\n\t\t\t500\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7bc7f7723bebd8669cde1"},"refKey":24},
{"_key":"60c7bc7f7723bebd8669cde3","_id":"references/60c7bc7f7723bebd8669cde3","_rev":"_cfFmEZ2---","tei":"\n\t\n\t\tFastq_clean: An optimized pipeline to clean the Illumina sequencing data with quality control\n\t\t\n\t\t\tMiZhang\n\t\t\n\t\t\n\t\t\tHongheSun\n\t\t\n\t\t\n\t\t\tZhangjunFei\n\t\t\n\t\t\n\t\t\tFengZhan\n\t\t\n\t\t\n\t\t\tXiujunGong\n\t\t\n\t\t\n\t\t\tShanGao\n\t\t\n\t\t10.1109/bibm.2014.6999309\n\t\t\n\t\n\t\n\t\t2014 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)\n\t\t\t\tBelfast\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t2014\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc7f7723bebd8669cde1"},"refKey":23},
{"_key":"60c7bc7f7723bebd8669cde4","_id":"references/60c7bc7f7723bebd8669cde4","_rev":"_cfFmEaC---","tei":"\n\t\n\t\tFast Program for Clustering and Comparing Large Sets of Protein or Nucleotide Sequences\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t\n\t\t\tAGodzik\n\t\t\n\t\t10.1007/978-1-4899-7478-5_221\n\t\t\n\t\n\t\n\t\tEncyclopedia of Metagenomics\n\t\t\t\t\n\t\t\tSpringer US\n\t\t\t\n\t\t\t22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc7f7723bebd8669cde1"},"refKey":20},
{"_key":"60c7bc7f7723bebd8669cde5","_id":"references/60c7bc7f7723bebd8669cde5","_rev":"_cfFmEaK---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bc7f7723bebd8669cde1"},"refKey":21},
{"_key":"60c7bc7f7723bebd8669cde6","_id":"references/60c7bc7f7723bebd8669cde6","_rev":"_cfFmEaW---","tei":"\n\t\n\t\tMEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t10.1093/bib/bbn017\n\t\t18417537\n\t\tPMC2562624\n\t\t\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bc7f7723bebd8669cde1"},"refKey":22},
{"_key":"60c7bc937723bebd8669cdf9","_id":"references/60c7bc937723bebd8669cdf9","_rev":"_cfFmEai---","tei":"\n\t\n\t\tTime-Series Clustering in R Using the dtwclust Package\n\t\t\n\t\t\tASardá-Espinosa\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc937723bebd8669cdf8"},"refKey":14},
{"_key":"60c7bc937723bebd8669cdfa","_id":"references/60c7bc937723bebd8669cdfa","_rev":"_cfFmEau---","tei":"\n\t\n\t\tMgcv: Mixed GAM computation vehicle with GCV/AIC/REML smoothness estimation\n\t\t\n\t\t\tSNWood\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc937723bebd8669cdf8"},"refKey":22},
{"_key":"60c7bc967723bebd8669ce01","_id":"references/60c7bc967723bebd8669ce01","_rev":"_cfFmEa2---","tei":"\n\t\n\t\tPositive-unlabeled convolutional neural networks for particle picking in cryo-electron micrographs\n\t\t\n\t\t\tTBepler\n\t\t\n\t\t\n\t\t\tAMorin\n\t\t\n\t\t\n\t\t\tMRapp\n\t\t\n\t\t\n\t\t\tJBrasch\n\t\t\n\t\t\n\t\t\tLShapiro\n\t\t\n\t\t\n\t\t\tAJNoble\n\t\t\n\t\t\n\t\t\tBBerger\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bc967723bebd8669ce00"},"refKey":9},
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{"_key":"60c7bcf47723bebd8669ce48","_id":"references/60c7bcf47723bebd8669ce48","_rev":"_cfFmEd----","tei":"\n\t\n\t\tMplus User's Guide: Statistical Analysis with Latent Variables\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\n\t\n\t\tMuthén & Muthén\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\t5th ed. ed.\n\n","document":{"$oid":"60c7bcf47723bebd8669ce47"},"refKey":23},
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{"_key":"60c7bd657723bebd8669ce74","_id":"references/60c7bd657723bebd8669ce74","_rev":"_cfFmEdq---","tei":"\n\t\n\t\tCovidence systematic review software: Melbourne\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tInnovation VH\n\n","document":{"$oid":"60c7bd657723bebd8669ce73"},"refKey":37},
{"_key":"60c7bd997723bebd8669cea1","_id":"references/60c7bd997723bebd8669cea1","_rev":"_cfFmEd6---","tei":"\n\t\n\t\tFSDB: A frameshift signal database\n\t\t\n\t\t\tSanghoonMoon\n\t\t\n\t\t\n\t\t\tYangaByun\n\t\t\n\t\t\n\t\t\tKyungsookHan\n\t\t\n\t\t10.1016/j.compbiolchem.2007.05.004\n\t\t17631420\n\t\n\t\n\t\tComputational Biology and Chemistry\n\t\tComputational Biology and Chemistry\n\t\t1476-9271\n\t\t\n\t\t\t31\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7bd997723bebd8669cea0"},"refKey":54},
{"_key":"60c7bda07723bebd8669ceaa","_id":"references/60c7bda07723bebd8669ceaa","_rev":"_cfFmEeG---","tei":"\n\t\n\t\tiFeature: a Python package and web server for features extraction and selection from protein and peptide sequences\n\t\t\n\t\t\tZhenChen\n\t\t\n\t\t\n\t\t\tPeiZhao\n\t\t\n\t\t\n\t\t\tFuyiLi\n\t\t\n\t\t\n\t\t\tAndréLeier\n\t\t\n\t\t\n\t\t\tTatianaTMarquez-Lago\n\t\t\n\t\t\n\t\t\tYananWang\n\t\t\n\t\t\n\t\t\tGeoffreyIWebb\n\t\t\n\t\t\n\t\t\tAIanSmith\n\t\t\n\t\t\n\t\t\tRogerJDaly\n\t\t\n\t\t\n\t\t\tKuo-ChenChou\n\t\t\n\t\t\n\t\t\tJiangningSong\n\t\t\t0000-0001-8031-9086\n\t\t\n\t\t10.1093/bioinformatics/bty140\n\t\t29528364\n\t\tdoi: 10. 1093/bioinformatics/bty140\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bda07723bebd8669cea9"},"refKey":5},
{"_key":"60c7bda07723bebd8669ceab","_id":"references/60c7bda07723bebd8669ceab","_rev":"_cfFmEeW---","tei":"\n\t\n\t\tA Combined Transmembrane Topology and Signal Peptide Prediction Method\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1016/j.jmb.2004.03.016\n\t\t15111065\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t338\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7bda07723bebd8669cea9"},"refKey":20},
{"_key":"60c7bda07723bebd8669ceac","_id":"references/60c7bda07723bebd8669ceac","_rev":"_cfFmEem---","tei":"\n\t\n\t\tComputational identification of receptor-like kinases "RLK" and receptor-like proteins "RLP" in legumes\n\t\t\n\t\t\tDRestrepo-Montoya\n\t\t\n\t\t\n\t\t\tRBrueggeman\n\t\t\n\t\t\n\t\t\tPEMcclean\n\t\t\n\t\t\n\t\t\tJMOsorno\n\t\t\n\t\t10.1186/s12864-12020-06844-z\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t21\n\t\t\t459\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bda07723bebd8669cea9"},"refKey":40},
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{"_key":"60c7bda07723bebd8669ceae","_id":"references/60c7bda07723bebd8669ceae","_rev":"_cfFmEfG---","tei":"\n\t\n\t\tCD-HIT: accelerated for clustering the next-generation sequencing data\n\t\t\n\t\t\tLiminFu\n\t\t\n\t\t\n\t\t\tBeifangNiu\n\t\t\n\t\t\n\t\t\tZhengweiZhu\n\t\t\n\t\t\n\t\t\tSitaoWu\n\t\t\n\t\t\n\t\t\tWeizhongLi\n\t\t\n\t\t10.1093/bioinformatics/bts565\n\t\t23060610\n\t\tPMC3516142\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bda07723bebd8669cea9"},"refKey":13},
{"_key":"60c7bda07723bebd8669ceaf","_id":"references/60c7bda07723bebd8669ceaf","_rev":"_cfFmEfW---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tBjörnLarsson\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1006/jmbi.2000.4315\n\t\t11152613\n\t\tS0022-2836(00)94315-8\n\t\tark:/67375/6H6-ZB6KWVJ7-M\n\t\t172A90B8F942FA711EF8E2CF5DB2DE13B7F2D351\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7bda07723bebd8669cea9"},"refKey":22},
{"_key":"60c7bda07723bebd8669ceb0","_id":"references/60c7bda07723bebd8669ceb0","_rev":"_cfFmEfm---","tei":"\n\t\n\t\tPfam: the protein families database\n\t\t\n\t\t\tRobertDFinn\n\t\t\n\t\t\n\t\t\tAlexBateman\n\t\t\n\t\t\n\t\t\tJodyClements\n\t\t\n\t\t\n\t\t\tPenelopeCoggill\n\t\t\n\t\t\n\t\t\tRuthYEberhardt\n\t\t\n\t\t\n\t\t\tSeanREddy\n\t\t\n\t\t\n\t\t\tAndreasHeger\n\t\t\n\t\t\n\t\t\tKirstieHetherington\n\t\t\n\t\t\n\t\t\tLiisaHolm\n\t\t\n\t\t\n\t\t\tJainaMistry\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t\n\t\t\tJohnTate\n\t\t\n\t\t\n\t\t\tMarcoPunta\n\t\t\n\t\t10.1093/nar/gkt1223\n\t\t24288371\n\t\tPMC3965110\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl. Acids Res.\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bda07723bebd8669cea9"},"refKey":12},
{"_key":"60c7bda07723bebd8669ceb1","_id":"references/60c7bda07723bebd8669ceb1","_rev":"_cfFmEf2---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7bda07723bebd8669cea9"},"refKey":3},
{"_key":"60c7bda07723bebd8669ceb2","_id":"references/60c7bda07723bebd8669ceb2","_rev":"_cfFmEgC---","tei":"\n\t\n\t\tInterProScan - an integration platform for the signature-recognition methods in InterPro\n\t\t\n\t\t\tEMZdobnov\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\t10.1093/bioinformatics/17.9.847\n\t\t11590104\n\t\t1460-2059\n\t\tark:/67375/HXZ-F7S58DK7-B\n\t\tCD8BBF5C554E199B0F093A139B368ECCBA5AEF44\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t17\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bda07723bebd8669cea9"},"refKey":49},
{"_key":"60c7bda07723bebd8669ceb3","_id":"references/60c7bda07723bebd8669ceb3","_rev":"_cfFmEgW---","tei":"\n\t\n\t\tAccelerated Profile HMM Searches\n\t\t\n\t\t\tSeanREddy\n\t\t\n\t\t10.1371/journal.pcbi.1002195\n\t\t22039361\n\t\tPMC3197634\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t7\n\t\t\t10\n\t\t\te1002195\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c7bda07723bebd8669cea9"},"refKey":10},
{"_key":"60c7bda07723bebd8669ceb4","_id":"references/60c7bda07723bebd8669ceb4","_rev":"_cfFmEgi---","tei":"\n\t\n\t\tPredicting coiled coils from protein sequences\n\t\t\n\t\t\tALupas\n\t\t\n\t\t\n\t\t\tMVan Dyke\n\t\t\n\t\t\n\t\t\tJStock\n\t\t\n\t\t10.1126/science.1252.5009.1162\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t256\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bda07723bebd8669cea9"},"refKey":29},
{"_key":"60c7bdaa7723bebd8669ced3","_id":"references/60c7bdaa7723bebd8669ced3","_rev":"_cfFmEgy---","tei":"\n\t\n\t\tThe microRNA.org resource: targets and expression\n\t\t\n\t\t\tDBetel\n\t\t\n\t\t\n\t\t\tMWilson\n\t\t\n\t\t\n\t\t\tAGabow\n\t\t\n\t\t\n\t\t\tDSMarks\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\t10.1093/nar/gkm995\n\t\t18158296\n\t\tPMC2238905\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bdaa7723bebd8669ced2"},"refKey":2},
{"_key":"60c7bdca7723bebd8669cee6","_id":"references/60c7bdca7723bebd8669cee6","_rev":"_cfFmEhG---","tei":"\n\t\n\t\tSPSS and SAS programs for determining the number of components using parallel analysis and Velicer’s MAP test\n\t\t\n\t\t\tBPO'connor\n\t\t\n\t\t10.3758/bf03200807\n\t\t11029811\n\t\t\n\t\n\t\n\t\tBehavior Research Methods, Instruments, & Computers\n\t\tBehavior Research Methods, Instruments, & Computers\n\t\t0743-3808\n\t\t1532-5970\n\t\t\n\t\t\t32\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7bdca7723bebd8669cee5"},"refKey":43},
{"_key":"60c7bdda7723bebd8669cef9","_id":"references/60c7bdda7723bebd8669cef9","_rev":"_cfFmEhS---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7bdda7723bebd8669cef8"},"refKey":42},
{"_key":"60c7bdda7723bebd8669cefa","_id":"references/60c7bdda7723bebd8669cefa","_rev":"_cfFmEhi---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7bdda7723bebd8669cef8"},"refKey":10},
{"_key":"60c7bdda7723bebd8669cefb","_id":"references/60c7bdda7723bebd8669cefb","_rev":"_cfFmEhy---","tei":"\n\t\n\t\tImproving physical realism, stereochemistry, and side-chain accuracy in homology modeling: Four approaches that performed well in CASP8\n\t\t\n\t\t\tElmarKrieger\n\t\t\n\t\t\n\t\t\tKeehyoungJoo\n\t\t\n\t\t\n\t\t\tJinwooLee\n\t\t\n\t\t\n\t\t\tJooyoungLee\n\t\t\n\t\t\n\t\t\tSrivatsanRaman\n\t\t\n\t\t\n\t\t\tJamesThompson\n\t\t\n\t\t\n\t\t\tMikeTyka\n\t\t\n\t\t\n\t\t\tDavidBaker\n\t\t\n\t\t\n\t\t\tKevinKarplus\n\t\t\n\t\t10.1002/prot.22570\n\t\t19768677\n\t\tPMC2922016\n\t\tark:/67375/WNG-0N7FWH3R-F\n\t\tCF1A39E796BEFF4969B0D21684FC34F5A4C1CACD\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t77\n\t\t\tS9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7bdda7723bebd8669cef8"},"refKey":25},
{"_key":"60c7bdda7723bebd8669cefc","_id":"references/60c7bdda7723bebd8669cefc","_rev":"_cfFmEiC---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bdda7723bebd8669cef8"},"refKey":45},
{"_key":"60c7bdda7723bebd8669cefd","_id":"references/60c7bdda7723bebd8669cefd","_rev":"_cfFmEiO---","tei":"\n\t\n\t\tGalaxyWEB server for protein structure prediction and refinement\n\t\t\n\t\t\tJKo\n\t\t\n\t\t\n\t\t\tHPark\n\t\t\n\t\t\n\t\t\tLHeo\n\t\t\n\t\t\n\t\t\tCSeok\n\t\t\n\t\t10.1093/nar/gks493\n\t\t22649060\n\t\tPMC3394311\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bdda7723bebd8669cef8"},"refKey":24},
{"_key":"60c7bdda7723bebd8669cefe","_id":"references/60c7bdda7723bebd8669cefe","_rev":"_cfFmEie---","tei":"\n\t\n\t\tVerification of protein structures: Patterns of nonbonded atomic interactions\n\t\t\n\t\t\tChrisColovos\n\t\t\n\t\t\n\t\t\tToddOYeates\n\t\t\n\t\t10.1002/pro.5560020916\n\t\t8401235\n\t\tPMC2142462\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t2\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7bdda7723bebd8669cef8"},"refKey":16},
{"_key":"60c7bdda7723bebd8669ceff","_id":"references/60c7bdda7723bebd8669ceff","_rev":"_cfFmEiq---","tei":"\n\t\n\t\tAssessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tRolandLüthy\n\t\t\n\t\t\n\t\t\tJamesUBowie\n\t\t\n\t\t\n\t\t\tDavidEisenberg\n\t\t\n\t\t10.1038/356083a0\n\t\t1538787\n\t\tark:/67375/GT4-MKHFMJK8-Z\n\t\t2B8A710904E3576E7F40B3BA66E6E329213A6D29\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t356\n\t\t\t6364\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7bdda7723bebd8669cef8"},"refKey":29},
{"_key":"60c7bdda7723bebd8669cf00","_id":"references/60c7bdda7723bebd8669cf00","_rev":"_cfFmEi6---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\t10.1107/s0021889892009944\n\t\tark:/67375/WNG-1V02WKNX-V\n\t\t7FF6EABFE5D6E9AB8536E310B9782B625E4CA368\n\t\tdoi:10. 1107/S0021889892009944\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t26\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c7bdda7723bebd8669cef8"},"refKey":27},
{"_key":"60c7bde27723bebd8669cf17","_id":"references/60c7bde27723bebd8669cf17","_rev":"_cfFmEjG---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 15. StataCorp LLC\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bde27723bebd8669cf16"},"refKey":39},
{"_key":"60c7be0c7723bebd8669cf1f","_id":"references/60c7be0c7723bebd8669cf1f","_rev":"_cfFmEjW---","tei":"\n\t\n\t\tExploring genomic alteration in pediatric cancer using ProteinPaint\n\t\t\n\t\t\tXinZhou\n\t\t\n\t\t\n\t\t\tMichaelNEdmonson\n\t\t\n\t\t\n\t\t\tMarkRWilkinson\n\t\t\n\t\t\n\t\t\tAmanPatel\n\t\t\n\t\t\n\t\t\tGangWu\n\t\t\t0000-0002-1678-5864\n\t\t\n\t\t\n\t\t\tYuLiu\n\t\t\n\t\t\n\t\t\tYongjinLi\n\t\t\n\t\t\n\t\t\tZhaojieZhang\n\t\t\n\t\t\n\t\t\tMichaelCRusch\n\t\t\n\t\t\n\t\t\tMatthewParker\n\t\t\n\t\t\n\t\t\tJaredBecksfort\n\t\t\n\t\t\n\t\t\tJamesRDowning\n\t\t\n\t\t\n\t\t\tJinghuiZhang\n\t\t\n\t\t10.1038/ng.3466\n\t\t26711108\n\t\tPMC4892362\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t48\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7be0c7723bebd8669cf1e"},"refKey":40},
{"_key":"60c7be0c7723bebd8669cf20","_id":"references/60c7be0c7723bebd8669cf20","_rev":"_cfFmEji---","tei":"\n\t\n\t\tModel-based analysis of ChIP-Seq (MACS)\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tTLiu\n\t\t\n\t\t\n\t\t\tCAMeyer\n\t\t\n\t\t\n\t\t\tJEeckhoute\n\t\t\n\t\t\n\t\t\tDSJohnson\n\t\t\n\t\t\n\t\t\tBEBernstein\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7be0c7723bebd8669cf1e"},"refKey":35},
{"_key":"60c7be0f7723bebd8669cf3f","_id":"references/60c7be0f7723bebd8669cf3f","_rev":"_cfFmEjy---","tei":"\n\t\n\t\tThe Mathematica Book\n\t\t\n\t\t\tSWolfram\n\t\t\n\t\t\n\t\t\t\n\t\t\tChampaign\n\t\t\n\t\n\t5th edn. Wolfram Media\n\n","document":{"$oid":"60c7be0f7723bebd8669cf3e"},"refKey":15},
{"_key":"60c7be0f7723bebd8669cf40","_id":"references/60c7be0f7723bebd8669cf40","_rev":"_cfFmEk----","tei":"\n\t\n\t\tKeYmaera: A Hybrid Theorem Prover for Hybrid Systems (System Description)\n\t\t\n\t\t\tAndréPlatzer\n\t\t\n\t\t\n\t\t\tJan-DavidQuesel\n\t\t\n\t\t10.1007/978-3-540-71070-7_15\n\t\tark:/67375/HCB-J6616RHX-4\n\t\t4C3F715E07285DABBB7E11D91D3FCCBF9D3CDF2C\n\t\t\n\t\n\t\n\t\tAutomated Reasoning\n\t\t\t\t\n\t\t\tAArmando\n\t\t\tPBaumgartner\n\t\t\tGDowek\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t2008\n\t\t\t5195\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7be0f7723bebd8669cf3e"},"refKey":6},
{"_key":"60c7be0f7723bebd8669cf41","_id":"references/60c7be0f7723bebd8669cf41","_rev":"_cfFmEkK---","tei":"\n\t\n\t\tKeYmaera X: An Axiomatic Tactical Theorem Prover for Hybrid Systems\n\t\t\n\t\t\tNathanFulton\n\t\t\n\t\t\n\t\t\tStefanMitsch\n\t\t\n\t\t\n\t\t\tJan-DavidQuesel\n\t\t\n\t\t\n\t\t\tMarcusVölp\n\t\t\n\t\t\n\t\t\tAndréPlatzer\n\t\t\n\t\t10.1007/978-3-319-21401-6_36\n\t\t\n\t\n\t\n\t\tAutomated Deduction - CADE-25\n\t\t\t\t\n\t\t\tAPFelty\n\t\t\tAMiddeldorp\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t9195\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7be0f7723bebd8669cf3e"},"refKey":7},
{"_key":"60c7be427723bebd8669cf75","_id":"references/60c7be427723bebd8669cf75","_rev":"_cfFmEka---","tei":"\n\t\n\t\tLIBSVM: a library for support vector\n\t\t\n\t\t\tCCChang\n\t\t\n\t\t\n\t\t\tCJLin\n\t\t\n\t\n\t\n\t\tACM Trans Intell Syst Technol\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7be427723bebd8669cf74"},"refKey":36},
{"_key":"60c7be757723bebd8669cf96","_id":"references/60c7be757723bebd8669cf96","_rev":"_cfFmEkm---","tei":"\n\t\n\t\tThe Analysis of Multivariate Binary Data\n\t\t\n\t\t\tDRCox\n\t\t\n\t\t10.2307/2346482\n\t\n\t\n\t\tApplied Statistics\n\t\tApplied Statistics\n\t\t0035-9254\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t113\n\t\t\t\n\t\t\tJSTOR\n\t\t\n\t\n\tC\n\n","document":{"$oid":"60c7be757723bebd8669cf95"},"refKey":21},
{"_key":"60c7be757723bebd8669cf97","_id":"references/60c7be757723bebd8669cf97","_rev":"_cfFmEky---","tei":"\n\t\n\t\tDifferential protein expression and peak selection in mass spectrometry data by binary discriminant analysis\n\t\t\n\t\t\tSebastianGibb\n\t\t\n\t\t\n\t\t\tKorbinianStrimmer\n\t\t\n\t\t10.1093/bioinformatics/btv334\n\t\t26026136\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7be757723bebd8669cf95"},"refKey":22},
{"_key":"60c7be757723bebd8669cf98","_id":"references/60c7be757723bebd8669cf98","_rev":"_cfFmElC---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)−a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7be757723bebd8669cf95"},"refKey":20},
{"_key":"60c7be917723bebd8669cfa0","_id":"references/60c7be917723bebd8669cfa0","_rev":"_cfFmElO---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization and multithreading\n\t\t\n\t\t\tEKrieger\n\t\t\n\t\t\n\t\t\tGVriend\n\t\t\n\t\t10.1093/bioinformatics/btu426\n\t\n\t\n\t\tJ. Comput. Chem\n\t\tCrossRef Medline 37. Trott, O., and Olson, A. J.\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBioinformatics\n\n","document":{"$oid":"60c7be917723bebd8669cf9f"},"refKey":35},
{"_key":"60c7be917723bebd8669cfa1","_id":"references/60c7be917723bebd8669cfa1","_rev":"_cfFmEla---","tei":"\n\t\n\t\tCoronaviridae\n\t\t\n\t\t\tPMasters\n\t\t\n\t\t\n\t\t\tSPerlman\n\t\t\n\t\tFields Virology (Howley, P., and Knipe, D. M.\n\t\t\n\t\t\t\n\t\t\tWolters Kluwer Health/Lippincott Williams & Wilkins\n\t\t\t\n\t\t\tPhiladelphia, PA\n\t\t\n\t\n\t6th Ed\n\n","document":{"$oid":"60c7be917723bebd8669cf9f"},"refKey":2},
{"_key":"60c7be917723bebd8669cfa2","_id":"references/60c7be917723bebd8669cfa2","_rev":"_cfFmElm---","tei":"\n\t\n\t\tA self-consistent method for the analysis of protein secondary structure from circular dichroism\n\t\t\n\t\t\tNSreerama\n\t\t\n\t\t\n\t\t\tRWWoody\n\t\t\n\t\t\n\t\t\tIHVan Stokkum\n\t\t\n\t\t\n\t\t\tHJSpoelder\n\t\t\n\t\t\n\t\t\tMBloemendal\n\t\t\n\t\t\n\t\t\tRVan Grondelle\n\t\t\n\t\t\n\t\t\tFCGroen\n\t\t\n\t\t10.1016/0003-2697(90)90396-Q\n\t\n\t\n\t\tCrossRef Medline\n\t\t\n\t\t\t209\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tAnal. Biochem.. CrossRef Medline\n\n","document":{"$oid":"60c7be917723bebd8669cf9f"},"refKey":28},
{"_key":"60c7bead7723bebd8669cfb9","_id":"references/60c7bead7723bebd8669cfb9","_rev":"_cfFmEly---","tei":"\n\t\n\t\tModeltest: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\tDOI: 10.1093/ bioinformatics/14.9.817\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bead7723bebd8669cfb8"},"refKey":23},
{"_key":"60c7beb27723bebd8669cfbe","_id":"references/60c7beb27723bebd8669cfbe","_rev":"_cfFmEm----","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRDennington\n\t\t\n\t\t\n\t\t\tTAKeith\n\t\t\n\t\t\n\t\t\tJMMillam\n\t\t\n\t\t\n\t\t\tGaussview\n\t\t\n\t\t\n\t\t\t\n\t\t\tSemichem Inc\n\t\t\tShawnee Mission, KS\n\t\t\n\t\n\n","document":{"$oid":"60c7beb27723bebd8669cfbd"},"refKey":60},
{"_key":"60c7bec37723bebd8669cfce","_id":"references/60c7bec37723bebd8669cfce","_rev":"_cfFmEmK---","tei":"\n\t\n\t\tThe integration of data reduction and structure solution - from diffraction images to an initial model in minutes\n\t\t\n\t\t\tWMinor\n\t\t\n\t\t\n\t\t\tMCymborowski\n\t\t\n\t\t\n\t\t\tMChruszcz\n\t\t\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t10.1107/s0108767305098521\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t61\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tPt 8\n\n","document":{"$oid":"60c7bec37723bebd8669cfcd"},"refKey":166},
{"_key":"60c7bec37723bebd8669cfcf","_id":"references/60c7bec37723bebd8669cfcf","_rev":"_cfFmEmW---","tei":"\n\t\n\t\tRecent developments in software for the automation of crystallographic macromolecular structure determination\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t10.1016/s0959-440x(00)00132-9\n\t\t11042455\n\t\tS0959-440X(00)00132-9\n\t\tark:/67375/6H6-G7Q94KD3-H\n\t\tE7F00791112658814D56C871009098BE55948E30\n\t\n\t\n\t\tCurrent Opinion in Structural Biology\n\t\tCurrent Opinion in Structural Biology\n\t\t0959-440X\n\t\t\n\t\t\t10\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPt 1\n\n","document":{"$oid":"60c7bec37723bebd8669cfcd"},"refKey":5},
{"_key":"60c7bec37723bebd8669cfd0","_id":"references/60c7bec37723bebd8669cfd0","_rev":"_cfFmEmi---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\tPt 2\n\n","document":{"$oid":"60c7bec37723bebd8669cfcd"},"refKey":3},
{"_key":"60c7bec37723bebd8669cfd1","_id":"references/60c7bec37723bebd8669cfd1","_rev":"_cfFmEmu---","tei":"\n\t\n\t\tThe Phenix software for automated determination of macromolecular structures\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkoczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRDOeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\n\t\n\t\tMethods\n\t\t\n\t\t\t55\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bec37723bebd8669cfcd"},"refKey":4},
{"_key":"60c7bec37723bebd8669cfd2","_id":"references/60c7bec37723bebd8669cfd2","_rev":"_cfFmEm6---","tei":"\n\t\n\t\tTowards automated crystallographic structure refinement with phenix.refine\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tMMustyakimov\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tAUrzhumtsev\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tActa Crystallogr. Sect. D: Biol. Crystallogr\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPt 4\n\n","document":{"$oid":"60c7bec37723bebd8669cfcd"},"refKey":6},
{"_key":"60c7bec47723bebd8669cfd6","_id":"references/60c7bec47723bebd8669cfd6","_rev":"_cfFmEnG---","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c7bec47723bebd8669cfd5"},"refKey":14},
{"_key":"60c7bec47723bebd8669cfd7","_id":"references/60c7bec47723bebd8669cfd7","_rev":"_cfFmEnS---","tei":"\n\t\n\t\tFUpred: Detecting protein domains through deep-learning based contact map prediction\n\t\t\n\t\t\tWZheng\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bec47723bebd8669cfd5"},"refKey":13},
{"_key":"60c7bec47723bebd8669cfd8","_id":"references/60c7bec47723bebd8669cfd8","_rev":"_cfFmEne---","tei":"\n\t\n\t\tProtein domain decomposition using a graph-theoretic approach\n\t\t\n\t\t\tYXu\n\t\t\n\t\t\n\t\t\tDXu\n\t\t\n\t\t\n\t\t\tHNGabow\n\t\t\n\t\t10.1093/bioinformatics/16.12.1091\n\t\t11159328\n\t\t1460-2059\n\t\tark:/67375/HXZ-QXWVNMS4-W\n\t\t95802EFDE2C9FC5268BA14F0ADE41AE7E4D035AE\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bec47723bebd8669cfd5"},"refKey":19},
{"_key":"60c7bec47723bebd8669cfd9","_id":"references/60c7bec47723bebd8669cfd9","_rev":"_cfFmEnm---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bec47723bebd8669cfd5"},"refKey":27},
{"_key":"60c7bec47723bebd8669cfda","_id":"references/60c7bec47723bebd8669cfda","_rev":"_cfFmEny---","tei":"\n\t\n\t\tA fully automatic method yielding initial models from high-resolution electron cryo-microscopy maps\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tOlegVSobolev\n\t\t\n\t\t10.1101/267138\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7bec47723bebd8669cfd5"},"refKey":29},
{"_key":"60c7bec47723bebd8669cfdb","_id":"references/60c7bec47723bebd8669cfdb","_rev":"_cfFmEo----","tei":"\n\t\n\t\tMulti-resolution contour-based fitting of macromolecular structures\n\t\t\n\t\t\tPabloChacón\n\t\t\n\t\t\n\t\t\tWillyWriggers\n\t\t\n\t\t10.1006/jmbi.2002.5438\n\t\t11922671\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t317\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7bec47723bebd8669cfd5"},"refKey":25},
{"_key":"60c7bec47723bebd8669cfdc","_id":"references/60c7bec47723bebd8669cfdc","_rev":"_cfFmEoK---","tei":"\n\t\n\t\tCHARMM: the biomolecular simulation program\n\t\t\n\t\t\tBRBrooks\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bec47723bebd8669cfd5"},"refKey":46},
{"_key":"60c7bedd7723bebd8669d049","_id":"references/60c7bedd7723bebd8669d049","_rev":"_cfFmEoW---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bedd7723bebd8669d048"},"refKey":33},
{"_key":"60c7befc7723bebd8669d056","_id":"references/60c7befc7723bebd8669d056","_rev":"_cfFmEoi---","tei":"\n\t\n\t\tA new lateral-flow immunochromatographic strip combined with quantum dot nanobeads and gold nanoflowers for rapid detection of tetrodotoxin\n\t\t\n\t\t\tH S\n\t\t\n\t\t\n\t\t\tF X\n\t\t\n\t\t\n\t\t\tM X\n\t\t\n\t\t\n\t\t\tQ F\n\t\t\n\t\t\n\t\t\tZ C\n\t\t\n\t\t\n\t\t\tS Z\n\t\t\n\t\n\t\n\t\tAnalyst\n\t\t\n\t\t\t142\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7befc7723bebd8669d055"},"refKey":25},
{"_key":"60c7befc7723bebd8669d057","_id":"references/60c7befc7723bebd8669d057","_rev":"_cfFmEoq---","tei":"\n\t\n\t\tA turn-on competitive immunochromatographic strips integrated with quantum dots and gold nano-stars for cadmium ion detection\n\t\t\n\t\t\tMengXiao\n\t\t\n\t\t\n\t\t\tQiangqiangFu\n\t\t\n\t\t\n\t\t\tHaicongShen\n\t\t\n\t\t\n\t\t\tYuanChen\n\t\t\n\t\t\n\t\t\tWeiXiao\n\t\t\n\t\t\n\t\t\tDaoguangYan\n\t\t\n\t\t\n\t\t\tXiaojiangTang\n\t\t\n\t\t\n\t\t\tZhiyongZhong\n\t\t\n\t\t\n\t\t\tYongTang\n\t\t\n\t\t10.1016/j.talanta.2017.10.002\n\t\t29136875\n\t\n\t\n\t\tTalanta\n\t\tTalanta\n\t\t0039-9140\n\t\t\n\t\t\t178\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7befc7723bebd8669d055"},"refKey":26},
{"_key":"60c7befc7723bebd8669d058","_id":"references/60c7befc7723bebd8669d058","_rev":"_cfFmEo2---","tei":"\n\t\n\t\tIdentification and quantification of eight Listeria monocytogene serotypes from Listeria spp. using a gold nanoparticle-based lateral flow assay\n\t\t\n\t\t\tWenbinWang\n\t\t\n\t\t\n\t\t\tLiqiangLiu\n\t\t\n\t\t\n\t\t\tShanshanSong\n\t\t\n\t\t\n\t\t\tLiguangXu\n\t\t\n\t\t\n\t\t\tHuaKuang\n\t\t\n\t\t\n\t\t\tJianpingZhu\n\t\t\n\t\t\n\t\t\tChuanlaiXu\n\t\t\n\t\t10.1007/s00604-016-2028-8\n\t\n\t\n\t\tMicrochimica Acta\n\t\tMicrochim Acta\n\t\t0026-3672\n\t\t1436-5073\n\t\t\n\t\t\t184\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7befc7723bebd8669d055"},"refKey":27},
{"_key":"60c7bf1c7723bebd8669d067","_id":"references/60c7bf1c7723bebd8669d067","_rev":"_cfFmEpC---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWHuang Da\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bf1c7723bebd8669d066"},"refKey":46},
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{"_key":"60c7bf1c7723bebd8669d073","_id":"references/60c7bf1c7723bebd8669d073","_rev":"_cfFmEpW---","tei":"\n\t\n\t\tImproved inference of time-varying reproduction numbers during infectious disease outbreaks\n\t\t\n\t\t\tRNThompson\n\t\t\n\t\t\n\t\t\tJEStockwin\n\t\t\n\t\t\n\t\t\tRDVan Gaalen\n\t\t\n\t\t\n\t\t\tJAPolonsky\n\t\t\n\t\t\n\t\t\tZNKamvar\n\t\t\n\t\t\n\t\t\tPADemarsh\n\t\t\n\t\t\n\t\t\tEDahlqwist\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tEMiguel\n\t\t\n\t\t\n\t\t\tTJombart\n\t\t\n\t\t\n\t\t\tJLessler\n\t\t\n\t\t\n\t\t\tSCauchemez\n\t\t\n\t\t\n\t\t\tACori\n\t\t\n\t\t10.1016/j.epidem.2019.100356\n\t\n\t\n\t\tEpidemics\n\t\tEpidemics\n\t\t1755-4365\n\t\t\n\t\t\t29\n\t\t\t100356\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7bf1c7723bebd8669d072"},"refKey":7},
{"_key":"60c7bf1c7723bebd8669d074","_id":"references/60c7bf1c7723bebd8669d074","_rev":"_cfFmEpi---","tei":"\n\t\n\t\tEpiEstim: estimate time varying reproduction numbers from epidemic curves. R package version: 2.2-1\n\t\t\n\t\t\tACori\n\t\t\n\t\t\n\t\t\tSCauchemez\n\t\t\n\t\t\n\t\t\tNMFerguson\n\t\t\n\t\t\n\t\t\tCFraser\n\t\t\n\t\t\n\t\t\tEDahlqwist\n\t\t\n\t\t\n\t\t\tPADemarsh\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bf1c7723bebd8669d072"},"refKey":12},
{"_key":"60c7bf1c7723bebd8669d075","_id":"references/60c7bf1c7723bebd8669d075","_rev":"_cfFmEpu---","tei":"\n\t\n\t\tDifferent Epidemic Curves for Severe Acute Respiratory Syndrome Reveal Similar Impacts of Control Measures\n\t\t\n\t\t\tJWallinga\n\t\t\n\t\t\n\t\t\tPTeunis\n\t\t\n\t\t10.1093/aje/kwh255\n\t\t15353409\n\t\tark:/67375/HXZ-C7V2Z9G8-0\n\t\tEF0916B60250AD1045CD58DBA54A3EFE24187CCB\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t\n\t\t\t160\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bf1c7723bebd8669d072"},"refKey":14},
{"_key":"60c7bf1c7723bebd8669d076","_id":"references/60c7bf1c7723bebd8669d076","_rev":"_cfFmEp2---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. R Foundation for statistical computing\n\t\t\n\t\t\tRDevelopment Core\n\t\t\n\t\t\n\t\t\tTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c7bf1c7723bebd8669d072"},"refKey":15},
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{"_key":"60c7bf687723bebd8669d0a9","_id":"references/60c7bf687723bebd8669d0a9","_rev":"_cfFmEqO---","tei":"\n\t\n\t\tGrad-CAM: Visual Explanations From Deep Networks via Gradient-Based Localization\n\t\t\n\t\t\tSXie\n\t\t\n\t\t\n\t\t\tRGirshick\n\t\t\n\t\t\n\t\t\tPDollar\n\t\t\n\t\t\n\t\t\tZTu\n\t\t\n\t\t\n\t\t\tK; R RHe\n\t\t\n\t\t\n\t\t\tSelvaraju\n\t\t\n\t\n\t\n\t\tPresented at the Proceedings of the IEEE Conference\n\t\t\t\t\n\t\t\t\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\tAggregated Residual Transformations for Deep Neural Networks\n\n","document":{"$oid":"60c7bf687723bebd8669d0a8"},"refKey":32},
{"_key":"60c7bf927723bebd8669d0cb","_id":"references/60c7bf927723bebd8669d0cb","_rev":"_cfFmEqa---","tei":"\n\t\n\t\tDifferent Epidemic Curves for Severe Acute Respiratory Syndrome Reveal Similar Impacts of Control Measures\n\t\t\n\t\t\tJaccoWallinga\n\t\t\n\t\t\n\t\t\tPeterTeunis\n\t\t\n\t\t10.1093/aje/kwh255\n\t\t15353409\n\t\tark:/67375/HXZ-C7V2Z9G8-0\n\t\tEF0916B60250AD1045CD58DBA54A3EFE24187CCB\n\t\t90'. 2020\n\t\t\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t\n\t\t\t160\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWHO Situation Report\n\n","document":{"$oid":"60c7bf927723bebd8669d0ca"},"refKey":28},
{"_key":"60c7bf927723bebd8669d0cc","_id":"references/60c7bf927723bebd8669d0cc","_rev":"_cfFmEqi---","tei":"\n\t\n\t\tA New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tNeilMFerguson\n\t\t\n\t\t\n\t\t\tChristopheFraser\n\t\t\n\t\t\n\t\t\tSimonCauchemez\n\t\t\n\t\t10.1093/aje/kwt133\n\t\t24043437\n\t\tPMC3816335\n\t\t\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t1476-6256\n\t\t\n\t\t\t178\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7bf927723bebd8669d0ca"},"refKey":3},
{"_key":"60c7bf9a7723bebd8669d0cf","_id":"references/60c7bf9a7723bebd8669d0cf","_rev":"_cfFmEqu---","tei":"\n\t\n\t\tTopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tGPertea\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tHPimentel\n\t\t\n\t\t\n\t\t\tRKelley\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t14\n\t\t\tR36\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bf9a7723bebd8669d0ce"},"refKey":15},
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{"_key":"60c7bf9a7723bebd8669d0d1","_id":"references/60c7bf9a7723bebd8669d0d1","_rev":"_cfFmErC---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bf9a7723bebd8669d0ce"},"refKey":16},
{"_key":"60c7bfab7723bebd8669d0e0","_id":"references/60c7bfab7723bebd8669d0e0","_rev":"_cfFmErO---","tei":"\n\t\n\t\tA statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7bfab7723bebd8669d0df"},"refKey":12},
{"_key":"60c7bfab7723bebd8669d0f2","_id":"references/60c7bfab7723bebd8669d0f2","_rev":"_cfFmEra---","tei":"\n\t\n\t\tVinardo: A Scoring Function Based on Autodock Vina Improves Scoring, Docking, and Virtual Screening\n\t\t\n\t\t\tRodrigoQuiroga\n\t\t\t0000-0001-5015-0531\n\t\t\n\t\t\n\t\t\tMarcosAVillarreal\n\t\t\n\t\t10.1371/journal.pone.0155183\n\t\t27171006\n\t\tPMC4865195\n\t\t\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t11\n\t\t\t5\n\t\t\te0155183\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c7bfab7723bebd8669d0f1"},"refKey":27},
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{"_key":"60c7c0037723bebd8669d137","_id":"references/60c7c0037723bebd8669d137","_rev":"_cfFmEsy---","tei":"\n\t\n\t\tfdrtool: a versatile R package for estimating local and tail area-based false discovery rates\n\t\t\n\t\t\tKStrimmer\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c0037723bebd8669d135"},"refKey":21},
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{"_key":"60c7c0037723bebd8669d139","_id":"references/60c7c0037723bebd8669d139","_rev":"_cfFmEtG---","tei":"\n\t\n\t\tA new view of transcriptome complexity and regulation through the lens of local splicing variations\n\t\t\n\t\t\tJorgeVaquero-Garcia\n\t\t\n\t\t\n\t\t\tAlejandroBarrera\n\t\t\n\t\t\n\t\t\tMatthewRGazzara\n\t\t\n\t\t\n\t\t\tJuanGonzález-Vallinas\n\t\t\n\t\t\n\t\t\tNicholasFLahens\n\t\t\n\t\t\n\t\t\tJohnBHogenesch\n\t\t\n\t\t\n\t\t\tKristenWLynch\n\t\t\n\t\t\n\t\t\tYosephBarash\n\t\t\t0000-0003-3005-5048\n\t\t\n\t\t10.7554/elife.11752\n\t\t26829591\n\t\tPMC4801060\n\t\n\t\n\t\teLife\n\t\t2050-084X\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\teLife Sciences Publications, Ltd\n\t\t\n\t\n\n","document":{"$oid":"60c7c0037723bebd8669d135"},"refKey":3},
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{"_key":"60c7c08c7723bebd8669d1b6","_id":"references/60c7c08c7723bebd8669d1b6","_rev":"_cfFmEtm---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c08c7723bebd8669d1b4"},"refKey":17},
{"_key":"60c7c09a7723bebd8669d1bd","_id":"references/60c7c09a7723bebd8669d1bd","_rev":"_cfFmEty---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7c09a7723bebd8669d1bc"},"refKey":27},
{"_key":"60c7c0ef7723bebd8669d20a","_id":"references/60c7c0ef7723bebd8669d20a","_rev":"_cfFmEt6---","tei":"\n\t\n\t\tMouse Genome Informatics (MGI): reflecting on 25 years\n\t\t\n\t\t\tJananTEppig\n\t\t\n\t\t\n\t\t\tJoelERichardson\n\t\t\n\t\t\n\t\t\tJamesAKadin\n\t\t\n\t\t\n\t\t\tMartinRingwald\n\t\t\n\t\t\n\t\t\tJudithABlake\n\t\t\n\t\t\n\t\t\tCarolJBult\n\t\t\n\t\t10.1007/s00335-015-9589-4\n\t\t26238262\n\t\tPMC4534491\n\t\t\n\t\t\n\t\n\t\n\t\tMammalian Genome\n\t\tMamm Genome\n\t\t0938-8990\n\t\t1432-1777\n\t\t\n\t\t\t26\n\t\t\t7-8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c7c0ef7723bebd8669d209"},"refKey":0},
{"_key":"60c7c0ef7723bebd8669d20b","_id":"references/60c7c0ef7723bebd8669d20b","_rev":"_cfFmEuG---","tei":"\n\t\n\t\tThe EBI RDF platform: linked open data for the life sciences\n\t\t\n\t\t\tSJupp\n\t\t\n\t\t\n\t\t\tJMalone\n\t\t\n\t\t\n\t\t\tJBolleman\n\t\t\n\t\t\n\t\t\tMBrandizi\n\t\t\n\t\t\n\t\t\tMDavies\n\t\t\n\t\t\n\t\t\tLGarcia\n\t\t\n\t\t\n\t\t\tAGaulton\n\t\t\n\t\t\n\t\t\tSGehant\n\t\t\n\t\t\n\t\t\tCLaibe\n\t\t\n\t\t\n\t\t\tNRedaschi\n\t\t\n\t\t\n\t\t\tSMWimalaratne\n\t\t\n\t\t\n\t\t\tMMartin\n\t\t\n\t\t\n\t\t\tNLe Novere\n\t\t\n\t\t\n\t\t\tHParkinson\n\t\t\n\t\t\n\t\t\tEBirney\n\t\t\n\t\t\n\t\t\tAMJenkinson\n\t\t\n\t\t10.1093/bioinformatics/btt765\n\t\t24413672\n\t\tPMC3998127\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7c0ef7723bebd8669d209"},"refKey":26},
{"_key":"60c7c0f37723bebd8669d21f","_id":"references/60c7c0f37723bebd8669d21f","_rev":"_cfFmEuS---","tei":"\n\t\n\t\tRobust enumeration of cell subsets from tissue expression profiles\n\t\t\n\t\t\tAMNewman\n\t\t\n\t\t\n\t\t\tCLLiu\n\t\t\n\t\t\n\t\t\tMRGreen\n\t\t\n\t\t\n\t\t\tAJGentles\n\t\t\n\t\t\n\t\t\tWFeng\n\t\t\n\t\t\n\t\t\tYXu\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c0f37723bebd8669d21e"},"refKey":17},
{"_key":"60c7c1197723bebd8669d234","_id":"references/60c7c1197723bebd8669d234","_rev":"_cfFmEue---","tei":"\n\t\n\t\tSAS and SPLUS programs to perform Cox regression without convergence problems\n\t\t\n\t\t\tGeorgHeinze\n\t\t\n\t\t\n\t\t\tMeinhardPloner\n\t\t\n\t\t10.1016/s0169-2607(01)00149-3\n\t\t11853948\n\t\n\t\n\t\tComputer Methods and Programs in Biomedicine\n\t\tComputer Methods and Programs in Biomedicine\n\t\t0169-2607\n\t\t\n\t\t\t67\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\t\n\t\t\tMedical University of Vienna\n\t\t\n\t\n\n","document":{"$oid":"60c7c1197723bebd8669d233"},"refKey":20},
{"_key":"60c7c1777723bebd8669d259","_id":"references/60c7c1777723bebd8669d259","_rev":"_cfFmEuq---","tei":"\n\t\n\t\tThe RosettaDock server for local protein-protein docking\n\t\t\n\t\t\tSLyskov\n\t\t\n\t\t\n\t\t\tJJGray\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 18442991\n\n","document":{"$oid":"60c7c1777723bebd8669d258"},"refKey":45},
{"_key":"60c7c1777723bebd8669d25a","_id":"references/60c7c1777723bebd8669d25a","_rev":"_cfFmEuy---","tei":"\n\t\n\t\tPractically useful: what the ROSETTA protein modeling suite can do for you\n\t\t\n\t\t\tKWKaufmann\n\t\t\n\t\t\n\t\t\tGHLemmon\n\t\t\n\t\t\n\t\t\tSLDeluca\n\t\t\n\t\t\n\t\t\tJHSheehan\n\t\t\n\t\t\n\t\t\tJMeiler\n\t\t\n\t\n\t\n\t\tBiochemistry\n\t\t\n\t\t\t49\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 20235548\n\n","document":{"$oid":"60c7c1777723bebd8669d258"},"refKey":46},
{"_key":"60c7c1777723bebd8669d25b","_id":"references/60c7c1777723bebd8669d25b","_rev":"_cfFmEv----","tei":"\n\t\n\t\tiMOSFLM: a new graphical interface for diffraction-image processing with MOSFLM\n\t\t\n\t\t\tTggBattye\n\t\t\n\t\t\n\t\t\tLKontogiannis\n\t\t\n\t\t\n\t\t\tOJohnson\n\t\t\n\t\t\n\t\t\tHRPowell\n\t\t\n\t\t\n\t\t\tAgwLeslie\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 21460445\n\n","document":{"$oid":"60c7c1777723bebd8669d258"},"refKey":39},
{"_key":"60c7c1777723bebd8669d25c","_id":"references/60c7c1777723bebd8669d25c","_rev":"_cfFmEvK---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\tPubMed: 20124702\n\n","document":{"$oid":"60c7c1777723bebd8669d258"},"refKey":41},
{"_key":"60c7c1777723bebd8669d25d","_id":"references/60c7c1777723bebd8669d25d","_rev":"_cfFmEvW---","tei":"\n\t\n\t\tMultiple sequence alignment using ClustalW and ClustalX\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Bioinformatics\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1777723bebd8669d258"},"refKey":44},
{"_key":"60c7c1777723bebd8669d25e","_id":"references/60c7c1777723bebd8669d25e","_rev":"_cfFmEvi---","tei":"\n\t\n\t\tSeeking significance in three-dimensional protein structure comparisons\n\t\t\n\t\t\tKenjiMizuguchi\n\t\t\n\t\t\n\t\t\tNobuhiroGo\n\t\t\n\t\t10.1016/0959-440x(95)80100-6\n\t\t7583636\n\t\t0959-440X(95)80100-6\n\t\tark:/67375/6H6-6CJQ7QQB-S\n\t\t6A0685F21AE56E419C93656EE11AC87B48D46E55\n\t\n\t\n\t\tCurrent Opinion in Structural Biology\n\t\tCurrent Opinion in Structural Biology\n\t\t0959-440X\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed: 7583636\n\n","document":{"$oid":"60c7c1777723bebd8669d258"},"refKey":43},
{"_key":"60c7c1c57723bebd8669d287","_id":"references/60c7c1c57723bebd8669d287","_rev":"_cfFmEvu---","tei":"\n\t\n\t\tThe {PyMOL} Molecular Graphics System, Version~1\n\t\t\n\t\t\tLlcSchrödinger\n\t\t\n\t\t\n\t\t\t\n\t\t\t8\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c57723bebd8669d286"},"refKey":19},
{"_key":"60c7c1c57723bebd8669d288","_id":"references/60c7c1c57723bebd8669d288","_rev":"_cfFmEv2---","tei":"\n\t\n\t\tA completely reimplemented MPI Bioinformatics Toolkit with a new HHpred server at its core\n\t\t\n\t\t\tLZimmermann\n\t\t\n\t\t\n\t\t\tAStephens\n\t\t\n\t\t\n\t\t\tSZNam\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t430\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c57723bebd8669d286"},"refKey":17},
{"_key":"60c7c1c57723bebd8669d289","_id":"references/60c7c1c57723bebd8669d289","_rev":"_cfFmEwC---","tei":"\n\t\n\t\tHall BioEditA user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c57723bebd8669d286"},"refKey":11},
{"_key":"60c7c1c57723bebd8669d28a","_id":"references/60c7c1c57723bebd8669d28a","_rev":"_cfFmEwO---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis across computing platforms\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tCKnyaz\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMega X\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c57723bebd8669d286"},"refKey":13},
{"_key":"60c7c1c57723bebd8669d28b","_id":"references/60c7c1c57723bebd8669d28b","_rev":"_cfFmEwa---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c57723bebd8669d286"},"refKey":16},
{"_key":"60c7c1c67723bebd8669d295","_id":"references/60c7c1c67723bebd8669d295","_rev":"_cfFmEwm---","tei":"\n\t\n\t\t\n\t\tGeekbench 5.2.5 for Android\n\t\t\t\t\n\t\t\t\n\t\t\t16\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c67723bebd8669d294"},"refKey":32},
{"_key":"60c7c1c67723bebd8669d296","_id":"references/60c7c1c67723bebd8669d296","_rev":"_cfFmEwu---","tei":"\n\t\n\t\tDevelop Open-Source Software, Open-standards, and Services for Interactive Computing across Dozens of Programming Languages\n\t\t\n\t\t\tJupyter\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c67723bebd8669d294"},"refKey":30},
{"_key":"60c7c1c97723bebd8669d2cb","_id":"references/60c7c1c97723bebd8669d2cb","_rev":"_cfFmEw6---","tei":"\n\t\n\t\tBuilding Predictive Models in R Using the caret Package\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":29},
{"_key":"60c7c1c97723bebd8669d2cc","_id":"references/60c7c1c97723bebd8669d2cc","_rev":"_cfFmExG---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":1},
{"_key":"60c7c1c97723bebd8669d2cd","_id":"references/60c7c1c97723bebd8669d2cd","_rev":"_cfFmExS---","tei":"\n\t\n\t\tSKESA: strategic k-mer extension for scrupulous assemblies\n\t\t\n\t\t\tASouvorov\n\t\t\n\t\t\n\t\t\tRAgarwala\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t19\n\t\t\t153\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":60},
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{"_key":"60c7c1c97723bebd8669d2cf","_id":"references/60c7c1c97723bebd8669d2cf","_rev":"_cfFmExq---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tAdrianPlatts\n\t\t\n\t\t\n\t\t\tLeLilyWang\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tLuanWang\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\tPMC3679285\n\t\t\n\t\t\n\t\n\t\n\t\tFly\n\t\tFly\n\t\t1933-6934\n\t\t1933-6942\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":7},
{"_key":"60c7c1c97723bebd8669d2d0","_id":"references/60c7c1c97723bebd8669d2d0","_rev":"_cfFmEx2---","tei":"\n\t\n\t\tMEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph\n\t\t\n\t\t\tDinghuaLi\n\t\t\n\t\t\n\t\t\tChi-ManLiu\n\t\t\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tKunihikoSadakane\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t10.1093/bioinformatics/btv033\n\t\t25609793\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":32},
{"_key":"60c7c1c97723bebd8669d2d1","_id":"references/60c7c1c97723bebd8669d2d1","_rev":"_cfFmEyC---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":35},
{"_key":"60c7c1c97723bebd8669d2d2","_id":"references/60c7c1c97723bebd8669d2d2","_rev":"_cfFmEyK---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tL-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tVonHaeseler\n\t\t\n\t\t\n\t\t\tAMinh\n\t\t\n\t\t\n\t\t\tBQ\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":45},
{"_key":"60c7c1c97723bebd8669d2d3","_id":"references/60c7c1c97723bebd8669d2d3","_rev":"_cfFmEyW---","tei":"\n\t\n\t\tA penalized regression approach to haplotype reconstruction of viral populations arising in early HIV/SIV infection\n\t\t\n\t\t\tSivanLeviyang\n\t\t\n\t\t\n\t\t\tIgorGriva\n\t\t\n\t\t\n\t\t\tSergioIta\n\t\t\n\t\t\n\t\t\tWelkinEJohnson\n\t\t\n\t\t10.1093/bioinformatics/btx187\n\t\t28379346\n\t\tPMC5870767\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":31},
{"_key":"60c7c1c97723bebd8669d2d4","_id":"references/60c7c1c97723bebd8669d2d4","_rev":"_cfFmEyi---","tei":"\n\t\n\t\tInference with viral quasispecies diversity indices: clonal and NGS approaches\n\t\t\n\t\t\tJosepGregori\n\t\t\n\t\t\n\t\t\tMiquelSalicrú\n\t\t\n\t\t\n\t\t\tEstebanDomingo\n\t\t\n\t\t\n\t\t\tAlexSanchez\n\t\t\n\t\t\n\t\t\tJuanIEsteban\n\t\t\n\t\t\n\t\t\tFranciscoRodríguez-Frías\n\t\t\n\t\t\n\t\t\tJosepQuer\n\t\t\n\t\t10.1093/bioinformatics/btt768\n\t\t24389655\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":17},
{"_key":"60c7c1c97723bebd8669d2d5","_id":"references/60c7c1c97723bebd8669d2d5","_rev":"_cfFmEyu---","tei":"\n\t\n\t\tModelFinder: fast model selection for accurate phylogenetic estimates\n\t\t\n\t\t\tSKalyaanamoorthy\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\t\n\t\t\tTkfWong\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tLSJermiin\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":26},
{"_key":"60c7c1c97723bebd8669d2d6","_id":"references/60c7c1c97723bebd8669d2d6","_rev":"_cfFmEy6---","tei":"\n\t\n\t\tApplication of phylogenetic networks in evolutionary studies\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tDBryant\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1c97723bebd8669d2ca"},"refKey":23},
{"_key":"60c7c1d17723bebd8669d2f6","_id":"references/60c7c1d17723bebd8669d2f6","_rev":"_cfFmEzG---","tei":"\n\t\n\t\tMinimal coverability set for Petri nets: Karp and Miller algorithm with pruning\n\t\t\n\t\t\tPAReynier\n\t\t\n\t\t\n\t\t\tFServais\n\t\t\n\t\n\t\n\t\tFundamenta Informaticae\n\t\t\n\t\t\t122\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1d17723bebd8669d2f5"},"refKey":13},
{"_key":"60c7c1d17723bebd8669d2f7","_id":"references/60c7c1d17723bebd8669d2f7","_rev":"_cfFmEzS---","tei":"\n\t\n\t\tOld and New Algorithms for Minimal Coverability Sets\n\t\t\n\t\t\tAnttiValmari\n\t\t\n\t\t\n\t\t\tHenriHansen\n\t\t\n\t\t10.1007/978-3-642-31131-4_12\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t131\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c1d17723bebd8669d2f5"},"refKey":15},
{"_key":"60c7c1d17723bebd8669d2f8","_id":"references/60c7c1d17723bebd8669d2f8","_rev":"_cfFmEze---","tei":"\n\t\n\t\tON THE EFFICIENT COMPUTATION OF THE MINIMAL COVERABILITY SET OF PETRI NETS\n\t\t\n\t\t\tGillesGeeraerts\n\t\t\n\t\t\n\t\t\tJean-FrançoisRaskin\n\t\t\n\t\t\n\t\t\tLaurentVan Begin\n\t\t\n\t\t10.1142/s0129054110007180\n\t\t\n\t\n\t\n\t\tInternational Journal of Foundations of Computer Science\n\t\tInt. J. Found. Comput. Sci.\n\t\t0129-0541\n\t\t1793-6373\n\t\t\n\t\t\t21\n\t\t\t02\n\t\t\t\n\t\t\t\n\t\t\tWorld Scientific Pub Co Pte Lt\n\t\t\n\t\n\n","document":{"$oid":"60c7c1d17723bebd8669d2f5"},"refKey":9},
{"_key":"60c7c21c7723bebd8669d336","_id":"references/60c7c21c7723bebd8669d336","_rev":"_cfFmEzm---","tei":"\n\t\n\t\tConfinement: un impact certain sur l'activite ´phy-sique, le temps passe ´assis et le temps passe ´devant un e ´cran\n\t\t\n\t\t\tVLemoine\n\t\t\n\t\t\n\t\t\tMDelibe ´ros\n\t\t\n\t\t\n\t\t\tCBessarion\n\t\t\n\t\t\n\t\t\tSChampion\n\t\t\n\t\t\n\t\t\n\t\n\tPress Release. 2020\n\n","document":{"$oid":"60c7c21c7723bebd8669d335"},"refKey":0},
{"_key":"60c7c2257723bebd8669d33f","_id":"references/60c7c2257723bebd8669d33f","_rev":"_cfFmEzy---","tei":"\n\t\n\t\tPONDR-FIT: a meta-predictor of intrinsically disordered amino acids\n\t\t\n\t\t\tBXue\n\t\t\n\t\t\n\t\t\tRLDunbrack\n\t\t\n\t\t\n\t\t\tRWWilliams\n\t\t\n\t\t\n\t\t\tAKDunker\n\t\t\n\t\t\n\t\t\tVNUversky\n\t\t\n\t\n\t\n\t\tBiochim. Biophys. Acta Protein Proteonomics\n\t\t\n\t\t\t1804\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c2257723bebd8669d33e"},"refKey":71},
{"_key":"60c7c2257723bebd8669d340","_id":"references/60c7c2257723bebd8669d340","_rev":"_cfFmE0----","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c7c2257723bebd8669d33e"},"refKey":73},
{"_key":"60c7c2257723bebd8669d341","_id":"references/60c7c2257723bebd8669d341","_rev":"_cfFmE0K---","tei":"\n\t\n\t\tPONDR (predicators of natural disorder regions)\n\t\t\n\t\t\tRBomma\n\t\t\n\t\t\n\t\t\tPVenkatesh\n\t\t\n\t\t\n\t\t\tADlvnsssr\n\t\t\n\t\t\n\t\t\tABabu\n\t\t\n\t\t\n\t\t\tSRao\n\t\t\n\t\n\t\n\t\tInt. J. Comput. Technol. Electron. Eng. IJCTEE\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c2257723bebd8669d33e"},"refKey":1},
{"_key":"60c7c2257723bebd8669d342","_id":"references/60c7c2257723bebd8669d342","_rev":"_cfFmE0W---","tei":"\n\t\n\t\tDISOPRED3: precise disordered region predictions with annotated protein-binding activity\n\t\t\n\t\t\tDTJones\n\t\t\n\t\t\n\t\t\tDCozzetto\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c2257723bebd8669d33e"},"refKey":28},
{"_key":"60c7c2267723bebd8669d343","_id":"references/60c7c2267723bebd8669d343","_rev":"_cfFmE0e---","tei":"\n\t\n\t\tMobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins\n\t\t\n\t\t\tDPiovesan\n\t\t\n\t\t\n\t\t\tFTabaro\n\t\t\n\t\t\n\t\t\tLPaladin\n\t\t\n\t\t\n\t\t\tMNecci\n\t\t\n\t\t\n\t\t\tIMičetić\n\t\t\n\t\t\n\t\t\tCCamilloni\n\t\t\n\t\t\n\t\t\tNDavey\n\t\t\n\t\t\n\t\t\tZDosztányi\n\t\t\n\t\t\n\t\t\tBMészáros\n\t\t\n\t\t\n\t\t\tAMMonzon\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c2257723bebd8669d33e"},"refKey":43},
{"_key":"60c7c2267723bebd8669d344","_id":"references/60c7c2267723bebd8669d344","_rev":"_cfFmE0q---","tei":"\n\t\n\t\tPrediction of disordered regions in proteins based on the meta approach\n\t\t\n\t\t\tTIshida\n\t\t\n\t\t\n\t\t\tKKinoshita\n\t\t\n\t\t10.1093/bioinformatics/btn195\n\t\t18426805\n\t\tark:/67375/HXZ-T9J2DPPT-0\n\t\t9F3459D2914E733B886F03C19D26B2BFDE5ADED3\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7c2257723bebd8669d33e"},"refKey":26},
{"_key":"60c7c2347723bebd8669d35f","_id":"references/60c7c2347723bebd8669d35f","_rev":"_cfFmE02---","tei":"\n\t\n\t\tShort-term forecasts of COVID-19 deaths in multiple countries\n\t\t\n\t\t\tImperial College London\n\t\t\n\t\t\n\t\t\t\n\t\t\tLondon\n\t\t\n\t\n\n","document":{"$oid":"60c7c2347723bebd8669d35e"},"refKey":2},
{"_key":"60c7c23c7723bebd8669d363","_id":"references/60c7c23c7723bebd8669d363","_rev":"_cfFmE1C---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL): An online tool for phylogenetic tree display and annotation\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c23c7723bebd8669d362"},"refKey":17},
{"_key":"60c7c23c7723bebd8669d364","_id":"references/60c7c23c7723bebd8669d364","_rev":"_cfFmE1O---","tei":"\n\t\n\t\tA Combined Transmembrane Topology and Signal Peptide Prediction Method\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1016/j.jmb.2004.03.016\n\t\t15111065\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t338\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7c23c7723bebd8669d362"},"refKey":11},
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{"_key":"60c7c23c7723bebd8669d367","_id":"references/60c7c23c7723bebd8669d367","_rev":"_cfFmE1u---","tei":"\n\t\n\t\tProtein Structure and Function Prediction Using I-TASSER\n\t\t\n\t\t\tJianyiYang\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/0471250953.bi0508s52\n\t\t26678386\n\t\tPMC4871818\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c7c23c7723bebd8669d362"},"refKey":37},
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{"_key":"60c7c2587723bebd8669d38e","_id":"references/60c7c2587723bebd8669d38e","_rev":"_cfFmE2u---","tei":"\n\t\n\t\tSeasonal transmission potential and activity peaks of the new influenza A(H1N1): a Monte Carlo likelihood analysis based on human mobility\n\t\t\n\t\t\tDuyguBalcan\n\t\t\n\t\t\n\t\t\tHaoHu\n\t\t\n\t\t\n\t\t\tBrunoGoncalves\n\t\t\n\t\t\n\t\t\tPaoloBajardi\n\t\t\n\t\t\n\t\t\tChiaraPoletto\n\t\t\n\t\t\n\t\t\tJoseJRamasco\n\t\t\n\t\t\n\t\t\tDanielaPaolotti\n\t\t\n\t\t\n\t\t\tNicolaPerra\n\t\t\n\t\t\n\t\t\tMicheleTizzoni\n\t\t\n\t\t\n\t\t\tWouterVan Den Broeck\n\t\t\n\t\t\n\t\t\tVittoriaColizza\n\t\t\n\t\t\n\t\t\tAlessandroVespignani\n\t\t\n\t\t10.1186/1741-7015-7-45\n\t\t19744314\n\t\tPMC2755471\n\t\t\n\t\n\t\n\t\tBMC Medicine\n\t\tBMC Med\n\t\t1741-7015\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t45\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c7c2587723bebd8669d38d"},"refKey":2},
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{"_key":"60c7c4ba7723bebd8669d541","_id":"references/60c7c4ba7723bebd8669d541","_rev":"_cfFmE6m---","tei":"\n\t\n\t\tModelFinder: fast model selection for accurate phylogenetic estimates\n\t\t\n\t\t\tSubhaKalyaanamoorthy\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t\n\t\t\tThomasK FWong\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tLarsSJermiin\n\t\t\n\t\t10.1038/nmeth.4285\n\t\t28481363\n\t\tPMC5453245\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Meth\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7c4ba7723bebd8669d53f"},"refKey":10},
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{"_key":"60c7c6067723bebd8669d726","_id":"references/60c7c6067723bebd8669d726","_rev":"_cfFmE9u---","tei":"\n\t\n\t\tNanOnline: webbased service for MinION Assembly. Poster at second Nanopore London Calling conference\n\t\t\n\t\t\tGMazzocco\n\t\t\n\t\t\n\t\t\tPWro ´blewski\n\t\t\n\t\t\n\t\t\tMLermo\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c6067723bebd8669d725"},"refKey":41},
{"_key":"60c7c6067723bebd8669d727","_id":"references/60c7c6067723bebd8669d727","_rev":"_cfFmE92---","tei":"\n\t\n\t\tComparison of bacterial genome assembly software for MinION data\n\t\t\n\t\t\tKimJudge\n\t\t\n\t\t\n\t\t\tMartinHunt\n\t\t\n\t\t\n\t\t\tSandraReuter\n\t\t\n\t\t\n\t\t\tAlanTracey\n\t\t\n\t\t\n\t\t\tMichaelAQuail\n\t\t\n\t\t\n\t\t\tJulianParkhill\n\t\t\n\t\t\n\t\t\tSharonJPeacock\n\t\t\n\t\t10.1101/049213\n\t\t\n\t\n\t\n\t\tMicrobial Genomics\n\t\t\n\t\t\t2\n\t\t\t9\n\t\t\te000085\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7c6067723bebd8669d725"},"refKey":42},
{"_key":"60c7c6067723bebd8669d728","_id":"references/60c7c6067723bebd8669d728","_rev":"_cfFmF-C---","tei":"\n\t\n\t\tBenchmarking of Methods for Genomic Taxonomy\n\t\t\n\t\t\tMVLarsen\n\t\t\n\t\t\n\t\t\tSCosentino\n\t\t\n\t\t\n\t\t\tOLukjancenko\n\t\t\n\t\t\n\t\t\tDSaputra\n\t\t\n\t\t\n\t\t\tSRasmussen\n\t\t\n\t\t\n\t\t\tHHasman\n\t\t\n\t\t\n\t\t\tTSicheritz-Ponten\n\t\t\n\t\t\n\t\t\tFMAarestrup\n\t\t\n\t\t\n\t\t\tDWUssery\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t10.1128/jcm.02981-13\n\t\t24574292\n\t\tPMC3993634\n\t\t\n\t\n\t\n\t\tJournal of Clinical Microbiology\n\t\tJournal of Clinical Microbiology\n\t\t0095-1137\n\t\t\n\t\t\t52\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c7c6067723bebd8669d725"},"refKey":39},
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{"_key":"60c7c7737723bebd8669d837","_id":"references/60c7c7737723bebd8669d837","_rev":"_cfFmFBW---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c7737723bebd8669d836"},"refKey":11},
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{"_key":"60c7c92c7723bebd8669da01","_id":"references/60c7c92c7723bebd8669da01","_rev":"_cfFmFHW---","tei":"\n\t\n\t\tEffect of tecastemizole on pulmonary and cutaneous allergic inflammatory responses\n\t\t\n\t\t\tRLever\n\t\t\n\t\t\n\t\t\tAHefni\n\t\t\n\t\t\n\t\t\tJDMoffatt\n\t\t\n\t\t\n\t\t\tWPaul\n\t\t\n\t\t\n\t\t\tCPPage\n\t\t\n\t\t10.1111/j.1365-2222.2007.02730.x\n\t\t17517105\n\t\tark:/67375/WNG-RZ6N62N4-Z\n\t\t5ADAFCE29F2A7A783B5E8D836F9632E0ECFC8C63\n\t\n\t\n\t\tClinical & Experimental Allergy\n\t\tClin Exp Allergy\n\t\t0954-7894\n\t\t1365-2222\n\t\t\n\t\t\t37\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7c92c7723bebd8669da00"},"refKey":24},
{"_key":"60c7c92f7723bebd8669da06","_id":"references/60c7c92f7723bebd8669da06","_rev":"_cfFmFHi---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c92f7723bebd8669da05"},"refKey":64},
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{"_key":"60c7c94c7723bebd8669da18","_id":"references/60c7c94c7723bebd8669da18","_rev":"_cfFmFH6---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7c94c7723bebd8669da16"},"refKey":58},
{"_key":"60c7c94c7723bebd8669da19","_id":"references/60c7c94c7723bebd8669da19","_rev":"_cfFmFIG---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tAdrianPlatts\n\t\t\n\t\t\n\t\t\tLeLilyWang\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tLuanWang\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\tPMC3679285\n\t\t\n\t\n\t\n\t\tFly\n\t\tFly\n\t\t1933-6934\n\t\t1933-6942\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c7c94c7723bebd8669da16"},"refKey":56},
{"_key":"60c7c94c7723bebd8669da1a","_id":"references/60c7c94c7723bebd8669da1a","_rev":"_cfFmFIS---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7c94c7723bebd8669da16"},"refKey":55},
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{"_key":"60c7c9657723bebd8669da3b","_id":"references/60c7c9657723bebd8669da3b","_rev":"_cfFmFIm---","tei":"\n\t\n\t\tIQ-TREE 2: new models and efficient methods for phylogenetic inference in the genomic era\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t37\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c9657723bebd8669da3a"},"refKey":3},
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{"_key":"60c7c9687723bebd8669da42","_id":"references/60c7c9687723bebd8669da42","_rev":"_cfFmFJK---","tei":"\n\t\n\t\tMISIM v2.0: a web server for inferring microRNA functional similarity based on microRNA-disease associations\n\t\t\n\t\t\tJianweiLi\n\t\t\n\t\t\n\t\t\tShanZhang\n\t\t\n\t\t\n\t\t\tYanpingWan\n\t\t\n\t\t\n\t\t\tYingshuZhao\n\t\t\n\t\t\n\t\t\tJiangchengShi\n\t\t\n\t\t\n\t\t\tYuanZhou\n\t\t\n\t\t\n\t\t\tQinghuaCui\n\t\t\n\t\t10.1093/nar/gkz328\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7c9687723bebd8669da40"},"refKey":36},
{"_key":"60c7c9687723bebd8669da43","_id":"references/60c7c9687723bebd8669da43","_rev":"_cfFmFJS---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\t\n\t\t\tAMarkiel\n\t\t\n\t\t\n\t\t\tOOzier\n\t\t\n\t\t\n\t\t\tNSBaliga\n\t\t\n\t\t\n\t\t\tJTWang\n\t\t\n\t\t\n\t\t\tDRamage\n\t\t\n\t\t\n\t\t\tNAmin\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c9687723bebd8669da40"},"refKey":38},
{"_key":"60c7c9687723bebd8669da44","_id":"references/60c7c9687723bebd8669da44","_rev":"_cfFmFJe---","tei":"\n\t\n\t\tMetascape provides a biologist-oriented resource for the analysis of systems-level datasets\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tLPache\n\t\t\n\t\t\n\t\t\tMChang\n\t\t\n\t\t\n\t\t\tAHKhodabakhshi\n\t\t\n\t\t\n\t\t\tOTanaseichuk\n\t\t\n\t\t\n\t\t\tCBenner\n\t\t\n\t\t\n\t\t\tChanda\n\t\t\n\t\t\n\t\t\tSK\n\t\t\n\t\n\t\n\t\tNat. Commun\n\t\t\n\t\t\t10\n\t\t\t1523\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c9687723bebd8669da40"},"refKey":42},
{"_key":"60c7c9687723bebd8669da45","_id":"references/60c7c9687723bebd8669da45","_rev":"_cfFmFJq---","tei":"\n\t\n\t\tThe reactome pathway knowledgebase\n\t\t\n\t\t\tBJassal\n\t\t\n\t\t\n\t\t\tLMatthews\n\t\t\n\t\t\n\t\t\tGViteri\n\t\t\n\t\t\n\t\t\tCGong\n\t\t\n\t\t\n\t\t\tPLorente\n\t\t\n\t\t\n\t\t\tAFabregat\n\t\t\n\t\t\n\t\t\tKSidiropoulos\n\t\t\n\t\t\n\t\t\tJCook\n\t\t\n\t\t\n\t\t\tMGillespie\n\t\t\n\t\t\n\t\t\tRHaw\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t48\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c9687723bebd8669da40"},"refKey":43},
{"_key":"60c7c9887723bebd8669da52","_id":"references/60c7c9887723bebd8669da52","_rev":"_cfFmFJ2---","tei":"\n\t\n\t\tFast simulation of reconstructed phylogenies under global time-dependent birth–death processes\n\t\t\n\t\t\tSebastianHöhna\n\t\t\n\t\t10.1093/bioinformatics/btt153\n\t\t23543414\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7c9887723bebd8669da51"},"refKey":50},
{"_key":"60c7c9887723bebd8669da53","_id":"references/60c7c9887723bebd8669da53","_rev":"_cfFmFKC---","tei":"\n\t\n\t\tRevBayes: Bayesian phylogenetic inference using graphical models and an interactive model-specification language\n\t\t\n\t\t\tSHöhna\n\t\t\n\t\t\n\t\t\tMJLandis\n\t\t\n\t\t\n\t\t\tTAHeath\n\t\t\n\t\t\n\t\t\tBBoussau\n\t\t\n\t\t\n\t\t\tNLartillot\n\t\t\n\t\t\n\t\t\tBRMoore\n\t\t\n\t\t\n\t\t\tJPHuelsenbeck\n\t\t\n\t\t\n\t\t\tFRonquist\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c9887723bebd8669da51"},"refKey":54},
{"_key":"60c7c9887723bebd8669da54","_id":"references/60c7c9887723bebd8669da54","_rev":"_cfFmFKK---","tei":"\n\t\n\t\tPharmacological properties of blister beetles (Coleoptera: Meloidae) promoted their integration into the cultural heritage of native rural Spain as inferred by vernacular names diversity, traditions, and mitochondrial DNA\n\t\t\n\t\t\tMAMiller\n\t\t\n\t\t\n\t\t\tWPfeiffer\n\t\t\n\t\t\n\t\t\tTSchwartz\n\t\t\n\t\n\t\n\t\tJ. Ethnopharmacol\n\t\t2010 Gateway Computing Percino-Daniel N., Buckley D. & García-París M\n\t\t\n\t\t\t147\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tCreating the CIPRES Science Gateway for inference of large phylogenetic trees\n\n","document":{"$oid":"60c7c9887723bebd8669da51"},"refKey":81},
{"_key":"60c7c9887723bebd8669da55","_id":"references/60c7c9887723bebd8669da55","_rev":"_cfFmFKW---","tei":"\n\t\n\t\tRAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c9887723bebd8669da51"},"refKey":113},
{"_key":"60c7c9887723bebd8669da56","_id":"references/60c7c9887723bebd8669da56","_rev":"_cfFmFKi---","tei":"\n\t\n\t\tGraphviz and Dynagraph — Static and Dynamic Graph Drawing Tools\n\t\t\n\t\t\tJohnEllson\n\t\t\n\t\t\n\t\t\tEmdenRGansner\n\t\t\n\t\t\n\t\t\tEleftheriosKoutsofios\n\t\t\n\t\t\n\t\t\tStephenCNorth\n\t\t\n\t\t\n\t\t\tGordonWoodhull\n\t\t\n\t\t10.1007/978-3-642-18638-7_6\n\t\tark:/67375/HCB-FT40PBLZ-W\n\t\t0D20AB62BB83E178B4C0A7BBBE84BCB3194D00E3\n\t\n\t\n\t\tGraph Drawing Software\n\t\t\t\t\n\t\t\tPMutzel\n\t\t\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c9887723bebd8669da51"},"refKey":30},
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{"_key":"60c7c9ad7723bebd8669dab5","_id":"references/60c7c9ad7723bebd8669dab5","_rev":"_cfFmFLa---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignments through sequence weighting, position specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucl Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c9ad7723bebd8669dab4"},"refKey":25},
{"_key":"60c7c9cf7723bebd8669dad8","_id":"references/60c7c9cf7723bebd8669dad8","_rev":"_cfFmFLm---","tei":"\n\t\n\t\tUsing MetaboAnalyst 4.0 for Comprehensive and Integrative Metabolomics Data Analysis\n\t\t\n\t\t\tJasmineChong\n\t\t\n\t\t\n\t\t\tDavidSWishart\n\t\t\n\t\t\n\t\t\tJianguoXia\n\t\t\n\t\t10.1002/cpbi.86\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t1934-340X\n\t\t\n\t\t\t68\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7c9cf7723bebd8669dad7"},"refKey":30},
{"_key":"60c7c9cf7723bebd8669dad9","_id":"references/60c7c9cf7723bebd8669dad9","_rev":"_cfFmFLy---","tei":"\n\t\n\t\tSparse network modeling and Metscape-based visualization methods for the analysis of large-scale metabolomics data\n\t\t\n\t\t\tSumantaBasu\n\t\t\n\t\t\n\t\t\tWilliamDuren\n\t\t\n\t\t\n\t\t\tCharlesREvans\n\t\t\n\t\t\n\t\t\tCharlesFBurant\n\t\t\n\t\t\n\t\t\tGeorgeMichailidis\n\t\t\n\t\t\n\t\t\tAllaKarnovsky\n\t\t\n\t\t10.1093/bioinformatics/btx012\n\t\t28137712\n\t\tPMC5860222\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\tbtx012\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7c9cf7723bebd8669dad7"},"refKey":29},
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{"_key":"60c7c9e77723bebd8669daf0","_id":"references/60c7c9e77723bebd8669daf0","_rev":"_cfFmFMK---","tei":"\n\t\n\t\tCHARMM-GUI: A web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSJo\n\t\t\n\t\t\n\t\t\tTKim\n\t\t\n\t\t\n\t\t\tVGIyer\n\t\t\n\t\t\n\t\t\tWIm\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c9e77723bebd8669daef"},"refKey":77},
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{"_key":"60c7c9ee7723bebd8669db08","_id":"references/60c7c9ee7723bebd8669db08","_rev":"_cfFmFMe---","tei":"\n\t\n\t\tDesign and implementation of a graph grammar based language for functional-structural plant modelling\n\t\t\n\t\t\tOKniemeyer\n\t\t\n\t\turn=urn:nbn:de:kobv\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of Technology at Cottbus\n\t\t\n\t\n\tPh.D. thesis\n\n","document":{"$oid":"60c7c9ee7723bebd8669db07"},"refKey":8},
{"_key":"60c7c9ee7723bebd8669db09","_id":"references/60c7c9ee7723bebd8669db09","_rev":"_cfFmFMq---","tei":"\n\t\n\t\tRelational Growth Grammars – A Graph Rewriting Approach to Dynamical Systems with a Dynamical Structure\n\t\t\n\t\t\tWinfriedKurth\n\t\t\n\t\t\n\t\t\tOleKniemeyer\n\t\t\n\t\t\n\t\t\tGerhardBuck-Sorlin\n\t\t\n\t\t10.1007/11527800_5\n\t\tark:/67375/HCB-F41GNJ7J-B\n\t\t8AE5B71EBA87ADB101CE7E834D89615BC3704EA1\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tJ.-PBanâtre\n\t\t\tPFradet\n\t\t\tJ.-LGiavitto\n\t\t\tOMichel\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t3566\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7c9ee7723bebd8669db07"},"refKey":9},
{"_key":"60c7ca0d7723bebd8669db20","_id":"references/60c7ca0d7723bebd8669db20","_rev":"_cfFmFM2---","tei":"\n\t\n\t\tAssessing the (a)symmetry of concentration-effect curves\n\t\t\n\t\t\tJesúsGiraldo\n\t\t\n\t\t\n\t\t\tNuriaMVivas\n\t\t\n\t\t\n\t\t\tElisabetVila\n\t\t\n\t\t\n\t\t\tAlbertBadia\n\t\t\n\t\t10.1016/s0163-7258(02)00223-1\n\t\t12163126\n\t\ts0163-7258(02)00223-1\n\t\t\n\t\n\t\n\t\tPharmacology & Therapeutics\n\t\tPharmacology & Therapeutics\n\t\t0163-7258\n\t\t\n\t\t\t95\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7ca0d7723bebd8669db1f"},"refKey":24},
{"_key":"60c7ca0e7723bebd8669db24","_id":"references/60c7ca0e7723bebd8669db24","_rev":"_cfFmFNC---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ca0e7723bebd8669db23"},"refKey":13},
{"_key":"60c7ca307723bebd8669db34","_id":"references/60c7ca307723bebd8669db34","_rev":"_cfFmFNO---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing. Vienna: R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ca307723bebd8669db33"},"refKey":35},
{"_key":"60c7ca5c7723bebd8669db53","_id":"references/60c7ca5c7723bebd8669db53","_rev":"_cfFmFNa---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ca5c7723bebd8669db52"},"refKey":18},
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{"_key":"60c7ca6f7723bebd8669db70","_id":"references/60c7ca6f7723bebd8669db70","_rev":"_cfFmFNy---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ca6f7723bebd8669db6f"},"refKey":30},
{"_key":"60c7ca6f7723bebd8669db71","_id":"references/60c7ca6f7723bebd8669db71","_rev":"_cfFmFO----","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tLDWarren\n\t\t\n\t\n\t\n\t\tDeLano Scientific LLC\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ca6f7723bebd8669db6f"},"refKey":31},
{"_key":"60c7ca6f7723bebd8669db72","_id":"references/60c7ca6f7723bebd8669db72","_rev":"_cfFmFOK---","tei":"\n\t\n\t\tAlgorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tCKutzner\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\n\t\n\t\tJ. Chem. Theory Comput\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ca6f7723bebd8669db6f"},"refKey":34},
{"_key":"60c7ca6f7723bebd8669db73","_id":"references/60c7ca6f7723bebd8669db73","_rev":"_cfFmFOS---","tei":"\n\t\n\t\tA point-charge force field for molecular mechanics simulations of proteins based on condensedphase quantum mechanical calculations\n\t\t\n\t\t\tYDuan\n\t\t\n\t\t\n\t\t\tCWu\n\t\t\n\t\t\n\t\t\tSChowdhury\n\t\t\n\t\t\n\t\t\tMCLee\n\t\t\n\t\t\n\t\t\tGXiong\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ca6f7723bebd8669db6f"},"refKey":35},
{"_key":"60c7ca6f7723bebd8669db74","_id":"references/60c7ca6f7723bebd8669db74","_rev":"_cfFmFOe---","tei":"\n\t\n\t\tAutomated Structure Solution with the PHENIX Suite\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tThomasRIoerger\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tErikMckee\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tJamesCSacchettini\n\t\t\n\t\t\n\t\t\tNicholasKSauter\n\t\t\n\t\t\n\t\t\tLaurentCStoroni\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1007/978-1-60327-058-8_28\n\t\t18542881\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t426\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ca6f7723bebd8669db6f"},"refKey":28},
{"_key":"60c7ca6f7723bebd8669db75","_id":"references/60c7ca6f7723bebd8669db75","_rev":"_cfFmFOq---","tei":"\n\t\n\t\tPhaser crystallographic software\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ca6f7723bebd8669db6f"},"refKey":27},
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{"_key":"60c7cad17723bebd8669dbe0","_id":"references/60c7cad17723bebd8669dbe0","_rev":"_cfFmFQy---","tei":"\n\t\n\t\tSimultaneous Inference in General Parametric Models\n\t\t\n\t\t\tTorstenHothorn\n\t\t\n\t\t\n\t\t\tFrankBretz\n\t\t\n\t\t\n\t\t\tPeterWestfall\n\t\t\n\t\t10.1002/bimj.200810425\n\t\t18481363\n\t\tark:/67375/WNG-GP2W2GCK-7\n\t\tA04388FABFE3AA9CBCDF5B83DB07031C7F6BF488\n\t\t\n\t\t\n\t\n\t\n\t\tBiometrical Journal\n\t\tBiom. J.\n\t\t0323-3847\n\t\t1521-4036\n\t\t\n\t\t\t50\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7cad17723bebd8669dbde"},"refKey":60},
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{"_key":"60c7cc027723bebd8669dc67","_id":"references/60c7cc027723bebd8669dc67","_rev":"_cfFmFSa---","tei":"\n\t\n\t\tPBT assessment and prioritization by PBT Index and consensus modeling: Comparison of screening results from structural models\n\t\t\n\t\t\tPaolaGramatica\n\t\t\n\t\t\n\t\t\tStefanoCassani\n\t\t\n\t\t\n\t\t\tAlessandroSangion\n\t\t\n\t\t10.1016/j.envint.2014.12.012\n\t\t25617903\n\t\n\t\n\t\tEnvironment International\n\t\tEnvironment International\n\t\t0160-4120\n\t\t\n\t\t\t77\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7cc027723bebd8669dc64"},"refKey":35},
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{"_key":"60c7cc027723bebd8669dc69","_id":"references/60c7cc027723bebd8669dc69","_rev":"_cfFmFSy---","tei":"\n\t\n\t\tQSARINS: A new software for the development, analysis, and validation of QSAR MLR models\n\t\t\n\t\t\tPaolaGramatica\n\t\t\n\t\t\n\t\t\tNicolaChirico\n\t\t\n\t\t\n\t\t\tEsterPapa\n\t\t\n\t\t\n\t\t\tStefanoCassani\n\t\t\n\t\t\n\t\t\tSimonaKovarich\n\t\t\n\t\t10.1002/jcc.23361\n\t\tark:/67375/WNG-PM75D7XK-8\n\t\t1CB58A3EE4EF6D0E139BD228BBD6D46D78659026\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t34\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7cc027723bebd8669dc64"},"refKey":37},
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{"_key":"60c7cd417723bebd8669de12","_id":"references/60c7cd417723bebd8669de12","_rev":"_cfFmFXi---","tei":"\n\t\n\t\tCellProfiler Analyst: data exploration and analysis software for complex image-based screens\n\t\t\n\t\t\tTRJones\n\t\t\n\t\t\n\t\t\tIKang\n\t\t\n\t\t\n\t\t\tDBWheeler\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t482\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7cd417723bebd8669de11"},"refKey":31},
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{"_key":"60c7cd527723bebd8669de28","_id":"references/60c7cd527723bebd8669de28","_rev":"_cfFmFYC---","tei":"\n\t\n\t\tEndnote X7 Referencing Software\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7cd527723bebd8669de26"},"refKey":32},
{"_key":"60c7cd527723bebd8669de29","_id":"references/60c7cd527723bebd8669de29","_rev":"_cfFmFYO---","tei":"\n\t\n\t\tWinBUGS---a Bayesian modelling framework: concepts, structure, and extensibility\n\t\t\n\t\t\tDJLunn\n\t\t\n\t\t\n\t\t\tAThomas\n\t\t\n\t\t\n\t\t\tNBest\n\t\t\n\t\t\n\t\t\tDSpiegelhalter\n\t\t\n\t\n\t\n\t\tStat Comput\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7cd527723bebd8669de26"},"refKey":41},
{"_key":"60c7cd8f7723bebd8669de57","_id":"references/60c7cd8f7723bebd8669de57","_rev":"_cfFmFYW---","tei":"\n\t\n\t\tForecasting at scale\n\t\t\n\t\t\tSeanJTaylor\n\t\t\n\t\t\n\t\t\tBenjaminLetham\n\t\t\n\t\t10.7287/peerj.preprints.3190v2\n\t\t\n\t\n\t\n\t\tPeerJ Preprints\n\t\t\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c7cd8f7723bebd8669de56"},"refKey":10},
{"_key":"60c7cd9d7723bebd8669de63","_id":"references/60c7cd9d7723bebd8669de63","_rev":"_cfFmFYi---","tei":"\n\t\n\t\tRapidly deploying a neural search engine for the covid-19 open research dataset: Preliminary thoughts and lessons learned\n\t\t\n\t\t\tEZhang\n\t\t\n\t\t\n\t\t\tNGupta\n\t\t\n\t\t\n\t\t\tRNogueira\n\t\t\n\t\t\n\t\t\tKCho\n\t\t\n\t\t\n\t\t\tJLin\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tpreprint: not peer reviewed\n\n","document":{"$oid":"60c7cd9d7723bebd8669de62"},"refKey":7},
{"_key":"60c7cd9d7723bebd8669de64","_id":"references/60c7cd9d7723bebd8669de64","_rev":"_cfFmFYu---","tei":"\n\t\n\t\tProtFus: A Comprehensive Method Characterizing Protein-Protein Interactions of Fusion Proteins\n\t\t\n\t\t\tSomnathTagore\n\t\t\n\t\t\n\t\t\tAlessandroGorohovski\n\t\t\n\t\t\n\t\t\tLarsJuhlJensen\n\t\t\n\t\t\n\t\t\tMilanaFrenkel-Morgenstern\n\t\t\t0000-0002-0329-4599\n\t\t\n\t\t10.1371/journal.pcbi.1007239\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t15\n\t\t\t8\n\t\t\te1007239\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c7cd9d7723bebd8669de62"},"refKey":12},
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{"_key":"60c7cdbe7723bebd8669dea0","_id":"references/60c7cdbe7723bebd8669dea0","_rev":"_cfFmFZO---","tei":"\n\t\n\t\tDIALS: implementation and evaluation of a new integration package\n\t\t\n\t\t\tGraemeWinter\n\t\t\n\t\t\n\t\t\tDavidGWaterman\n\t\t\t0000-0002-2134-182X\n\t\t\n\t\t\n\t\t\tJamesMParkhurst\n\t\t\n\t\t\n\t\t\tAaronSBrewster\n\t\t\n\t\t\n\t\t\tRichardJGildea\n\t\t\n\t\t\n\t\t\tMarkusGerstel\n\t\t\t0000-0002-4522-3326\n\t\t\n\t\t\n\t\t\tLuisFuentes-Montero\n\t\t\n\t\t\n\t\t\tMelanieVollmar\n\t\t\n\t\t\n\t\t\tTaraMichels-Clark\n\t\t\n\t\t\n\t\t\tIrisDYoung\n\t\t\n\t\t\n\t\t\tNicholasKSauter\n\t\t\n\t\t\n\t\t\tGwyndafEvans\n\t\t\t0000-0002-6079-2201\n\t\t\n\t\t10.1107/s2059798317017235\n\t\t29533234\n\t\tPMC5947772\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Structural Biology\n\t\tActa Cryst Sect D Struct Biol\n\t\t2059-7983\n\t\t\n\t\t\t74\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c7cdbe7723bebd8669de9d"},"refKey":40},
{"_key":"60c7cdbe7723bebd8669dea1","_id":"references/60c7cdbe7723bebd8669dea1","_rev":"_cfFmFZa---","tei":"\n\t\n\t\tMacromolecular structure determination using X-rays, neutrons and electrons: recent developments in phenix\n\t\t\n\t\t\tDLiebschner\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tGBunko ´czi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tTICroll\n\t\t\n\t\t\n\t\t\tBHintze\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tSJain\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRDOeffner\n\t\t\n\t\t\n\t\t\tBKPoon\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tMDSammito\n\t\t\n\t\t\n\t\t\tOVSobolev\n\t\t\n\t\t\n\t\t\tDHStockwell\n\t\t\n\t\t10.1107/S2059798319011471\n\t\t31588918\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Structural Biology\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7cdbe7723bebd8669de9d"},"refKey":21},
{"_key":"60c7cdbe7723bebd8669dea2","_id":"references/60c7cdbe7723bebd8669dea2","_rev":"_cfFmFZm---","tei":"\n\t\n\t\tOverview of theCCP4 suite and current developments\n\t\t\n\t\t\tMartynDWinn\n\t\t\n\t\t\n\t\t\tCharlesCBallard\n\t\t\n\t\t\n\t\t\tKevinDCowtan\n\t\t\n\t\t\n\t\t\tEleanorJDodson\n\t\t\n\t\t\n\t\t\tPaulEmsley\n\t\t\n\t\t\n\t\t\tPhilREvans\n\t\t\n\t\t\n\t\t\tRonanMKeegan\n\t\t\n\t\t\n\t\t\tEugeneBKrissinel\n\t\t\n\t\t\n\t\t\tAndrewG WLeslie\n\t\t\n\t\t\n\t\t\tAirlieMccoy\n\t\t\n\t\t\n\t\t\tStuartJMcnicholas\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tNavrajSPannu\n\t\t\n\t\t\n\t\t\tElizabethAPotterton\n\t\t\n\t\t\n\t\t\tHaroldRPowell\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tAlexeiVagin\n\t\t\n\t\t\n\t\t\tKeithSWilson\n\t\t\n\t\t10.1107/s0907444910045749\n\t\t21460441\n\t\tPMC3069738\n\t\tark:/67375/WNG-2WD8BNN1-X\n\t\tEA86D1B0B076B7089F0E9BB8FED9AAE79E2C4083\n\t\t\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c7cdbe7723bebd8669de9d"},"refKey":38},
{"_key":"60c7cdd17723bebd8669deb9","_id":"references/60c7cdd17723bebd8669deb9","_rev":"_cfFmFZy---","tei":"\n\t\n\t\tProspective Identification of Enteroviruses Involved in Meningitis in 2006 through Direct Genotyping in Cerebrospinal Fluid\n\t\t\n\t\t\tAMirand\n\t\t\n\t\t\n\t\t\tCHenquell\n\t\t\n\t\t\n\t\t\tCArchimbaud\n\t\t\n\t\t\n\t\t\tMChambon\n\t\t\n\t\t\n\t\t\tFCharbonne\n\t\t\n\t\t\n\t\t\tHPeigue-Lafeuille\n\t\t\n\t\t\n\t\t\tJ-LBailly\n\t\t\n\t\t10.1128/jcm.01020-07\n\t\t17977989\n\t\tPMC2224282\n\t\t\n\t\n\t\n\t\tJournal of Clinical Microbiology\n\t\tJournal of Clinical Microbiology\n\t\t0095-1137\n\t\t\n\t\t\t46\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c7cdd17723bebd8669deb8"},"refKey":20},
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{"_key":"60c7ce037723bebd8669ded2","_id":"references/60c7ce037723bebd8669ded2","_rev":"_cfFmFaS---","tei":"\n\t\n\t\tThe VizieR database of astronomical catalogues\n\t\t\n\t\t\tFOchsenbein\n\t\t\n\t\t\n\t\t\tPBauer\n\t\t\n\t\t\n\t\t\tJMarcout\n\t\t\n\t\t10.1051/aas:2000169\n\t\tark:/67375/80W-HTJ4LMH0-0\n\t\tBF16A2BBE242F181DF863E62E9FCEE7EFF89CA89\n\t\t\n\t\n\t\n\t\tAstronomy and Astrophysics Supplement Series\n\t\tAstron. Astrophys. Suppl. Ser.\n\t\t0365-0138\n\t\t1286-4846\n\t\t\n\t\t\t143\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tEDP Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c7ce037723bebd8669ded1"},"refKey":46},
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{"_key":"60c7cf697723bebd8669e012","_id":"references/60c7cf697723bebd8669e012","_rev":"_cfFmFhS---","tei":"\n\t\n\t\tLigandFit: a novel method for the shape-directed rapid docking of ligands to protein active sites\n\t\t\n\t\t\tCMVenkatachalam\n\t\t\n\t\t\n\t\t\tXJiang\n\t\t\n\t\t\n\t\t\tTOldfield\n\t\t\n\t\t\n\t\t\tMWaldman\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics & Modeling\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7cf697723bebd8669e003"},"refKey":63},
{"_key":"60c7cf997723bebd8669e04d","_id":"references/60c7cf997723bebd8669e04d","_rev":"_cfFmFhe---","tei":"\n\t\n\t\tGAsDock: a new approach for rapid flexible docking based on an improved multi-population genetic algorithm\n\t\t\n\t\t\tHonglinLi\n\t\t\n\t\t\n\t\t\tChunlianLi\n\t\t\n\t\t\n\t\t\tChunshanGui\n\t\t\n\t\t\n\t\t\tXiaominLuo\n\t\t\n\t\t\n\t\t\tKaixianChen\n\t\t\n\t\t\n\t\t\tJianhuaShen\n\t\t\n\t\t\n\t\t\tXichengWang\n\t\t\n\t\t\n\t\t\tHualiangJiang\n\t\t\n\t\t10.1016/j.bmcl.2004.06.091\n\t\t15324886\n\t\n\t\n\t\tBioorganic & Medicinal Chemistry Letters\n\t\tBioorganic & Medicinal Chemistry Letters\n\t\t0960-894X\n\t\t\n\t\t\t14\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7cf997723bebd8669e04c"},"refKey":24},
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{"_key":"60c7cf997723bebd8669e050","_id":"references/60c7cf997723bebd8669e050","_rev":"_cfFmFi----","tei":"\n\t\n\t\tCritical evaluation of search algorithms for automated molecular docking and database screening\n\t\t\n\t\t\tToddJ AEwing\n\t\t\n\t\t\n\t\t\tIrwinDKuntz\n\t\t\n\t\t10.1002/(sici)1096-987x(19970715)18:9<1175::aid-jcc6>3.0.co;2-o\n\t\tark:/67375/WNG-GMVC1B69-W\n\t\t4140C87862C8C4E6D87229B5F0BFD9F8F678C8B4\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t18\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7cf997723bebd8669e04c"},"refKey":52},
{"_key":"60c7cf997723bebd8669e051","_id":"references/60c7cf997723bebd8669e051","_rev":"_cfFmFiK---","tei":"\n\t\n\t\tDOCK 4.0: search strategies for automated molecular docking of flexible molecule databases\n\t\t\n\t\t\tTJEwing\n\t\t\n\t\t\n\t\t\tSMakino\n\t\t\n\t\t\n\t\t\tAGSkillman\n\t\t\n\t\t\n\t\t\tIDKuntz\n\t\t\n\t\n\t\n\t\tJ Comput Aided Mol Des\n\t\t\n\t\t\t15\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7cf997723bebd8669e04c"},"refKey":53},
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{"_key":"60c7cf997723bebd8669e054","_id":"references/60c7cf997723bebd8669e054","_rev":"_cfFmFiu---","tei":"\n\t\n\t\tDesigning focused libraries using MoSELECT\n\t\t\n\t\t\tValerieJGillet\n\t\t\n\t\t\n\t\t\tPeterWillett\n\t\t\n\t\t\n\t\t\tPeterJFleming\n\t\t\n\t\t\n\t\t\tDarrenV SGreen\n\t\t\n\t\t10.1016/s1093-3263(01)00150-4\n\t\t12071283\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics and Modelling\n\t\tJournal of Molecular Graphics and Modelling\n\t\t1093-3263\n\t\t\n\t\t\t20\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7cf997723bebd8669e04c"},"refKey":71},
{"_key":"60c7cf997723bebd8669e055","_id":"references/60c7cf997723bebd8669e055","_rev":"_cfFmFi2---","tei":"\n\t\n\t\tDesigning Combinatorial Libraries Optimized on Multiple Objectives\n\t\t\n\t\t\tValerieJGillet\n\t\t\n\t\t10.1385/1-59259-802-1:335\n\t\t15141120\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t275\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7cf997723bebd8669e04c"},"refKey":72},
{"_key":"60c7cf997723bebd8669e056","_id":"references/60c7cf997723bebd8669e056","_rev":"_cfFmFjC---","tei":"\n\t\n\t\tMultiobjective Optimization in Quantitative Structure−Activity Relationships: Deriving Accurate and Interpretable QSARs\n\t\t\n\t\t\tOrazioNicolotti\n\t\t\n\t\t\n\t\t\tValerieJGillet\n\t\t\n\t\t\n\t\t\tPeterJFleming\n\t\t\n\t\t\n\t\t\tDarrenV SGreen\n\t\t\n\t\t10.1021/jm020919o\n\t\t12408718\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t45\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c7cf997723bebd8669e04c"},"refKey":73},
{"_key":"60c7cfae7723bebd8669e096","_id":"references/60c7cfae7723bebd8669e096","_rev":"_cfFmFjO---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tLMaxCarvalho\n\t\t\n\t\t\n\t\t\tOGPybus\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7cfae7723bebd8669e095"},"refKey":21},
{"_key":"60c7cfd67723bebd8669e0b9","_id":"references/60c7cfd67723bebd8669e0b9","_rev":"_cfFmFja---","tei":"\n\t\n\t\tFastTree: Computing large minimum evolution trees with profiles instead of a distance matrix\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7cfd67723bebd8669e0b8"},"refKey":15},
{"_key":"60c7cfd67723bebd8669e0ba","_id":"references/60c7cfd67723bebd8669e0ba","_rev":"_cfFmFjm---","tei":"\n\t\n\t\tFastTree 2-Approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7cfd67723bebd8669e0b8"},"refKey":16},
{"_key":"60c7cfd67723bebd8669e0bb","_id":"references/60c7cfd67723bebd8669e0bb","_rev":"_cfFmFju---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7cfd67723bebd8669e0b8"},"refKey":10},
{"_key":"60c7d00e7723bebd8669e0d7","_id":"references/60c7d00e7723bebd8669e0d7","_rev":"_cfFmFj6---","tei":"\n\t\n\t\tFastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments\n\t\t\n\t\t\tMorganNPrice\n\t\t\n\t\t\n\t\t\tParamvirSDehal\n\t\t\n\t\t\n\t\t\tAdamPArkin\n\t\t\n\t\t10.1371/journal.pone.0009490\n\t\t20224823\n\t\tPMC2835736\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\te9490\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7d00e7723bebd8669e0d6"},"refKey":19},
{"_key":"60c7d00e7723bebd8669e0d8","_id":"references/60c7d00e7723bebd8669e0d8","_rev":"_cfFmFkG---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7d00e7723bebd8669e0d6"},"refKey":18},
{"_key":"60c7d0527723bebd8669e0f8","_id":"references/60c7d0527723bebd8669e0f8","_rev":"_cfFmFkS---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c7d0527723bebd8669e0f7"},"refKey":45},
{"_key":"60c7d0547723bebd8669e100","_id":"references/60c7d0547723bebd8669e100","_rev":"_cfFmFke---","tei":"\n\t\n\t\tPAST: paleontological statistics software package for education and data analysis\n\t\t\n\t\t\tØHammer\n\t\t\n\t\t\n\t\t\tDatHarper\n\t\t\n\t\t\n\t\t\tPDRyan\n\t\t\n\t\t\n\t\n\t\n\t\tPalaeontol Electron\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7d0547723bebd8669e0ff"},"refKey":20},
{"_key":"60c7d0707723bebd8669e116","_id":"references/60c7d0707723bebd8669e116","_rev":"_cfFmFkm---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t10.1093/bioinformatics/btq461\n\t\t20709691\n\t\tark:/67375/HXZ-GJV3Q6N3-6\n\t\tE899EDEA476A0A93BC2365EEC6AA3B7EEEC99891\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7d0707723bebd8669e115"},"refKey":6},
{"_key":"60c7d0707723bebd8669e117","_id":"references/60c7d0707723bebd8669e117","_rev":"_cfFmFky---","tei":"\n\t\n\t\tVSEARCH: a versatile open source tool for metagenomics\n\t\t\n\t\t\tTorbjørnRognes\n\t\t\n\t\t\n\t\t\tTomášFlouri\n\t\t\n\t\t\n\t\t\tBenNichols\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tFrédéricMahé\n\t\t\n\t\t10.7717/peerj.2584\n\t\t27781170\n\t\tPMC5075697\n\t\t\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t4\n\t\t\te2584\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c7d0707723bebd8669e115"},"refKey":7},
{"_key":"60c7d0777723bebd8669e120","_id":"references/60c7d0777723bebd8669e120","_rev":"_cfFmFl----","tei":"\n\t\n\t\tThe R0 package: a toolbox to estimate reproduction numbers for epidemic outbreaks\n\t\t\n\t\t\tTObadia\n\t\t\n\t\t\n\t\t\tRHaneef\n\t\t\n\t\t\n\t\t\tPYBoelle\n\t\t\n\t\n\t\n\t\tBMC Med Inform Decis Mak\n\t\t\n\t\t\t12\n\t\t\t147\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7d0777723bebd8669e11f"},"refKey":17},
{"_key":"60c7d07b7723bebd8669e125","_id":"references/60c7d07b7723bebd8669e125","_rev":"_cfFmFlK---","tei":"\n\t\n\t\tJuMP: A Modeling Language for Mathematical Optimization\n\t\t\n\t\t\tIainDunning\n\t\t\n\t\t\n\t\t\tJoeyHuchette\n\t\t\n\t\t\n\t\t\tMilesLubin\n\t\t\n\t\t10.1137/15m1020575\n\t\t\n\t\n\t\n\t\tSIAM Review\n\t\tSIAM Rev.\n\t\t0036-1445\n\t\t1095-7200\n\t\t\n\t\t\t59\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSociety for Industrial & Applied Mathematics (SIAM)\n\t\t\n\t\n\n","document":{"$oid":"60c7d07b7723bebd8669e124"},"refKey":30},
{"_key":"60c7d07b7723bebd8669e126","_id":"references/60c7d07b7723bebd8669e126","_rev":"_cfFmFlW---","tei":"\n\t\n\t\tComputing in Operations Research Using Julia\n\t\t\n\t\t\tMilesLubin\n\t\t\n\t\t\n\t\t\tIainDunning\n\t\t\n\t\t10.1287/ijoc.2014.0623\n\t\t\n\t\n\t\n\t\tINFORMS Journal on Computing\n\t\tINFORMS Journal on Computing\n\t\t1091-9856\n\t\t1526-5528\n\t\t\n\t\t\t27\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInstitute for Operations Research and the Management Sciences (INFORMS)\n\t\t\n\t\n\n","document":{"$oid":"60c7d07b7723bebd8669e124"},"refKey":31},
{"_key":"60c7d07b7723bebd8669e127","_id":"references/60c7d07b7723bebd8669e127","_rev":"_cfFmFle---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tEBenazera\n\t\t\n\t\t\n\t\t\tNHansen\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tlibcmaes documentation\n\n","document":{"$oid":"60c7d07b7723bebd8669e124"},"refKey":32},
{"_key":"60c7d07b7723bebd8669e128","_id":"references/60c7d07b7723bebd8669e128","_rev":"_cfFmFlq---","tei":"\n\t\n\t\tfmincon interior point algorithm\n\t\t\n\t\t\tMathworks\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7d07b7723bebd8669e124"},"refKey":33},
{"_key":"60c7d1207723bebd8669e154","_id":"references/60c7d1207723bebd8669e154","_rev":"_cfFmFl2---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7d1207723bebd8669e153"},"refKey":35},
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{"_key":"60c7d12e7723bebd8669e162","_id":"references/60c7d12e7723bebd8669e162","_rev":"_cfFmFmO---","tei":"\n\t\n\t\tSoftware development processes for mobile systems: Is agile really taking over the business?\n\t\t\n\t\t\tLuisCorral\n\t\t\n\t\t\n\t\t\tAlbertoSillitti\n\t\t\n\t\t\n\t\t\tGiancarloSucci\n\t\t\n\t\t10.1109/mobs.2013.6614218\n\t\n\t\n\t\t2013 1st International Workshop on the Engineering of Mobile-Enabled Systems (MOBS)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7d12e7723bebd8669e161"},"refKey":4},
{"_key":"60c7d12e7723bebd8669e163","_id":"references/60c7d12e7723bebd8669e163","_rev":"_cfFmFmW---","tei":"\n\t\n\t\tApplying agile methodology in mobile software engineering: android application development and its challenges\n\t\t\n\t\t\tSBKaleel\n\t\t\n\t\t\n\t\t\tSHarishankar\n\t\t\n\t\n\t\n\t\tComputer Science Technical Reports\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7d12e7723bebd8669e161"},"refKey":5},
{"_key":"60c7d1487723bebd8669e180","_id":"references/60c7d1487723bebd8669e180","_rev":"_cfFmFmi---","tei":"\n\t\n\t\tFast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle\n\t\t\n\t\t\tRichardDesper\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1007/3-540-45784-4_27\n\t\tark:/67375/HCB-T82SRHFK-0\n\t\t1CBB86707BCC751BD95E7FFD693A603C96885369\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7d1487723bebd8669e17f"},"refKey":39},
{"_key":"60c7d1487723bebd8669e181","_id":"references/60c7d1487723bebd8669e181","_rev":"_cfFmFmu---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7d1487723bebd8669e17f"},"refKey":36},
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{"_key":"60c7d8827723bebd8669e7c6","_id":"references/60c7d8827723bebd8669e7c6","_rev":"_cfFmF4q---","tei":"\n\t\n\t\tViral IRES Prediction System - a Web Server for Prediction of the IRES Secondary Structure In Silico\n\t\t\n\t\t\tJun-JieHong\n\t\t\n\t\t\n\t\t\tTzong-YuanWu\n\t\t\n\t\t\n\t\t\tTsair-YuanChang\n\t\t\n\t\t\n\t\t\tChung-YungChen\n\t\t\n\t\t10.1371/journal.pone.0079288\n\t\t24223923\n\t\tPMC3818432\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t11\n\t\t\te79288\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c7d8827723bebd8669e7c3"},"refKey":81},
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{"_key":"60c7d8827723bebd8669e7d2","_id":"references/60c7d8827723bebd8669e7d2","_rev":"_cfFmF6u---","tei":"\n\t\n\t\tRNAalifold: improved consensus structure prediction for RNA alignments\n\t\t\n\t\t\tStephanHBernhart\n\t\t\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t\n\t\t\tSebastianWill\n\t\t\n\t\t\n\t\t\tAndreasRGruber\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t10.1186/1471-2105-9-474\n\t\t19014431\n\t\tPMC2621365\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t474\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7d8827723bebd8669e7c3"},"refKey":13},
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{"_key":"60c7da847723bebd8669ea99","_id":"references/60c7da847723bebd8669ea99","_rev":"_cfFmGEu---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7da847723bebd8669ea98"},"refKey":21},
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{"_key":"60c7da957723bebd8669eaa5","_id":"references/60c7da957723bebd8669eaa5","_rev":"_cfFmGFC---","tei":"\n\t\n\t\tLoFreq: a sequencequality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasets\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tPpkAw\n\t\t\n\t\t\n\t\t\tDBertrand\n\t\t\n\t\t\n\t\t\tGhtYeo\n\t\t\n\t\t\n\t\t\tSHOng\n\t\t\n\t\t\n\t\t\tCHWong\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7da957723bebd8669eaa4"},"refKey":74},
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{"_key":"60c7da957723bebd8669eaa7","_id":"references/60c7da957723bebd8669eaa7","_rev":"_cfFmGFe---","tei":"\n\t\n\t\tMaking the Leap: Maq to BWA\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tMass Genomics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7da957723bebd8669eaa4"},"refKey":72},
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{"_key":"60c7dad57723bebd8669eaf5","_id":"references/60c7dad57723bebd8669eaf5","_rev":"_cfFmGGe---","tei":"\n\t\n\t\tcomorbidity: An R package for computing comorbidity scores\n\t\t\n\t\t\tAlessandroGasparini\n\t\t\t0000-0002-8319-7624\n\t\t\n\t\t10.21105/joss.00648\n\t\n\t\n\t\tJournal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t3\n\t\t\t23\n\t\t\t648\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c7dad57723bebd8669eaf4"},"refKey":16},
{"_key":"60c7dae27723bebd8669eb08","_id":"references/60c7dae27723bebd8669eb08","_rev":"_cfFmGGq---","tei":"\n\t\n\t\tRStudio: Integrated Development for R\n\t\t\n\t\t\tRstudioTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7dae27723bebd8669eb07"},"refKey":44},
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{"_key":"60c7daeb7723bebd8669eb0c","_id":"references/60c7daeb7723bebd8669eb0c","_rev":"_cfFmGHC---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\n\t\n\t\tProc. Natl. Acad. Sci. U S A\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7daeb7723bebd8669eb0a"},"refKey":64},
{"_key":"60c7daeb7723bebd8669eb0d","_id":"references/60c7daeb7723bebd8669eb0d","_rev":"_cfFmGHO---","tei":"\n\t\n\t\tEstrogen induces apoptosis in estrogen deprivation-resistant breast cancer through stress responses as identified by global gene expression across time\n\t\t\n\t\t\tEAAriazi\n\t\t\n\t\t\n\t\t\tHECunliffe\n\t\t\n\t\t\n\t\t\tJSLewis-Wambi\n\t\t\n\t\t\n\t\t\tMJSlifker\n\t\t\n\t\t\n\t\t\tALWillis\n\t\t\n\t\t\n\t\t\tPRamos\n\t\t\n\t\t\n\t\t\tCTapia\n\t\t\n\t\t\n\t\t\tHRKim\n\t\t\n\t\t\n\t\t\tSYerrum\n\t\t\n\t\t\n\t\t\tCG NSharma\n\t\t\n\t\t\n\t\t\tENicolas\n\t\t\n\t\t\n\t\t\tYBalagurunathan\n\t\t\n\t\t\n\t\t\tEARoss\n\t\t\n\t\t\n\t\t\tVCJordan\n\t\t\n\t\t10.1073/pnas.1115188108\n\t\t22011582\n\t\tPMC3223472\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t108\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c7daeb7723bebd8669eb0a"},"refKey":5},
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{"_key":"60c7dafe7723bebd8669eb25","_id":"references/60c7dafe7723bebd8669eb25","_rev":"_cfFmGHm---","tei":"\n\t\n\t\tRefinement of protein structures into low-resolution density maps using Rosetta\n\t\t\n\t\t\tFDimaio\n\t\t\n\t\t\n\t\t\tMDTyka\n\t\t\n\t\t\n\t\t\tMLBaker\n\t\t\n\t\t\n\t\t\tWChiu\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t392\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7dafe7723bebd8669eb23"},"refKey":25},
{"_key":"60c7db627723bebd8669eb4d","_id":"references/60c7db627723bebd8669eb4d","_rev":"_cfFmGHu---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7db627723bebd8669eb4c"},"refKey":41},
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{"_key":"60c7dd4e7723bebd8669ecd9","_id":"references/60c7dd4e7723bebd8669ecd9","_rev":"_cfFmGNy---","tei":"\n\t\n\t\tPREMIM and EMIM: tools for estimation of maternal, imprinting and interaction effects using multinomial modelling\n\t\t\n\t\t\tRichardHowey\n\t\t\n\t\t\n\t\t\tHeatherJCordell\n\t\t\n\t\t10.1186/1471-2105-13-149\n\t\t22738121\n\t\tPMC3464602\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t13\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7dd4e7723bebd8669ecd8"},"refKey":25},
{"_key":"60c7dd527723bebd8669ece0","_id":"references/60c7dd527723bebd8669ece0","_rev":"_cfFmGO----","tei":"\n\t\n\t\tGeneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7dd527723bebd8669ecdf"},"refKey":50},
{"_key":"60c7dd827723bebd8669ecfc","_id":"references/60c7dd827723bebd8669ecfc","_rev":"_cfFmGOK---","tei":"\n\t\n\t\tVAPiD: a lightweight cross platform viral annotation pipeline and identification tool to facilitate virus genome submissions to NCBI GenBank\n\t\t\n\t\t\tRyanCShean\n\t\t\n\t\t\n\t\t\tNegarMakhsous\n\t\t\n\t\t\n\t\t\tGrahamDStoddard\n\t\t\n\t\t\n\t\t\tMichelleJLin\n\t\t\n\t\t\n\t\t\tAlexanderLGreninger\n\t\t\n\t\t10.1101/420463\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t20\n\t\t\t48\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7dd827723bebd8669ecfb"},"refKey":6},
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{"_key":"60c7dd827723bebd8669ed00","_id":"references/60c7dd827723bebd8669ed00","_rev":"_cfFmGO2---","tei":"\n\t\n\t\tnhmmer: DNA Homology Search With Profile HMMs\n\t\t\n\t\t\tTJWheeler\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7dd827723bebd8669ecfb"},"refKey":17},
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{"_key":"60c7dd827723bebd8669ed03","_id":"references/60c7dd827723bebd8669ed03","_rev":"_cfFmGPW---","tei":"\n\t\n\t\tVgas: A Viral Genome Annotation System\n\t\t\n\t\t\tKai-YueZhang\n\t\t\n\t\t\n\t\t\tYi-ZhouGao\n\t\t\n\t\t\n\t\t\tMeng-ZeDu\n\t\t\n\t\t\n\t\t\tShuoLiu\n\t\t\n\t\t\n\t\t\tChuanDong\n\t\t\n\t\t\n\t\t\tFeng-BiaoGuo\n\t\t\n\t\t10.3389/fmicb.2019.00184\n\t\t\n\t\n\t\n\t\tFrontiers in Microbiology\n\t\tFront. Microbiol.\n\t\t1664-302X\n\t\t\n\t\t\t10\n\t\t\t184\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c7dd827723bebd8669ecfb"},"refKey":9},
{"_key":"60c7dd827723bebd8669ed04","_id":"references/60c7dd827723bebd8669ed04","_rev":"_cfFmGPi---","tei":"\n\t\n\t\tProkaryotic Genome Annotation Pipeline\n\t\t\n\t\t\tTTatusova\n\t\t\n\t\t\n\t\t\tMDicuccio\n\t\t\n\t\t\n\t\t\tABadretdin\n\t\t\n\t\t\n\t\t\tVChetvernin\n\t\t\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tLZaslavsky\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7dd827723bebd8669ecfb"},"refKey":5},
{"_key":"60c7dd8d7723bebd8669ed79","_id":"references/60c7dd8d7723bebd8669ed79","_rev":"_cfFmGPu---","tei":"\n\t\n\t\tScanpy for analysis of large-scale single-cell gene expression data\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tPhilippAngerer\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/174029\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7dd8d7723bebd8669ed78"},"refKey":65},
{"_key":"60c7dd8d7723bebd8669ed7a","_id":"references/60c7dd8d7723bebd8669ed7a","_rev":"_cfFmGP6---","tei":"\n\t\n\t\tScirpy: A Scanpy extension for analyzing single-cell T-cell receptor sequencing data\n\t\t\n\t\t\tGSturm\n\t\t\n\t\t\n\t\t\tTSzabo\n\t\t\n\t\t\n\t\t\tGFotakis\n\t\t\n\t\t\n\t\t\tMHaider\n\t\t\n\t\t\n\t\t\tDRieder\n\t\t\n\t\t\n\t\t\tZTrajanoski\n\t\t\n\t\t\n\t\t\tFFinotello\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tBioRxiv 2020.04.10.035865\n\n","document":{"$oid":"60c7dd8d7723bebd8669ed78"},"refKey":51},
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{"_key":"60c7dd8d7723bebd8669ed7c","_id":"references/60c7dd8d7723bebd8669ed7c","_rev":"_cfFmGQS---","tei":"\n\t\n\t\tGSVA: gene set variation analysis for microarray and RNA-Seq data\n\t\t\n\t\t\tSHänzelmann\n\t\t\n\t\t\n\t\t\tRCastelo\n\t\t\n\t\t\n\t\t\tJGuinney\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t14\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7dd8d7723bebd8669ed78"},"refKey":18},
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{"_key":"60c7dda97723bebd8669ed9c","_id":"references/60c7dda97723bebd8669ed9c","_rev":"_cfFmGRK---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7dda97723bebd8669ed99"},"refKey":17},
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{"_key":"60c7de017723bebd8669ee34","_id":"references/60c7de017723bebd8669ee34","_rev":"_cfFmGTS---","tei":"\n\t\n\t\tA single-cell survey of the small intestinal epithelium\n\t\t\n\t\t\tAdamLHaber\n\t\t\n\t\t\n\t\t\tMosheBiton\n\t\t\n\t\t\n\t\t\tNogaRogel\n\t\t\n\t\t\n\t\t\tRebeccaHHerbst\n\t\t\n\t\t\n\t\t\tKarthikShekhar\n\t\t\n\t\t\n\t\t\tChristopherSmillie\n\t\t\n\t\t\n\t\t\tGraceBurgin\n\t\t\n\t\t\n\t\t\tToniMDelorey\n\t\t\n\t\t\n\t\t\tMichaelRHowitt\n\t\t\n\t\t\n\t\t\tYardenKatz\n\t\t\n\t\t\n\t\t\tItayTirosh\n\t\t\n\t\t\n\t\t\tSemirBeyaz\n\t\t\n\t\t\n\t\t\tDanielleDionne\n\t\t\n\t\t\n\t\t\tMeiZhang\n\t\t\n\t\t\n\t\t\tRaktimaRaychowdhury\n\t\t\n\t\t\n\t\t\tWendySGarrett\n\t\t\n\t\t\n\t\t\tOritRozenblatt-Rosen\n\t\t\n\t\t\n\t\t\tHaiNingShi\n\t\t\n\t\t\n\t\t\tOmerYilmaz\n\t\t\n\t\t\n\t\t\tRamnikJXavier\n\t\t\n\t\t\n\t\t\tAvivRegev\n\t\t\n\t\t10.1038/nature24489\n\t\t29144463\n\t\tPMC6022292\n\t\tdoi: 10 . 1038 / nature24489\n\t\t\n\t\t\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t551\n\t\t\t7680\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7de017723bebd8669ee33"},"refKey":9},
{"_key":"60c7de017723bebd8669ee35","_id":"references/60c7de017723bebd8669ee35","_rev":"_cfFmGTe---","tei":"\n\t\n\t\tThe OpenCV Library. Dr. Dobb's. Library Catalog: www.drdobbs\n\t\t\n\t\t\tGaryBradski\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7de017723bebd8669ee33"},"refKey":32},
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{"_key":"60c7e26f7723bebd8669f240","_id":"references/60c7e26f7723bebd8669f240","_rev":"_cfFmGfq---","tei":"\n\t\n\t\tDetermination of three-dimensional structures of proteins from interproton distance data by dynamical simulated annealing from a random array of atoms Circumventing problems associated with folding\n\t\t\n\t\t\tMichaelNilges\n\t\t\n\t\t\n\t\t\tGMariusClore\n\t\t\n\t\t\n\t\t\tAngelaMGronenborn\n\t\t\n\t\t10.1016/0014-5793(88)80559-3\n\t\t3181419\n\t\n\t\n\t\tFEBS Letters\n\t\t0014-5793\n\t\t\n\t\t\t239\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7e26f7723bebd8669f23d"},"refKey":24},
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{"_key":"60c7e2717723bebd8669f245","_id":"references/60c7e2717723bebd8669f245","_rev":"_cfFmGgC---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evolut\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7e2717723bebd8669f244"},"refKey":8},
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{"_key":"60c7ee817723bebd8669fc00","_id":"references/60c7ee817723bebd8669fc00","_rev":"_cfFmH_m---","tei":"\n\t\n\t\tMapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt\n\t\t\n\t\t\tSteffenDurinck\n\t\t\n\t\t\n\t\t\tPaulTSpellman\n\t\t\n\t\t\n\t\t\tEwanBirney\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t10.1038/nprot.2009.97\n\t\t19617889\n\t\tPMC3159387\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t4\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7ee817723bebd8669fbfe"},"refKey":69},
{"_key":"60c7ee817723bebd8669fc01","_id":"references/60c7ee817723bebd8669fc01","_rev":"_cfFmH_y---","tei":"\n\t\n\t\tThe UCSC Genome Browser database: 2019 update\n\t\t\n\t\t\tMHaeussler\n\t\t\n\t\t\n\t\t\tASZweig\n\t\t\n\t\t\n\t\t\tCTyner\n\t\t\n\t\t\n\t\t\tMLSpeir\n\t\t\n\t\t\n\t\t\tKRRosenbloom\n\t\t\n\t\t\n\t\t\tBJRaney\n\t\t\n\t\t10.1093/nar/gky1095\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ee817723bebd8669fbfe"},"refKey":72},
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{"_key":"60c7ef0e7723bebd8669fc78","_id":"references/60c7ef0e7723bebd8669fc78","_rev":"_cfFmHAK---","tei":"\n\t\n\t\tOn the Problems of Knowledge Acquisition and Representation of Expert System for Diagnosis of Coronary Artery Disease (CAD)\n\t\t\n\t\t\tLJMuhammad\n\t\t\n\t\t\n\t\t\tEJGarba\n\t\t\n\t\t\n\t\t\tNDOye\n\t\t\n\t\t\n\t\t\tGMWajiga\n\t\t\n\t\t10.14257/ijunesst.2018.11.3.05\n\t\t\n\t\n\t\n\t\tInternational Journal of u- and e- Service, Science and Technology\n\t\tIJUNESST\n\t\t2005-4246\n\t\t\n\t\t\t11\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tNADIA\n\t\t\n\t\n\tScience and Technology\n\n","document":{"$oid":"60c7ef0e7723bebd8669fc77"},"refKey":10},
{"_key":"60c7ef0e7723bebd8669fc79","_id":"references/60c7ef0e7723bebd8669fc79","_rev":"_cfFmHAW---","tei":"\n\t\n\t\tPerformance Evaluation of Classification Data Mining Algorithms on Coronary Artery Disease Dataset\n\t\t\n\t\t\tLJMuhammad\n\t\t\n\t\t\n\t\t\tAbbaHaruna\n\t\t\n\t\t\n\t\t\tAMohammed\n\t\t\n\t\t\n\t\t\tIAAbubakar\n\t\t\n\t\t\n\t\t\tMBadamasi\n\t\t\n\t\t\n\t\t\tBG\n\t\t\n\t\t\n\t\t\tMusaAmshi\n\t\t\n\t\t\n\t\t\tJ\n\t\t\n\t\n\t\n\t\t9th International Conference on Computer and Knowledge Engineering (ICCKE)\n\t\t\t\tMashhad, Iran\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ef0e7723bebd8669fc77"},"refKey":11},
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{"_key":"60c7ef3a7723bebd8669fcb0","_id":"references/60c7ef3a7723bebd8669fcb0","_rev":"_cfFmHBW---","tei":"\n\t\n\t\tAutomatic lung segmentation in routine imaging is a data diversity problem, not a methodology problem\n\t\t\n\t\t\tJHofmanninger\n\t\t\n\t\t\n\t\t\tFPrayer\n\t\t\n\t\t\n\t\t\tJPan\n\t\t\n\t\t\n\t\t\tSRohrich\n\t\t\n\t\t\n\t\t\tHProsch\n\t\t\n\t\t\n\t\t\tGLangs\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t31\n\t\t\n\t\n\n","document":{"$oid":"60c7ef3a7723bebd8669fcaf"},"refKey":14},
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{"_key":"60c7ef957723bebd8669fcec","_id":"references/60c7ef957723bebd8669fcec","_rev":"_cfFmHCG---","tei":"\n\t\n\t\tFastQC A Quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7ef957723bebd8669fcea"},"refKey":17},
{"_key":"60c7efc27723bebd8669fd00","_id":"references/60c7efc27723bebd8669fd00","_rev":"_cfFmHCO---","tei":"\n\t\n\t\tReliable and Reproducible Competition Results with BenchExec and Witnesses\n\t\t\n\t\t\tDBeyer\n\t\t\n\t\n\t\n\t\tTACAS 2016\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tReport on\n\n","document":{"$oid":"60c7efc27723bebd8669fcff"},"refKey":0},
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{"_key":"60c7f0017723bebd8669fd3e","_id":"references/60c7f0017723bebd8669fd3e","_rev":"_cfFmHD----","tei":"\n\t\n\t\tPRISM: a web server and repository for prediction of protein–protein interactions and modeling their 3D complexes\n\t\t\n\t\t\tAlperBaspinar\n\t\t\n\t\t\n\t\t\tEnginCukuroglu\n\t\t\n\t\t\n\t\t\tRuthNussinov\n\t\t\n\t\t\n\t\t\tOzlemKeskin\n\t\t\n\t\t\n\t\t\tAttilaGursoy\n\t\t\n\t\t10.1093/nar/gku397\n\t\t24829450\n\t\tPMC4086120\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f0017723bebd8669fd3d"},"refKey":35},
{"_key":"60c7f0017723bebd8669fd3f","_id":"references/60c7f0017723bebd8669fd3f","_rev":"_cfFmHDG---","tei":"\n\t\n\t\tPredicting protein-protein interactions on a proteome scale by matching evolutionary and structural similarities at interfaces using PRISM\n\t\t\n\t\t\tNTuncbag\n\t\t\n\t\t\n\t\t\tAGursoy\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tOKeskin\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f0017723bebd8669fd3d"},"refKey":36},
{"_key":"60c7f0017723bebd8669fd40","_id":"references/60c7f0017723bebd8669fd40","_rev":"_cfFmHDS---","tei":"\n\t\n\t\tPRISM: protein interactions by structural matching\n\t\t\n\t\t\tUOgmen\n\t\t\n\t\t\n\t\t\tOKeskin\n\t\t\n\t\t\n\t\t\tASAytuna\n\t\t\n\t\t\n\t\t\tRNussinov\n\t\t\n\t\t\n\t\t\tAGursoy\n\t\t\n\t\t10.1093/nar/gki585\n\t\t15991339\n\t\tPMC1160261\n\t\tark:/67375/HXZ-VP9KTBHZ-C\n\t\t784D5EF08F1CD773D57765C0F6CCF0892C9C5929\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f0017723bebd8669fd3d"},"refKey":37},
{"_key":"60c7f0247723bebd8669fd47","_id":"references/60c7f0247723bebd8669fd47","_rev":"_cfFmHDe---","tei":"\n\t\n\t\tSeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation\n\t\t\n\t\t\tWeiShen\n\t\t\t0000-0002-8099-8258\n\t\t\n\t\t\n\t\t\tShuaiLe\n\t\t\n\t\t\n\t\t\tYanLi\n\t\t\n\t\t\n\t\t\tFuquanHu\n\t\t\n\t\t10.1371/journal.pone.0163962\n\t\t27706213\n\t\tPMC5051824\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t11\n\t\t\t10\n\t\t\te0163962\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c7f0247723bebd8669fd46"},"refKey":58},
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{"_key":"60c7f2667723bebd8669ff2f","_id":"references/60c7f2667723bebd8669ff2f","_rev":"_cfFmHKa---","tei":"\n\t\n\t\tPrinciples governing amino acid composition of integral membrane proteins: application to topology prediction 1 1Edited by J. Thornton\n\t\t\n\t\t\tGáborETusnády\n\t\t\n\t\t\n\t\t\tIstvánSimon\n\t\t\n\t\t10.1006/jmbi.1998.2107\n\t\t9769220\n\t\tS0022-2836(98)92107-6\n\t\tark:/67375/6H6-20MCPDQ1-7\n\t\tB26AD6A9AE17562BB7CCAE3C11BFA5D311ED3771\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t283\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7f2667723bebd8669ff2c"},"refKey":28},
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{"_key":"60c7f2827723bebd8669ff46","_id":"references/60c7f2827723bebd8669ff46","_rev":"_cfFmHL----","tei":"\n\t\n\t\tA Nondegenerate Penalized Likelihood Estimator for Variance Parameters in Multilevel Models\n\t\t\n\t\t\tYeojinChung\n\t\t\n\t\t\n\t\t\tSophiaRabe-Hesketh\n\t\t\n\t\t\n\t\t\tVincentDorie\n\t\t\n\t\t\n\t\t\tAndrewGelman\n\t\t\n\t\t\n\t\t\tJingchenLiu\n\t\t\n\t\t10.1007/s11336-013-9328-2\n\t\t24092484\n\t\tark:/67375/VQC-VBX6LBVQ-0\n\t\tF9359AFE45A83C8E872F13EC3F59BB9A7FD8677F\n\t\t\n\t\n\t\n\t\tPsychometrika\n\t\tPsychometrika\n\t\t0033-3123\n\t\t1860-0980\n\t\t\n\t\t\t78\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c7f2827723bebd8669ff44"},"refKey":21},
{"_key":"60c7f2827723bebd8669ff47","_id":"references/60c7f2827723bebd8669ff47","_rev":"_cfFmHLK---","tei":"\n\t\n\t\tFitting linear mixed-effects models using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f2827723bebd8669ff44"},"refKey":19},
{"_key":"60c7f2827723bebd8669ff48","_id":"references/60c7f2827723bebd8669ff48","_rev":"_cfFmHLS---","tei":"\n\t\n\t\tlmerTest package: tests in linear mixed effects models\n\t\t\n\t\t\tAKuznetsova\n\t\t\n\t\t\n\t\t\tPBBrockhoff\n\t\t\n\t\t\n\t\t\tRhbChristensen\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t82\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f2827723bebd8669ff44"},"refKey":20},
{"_key":"60c7f2be7723bebd8669ff63","_id":"references/60c7f2be7723bebd8669ff63","_rev":"_cfFmHLe---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f2be7723bebd8669ff62"},"refKey":28},
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{"_key":"60c7f3367723bebd8669ffaf","_id":"references/60c7f3367723bebd8669ffaf","_rev":"_cfFmHMC---","tei":"\n\t\n\t\tFull-length transcriptome assembly from RNA-Seq data without a reference genome\n\t\t\n\t\t\tManfredGGrabherr\n\t\t\n\t\t\n\t\t\tBrianJHaas\n\t\t\n\t\t\n\t\t\tMoranYassour\n\t\t\n\t\t\n\t\t\tJoshuaZLevin\n\t\t\n\t\t\n\t\t\tDawnAThompson\n\t\t\n\t\t\n\t\t\tIdoAmit\n\t\t\n\t\t\n\t\t\tXianAdiconis\n\t\t\n\t\t\n\t\t\tLinFan\n\t\t\n\t\t\n\t\t\tRaktimaRaychowdhury\n\t\t\n\t\t\n\t\t\tQiandongZeng\n\t\t\n\t\t\n\t\t\tZehuaChen\n\t\t\n\t\t\n\t\t\tEvanMauceli\n\t\t\n\t\t\n\t\t\tNirHacohen\n\t\t\n\t\t\n\t\t\tAndreasGnirke\n\t\t\n\t\t\n\t\t\tNicholasRhind\n\t\t\n\t\t\n\t\t\tFedericaDi Palma\n\t\t\n\t\t\n\t\t\tBruceWBirren\n\t\t\n\t\t\n\t\t\tChadNusbaum\n\t\t\n\t\t\n\t\t\tKerstinLindblad-Toh\n\t\t\n\t\t\n\t\t\tNirFriedman\n\t\t\n\t\t\n\t\t\tAvivRegev\n\t\t\n\t\t10.1038/nbt.1883\n\t\t21572440\n\t\tPMC3571712\n\t\t\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7f3367723bebd8669ffae"},"refKey":15},
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{"_key":"60c7f34c7723bebd8669ffc6","_id":"references/60c7f34c7723bebd8669ffc6","_rev":"_cfFmHMW---","tei":"\n\t\n\t\tDevelopment and validation of a genetic algorithm for flexible docking 1 1Edited by F. E. Cohen\n\t\t\n\t\t\tGarethJones\n\t\t\n\t\t\n\t\t\tPeterWillett\n\t\t\n\t\t\n\t\t\tRobertCGlen\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t\n\t\t\tRobinTaylor\n\t\t\n\t\t10.1006/jmbi.1996.0897\n\t\t9126849\n\t\tS0022-2836(96)90897-9\n\t\tark:/67375/6H6-GNV4R2V8-6\n\t\tEA7BD423E77C5C32200506C1F153E88DAD7A1E33\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t267\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7f34c7723bebd8669ffc5"},"refKey":15},
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{"_key":"60c7f3837723bebd8669fff9","_id":"references/60c7f3837723bebd8669fff9","_rev":"_cfFmHM6---","tei":"\n\t\n\t\tThe Stan math library: Reverse-mode automatic differentiation in C++\n\t\t\n\t\t\tBCarpenter\n\t\t\n\t\t\n\t\t\tMDHoffman\n\t\t\n\t\t\n\t\t\tMBrubaker\n\t\t\n\t\t\n\t\t\tDLee\n\t\t\n\t\t\n\t\t\tPLi\n\t\t\n\t\t\n\t\t\tMBetancourt\n\t\t\n\t\tarXiv:1509.07164\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c7f3837723bebd8669fff7"},"refKey":5},
{"_key":"60c7f3867723bebd866a0003","_id":"references/60c7f3867723bebd866a0003","_rev":"_cfFmHNG---","tei":"\n\t\n\t\tMEGA 7 molecular evolutionary genetics version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f3867723bebd866a0002"},"refKey":13},
{"_key":"60c7f3907723bebd866a000b","_id":"references/60c7f3907723bebd866a000b","_rev":"_cfFmHNO---","tei":"\n\t\n\t\tMEGAN analysis of metagenomic data\n\t\t\n\t\t\tDHuson\n\t\t\n\t\t\n\t\t\tAAuch\n\t\t\n\t\t\n\t\t\tJQi\n\t\t\n\t\t\n\t\t\tSSchuster\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f3907723bebd866a000a"},"refKey":31},
{"_key":"60c7f3907723bebd866a000c","_id":"references/60c7f3907723bebd866a000c","_rev":"_cfFmHNa---","tei":"\n\t\n\t\tA simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst Biol\n\t\t\n\t\t\t52\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f3907723bebd866a000a"},"refKey":63},
{"_key":"60c7f3907723bebd866a000d","_id":"references/60c7f3907723bebd866a000d","_rev":"_cfFmHNm---","tei":"\n\t\n\t\tThe Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis\n\t\t\n\t\t\tJRCole\n\t\t\n\t\t\n\t\t\tQWang\n\t\t\n\t\t\n\t\t\tECardenas\n\t\t\n\t\t\n\t\t\tJFish\n\t\t\n\t\t\n\t\t\tBChai\n\t\t\n\t\t10.1093/nar/gki038\n\t\t15608200\n\t\tPMC539992\n\t\tark:/67375/HXZ-72VFWPVF-X\n\t\tC79BE8D445031AC6A218AB4AD3FF26919AE8D013\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tDatabase issue\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f3907723bebd866a000a"},"refKey":33},
{"_key":"60c7f3907723bebd866a000e","_id":"references/60c7f3907723bebd866a000e","_rev":"_cfFmHNy---","tei":"\n\t\n\t\tNaive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy\n\t\t\n\t\t\tQWang\n\t\t\n\t\t\n\t\t\tGGarrity\n\t\t\n\t\t\n\t\t\tJTiedje\n\t\t\n\t\t\n\t\t\tJCole\n\t\t\n\t\n\t\n\t\tAppl Environ Microbiol\n\t\t\n\t\t\t73\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f3907723bebd866a000a"},"refKey":34},
{"_key":"60c7f3907723bebd866a000f","_id":"references/60c7f3907723bebd866a000f","_rev":"_cfFmHO----","tei":"\n\t\n\t\tMODELTEST: testing the model of DNA substitution\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f3907723bebd866a000a"},"refKey":62},
{"_key":"60c7f3907723bebd866a0010","_id":"references/60c7f3907723bebd866a0010","_rev":"_cfFmHOG---","tei":"\n\t\n\t\tHelicobacter acinonyx sp. nov., Isolated from Cheetahs with Gastritis\n\t\t\n\t\t\tKAEaton\n\t\t\n\t\t\n\t\t\tFEDewhirst\n\t\t\n\t\t\n\t\t\tMJRadin\n\t\t\n\t\t\n\t\t\tJGFox\n\t\t\n\t\t\n\t\t\tBJPaster\n\t\t\n\t\t\n\t\t\tSKrakowka\n\t\t\n\t\t\n\t\t\tDRMorgan\n\t\t\n\t\t10.1099/00207713-43-1-99\n\t\t8379970\n\t\t\n\t\n\t\n\t\tInternational Journal of Systematic Bacteriology\n\t\tInternational Journal of Systematic Bacteriology\n\t\t0020-7713\n\t\t1465-2102\n\t\t\n\t\t\t43\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tMicrobiology Society\n\t\t\n\t\n\n","document":{"$oid":"60c7f3907723bebd866a000a"},"refKey":56},
{"_key":"60c7f39c7723bebd866a0020","_id":"references/60c7f39c7723bebd866a0020","_rev":"_cfFmHOS---","tei":"\n\t\n\t\tCMAverse an R package for reproducible causal mediation analysis. . Epidemiology, in press\n\t\t\n\t\t\tBShi\n\t\t\n\t\t\n\t\t\tCChoirat\n\t\t\n\t\t\n\t\t\tBCoull\n\t\t\n\t\t\n\t\t\tTVanderweele\n\t\t\n\t\t\n\t\t\tLValeri\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f39c7723bebd866a001f"},"refKey":29},
{"_key":"60c7f3a87723bebd866a0023","_id":"references/60c7f3a87723bebd866a0023","_rev":"_cfFmHOe---","tei":"\n\t\n\t\tThe mutational constraint spectrum quantified from variation in 141, 456 humans\n\t\t\n\t\t\tKJKarczewski\n\t\t\n\t\t\n\t\t\tLCFrancioli\n\t\t\n\t\t\n\t\t\tGTiao\n\t\t\n\t\t\n\t\t\tBBCummings\n\t\t\n\t\t\n\t\t\tJAlfo ¨ldi\n\t\t\n\t\t\n\t\t\tQWang\n\t\t\n\t\t\n\t\t\tRLCollins\n\t\t\n\t\t\n\t\t\tKMLaricchia\n\t\t\n\t\t\n\t\t\tAGanna\n\t\t\n\t\t\n\t\t\tDPBirnbaum\n\t\t\n\t\t\n\t\t\tLDGauthier\n\t\t\n\t\t\n\t\t\tHBrand\n\t\t\n\t\t\n\t\t\tMSolomonson\n\t\t\n\t\t\n\t\t\tNAWatts\n\t\t\n\t\t\n\t\t\tDRhodes\n\t\t\n\t\t\n\t\t\tMSinger-Berk\n\t\t\n\t\t\n\t\t\tEMEngland\n\t\t\n\t\t\n\t\t\tEGSeaby\n\t\t\n\t\t\n\t\t\tJAKosmicki\n\t\t\n\t\t\n\t\t\tRKWalters\n\t\t\n\t\t10.1038/s41586-020-2308-7\n\t\t32461654\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t581\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f3a87723bebd866a0022"},"refKey":36},
{"_key":"60c7f3a87723bebd866a0024","_id":"references/60c7f3a87723bebd866a0024","_rev":"_cfFmHOq---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f3a87723bebd866a0022"},"refKey":37},
{"_key":"60c7f3a87723bebd866a0025","_id":"references/60c7f3a87723bebd866a0025","_rev":"_cfFmHO2---","tei":"\n\t\n\t\tMEME SUITE: tools for motif discovery and searching\n\t\t\n\t\t\tTLBailey\n\t\t\n\t\t\n\t\t\tMBoden\n\t\t\n\t\t\n\t\t\tFABuske\n\t\t\n\t\t\n\t\t\tMFrith\n\t\t\n\t\t\n\t\t\tCEGrant\n\t\t\n\t\t\n\t\t\tLClementi\n\t\t\n\t\t\n\t\t\tJRen\n\t\t\n\t\t\n\t\t\tWWLi\n\t\t\n\t\t\n\t\t\tWSNoble\n\t\t\n\t\t10.1093/nar/gkp335\n\t\t19458158\n\t\tPMC2703892\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f3a87723bebd866a0022"},"refKey":4},
{"_key":"60c7f3a87723bebd866a0026","_id":"references/60c7f3a87723bebd866a0026","_rev":"_cfFmHPC---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAAScha ¨ffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t10.1093/nar/25.17.3389\n\t\t9254694\n\t\tPMC146917\n\t\tark:/67375/HXZ-50QJ2KXS-K\n\t\tA48E3FC193DA383D18E97DDF74E7811431AEE739\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t25\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f3a87723bebd866a0022"},"refKey":3},
{"_key":"60c7f3b47723bebd866a0036","_id":"references/60c7f3b47723bebd866a0036","_rev":"_cfFmHPO---","tei":"\n\t\n\t\tEpidemic curves made easy using the R package incidence\n\t\t\n\t\t\tZhianNKamvar\n\t\t\t0000-0003-1458-7108\n\t\t\n\t\t\n\t\t\tJunCai\n\t\t\t0000-0001-9495-1226\n\t\t\n\t\t\n\t\t\tJulietR CPulliam\n\t\t\t0000-0003-3314-8223\n\t\t\n\t\t\n\t\t\tJakobSchumacher\n\t\t\n\t\t\n\t\t\tThibautJombart\n\t\t\t0000-0003-2226-8692\n\t\t\n\t\t10.12688/f1000research.18002.1\n\t\t\n\t\n\t\n\t\tF1000Research\n\t\tF1000Res\n\t\t2046-1402\n\t\t\n\t\t\t8\n\t\t\t139\n\t\t\t\n\t\t\tF1000 ( Faculty of 1000 Ltd)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7f3b47723bebd866a0035"},"refKey":21},
{"_key":"60c7f3b47723bebd866a0037","_id":"references/60c7f3b47723bebd866a0037","_rev":"_cfFmHPa---","tei":"\n\t\n\t\t\n\t\tThe R Development Core Team. R: A Language and Environment for Statistical Computing; R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\t28\n\t\t\n\t\n\n","document":{"$oid":"60c7f3b47723bebd866a0035"},"refKey":20},
{"_key":"60c7f3b47723bebd866a0038","_id":"references/60c7f3b47723bebd866a0038","_rev":"_cfFmHPm---","tei":"\n\t\n\t\tA New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics\n\t\t\n\t\t\tAnneCori\n\t\t\n\t\t\n\t\t\tNeilMFerguson\n\t\t\n\t\t\n\t\t\tChristopheFraser\n\t\t\n\t\t\n\t\t\tSimonCauchemez\n\t\t\n\t\t10.1093/aje/kwt133\n\t\t24043437\n\t\tPMC3816335\n\t\t\n\t\n\t\n\t\tAmerican Journal of Epidemiology\n\t\t0002-9262\n\t\t1476-6256\n\t\t\n\t\t\t178\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7f3b47723bebd866a0035"},"refKey":18},
{"_key":"60c7f3e57723bebd866a0059","_id":"references/60c7f3e57723bebd866a0059","_rev":"_cfFmHPy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSatscan\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f3e57723bebd866a0058"},"refKey":22},
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{"_key":"60c7f40f7723bebd866a0088","_id":"references/60c7f40f7723bebd866a0088","_rev":"_cfFmHQG---","tei":"\n\t\n\t\tSupport-Vector Networks\n\t\t\n\t\t\tCCortes\n\t\t\n\t\t\n\t\t\tVVapnik\n\t\t\n\t\n\t\n\t\tMachine Learning\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f40f7723bebd866a0087"},"refKey":47},
{"_key":"60c7f40f7723bebd866a0089","_id":"references/60c7f40f7723bebd866a0089","_rev":"_cfFmHQS---","tei":"\n\t\n\t\tWorking set selection using second order information for training SVM\n\t\t\n\t\t\tR-EFan\n\t\t\n\t\t\n\t\t\tP-HChen\n\t\t\n\t\t\n\t\t\tC-JLin\n\t\t\n\t\n\t\n\t\tJournal of Machine Learning Research\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f40f7723bebd866a0087"},"refKey":48},
{"_key":"60c7f43c7723bebd866a00c0","_id":"references/60c7f43c7723bebd866a00c0","_rev":"_cfFmHQe---","tei":"\n\t\n\t\tMolProbity: all-atom structure validation for macromolecular crystallography\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tWBArendall\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tRMImmormino\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tLWMurray\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t10.1107/97809553602060000884\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f43c7723bebd866a00bf"},"refKey":68},
{"_key":"60c7f43c7723bebd866a00c1","_id":"references/60c7f43c7723bebd866a00c1","_rev":"_cfFmHQq---","tei":"\n\t\n\t\tThe interpretation of protein structures: estimation of static accessibility\n\t\t\n\t\t\tBLee\n\t\t\n\t\t\n\t\t\tFMRichards\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t55\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f43c7723bebd866a00bf"},"refKey":70},
{"_key":"60c7f43c7723bebd866a00c2","_id":"references/60c7f43c7723bebd866a00c2","_rev":"_cfFmHQ2---","tei":"\n\t\n\t\tAtomic-accuracy models from 4.5-Å cryo-electron microscopy data with density-guided iterative local refinement\n\t\t\n\t\t\tFDimaio\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f43c7723bebd866a00bf"},"refKey":22},
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{"_key":"60c7f5527723bebd866a01cb","_id":"references/60c7f5527723bebd866a01cb","_rev":"_cfFmHTK---","tei":"\n\t\n\t\tDiscovery of potential lumazine synthase antagonists for pathogens involved in bacterial meningitis: In silico study\n\t\t\n\t\t\tManneMunikumar\n\t\t\n\t\t\n\t\t\tPradeepNatarajan\n\t\t\n\t\t\n\t\t\tUmamaheswariAmineni\n\t\t\n\t\t\n\t\t\tKVRadha Krishna\n\t\t\n\t\t10.1016/j.imu.2019.100187\n\t\t\n\t\n\t\n\t\tInformatics in Medicine Unlocked\n\t\tInformatics in Medicine Unlocked\n\t\t2352-9148\n\t\t\n\t\t\t15\n\t\t\t100187\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7f5527723bebd866a01c9"},"refKey":29},
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{"_key":"60c7f5547723bebd866a01e1","_id":"references/60c7f5547723bebd866a01e1","_rev":"_cfFmHUG---","tei":"\n\t\n\t\tCHARMM-GUI: a web-based graphical user interface for CHARMM\n\t\t\n\t\t\tSJo\n\t\t\n\t\t\n\t\t\tTKim\n\t\t\n\t\t\n\t\t\tVGIyer\n\t\t\n\t\t\n\t\t\tWIm\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f5547723bebd866a01dd"},"refKey":22},
{"_key":"60c7f5547723bebd866a01e2","_id":"references/60c7f5547723bebd866a01e2","_rev":"_cfFmHUS---","tei":"\n\t\n\t\tGlycan reader: Automated sugar identification and simulation preparation for carbohydrates and glycoproteins\n\t\t\n\t\t\tSunhwanJo\n\t\t\n\t\t\n\t\t\tKevinCSong\n\t\t\n\t\t\n\t\t\tHeatherDesaire\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t\n\t\t\tWonpilIm\n\t\t\n\t\t10.1002/jcc.21886\n\t\t21815173\n\t\tPMC3188666\n\t\tark:/67375/WNG-SWSSTQ8K-9\n\t\t93344C89A3D6E8E18BF7BD232E5FC022823FA449\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t32\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7f5547723bebd866a01dd"},"refKey":16},
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{"_key":"60c7f5547723bebd866a01e4","_id":"references/60c7f5547723bebd866a01e4","_rev":"_cfFmHUm---","tei":"\n\t\n\t\tA molecular builder for carbohydrates: Application to polysaccharides and complex carbohydrates\n\t\t\n\t\t\tSorenBallingEngelsen\n\t\t\n\t\t\n\t\t\tSoizicCros\n\t\t\n\t\t\n\t\t\tWilliamMackie\n\t\t\n\t\t\n\t\t\tSergePérez\n\t\t\n\t\t10.1002/(sici)1097-0282(199609)39:3<417::aid-bip13>3.0.co;2-8\n\t\t8756520\n\t\tark:/67375/WNG-BNX2L81Z-R\n\t\t3F7AA22927F23388C2DBA029F6BCCC3AF8DA18BF\n\t\n\t\n\t\tBiopolymers\n\t\tBiopolymers\n\t\t0006-3525\n\t\t1097-0282\n\t\t\n\t\t\t39\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7f5547723bebd866a01dd"},"refKey":12},
{"_key":"60c7f5547723bebd866a01e5","_id":"references/60c7f5547723bebd866a01e5","_rev":"_cfFmHUy---","tei":"\n\t\n\t\tdoGlycans-tools for preparing carbohydrate structures for atomistic simulations of glycoproteins, glycolipids, and carbohydrate polymers for GROMACS\n\t\t\n\t\t\tRDanne\n\t\t\n\t\t\n\t\t\tCPoojari\n\t\t\n\t\t\n\t\t\tHMartinez-Seara\n\t\t\n\t\t\n\t\t\tSRissanen\n\t\t\n\t\t\n\t\t\tFLolicato\n\t\t\n\t\t\n\t\t\tTRóg\n\t\t\n\t\n\t\n\t\tJ Chem Inf Model\n\t\t\n\t\t\t57\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f5547723bebd866a01dd"},"refKey":13},
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{"_key":"60c7f5547723bebd866a01e7","_id":"references/60c7f5547723bebd866a01e7","_rev":"_cfFmHVK---","tei":"\n\t\n\t\tMatplotlib: a 2D graphics environment\n\t\t\n\t\t\tJDHunter\n\t\t\n\t\n\t\n\t\tComput Sci Eng\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f5547723bebd866a01dd"},"refKey":26},
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{"_key":"60c7f5547723bebd866a01e9","_id":"references/60c7f5547723bebd866a01e9","_rev":"_cfFmHVi---","tei":"\n\t\n\t\tExploring network structure, dynamics, and function using NetworkX\n\t\t\n\t\t\tAAHagberg\n\t\t\n\t\t\n\t\t\tDASchult\n\t\t\n\t\t\n\t\t\tPJSwart\n\t\t\n\t\n\t\n\t\tProceedings of the 7th Python in Science Conference (SciPy2008), Gäel Varoquaux\n\t\t\t\t\n\t\t\tTravisVaught\n\t\t\tJarrodMillman\n\t\t\n\t\tthe 7th Python in Science Conference (SciPy2008), Gäel VaroquauxPasadena\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f5547723bebd866a01dd"},"refKey":25},
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{"_key":"60c7f5ed7723bebd866a02a0","_id":"references/60c7f5ed7723bebd866a02a0","_rev":"_cfFmHXW---","tei":"\n\t\n\t\tGraalVM: metaprogramming inside a polyglot system (invited talk)\n\t\t\n\t\t\tDanieleBonetta\n\t\t\n\t\t10.1145/3281074.3284935\n\t\n\t\n\t\tProceedings of the 3rd ACM SIGPLAN International Workshop on Meta-Programming Techniques and Reflection - META 2018\n\t\t\t\tthe 3rd ACM SIGPLAN International Workshop on Meta-Programming Techniques and Reflection - META 2018\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tinvited talk\n\n","document":{"$oid":"60c7f5ed7723bebd866a029d"},"refKey":6},
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{"_key":"60c7f5ed7723bebd866a02a2","_id":"references/60c7f5ed7723bebd866a02a2","_rev":"_cfFmHXu---","tei":"\n\t\n\t\tREIL: a platform-independent intermediate representation of disassembled code for static code analysis\n\t\t\n\t\t\tTDullien\n\t\t\n\t\t\n\t\t\tSPorst\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f5ed7723bebd866a029d"},"refKey":9},
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{"_key":"60c7f61d7723bebd866a02d5","_id":"references/60c7f61d7723bebd866a02d5","_rev":"_cfFmHYS---","tei":"\n\t\n\t\tChapter 23 Fitting Enzyme Kinetic Data with KinTek Global Kinetic Explorer\n\t\t\n\t\t\tKennethAJohnson\n\t\t\n\t\t10.1016/s0076-6879(09)67023-3\n\t\t19897109\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t467\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f61d7723bebd866a02d4"},"refKey":43},
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{"_key":"60c7f61e7723bebd866a02e8","_id":"references/60c7f61e7723bebd866a02e8","_rev":"_cfFmHZC---","tei":"\n\t\n\t\tExpression Atlas update—an integrated database of gene and protein expression in humans, animals and plants\n\t\t\n\t\t\tRobertPetryszak\n\t\t\n\t\t\n\t\t\tMariaKeays\n\t\t\t0000-0003-2034-601X\n\t\t\n\t\t\n\t\t\tYAmyTang\n\t\t\n\t\t\n\t\t\tNunoAFonseca\n\t\t\t0000-0003-4832-578X\n\t\t\n\t\t\n\t\t\tElisabetBarrera\n\t\t\t0000-0002-7245-9692\n\t\t\n\t\t\n\t\t\tTonyBurdett\n\t\t\t0000-0002-2513-5396\n\t\t\n\t\t\n\t\t\tAnjaFüllgrabe\n\t\t\t0000-0002-8674-0039\n\t\t\n\t\t\n\t\t\tAlfonso Muñoz-PomerFuentes\n\t\t\n\t\t\n\t\t\tSimonJupp\n\t\t\t0000-0002-0643-3144\n\t\t\n\t\t\n\t\t\tSatuKoskinen\n\t\t\n\t\t\n\t\t\tOliverMannion\n\t\t\n\t\t\n\t\t\tLauraHuerta\n\t\t\t0000-0002-8748-599X\n\t\t\n\t\t\n\t\t\tKarineMegy\n\t\t\n\t\t\n\t\t\tCatherineSnow\n\t\t\n\t\t\n\t\t\tEleanorWilliams\n\t\t\n\t\t\n\t\t\tMitraBarzine\n\t\t\n\t\t\n\t\t\tEmmaHastings\n\t\t\t0000-0001-9927-8560\n\t\t\n\t\t\n\t\t\tHendrikWeisser\n\t\t\n\t\t\n\t\t\tJamesWright\n\t\t\n\t\t\n\t\t\tPankajJaiswal\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tJyotiChoudhary\n\t\t\n\t\t\n\t\t\tHelenEParkinson\n\t\t\n\t\t\n\t\t\tAlvisBrazma\n\t\t\n\t\t10.1093/nar/gkv1045\n\t\t26481351\n\t\tPMC4702781\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f61e7723bebd866a02e6"},"refKey":58},
{"_key":"60c7f61e7723bebd866a02e9","_id":"references/60c7f61e7723bebd866a02e9","_rev":"_cfFmHZO---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f61e7723bebd866a02e6"},"refKey":55},
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{"_key":"60c7f63e7723bebd866a0301","_id":"references/60c7f63e7723bebd866a0301","_rev":"_cfFmHZi---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f63e7723bebd866a0300"},"refKey":12},
{"_key":"60c7f63e7723bebd866a0302","_id":"references/60c7f63e7723bebd866a0302","_rev":"_cfFmHZu---","tei":"\n\t\n\t\tMEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tBrief. Bioinform\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f63e7723bebd866a0300"},"refKey":16},
{"_key":"60c7f68d7723bebd866a0346","_id":"references/60c7f68d7723bebd866a0346","_rev":"_cfFmHZ6---","tei":"\n\t\n\t\tUsing MetaboAnalyst 4.0 for Comprehensive and Integrative Metabolomics Data Analysis\n\t\t\n\t\t\tJasmineChong\n\t\t\n\t\t\n\t\t\tDavidSWishart\n\t\t\n\t\t\n\t\t\tJianguoXia\n\t\t\n\t\t10.1002/cpbi.86\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\tCurrent Protocols in Bioinformatics\n\t\t1934-3396\n\t\t1934-340X\n\t\t\n\t\t\t68\n\t\t\t1\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\te86. [CrossRef\n\n","document":{"$oid":"60c7f68d7723bebd866a0345"},"refKey":20},
{"_key":"60c7f68e7723bebd866a034f","_id":"references/60c7f68e7723bebd866a034f","_rev":"_cfFmHaG---","tei":"\n\t\n\t\tDiscovering microRNAs from deep sequencing data using miRDeep\n\t\t\n\t\t\tMarcRFriedländer\n\t\t\n\t\t\n\t\t\tWeiChen\n\t\t\n\t\t\n\t\t\tCatherineAdamidi\n\t\t\n\t\t\n\t\t\tJonasMaaskola\n\t\t\n\t\t\n\t\t\tRalfEinspanier\n\t\t\n\t\t\n\t\t\tSigneKnespel\n\t\t\n\t\t\n\t\t\tNikolausRajewsky\n\t\t\n\t\t10.1038/nbt1394\n\t\t18392026\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t26\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c7f68e7723bebd866a034e"},"refKey":45},
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{"_key":"60c7f68e7723bebd866a0352","_id":"references/60c7f68e7723bebd866a0352","_rev":"_cfFmHaq---","tei":"\n\t\n\t\tmiRanalyzer: an update on the detection and analysis of microRNAs in high-throughput sequencing experiments\n\t\t\n\t\t\tMHackenberg\n\t\t\n\t\t\n\t\t\tNRodriguez-Ezpeleta\n\t\t\n\t\t\n\t\t\tAMAransay\n\t\t\n\t\t10.1093/nar/gkr247\n\t\t21515631\n\t\tPMC3125730\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t39\n\t\t\tsuppl\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f68e7723bebd866a034e"},"refKey":48},
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{"_key":"60c7f8207723bebd866a04c3","_id":"references/60c7f8207723bebd866a04c3","_rev":"_cfFmHfW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tIYBen-Shalom\n\t\t\n\t\t\n\t\t\tSRBrozell\n\t\t\n\t\t\n\t\t\tDSCerutti\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tVW DIii\n\t\t\n\t\t\n\t\t\tTACruzeiro\n\t\t\n\t\t\n\t\t\tREDarden\n\t\t\n\t\t\n\t\t\tDDuke\n\t\t\n\t\t\n\t\t\tMKGhoreishi\n\t\t\n\t\t\n\t\t\tHGilson\n\t\t\n\t\t\n\t\t\tAWGohlke\n\t\t\n\t\t\n\t\t\tDGoetz\n\t\t\n\t\t\n\t\t\tGreene\n\t\t\n\t\t\n\t\t\tNHarris\n\t\t\n\t\t\n\t\t\tYHomeyer\n\t\t\n\t\t\n\t\t\tSHuang\n\t\t\n\t\t\n\t\t\tAIzadi\n\t\t\n\t\t\n\t\t\tTKovalenko\n\t\t\n\t\t\n\t\t\tTSKurtzman\n\t\t\n\t\t\n\t\t\tSLee\n\t\t\n\t\t\n\t\t\tPLegrand\n\t\t\n\t\t\n\t\t\tCLi\n\t\t\n\t\t\n\t\t\tJLin\n\t\t\n\t\t\n\t\t\tTLiu\n\t\t\n\t\t\n\t\t\tRLuchko\n\t\t\n\t\t\n\t\t\tDJLuo\n\t\t\n\t\t\n\t\t\tKMMermelstein\n\t\t\n\t\t\n\t\t\tYMerz\n\t\t\n\t\t\n\t\t\tGMiao\n\t\t\n\t\t\n\t\t\tCMonard\n\t\t\n\t\t\n\t\t\tHNguyen\n\t\t\n\t\t\n\t\t\tINguyen\n\t\t\n\t\t\n\t\t\tAOmelyan\n\t\t\n\t\t\n\t\t\tFOnufriev\n\t\t\n\t\t\n\t\t\tRPan\n\t\t\n\t\t\n\t\t\tDRQi\n\t\t\n\t\t\n\t\t\tARoe\n\t\t\n\t\t\n\t\t\tCRoitberg\n\t\t\n\t\t\n\t\t\tSSagui\n\t\t\n\t\t\n\t\t\tJSchott-Verdugo\n\t\t\n\t\t\n\t\t\tCLShen\n\t\t\n\t\t\n\t\t\tJSimmerling\n\t\t\n\t\t\n\t\t\tRSmith\n\t\t\n\t\t\n\t\t\tJSalomonferrer\n\t\t\n\t\t\n\t\t\tRCSwails\n\t\t\n\t\t\n\t\t\tJWalker\n\t\t\n\t\t\n\t\t\tHWang\n\t\t\n\t\t\n\t\t\tRMWei\n\t\t\n\t\t\n\t\t\tXWolf\n\t\t\n\t\t\n\t\t\tLWu\n\t\t\n\t\t\n\t\t\tDMXiao\n\t\t\n\t\t\n\t\t\tPAYork\n\t\t\n\t\t\n\t\t\tKollman\n\t\t\n\t\t\n\t\t\t\n\t\t\tSan Francisco\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\n","document":{"$oid":"60c7f8207723bebd866a04c2"},"refKey":18},
{"_key":"60c7f8207723bebd866a04c4","_id":"references/60c7f8207723bebd866a04c4","_rev":"_cfFmHfi---","tei":"\n\t\n\t\tComparative Protein Structure Modeling\n\t\t\n\t\t\tAndrásFiser\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1201/9780203911327.ch7\n\t\n\t\n\t\tProtein Structure\n\t\t\t\t\n\t\t\tCRC Press\n\t\t\t\n\t\t\t374\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f8207723bebd866a04c2"},"refKey":13},
{"_key":"60c7f8277723bebd866a04ca","_id":"references/60c7f8277723bebd866a04ca","_rev":"_cfFmHfu---","tei":"\n\t\n\t\tChapter 6 A Proteomic Approach to the Analysis of RNA Degradosome Composition in Escherichia coli\n\t\t\n\t\t\tPierluigiMauri\n\t\t\n\t\t\n\t\t\tGianniDehò\n\t\t\n\t\t10.1016/s0076-6879(08)02206-4\n\t\t19161840\n\t\n\t\n\t\tRNA Turnover in Bacteria, Archaea and Organelles\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t447\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f8277723bebd866a04c9"},"refKey":18},
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{"_key":"60c7f8327723bebd866a04d5","_id":"references/60c7f8327723bebd866a04d5","_rev":"_cfFmHgG---","tei":"\n\t\n\t\tLinear and nonlinear mixed effects models\n\t\t\n\t\t\tJPinheiro\n\t\t\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tSDebroy\n\t\t\n\t\t\n\t\t\tDSarkar\n\t\t\n\t\t\n\t\t\t& R Core\n\t\t\n\t\t\n\t\t\tTeam\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f8327723bebd866a04d4"},"refKey":67},
{"_key":"60c7f8aa7723bebd866a0503","_id":"references/60c7f8aa7723bebd866a0503","_rev":"_cfFmHgS---","tei":"\n\t\n\t\tThermodynamic parameters for DNA sequences with dangling ends\n\t\t\n\t\t\tSalvatoreBommarito\n\t\t\n\t\t\n\t\t\tNicolasPeyret\n\t\t\n\t\t\n\t\t\tJohnSantaluciaJr\n\t\t\n\t\t10.1093/nar/28.9.1929\n\t\t10756193\n\t\tPMC103285\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t28\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f8aa7723bebd866a0502"},"refKey":3},
{"_key":"60c7f8aa7723bebd866a0504","_id":"references/60c7f8aa7723bebd866a0504","_rev":"_cfFmHge---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f8aa7723bebd866a0502"},"refKey":85},
{"_key":"60c7f8aa7723bebd866a0505","_id":"references/60c7f8aa7723bebd866a0505","_rev":"_cfFmHgq---","tei":"\n\t\n\t\tMemory efficient folding algorithms for circular RNA secondary structures\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t10.1093/bioinformatics/btl023\n\t\t16452114\n\t\tark:/67375/HXZ-W1GM3VHV-Z\n\t\t3C46A5ACA212FF95D5EAC8DF6D47AAEEE677262D\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f8aa7723bebd866a0502"},"refKey":21},
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{"_key":"60c7f8bf7723bebd866a051a","_id":"references/60c7f8bf7723bebd866a051a","_rev":"_cfFmHhC---","tei":"\n\t\n\t\tPETSc/TS: A modern scalable ODE/DAE solver library\n\t\t\n\t\t\tSAbhyankar\n\t\t\n\t\t\n\t\t\tJBrown\n\t\t\n\t\t\n\t\t\tEMConstantinescu\n\t\t\n\t\t\n\t\t\tDGhosh\n\t\t\n\t\t\n\t\t\tBFSmith\n\t\t\n\t\t\n\t\t\tHZhang\n\t\t\n\t\tarXiv:1806.01437\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f8bf7723bebd866a0519"},"refKey":22},
{"_key":"60c7f8d27723bebd866a0525","_id":"references/60c7f8d27723bebd866a0525","_rev":"_cfFmHhO---","tei":"\n\t\n\t\tBuilding Predictive Models in R Using the caret Package\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t28\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f8d27723bebd866a0524"},"refKey":36},
{"_key":"60c7f8d27723bebd866a0526","_id":"references/60c7f8d27723bebd866a0526","_rev":"_cfFmHhW---","tei":"\n\t\n\t\tClassification and Regression by randomForest\n\t\t\n\t\t\tALiaw\n\t\t\n\t\t\n\t\t\tMWiener\n\t\t\n\t\n\t\n\t\tR News\n\t\t\n\t\t\t2\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f8d27723bebd866a0524"},"refKey":38},
{"_key":"60c7f8ef7723bebd866a0532","_id":"references/60c7f8ef7723bebd866a0532","_rev":"_cfFmHhi---","tei":"\n\t\n\t\tIn silico Pathway Activation Network Decomposition Analysis (iPANDA) as a method for biomarker development\n\t\t\n\t\t\tIvanVOzerov\n\t\t\n\t\t\n\t\t\tKseniaVLezhnina\n\t\t\n\t\t\n\t\t\tEvgenyIzumchenko\n\t\t\n\t\t\n\t\t\tArtemVArtemov\n\t\t\n\t\t\n\t\t\tSergeyMedintsev\n\t\t\n\t\t\n\t\t\tQuentinVanhaelen\n\t\t\n\t\t\n\t\t\tAlexanderAliper\n\t\t\n\t\t\n\t\t\tJanVijg\n\t\t\n\t\t\n\t\t\tAndreyanNOsipov\n\t\t\n\t\t\n\t\t\tIvanLabat\n\t\t\n\t\t\n\t\t\tMichaelDWest\n\t\t\n\t\t\n\t\t\tAntonBuzdin\n\t\t\n\t\t\n\t\t\tCharlesRCantor\n\t\t\n\t\t\n\t\t\tYuriNikolsky\n\t\t\n\t\t\n\t\t\tNikolayBorisov\n\t\t\n\t\t\n\t\t\tIrinaIrincheeva\n\t\t\n\t\t\n\t\t\tEdwardKhokhlovich\n\t\t\n\t\t\n\t\t\tDavidSidransky\n\t\t\n\t\t\n\t\t\tMiguelLuizCamargo\n\t\t\n\t\t\n\t\t\tAlexZhavoronkov\n\t\t\t0000-0001-7067-8966\n\t\t\n\t\t10.1038/ncomms13427\n\t\t27848968\n\t\tPMC5116087\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c7f8ef7723bebd866a0531"},"refKey":16},
{"_key":"60c7f8ef7723bebd866a0533","_id":"references/60c7f8ef7723bebd866a0533","_rev":"_cfFmHhu---","tei":"\n\t\n\t\tOncofinder, a new method for the analysis of intracellular signaling pathway activation using transcriptomic data\n\t\t\n\t\t\tAntonABuzdin\n\t\t\n\t\t\n\t\t\tAlexAZhavoronkov\n\t\t\n\t\t\n\t\t\tMikhailBKorzinkin\n\t\t\n\t\t\n\t\t\tLarisaSVenkova\n\t\t\n\t\t\n\t\t\tAlexanderAZenin\n\t\t\n\t\t\n\t\t\tPhilipYu. Smirnov\n\t\t\n\t\t\n\t\t\tNikolayMBorisov\n\t\t\n\t\t10.3389/fgene.2014.00055\n\t\t24723936\n\t\tPMC3971199\n\t\t\n\t\n\t\n\t\tFrontiers in Genetics\n\t\tFront. Genet.\n\t\t1664-8021\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\tFront. Genet. 2014, 5. [CrossRef. PubMed\n\n","document":{"$oid":"60c7f8ef7723bebd866a0531"},"refKey":0},
{"_key":"60c7f8ef7723bebd866a0534","_id":"references/60c7f8ef7723bebd866a0534","_rev":"_cfFmHh6---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nmeth.3317\n\t\t25751142\n\t\tPMC4655817\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c7f8ef7723bebd866a0531"},"refKey":31},
{"_key":"60c7f8ef7723bebd866a0535","_id":"references/60c7f8ef7723bebd866a0535","_rev":"_cfFmHiG---","tei":"\n\t\n\t\tfeatureCounts: an efficient general purpose program for assigning sequence reads to genomic features\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\t10.1093/bioinformatics/btt656\n\t\t24227677\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f8ef7723bebd866a0531"},"refKey":32},
{"_key":"60c7f8ef7723bebd866a0536","_id":"references/60c7f8ef7723bebd866a0536","_rev":"_cfFmHiS---","tei":"\n\t\n\t\tIn search for geroprotectors: In silico screening and in vitro validation of signalome-level mimetics of young healthy state\n\t\t\n\t\t\tAAlexander\n\t\t\n\t\t\n\t\t\tVBAleksey\n\t\t\n\t\t\n\t\t\tGAndrew\n\t\t\n\t\t\n\t\t\tJLeslie\n\t\t\n\t\t\n\t\t\tAArtem\n\t\t\n\t\t\n\t\t\tSMaria\n\t\t\n\t\t\n\t\t\tIAlena\n\t\t\n\t\t\n\t\t\tVLarisa\n\t\t\n\t\t\n\t\t\tBNicolas\n\t\t\n\t\t\n\t\t\tBAnton\n\t\t\n\t\n\t\n\t\tAging\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7f8ef7723bebd866a0531"},"refKey":45},
{"_key":"60c7f91a7723bebd866a0572","_id":"references/60c7f91a7723bebd866a0572","_rev":"_cfFmHie---","tei":"\n\t\n\t\tPfold: RNA secondary structure prediction using stochastic context-free grammars\n\t\t\n\t\t\tBjarneKnudsen\n\t\t\n\t\t\n\t\t\tJotunHein\n\t\t\n\t\t10.1093/nar/gkg614\n\t\t12824339\n\t\tPMC169020\n\t\tark:/67375/HXZ-W79DV62K-N\n\t\t69D16798C5AA36F0926AFBA6C59A5FE553D77C31\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c7f91a7723bebd866a0571"},"refKey":36},
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{"_key":"60c7fa477723bebd866a071c","_id":"references/60c7fa477723bebd866a071c","_rev":"_cfFmHoO---","tei":"\n\t\n\t\tStepwise prediction of conformational discontinuous B-cell epitopes using the Mapitope algorithm\n\t\t\n\t\t\tErezMBublil\n\t\t\n\t\t\n\t\t\tNataliaTarnovitskiFreund\n\t\t\n\t\t\n\t\t\tItayMayrose\n\t\t\n\t\t\n\t\t\tOsnatPenn\n\t\t\n\t\t\n\t\t\tAnnaRoitburd-Berman\n\t\t\n\t\t\n\t\t\tNimrodDRubinstein\n\t\t\n\t\t\n\t\t\tTalPupko\n\t\t\n\t\t\n\t\t\tJonathanMGershoni\n\t\t\n\t\t10.1002/prot.21387\n\t\t17427229\n\t\tark:/67375/WNG-08VJQBRD-7\n\t\tF0BCAEFA6CC92CD60A361DEB0B8FCD3F3245AA94\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t68\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c7fa477723bebd866a071a"},"refKey":14},
{"_key":"60c7fa857723bebd866a072f","_id":"references/60c7fa857723bebd866a072f","_rev":"_cfFmHoe---","tei":"\n\t\n\t\tPossible association between Zika virus infection and microcephaly-Brazil\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\t\n\t\t\tLFaccini\n\t\t\n\t\t\n\t\t\tEMRibeiro\n\t\t\n\t\t\n\t\t\tIMFeitosa\n\t\t\n\t\t\n\t\t\tDDHorovitz\n\t\t\n\t\t\n\t\t\tDPCavalcanti\n\t\t\n\t\t\n\t\t\tAPessoa\n\t\t\n\t\t\n\t\t\tMJDoriqui\n\t\t\n\t\t\n\t\t\tJINeri\n\t\t\n\t\t\n\t\t\tJMNeto\n\t\t\n\t\t\n\t\t\tHYWanderley\n\t\t\n\t\t\n\t\t\tMCernach\n\t\t\n\t\t\n\t\t\tASEl-Husny\n\t\t\n\t\t\n\t\t\tMVPone\n\t\t\n\t\t\n\t\t\tCLSerao\n\t\t\n\t\t\n\t\t\tMTSanseverino\n\t\t\n\t\n\t\n\t\tMMWR Morb Mortal Wkly Rep\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tNat Methods Schuler-\n\n","document":{"$oid":"60c7fa857723bebd866a072e"},"refKey":46},
{"_key":"60c7fa877723bebd866a0739","_id":"references/60c7fa877723bebd866a0739","_rev":"_cfFmHoq---","tei":"\n\t\n\t\tSolving Differential Equations inR: PackagedeSolve\n\t\t\n\t\t\tKarlineSoetaert\n\t\t\n\t\t\n\t\t\tThomasPetzoldt\n\t\t\n\t\t\n\t\t\tRWoodrowSetzer\n\t\t\n\t\t10.18637/jss.v033.i09\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t33\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c7fa877723bebd866a0738"},"refKey":47},
{"_key":"60c7fa9a7723bebd866a073c","_id":"references/60c7fa9a7723bebd866a073c","_rev":"_cfFmHo6---","tei":"\n\t\n\t\tReliability and validity of the Spanish version of the 10-item Connor-Davidson resilience scale (10-item CD-RISC) in young adults\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t\n\t\t\tMuthénMuthén\n\t\t\n\t\t\n\t\t\tBNotario-Pacheco\n\t\t\n\t\t\n\t\t\tMSolera-Martínez\n\t\t\n\t\t\n\t\t\tMDSerrano-Parra\n\t\t\n\t\t\n\t\t\tRBartolomé-Gutiérrez\n\t\t\n\t\t\n\t\t\tJGarcía-Campayo\n\t\t\n\t\t\n\t\t\tVMartínez-Vizcaíno\n\t\t\n\t\n\t\n\t\tHealth and Quality of Life Outcomes\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t63\n\t\t\t\n\t\t\n\t\n\tMplus user's guide\n\n","document":{"$oid":"60c7fa9a7723bebd866a073b"},"refKey":36},
{"_key":"60c7fac27723bebd866a0761","_id":"references/60c7fac27723bebd866a0761","_rev":"_cfFmHpK---","tei":"\n\t\n\t\tlavaan: AnRPackage for Structural Equation Modeling\n\t\t\n\t\t\tYvesRosseel\n\t\t\n\t\t10.18637/jss.v048.i02\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t48\n\t\t\t2\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c7fac27723bebd866a0760"},"refKey":44},
{"_key":"60c7fb507723bebd866a07b2","_id":"references/60c7fb507723bebd866a07b2","_rev":"_cfFmHpW---","tei":"\n\t\n\t\tDump1090 is a simple Mode S decoder for RTLSDR devices\n\t\t\n\t\t\tSSanfilippo\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7fb507723bebd866a07b1"},"refKey":33},
{"_key":"60c7fb567723bebd866a07b9","_id":"references/60c7fb567723bebd866a07b9","_rev":"_cfFmHpi---","tei":"\n\t\n\t\tLigand docking and binding site analysis with PyMOL and Autodock/Vina\n\t\t\n\t\t\tDSeeliger\n\t\t\n\t\t\n\t\t\tBLDe Groot\n\t\t\n\t\n\t\n\t\tJ. Comput. Aided Mol. Des\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7fb567723bebd866a07b8"},"refKey":42},
{"_key":"60c7fb977723bebd866a07fa","_id":"references/60c7fb977723bebd866a07fa","_rev":"_cfFmHpy---","tei":"\n\t\n\t\tPosterior summarization in Bayesian phylogenetics using Tracer 1.7\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\tDXie\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7fb977723bebd866a07f9"},"refKey":32},
{"_key":"60c7fb977723bebd866a07fb","_id":"references/60c7fb977723bebd866a07fb","_rev":"_cfFmHqC---","tei":"\n\t\n\t\tMultiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples\n\t\t\n\t\t\tJoshQuick\n\t\t\n\t\t\n\t\t\tNathanDGrubaugh\n\t\t\n\t\t\n\t\t\tStevenTPullan\n\t\t\n\t\t\n\t\t\tIngraMClaro\n\t\t\n\t\t\n\t\t\tAndrewDSmith\n\t\t\n\t\t\n\t\t\tKarthikGangavarapu\n\t\t\n\t\t\n\t\t\tGlennOliveira\n\t\t\n\t\t\n\t\t\tRefugioRobles-Sikisaka\n\t\t\n\t\t\n\t\t\tThomasFRogers\n\t\t\n\t\t\n\t\t\tNathanABeutler\n\t\t\n\t\t\n\t\t\tDennisRBurton\n\t\t\n\t\t\n\t\t\tLiaLauraLewis-Ximenez\n\t\t\n\t\t\n\t\t\tJaquelineGoes De Jesus\n\t\t\n\t\t\n\t\t\tMartaGiovanetti\n\t\t\n\t\t\n\t\t\tSarahHill\n\t\t\n\t\t\n\t\t\tAllisonBlack\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tMilesWCarroll\n\t\t\n\t\t\n\t\t\tMarcioNunes\n\t\t\n\t\t\n\t\t\tLuizCarlosAlcantara\n\t\t\n\t\t\n\t\t\tEsterCSabino\n\t\t\n\t\t\n\t\t\tSallyABaylis\n\t\t\n\t\t\n\t\t\tNunoFaria\n\t\t\n\t\t\n\t\t\tMatthewLoose\n\t\t\n\t\t\n\t\t\tJaredTSimpson\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t\n\t\t\tKristianGAndersen\n\t\t\n\t\t\n\t\t\tNicholasJLoman\n\t\t\t0000-0002-9843-8988\n\t\t\n\t\t10.1101/098913\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7fb977723bebd866a07f9"},"refKey":22},
{"_key":"60c7fb977723bebd866a07fc","_id":"references/60c7fb977723bebd866a07fc","_rev":"_cfFmHqO---","tei":"\n\t\n\t\tIQ-TREE 2: new models and efficient methods for phylogenetic inference in the genomic era\n\t\t\n\t\t\tBQuang\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7fb977723bebd866a07f9"},"refKey":27},
{"_key":"60c7fb977723bebd866a07fd","_id":"references/60c7fb977723bebd866a07fd","_rev":"_cfFmHqa---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tTTLam\n\t\t\n\t\t\n\t\t\tMaxCarvalho\n\t\t\n\t\t\n\t\t\tLPybus\n\t\t\n\t\t\n\t\t\tOG\n\t\t\n\t\n\t\n\t\tVirus Evol\n\t\t\n\t\t\t2\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7fb977723bebd866a07f9"},"refKey":28},
{"_key":"60c7fbe77723bebd866a0837","_id":"references/60c7fbe77723bebd866a0837","_rev":"_cfFmHqm---","tei":"\n\t\n\t\tCHARMM: the biomolecular simulation program\n\t\t\n\t\t\tBRBrooks\n\t\t\n\t\t\n\t\t\tCLBrooks\n\t\t\n\t\t\n\t\t\tJr\n\t\t\n\t\t\n\t\t\tLNilsson\n\t\t\n\t\t\n\t\t\tRJPetrella\n\t\t\n\t\t\n\t\t\tBRoux\n\t\t\n\t\t\n\t\t\tYWon\n\t\t\n\t\t\n\t\t\tGArchontis\n\t\t\n\t\t\n\t\t\tCBartels\n\t\t\n\t\t\n\t\t\tSBoresch\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7fbe77723bebd866a0836"},"refKey":53},
{"_key":"60c7fbf97723bebd866a0840","_id":"references/60c7fbf97723bebd866a0840","_rev":"_cfFmHqy---","tei":"\n\t\n\t\tWHONET: Removing obstacles to the full use of information about antimicrobial resistance\n\t\t\n\t\t\tThomasFO'brien\n\t\t\n\t\t\n\t\t\tJohnMStelling\n\t\t\n\t\t10.1016/s0732-8893(96)00139-3\n\t\tS0732-8893(96)00139-3\n\t\tark:/67375/6H6-9FST05ZZ-5\n\t\t3E2C9B0C4A5CA6358D9649283045AB297BF0027F\n\t\n\t\n\t\tDiagnostic Microbiology and Infectious Disease\n\t\tDiagnostic Microbiology and Infectious Disease\n\t\t0732-8893\n\t\t\n\t\t\t25\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c7fbf97723bebd866a083f"},"refKey":6},
{"_key":"60c7fc157723bebd866a084e","_id":"references/60c7fc157723bebd866a084e","_rev":"_cfFmHr----","tei":"\n\t\n\t\tGraph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tFionaHamey\n\t\t\n\t\t\n\t\t\tMireyaPlass\n\t\t\n\t\t\n\t\t\tJordiSolana\n\t\t\n\t\t\n\t\t\tJoakimSDahlin\n\t\t\n\t\t\n\t\t\tBertholdGöttgens\n\t\t\n\t\t\n\t\t\tNikolausRajewsky\n\t\t\n\t\t\n\t\t\tLukasSimon\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/208819\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t59\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c7fc157723bebd866a084d"},"refKey":38},
{"_key":"60c7fc157723bebd866a084f","_id":"references/60c7fc157723bebd866a084f","_rev":"_cfFmHrO---","tei":"\n\t\n\t\tThe single-cell transcriptional landscape of mammalian organogenesis\n\t\t\n\t\t\tJCao\n\t\t\n\t\t\n\t\t\tMSpielmann\n\t\t\n\t\t\n\t\t\tXQiu\n\t\t\n\t\t\n\t\t\tXHuang\n\t\t\n\t\t\n\t\t\tDMIbrahim\n\t\t\n\t\t\n\t\t\tAJHill\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t566\n\t\t\t7745\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7fc157723bebd866a084d"},"refKey":42},
{"_key":"60c7fc157723bebd866a0850","_id":"references/60c7fc157723bebd866a0850","_rev":"_cfFmHra---","tei":"\n\t\n\t\tUser-friendly, scalable tools and workows for single-cell analysis\n\t\t\n\t\t\tPMoreno\n\t\t\n\t\t\n\t\t\tNHuang\n\t\t\n\t\t\n\t\t\tJRManning\n\t\t\n\t\t\n\t\t\tSMohammed\n\t\t\n\t\t\n\t\t\tASolovyev\n\t\t\n\t\t\n\t\t\tKPolanski\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7fc157723bebd866a084d"},"refKey":41},
{"_key":"60c7fc157723bebd866a0851","_id":"references/60c7fc157723bebd866a0851","_rev":"_cfFmHri---","tei":"\n\t\n\t\tscmap: projection of singlecell RNA-seq data across data sets\n\t\t\n\t\t\tVYKiselev\n\t\t\n\t\t\n\t\t\tAYiu\n\t\t\n\t\t\n\t\t\tMHemberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t15\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7fc157723bebd866a084d"},"refKey":43},
{"_key":"60c7fc157723bebd866a0852","_id":"references/60c7fc157723bebd866a0852","_rev":"_cfFmHru---","tei":"\n\t\n\t\tscPred: accurate supervised method for cell-type classication from single-cell RNA-seq data\n\t\t\n\t\t\tJAlquicira-Hernandez\n\t\t\n\t\t\n\t\t\tASathe\n\t\t\n\t\t\n\t\t\tHPJi\n\t\t\n\t\t\n\t\t\tQNguyen\n\t\t\n\t\t\n\t\t\tJEPowell\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t264\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c7fc157723bebd866a084d"},"refKey":44},
{"_key":"60c7fc157723bebd866a0853","_id":"references/60c7fc157723bebd866a0853","_rev":"_cfFmHr6---","tei":"\n\t\n\t\tSupervised classification enables rapid annotation of cell atlases\n\t\t\n\t\t\tHannahAPliner\n\t\t\t0000-0003-1484-6501\n\t\t\n\t\t\n\t\t\tJayShendure\n\t\t\t0000-0002-1516-1865\n\t\t\n\t\t\n\t\t\tColeTrapnell\n\t\t\t0000-0002-8105-4347\n\t\t\n\t\t10.1038/s41592-019-0535-3\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t16\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c7fc157723bebd866a084d"},"refKey":45},
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{"_key":"60c7fd8e7723bebd866a09b6","_id":"references/60c7fd8e7723bebd866a09b6","_rev":"_cfFmHxS---","tei":"\n\t\n\t\tPrediction of ∆G for TM helix insertion\n\t\t\n\t\t\n\t\t\t\n\t\t\t30\n\t\t\n\t\n\n","document":{"$oid":"60c7fd8e7723bebd866a09b5"},"refKey":12},
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{"_key":"60c8021c7723bebd866a0d26","_id":"references/60c8021c7723bebd866a0d26","_rev":"_cfFmI-W---","tei":"\n\t\n\t\tLinearFold: linear-time approximate RNA folding by 5'-to-3' dynamic programming and beam search\n\t\t\n\t\t\tLiangHuang\n\t\t\n\t\t\n\t\t\tHeZhang\n\t\t\n\t\t\n\t\t\tDezhongDeng\n\t\t\n\t\t\n\t\t\tKaiZhao\n\t\t\n\t\t\n\t\t\tKaiboLiu\n\t\t\n\t\t\n\t\t\tDavidAHendrix\n\t\t\n\t\t\n\t\t\tDavidHMathews\n\t\t\n\t\t10.1093/bioinformatics/btz375\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8021c7723bebd866a0d22"},"refKey":26},
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{"_key":"60c805427723bebd866a0f6b","_id":"references/60c805427723bebd866a0f6b","_rev":"_cfFmIGW---","tei":"\n\t\n\t\tannotating high confidence microRNAs using deep sequencing data\n\t\t\n\t\t\tAKozomara\n\t\t\n\t\t\n\t\t\tSGriffiths-Jones\n\t\t\n\t\t\n\t\t\tMirbase\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c805427723bebd866a0f68"},"refKey":52},
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{"_key":"60c8060b7723bebd866a0ff0","_id":"references/60c8060b7723bebd866a0ff0","_rev":"_cfFmIHG---","tei":"\n\t\n\t\tPersons per Square Mile by County\n\t\t\n\t\t\tArcgis\n\t\t\n\t\tgeometry=-302.697%2C-0.072%2C57.303%2C76.663& layer=12\n\t\t\n\t\t\n\t\t\t\n\t\t\t26\n\t\t\n\t\n\n","document":{"$oid":"60c8060b7723bebd866a0fee"},"refKey":40},
{"_key":"60c8060b7723bebd866a0ff1","_id":"references/60c8060b7723bebd866a0ff1","_rev":"_cfFmIHS---","tei":"\n\t\n\t\tDownload, Manipulate, and Present American Community Survey and Decennial Data from the US Census\n\t\t\n\t\t\tEHGlenn\n\t\t\n\t\t\n\t\t\tMEGlenn\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t12\n\t\t\n\t\n\tR Package Version 2.1.4. Available online\n\n","document":{"$oid":"60c8060b7723bebd866a0fee"},"refKey":38},
{"_key":"60c806437723bebd866a101f","_id":"references/60c806437723bebd866a101f","_rev":"_cfFmIHe---","tei":"\n\t\n\t\tMEGA4: molecular Evolutionary Genetics Analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c806437723bebd866a101e"},"refKey":30},
{"_key":"60c8065a7723bebd866a1029","_id":"references/60c8065a7723bebd866a1029","_rev":"_cfFmIHq---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap): a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8065a7723bebd866a1028"},"refKey":10},
{"_key":"60c806957723bebd866a1040","_id":"references/60c806957723bebd866a1040","_rev":"_cfFmIH2---","tei":"\n\t\n\t\tImproved BLAST searches using longer words for protein seeding\n\t\t\n\t\t\tSAShiryev\n\t\t\n\t\t\n\t\t\tJSPapadopoulos\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tRAgarwala\n\t\t\n\t\t10.1093/bioinformatics/btm479\n\t\t17921491\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c806957723bebd866a103f"},"refKey":28},
{"_key":"60c806957723bebd866a1041","_id":"references/60c806957723bebd866a1041","_rev":"_cfFmIIC---","tei":"\n\t\n\t\tGeptop: A Gene Essentiality Prediction Tool for Sequenced Bacterial Genomes Based on Orthology and Phylogeny\n\t\t\n\t\t\tWenWei\n\t\t\n\t\t\n\t\t\tLu-WenNing\n\t\t\n\t\t\n\t\t\tYuan-NongYe\n\t\t\n\t\t\n\t\t\tFeng-BiaoGuo\n\t\t\n\t\t10.1371/journal.pone.0072343\n\t\t23977285\n\t\tPMC3744497\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t8\n\t\t\te72343\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c806957723bebd866a103f"},"refKey":31},
{"_key":"60c806a67723bebd866a1070","_id":"references/60c806a67723bebd866a1070","_rev":"_cfFmIIO---","tei":"\n\t\n\t\tEQ-5D-5L User Guide\n\t\n\t\n\t\tEuroQol Research Foundation\n\t\t\n\t\t\t\n\t\t\n\t\n\tEuroQol Research Foundation\n\n","document":{"$oid":"60c806a67723bebd866a106f"},"refKey":42},
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{"_key":"60c806e47723bebd866a1091","_id":"references/60c806e47723bebd866a1091","_rev":"_cfFmIIm---","tei":"\n\t\n\t\tMeta-Analysis of Diagnostic Accuracy with Mada\n\t\t\n\t\t\tP &Doebler\n\t\t\n\t\t\n\t\t\tHHolling\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c806e47723bebd866a1090"},"refKey":17},
{"_key":"60c806e47723bebd866a1092","_id":"references/60c806e47723bebd866a1092","_rev":"_cfFmIIy---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing. (R Foundation for Statistical Computing\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c806e47723bebd866a1090"},"refKey":18},
{"_key":"60c806f37723bebd866a1099","_id":"references/60c806f37723bebd866a1099","_rev":"_cfFmIJ----","tei":"\n\t\n\t\tPaired-pulse TMS and scalp EEG reveal systematic relationship between inhibitory GABAa signaling in M1 and fronto-central cortical activity during action stopping\n\t\t\n\t\t\tMHynd\n\t\t\n\t\t\n\t\t\tCSoh\n\t\t\n\t\t\n\t\t\tBORangel\n\t\t\n\t\t\n\t\t\tJRWessel\n\t\t\n\t\n\t\n\t\tJournal of Neurophysiology\n\t\t\n\t\t\t125\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c806f37723bebd866a1098"},"refKey":24},
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{"_key":"60c806f47723bebd866a10a7","_id":"references/60c806f47723bebd866a10a7","_rev":"_cfFmIJW---","tei":"\n\t\n\t\tMassive mining of publicly available RNA-seq data from human and mouse\n\t\t\n\t\t\tAlexanderLachmann\n\t\t\t0000-0002-1982-7652\n\t\t\n\t\t\n\t\t\tDenisTorre\n\t\t\n\t\t\n\t\t\tAlexandraBKeenan\n\t\t\n\t\t\n\t\t\tKathleenMJagodnik\n\t\t\n\t\t\n\t\t\tHoyjinJLee\n\t\t\n\t\t\n\t\t\tLilyWang\n\t\t\n\t\t\n\t\t\tMosheCSilverstein\n\t\t\n\t\t\n\t\t\tAviMa’ayan\n\t\t\t0000-0002-6904-1017\n\t\t\n\t\t10.1038/s41467-018-03751-6\n\t\t29636450\n\t\tPMC5893633\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t1366\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c806f47723bebd866a10a6"},"refKey":35},
{"_key":"60c806f47723bebd866a10a8","_id":"references/60c806f47723bebd866a10a8","_rev":"_cfFmIJi---","tei":"\n\t\n\t\tEnrichr: interactive and collaborative HTML5 gene list enrichment analysis tool\n\t\t\n\t\t\tEYChen\n\t\t\n\t\t\n\t\t\tCMTan\n\t\t\n\t\t\n\t\t\tYKou\n\t\t\n\t\n\t\n\t\tBMC Bioinform\n\t\t\n\t\t\t128\n\t\t\t128\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c806f47723bebd866a10a6"},"refKey":38},
{"_key":"60c807027723bebd866a10b0","_id":"references/60c807027723bebd866a10b0","_rev":"_cfFmIJu---","tei":"\n\t\n\t\tPsychometric Developments Related to Tests and Selection\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t10.21236/ada280416\n\t\t\n\t\n\t\n\t\tMplus user's guide\n\t\t\t\tLos Angeles, CA\n\t\t\n\t\t\tDefense Technical Information Center\n\t\t\t\n\t\t\n\t\n\t7th ed.\n\n","document":{"$oid":"60c807027723bebd866a10af"},"refKey":41},
{"_key":"60c8070b7723bebd866a10b3","_id":"references/60c8070b7723bebd866a10b3","_rev":"_cfFmIJ6---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8070b7723bebd866a10b2"},"refKey":38},
{"_key":"60c8070e7723bebd866a10b6","_id":"references/60c8070e7723bebd866a10b6","_rev":"_cfFmIKG---","tei":"\n\t\n\t\tEvaluating Online Information Regarding the Direct Anterior Approach for Total Hip Arthroplasty\n\t\t\n\t\t\tRohithMohan\n\t\t\t0000-0001-8193-2886\n\t\t\n\t\t\n\t\t\tPaulHYi\n\t\t\n\t\t\n\t\t\tErikNHansen\n\t\t\n\t\t10.1016/j.arth.2014.12.022\n\t\t25697892\n\t\n\t\n\t\tThe Journal of Arthroplasty\n\t\tThe Journal of Arthroplasty\n\t\t0883-5403\n\t\t\n\t\t\t30\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8070e7723bebd866a10b5"},"refKey":34},
{"_key":"60c8070e7723bebd866a10b7","_id":"references/60c8070e7723bebd866a10b7","_rev":"_cfFmIKS---","tei":"\n\t\n\t\tSearch Engine including Mobile Usage Share. Search Engine Market Share Worldwide\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tStatCounter Global Stats -Browser, OS\n\t\t\n\t\n\n","document":{"$oid":"60c8070e7723bebd866a10b5"},"refKey":35},
{"_key":"60c807257723bebd866a10c8","_id":"references/60c807257723bebd866a10c8","_rev":"_cfFmIKe---","tei":"\n\t\n\t\tDetecting overlapping coding sequences with pairwise alignments\n\t\t\n\t\t\tAEFirth\n\t\t\n\t\t\n\t\t\tCMBrown\n\t\t\n\t\t10.1093/bioinformatics/bti007\n\t\t15347574\n\t\tark:/67375/HXZ-TGKC2B3K-W\n\t\tE65D5A8F5BE7E583D92FC1A5CE7F01A597BB1985\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c807257723bebd866a10c7"},"refKey":19},
{"_key":"60c807257723bebd866a10c9","_id":"references/60c807257723bebd866a10c9","_rev":"_cfFmIKq---","tei":"\n\t\n\t\tAn overlapping essential gene in the Potyviridae\n\t\t\n\t\t\tBYChung\n\t\t\n\t\t\n\t\t\tWAMiller\n\t\t\n\t\t\n\t\t\tJFAtkins\n\t\t\n\t\t\n\t\t\tAEFirth\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t105\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c807257723bebd866a10c7"},"refKey":7},
{"_key":"60c807257723bebd866a10ca","_id":"references/60c807257723bebd866a10ca","_rev":"_cfFmIK2---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c807257723bebd866a10c7"},"refKey":2},
{"_key":"60c807257723bebd866a10cb","_id":"references/60c807257723bebd866a10cb","_rev":"_cfFmILC---","tei":"\n\t\n\t\tEMBOSS: the European molecular biology open software suite\n\t\t\n\t\t\tPRice\n\t\t\n\t\t\n\t\t\tILongden\n\t\t\n\t\t\n\t\t\tABleasby\n\t\t\n\t\n\t\n\t\tTrends Genet\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c807257723bebd866a10c7"},"refKey":42},
{"_key":"60c807257723bebd866a10cc","_id":"references/60c807257723bebd866a10cc","_rev":"_cfFmILO---","tei":"\n\t\n\t\tCLUSTAL W and CLUSTAL_X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWilm, A. & other authors\n\n","document":{"$oid":"60c807257723bebd866a10c7"},"refKey":30},
{"_key":"60c807297723bebd866a10d8","_id":"references/60c807297723bebd866a10d8","_rev":"_cfFmILW---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c807297723bebd866a10d7"},"refKey":13},
{"_key":"60c807297723bebd866a10d9","_id":"references/60c807297723bebd866a10d9","_rev":"_cfFmILi---","tei":"\n\t\n\t\tSeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation\n\t\t\n\t\t\tWeiShen\n\t\t\t0000-0002-8099-8258\n\t\t\n\t\t\n\t\t\tShuaiLe\n\t\t\n\t\t\n\t\t\tYanLi\n\t\t\n\t\t\n\t\t\tFuquanHu\n\t\t\n\t\t10.1371/journal.pone.0163962\n\t\t27706213\n\t\tPMC5051824\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t11\n\t\t\t10\n\t\t\te0163962\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c807297723bebd866a10d7"},"refKey":27},
{"_key":"60c807297723bebd866a10da","_id":"references/60c807297723bebd866a10da","_rev":"_cfFmILu---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c807297723bebd866a10d7"},"refKey":3},
{"_key":"60c807297723bebd866a10db","_id":"references/60c807297723bebd866a10db","_rev":"_cfFmIL6---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nmeth.3317\n\t\t25751142\n\t\tPMC4655817\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c807297723bebd866a10d7"},"refKey":9},
{"_key":"60c807907723bebd866a112b","_id":"references/60c807907723bebd866a112b","_rev":"_cfFmIMG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\t\n\t\t\tSan Francisco\n\t\t\n\t\t\n\t\t\tUniversity of California\n\t\t\n\t\n\n","document":{"$oid":"60c807907723bebd866a112a"},"refKey":34},
{"_key":"60c807ca7723bebd866a117a","_id":"references/60c807ca7723bebd866a117a","_rev":"_cfFmIMS---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c807ca7723bebd866a1179"},"refKey":42},
{"_key":"60c807ca7723bebd866a117b","_id":"references/60c807ca7723bebd866a117b","_rev":"_cfFmIMe---","tei":"\n\t\n\t\tThe HHpred interactive server for protein homology detection and structure prediction\n\t\t\n\t\t\tJSöding\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t33\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c807ca7723bebd866a1179"},"refKey":41},
{"_key":"60c807ca7723bebd866a117c","_id":"references/60c807ca7723bebd866a117c","_rev":"_cfFmIMq---","tei":"\n\t\n\t\tVisualizing tumor evolution with the fishplot package for R\n\t\t\n\t\t\tChristopherAMiller\n\t\t\t0000-0003-4266-6700\n\t\t\n\t\t\n\t\t\tJoshuaMcmichael\n\t\t\n\t\t\n\t\t\tHaXDang\n\t\t\n\t\t\n\t\t\tChristopherAMaher\n\t\t\n\t\t\n\t\t\tLiDing\n\t\t\n\t\t\n\t\t\tTimothyJLey\n\t\t\n\t\t\n\t\t\tElaineRMardis\n\t\t\n\t\t\n\t\t\tRichardKWilson\n\t\t\n\t\t10.1101/059055\n\t\t\n\t\n\t\n\t\tBMC genomics\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t880\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c807ca7723bebd866a1179"},"refKey":28},
{"_key":"60c807ca7723bebd866a117d","_id":"references/60c807ca7723bebd866a117d","_rev":"_cfFmIM2---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c807ca7723bebd866a1179"},"refKey":24},
{"_key":"60c807ca7723bebd866a117e","_id":"references/60c807ca7723bebd866a117e","_rev":"_cfFmINC---","tei":"\n\t\n\t\tBCFtools/RoH: a hidden Markov model approach for detecting autozygosity from next-generation sequencing data\n\t\t\n\t\t\tVNarasimhan\n\t\t\n\t\t\n\t\t\tPDanecek\n\t\t\n\t\t\n\t\t\tAScally\n\t\t\n\t\t\n\t\t\tYXue\n\t\t\n\t\t\n\t\t\tCTyler-Smith\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c807ca7723bebd866a1179"},"refKey":29},
{"_key":"60c807ca7723bebd866a117f","_id":"references/60c807ca7723bebd866a117f","_rev":"_cfFmINO---","tei":"\n\t\n\t\tA framework for variation discovery and genotyping using next-generation DNA sequencing data\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tRPoplin\n\t\t\n\t\t\n\t\t\tKVGarimella\n\t\t\n\t\t\n\t\t\tJRMaguire\n\t\t\n\t\t\n\t\t\tCHartl\n\t\t\n\t\t\n\t\t\tAAPhilippakis\n\t\t\n\t\t\n\t\t\tGAngel\n\t\t\n\t\t\n\t\t\tMARivas\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\n\t\n\t\tNature genetics\n\t\t\n\t\t\t43\n\t\t\t5\n\t\t\t491\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c807ca7723bebd866a1179"},"refKey":7},
{"_key":"60c807ca7723bebd866a1180","_id":"references/60c807ca7723bebd866a1180","_rev":"_cfFmINa---","tei":"\n\t\n\t\tA new framework and software to estimate time-varying reproduction numbers during epidemics\n\t\t\n\t\t\tACori\n\t\t\n\t\t\n\t\t\tNMFerguson\n\t\t\n\t\t\n\t\t\tCFraser\n\t\t\n\t\t\n\t\t\tSCauchemez\n\t\t\n\t\n\t\n\t\tAmerican journal of epidemiology\n\t\t\n\t\t\t178\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c807ca7723bebd866a1179"},"refKey":4},
{"_key":"60c807ca7723bebd866a1181","_id":"references/60c807ca7723bebd866a1181","_rev":"_cfFmINm---","tei":"\n\t\n\t\tImproved inference of time-varying reproduction numbers during infectious disease outbreaks\n\t\t\n\t\t\tRNThompson\n\t\t\n\t\t\n\t\t\tJEStockwin\n\t\t\n\t\t\n\t\t\tRDVan Gaalen\n\t\t\n\t\t\n\t\t\tJAPolonsky\n\t\t\n\t\t\n\t\t\tZNKamvar\n\t\t\n\t\t\n\t\t\tPADemarsh\n\t\t\n\t\t\n\t\t\tEDahlqwist\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tEMiguel\n\t\t\n\t\t\n\t\t\tTJombart\n\t\t\n\t\t\n\t\t\tJLessler\n\t\t\n\t\t\n\t\t\tSCauchemez\n\t\t\n\t\t\n\t\t\tACori\n\t\t\n\t\t10.1016/j.epidem.2019.100356\n\t\n\t\n\t\tEpidemics\n\t\tEpidemics\n\t\t1755-4365\n\t\t\n\t\t\t29\n\t\t\t100356\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c807ca7723bebd866a1179"},"refKey":44},
{"_key":"60c807f87723bebd866a11a6","_id":"references/60c807f87723bebd866a11a6","_rev":"_cfFmINy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRPackage\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c807f87723bebd866a11a5"},"refKey":12},
{"_key":"60c808337723bebd866a11b4","_id":"references/60c808337723bebd866a11b4","_rev":"_cfFmIO----","tei":"\n\t\n\t\tA Brazilian perspective of power systems integration using OSeMOSYS SAMBA – South America Model Base – and the bargaining power of neighbouring countries: A cooperative games approach\n\t\t\n\t\t\tGustavoNikolaus PintoDe Moura\n\t\t\n\t\t\n\t\t\tLuizFernando LoureiroLegey\n\t\t\n\t\t\n\t\t\tMarkHowells\n\t\t\n\t\t10.1016/j.enpol.2018.01.045\n\t\t\n\t\n\t\n\t\tEnergy Policy\n\t\tEnergy Policy\n\t\t0301-4215\n\t\t\n\t\t\t115\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c808337723bebd866a11b3"},"refKey":37},
{"_key":"60c808337723bebd866a11b5","_id":"references/60c808337723bebd866a11b5","_rev":"_cfFmIOK---","tei":"\n\t\n\t\tOSeMOSYS: the open source energy modeling system: an introduction to its ethos, structure and development\n\t\t\n\t\t\tMHowells\n\t\t\n\t\t10.1016/j.enpol.2011.06.033\n\t\t\n\t\n\t\n\t\tEnergy Policy\n\t\t\n\t\t\t39\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c808337723bebd866a11b3"},"refKey":44},
{"_key":"60c808337723bebd866a11b6","_id":"references/60c808337723bebd866a11b6","_rev":"_cfFmIOW---","tei":"\n\t\n\t\tFrom the development of an open-source energy modelling tool to its application and the creation of communities of practice: The example of OSeMOSYS\n\t\t\n\t\t\tFrancescoGardumi\n\t\t\t0000-0001-8371-9325\n\t\t\n\t\t\n\t\t\tAbhishekShivakumar\n\t\t\n\t\t\n\t\t\tRobbieMorrison\n\t\t\n\t\t\n\t\t\tConstantinosTaliotis\n\t\t\t0000-0003-4022-5506\n\t\t\n\t\t\n\t\t\tOliverBroad\n\t\t\t0000-0002-6179-927X\n\t\t\n\t\t\n\t\t\tAgneseBeltramo\n\t\t\n\t\t\n\t\t\tVigneshSridharan\n\t\t\n\t\t\n\t\t\tMarkHowells\n\t\t\n\t\t\n\t\t\tJonasHörsch\n\t\t\n\t\t\n\t\t\tTacoNiet\n\t\t\t0000-0003-0266-2705\n\t\t\n\t\t\n\t\t\tYoussefAlmulla\n\t\t\n\t\t\n\t\t\tEuniceRamos\n\t\t\n\t\t\n\t\t\tThorstenBurandt\n\t\t\n\t\t\n\t\t\tGabrielaPeñaBalderrama\n\t\t\n\t\t\n\t\t\tGustavoNikolausPinto De Moura\n\t\t\n\t\t\n\t\t\tEduardoZepeda\n\t\t\n\t\t\n\t\t\tThomasAlfstad\n\t\t\n\t\t10.1016/j.esr.2018.03.005\n\t\t\n\t\t\n\t\n\t\n\t\tEnergy Strategy Reviews\n\t\tEnergy Strategy Reviews\n\t\t2211-467X\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c808337723bebd866a11b3"},"refKey":45},
{"_key":"60c8083a7723bebd866a11ca","_id":"references/60c8083a7723bebd866a11ca","_rev":"_cfFmIOi---","tei":"\n\t\n\t\tEvaluation of negation phrases in narrative clinical reports\n\t\t\n\t\t\tWWChapman\n\t\t\n\t\t\n\t\t\tWBridewell\n\t\t\n\t\t\n\t\t\tPHanbury\n\t\t\n\t\t\n\t\t\tGFCooper\n\t\t\n\t\t\n\t\t\tBGBuchanan\n\t\t\n\t\n\t\n\t\tProc AMIA Symp\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8083a7723bebd866a11c9"},"refKey":36},
{"_key":"60c8083a7723bebd866a11cb","_id":"references/60c8083a7723bebd866a11cb","_rev":"_cfFmIOu---","tei":"\n\t\n\t\tA Simple Algorithm for Identifying Negated Findings and Diseases in Discharge Summaries\n\t\t\n\t\t\tWendyWChapman\n\t\t\n\t\t\n\t\t\tWillBridewell\n\t\t\n\t\t\n\t\t\tPaulHanbury\n\t\t\n\t\t\n\t\t\tGregoryFCooper\n\t\t\n\t\t\n\t\t\tBruceGBuchanan\n\t\t\n\t\t10.1006/jbin.2001.1029\n\t\t12123149\n\t\tS1532-0464(01)91029-9\n\t\tark:/67375/6H6-564HDN89-B\n\t\t47F6755691493B69A646938E2AD795DB62C4D0F4\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t34\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8083a7723bebd866a11c9"},"refKey":37},
{"_key":"60c8088a7723bebd866a11e9","_id":"references/60c8088a7723bebd866a11e9","_rev":"_cfFmIO6---","tei":"\n\t\n\t\tResumption of endodontic practices in COVID-19 hardest-hit area of China: a web-based survey\n\t\t\n\t\t\tJYu\n\t\t\n\t\t\n\t\t\tFHua\n\t\t\n\t\t\n\t\t\tYShen\n\t\t\n\t\n\t\n\t\tJ Endod\n\t\t\n\t\t\t46\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8088a7723bebd866a11e8"},"refKey":10},
{"_key":"60c808bb7723bebd866a123c","_id":"references/60c808bb7723bebd866a123c","_rev":"_cfFmIPG---","tei":"\n\t\n\t\tQ-SiteFinder: an energy-based method for the prediction of protein-ligand binding sites\n\t\t\n\t\t\tAT RLaurie\n\t\t\n\t\t\n\t\t\tRMJackson\n\t\t\n\t\t10.1093/bioinformatics/bti315\n\t\t15701681\n\t\tark:/67375/HXZ-9GCKNQ77-C\n\t\t283D0CEEBF0B08971001D5FD48B4CE9B98707F4A\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c808bb7723bebd866a123b"},"refKey":9},
{"_key":"60c808e57723bebd866a1264","_id":"references/60c808e57723bebd866a1264","_rev":"_cfFmIPS---","tei":"\n\t\n\t\tHow perfect is the Himalayan arc?\n\t\t\n\t\t\tRBendick\n\t\t\n\t\t\n\t\t\tRBilham\n\t\t\n\t\t10.1130/0091-7613(2001)029<0791:hpitha>2.0.co;2\n\t\t\n\t\n\t\n\t\tGeology\n\t\tGeol\n\t\t0091-7613\n\t\t\n\t\t\t29\n\t\t\t9\n\t\t\t791\n\t\t\t\n\t\t\tGeological Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c808e57723bebd866a1263"},"refKey":18},
{"_key":"60c808e57723bebd866a1265","_id":"references/60c808e57723bebd866a1265","_rev":"_cfFmIPe---","tei":"\n\t\n\t\tGeneric Mapping Tools: Improved Version Released\n\t\t\n\t\t\tPaulWessel\n\t\t\n\t\t\n\t\t\tWalterH FSmith\n\t\t\n\t\t\n\t\t\tRemkoScharroo\n\t\t\n\t\t\n\t\t\tJoaquimLuis\n\t\t\n\t\t\n\t\t\tFlorianWobbe\n\t\t\n\t\t10.1002/2013eo450001\n\t\t\n\t\t\n\t\n\t\n\t\tEos, Transactions American Geophysical Union\n\t\tEos Trans. AGU\n\t\t0096-3941\n\t\t\n\t\t\t94\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\tAmerican Geophysical Union (AGU)\n\t\t\n\t\n\n","document":{"$oid":"60c808e57723bebd866a1263"},"refKey":46},
{"_key":"60c808f07723bebd866a1278","_id":"references/60c808f07723bebd866a1278","_rev":"_cfFmIPq---","tei":"\n\t\n\t\tAccurate detection of complex structural variations using single molecule sequencing\n\t\t\n\t\t\tFritzJSedlazeck\n\t\t\t0000-0001-6040-2691\n\t\t\n\t\t\n\t\t\tPhilippRescheneder\n\t\t\n\t\t\n\t\t\tMoritzSmolka\n\t\t\n\t\t\n\t\t\tHanFang\n\t\t\n\t\t\n\t\t\tMariaNattestad\n\t\t\n\t\t\n\t\t\tArndtVonHaeseler\n\t\t\n\t\t\n\t\t\tMichaelCSchatz\n\t\t\n\t\t10.1101/169557\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t15\n\t\t\t461\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c808f07723bebd866a1277"},"refKey":32},
{"_key":"60c808f07723bebd866a1279","_id":"references/60c808f07723bebd866a1279","_rev":"_cfFmIP2---","tei":"\n\t\n\t\tSVIM: structural variant identification using mapped long reads\n\t\t\n\t\t\tDavidHeller\n\t\t\t0000-0001-8346-9565\n\t\t\n\t\t\n\t\t\tMartinVingron\n\t\t\n\t\t10.1093/bioinformatics/btz041\n\t\t30668829\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c808f07723bebd866a1277"},"refKey":33},
{"_key":"60c808f07723bebd866a127a","_id":"references/60c808f07723bebd866a127a","_rev":"_cfFmIQC---","tei":"\n\t\n\t\tMinimap2: pairwise alignment for nucleotide sequences\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c808f07723bebd866a1277"},"refKey":36},
{"_key":"60c808f07723bebd866a127b","_id":"references/60c808f07723bebd866a127b","_rev":"_cfFmIQO---","tei":"\n\t\n\t\tVISOR: a versatile haplotype-aware structural variant simulator for short-and long-read sequencing\n\t\t\n\t\t\tDBolognini\n\t\t\n\t\t\n\t\t\tASanders\n\t\t\n\t\t\n\t\t\tJOKorbel\n\t\t\n\t\t\n\t\t\tAMagi\n\t\t\n\t\t\n\t\t\tVBenes\n\t\t\n\t\t\n\t\t\tTRausch\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c808f07723bebd866a1277"},"refKey":41},
{"_key":"60c808f07723bebd866a127c","_id":"references/60c808f07723bebd866a127c","_rev":"_cfFmIQa---","tei":"\n\t\n\t\trMETL: sensitive mobile element insertion detection with long read realignment\n\t\t\n\t\t\tTaoJiang\n\t\t\n\t\t\n\t\t\tBoLiu\n\t\t\n\t\t\n\t\t\tJunyiLi\n\t\t\n\t\t\n\t\t\tYadongWang\n\t\t\n\t\t10.1093/bioinformatics/btz106\n\t\t30759188\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c808f07723bebd866a1277"},"refKey":37},
{"_key":"60c808f07723bebd866a127d","_id":"references/60c808f07723bebd866a127d","_rev":"_cfFmIQm---","tei":"\n\t\n\t\tLong-Read Based Novel Sequence Insertion Detection With rCANID\n\t\t\n\t\t\tTaoJiang\n\t\t\t0000-0002-0673-8503\n\t\t\n\t\t\n\t\t\tYileiFu\n\t\t\n\t\t\n\t\t\tBoLiu\n\t\t\n\t\t\n\t\t\tYadongWang\n\t\t\n\t\t10.1109/tnb.2019.2908438\n\t\n\t\n\t\tIEEE Transactions on NanoBioscience\n\t\tIEEE Trans.on Nanobioscience\n\t\t1536-1241\n\t\t1558-2639\n\t\t\n\t\t\t18\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c808f07723bebd866a1277"},"refKey":38},
{"_key":"60c808f07723bebd866a127e","_id":"references/60c808f07723bebd866a127e","_rev":"_cfFmIQy---","tei":"\n\t\n\t\tnpInv: accurate detection and genotyping of inversions mediated by non-allelic homologous recombination using long read sub-alignment\n\t\t\n\t\t\tHaojingShao\n\t\t\t0000-0002-8806-197X\n\t\t\n\t\t\n\t\t\tDevikaGanesamoorthy\n\t\t\t0000-0001-8149-6703\n\t\t\n\t\t\n\t\t\tTaniaDuarte\n\t\t\t0000-0002-3485-742X\n\t\t\n\t\t\n\t\t\tMinhDucCao\n\t\t\t0000-0003-4079-2383\n\t\t\n\t\t\n\t\t\tCliveHoggart\n\t\t\t0000-0002-6875-6993\n\t\t\n\t\t\n\t\t\tLachlanJ MCoin\n\t\t\t0000-0002-4300-455X\n\t\t\n\t\t10.1101/178103\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t19\n\t\t\t261\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c808f07723bebd866a1277"},"refKey":39},
{"_key":"60c808f27723bebd866a12dc","_id":"references/60c808f27723bebd866a12dc","_rev":"_cfFmIR----","tei":"\n\t\n\t\tAn introduction to agent-based modeling: modeling natural, social, and engineered complex systems with NetLogo\n\t\t\n\t\t\tUWilensky\n\t\t\n\t\t\n\t\t\tWRand\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe MIT Press\n\t\t\tCambridge, Massachusetts\n\t\t\n\t\n\n","document":{"$oid":"60c808f27723bebd866a12db"},"refKey":57},
{"_key":"60c809117723bebd866a12f3","_id":"references/60c809117723bebd866a12f3","_rev":"_cfFmIRK---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c809117723bebd866a12f2"},"refKey":42},
{"_key":"60c809a57723bebd866a1355","_id":"references/60c809a57723bebd866a1355","_rev":"_cfFmIRW---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c809a57723bebd866a1354"},"refKey":28},
{"_key":"60c809c77723bebd866a136a","_id":"references/60c809c77723bebd866a136a","_rev":"_cfFmIRe---","tei":"\n\t\n\t\tA Description of the Molecular Signatures Database (MSigDB) Web Site\n\t\t\n\t\t\tArthurLiberzon\n\t\t\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tRPinchback\n\t\t\n\t\t\n\t\t\tHThorvaldsdottir\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1007/978-1-4939-0512-6_9\n\t\t24743996\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t27\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c809c77723bebd866a1369"},"refKey":21},
{"_key":"60c809e57723bebd866a1390","_id":"references/60c809e57723bebd866a1390","_rev":"_cfFmIRq---","tei":"\n\t\n\t\tAtomic Property Fields: Generalized 3D Pharmacophoric Potential for Automated Ligand Superposition, Pharmacophore Elucidation and 3D QSAR\n\t\t\n\t\t\tMaximTotrov\n\t\t\n\t\t10.1111/j.1747-0285.2007.00605.x\n\t\t18069986\n\t\tark:/67375/WNG-5RQSB165-T\n\t\t167AA50F3728635595BCDDDCD03097C01306B655\n\t\n\t\n\t\tChemical Biology & Drug Design\n\t\t1747-0277\n\t\t1747-0285\n\t\t\n\t\t\t71\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c809e57723bebd866a138f"},"refKey":5},
{"_key":"60c809f07723bebd866a1398","_id":"references/60c809f07723bebd866a1398","_rev":"_cfFmIR2---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing; R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\t10\n\t\t\n\t\n\n","document":{"$oid":"60c809f07723bebd866a1397"},"refKey":6},
{"_key":"60c809f17723bebd866a139a","_id":"references/60c809f17723bebd866a139a","_rev":"_cfFmISC---","tei":"\n\t\n\t\tComparison of composer and ORCHESTRAR\n\t\t\n\t\t\tMichaelADolan\n\t\t\n\t\t\n\t\t\tMatthiasKeil\n\t\t\n\t\t\n\t\t\tDavidSBaker\n\t\t\n\t\t10.1002/prot.22022\n\t\t18361454\n\t\tark:/67375/WNG-5C34P2C0-X\n\t\t292DB3F5CD04B8C75B5733274B5C1EA2E86E4991\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t72\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c809f17723bebd866a1399"},"refKey":16},
{"_key":"60c809f17723bebd866a139b","_id":"references/60c809f17723bebd866a139b","_rev":"_cfFmISO---","tei":"\n\t\n\t\tI-TASSER: a unified platform for automated protein structure and function prediction\n\t\t\n\t\t\tAmbrishRoy\n\t\t\n\t\t\n\t\t\tAlperKucukural\n\t\t\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1038/nprot.2010.5\n\t\t20360767\n\t\tPMC2849174\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t5\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tAMBER website\n\n","document":{"$oid":"60c809f17723bebd866a1399"},"refKey":18},
{"_key":"60c809f17723bebd866a139c","_id":"references/60c809f17723bebd866a139c","_rev":"_cfFmISa---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t2231712\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c809f17723bebd866a1399"},"refKey":28},
{"_key":"60c809f17723bebd866a139d","_id":"references/60c809f17723bebd866a139d","_rev":"_cfFmISm---","tei":"\n\t\n\t\tSYBYL Molecular Modeling Software version 7.3, Tripos Associates\n\t\t\t\tSt. Louis, MO\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c809f17723bebd866a1399"},"refKey":17},
{"_key":"60c809f17723bebd866a139e","_id":"references/60c809f17723bebd866a139e","_rev":"_cfFmISy---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ Appl Crystal\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c809f17723bebd866a1399"},"refKey":19},
{"_key":"60c809f17723bebd866a139f","_id":"references/60c809f17723bebd866a139f","_rev":"_cfFmIT----","tei":"\n\t\n\t\tVERIFY3D: assessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\t\n\t\t\tRLüthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\t9379925\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t277\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c809f17723bebd866a1399"},"refKey":20},
{"_key":"60c809f17723bebd866a13a0","_id":"references/60c809f17723bebd866a13a0","_rev":"_cfFmITG---","tei":"\n\t\n\t\tVerification of protein structures: patterns of nonbonded atomic interactions\n\t\t\n\t\t\tCColovos\n\t\t\n\t\t\n\t\t\tTOYeates\n\t\t\n\t\t8401235\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c809f17723bebd866a1399"},"refKey":21},
{"_key":"60c80a5b7723bebd866a1413","_id":"references/60c80a5b7723bebd866a1413","_rev":"_cfFmITS---","tei":"\n\t\n\t\tCVTree: a phylogenetic tree reconstruction tool based on whole genomes\n\t\t\n\t\t\tJQi\n\t\t\n\t\t\n\t\t\tHLuo\n\t\t\n\t\t\n\t\t\tBHao\n\t\t\n\t\t10.1093/nar/gkh362\n\t\t15215347\n\t\tPMC441500\n\t\tark:/67375/HXZ-X94RWS75-4\n\t\t4D765048AF70DC98F864C95DE3A324754917ED70\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c80a5b7723bebd866a1412"},"refKey":1},
{"_key":"60c80a5b7723bebd866a1414","_id":"references/60c80a5b7723bebd866a1414","_rev":"_cfFmITe---","tei":"\n\t\n\t\tCVTree update: a newly designed phylogenetic study platform using composition vectors and whole genomes\n\t\t\n\t\t\tZXu\n\t\t\n\t\t\n\t\t\tBHao\n\t\t\n\t\t10.1093/nar/gkp278\n\t\t19398429\n\t\tPMC2703908\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c80a5b7723bebd866a1412"},"refKey":2},
{"_key":"60c80a5e7723bebd866a1418","_id":"references/60c80a5e7723bebd866a1418","_rev":"_cfFmITq---","tei":"\n\t\n\t\tMolecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tMega6\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80a5e7723bebd866a1417"},"refKey":20},
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{"_key":"60c80ae17723bebd866a14db","_id":"references/60c80ae17723bebd866a14db","_rev":"_cfFmIX----","tei":"\n\t\n\t\tAFNI: Software for Analysis and Visualization of Functional Magnetic Resonance Neuroimages\n\t\t\n\t\t\tRobertWCox\n\t\t\n\t\t10.1006/cbmr.1996.0014\n\t\t8812068\n\t\tS0010-4809(96)90014-2\n\t\tark:/67375/6H6-DS3GVC54-C\n\t\t2DFD98AEE19FD0C651D7EFF823BF647ED751D98D\n\t\t\n\t\n\t\n\t\tComputers and Biomedical Research\n\t\tComputers and Biomedical Research\n\t\t0010-4809\n\t\t\n\t\t\t29\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c80ae17723bebd866a14da"},"refKey":11},
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{"_key":"60c80b4d7723bebd866a1516","_id":"references/60c80b4d7723bebd866a1516","_rev":"_cfFmIX2---","tei":"\n\t\n\t\tBuilding better guidelines with BRIDGE-Wiz: development and evaluation of a software assistant to promote clarity, transparency, and implementability\n\t\t\n\t\t\tRichardNShiffman\n\t\t\n\t\t\n\t\t\tGeorgeMichel\n\t\t\n\t\t\n\t\t\tRichardMRosenfeld\n\t\t\n\t\t\n\t\t\tCarynDavidson\n\t\t\n\t\t10.1136/amiajnl-2011-000172\n\t\t21846779\n\t\tPMC3240753\n\t\t\n\t\n\t\n\t\tJournal of the American Medical Informatics Association\n\t\tJ Am Med Inform Assoc\n\t\t1067-5027\n\t\t1527-974X\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c80b4d7723bebd866a1515"},"refKey":6},
{"_key":"60c80b587723bebd866a1528","_id":"references/60c80b587723bebd866a1528","_rev":"_cfFmIYC---","tei":"\n\t\n\t\tConducting Meta-Analyses inRwith themetaforPackage\n\t\t\n\t\t\tWolfgangViechtbauer\n\t\t\n\t\t10.18637/jss.v036.i03\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t36\n\t\t\t3\n\t\t\t48\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c80b587723bebd866a1527"},"refKey":63},
{"_key":"60c80b767723bebd866a1535","_id":"references/60c80b767723bebd866a1535","_rev":"_cfFmIYO---","tei":"\n\t\n\t\tSCENIC: single-cell regulatory network inference and clustering\n\t\t\n\t\t\tSaraAibar\n\t\t\t0000-0001-6104-7134\n\t\t\n\t\t\n\t\t\tCarmenBravoGonzález-Blas\n\t\t\t0000-0003-0973-9410\n\t\t\n\t\t\n\t\t\tThomasMoerman\n\t\t\t0000-0003-2445-1001\n\t\t\n\t\t\n\t\t\tVânAnhHuynh-Thu\n\t\t\n\t\t\n\t\t\tHanaImrichova\n\t\t\t0000-0003-0385-1823\n\t\t\n\t\t\n\t\t\tGertHulselmans\n\t\t\t0000-0003-2205-1899\n\t\t\n\t\t\n\t\t\tFlorianRambow\n\t\t\n\t\t\n\t\t\tJean-ChristopheMarine\n\t\t\n\t\t\n\t\t\tPierreGeurts\n\t\t\n\t\t\n\t\t\tJanAerts\n\t\t\t0000-0002-6416-2717\n\t\t\n\t\t\n\t\t\tJoostVan Den Oord\n\t\t\n\t\t\n\t\t\tZeynepKalenderAtak\n\t\t\t0000-0003-4761-8169\n\t\t\n\t\t\n\t\t\tJasperWouters\n\t\t\t0000-0002-7129-2990\n\t\t\n\t\t\n\t\t\tSteinAerts\n\t\t\t0000-0002-8006-0315\n\t\t\n\t\t10.1038/nmeth.4463\n\t\t28991892\n\t\tPMC5937676\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Meth\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c80b767723bebd866a1534"},"refKey":1},
{"_key":"60c80b767723bebd866a1536","_id":"references/60c80b767723bebd866a1536","_rev":"_cfFmIYa---","tei":"\n\t\n\t\tA scalable SCENIC workflow for single-cell gene regulatory network analysis', Nature Protocols\n\t\t\n\t\t\tBVan De Sande\n\t\t\n\t\t10.1038/s41596-020-0336-2\n\t\n\t\n\t\tNature Research\n\t\t\n\t\t\t15\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80b767723bebd866a1534"},"refKey":112},
{"_key":"60c80b767723bebd866a1537","_id":"references/60c80b767723bebd866a1537","_rev":"_cfFmIYm---","tei":"\n\t\n\t\tInferring Regulatory Networks from Expression Data Using Tree-Based Methods\n\t\t\n\t\t\tVânAnhHuynh-Thu\n\t\t\n\t\t\n\t\t\tAlexandreIrrthum\n\t\t\n\t\t\n\t\t\tLouisWehenkel\n\t\t\n\t\t\n\t\t\tPierreGeurts\n\t\t\n\t\t10.1371/journal.pone.0012776\n\t\t20927193\n\t\tPMC2946910\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t5\n\t\t\t9\n\t\t\te12776\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c80b767723bebd866a1534"},"refKey":60},
{"_key":"60c80b787723bebd866a155e","_id":"references/60c80b787723bebd866a155e","_rev":"_cfFmIYy---","tei":"\n\t\n\t\tAutomated electron microscope tomography using robust prediction of specimen movements\n\t\t\n\t\t\tDNMastronarde\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t152\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80b787723bebd866a155d"},"refKey":23},
{"_key":"60c80b787723bebd866a155f","_id":"references/60c80b787723bebd866a155f","_rev":"_cfFmIZ----","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80b787723bebd866a155d"},"refKey":12},
{"_key":"60c80b787723bebd866a1560","_id":"references/60c80b787723bebd866a1560","_rev":"_cfFmIZK---","tei":"\n\t\n\t\tTowards automated crystallographic structure refinement with phenix.refine\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tMMustyakimov\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tAUrzhumtsev\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t\n\t\t\tAdams\n\t\t\n\t\t\n\t\t\tPD\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80b787723bebd866a155d"},"refKey":0},
{"_key":"60c80b787723bebd866a1561","_id":"references/60c80b787723bebd866a1561","_rev":"_cfFmIZS---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80b787723bebd866a155d"},"refKey":27},
{"_key":"60c80ba57723bebd866a1586","_id":"references/60c80ba57723bebd866a1586","_rev":"_cfFmIZe---","tei":"\n\t\n\t\tRAPSearch2: a fast and memory-efficient protein similarity search tool for next-generation sequencing data\n\t\t\n\t\t\tYZhao\n\t\t\n\t\t\n\t\t\tHTang\n\t\t\n\t\t\n\t\t\tYYe\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80ba57723bebd866a1585"},"refKey":23},
{"_key":"60c80ba57723bebd866a1587","_id":"references/60c80ba57723bebd866a1587","_rev":"_cfFmIZq---","tei":"\n\t\n\t\tDevelopment of a virus detection and discovery pipeline using next generation sequencing\n\t\t\n\t\t\tThienHo\n\t\t\n\t\t\n\t\t\tIoannisETzanetakis\n\t\t\n\t\t10.1016/j.virol.2014.09.019\n\t\t25461531\n\t\n\t\n\t\tVirology\n\t\tVirology\n\t\t0042-6822\n\t\t\n\t\t\t471-473\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c80ba57723bebd866a1585"},"refKey":14},
{"_key":"60c80ba57723bebd866a1588","_id":"references/60c80ba57723bebd866a1588","_rev":"_cfFmIZ2---","tei":"\n\t\n\t\tVirusFinder: Software for Efficient and Accurate Detection of Viruses and Their Integration Sites in Host Genomes through Next Generation Sequencing Data\n\t\t\n\t\t\tQingguoWang\n\t\t\n\t\t\n\t\t\tPeilinJia\n\t\t\n\t\t\n\t\t\tZhongmingZhao\n\t\t\n\t\t10.1371/journal.pone.0064465\n\t\t23717618\n\t\tPMC3663743\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t5\n\t\t\te64465\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c80ba57723bebd866a1585"},"refKey":15},
{"_key":"60c80ba57723bebd866a1589","_id":"references/60c80ba57723bebd866a1589","_rev":"_cfFmIaC---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80ba57723bebd866a1585"},"refKey":22},
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{"_key":"60c80bbf7723bebd866a15c0","_id":"references/60c80bbf7723bebd866a15c0","_rev":"_cfFmIaa---","tei":"\n\t\n\t\tThe MPI Bioinformatics Toolkit for protein sequence analysis\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tCMayer\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tANLupas\n\t\t\n\t\t10.1093/nar/gkl217\n\t\t16845021\n\t\tPMC1538786\n\t\tark:/67375/HXZ-XKP4041M-V\n\t\tC17EFF5A4FCC8E30CAEB73CA14BEC6E2E754548C\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t34\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c80bbf7723bebd866a15bf"},"refKey":94},
{"_key":"60c80bbf7723bebd866a15c1","_id":"references/60c80bbf7723bebd866a15c1","_rev":"_cfFmIam---","tei":"\n\t\n\t\tT-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension\n\t\t\n\t\t\tDiTommaso\n\t\t\n\t\t\n\t\t\tPMoretti\n\t\t\n\t\t\n\t\t\tSXenarios\n\t\t\n\t\t\n\t\t\tIOrobitg\n\t\t\n\t\t\n\t\t\tMMontanyola\n\t\t\n\t\t\n\t\t\tA\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80bbf7723bebd866a15bf"},"refKey":84},
{"_key":"60c80bbf7723bebd866a15c2","_id":"references/60c80bbf7723bebd866a15c2","_rev":"_cfFmIay---","tei":"\n\t\n\t\tUsing the T-Coffee package to build multiple sequence alignments of protein, RNA, DNA sequences and 3D structures\n\t\t\n\t\t\tJean-FrancoisTaly\n\t\t\n\t\t\n\t\t\tCedrikMagis\n\t\t\n\t\t\n\t\t\tGiovanniBussotti\n\t\t\n\t\t\n\t\t\tJia-MingChang\n\t\t\n\t\t\n\t\t\tPaoloDi Tommaso\n\t\t\n\t\t\n\t\t\tIonasErb\n\t\t\n\t\t\n\t\t\tJoseEspinosa-Carrasco\n\t\t\n\t\t\n\t\t\tCarstenKemena\n\t\t\n\t\t\n\t\t\tCedricNotredame\n\t\t\n\t\t10.1038/nprot.2011.393\n\t\t21979275\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t6\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c80bbf7723bebd866a15bf"},"refKey":85},
{"_key":"60c80bbf7723bebd866a15c3","_id":"references/60c80bbf7723bebd866a15c3","_rev":"_cfFmIb----","tei":"\n\t\n\t\tTranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations\n\t\t\n\t\t\tFAbascal\n\t\t\n\t\t\n\t\t\tRZardoya\n\t\t\n\t\t\n\t\t\tMJTelford\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80bbf7723bebd866a15bf"},"refKey":88},
{"_key":"60c80bbf7723bebd866a15c4","_id":"references/60c80bbf7723bebd866a15c4","_rev":"_cfFmIbK---","tei":"\n\t\n\t\tJalview Version 2-a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDMMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80bbf7723bebd866a15bf"},"refKey":86},
{"_key":"60c80bbf7723bebd866a15c5","_id":"references/60c80bbf7723bebd866a15c5","_rev":"_cfFmIbS---","tei":"\n\t\n\t\tThe Jpred 3 secondary structure prediction server\n\t\t\n\t\t\tCCole\n\t\t\n\t\t\n\t\t\tJDBarber\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80bbf7723bebd866a15bf"},"refKey":90},
{"_key":"60c80bbf7723bebd866a15c6","_id":"references/60c80bbf7723bebd866a15c6","_rev":"_cfFmIbe---","tei":"\n\t\n\t\tSequence context-specific profiles for homology searching\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t10.1073/pnas.0810767106\n\t\t19234132\n\t\tPMC2645910\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t106\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c80bbf7723bebd866a15bf"},"refKey":96},
{"_key":"60c80bce7723bebd866a15dd","_id":"references/60c80bce7723bebd866a15dd","_rev":"_cfFmIbq---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80bce7723bebd866a15dc"},"refKey":34},
{"_key":"60c80bce7723bebd866a15de","_id":"references/60c80bce7723bebd866a15de","_rev":"_cfFmIb2---","tei":"\n\t\n\t\tImproving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t\n\t\t\tVina\n\t\t\n\t\t\n\t\t\tAutodock\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80bce7723bebd866a15dc"},"refKey":48},
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{"_key":"60c80bce7723bebd866a15e0","_id":"references/60c80bce7723bebd866a15e0","_rev":"_cfFmIcO---","tei":"\n\t\n\t\tDocking with SwissDock\n\t\t\n\t\t\tGabrielaBitencourt-Ferreira\n\t\t\n\t\t\n\t\t\tWalterFilgueiraDe Azevedo\n\t\t\n\t\t10.1007/978-1-4939-9752-7_12\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t2053\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80bce7723bebd866a15dc"},"refKey":6},
{"_key":"60c80bce7723bebd866a15e1","_id":"references/60c80bce7723bebd866a15e1","_rev":"_cfFmIca---","tei":"\n\t\n\t\tSwissDock, a protein-small molecule docking web service based on EADock DSS\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c80bce7723bebd866a15dc"},"refKey":12},
{"_key":"60c80bdb7723bebd866a1600","_id":"references/60c80bdb7723bebd866a1600","_rev":"_cfFmIcm---","tei":"\n\t\n\t\tWavenet: a generative model for raw\n\t\t\n\t\t\tAvdOord\n\t\t\n\t\t\n\t\t\tSDieleman\n\t\t\n\t\t\n\t\t\tHZen\n\t\t\n\t\t\n\t\t\tKSimonyan\n\t\t\n\t\t\n\t\t\tOVinyals\n\t\t\n\t\t\n\t\t\tAGraves\n\t\t\n\t\t\n\t\t\tKKavukcuoglu\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80bdb7723bebd866a15ff"},"refKey":5},
{"_key":"60c80bdb7723bebd866a1601","_id":"references/60c80bdb7723bebd866a1601","_rev":"_cfFmIcy---","tei":"\n\t\n\t\tAn introduction to tkinter\n\t\t\n\t\t\tFLundh\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80bdb7723bebd866a15ff"},"refKey":17},
{"_key":"60c80bf37723bebd866a163b","_id":"references/60c80bf37723bebd866a163b","_rev":"_cfFmId----","tei":"\n\t\n\t\tOn the variance of the adaptive learning rate and beyond\n\t\t\n\t\t\tLLiu\n\t\t\n\t\t\n\t\t\tHJiang\n\t\t\n\t\t\n\t\t\tPHe\n\t\t\n\t\t\n\t\t\tWChen\n\t\t\n\t\t\n\t\t\tXLiu\n\t\t\n\t\t\n\t\t\tJGao\n\t\t\n\t\t\n\t\t\tJHan\n\t\t\n\t\tarXiv:1908.03265\n\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv e-prints\n\n","document":{"$oid":"60c80bf37723bebd866a163a"},"refKey":22},
{"_key":"60c80bf37723bebd866a163c","_id":"references/60c80bf37723bebd866a163c","_rev":"_cfFmIdG---","tei":"\n\t\n\t\tNetMHCpan 4.0: Improved peptide-MHC class I interaction predictions integrating eluted ligand and peptide binding affinity data\n\t\t\n\t\t\tVanessaJurtz\n\t\t\t0000-0003-4452-6605\n\t\t\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1101/149518\n\t\t\n\t\n\t\n\t\tJ Immunol\n\t\t\n\t\t\t199\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c80bf37723bebd866a163a"},"refKey":8},
{"_key":"60c80bf67723bebd866a1647","_id":"references/60c80bf67723bebd866a1647","_rev":"_cfFmIdS---","tei":"\n\t\n\t\tEUDICO linguistic annotator (ELAN) version 1.4-manual\n\t\t\n\t\t\tBHellwig\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tLast updated\n\n","document":{"$oid":"60c80bf67723bebd866a1646"},"refKey":8},
{"_key":"60c80bfb7723bebd866a1652","_id":"references/60c80bfb7723bebd866a1652","_rev":"_cfFmIde---","tei":"\n\t\n\t\tCD-HIT: accelerated for clustering the nextgeneration sequencing data\n\t\t\n\t\t\tLFu\n\t\t\n\t\t\n\t\t\tBNiu\n\t\t\n\t\t\n\t\t\tZZhu\n\t\t\n\t\t\n\t\t\tSWu\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80bfb7723bebd866a1651"},"refKey":17},
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{"_key":"60c80c107723bebd866a1667","_id":"references/60c80c107723bebd866a1667","_rev":"_cfFmId2---","tei":"\n\t\n\t\tUsing 3dRNA for RNA 3D structure prediction and evaluation Curr\n\t\t\n\t\t\tWangJXiao\n\t\t\n\t\t\n\t\t\tY\n\t\t\n\t\n\t\n\t\tProtoc. Bioinform. 57\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80c107723bebd866a1666"},"refKey":39},
{"_key":"60c80c107723bebd866a1668","_id":"references/60c80c107723bebd866a1668","_rev":"_cfFmIeC---","tei":"\n\t\n\t\tAutomated and fast building of three-dimensional RNA structures\n\t\t\n\t\t\tYunjieZhao\n\t\t\n\t\t\n\t\t\tYangyuHuang\n\t\t\n\t\t\n\t\t\tZhouGong\n\t\t\n\t\t\n\t\t\tYanjieWang\n\t\t\n\t\t\n\t\t\tJianfenMan\n\t\t\n\t\t\n\t\t\tYiXiao\n\t\t\n\t\t10.1038/srep00734\n\t\t23071898\n\t\tPMC3471093\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\t734\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c80c107723bebd866a1666"},"refKey":40},
{"_key":"60c80c107723bebd866a1669","_id":"references/60c80c107723bebd866a1669","_rev":"_cfFmIeO---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c80c107723bebd866a1666"},"refKey":61},
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{"_key":"60c80c1b7723bebd866a1680","_id":"references/60c80c1b7723bebd866a1680","_rev":"_cfFmIf----","tei":"\n\t\n\t\tThe ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80c1b7723bebd866a167e"},"refKey":43},
{"_key":"60c80c367723bebd866a1693","_id":"references/60c80c367723bebd866a1693","_rev":"_cfFmIfK---","tei":"\n\t\n\t\tEffects of radiotherapy and short-term starvation combination on metastatic and non-tumor cell lines\n\t\t\n\t\t\tSPignatta\n\t\t\n\t\t\n\t\t\tMCortesi\n\t\t\n\t\t\n\t\t\tCArienti\n\t\t\n\t\t\n\t\t\tMZanoni\n\t\t\n\t\t\n\t\t\tCCocchi\n\t\t\n\t\t\n\t\t\tASarnelli\n\t\t\n\t\t\n\t\t\tDArpa\n\t\t\n\t\t\n\t\t\tFPiccinini\n\t\t\n\t\t\n\t\t\tATesei\n\t\t\n\t\t10.1016/j.dnarep.2020.102949\n\t\n\t\n\t\tDNA Repair\n\t\t\n\t\t\t95\n\t\t\t102949\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80c367723bebd866a1692"},"refKey":51},
{"_key":"60c80c4c7723bebd866a16af","_id":"references/60c80c4c7723bebd866a16af","_rev":"_cfFmIfW---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80c4c7723bebd866a16ae"},"refKey":10},
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{"_key":"60c80d567723bebd866a17cf","_id":"references/60c80d567723bebd866a17cf","_rev":"_cfFmIiO---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80d567723bebd866a17ce"},"refKey":18},
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{"_key":"60c80fa87723bebd866a19b9","_id":"references/60c80fa87723bebd866a19b9","_rev":"_cfFmIpS---","tei":"\n\t\n\t\tMEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c80fa87723bebd866a19b7"},"refKey":22},
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{"_key":"60c80fa87723bebd866a19bb","_id":"references/60c80fa87723bebd866a19bb","_rev":"_cfFmIpq---","tei":"\n\t\n\t\tImproved Coreceptor Usage Prediction and Genotypic Monitoring of R5-to-X4 Transition by Motif Analysis of Human Immunodeficiency Virus Type 1 env V3 Loop Sequences\n\t\t\n\t\t\tM AAJensen\n\t\t\n\t\t\n\t\t\tF-SLi\n\t\t\n\t\t\n\t\t\tABVan 't Wout\n\t\t\n\t\t\n\t\t\tDCNickle\n\t\t\n\t\t\n\t\t\tDShriner\n\t\t\n\t\t\n\t\t\tH-XHe\n\t\t\n\t\t\n\t\t\tSMclaughlin\n\t\t\n\t\t\n\t\t\tRShankarappa\n\t\t\n\t\t\n\t\t\tJBMargolick\n\t\t\n\t\t\n\t\t\tJIMullins\n\t\t\n\t\t10.1128/jvi.77.24.13376-13388.2003\n\t\t14645592\n\t\tPMC296044\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJournal of Virology\n\t\t0022-538X\n\t\t\n\t\t\t77\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c80fa87723bebd866a19b7"},"refKey":18},
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{"_key":"60c810da7723bebd866a1a93","_id":"references/60c810da7723bebd866a1a93","_rev":"_cfFmIse---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c810da7723bebd866a1a91"},"refKey":70},
{"_key":"60c810ec7723bebd866a1aae","_id":"references/60c810ec7723bebd866a1aae","_rev":"_cfFmIsm---","tei":"\n\t\n\t\tThe Stan Core Library. Version 2.18.0\n\t\t\n\t\t\tStanDevelopment Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c810ec7723bebd866a1aad"},"refKey":58},
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{"_key":"60c811077723bebd866a1ac1","_id":"references/60c811077723bebd866a1ac1","_rev":"_cfFmIty---","tei":"\n\t\n\t\tMultiple sequence alignment with the Clustal series of programs\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tHSugawara\n\t\t\n\t\t\n\t\t\tTKoike\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811077723bebd866a1abe"},"refKey":25},
{"_key":"60c8116c7723bebd866a1b11","_id":"references/60c8116c7723bebd866a1b11","_rev":"_cfFmIu----","tei":"\n\t\n\t\tA new framework and software to estimate time-varying reproduction numbers during epidemics\n\t\t\n\t\t\tACori\n\t\t\n\t\t\n\t\t\tNMFerguson\n\t\t\n\t\t\n\t\t\tCFraser\n\t\t\n\t\t\n\t\t\tSCauchemez\n\t\t\n\t\n\t\n\t\tAm J Epidemiol\n\t\t\n\t\t\t178\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8116c7723bebd866a1b10"},"refKey":13},
{"_key":"60c8116c7723bebd866a1b12","_id":"references/60c8116c7723bebd866a1b12","_rev":"_cfFmIuK---","tei":"\n\t\n\t\tImproved inference of time-varying reproduction numbers during infectious disease outbreaks\n\t\t\n\t\t\tRNThompson\n\t\t\n\t\t\n\t\t\tJEStockwin\n\t\t\n\t\t\n\t\t\tRDVan Gaalen\n\t\t\n\t\t\n\t\t\tJAPolonsky\n\t\t\n\t\t\n\t\t\tZNKamvar\n\t\t\n\t\t\n\t\t\tPADemarsh\n\t\t\n\t\t\n\t\t\tEDahlqwist\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tEMiguel\n\t\t\n\t\t\n\t\t\tTJombart\n\t\t\n\t\t\n\t\t\tJLessler\n\t\t\n\t\t\n\t\t\tSCauchemez\n\t\t\n\t\t\n\t\t\tACori\n\t\t\n\t\t10.1016/j.epidem.2019.100356\n\t\n\t\n\t\tEpidemics\n\t\tEpidemics\n\t\t1755-4365\n\t\t\n\t\t\t29\n\t\t\t100356\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8116c7723bebd866a1b10"},"refKey":14},
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{"_key":"60c8119a7723bebd866a1b3b","_id":"references/60c8119a7723bebd866a1b3b","_rev":"_cfFmIuu---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c8119a7723bebd866a1b3a"},"refKey":51},
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{"_key":"60c811a77723bebd866a1b51","_id":"references/60c811a77723bebd866a1b51","_rev":"_cfFmIvW---","tei":"\n\t\n\t\tGoogle Earth Engine Applications Since Inception: Usage, Trends, and Potential\n\t\t\n\t\t\tLalitKumar\n\t\t\n\t\t\n\t\t\tOnisimoMutanga\n\t\t\t0000-0002-7358-8111\n\t\t\n\t\t10.3390/rs10101509\n\t\t\n\t\n\t\n\t\tRemote Sensing\n\t\tRemote Sensing\n\t\t2072-4292\n\t\t\n\t\t\t10\n\t\t\t10\n\t\t\t1509\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c811a77723bebd866a1b50"},"refKey":0},
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{"_key":"60c811bd7723bebd866a1b60","_id":"references/60c811bd7723bebd866a1b60","_rev":"_cfFmIwC---","tei":"\n\t\n\t\tInterProScan 5: genome-scale protein function classification\n\t\t\n\t\t\tPJones\n\t\t\n\t\t\n\t\t\tDBinns\n\t\t\n\t\t\n\t\t\tHYChang\n\t\t\n\t\t\n\t\t\tMFraser\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tCMcanulla\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":70},
{"_key":"60c811bd7723bebd866a1b61","_id":"references/60c811bd7723bebd866a1b61","_rev":"_cfFmIwS---","tei":"\n\t\n\t\tPredicting subcellular localization of proteins based on their N-terminal amino acid sequence\n\t\t\n\t\t\tOEmanuelsson\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t300\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":66},
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{"_key":"60c811bd7723bebd866a1b65","_id":"references/60c811bd7723bebd866a1b65","_rev":"_cfFmIxK---","tei":"\n\t\n\t\tDifferential expression analysis of multifactor RNA-Seq experiments with respect to biological variation\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":96},
{"_key":"60c811bd7723bebd866a1b66","_id":"references/60c811bd7723bebd866a1b66","_rev":"_cfFmIxW---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":87},
{"_key":"60c811bd7723bebd866a1b67","_id":"references/60c811bd7723bebd866a1b67","_rev":"_cfFmIxm---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: Application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":67},
{"_key":"60c811bd7723bebd866a1b68","_id":"references/60c811bd7723bebd866a1b68","_rev":"_cfFmIxy---","tei":"\n\t\n\t\tVersatile and open software for comparing large genomes\n\t\t\n\t\t\tSKurtz\n\t\t\n\t\t\n\t\t\tAPhillippy\n\t\t\n\t\t\n\t\t\tALDelcher\n\t\t\n\t\t\n\t\t\tMSmoot\n\t\t\n\t\t\n\t\t\tMShumway\n\t\t\n\t\t\n\t\t\tCAntonescu\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t5\n\t\t\tR12\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":73},
{"_key":"60c811bd7723bebd866a1b69","_id":"references/60c811bd7723bebd866a1b69","_rev":"_cfFmIyC---","tei":"\n\t\n\t\tIntegration of mapped RNA-Seq reads into automatic training of eukaryotic gene finding algorithm\n\t\t\n\t\t\tALomsadze\n\t\t\n\t\t\n\t\t\tPDBurns\n\t\t\n\t\t\n\t\t\tMBorodovsky\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\te119\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":63},
{"_key":"60c811bd7723bebd866a1b6a","_id":"references/60c811bd7723bebd866a1b6a","_rev":"_cfFmIyO---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with BWA-MEM\n\t\t\n\t\t\tHLi\n\t\t\n\t\tarXiv:1303.3997\n\t\t\n\t\t\t\n\t\t\n\t\n\tPreprint. Available from\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":74},
{"_key":"60c811bd7723bebd866a1b6b","_id":"references/60c811bd7723bebd866a1b6b","_rev":"_cfFmIya---","tei":"\n\t\n\t\tA distinct and genetically diverse lineage of the hybrid fungal pathogen Verticillium longisporum population causes stem striping in British oilseed rape\n\t\t\n\t\t\tJasperR LDepotter\n\t\t\n\t\t\n\t\t\tMichaelFSeidl\n\t\t\n\t\t\n\t\t\tGrardyC MVan Den Berg\n\t\t\n\t\t\n\t\t\tBartP H JThomma\n\t\t\n\t\t\n\t\t\tThomasAWood\n\t\t\n\t\t10.1111/1462-2920.13801\n\t\t28523726\n\t\t\n\t\n\t\n\t\tEnvironmental Microbiology\n\t\tEnvironmental Microbiology\n\t\t1462-2912\n\t\t\n\t\t\t19\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":43},
{"_key":"60c811bd7723bebd866a1b6c","_id":"references/60c811bd7723bebd866a1b6c","_rev":"_cfFmIym---","tei":"\n\t\n\t\tThe Subread aligner: fast, accurate and scalable read mapping by seed-and-vote\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\t\n\t\t\tWShi\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\te108\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":92},
{"_key":"60c811bd7723bebd866a1b6d","_id":"references/60c811bd7723bebd866a1b6d","_rev":"_cfFmIyy---","tei":"\n\t\n\t\tUsing native and syntenically mapped cDNA alignments to improve de novo gene finding\n\t\t\n\t\t\tMStanke\n\t\t\n\t\t\n\t\t\tMDiekhans\n\t\t\n\t\t\n\t\t\tRBaertsch\n\t\t\n\t\t\n\t\t\tDHaussler\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":64},
{"_key":"60c811bd7723bebd866a1b6e","_id":"references/60c811bd7723bebd866a1b6e","_rev":"_cfFmIzC---","tei":"\n\t\n\t\tThe Sequence\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811bd7723bebd866a1b5d"},"refKey":75},
{"_key":"60c811db7723bebd866a1b99","_id":"references/60c811db7723bebd866a1b99","_rev":"_cfFmIzO---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\t1016/0263-7855(96)00018 -5\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c811db7723bebd866a1b98"},"refKey":8},
{"_key":"60c811f97723bebd866a1ba8","_id":"references/60c811f97723bebd866a1ba8","_rev":"_cfFmIza---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tFChollet\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c811f97723bebd866a1ba7"},"refKey":15},
{"_key":"60c812077723bebd866a1bb4","_id":"references/60c812077723bebd866a1bb4","_rev":"_cfFmIzm---","tei":"\n\t\n\t\tChemical composition and microflora of black cumin (Nigella sativa L.) seeds growing in Saudi Arabia\n\t\t\n\t\t\tMSAl-Jassir\n\t\t\n\t\t\n\t\t\tBRMiller\n\t\t\n\t\t\n\t\t\tTDMcgee\n\t\t\n\t\t\n\t\t\tJMSwails\n\t\t\n\t\t\n\t\t\tNHomeyer\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\t\n\t\t\tAERoitberg\n\t\t\n\t\t10.1016/0308-8146(92)90153-s\n\t\t0308-8146(92)90153-S\n\t\tark:/67375/6H6-CP6J16JZ-M\n\t\t9889FBDB297320D8F75A6FE6A13D7DBAB8854AC9\n\t\tdoi:10.1021/ct300418h\n\t\n\t\n\t\tFood Chemistry\n\t\tFood Chemistry\n\t\t0308-8146\n\t\t\n\t\t\t45\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tFood Chemistry\n\n","document":{"$oid":"60c812077723bebd866a1bb3"},"refKey":6},
{"_key":"60c812077723bebd866a1bb5","_id":"references/60c812077723bebd866a1bb5","_rev":"_cfFmIz2---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\tdoi:10.1016/ 0263-7855(96)00018-5\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c812077723bebd866a1bb3"},"refKey":33},
{"_key":"60c812077723bebd866a1bb6","_id":"references/60c812077723bebd866a1bb6","_rev":"_cfFmI0C---","tei":"\n\t\n\t\tPersonal Experience with Four Kinds of Chemical Structure Drawing Software: Review on ChemDraw, ChemWindow, ISIS/Draw, and ChemSketch\n\t\t\n\t\t\tZhenjiangLi\n\t\t\n\t\t\n\t\t\tHongguiWan\n\t\t\n\t\t\n\t\t\tYuhuShi\n\t\t\n\t\t\n\t\t\tPingkaiOuyang\n\t\t\n\t\t10.1021/ci049794h\n\t\t15446849\n\t\n\t\n\t\tJournal of Chemical Information and Computer Sciences\n\t\tJ. Chem. Inf. Comput. Sci.\n\t\t0095-2338\n\t\t\n\t\t\t44\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c812077723bebd866a1bb3"},"refKey":41},
{"_key":"60c812077723bebd866a1bb7","_id":"references/60c812077723bebd866a1bb7","_rev":"_cfFmI0O---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c812077723bebd866a1bb3"},"refKey":58},
{"_key":"60c8122d7723bebd866a1bdb","_id":"references/60c8122d7723bebd866a1bdb","_rev":"_cfFmI0a---","tei":"\n\t\n\t\tLavaan: An R package for structural equation modeling and more. Version 0.5-12 (BETA)\n\t\t\n\t\t\tYRosseel\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t48\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8122d7723bebd866a1bda"},"refKey":32},
{"_key":"60c8122d7723bebd866a1bdc","_id":"references/60c8122d7723bebd866a1bdc","_rev":"_cfFmI0m---","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Usinglme4\n\t\t\n\t\t\tDouglasBates\n\t\t\n\t\t\n\t\t\tMartinMächler\n\t\t\n\t\t\n\t\t\tBenBolker\n\t\t\n\t\t\n\t\t\tSteveWalker\n\t\t\n\t\t10.18637/jss.v067.i01\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c8122d7723bebd866a1bda"},"refKey":1},
{"_key":"60c812467723bebd866a1be9","_id":"references/60c812467723bebd866a1be9","_rev":"_cfFmI0y---","tei":"\n\t\n\t\tRiboVision suite for visualization and analysis of ribosomes\n\t\t\n\t\t\tChadRBernier\n\t\t\n\t\t\n\t\t\tAntonSPetrov\n\t\t\n\t\t\n\t\t\tChrisCWaterbury\n\t\t\n\t\t\n\t\t\tJamesJett\n\t\t\n\t\t\n\t\t\tFengboLi\n\t\t\n\t\t\n\t\t\tLarryEFreil\n\t\t\n\t\t\n\t\t\tXiaoXiong\n\t\t\n\t\t\n\t\t\tLanWang\n\t\t\n\t\t\n\t\t\tBlackiL RMigliozzi\n\t\t\n\t\t\n\t\t\tEliHershkovits\n\t\t\n\t\t\n\t\t\tYuzhenXue\n\t\t\n\t\t\n\t\t\tChiaolongHsiao\n\t\t\n\t\t\n\t\t\tJessicaCBowman\n\t\t\n\t\t\n\t\t\tStephenCHarvey\n\t\t\n\t\t\n\t\t\tMarthaAGrover\n\t\t\n\t\t\n\t\t\tZacharyJWartell\n\t\t\n\t\t\n\t\t\tLorenDeanWilliams\n\t\t\n\t\t10.1039/c3fd00126a\n\t\t25340471\n\t\n\t\n\t\tFaraday Discuss.\n\t\tFaraday Discuss.\n\t\t1359-6640\n\t\t1364-5498\n\t\t\n\t\t\t169\n\t\t\t\n\t\t\t\n\t\t\tRoyal Society of Chemistry (RSC)\n\t\t\n\t\n\n","document":{"$oid":"60c812467723bebd866a1be8"},"refKey":14},
{"_key":"60c812467723bebd866a1bea","_id":"references/60c812467723bebd866a1bea","_rev":"_cfFmI1----","tei":"\n\t\n\t\tExploring Non-Coding RNAs in RNAcentral\n\t\t\n\t\t\tBASweeney\n\t\t\n\t\t\n\t\t\tAATagmazian\n\t\t\n\t\t\n\t\t\tCERibas\n\t\t\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tABateman\n\t\t\n\t\t\n\t\t\tAIPetrov\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Bioinformatics\n\t\t\n\t\t\te104\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c812467723bebd866a1be8"},"refKey":49},
{"_key":"60c812467723bebd866a1beb","_id":"references/60c812467723bebd866a1beb","_rev":"_cfFmI1K---","tei":"\n\t\n\t\tTRAVeLer: a tool for template-based RNA secondary structure visualization\n\t\t\n\t\t\tRichardElias\n\t\t\n\t\t\n\t\t\tDavidHoksza\n\t\t\t0000-0003-4679-0557\n\t\t\n\t\t10.1186/s12859-017-1885-4\n\t\t29141608\n\t\tPMC5688744\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t18\n\t\t\t1\n\t\t\t487\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c812467723bebd866a1be8"},"refKey":13},
{"_key":"60c812467723bebd866a1bec","_id":"references/60c812467723bebd866a1bec","_rev":"_cfFmI1W---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tADYates\n\t\t\n\t\t\n\t\t\tPAchuthan\n\t\t\n\t\t\n\t\t\tWAkanni\n\t\t\n\t\t\n\t\t\tJAllen\n\t\t\n\t\t\n\t\t\tJAllen\n\t\t\n\t\t\n\t\t\tJAlvarez-Jarreta\n\t\t\n\t\t\n\t\t\tMRAmode\n\t\t\n\t\t\n\t\t\tIMArmean\n\t\t\n\t\t\n\t\t\tAGAzov\n\t\t\n\t\t\n\t\t\tRBennett\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c812467723bebd866a1be8"},"refKey":48},
{"_key":"60c812467723bebd866a1bed","_id":"references/60c812467723bebd866a1bed","_rev":"_cfFmI1i---","tei":"\n\t\n\t\tInfernal 1.1: 100-fold faster RNA homology searches\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c812467723bebd866a1be8"},"refKey":16},
{"_key":"60c812467723bebd866a1bee","_id":"references/60c812467723bebd866a1bee","_rev":"_cfFmI1u---","tei":"\n\t\n\t\tR2DT: computational framework for template-based RNA secondary structure visualisation across non-coding RNA types\n\t\t\n\t\t\tBASweeney\n\t\t\n\t\t\n\t\t\tDHoksza\n\t\t\n\t\t\n\t\t\tEPNawrocki\n\t\t\n\t\t\n\t\t\tCERibas\n\t\t\n\t\t\n\t\t\tFMadeira\n\t\t\n\t\t\n\t\t\tJJCannone\n\t\t\n\t\t\n\t\t\tRRGutell\n\t\t\n\t\t\n\t\t\tAMaddala\n\t\t\n\t\t\n\t\t\tCMeade\n\t\t\n\t\t\n\t\t\tLDWilliams\n\t\t\n\t\t10.1101/2020.09.10.290924\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tpreprint: not peer reviewed\n\n","document":{"$oid":"60c812467723bebd866a1be8"},"refKey":11},
{"_key":"60c812467723bebd866a1bef","_id":"references/60c812467723bebd866a1bef","_rev":"_cfFmI16---","tei":"\n\t\n\t\tThe identification and functional annotation of RNA structures conserved in vertebrates\n\t\t\n\t\t\tStefanESeemann\n\t\t\n\t\t\n\t\t\tAashiqHMirza\n\t\t\n\t\t\n\t\t\tClausHansen\n\t\t\n\t\t\n\t\t\tClausHBang-Berthelsen\n\t\t\n\t\t\n\t\t\tChristianGarde\n\t\t\n\t\t\n\t\t\tMikkelChristensen-Dalsgaard\n\t\t\n\t\t\n\t\t\tElfarTorarinsson\n\t\t\n\t\t\n\t\t\tZizhenYao\n\t\t\n\t\t\n\t\t\tChristopherTWorkman\n\t\t\n\t\t\n\t\t\tFlemmingPociot\n\t\t\n\t\t\n\t\t\tHenrikNielsen\n\t\t\n\t\t\n\t\t\tNielsTommerup\n\t\t\n\t\t\n\t\t\tWalterLRuzzo\n\t\t\n\t\t\n\t\t\tJanGorodkin\n\t\t\n\t\t10.1101/gr.208652.116\n\t\t28487280\n\t\tPMC5538553\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Res.\n\t\t1088-9051\n\t\t1549-5469\n\t\t\n\t\t\t27\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tconserved in vertebrates\n\n","document":{"$oid":"60c812467723bebd866a1be8"},"refKey":37},
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{"_key":"60c812f37723bebd866a1ccb","_id":"references/60c812f37723bebd866a1ccb","_rev":"_cfFmI4G---","tei":"\n\t\n\t\tRDP3: a flexible and fast computer program for analyzing recombination\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c812f37723bebd866a1cc9"},"refKey":34},
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{"_key":"60c813077723bebd866a1cdd","_id":"references/60c813077723bebd866a1cdd","_rev":"_cfFmI42---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\n\t\n\t\tMol. Syst. Biol\n\t\t\n\t\t\t7\n\t\t\t539\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c813077723bebd866a1cd9"},"refKey":26},
{"_key":"60c813537723bebd866a1d0a","_id":"references/60c813537723bebd866a1d0a","_rev":"_cfFmI5C---","tei":"\n\t\n\t\tPscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes\n\t\t\n\t\t\tFedericoZambelli\n\t\t\n\t\t\n\t\t\tGrazianoPesole\n\t\t\n\t\t\n\t\t\tGiulioPavesi\n\t\t\n\t\t10.1093/nar/gkp464\n\t\t19487240\n\t\tPMC2703934\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tsuppl_2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c813537723bebd866a1d09"},"refKey":82},
{"_key":"60c8135d7723bebd866a1d1c","_id":"references/60c8135d7723bebd866a1d1c","_rev":"_cfFmI5K---","tei":"\n\t\n\t\tMetaprop: a Stata command to perform meta-analysis of binomial data\n\t\t\n\t\t\tVNNyaga\n\t\t\n\t\t\n\t\t\tMArbyn\n\t\t\n\t\t\n\t\t\tMAerts\n\t\t\n\t\n\t\n\t\tArchives of Public Health\n\t\t\n\t\t\t72\n\t\t\t39\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8135d7723bebd866a1d1b"},"refKey":16},
{"_key":"60c813627723bebd866a1d26","_id":"references/60c813627723bebd866a1d26","_rev":"_cfFmI5W---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t2947\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c813627723bebd866a1d25"},"refKey":21},
{"_key":"60c813627723bebd866a1d27","_id":"references/60c813627723bebd866a1d27","_rev":"_cfFmI5i---","tei":"\n\t\n\t\tNucleic Acids in Plants\n\t\t\n\t\t\tTimothyAHall\n\t\t\n\t\t10.1201/9781351075084\n\t\n\t\n\t\tNucleic Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t95\n\t\t\t\n\t\t\tCRC Press\n\t\t\n\t\n\n","document":{"$oid":"60c813627723bebd866a1d25"},"refKey":22},
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{"_key":"60c813797723bebd866a1d50","_id":"references/60c813797723bebd866a1d50","_rev":"_cfFmI6G---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c813797723bebd866a1d4f"},"refKey":19},
{"_key":"60c8138d7723bebd866a1d66","_id":"references/60c8138d7723bebd866a1d66","_rev":"_cfFmI6S---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8138d7723bebd866a1d65"},"refKey":16},
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{"_key":"60c813a97723bebd866a1d73","_id":"references/60c813a97723bebd866a1d73","_rev":"_cfFmI7----","tei":"\n\t\n\t\tSickle: A sliding-window, adaptive, quality-based trimming tool for FastQ files\n\t\t\n\t\t\tNAJoshi\n\t\t\n\t\t\n\t\t\tJNFass\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c813a97723bebd866a1d70"},"refKey":14},
{"_key":"60c813a97723bebd866a1d74","_id":"references/60c813a97723bebd866a1d74","_rev":"_cfFmI7K---","tei":"\n\t\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\t\tOxford, England\n\t\t\n\t\t\t\n\t\t\t25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c813a97723bebd866a1d70"},"refKey":21},
{"_key":"60c813a97723bebd866a1d75","_id":"references/60c813a97723bebd866a1d75","_rev":"_cfFmI7W---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\n\t\n\t\tJournal of computational biology : a journal of computational molecular cell biology\n\t\t\n\t\t\t19\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c813a97723bebd866a1d70"},"refKey":19},
{"_key":"60c813a97723bebd866a1d76","_id":"references/60c813a97723bebd866a1d76","_rev":"_cfFmI7i---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJournal of molecular biology\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c813a97723bebd866a1d70"},"refKey":12},
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{"_key":"60c813bf7723bebd866a1d99","_id":"references/60c813bf7723bebd866a1d99","_rev":"_cfFmI76---","tei":"\n\t\n\t\tDGIdb 2.0: mining clinically relevant drug–gene interactions\n\t\t\n\t\t\tAlexHWagner\n\t\t\n\t\t\n\t\t\tAdamCCoffman\n\t\t\n\t\t\n\t\t\tBenjaminJAinscough\n\t\t\n\t\t\n\t\t\tNicholasCSpies\n\t\t\n\t\t\n\t\t\tZacharyLSkidmore\n\t\t\n\t\t\n\t\t\tKatieMCampbell\n\t\t\n\t\t\n\t\t\tKilanninKrysiak\n\t\t\n\t\t\n\t\t\tDengPan\n\t\t\n\t\t\n\t\t\tJoshuaFMcmichael\n\t\t\n\t\t\n\t\t\tJamesMEldred\n\t\t\n\t\t\n\t\t\tJasonRWalker\n\t\t\n\t\t\n\t\t\tRichardKWilson\n\t\t\n\t\t\n\t\t\tElaineRMardis\n\t\t\n\t\t\n\t\t\tMalachiGriffith\n\t\t\t0000-0002-0843-4271\n\t\t\n\t\t\n\t\t\tObiLGriffith\n\t\t\n\t\t10.1093/nar/gkv1165\n\t\t26531824\n\t\tPMC4702839\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c813bf7723bebd866a1d97"},"refKey":11},
{"_key":"60c813bf7723bebd866a1d9a","_id":"references/60c813bf7723bebd866a1d9a","_rev":"_cfFmI8C---","tei":"\n\t\n\t\tclusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tLi-GenWang\n\t\t\n\t\t\n\t\t\tYanyanHan\n\t\t\n\t\t\n\t\t\tQing-YuHe\n\t\t\n\t\t10.1089/omi.2011.0118\n\t\t22455463\n\t\tPMC3339379\n\t\t\n\t\t\n\t\n\t\n\t\tOMICS: A Journal of Integrative Biology\n\t\tOMICS: A Journal of Integrative Biology\n\t\t1536-2310\n\t\t1557-8100\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c813bf7723bebd866a1d97"},"refKey":7},
{"_key":"60c813bf7723bebd866a1d9b","_id":"references/60c813bf7723bebd866a1d9b","_rev":"_cfFmI8O---","tei":"\n\t\n\t\tTCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data\n\t\t\n\t\t\tAntonioColaprico\n\t\t\n\t\t\n\t\t\tTiagoCSilva\n\t\t\n\t\t\n\t\t\tCatharinaOlsen\n\t\t\n\t\t\n\t\t\tLucianoGarofano\n\t\t\t0000-0001-8582-0865\n\t\t\n\t\t\n\t\t\tClaudiaCava\n\t\t\n\t\t\n\t\t\tDavideGarolini\n\t\t\n\t\t\n\t\t\tThaisSSabedot\n\t\t\n\t\t\n\t\t\tTathianeMMalta\n\t\t\n\t\t\n\t\t\tStefanoMPagnotta\n\t\t\n\t\t\n\t\t\tIsabellaCastiglioni\n\t\t\n\t\t\n\t\t\tMicheleCeccarelli\n\t\t\n\t\t\n\t\t\tGianlucaBontempi\n\t\t\n\t\t\n\t\t\tHoutanNoushmehr\n\t\t\n\t\t10.1093/nar/gkv1507\n\t\t26704973\n\t\tPMC4856967\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c813bf7723bebd866a1d97"},"refKey":5},
{"_key":"60c813bf7723bebd866a1d9c","_id":"references/60c813bf7723bebd866a1d9c","_rev":"_cfFmI8a---","tei":"\n\t\n\t\tSpidermiR: An R/Bioconductor Package for Integrative Analysis with miRNA Data\n\t\t\n\t\t\tClaudiaCava\n\t\t\n\t\t\n\t\t\tAntonioColaprico\n\t\t\n\t\t\n\t\t\tGloriaBertoli\n\t\t\n\t\t\n\t\t\tAlexGraudenzi\n\t\t\n\t\t\n\t\t\tTiagoSilva\n\t\t\n\t\t\n\t\t\tCatharinaOlsen\n\t\t\n\t\t\n\t\t\tHoutanNoushmehr\n\t\t\n\t\t\n\t\t\tGianlucaBontempi\n\t\t\n\t\t\n\t\t\tGiancarloMauri\n\t\t\t0000-0003-3520-4022\n\t\t\n\t\t\n\t\t\tIsabellaCastiglioni\n\t\t\n\t\t10.3390/ijms18020274\n\t\t28134831\n\t\tPMC5343810\n\t\t\n\t\t\n\t\n\t\n\t\tInternational Journal of Molecular Sciences\n\t\tIJMS\n\t\t1422-0067\n\t\t\n\t\t\t18\n\t\t\t2\n\t\t\t274\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c813bf7723bebd866a1d97"},"refKey":10},
{"_key":"60c813d77723bebd866a1db0","_id":"references/60c813d77723bebd866a1db0","_rev":"_cfFmI8m---","tei":"\n\t\n\t\tThe ClusPro web server for protein-protein docking\n\t\t\n\t\t\tDKozakov\n\t\t\n\t\n\t\n\t\tNat. Protoc\n\t\t\n\t\t\t12\n\t\t\t255\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c813d77723bebd866a1daf"},"refKey":6},
{"_key":"60c813d77723bebd866a1db1","_id":"references/60c813d77723bebd866a1db1","_rev":"_cfFmI8y---","tei":"\n\t\n\t\tPRODIGY: a web server for predicting the binding affinity of protein-protein complexes\n\t\t\n\t\t\tLCXue\n\t\t\n\t\t\n\t\t\tJPRodrigues\n\t\t\n\t\t\n\t\t\tPLKastritis\n\t\t\n\t\t\n\t\t\tAMBonvin\n\t\t\n\t\t\n\t\t\tAVangone\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c813d77723bebd866a1daf"},"refKey":7},
{"_key":"60c813d77723bebd866a1db2","_id":"references/60c813d77723bebd866a1db2","_rev":"_cfFmI9----","tei":"\n\t\n\t\tThe HADDOCK2. 2 web server: user-friendly integrative modeling of biomolecular complexes\n\t\t\n\t\t\tGVan Zundert\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t428\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c813d77723bebd866a1daf"},"refKey":9},
{"_key":"60c813d77723bebd866a1db3","_id":"references/60c813d77723bebd866a1db3","_rev":"_cfFmI9O---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\n\t\n\t\tMol Syst Biol\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c813d77723bebd866a1daf"},"refKey":10},
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{"_key":"60c814757723bebd866a1dff","_id":"references/60c814757723bebd866a1dff","_rev":"_cfFmI96---","tei":"\n\t\n\t\tPOVME 3.0: Software for Mapping Binding Pocket Flexibility\n\t\t\n\t\t\tJRWagner\n\t\t\n\t\t\n\t\t\tJSørensen\n\t\t\n\t\t\n\t\t\tNHensley\n\t\t\n\t\t\n\t\t\tCWong\n\t\t\n\t\t\n\t\t\tCZhu\n\t\t\n\t\t\n\t\t\tTPerison\n\t\t\n\t\t\n\t\t\tREAmaro\n\t\t\n\t\n\t\n\t\tJ. Chem. Theory Comput\n\t\t\n\t\t\t13\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c814757723bebd866a1dfd"},"refKey":52},
{"_key":"60c814757723bebd866a1e00","_id":"references/60c814757723bebd866a1e00","_rev":"_cfFmJ-C---","tei":"\n\t\n\t\tAliView: a fast and lightweight alignment viewer and editor for large datasets\n\t\t\n\t\t\tALarsson\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c814757723bebd866a1dfd"},"refKey":26},
{"_key":"60c814757723bebd866a1e01","_id":"references/60c814757723bebd866a1e01","_rev":"_cfFmJ-O---","tei":"\n\t\n\t\tTesting environmental and genetic effects in the presence of spatial autocorrelation\n\t\t\n\t\t\tFRousset\n\t\t\n\t\t\n\t\t\tJBFerdy\n\t\t\n\t\n\t\n\t\tEcography\n\t\t\n\t\t\t37\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c814757723bebd866a1dfd"},"refKey":40},
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{"_key":"60c814e87723bebd866a1e58","_id":"references/60c814e87723bebd866a1e58","_rev":"_cfFmJ_W---","tei":"\n\t\n\t\tglmmTMB Balances Speed and Flexibility Among Packages for Zero-inflated Generalized Linear Mixed Modeling\n\t\t\n\t\t\tMEBrooks\n\t\t\n\t\t\n\t\t\tKKristensen\n\t\t\n\t\t\n\t\t\tBenthemKjv\n\t\t\n\t\t\n\t\t\tAMagnusson\n\t\t\n\t\t\n\t\t\tCWBerg\n\t\t\n\t\t\n\t\t\tANielsen\n\t\t\n\t\n\t\n\t\tThe R Journal\n\t\t\n\t\t\t9\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c814e87723bebd866a1e57"},"refKey":19},
{"_key":"60c814f77723bebd866a1e60","_id":"references/60c814f77723bebd866a1e60","_rev":"_cfFmJ_i---","tei":"\n\t\n\t\tNMRFAM-SPARKY: enhanced software for biomolecular NMR spectroscopy\n\t\t\n\t\t\tWoongheeLee\n\t\t\n\t\t\n\t\t\tMarcoTonelli\n\t\t\n\t\t\n\t\t\tJohnLMarkley\n\t\t\n\t\t10.1093/bioinformatics/btu830\n\t\t25505092\n\t\tPMC4393527\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c814f77723bebd866a1e5f"},"refKey":10},
{"_key":"60c815177723bebd866a1e8e","_id":"references/60c815177723bebd866a1e8e","_rev":"_cfFmJ_u---","tei":"\n\t\n\t\tAssessment of protein models with three-dimensional profiles\n\t\t\n\t\t\tRLuthy\n\t\t\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t356\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815177723bebd866a1e8d"},"refKey":29},
{"_key":"60c815177723bebd866a1e8f","_id":"references/60c815177723bebd866a1e8f","_rev":"_cfFmJ_6---","tei":"\n\t\n\t\tDictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features\n\t\t\n\t\t\tWKabsch\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\n\t\n\t\tBiopolymers\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815177723bebd866a1e8d"},"refKey":23},
{"_key":"60c815597723bebd866a1ebd","_id":"references/60c815597723bebd866a1ebd","_rev":"_cfFmJAG---","tei":"\n\t\n\t\tANNOVAR: functional annotation of genetic variants from high-throughput sequencing data\n\t\t\n\t\t\tKWang\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tHHakonarson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t16\n\t\t\te164\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815597723bebd866a1ebc"},"refKey":26},
{"_key":"60c815607723bebd866a1ec9","_id":"references/60c815607723bebd866a1ec9","_rev":"_cfFmJAS---","tei":"\n\t\n\t\trMATS: Robust and flexible detection of differential alternative splicing from replicate RNA-Seq data\n\t\t\n\t\t\tShihaoShen\n\t\t\n\t\t\n\t\t\tJuwWonPark\n\t\t\n\t\t\n\t\t\tZhi-XiangLu\n\t\t\t0000-0001-9230-2169\n\t\t\n\t\t\n\t\t\tLanLin\n\t\t\n\t\t\n\t\t\tMichaelDHenry\n\t\t\n\t\t\n\t\t\tYingNianWu\n\t\t\n\t\t\n\t\t\tQingZhou\n\t\t\n\t\t\n\t\t\tYiXing\n\t\t\n\t\t10.1073/pnas.1419161111\n\t\t25480548\n\t\tPMC4280593\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProc Natl Acad Sci USA\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t111\n\t\t\t51\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c815607723bebd866a1ec8"},"refKey":78},
{"_key":"60c815607723bebd866a1eca","_id":"references/60c815607723bebd866a1eca","_rev":"_cfFmJAe---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tTLBailey\n\t\t\n\t\t\n\t\t\tJJohnson\n\t\t\n\t\t\n\t\t\tCEGrant\n\t\t\n\t\t\n\t\t\tWSNoble\n\t\t\n\t\t\n\t\t\tThe\n\t\t\n\t\t\n\t\t\tSuite\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815607723bebd866a1ec8"},"refKey":108},
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{"_key":"60c815607723bebd866a1ecc","_id":"references/60c815607723bebd866a1ecc","_rev":"_cfFmJA2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tFCunningham\n\t\t\n\t\t\n\t\t\tMRAmode\n\t\t\n\t\t\n\t\t\tDBarrell\n\t\t\n\t\t\n\t\t\tKBeal\n\t\t\n\t\t\n\t\t\tKBillis\n\t\t\n\t\t\n\t\t\tSBrent\n\t\t\n\t\t\n\t\t\tDCarvalho-Silva\n\t\t\n\t\t\n\t\t\tPClapham\n\t\t\n\t\t\n\t\t\tGCoates\n\t\t\n\t\t\n\t\t\tSFitzgerald\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815607723bebd866a1ec8"},"refKey":107},
{"_key":"60c815607723bebd866a1ecd","_id":"references/60c815607723bebd866a1ecd","_rev":"_cfFmJBC---","tei":"\n\t\n\t\tStringTie enables improved reconstruction of a transcriptome from RNA-seq reads\n\t\t\n\t\t\tMPertea\n\t\t\n\t\t\n\t\t\tGMPertea\n\t\t\n\t\t\n\t\t\tCMAntonescu\n\t\t\n\t\t\n\t\t\tTCChang\n\t\t\n\t\t\n\t\t\tJTMendell\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815607723bebd866a1ec8"},"refKey":104},
{"_key":"60c815607723bebd866a1ece","_id":"references/60c815607723bebd866a1ece","_rev":"_cfFmJBO---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815607723bebd866a1ec8"},"refKey":102},
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{"_key":"60c815607723bebd866a1ed0","_id":"references/60c815607723bebd866a1ed0","_rev":"_cfFmJBm---","tei":"\n\t\n\t\tCytoscape 2.8: New features for data integration and network visualization\n\t\t\n\t\t\tMESmoot\n\t\t\n\t\t\n\t\t\tKOno\n\t\t\n\t\t\n\t\t\tJRuscheinski\n\t\t\n\t\t\n\t\t\tPLWang\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815607723bebd866a1ec8"},"refKey":106},
{"_key":"60c815a77723bebd866a1f15","_id":"references/60c815a77723bebd866a1f15","_rev":"_cfFmJBy---","tei":"\n\t\n\t\tPEAKS DB:De NovoSequencing Assisted Database Search for Sensitive and Accurate Peptide Identification\n\t\t\n\t\t\tJingZhang\n\t\t\n\t\t\n\t\t\tLeiXin\n\t\t\n\t\t\n\t\t\tBaozhenShan\n\t\t\n\t\t\n\t\t\tWeiwuChen\n\t\t\n\t\t\n\t\t\tMingjieXie\n\t\t\n\t\t\n\t\t\tDenisYuen\n\t\t\n\t\t\n\t\t\tWeimingZhang\n\t\t\n\t\t\n\t\t\tZefengZhang\n\t\t\n\t\t\n\t\t\tGillesALajoie\n\t\t\n\t\t\n\t\t\tBinMa\n\t\t\n\t\t10.1074/mcp.m111.010587\n\t\t22186715\n\t\tPMC3322562\n\t\tdoi: 10.1074/ mcp.M111.010587\n\t\t\n\t\n\t\n\t\tMolecular & Cellular Proteomics\n\t\tMol Cell Proteomics\n\t\t1535-9476\n\t\t1535-9484\n\t\t\n\t\t\t11\n\t\t\t4\n\t\t\tM111.010587\n\t\t\t\n\t\t\tAmerican Society for Biochemistry & Molecular Biology (ASBMB)\n\t\t\n\t\n\n","document":{"$oid":"60c815a77723bebd866a1f14"},"refKey":52},
{"_key":"60c815a77723bebd866a1f16","_id":"references/60c815a77723bebd866a1f16","_rev":"_cfFmJC----","tei":"\n\t\n\t\tA novel liposomal adjuvant system, CAF01, promotes longlived Mycobacterium tuberculosis-specific T-cell responses in human\n\t\t\n\t\t\tMTorrent\n\t\t\n\t\t\n\t\t\tPDi Tommaso\n\t\t\n\t\t\n\t\t\tDPulido\n\t\t\n\t\t\n\t\t\tMVNogués\n\t\t\n\t\t\n\t\t\tCNotredame\n\t\t\n\t\t\n\t\t\tEBoix\n\t\t\n\t\t10.1016/j.vaccine.2014.10.036\n\t\tdoi: 10.1016/j.vaccine.2014.10.036\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tVaccine\n\n","document":{"$oid":"60c815a77723bebd866a1f14"},"refKey":47},
{"_key":"60c815b47723bebd866a1f24","_id":"references/60c815b47723bebd866a1f24","_rev":"_cfFmJCK---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c815b47723bebd866a1f23"},"refKey":33},
{"_key":"60c815b47723bebd866a1f25","_id":"references/60c815b47723bebd866a1f25","_rev":"_cfFmJCW---","tei":"\n\t\n\t\tBayes factor approaches for testing interval null hypotheses.\n\t\t\n\t\t\tRichardDMorey\n\t\t\t0000-0001-9220-3179\n\t\t\n\t\t\n\t\t\tJeffreyNRouder\n\t\t\t0000-0003-2023-3891\n\t\t\n\t\t10.1037/a0024377\n\t\t21787084\n\t\t\n\t\n\t\n\t\tPsychological Methods\n\t\tPsychological Methods\n\t\t1082-989X\n\t\t1939-1463\n\t\t\n\t\t\t16\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tAmerican Psychological Association (APA)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c815b47723bebd866a1f23"},"refKey":35},
{"_key":"60c815d67723bebd866a1f34","_id":"references/60c815d67723bebd866a1f34","_rev":"_cfFmJCi---","tei":"\n\t\n\t\tWhatsHap: fast and accurate read-based phasing\n\t\t\n\t\t\tMarcelMartin\n\t\t\t0000-0002-0680-200X\n\t\t\n\t\t\n\t\t\tMurrayPatterson\n\t\t\t0000-0002-4329-0234\n\t\t\n\t\t\n\t\t\tShilpaGarg\n\t\t\n\t\t\n\t\t\tSarahO Fischer\n\t\t\n\t\t\n\t\t\tNadiaPisanti\n\t\t\t0000-0003-3915-7665\n\t\t\n\t\t\n\t\t\tGunnarWKlau\n\t\t\t0000-0002-6340-0090\n\t\t\n\t\t\n\t\t\tAlexanderSchöenhuth\n\t\t\n\t\t\n\t\t\tTobiasMarschall\n\t\t\t0000-0002-9376-1030\n\t\t\n\t\t10.1101/085050\n\t\t\n\t\n\t\n\t\tBioRxiv\n\t\t\n\t\t\t85050\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c815d67723bebd866a1f33"},"refKey":31},
{"_key":"60c815d67723bebd866a1f35","_id":"references/60c815d67723bebd866a1f35","_rev":"_cfFmJCu---","tei":"\n\t\n\t\tHapCUT2: robust and accurate haplotype assembly for diverse sequencing technologies\n\t\t\n\t\t\tPEdge\n\t\t\n\t\t\n\t\t\tVBafna\n\t\t\n\t\t\n\t\t\tVBansal\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t27\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815d67723bebd866a1f33"},"refKey":6},
{"_key":"60c815d67723bebd866a1f36","_id":"references/60c815d67723bebd866a1f36","_rev":"_cfFmJC6---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815d67723bebd866a1f33"},"refKey":24},
{"_key":"60c815d67723bebd866a1f37","_id":"references/60c815d67723bebd866a1f37","_rev":"_cfFmJDG---","tei":"\n\t\n\t\tSAMBLASTER: fast duplicate marking and structural variant read extraction\n\t\t\n\t\t\tGGFaust\n\t\t\n\t\t\n\t\t\tIMHall\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815d67723bebd866a1f33"},"refKey":9},
{"_key":"60c815d67723bebd866a1f38","_id":"references/60c815d67723bebd866a1f38","_rev":"_cfFmJDO---","tei":"\n\t\n\t\tA framework for variation discovery and genotyping using nextgeneration DNA sequencing data\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tRPoplin\n\t\t\n\t\t\n\t\t\tKVGarimella\n\t\t\n\t\t\n\t\t\tJRMaguire\n\t\t\n\t\t\n\t\t\tCHartl\n\t\t\n\t\t\n\t\t\tAAPhilippakis\n\t\t\n\t\t\n\t\t\tGDel Angel\n\t\t\n\t\t\n\t\t\tMARivas\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t43\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815d67723bebd866a1f33"},"refKey":5},
{"_key":"60c815d67723bebd866a1f39","_id":"references/60c815d67723bebd866a1f39","_rev":"_cfFmJDa---","tei":"\n\t\n\t\tSambamba: fast processing of NGS alignment formats\n\t\t\n\t\t\tATarasov\n\t\t\n\t\t\n\t\t\tAJVilella\n\t\t\n\t\t\n\t\t\tECuppen\n\t\t\n\t\t\n\t\t\tIJNijman\n\t\t\n\t\t\n\t\t\tPPrins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c815d67723bebd866a1f33"},"refKey":48},
{"_key":"60c815fb7723bebd866a1f6b","_id":"references/60c815fb7723bebd866a1f6b","_rev":"_cfFmJDm---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tJ. Biomed. Inform.. Physical Activity Guidelines for Americans. US Department of Health and Human Services\n\n","document":{"$oid":"60c815fb7723bebd866a1f6a"},"refKey":27},
{"_key":"60c816817723bebd866a1f8f","_id":"references/60c816817723bebd866a1f8f","_rev":"_cfFmJDy---","tei":"\n\t\n\t\tRnaViz 2: an improved representation of RNA secondary structure\n\t\t\n\t\t\tPDe Rijk\n\t\t\n\t\t\n\t\t\tJWuyts\n\t\t\n\t\t\n\t\t\tRDe Wachter\n\t\t\n\t\t10.1093/bioinformatics/19.2.299\n\t\t12538259\n\t\t1460-2059\n\t\tark:/67375/HXZ-MDKRF2VK-R\n\t\t905F76891F739D073AD5EEF0A5DA24CAEFCB955D\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c816817723bebd866a1f8e"},"refKey":1},
{"_key":"60c816817723bebd866a1f90","_id":"references/60c816817723bebd866a1f90","_rev":"_cfFmJE----","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c816817723bebd866a1f8e"},"refKey":35},
{"_key":"60c816947723bebd866a1fa2","_id":"references/60c816947723bebd866a1fa2","_rev":"_cfFmJEK---","tei":"\n\t\n\t\tPython: a programming language for software integration and development\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\n\t\n\t\tJ Mol Graph Model\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c816947723bebd866a1fa1"},"refKey":29},
{"_key":"60c816947723bebd866a1fa3","_id":"references/60c816947723bebd866a1fa3","_rev":"_cfFmJEW---","tei":"\n\t\n\t\tPLIP: fully automated protein–ligand interaction profiler\n\t\t\n\t\t\tSebastianSalentin\n\t\t\n\t\t\n\t\t\tSvenSchreiber\n\t\t\n\t\t\n\t\t\tVJoachimHaupt\n\t\t\n\t\t\n\t\t\tMelissaFAdasme\n\t\t\n\t\t\n\t\t\tMichaelSchroeder\n\t\t\n\t\t10.1093/nar/gkv315\n\t\t25873628\n\t\tPMC4489249\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c816947723bebd866a1fa1"},"refKey":33},
{"_key":"60c816f87723bebd866a1fe2","_id":"references/60c816f87723bebd866a1fe2","_rev":"_cfFmJEi---","tei":"\n\t\n\t\tComparing the areas under two or more correlated receiver operating characteristic curves: a nonparametric approach\n\t\t\n\t\t\tERDelong\n\t\t\n\t\t\n\t\t\tDMDelong\n\t\t\n\t\t\n\t\t\tDLClarke-Pearson\n\t\t\n\t\n\t\n\t\tBiometrics\n\t\t\n\t\t\t44\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c816f87723bebd866a1fe1"},"refKey":18},
{"_key":"60c8171c7723bebd866a1ff1","_id":"references/60c8171c7723bebd866a1ff1","_rev":"_cfFmJEu---","tei":"\n\t\n\t\tAligning sequence reads, clone sequences and assembly contigs with\n\t\t\n\t\t\tHLi\n\t\t\n\t\tarXiv:1303.3997\n\t\t\n\t\t\t\n\t\t\n\t\n\tBWA-MEM. arXiv preprint\n\n","document":{"$oid":"60c8171c7723bebd866a1ff0"},"refKey":8},
{"_key":"60c8171c7723bebd866a1ff2","_id":"references/60c8171c7723bebd866a1ff2","_rev":"_cfFmJE6---","tei":"\n\t\n\t\tDissemination of scientific software with Galaxy ToolShed\n\t\t\n\t\t\tDanielBlankenberg\n\t\t\n\t\t\n\t\t\tGregoryVon Kuster\n\t\t\n\t\t\n\t\t\tEmilBouvier\n\t\t\n\t\t\n\t\t\tDannonBaker\n\t\t\n\t\t\n\t\t\tEnisAfgan\n\t\t\n\t\t\n\t\t\tNicholasStoler\n\t\t\n\t\t\n\t\t\tJamesTaylor\n\t\t\n\t\t\n\t\t\tAntonNekrutenko\n\t\t\n\t\t10.1186/gb4161\n\t\t25001293\n\t\tPMC4038738\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t15\n\t\t\t2\n\t\t\t403\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8171c7723bebd866a1ff0"},"refKey":9},
{"_key":"60c8171d7723bebd866a1ff7","_id":"references/60c8171d7723bebd866a1ff7","_rev":"_cfFmJFG---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)-a metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8171d7723bebd866a1ff6"},"refKey":2},
{"_key":"60c8171f7723bebd866a1ffa","_id":"references/60c8171f7723bebd866a1ffa","_rev":"_cfFmJFO---","tei":"\n\t\n\t\tPrediction of complete gene structures in human genomic DNA\n\t\t\n\t\t\tCBurge\n\t\t\n\t\t\n\t\t\tSKarlin\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t268\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8171f7723bebd866a1ff9"},"refKey":27},
{"_key":"60c8171f7723bebd866a1ffb","_id":"references/60c8171f7723bebd866a1ffb","_rev":"_cfFmJFa---","tei":"\n\t\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\t\t\n\t\t\t\n\t\t\t30\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8171f7723bebd866a1ff9"},"refKey":40},
{"_key":"60c8171f7723bebd866a1ffc","_id":"references/60c8171f7723bebd866a1ffc","_rev":"_cfFmJFm---","tei":"\n\t\n\t\tUsing native and syntenically mapped cDNA alignments to improve de novo gene finding\n\t\t\n\t\t\tMStanke\n\t\t\n\t\t\n\t\t\tMDiekhans\n\t\t\n\t\t\n\t\t\tRBaertsch\n\t\t\n\t\t\n\t\t\tDHaussler\n\t\t\n\t\n\t\n\t\tBoinformatics\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8171f7723bebd866a1ff9"},"refKey":25},
{"_key":"60c8171f7723bebd866a1ffd","_id":"references/60c8171f7723bebd866a1ffd","_rev":"_cfFmJFy---","tei":"\n\t\n\t\tGene finding in novel genomes\n\t\t\n\t\t\tIKorf\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t5\n\t\t\t59\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8171f7723bebd866a1ff9"},"refKey":28},
{"_key":"60c8171f7723bebd866a1ffe","_id":"references/60c8171f7723bebd866a1ffe","_rev":"_cfFmJG----","tei":"\n\t\n\t\tWebGestalt, a more comprehensive, powerful, flexible and interactive gene set enrichment analysis toolkit\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tSVasaikar\n\t\t\n\t\t\n\t\t\tZShi\n\t\t\n\t\t\n\t\t\tMGreer\n\t\t\n\t\t\n\t\t\tBZhang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8171f7723bebd866a1ff9"},"refKey":92},
{"_key":"60c8171f7723bebd866a1fff","_id":"references/60c8171f7723bebd866a1fff","_rev":"_cfFmJGK---","tei":"\n\t\n\t\tThe PyMOL molecular graphics system\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tDelano Scientific\n\t\t\tSan Carlos\n\t\t\n\t\n\n","document":{"$oid":"60c8171f7723bebd866a1ff9"},"refKey":46},
{"_key":"60c8171f7723bebd866a2000","_id":"references/60c8171f7723bebd866a2000","_rev":"_cfFmJGW---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetic analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8171f7723bebd866a1ff9"},"refKey":41},
{"_key":"60c8171f7723bebd866a2001","_id":"references/60c8171f7723bebd866a2001","_rev":"_cfFmJGi---","tei":"\n\t\n\t\tFaster sequence homology searches by clustering subsequences\n\t\t\n\t\t\tShujiSuzuki\n\t\t\n\t\t\n\t\t\tMasanoriKakuta\n\t\t\n\t\t\n\t\t\tTakashiIshida\n\t\t\n\t\t\n\t\t\tYutakaAkiyama\n\t\t\n\t\t10.1093/bioinformatics/btu780\n\t\t25432166\n\t\tPMC4393512\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8171f7723bebd866a1ff9"},"refKey":34},
{"_key":"60c817257723bebd866a2018","_id":"references/60c817257723bebd866a2018","_rev":"_cfFmJGu---","tei":"\n\t\n\t\tRDP3: a flexible and fast computer program for analyzing recombination\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tMLott\n\t\t\n\t\t\n\t\t\tVMoulton\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tPLefeuvre\n\t\t\n\t\t10.1093/bioinformatics/btq467\n\t\t20798170\n\t\tPMC2944210\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c817257723bebd866a2017"},"refKey":40},
{"_key":"60c817257723bebd866a2019","_id":"references/60c817257723bebd866a2019","_rev":"_cfFmJH----","tei":"\n\t\n\t\tBuilding Phylogenetic Trees from Molecular Data with MEGA\n\t\t\n\t\t\tBGHall\n\t\t\n\t\t10.1093/molbev/mst012\n\t\t23486614\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c817257723bebd866a2017"},"refKey":39},
{"_key":"60c817347723bebd866a2028","_id":"references/60c817347723bebd866a2028","_rev":"_cfFmJHK---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c817347723bebd866a2027"},"refKey":15},
{"_key":"60c817347723bebd866a2029","_id":"references/60c817347723bebd866a2029","_rev":"_cfFmJHS---","tei":"\n\t\n\t\tSPREAD: spatial phylogenetic reconstruction of evolutionary dynamics\n\t\t\n\t\t\tFBielejec\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t10.1093/bioinformatics/btr481\n\t\t21911333\n\t\tPMC3187652\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c817347723bebd866a2027"},"refKey":0},
{"_key":"60c817347723bebd866a202a","_id":"references/60c817347723bebd866a202a","_rev":"_cfFmJHe---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c817347723bebd866a2027"},"refKey":35},
{"_key":"60c817347723bebd866a202b","_id":"references/60c817347723bebd866a202b","_rev":"_cfFmJHq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tTracer 1.6 [Computer Program\n\n","document":{"$oid":"60c817347723bebd866a2027"},"refKey":29},
{"_key":"60c817427723bebd866a203b","_id":"references/60c817427723bebd866a203b","_rev":"_cfFmJH2---","tei":"\n\t\n\t\tProtein Data Bank (PDB): The Single Global Macromolecular Structure Archive\n\t\t\n\t\t\tStephenKBurley\n\t\t\n\t\t\n\t\t\tHelenMBerman\n\t\t\n\t\t\n\t\t\tGerardJKleywegt\n\t\t\n\t\t\n\t\t\tJohnLMarkley\n\t\t\n\t\t\n\t\t\tHarukiNakamura\n\t\t\n\t\t\n\t\t\tSameerVelankar\n\t\t\n\t\t10.1007/978-1-4939-7000-1_26\n\t\t28573592\n\t\tPMC5823500\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1607\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c817427723bebd866a203a"},"refKey":25},
{"_key":"60c817587723bebd866a205e","_id":"references/60c817587723bebd866a205e","_rev":"_cfFmJIC---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c817587723bebd866a205d"},"refKey":54},
{"_key":"60c817587723bebd866a205f","_id":"references/60c817587723bebd866a205f","_rev":"_cfFmJIO---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c817587723bebd866a205d"},"refKey":34},
{"_key":"60c817587723bebd866a2060","_id":"references/60c817587723bebd866a2060","_rev":"_cfFmJIa---","tei":"\n\t\n\t\tA computational procedure for determining energetically favorable binding sites on biologically important macromolecules\n\t\t\n\t\t\tPJGoodford\n\t\t\n\t\t10.1021/jm00145a002\n\t\t3892003\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t28\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c817587723bebd866a205d"},"refKey":13},
{"_key":"60c817587723bebd866a2061","_id":"references/60c817587723bebd866a2061","_rev":"_cfFmJIm---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNoelMO'boyle\n\t\t\n\t\t\n\t\t\tMichaelBanck\n\t\t\n\t\t\n\t\t\tCraigAJames\n\t\t\n\t\t\n\t\t\tChrisMorley\n\t\t\n\t\t\n\t\t\tTimVandermeersch\n\t\t\n\t\t\n\t\t\tGeoffreyRHutchison\n\t\t\n\t\t10.1186/1758-2946-3-33\n\t\t21982300\n\t\tPMC3198950\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c817587723bebd866a205d"},"refKey":37},
{"_key":"60c8177d7723bebd866a20d1","_id":"references/60c8177d7723bebd866a20d1","_rev":"_cfFmJIy---","tei":"\n\t\n\t\tComputing wide range of protein/peptide features from their sequence and structure\n\t\t\n\t\t\tAksharaPande\n\t\t\n\t\t\n\t\t\tSumeetPatiyal\n\t\t\n\t\t\n\t\t\tAnjaliLathwal\n\t\t\n\t\t\n\t\t\tChakitArora\n\t\t\n\t\t\n\t\t\tDilrajKaur\n\t\t\n\t\t\n\t\t\tAnjaliDhall\n\t\t\n\t\t\n\t\t\tGauravMishra\n\t\t\n\t\t\n\t\t\tHarpreetKaur\n\t\t\n\t\t\n\t\t\tNeelamSharma\n\t\t\n\t\t\n\t\t\tShipraJain\n\t\t\n\t\t\n\t\t\tSalmanSadullahUsmani\n\t\t\n\t\t\n\t\t\tPiyushAgrawal\n\t\t\n\t\t\n\t\t\tRajeshKumar\n\t\t\n\t\t\n\t\t\tVinodKumar\n\t\t\n\t\t\n\t\t\tGajendraP SRaghava\n\t\t\n\t\t10.1101/599126\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t599126\n\t\t\n\t\n\n","document":{"$oid":"60c8177d7723bebd866a20d0"},"refKey":39},
{"_key":"60c8177d7723bebd866a20d2","_id":"references/60c8177d7723bebd866a20d2","_rev":"_cfFmJJ----","tei":"\n\t\n\t\tMFPPI – Multi FASTA ProtParam Interface\n\t\t\n\t\t\tVijayKumarGarg\n\t\t\n\t\t\n\t\t\tHimanshuAvashthi\n\t\t\n\t\t\n\t\t\tApoorvTiwari\n\t\t\n\t\t\n\t\t\tPrashantAnkurJain\n\t\t\n\t\t\n\t\t\tPramodWasudev RamketeRamkete\n\t\t\n\t\t\n\t\t\tArvindMohanKayastha\n\t\t\n\t\t\n\t\t\tVinayKumarSingh\n\t\t\n\t\t10.6026/97320630012074\n\t\t28104964\n\t\tPMC5237651\n\t\t\n\t\n\t\n\t\tBioinformation\n\t\tBioinformation\n\t\t0973-8894\n\t\t0973-2063\n\t\t\n\t\t\t12\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tBiomedical Informatics\n\t\t\n\t\n\n","document":{"$oid":"60c8177d7723bebd866a20d0"},"refKey":40},
{"_key":"60c8177d7723bebd866a20d3","_id":"references/60c8177d7723bebd866a20d3","_rev":"_cfFmJJK---","tei":"\n\t\n\t\tChou and Fasman secondary structure prediction server. Wide Spectr\n\t\t\n\t\t\tTAKumar\n\t\t\n\t\t\n\t\t\tCfssp\n\t\t\n\t\t\n\t\t\t\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8177d7723bebd866a20d0"},"refKey":38},
{"_key":"60c8178c7723bebd866a20e8","_id":"references/60c8178c7723bebd866a20e8","_rev":"_cfFmJJW---","tei":"\n\t\n\t\tThe Clustal X Windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8178c7723bebd866a20e7"},"refKey":12},
{"_key":"60c8178c7723bebd866a20e9","_id":"references/60c8178c7723bebd866a20e9","_rev":"_cfFmJJe---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8178c7723bebd866a20e7"},"refKey":11},
{"_key":"60c817d47723bebd866a2134","_id":"references/60c817d47723bebd866a2134","_rev":"_cfFmJJq---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c817d47723bebd866a2133"},"refKey":27},
{"_key":"60c817d47723bebd866a2135","_id":"references/60c817d47723bebd866a2135","_rev":"_cfFmJJ2---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tGenome Project Data Processing Subgroup\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tBioinformatics\n\n","document":{"$oid":"60c817d47723bebd866a2133"},"refKey":29},
{"_key":"60c817d47723bebd866a2136","_id":"references/60c817d47723bebd866a2136","_rev":"_cfFmJKC---","tei":"\n\t\n\t\tVarScan: variant detection in massively parallel sequencing of individual and pooled samples\n\t\t\n\t\t\tDCKoboldt\n\t\t\n\t\t\n\t\t\tKChen\n\t\t\n\t\t\n\t\t\tTWylie\n\t\t\n\t\t\n\t\t\tDELarson\n\t\t\n\t\t\n\t\t\tMDMclellan\n\t\t\n\t\t\n\t\t\tERMardis\n\t\t\n\t\t\n\t\t\tGMWeinstock\n\t\t\n\t\t\n\t\t\tRKWilson\n\t\t\n\t\t\n\t\t\tLDing\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c817d47723bebd866a2133"},"refKey":30},
{"_key":"60c817d47723bebd866a2137","_id":"references/60c817d47723bebd866a2137","_rev":"_cfFmJKO---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c817d47723bebd866a2133"},"refKey":28},
{"_key":"60c8180f7723bebd866a2152","_id":"references/60c8180f7723bebd866a2152","_rev":"_cfFmJKa---","tei":"\n\t\n\t\tMiaS: math-aware retrieval in digital mathematical libraries\n\t\t\n\t\t\tPSojka\n\t\t\n\t\t\n\t\t\tMRuzicka\n\t\t\n\t\t\n\t\t\tVNovotný\n\t\t\n\t\n\t\n\t\tProceedings of CIKM\n\t\t\t\tCIKMTorino, Italy\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8180f7723bebd866a2151"},"refKey":9},
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{"_key":"60c8197f7723bebd866a2265","_id":"references/60c8197f7723bebd866a2265","_rev":"_cfFmJPq---","tei":"\n\t\n\t\tErratum: Near-optimal probabilistic RNA-seq quantification\n\t\t\n\t\t\tNicolasLBray\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tPállMelsted\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nbt0816-888d\n\t\t27504780\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t34\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c8197f7723bebd866a225f"},"refKey":55},
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{"_key":"60c8197f7723bebd866a226c","_id":"references/60c8197f7723bebd866a226c","_rev":"_cfFmJQ6---","tei":"\n\t\n\t\tUltrafast and memoryefficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8197f7723bebd866a225f"},"refKey":43},
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{"_key":"60c81c117723bebd866a242d","_id":"references/60c81c117723bebd866a242d","_rev":"_cfFmJVa---","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\n\t\n\t\tJournal of biomedical informatics\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c81c117723bebd866a242b"},"refKey":16},
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{"_key":"60c81c7e7723bebd866a2486","_id":"references/60c81c7e7723bebd866a2486","_rev":"_cfFmJWK---","tei":"\n\t\n\t\tR functions to perform and display Google Trends queries\n\t\t\n\t\t\tPMassicotte\n\t\t\n\t\t\n\t\t\tDEddelbuettel\n\t\t\n\t\t\n\t\t\tGtrendsr\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c81c7e7723bebd866a2485"},"refKey":13},
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{"_key":"60c81d117723bebd866a24ed","_id":"references/60c81d117723bebd866a24ed","_rev":"_cfFmJW2---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome biology\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c81d117723bebd866a24eb"},"refKey":59},
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{"_key":"60c81d157723bebd866a2503","_id":"references/60c81d157723bebd866a2503","_rev":"_cfFmJXO---","tei":"\n\t\n\t\tThe Python Language Reference Manual\n\t\t\n\t\t\tGVan Rossum\n\t\t\n\t\t\n\t\t\tFLDrake\n\t\t\n\t\n\t\n\t\tNetwork Theory Ltd\n\t\t\n\t\t\t\n\t\t\n\t\n\tNetwork\n\n","document":{"$oid":"60c81d157723bebd866a2501"},"refKey":41},
{"_key":"60c81d157723bebd866a2504","_id":"references/60c81d157723bebd866a2504","_rev":"_cfFmJXa---","tei":"\n\t\n\t\t\n\t\t\tMDZeiler\n\t\t\n\t\tarXiv:1212.5701\n\t\tAdadelta: an adaptive learning rate method\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c81d157723bebd866a2501"},"refKey":43},
{"_key":"60c81d157723bebd866a2505","_id":"references/60c81d157723bebd866a2505","_rev":"_cfFmJXm---","tei":"\n\t\n\t\tTensorFlow: a system for large-scale machine learning\n\t\t\n\t\t\tMAbadi\n\t\t\n\t\n\t\n\t\t12th {USENIX} Symposium on Operating Systems Design and Implementation ({OSDI} 2016)\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c81d157723bebd866a2501"},"refKey":0},
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{"_key":"60c81d6b7723bebd866a2554","_id":"references/60c81d6b7723bebd866a2554","_rev":"_cfFmJYe---","tei":"\n\t\n\t\tIBM SPSS Statistics for Windows, Version 21.0\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t\n\t\t\t\n\t\t\tIBM Corp\n\t\t\tArmonk, NY\n\t\t\n\t\n\n","document":{"$oid":"60c81d6b7723bebd866a2553"},"refKey":18},
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{"_key":"60c822547723bebd866a29e6","_id":"references/60c822547723bebd866a29e6","_rev":"_cfFmJlO---","tei":"\n\t\n\t\tDifferential analyses for RNA-seq: transcript-level estimates improve gene-level inferences\n\t\t\n\t\t\tCSoneson\n\t\t\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\t\n\t\t\t4\n\t\t\t1521\n\t\t\n\t\n\n","document":{"$oid":"60c822547723bebd866a29e2"},"refKey":25},
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{"_key":"60c822817723bebd866a2b62","_id":"references/60c822817723bebd866a2b62","_rev":"_cfFmJnS---","tei":"\n\t\n\t\tThe VideoToolbox software for visual psychophysics: Transforming numbers into movies\n\t\t\n\t\t\tDGPelli\n\t\t\n\t\n\t\n\t\tSpatial Vision\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c822817723bebd866a2b60"},"refKey":25},
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{"_key":"60c822d97723bebd866a2bab","_id":"references/60c822d97723bebd866a2bab","_rev":"_cfFmJo6---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c822d97723bebd866a2baa"},"refKey":23},
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{"_key":"60c8260c7723bebd866a2e90","_id":"references/60c8260c7723bebd866a2e90","_rev":"_cfFmJ0S---","tei":"\n\t\n\t\tAutomatic differentiation in pytorch\n\t\t\n\t\t\tAdamPaszke\n\t\t\n\t\t\n\t\t\tSamGross\n\t\t\n\t\t\n\t\t\tSoumithChintala\n\t\t\n\t\t\n\t\t\tGregoryChanan\n\t\t\n\t\t\n\t\t\tEdwardYang\n\t\t\n\t\t\n\t\t\tZacharyDevito\n\t\t\n\t\t\n\t\t\tZemingLin\n\t\t\n\t\t\n\t\t\tAlbanDesmaison\n\t\t\n\t\t\n\t\t\tLucaAntiga\n\t\t\n\t\t\n\t\t\tAdamLerer\n\t\t\n\t\t\n\t\t\t\n\t\t\t16\n\t\t\n\t\n\n","document":{"$oid":"60c8260c7723bebd866a2e8e"},"refKey":51},
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{"_key":"60c826627723bebd866a2eb2","_id":"references/60c826627723bebd866a2eb2","_rev":"_cfFmJ0q---","tei":"\n\t\n\t\tFast, scalable generation of highquality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDGDineen\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c826627723bebd866a2eb1"},"refKey":31},
{"_key":"60c826627723bebd866a2eb3","_id":"references/60c826627723bebd866a2eb3","_rev":"_cfFmJ02---","tei":"\n\t\n\t\tClustal Omega for making accurate alignments of many protein sequences\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c826627723bebd866a2eb1"},"refKey":33},
{"_key":"60c826627723bebd866a2eb4","_id":"references/60c826627723bebd866a2eb4","_rev":"_cfFmJ1C---","tei":"\n\t\n\t\tAutomated comparative protein structure modeling with SWISS-MODEL and Swiss-PdbViewer: a historical perspective\n\t\t\n\t\t\tNGuex\n\t\t\n\t\t\n\t\t\tMCPeitsch\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c826627723bebd866a2eb1"},"refKey":27},
{"_key":"60c826627723bebd866a2eb5","_id":"references/60c826627723bebd866a2eb5","_rev":"_cfFmJ1O---","tei":"\n\t\n\t\tToward the estimation of the absolute quality of individual protein structure models\n\t\t\n\t\t\tPBenkert\n\t\t\n\t\t\n\t\t\tMBiasini\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c826627723bebd866a2eb1"},"refKey":28},
{"_key":"60c826627723bebd866a2eb6","_id":"references/60c826627723bebd866a2eb6","_rev":"_cfFmJ1a---","tei":"\n\t\n\t\tThe SWISS-MODEL Repository-new features and functionality\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tTapDe Beer\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t45\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c826627723bebd866a2eb1"},"refKey":29},
{"_key":"60c826627723bebd866a2eb7","_id":"references/60c826627723bebd866a2eb7","_rev":"_cfFmJ1m---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c826627723bebd866a2eb1"},"refKey":30},
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{"_key":"60c826e07723bebd866a2f37","_id":"references/60c826e07723bebd866a2f37","_rev":"_cfFmJ2----","tei":"\n\t\n\t\tSize Calculator\n\t\t\n\t\t\tRaosoft\n\t\t\n\t\t\n\t\t\tSample\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t27\n\t\t\n\t\n\n","document":{"$oid":"60c826e07723bebd866a2f36"},"refKey":8},
{"_key":"60c827137723bebd866a2f6b","_id":"references/60c827137723bebd866a2f6b","_rev":"_cfFmJ2K---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c827137723bebd866a2f6a"},"refKey":14},
{"_key":"60c827137723bebd866a2f6c","_id":"references/60c827137723bebd866a2f6c","_rev":"_cfFmJ2W---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms, Molecular biology and evolution\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tCKnyaz\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\t\n\t\t\t35\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c827137723bebd866a2f6a"},"refKey":36},
{"_key":"60c827137723bebd866a2f6d","_id":"references/60c827137723bebd866a2f6d","_rev":"_cfFmJ2i---","tei":"\n\t\n\t\tMolecular Evolutionary Genetics Analysis (MEGA) for macOS\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c827137723bebd866a2f6a"},"refKey":64},
{"_key":"60c827137723bebd866a2f6e","_id":"references/60c827137723bebd866a2f6e","_rev":"_cfFmJ2u---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c827137723bebd866a2f6a"},"refKey":3},
{"_key":"60c827637723bebd866a2fb1","_id":"references/60c827637723bebd866a2fb1","_rev":"_cfFmJ26---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c827637723bebd866a2fb0"},"refKey":11},
{"_key":"60c827847723bebd866a2fc6","_id":"references/60c827847723bebd866a2fc6","_rev":"_cfFmJ3G---","tei":"\n\t\n\t\tMulti-view 3D object detection network for autonomous driving\n\t\t\n\t\t\tXChen\n\t\t\n\t\t\n\t\t\tHMa\n\t\t\n\t\t\n\t\t\tJWan\n\t\t\n\t\t\n\t\t\tBLi\n\t\t\n\t\t\n\t\t\tTXia\n\t\t\n\t\n\t\n\t\tProceedings of the IEEE Conference on Computer Vision and Pattern Recognition\n\t\t\t\tthe IEEE Conference on Computer Vision and Pattern Recognition\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c827847723bebd866a2fc5"},"refKey":2},
{"_key":"60c8278d7723bebd866a2fd0","_id":"references/60c8278d7723bebd866a2fd0","_rev":"_cfFmJ3S---","tei":"\n\t\n\t\tLineage-associated underrepresented permutations (LAUPs) of mammalian genomic sequences based on a Jellyfish-based LAUPs analysis application (JBLA)\n\t\t\n\t\t\tLeZhang\n\t\t\t0000-0002-3708-1727\n\t\t\n\t\t\n\t\t\tMingXiao\n\t\t\n\t\t\n\t\t\tJingsongZhou\n\t\t\n\t\t\n\t\t\tJunYu\n\t\t\n\t\t10.1093/bioinformatics/bty392\n\t\t29762634\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8278d7723bebd866a2fcf"},"refKey":25},
{"_key":"60c827b17723bebd866a2fe4","_id":"references/60c827b17723bebd866a2fe4","_rev":"_cfFmJ3e---","tei":"\n\t\n\t\tRationalizing Tight Ligand Binding through Cooperative Interaction Networks\n\t\t\n\t\t\tBerndKuhn\n\t\t\n\t\t\n\t\t\tJulianEFuchs\n\t\t\n\t\t\n\t\t\tMichaelReutlinger\n\t\t\n\t\t\n\t\t\tMartinStahl\n\t\t\n\t\t\n\t\t\tNeilRTaylor\n\t\t\n\t\t10.1021/ci200319e\n\t\t22087588\n\t\tPMC3246350\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t51\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c827b17723bebd866a2fe3"},"refKey":21},
{"_key":"60c828097723bebd866a2ffc","_id":"references/60c828097723bebd866a2ffc","_rev":"_cfFmJ3q---","tei":"\n\t\n\t\tSentiment strength detection in short informal text\n\t\t\n\t\t\tMThelwall\n\t\t\n\t\t\n\t\t\tKBuckley\n\t\t\n\t\t\n\t\t\tGPaltoglou\n\t\t\n\t\t\n\t\t\tDCai\n\t\t\n\t\t\n\t\t\tAKappas\n\t\t\n\t\n\t\n\t\tJ. Assoc. Inform. Sci. Technol\n\t\t\n\t\t\t61\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c828097723bebd866a2ffb"},"refKey":81},
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{"_key":"60c828097723bebd866a2fff","_id":"references/60c828097723bebd866a2fff","_rev":"_cfFmJ4O---","tei":"\n\t\n\t\tRetrieving and analyzing mobile apps feature requests from online reviews\n\t\t\n\t\t\tClaudiaIacob\n\t\t\n\t\t\n\t\t\tRachelHarrison\n\t\t\n\t\t10.1109/msr.2013.6624001\n\t\n\t\n\t\t2013 10th Working Conference on Mining Software Repositories (MSR)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c828097723bebd866a2ffb"},"refKey":45},
{"_key":"60c828097723bebd866a3000","_id":"references/60c828097723bebd866a3000","_rev":"_cfFmJ4a---","tei":"\n\t\n\t\tUsing frame semantics for classifying and summarizing application store reviews\n\t\t\n\t\t\tNishantJha\n\t\t\n\t\t\n\t\t\tAnasMahmoud\n\t\t\t0000-0001-8353-5286\n\t\t\n\t\t10.1007/s10664-018-9605-x\n\t\n\t\n\t\tEmpirical Software Engineering\n\t\tEmpir Software Eng\n\t\t1382-3256\n\t\t1573-7616\n\t\t\n\t\t\t23\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c828097723bebd866a2ffb"},"refKey":48},
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{"_key":"60c829bc7723bebd866a3120","_id":"references/60c829bc7723bebd866a3120","_rev":"_cfFmJ9e---","tei":"\n\t\n\t\tAnalytical shape computation of macromolecules: I. molecular area and volume through alpha shape\n\t\t\n\t\t\tJieLiang\n\t\t\n\t\t\n\t\t\tHerbertEdelsbrunner\n\t\t\n\t\t\n\t\t\tPingFu\n\t\t\n\t\t\n\t\t\tPamidighantamVSudhakar\n\t\t\n\t\t\n\t\t\tShankarSubramaniam\n\t\t\n\t\t10.1002/(sici)1097-0134(19981001)33:1<1::aid-prot1>3.0.co;2-o\n\t\t9741840\n\t\tark:/67375/WNG-H4GVH567-G\n\t\t52D76C03648FCD60FDF0BAA9FFAE99C3CCFC7961\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t33\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c829bc7723bebd866a311f"},"refKey":31},
{"_key":"60c829bc7723bebd866a3121","_id":"references/60c829bc7723bebd866a3121","_rev":"_cfFmJ9q---","tei":"\n\t\n\t\tAnatomy of protein pockets and cavities: Measurement of binding site geometry and implications for ligand design\n\t\t\n\t\t\tJieLiang\n\t\t\n\t\t\n\t\t\tClareWoodward\n\t\t\n\t\t\n\t\t\tHerbertEdelsbrunner\n\t\t\n\t\t10.1002/pro.5560070905\n\t\t9761470\n\t\tPMC2144175\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t7\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c829bc7723bebd866a311f"},"refKey":32},
{"_key":"60c829bc7723bebd866a3122","_id":"references/60c829bc7723bebd866a3122","_rev":"_cfFmJ92---","tei":"\n\t\n\t\tThe mutational constraint spectrum quantified from variation in 141,456 humans\n\t\t\n\t\t\tKJKarczewski\n\t\t\n\t\t\n\t\t\tLCFrancioli\n\t\t\n\t\t\n\t\t\tGTiao\n\t\t\n\t\t\n\t\t\tBBCummings\n\t\t\n\t\t\n\t\t\tJAlföldi\n\t\t\n\t\t\n\t\t\tQWang\n\t\t\n\t\t\n\t\t\tRLCollins\n\t\t\n\t\t\n\t\t\tKMLaricchia\n\t\t\n\t\t\n\t\t\tAGanna\n\t\t\n\t\t\n\t\t\tDPBirnbaum\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t581\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c829bc7723bebd866a311f"},"refKey":25},
{"_key":"60c829bc7723bebd866a3123","_id":"references/60c829bc7723bebd866a3123","_rev":"_cfFmK-C---","tei":"\n\t\n\t\tThe Ensembl Variant Effect Predictor\n\t\t\n\t\t\tWilliamMclaren\n\t\t\n\t\t\n\t\t\tLaurentGil\n\t\t\n\t\t\n\t\t\tSarahEHunt\n\t\t\n\t\t\n\t\t\tHarpreetSinghRiat\n\t\t\n\t\t\n\t\t\tGrahamR SRitchie\n\t\t\n\t\t\n\t\t\tAnjaThormann\n\t\t\n\t\t\n\t\t\tPaulFlicek\n\t\t\n\t\t\n\t\t\tFionaCunningham\n\t\t\n\t\t10.1101/042374\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t17\n\t\t\t122\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c829bc7723bebd866a311f"},"refKey":35},
{"_key":"60c829bc7723bebd866a3124","_id":"references/60c829bc7723bebd866a3124","_rev":"_cfFmK-O---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t5\n\t\t\t113\n\t\t\n\t\n\n","document":{"$oid":"60c829bc7723bebd866a311f"},"refKey":17},
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{"_key":"60c829bc7723bebd866a3126","_id":"references/60c829bc7723bebd866a3126","_rev":"_cfFmK-m---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tCCamacho\n\t\t\n\t\t\n\t\t\tGCoulouris\n\t\t\n\t\t\n\t\t\tVAvagyan\n\t\t\n\t\t\n\t\t\tNMa\n\t\t\n\t\t\n\t\t\tJPapadopoulos\n\t\t\n\t\t\n\t\t\tKBealer\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c829bc7723bebd866a311f"},"refKey":2},
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{"_key":"60c82a437723bebd866a31af","_id":"references/60c82a437723bebd866a31af","_rev":"_cfFmKA6---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c82a437723bebd866a31aa"},"refKey":3},
{"_key":"60c82a437723bebd866a31b0","_id":"references/60c82a437723bebd866a31b0","_rev":"_cfFmKBG---","tei":"\n\t\n\t\tBayesian phylodynamic inference with complex models\n\t\t\n\t\t\tErikMVolz\n\t\t\t0000-0001-6268-8937\n\t\t\n\t\t\n\t\t\tIgorSiveroni\n\t\t\n\t\t10.1101/268052\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t14\n\t\t\te1006546\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c82a437723bebd866a31aa"},"refKey":13},
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{"_key":"60c82bb37723bebd866a331c","_id":"references/60c82bb37723bebd866a331c","_rev":"_cfFmKIi---","tei":"\n\t\n\t\tIdentification of Arabidopsis VTC3 as a putative and unique dual function protein kinase::protein phosphatase involved in the regulation of the ascorbic acid pool in plants\n\t\t\n\t\t\tPatriciaLConklin\n\t\t\n\t\t\n\t\t\tDennisDepaolo\n\t\t\n\t\t\n\t\t\tBrittieWintle\n\t\t\n\t\t\n\t\t\tCarmitSchatz\n\t\t\n\t\t\n\t\t\tGailBuckenmeyer\n\t\t\n\t\t10.1093/jxb/ert140\n\t\t23749562\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Experimental Botany\n\t\t0022-0957\n\t\t1460-2431\n\t\t\n\t\t\t64\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c82bb37723bebd866a331b"},"refKey":18},
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{"_key":"60c82bc97723bebd866a3324","_id":"references/60c82bc97723bebd866a3324","_rev":"_cfFmKI6---","tei":"\n\t\n\t\tJModelTest: phylogenetic model averaging\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t\n\t\t\t25\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82bc97723bebd866a3322"},"refKey":57},
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{"_key":"60c82ca07723bebd866a3384","_id":"references/60c82ca07723bebd866a3384","_rev":"_cfFmKKC---","tei":"\n\t\n\t\tVerification Condition Generation for Permission Logics with Abstract Predicates and Abstraction Functions\n\t\t\n\t\t\tStefanHeule\n\t\t\n\t\t\n\t\t\tIoannisTKassios\n\t\t\n\t\t\n\t\t\tPeterMüller\n\t\t\n\t\t\n\t\t\tAlexanderJSummers\n\t\t\n\t\t10.1007/978-3-642-39038-8_19\n\t\tark:/67375/HCB-PH13R2GX-N\n\t\tBAD90F5DE109E092719C59800DA237708CB94E60\n\t\t\n\t\t\n\t\n\t\n\t\tECOOP 2013 – Object-Oriented Programming\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82ca07723bebd866a3382"},"refKey":38},
{"_key":"60c82ca07723bebd866a3385","_id":"references/60c82ca07723bebd866a3385","_rev":"_cfFmKKO---","tei":"\n\t\n\t\tViper: A Verification Infrastructure for Permission-Based Reasoning\n\t\t\n\t\t\tPeterMüller\n\t\t\n\t\t\n\t\t\tMalteSchwerhoff\n\t\t\n\t\t\n\t\t\tAlexanderJSummers\n\t\t\n\t\t10.1007/978-3-662-49122-5_2\n\t\t\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82ca07723bebd866a3382"},"refKey":52},
{"_key":"60c82ca07723bebd866a3386","_id":"references/60c82ca07723bebd866a3386","_rev":"_cfFmKKa---","tei":"\n\t\n\t\tQuantified Heap Invariants for Object-Oriented Programs\n\t\t\n\t\t\tTemesghenKahsai\n\t\t\n\t\t\n\t\t\tRodyKersten\n\t\t\n\t\t\n\t\t\tPhilippRümmer\n\t\t\n\t\t\n\t\t\tMartinSchäf\n\t\t\n\t\t10.29007/zrct\n\t\t\n\t\n\t\n\t\tConference on Logic for Programming Artificial Intelligence and Reasoning (LPAR)\n\t\t\t\t\n\t\t\tEasyChair\n\t\t\t2017\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82ca07723bebd866a3382"},"refKey":40},
{"_key":"60c82ca07723bebd866a3387","_id":"references/60c82ca07723bebd866a3387","_rev":"_cfFmKKm---","tei":"\n\t\n\t\tJayHorn: A Framework for Verifying Java programs\n\t\t\n\t\t\tTemesghenKahsai\n\t\t\n\t\t\n\t\t\tPhilippRümmer\n\t\t\n\t\t\n\t\t\tHuascarSanchez\n\t\t\n\t\t\n\t\t\tMartinSchäf\n\t\t\n\t\t10.1007/978-3-319-41528-4_19\n\t\t\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82ca07723bebd866a3382"},"refKey":41},
{"_key":"60c82ca07723bebd866a3388","_id":"references/60c82ca07723bebd866a3388","_rev":"_cfFmKKy---","tei":"\n\t\n\t\tDisjunctive Interpolants for Horn-Clause Verification\n\t\t\n\t\t\tPhilippRümmer\n\t\t\n\t\t\n\t\t\tHosseinHojjat\n\t\t\n\t\t\n\t\t\tViktorKuncak\n\t\t\n\t\t10.1007/978-3-642-39799-8_24\n\t\tark:/67375/HCB-KK80R4VW-W\n\t\tAD30F62321D4D4CB9E278173A31789856FBC5AA0\n\t\t\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82ca07723bebd866a3382"},"refKey":59},
{"_key":"60c82ca07723bebd866a3389","_id":"references/60c82ca07723bebd866a3389","_rev":"_cfFmKL----","tei":"\n\t\n\t\tAutomatic Abstraction in SMT-Based Unbounded Software Model Checking\n\t\t\n\t\t\tAnveshKomuravelli\n\t\t\n\t\t\n\t\t\tArieGurfinkel\n\t\t\n\t\t\n\t\t\tSagarChaki\n\t\t\n\t\t\n\t\t\tEdmundMClarke\n\t\t\n\t\t10.1007/978-3-642-39799-8_59\n\t\tark:/67375/HCB-HV15S7TD-2\n\t\t564CF25B7C9A54283943D39304463284AA0836C0\n\t\t\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82ca07723bebd866a3382"},"refKey":45},
{"_key":"60c82cb17723bebd866a33d6","_id":"references/60c82cb17723bebd866a33d6","_rev":"_cfFmKLO---","tei":"\n\t\n\t\tInteractive Sankey diagrams\n\t\t\n\t\t\tPRiehmann\n\t\t\n\t\t\n\t\t\tMHanfler\n\t\t\n\t\t\n\t\t\tBFroehlich\n\t\t\n\t\t10.1109/infvis.2005.1532152\n\t\n\t\n\t\tIEEE Symposium on Information Visualization, 2005. INFOVIS 2005.\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t2005\n\t\t\n\t\n\n","document":{"$oid":"60c82cb17723bebd866a33d5"},"refKey":13},
{"_key":"60c82cb17723bebd866a33d7","_id":"references/60c82cb17723bebd866a33d7","_rev":"_cfFmKLa---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsardi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\n\t\n\t\tInter J Complex Syst\n\t\t\n\t\t\t1695\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cb17723bebd866a33d5"},"refKey":9},
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{"_key":"60c82cb17723bebd866a33d9","_id":"references/60c82cb17723bebd866a33d9","_rev":"_cfFmKLy---","tei":"\n\t\n\t\tEdger: a bioconductor package for differential expression analysis of digital gene expression data\n\t\t\n\t\t\tMDRobinson\n\t\t\n\t\t\n\t\t\tDJMccarthy\n\t\t\n\t\t\n\t\t\tGKSmyth\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cb17723bebd866a33d5"},"refKey":5},
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{"_key":"60c82cb77723bebd866a3401","_id":"references/60c82cb77723bebd866a3401","_rev":"_cfFmKMq---","tei":"\n\t\n\t\tThe HMMTOP transmembrane topology prediction server\n\t\t\n\t\t\tGETusnady\n\t\t\n\t\t\n\t\t\tISimon\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cb77723bebd866a3400"},"refKey":50},
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{"_key":"60c82cb77723bebd866a3404","_id":"references/60c82cb77723bebd866a3404","_rev":"_cfFmKNO---","tei":"\n\t\n\t\tSMART 6: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tTDoerks\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/nar/gkn808\n\t\t18978020\n\t\tPMC2686533\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t37\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c82cb77723bebd866a3400"},"refKey":23},
{"_key":"60c82cb77723bebd866a3405","_id":"references/60c82cb77723bebd866a3405","_rev":"_cfFmKNa---","tei":"\n\t\n\t\tTMbase-a database of membrane spanning proteins segments\n\t\t\n\t\t\tKHofmann\n\t\t\n\t\t\n\t\t\tWStoffel\n\t\t\n\t\n\t\n\t\tBiol. Chem., Hoppe-Seyler\n\t\t\n\t\t\t374\n\t\t\t166\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cb77723bebd866a3400"},"refKey":17},
{"_key":"60c82cb77723bebd866a3406","_id":"references/60c82cb77723bebd866a3406","_rev":"_cfFmKNm---","tei":"\n\t\n\t\tK-Estimator: calculation of the number of nucleotide substitutions per site and the confidence intervals\n\t\t\n\t\t\tJMComeron\n\t\t\n\t\t10.1093/bioinformatics/15.9.763\n\t\t10498777\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t15\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c82cb77723bebd866a3400"},"refKey":10},
{"_key":"60c82cb77723bebd866a3407","_id":"references/60c82cb77723bebd866a3407","_rev":"_cfFmKNy---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cb77723bebd866a3400"},"refKey":47},
{"_key":"60c82cb77723bebd866a3408","_id":"references/60c82cb77723bebd866a3408","_rev":"_cfFmKO----","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cb77723bebd866a3400"},"refKey":48},
{"_key":"60c82cb77723bebd866a3409","_id":"references/60c82cb77723bebd866a3409","_rev":"_cfFmKOK---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cb77723bebd866a3400"},"refKey":0},
{"_key":"60c82cc67723bebd866a3428","_id":"references/60c82cc67723bebd866a3428","_rev":"_cfFmKOW---","tei":"\n\t\n\t\tAtomic-accuracy models from\n\t\t\n\t\t\tFDimaio\n\t\t\n\t\t\n\t\t\tYSong\n\t\t\n\t\t\n\t\t\tXLi\n\t\t\n\t\t\n\t\t\tMJBrunner\n\t\t\n\t\t\n\t\t\tCXu\n\t\t\n\t\t\n\t\t\tVConticello\n\t\t\n\t\t\n\t\t\tEEgelman\n\t\t\n\t\t\n\t\t\tTMarlovits\n\t\t\n\t\t\n\t\t\tYCheng\n\t\t\n\t\t\n\t\t\tDBaker\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cc67723bebd866a3427"},"refKey":24},
{"_key":"60c82cc67723bebd866a3429","_id":"references/60c82cc67723bebd866a3429","_rev":"_cfFmKOi---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cc67723bebd866a3427"},"refKey":62},
{"_key":"60c82cc67723bebd866a342a","_id":"references/60c82cc67723bebd866a342a","_rev":"_cfFmKOu---","tei":"\n\t\n\t\tiMOSFLM: a new graphical interface for diffraction-image processing with MOSFLM\n\t\t\n\t\t\tTGBattye\n\t\t\n\t\t\n\t\t\tLKontogiannis\n\t\t\n\t\t\n\t\t\tOJohnson\n\t\t\n\t\t\n\t\t\tHRPowell\n\t\t\n\t\t\n\t\t\tAGLeslie\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cc67723bebd866a3427"},"refKey":3},
{"_key":"60c82cc67723bebd866a342b","_id":"references/60c82cc67723bebd866a342b","_rev":"_cfFmKO6---","tei":"\n\t\n\t\tMolProbity: More and better reference data for improved all-atom structure validation\n\t\t\n\t\t\tCJWilliams\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tLLVideau\n\t\t\n\t\t\n\t\t\tLNDeis\n\t\t\n\t\t\n\t\t\tVVerma\n\t\t\n\t\t\n\t\t\tDAKeedy\n\t\t\n\t\t\n\t\t\tBJHintze\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cc67723bebd866a3427"},"refKey":83},
{"_key":"60c82cc67723bebd866a342c","_id":"references/60c82cc67723bebd866a342c","_rev":"_cfFmKPC---","tei":"\n\t\n\t\tProtocol for rapid unsupervised cryo-EM structure determination using cryoSPARC software\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tAliPunjani\n\t\t\n\t\t\n\t\t\tJohnRubinstein\n\t\t\n\t\t\n\t\t\tDavidFleet\n\t\t\n\t\t\n\t\t\tMarcusBrubaker\n\t\t\n\t\t10.1038/protex.2017.009\n\t\n\t\n\t\tProtocol Exchange\n\t\tProtocol Exchange\n\t\t2043-0116\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c82cc67723bebd866a3427"},"refKey":64},
{"_key":"60c82cc67723bebd866a342d","_id":"references/60c82cc67723bebd866a342d","_rev":"_cfFmKPO---","tei":"\n\t\n\t\tRotationally invariant image representation for viewing direction classification in cryo-EM\n\t\t\n\t\t\tZhizhenZhao\n\t\t\n\t\t\n\t\t\tAmitSinger\n\t\t\n\t\t10.1016/j.jsb.2014.03.003\n\t\t24631969\n\t\tPMC4014198\n\t\t\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t186\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c82cc67723bebd866a3427"},"refKey":86},
{"_key":"60c82cc67723bebd866a342e","_id":"references/60c82cc67723bebd866a342e","_rev":"_cfFmKPa---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cc67723bebd866a3427"},"refKey":0},
{"_key":"60c82cc67723bebd866a342f","_id":"references/60c82cc67723bebd866a342f","_rev":"_cfFmKPm---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cc67723bebd866a3427"},"refKey":29},
{"_key":"60c82cc67723bebd866a3430","_id":"references/60c82cc67723bebd866a3430","_rev":"_cfFmKPy---","tei":"\n\t\n\t\tSide-chain-directed model and map validation for 3D Electron Cryomicroscopy\n\t\t\n\t\t\tBenjaminABarad\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tRay Yu-RueiWang\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tFrankDimaio\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tJamesSFraser\n\t\t\n\t\t10.1101/014738\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c82cc67723bebd866a3427"},"refKey":2},
{"_key":"60c82cc67723bebd866a3431","_id":"references/60c82cc67723bebd866a3431","_rev":"_cfFmKQ----","tei":"\n\t\n\t\tImprovement of molecular-replacement models withSculptor\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t10.1107/s0907444910051218\n\t\t21460448\n\t\tPMC3069745\n\t\tark:/67375/WNG-X894BH15-0\n\t\t34BD626D5345BF1AF2E5F19C589A27366E172B5A\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c82cc67723bebd866a3427"},"refKey":11},
{"_key":"60c82cdf7723bebd866a3455","_id":"references/60c82cdf7723bebd866a3455","_rev":"_cfFmKQK---","tei":"\n\t\n\t\tVaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines\n\t\t\n\t\t\tIADoytchinova\n\t\t\n\t\t\n\t\t\tDRFlower\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cdf7723bebd866a3454"},"refKey":35},
{"_key":"60c82cdf7723bebd866a3456","_id":"references/60c82cdf7723bebd866a3456","_rev":"_cfFmKQS---","tei":"\n\t\n\t\tReliable B Cell Epitope Predictions: Impacts of Method Development and Improved Benchmarking\n\t\t\n\t\t\tJensVindahlKringelum\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1371/journal.pcbi.1002829\n\t\t23300419\n\t\tPMC3531324\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t8\n\t\t\t12\n\t\t\te1002829\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c82cdf7723bebd866a3454"},"refKey":38},
{"_key":"60c82cdf7723bebd866a3457","_id":"references/60c82cdf7723bebd866a3457","_rev":"_cfFmKQe---","tei":"\n\t\n\t\tPepSite: prediction of peptide-binding sites from protein surfaces\n\t\t\n\t\t\tLGTrabuco\n\t\t\n\t\t\n\t\t\tSLise\n\t\t\n\t\t\n\t\t\tEPetsalaki\n\t\t\n\t\t\n\t\t\tRBRussell\n\t\t\n\t\t10.1093/nar/gks398\n\t\t22600738\n\t\tPMC3394340\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue)\n\n","document":{"$oid":"60c82cdf7723bebd866a3454"},"refKey":42},
{"_key":"60c82cdf7723bebd866a3458","_id":"references/60c82cdf7723bebd866a3458","_rev":"_cfFmKQq---","tei":"\n\t\n\t\tScalable web services for the PSIPRED protein analysis workbench\n\t\t\n\t\t\tDWBuchan\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c82cdf7723bebd866a3454"},"refKey":33},
{"_key":"60c82cdf7723bebd866a3459","_id":"references/60c82cdf7723bebd866a3459","_rev":"_cfFmKQ2---","tei":"\n\t\n\t\tExPASy: the proteomics server for in-depth protein knowledge and analysis\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82cdf7723bebd866a3454"},"refKey":32},
{"_key":"60c82d2f7723bebd866a349d","_id":"references/60c82d2f7723bebd866a349d","_rev":"_cfFmKRC---","tei":"\n\t\n\t\tParallelization of MAFFT for large-scale multiple sequence alignments\n\t\t\n\t\t\tTNakamura\n\t\t\n\t\t\n\t\t\tKDYamada\n\t\t\n\t\t\n\t\t\tKTomii\n\t\t\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82d2f7723bebd866a349c"},"refKey":11},
{"_key":"60c82d347723bebd866a34a2","_id":"references/60c82d347723bebd866a34a2","_rev":"_cfFmKRO---","tei":"\n\t\n\t\tThe metagenomics RAST server -a public resource for the automatic phylogenetic and functional analysis of metagenomes\n\t\t\n\t\t\tFMeyer\n\t\t\n\t\t\n\t\t\tDPaarmann\n\t\t\n\t\t\n\t\t\tMSouza\n\t\t\n\t\t\n\t\t\tROlson\n\t\t\n\t\t\n\t\t\tEMGlass\n\t\t\n\t\t\n\t\t\tMKubal\n\t\t\n\t\t\n\t\t\tTPaczian\n\t\t\n\t\t\n\t\t\tARodriguez\n\t\t\n\t\t\n\t\t\tRStevens\n\t\t\n\t\t\n\t\t\tAWilke\n\t\t\n\t\t\n\t\t\tJWilkening\n\t\t\n\t\t\n\t\t\tRAEdwards\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82d347723bebd866a34a1"},"refKey":68},
{"_key":"60c82d347723bebd866a34a3","_id":"references/60c82d347723bebd866a34a3","_rev":"_cfFmKRa---","tei":"\n\t\n\t\tIntroduction to the Analysis of Environmental Sequences: Metagenomics with MEGAN\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tSuparnaMitra\n\t\t\n\t\t10.1007/978-1-61779-585-5_17\n\t\t22399469\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t21\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82d347723bebd866a34a1"},"refKey":40},
{"_key":"60c82d347723bebd866a34a4","_id":"references/60c82d347723bebd866a34a4","_rev":"_cfFmKRm---","tei":"\n\t\n\t\tGeneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tMCheung\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMentjies\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82d347723bebd866a34a1"},"refKey":49},
{"_key":"60c82d4e7723bebd866a34b3","_id":"references/60c82d4e7723bebd866a34b3","_rev":"_cfFmKRu---","tei":"\n\t\n\t\tNetSurfP‐2.0: Improved prediction of protein structural features by integrated deep learning\n\t\t\n\t\t\tMichaelSchantzKlausen\n\t\t\n\t\t\n\t\t\tMartinClosterJespersen\n\t\t\n\t\t\n\t\t\tHenrikNielsen\n\t\t\n\t\t\n\t\t\tKamillaKjærgaardJensen\n\t\t\n\t\t\n\t\t\tVanessaIsabellJurtz\n\t\t\n\t\t\n\t\t\tCasperKaaeSønderby\n\t\t\n\t\t\n\t\t\tMortenOtto AlexanderSommer\n\t\t\n\t\t\n\t\t\tOleWinther\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tBentPetersen\n\t\t\t0000-0002-2472-8317\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\t0000-0003-2615-5695\n\t\t\n\t\t10.1002/prot.25674\n\t\t30785653\n\t\t\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t87\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c82d4e7723bebd866a34b2"},"refKey":24},
{"_key":"60c82d4e7723bebd866a34b4","_id":"references/60c82d4e7723bebd866a34b4","_rev":"_cfFmKR6---","tei":"\n\t\n\t\t\n\t\t\tMEPeters\n\t\t\n\t\t\n\t\t\tMNeumann\n\t\t\n\t\tarXiv:1802.05365\n\t\tDeep contextualized word representations\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82d4e7723bebd866a34b2"},"refKey":9},
{"_key":"60c82d4e7723bebd866a34b5","_id":"references/60c82d4e7723bebd866a34b5","_rev":"_cfFmKSG---","tei":"\n\t\n\t\tPISCES: A protein sequence culling server\n\t\t\n\t\t\tGWang\n\t\t\n\t\t\n\t\t\tRLDunbrackJr\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t19\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82d4e7723bebd866a34b2"},"refKey":39},
{"_key":"60c82d4e7723bebd866a34b6","_id":"references/60c82d4e7723bebd866a34b6","_rev":"_cfFmKSS---","tei":"\n\t\n\t\tAnaconda software distribution\n\t\t\n\t\t\tCAnalytics\n\t\t\n\t\n\t\n\t\tComputer software. Vers\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82d4e7723bebd866a34b2"},"refKey":62},
{"_key":"60c82dc87723bebd866a3519","_id":"references/60c82dc87723bebd866a3519","_rev":"_cfFmKSe---","tei":"\n\t\n\t\tfastp: an ultra-fast all-in-one FASTQ preprocessor\n\t\t\n\t\t\tShifuChen\n\t\t\n\t\t\n\t\t\tYanqingZhou\n\t\t\n\t\t\n\t\t\tYaruChen\n\t\t\n\t\t\n\t\t\tJiaGu\n\t\t\n\t\t10.1101/274100\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":23},
{"_key":"60c82dc87723bebd866a351a","_id":"references/60c82dc87723bebd866a351a","_rev":"_cfFmKSq---","tei":"\n\t\n\t\t\n\t\t\tAKassambara\n\t\t\n\t\t\n\t\t\tGgpubr\n\t\t\n\t\t\n\t\tggplot2" based publication ready plots\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":35},
{"_key":"60c82dc87723bebd866a351b","_id":"references/60c82dc87723bebd866a351b","_rev":"_cfFmKS2---","tei":"\n\t\n\t\tImproved metagenomic analysis with Kraken 2\n\t\t\n\t\t\tDerrickEWood\n\t\t\t0000-0002-7429-1854\n\t\t\n\t\t\n\t\t\tJenniferLu\n\t\t\t0000-0001-9167-2002\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\t0000-0003-2437-1976\n\t\t\n\t\t10.1101/762302\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t20\n\t\t\t257\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":41},
{"_key":"60c82dc87723bebd866a351c","_id":"references/60c82dc87723bebd866a351c","_rev":"_cfFmKT----","tei":"\n\t\n\t\tHaplotype-based variant detection from short-read sequencing\n\t\t\n\t\t\tEGarrison\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\tarXiv:1207.3907v2\n\t\t\n\t\t\t\n\t\t\n\t\n\tq-bio.GN\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":36},
{"_key":"60c82dc87723bebd866a351d","_id":"references/60c82dc87723bebd866a351d","_rev":"_cfFmKTK---","tei":"\n\t\n\t\tQuality control and preprocessing of metagenomic datasets\n\t\t\n\t\t\tRSchmieder\n\t\t\n\t\t\n\t\t\tREdwards\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":25},
{"_key":"60c82dc87723bebd866a351e","_id":"references/60c82dc87723bebd866a351e","_rev":"_cfFmKTW---","tei":"\n\t\n\t\tSOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tYChen\n\t\t\n\t\t\n\t\t\tCShi\n\t\t\n\t\t\n\t\t\tZHuang\n\t\t\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tSLi\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tJYe\n\t\t\n\t\t\n\t\t\tCYu\n\t\t\n\t\t\n\t\t\tZLi\n\t\t\n\t\n\t\n\t\tGigascience\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":24},
{"_key":"60c82dc87723bebd866a351f","_id":"references/60c82dc87723bebd866a351f","_rev":"_cfFmKTi---","tei":"\n\t\n\t\tPilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement\n\t\t\n\t\t\tBJWalker\n\t\t\n\t\t\n\t\t\tTAbeel\n\t\t\n\t\t\n\t\t\tTShea\n\t\t\n\t\t\n\t\t\tMPriest\n\t\t\n\t\t\n\t\t\tAAbouelliel\n\t\t\n\t\t\n\t\t\tSSakthikumar\n\t\t\n\t\t\n\t\t\tCACuomo\n\t\t\n\t\t\n\t\t\tQZeng\n\t\t\n\t\t\n\t\t\tJWortman\n\t\t\n\t\t\n\t\t\tSKYoung\n\t\t\n\t\t\n\t\t\tAMEarl\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t9\n\t\t\te112963\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":28},
{"_key":"60c82dc87723bebd866a3520","_id":"references/60c82dc87723bebd866a3520","_rev":"_cfFmKTu---","tei":"\n\t\n\t\tKraken: ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDEWood\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\tR46\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":22},
{"_key":"60c82dc87723bebd866a3521","_id":"references/60c82dc87723bebd866a3521","_rev":"_cfFmKT6---","tei":"\n\t\n\t\tSOAP2: an improved ultrafast tool for short read alignment\n\t\t\n\t\t\tRLi\n\t\t\n\t\t\n\t\t\tCYu\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tTWLam\n\t\t\n\t\t\n\t\t\tSMYiu\n\t\t\n\t\t\n\t\t\tKKristiansen\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":39},
{"_key":"60c82dc87723bebd866a3522","_id":"references/60c82dc87723bebd866a3522","_rev":"_cfFmKUG---","tei":"\n\t\n\t\tBAMClipper: removing primers from alignments to minimize false-negative mutations in amplicon next-generation sequencing\n\t\t\n\t\t\tChunHangAu\n\t\t\n\t\t\n\t\t\tDonaNHo\n\t\t\n\t\t\n\t\t\tAvaKwong\n\t\t\n\t\t\n\t\t\tTsunLeungChan\n\t\t\n\t\t\n\t\t\tEdmondS KMa\n\t\t\n\t\t10.1038/s41598-017-01703-6\n\t\t28484262\n\t\tPMC5431517\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t1567\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":26},
{"_key":"60c82dc87723bebd866a3523","_id":"references/60c82dc87723bebd866a3523","_rev":"_cfFmKUO---","tei":"\n\t\n\t\tggplot2\n\t\t\n\t\t\tH:Wickham\n\t\t\n\t\t\n\t\t\tGgplot2\n\t\t\n\t\t10.1002/wics.147\n\t\tark:/67375/WNG-D88W04X1-X\n\t\t13A0FE1CD154EA974D410598275284EF095E4859\n\t\n\t\n\t\tWiley Interdisciplinary Reviews: Computational Statistics\n\t\tWIREs Comp Stat\n\t\t1939-5108\n\t\t\n\t\t\t3\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":32},
{"_key":"60c82dc87723bebd866a3524","_id":"references/60c82dc87723bebd866a3524","_rev":"_cfFmKUa---","tei":"\n\t\n\t\tSnippy: fast bacterial variant calling from NGS reads\n\t\t\n\t\t\tTSeemann\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":37},
{"_key":"60c82dc87723bebd866a3525","_id":"references/60c82dc87723bebd866a3525","_rev":"_cfFmKUm---","tei":"\n\t\n\t\t1000 Genome Project Data Processing Subgroup. The sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":31},
{"_key":"60c82dc87723bebd866a3526","_id":"references/60c82dc87723bebd866a3526","_rev":"_cfFmKUy---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":33},
{"_key":"60c82dc87723bebd866a3527","_id":"references/60c82dc87723bebd866a3527","_rev":"_cfFmKV----","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":27},
{"_key":"60c82dc87723bebd866a3528","_id":"references/60c82dc87723bebd866a3528","_rev":"_cfFmKVK---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":30},
{"_key":"60c82dc87723bebd866a3529","_id":"references/60c82dc87723bebd866a3529","_rev":"_cfFmKVW---","tei":"\n\t\n\t\tGraph-based genome alignment and genotyping with HISAT2 and HISAT-genotype\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tJMPaggi\n\t\t\n\t\t\n\t\t\tCPark\n\t\t\n\t\t\n\t\t\tCBennett\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dc87723bebd866a3518"},"refKey":40},
{"_key":"60c82dd97723bebd866a3547","_id":"references/60c82dd97723bebd866a3547","_rev":"_cfFmKVe---","tei":"\n\t\n\t\tAndromeda: a peptide search engine integrated into the MaxQuant environment\n\t\t\n\t\t\tJCox\n\t\t\n\t\t\n\t\t\tNNeuhauser\n\t\t\n\t\t\n\t\t\tAMichalski\n\t\t\n\t\t\n\t\t\tRAScheltema\n\t\t\n\t\t\n\t\t\tJVOlsen\n\t\t\n\t\t\n\t\t\tMMann\n\t\t\n\t\n\t\n\t\tJ Proteome Res\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82dd97723bebd866a3546"},"refKey":45},
{"_key":"60c82e8f7723bebd866a35c6","_id":"references/60c82e8f7723bebd866a35c6","_rev":"_cfFmKVq---","tei":"\n\t\n\t\tRNA splicing is a primary link between genetic variation and disease\n\t\t\n\t\t\tYILi\n\t\t\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t352\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82e8e7723bebd866a35c5"},"refKey":32},
{"_key":"60c82e8f7723bebd866a35c7","_id":"references/60c82e8f7723bebd866a35c7","_rev":"_cfFmKV2---","tei":"\n\t\n\t\tVISTA Enhancer Browser-a database of tissue-specific human enhancers\n\t\t\n\t\t\tAVisel\n\t\t\n\t\t\n\t\t\tSMinovitsky\n\t\t\n\t\t\n\t\t\tIDubchak\n\t\t\n\t\t\n\t\t\tLAPennacchio\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82e8e7723bebd866a35c5"},"refKey":5},
{"_key":"60c82e8f7723bebd866a35c8","_id":"references/60c82e8f7723bebd866a35c8","_rev":"_cfFmKWC---","tei":"\n\t\n\t\tGREAT improves functional interpretation of cis-regulatory regions\n\t\t\n\t\t\tCYMclean\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82e8e7723bebd866a35c5"},"refKey":41},
{"_key":"60c82e8f7723bebd866a35c9","_id":"references/60c82e8f7723bebd866a35c9","_rev":"_cfFmKWO---","tei":"\n\t\n\t\tMaster TFs and mediator establish super-enhancers at key cell identity genes\n\t\t\n\t\t\tWAWhyte\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t153\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82e8e7723bebd866a35c5"},"refKey":49},
{"_key":"60c82e8f7723bebd866a35ca","_id":"references/60c82e8f7723bebd866a35ca","_rev":"_cfFmKWa---","tei":"\n\t\n\t\tSelective inhibition of tumor oncogenes by disruption of super-enhancers\n\t\t\n\t\t\tJLovén\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t153\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82e8e7723bebd866a35c5"},"refKey":50},
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{"_key":"60c82f207723bebd866a366c","_id":"references/60c82f207723bebd866a366c","_rev":"_cfFmKXq---","tei":"\n\t\n\t\tA Community Resource Benchmarking Predictions of Peptide Binding to MHC-I Molecules\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tHuynh-HoaBui\n\t\t\n\t\t\n\t\t\tSuneFrankild\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tEmrahKostem\n\t\t\n\t\t\n\t\t\tDerekBasch\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tMikkelHarndahl\n\t\t\n\t\t\n\t\t\tWardFleri\n\t\t\n\t\t\n\t\t\tStephenSWilson\n\t\t\n\t\t\n\t\t\tJohnSidney\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tSorenBuus\n\t\t\n\t\t\n\t\t\tAlessandroSette\n\t\t\n\t\t10.1371/journal.pcbi.0020065\n\t\t16789818\n\t\tPMC1475712\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comp Biol\n\t\t1553-734X\n\t\t1553-7358\n\t\t\n\t\t\t2\n\t\t\t6\n\t\t\te65\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c82f207723bebd866a366a"},"refKey":15},
{"_key":"60c82f207723bebd866a366d","_id":"references/60c82f207723bebd866a366d","_rev":"_cfFmKXy---","tei":"\n\t\n\t\tEnhancement to the RANKPEP resource for the prediction of peptide binding to MHC molecules using profiles\n\t\t\n\t\t\tPedroa.Reche\n\t\t\n\t\t\n\t\t\tJohn-PaulGlutting\n\t\t\n\t\t\n\t\t\tHongZhang\n\t\t\n\t\t\n\t\t\tEllisl.Reinherz\n\t\t\n\t\t10.1007/s00251-004-0709-7\n\t\t15349703\n\t\tark:/67375/VQC-6BNMM00M-F\n\t\t4281276A2B809AAB844EDC6EF84B626BAD2C9FF2\n\t\n\t\n\t\tImmunogenetics\n\t\tImmunogenetics\n\t\t0093-7711\n\t\t1432-1211\n\t\t\n\t\t\t56\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c82f207723bebd866a366a"},"refKey":14},
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{"_key":"60c82f3a7723bebd866a36d1","_id":"references/60c82f3a7723bebd866a36d1","_rev":"_cfFmKYK---","tei":"\n\t\n\t\tShort- and long-term effects of continuous versus intermittent restrictive diet approaches on body composition and the metabolic profile in overweight and obese postmenopausal women\n\t\t\n\t\t\tHélèneArguin\n\t\t\n\t\t\n\t\t\tIsabelleJDionne\n\t\t\n\t\t\n\t\t\tMartinSénéchal\n\t\t\n\t\t\n\t\t\tDanielleRBouchard\n\t\t\n\t\t\n\t\t\tAndréCCarpentier\n\t\t\n\t\t\n\t\t\tJean-LucArdilouze\n\t\t\n\t\t\n\t\t\tAngeloTremblay\n\t\t\n\t\t\n\t\t\tClaudeLeblanc\n\t\t\n\t\t\n\t\t\tMartinBrochu\n\t\t\n\t\t10.1097/gme.0b013e318250a287\n\t\t22735163\n\t\n\t\n\t\tMenopause: The Journal of The North American Menopause Society\n\t\tMenopause: The Journal of The North American Menopause Society\n\t\t1072-3714\n\t\t\n\t\t\t19\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOvid Technologies (Wolters Kluwer Health)\n\t\t\n\t\n\n","document":{"$oid":"60c82f3a7723bebd866a36d0"},"refKey":29},
{"_key":"60c82f3a7723bebd866a36d2","_id":"references/60c82f3a7723bebd866a36d2","_rev":"_cfFmKYW---","tei":"\n\t\n\t\tYear-long weight loss treatment for obese patients with type II diabetes: Does including an intermittent very-low-calorie diet improve outcome?\n\t\t\n\t\t\tRenaRWing\n\t\t\n\t\t\n\t\t\tElaineBlair\n\t\t\n\t\t\n\t\t\tMarshaMarcus\n\t\t\n\t\t\n\t\t\tLeonardHEpstein\n\t\t\n\t\t\n\t\t\tJeanHarvey\n\t\t\n\t\t10.1016/0002-9343(94)90302-6\n\t\t7942937\n\t\t0002-9343(94)90302-6\n\t\tark:/67375/6H6-5PX5GHXM-0\n\t\t41650FBA15B985C9F921A58859C8C69579FF994C\n\t\n\t\n\t\tThe American Journal of Medicine\n\t\tThe American Journal of Medicine\n\t\t0002-9343\n\t\t\n\t\t\t97\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c82f3a7723bebd866a36d0"},"refKey":31},
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{"_key":"60c82f767723bebd866a3702","_id":"references/60c82f767723bebd866a3702","_rev":"_cfFmKY6---","tei":"\n\t\n\t\tStata statistical software: Release 16\n\t\t\n\t\t\tStatacorp\n\t\t\n\t\n\t\n\t\tStataCorp LLC: College Station, TX\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82f767723bebd866a3701"},"refKey":14},
{"_key":"60c82f767723bebd866a3703","_id":"references/60c82f767723bebd866a3703","_rev":"_cfFmKZK---","tei":"\n\t\n\t\tSecond-generation PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tCCChang\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82f767723bebd866a3701"},"refKey":10},
{"_key":"60c82f767723bebd866a3704","_id":"references/60c82f767723bebd866a3704","_rev":"_cfFmKZW---","tei":"\n\t\n\t\tPlink 1.9\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\t\n\t\t\tCChang\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82f767723bebd866a3701"},"refKey":11},
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{"_key":"60c82f887723bebd866a3712","_id":"references/60c82f887723bebd866a3712","_rev":"_cfFmKZu---","tei":"\n\t\n\t\t\n\t\t\tGGuennebaud\n\t\t\n\t\t\n\t\t\tBJacob\n\t\t\n\t\tEigen v3\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82f887723bebd866a3710"},"refKey":8},
{"_key":"60c82f887723bebd866a3713","_id":"references/60c82f887723bebd866a3713","_rev":"_cfFmKZ6---","tei":"\n\t\n\t\tSolving the Christoffel equation: Phase and group velocities\n\t\t\n\t\t\tJanWJaeken\n\t\t\t0000-0002-8390-0615\n\t\t\n\t\t\n\t\t\tStefaanCottenier\n\t\t\t0000-0003-2541-8043\n\t\t\n\t\t10.1016/j.cpc.2016.06.014\n\t\t\n\t\n\t\n\t\tComputer Physics Communications\n\t\tComputer Physics Communications\n\t\t0010-4655\n\t\t\n\t\t\t207\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c82f887723bebd866a3710"},"refKey":11},
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{"_key":"60c82f957723bebd866a373e","_id":"references/60c82f957723bebd866a373e","_rev":"_cfFmKbG---","tei":"\n\t\n\t\tSignalP 4.0: discriminating signal peptides from transmembrane regions\n\t\t\n\t\t\tTNPetersen\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82f957723bebd866a373b"},"refKey":25},
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{"_key":"60c82f957723bebd866a3740","_id":"references/60c82f957723bebd866a3740","_rev":"_cfFmKba---","tei":"\n\t\n\t\tUltrafast and memory-efficient alignment of short DNA sequences to the human genome\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tCTrapnell\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t10\n\t\t\tR25\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82f957723bebd866a373b"},"refKey":13},
{"_key":"60c82f957723bebd866a3741","_id":"references/60c82f957723bebd866a3741","_rev":"_cfFmKbm---","tei":"\n\t\n\t\tSSAHA: A Fast Search Method for Large DNA Databases\n\t\t\n\t\t\tZNing\n\t\t\n\t\t\n\t\t\tAJCox\n\t\t\n\t\t\n\t\t\tJCMullikin\n\t\t\n\t\t10.1101/gr.194201\n\t\t11591649\n\t\tPMC311141\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t11\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c82f957723bebd866a373b"},"refKey":19},
{"_key":"60c82fa97723bebd866a3759","_id":"references/60c82fa97723bebd866a3759","_rev":"_cfFmKby---","tei":"\n\t\n\t\tMesquite: a Modular System for Evolutionary Analysis\n\t\t\n\t\t\tWPMaddison\n\t\t\n\t\t\n\t\t\tDRMaddison\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82fa97723bebd866a3758"},"refKey":38},
{"_key":"60c82fa97723bebd866a375a","_id":"references/60c82fa97723bebd866a375a","_rev":"_cfFmKc----","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82fa97723bebd866a3758"},"refKey":16},
{"_key":"60c82fb47723bebd866a3764","_id":"references/60c82fb47723bebd866a3764","_rev":"_cfFmKcK---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tBReynisson\n\t\t\n\t\t\n\t\t\tBAlvarez\n\t\t\n\t\t\n\t\t\tSPaul\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82fb47723bebd866a3763"},"refKey":35},
{"_key":"60c82fef7723bebd866a379f","_id":"references/60c82fef7723bebd866a379f","_rev":"_cfFmKcW---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\tR: A Language and Environment for Statistical Computing. R: A Language and Environment for Statistical Computing; R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82fef7723bebd866a379e"},"refKey":21},
{"_key":"60c82fef7723bebd866a37a0","_id":"references/60c82fef7723bebd866a37a0","_rev":"_cfFmKci---","tei":"\n\t\n\t\tImplement of Venn Diagram. ggVennDiagram: A "ggplot2" Implement of Venn Diagram\n\t\t\n\t\t\tC.-HGao\n\t\t\n\t\tggVennDiagram: A "ggplot2\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c82fef7723bebd866a379e"},"refKey":23},
{"_key":"60c830127723bebd866a37b8","_id":"references/60c830127723bebd866a37b8","_rev":"_cfFmKcu---","tei":"\n\t\n\t\tTmbase-A database of membrane spanning proteins segments\n\t\t\n\t\t\tKHofmann\n\t\t\n\t\t\n\t\t\tWStoffel\n\t\t\n\t\n\t\n\t\tBiol. Chem. Hoppe -Seyler\n\t\t\n\t\t\t374\n\t\t\t166\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830127723bebd866a37b7"},"refKey":8},
{"_key":"60c830127723bebd866a37b9","_id":"references/60c830127723bebd866a37b9","_rev":"_cfFmKc6---","tei":"\n\t\n\t\tPrediction of transmembrane alpha-helices in prokaryotic membrane proteins: the Dense Alignment Surface method\n\t\t\n\t\t\tMCserzo\n\t\t\n\t\t\n\t\t\tEWallin\n\t\t\n\t\t\n\t\t\tISimon\n\t\t\n\t\t\n\t\t\tHGVon\n\t\t\n\t\t\n\t\t\tAElofsson\n\t\t\n\t\n\t\n\t\tProtein Eng\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830127723bebd866a37b7"},"refKey":2},
{"_key":"60c830137723bebd866a37c4","_id":"references/60c830137723bebd866a37c4","_rev":"_cfFmKdG---","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tLO'neal\n\t\t\n\t\t\n\t\t\tLMcleod\n\t\t\n\t\t\n\t\t\tGDelacqua\n\t\t\n\t\t\n\t\t\tFDelacqua\n\t\t\n\t\t\n\t\t\tJKirby\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\n\t\n\t\tJ. Biomed. Inform\n\t\t\n\t\t\t95\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830137723bebd866a37c3"},"refKey":7},
{"_key":"60c830547723bebd866a37e5","_id":"references/60c830547723bebd866a37e5","_rev":"_cfFmKdS---","tei":"\n\t\n\t\tRayyan-a web and mobile app for systematic reviews\n\t\t\n\t\t\tMOuzzani\n\t\t\n\t\t\n\t\t\tHHammady\n\t\t\n\t\t\n\t\t\tZFedorowicz\n\t\t\n\t\n\t\n\t\tSyst Rev\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830547723bebd866a37e4"},"refKey":10},
{"_key":"60c830637723bebd866a37f1","_id":"references/60c830637723bebd866a37f1","_rev":"_cfFmKde---","tei":"\n\t\n\t\tStatistical power analyses using G*Power 3.1: Tests for correlation and regression analyses\n\t\t\n\t\t\tFFaul\n\t\t\n\t\t\n\t\t\tEErdfelder\n\t\t\n\t\t\n\t\t\tABuchner\n\t\t\n\t\t\n\t\t\tAGLang\n\t\t\n\t\n\t\n\t\tBehavior Research Methods\n\t\t\n\t\t\t41\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830637723bebd866a37f0"},"refKey":18},
{"_key":"60c830697723bebd866a37f6","_id":"references/60c830697723bebd866a37f6","_rev":"_cfFmKdm---","tei":"\n\t\n\t\t\n\t\tCloverleaf3d\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830697723bebd866a37f5"},"refKey":0},
{"_key":"60c830697723bebd866a37f7","_id":"references/60c830697723bebd866a37f7","_rev":"_cfFmKdy---","tei":"\n\t\n\t\tCloverleaf: preparing hydrodynamics codes for exascale\n\t\t\n\t\t\tAMallinson\n\t\t\n\t\n\t\n\t\tThe Cray User Group\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830697723bebd866a37f5"},"refKey":13},
{"_key":"60c830697723bebd866a37f8","_id":"references/60c830697723bebd866a37f8","_rev":"_cfFmKe----","tei":"\n\t\n\t\tVTK-m: Accelerating the Visualization Toolkit for Massively Threaded Architectures\n\t\t\n\t\t\tKennethMoreland\n\t\t\n\t\t\n\t\t\tChristopherSewell\n\t\t\n\t\t\n\t\t\tWilliamUsher\n\t\t\n\t\t\n\t\t\tLi-TaLo\n\t\t\n\t\t\n\t\t\tJeremyMeredith\n\t\t\n\t\t\n\t\t\tDavidPugmire\n\t\t\n\t\t\n\t\t\tJamesKress\n\t\t\n\t\t\n\t\t\tHendrikSchroots\n\t\t\n\t\t\n\t\t\tKwan-LiuMa\n\t\t\n\t\t\n\t\t\tHankChilds\n\t\t\n\t\t\n\t\t\tMatthewLarsen\n\t\t\n\t\t\n\t\t\tChun-MingChen\n\t\t\n\t\t\n\t\t\tRobertMaynard\n\t\t\n\t\t\n\t\t\tBerkGeveci\n\t\t\n\t\t10.1109/mcg.2016.48\n\t\t28113158\n\t\n\t\n\t\tIEEE Computer Graphics and Applications\n\t\tIEEE Comput. Grap. Appl.\n\t\t0272-1716\n\t\t\n\t\t\t36\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c830697723bebd866a37f5"},"refKey":14},
{"_key":"60c830697723bebd866a37f9","_id":"references/60c830697723bebd866a37f9","_rev":"_cfFmKeK---","tei":"\n\t\n\t\tThe ALPINE In Situ Infrastructure\n\t\t\n\t\t\tMatthewLarsen\n\t\t\n\t\t\n\t\t\tJamesAhrens\n\t\t\n\t\t\n\t\t\tUtkarshAyachit\n\t\t\n\t\t\n\t\t\tEricBrugger\n\t\t\n\t\t\n\t\t\tHankChilds\n\t\t\n\t\t\n\t\t\tBerkGeveci\n\t\t\n\t\t\n\t\t\tCyrusHarrison\n\t\t\n\t\t10.1145/3144769.3144778\n\t\n\t\n\t\tProceedings of the In Situ Infrastructures on Enabling Extreme-Scale Analysis and Visualization - ISAV'17\n\t\t\t\tthe In Situ Infrastructures on Enabling Extreme-Scale Analysis and Visualization - ISAV'17\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tThe ALPINE in situ infrastructure: ascending from the ashes of strawman\n\n","document":{"$oid":"60c830697723bebd866a37f5"},"refKey":7},
{"_key":"60c830697723bebd866a37fa","_id":"references/60c830697723bebd866a37fa","_rev":"_cfFmKeW---","tei":"\n\t\n\t\tHello ADIOS: the challenges and lessons of developing leadership class I/O frameworks\n\t\t\n\t\t\tQLiu\n\t\t\n\t\n\t\n\t\tConcurr. Comput. Pract. Exp\n\t\t\n\t\t\t26\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830697723bebd866a37f5"},"refKey":8},
{"_key":"60c8308e7723bebd866a3817","_id":"references/60c8308e7723bebd866a3817","_rev":"_cfFmKei---","tei":"\n\t\n\t\tSMART: a web-based tool for the study of genetically mobile domains\n\t\t\n\t\t\tJSchultz\n\t\t\n\t\t10.1093/nar/28.1.231\n\t\t10592234\n\t\tPMC102444\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t28\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8308e7723bebd866a3816"},"refKey":19},
{"_key":"60c8308e7723bebd866a3818","_id":"references/60c8308e7723bebd866a3818","_rev":"_cfFmKeu---","tei":"\n\t\n\t\tSMART, a simple modular architecture research tool: Identification of signaling domains\n\t\t\n\t\t\tJSchultz\n\t\t\n\t\t\n\t\t\tFMilpetz\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t\n\t\t\tCPPonting\n\t\t\n\t\t10.1073/pnas.95.11.5857\n\t\t9600884\n\t\tPMC34487\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t95\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c8308e7723bebd866a3816"},"refKey":20},
{"_key":"60c830987723bebd866a382b","_id":"references/60c830987723bebd866a382b","_rev":"_cfFmKe6---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c830987723bebd866a382a"},"refKey":9},
{"_key":"60c830cb7723bebd866a384a","_id":"references/60c830cb7723bebd866a384a","_rev":"_cfFmKfG---","tei":"\n\t\n\t\tPvclust: an R package for assessing the uncertainty in hierarchical clustering\n\t\t\n\t\t\tRSuzuki\n\t\t\n\t\t\n\t\t\tHShimodaira\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830cb7723bebd866a3849"},"refKey":59},
{"_key":"60c830cb7723bebd866a384b","_id":"references/60c830cb7723bebd866a384b","_rev":"_cfFmKfS---","tei":"\n\t\n\t\tThe BioGRID interaction database: 2017 update\n\t\t\n\t\t\tAndrewChatr-Aryamontri\n\t\t\n\t\t\n\t\t\tRoseOughtred\n\t\t\n\t\t\n\t\t\tLorrieBoucher\n\t\t\n\t\t\n\t\t\tJenniferRust\n\t\t\n\t\t\n\t\t\tChristieChang\n\t\t\n\t\t\n\t\t\tNadineKKolas\n\t\t\n\t\t\n\t\t\tLaraO'donnell\n\t\t\n\t\t\n\t\t\tSaraOster\n\t\t\n\t\t\n\t\t\tChandraTheesfeld\n\t\t\n\t\t\n\t\t\tAdnaneSellam\n\t\t\n\t\t\n\t\t\tChrisStark\n\t\t\n\t\t\n\t\t\tBobby-JoeBreitkreutz\n\t\t\n\t\t\n\t\t\tKaraDolinski\n\t\t\n\t\t\n\t\t\tMikeTyers\n\t\t\n\t\t10.1093/nar/gkw1102\n\t\t27980099\n\t\tPMC5210573\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c830cb7723bebd866a3849"},"refKey":15},
{"_key":"60c830cb7723bebd866a384c","_id":"references/60c830cb7723bebd866a384c","_rev":"_cfFmKfa---","tei":"\n\t\n\t\tKEGG as a reference resource for gene and protein annotation\n\t\t\n\t\t\tMinoruKanehisa\n\t\t\n\t\t\n\t\t\tYokoSato\n\t\t\n\t\t\n\t\t\tMasayukiKawashima\n\t\t\n\t\t\n\t\t\tMihoFurumichi\n\t\t\n\t\t\n\t\t\tMaoTanabe\n\t\t\n\t\t10.1093/nar/gkv1070\n\t\t26476454\n\t\tPMC4702792\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c830cb7723bebd866a3849"},"refKey":16},
{"_key":"60c830cb7723bebd866a384d","_id":"references/60c830cb7723bebd866a384d","_rev":"_cfFmKfm---","tei":"\n\t\n\t\tBlastKOALA and GhostKOALA: KEGG tools for functional characterization of genome and metagenome sequences\n\t\t\n\t\t\tMKanehisa\n\t\t\n\t\t\n\t\t\tYSato\n\t\t\n\t\t\n\t\t\tKMorishima\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t428\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830cb7723bebd866a3849"},"refKey":56},
{"_key":"60c830da7723bebd866a386e","_id":"references/60c830da7723bebd866a386e","_rev":"_cfFmKfy---","tei":"\n\t\n\t\tTransparent Reporting of a multivariable prediction model for Individual Prognosis Or Diagnosis (TRIPOD): Explanation and Elaboration\n\t\t\n\t\t\tKarelG MMoons\n\t\t\n\t\t\n\t\t\tDouglasGAltman\n\t\t\n\t\t\n\t\t\tJohannesBReitsma\n\t\t\n\t\t\n\t\t\tJohnP AIoannidis\n\t\t\n\t\t\n\t\t\tPetraMacaskill\n\t\t\n\t\t\n\t\t\tEwoutWSteyerberg\n\t\t\n\t\t\n\t\t\tAndrewJVickers\n\t\t\n\t\t\n\t\t\tDavidFRansohoff\n\t\t\n\t\t\n\t\t\tGarySCollins\n\t\t\n\t\t10.7326/m14-0698\n\t\t25560730\n\t\t\n\t\n\t\n\t\tAnnals of Internal Medicine\n\t\tAnn Intern Med\n\t\t0003-4819\n\t\t\n\t\t\t162\n\t\t\t1\n\t\t\tW1\n\t\t\t\n\t\t\tAmerican College of Physicians\n\t\t\n\t\n\n","document":{"$oid":"60c830da7723bebd866a386d"},"refKey":5},
{"_key":"60c830e87723bebd866a3878","_id":"references/60c830e87723bebd866a3878","_rev":"_cfFmKg----","tei":"\n\t\n\t\tAPI design for machine learning software: experiences from the scikit-learn\n\t\t\n\t\t\tBuitinck\n\t\t\n\t\n\t\n\t\tECML PKDD Workshop: Languages for Data Mining and Machine Learning\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c830e87723bebd866a3877"},"refKey":43},
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{"_key":"60c832cc7723bebd866a3a77","_id":"references/60c832cc7723bebd866a3a77","_rev":"_cfFmKlm---","tei":"\n\t\n\t\tAn Introduction to Java Geometry Expert\n\t\t\n\t\t\tZhengYe\n\t\t\n\t\t\n\t\t\tShang-ChingChou\n\t\t\n\t\t\n\t\t\tXiao-ShanGao\n\t\t\n\t\t10.1007/978-3-642-21046-4_10\n\t\tark:/67375/HCB-G2H12D65-V\n\t\tCECD2492E62278E8A4FE7B59F794B2EB8BDDC3C7\n\t\t\n\t\n\t\n\t\tAutomated Deduction in Geometry\n\t\t\t\t\n\t\t\tTSturm\n\t\t\tCZengler\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t6301\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c832cc7723bebd866a3a76"},"refKey":6},
{"_key":"60c832fd7723bebd866a3a87","_id":"references/60c832fd7723bebd866a3a87","_rev":"_cfFmKly---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c832fd7723bebd866a3a86"},"refKey":25},
{"_key":"60c832fd7723bebd866a3a88","_id":"references/60c832fd7723bebd866a3a88","_rev":"_cfFmKm----","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\t\n\t\t\tAAGurevich\n\t\t\n\t\t\n\t\t\tMDvorkin\n\t\t\n\t\t\n\t\t\tASKulikov\n\t\t\n\t\t\n\t\t\tVMLesin\n\t\t\n\t\t\n\t\t\tSINikolenko\n\t\t\n\t\t\n\t\t\tSPham\n\t\t\n\t\t\n\t\t\tADPrjibelski\n\t\t\n\t\t\n\t\t\tAVPyshkin\n\t\t\n\t\t\n\t\t\tAVSirotkin\n\t\t\n\t\t\n\t\t\tNVyahhi\n\t\t\n\t\t\n\t\t\tGTesler\n\t\t\n\t\t\n\t\t\tMAAlekseyev\n\t\t\n\t\t\n\t\t\tPAPevzner\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c832fd7723bebd866a3a86"},"refKey":27},
{"_key":"60c832fd7723bebd866a3a89","_id":"references/60c832fd7723bebd866a3a89","_rev":"_cfFmKmK---","tei":"\n\t\n\t\tRAMBO-K: Rapid and Sensitive Removal of Background Sequences from Next Generation Sequencing Data\n\t\t\n\t\t\tSimonHTausch\n\t\t\n\t\t\n\t\t\tBernhardYRenard\n\t\t\n\t\t\n\t\t\tAndreasNitsche\n\t\t\n\t\t\n\t\t\tPiotrWojciechDabrowski\n\t\t\n\t\t10.1371/journal.pone.0137896\n\t\t26379285\n\t\tPMC4574938\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t10\n\t\t\t9\n\t\t\te0137896\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c832fd7723bebd866a3a86"},"refKey":26},
{"_key":"60c832fd7723bebd866a3a8a","_id":"references/60c832fd7723bebd866a3a8a","_rev":"_cfFmKmW---","tei":"\n\t\n\t\tGeneious Basic : an integrated and extendable desktop software platform for the organization and analysis of sequence data\n\t\t\n\t\t\tMKearse\n\t\t\n\t\t\n\t\t\tRMoir\n\t\t\n\t\t\n\t\t\tAWilson\n\t\t\n\t\t\n\t\t\tSStones-Havas\n\t\t\n\t\t\n\t\t\tSSturrock\n\t\t\n\t\t\n\t\t\tSBuxton\n\t\t\n\t\t\n\t\t\tACooper\n\t\t\n\t\t\n\t\t\tSMarkowitz\n\t\t\n\t\t\n\t\t\tCDuran\n\t\t\n\t\t\n\t\t\tTThierer\n\t\t\n\t\t\n\t\t\tBAshton\n\t\t\n\t\t\n\t\t\tPMeintjes\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c832fd7723bebd866a3a86"},"refKey":28},
{"_key":"60c832fd7723bebd866a3a8b","_id":"references/60c832fd7723bebd866a3a8b","_rev":"_cfFmKmi---","tei":"\n\t\n\t\tSeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building\n\t\t\n\t\t\tMGouy\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c832fd7723bebd866a3a86"},"refKey":31},
{"_key":"60c833377723bebd866a3aac","_id":"references/60c833377723bebd866a3aac","_rev":"_cfFmKmu---","tei":"\n\t\n\t\tUseful tests of usefulness of new risk factors: Tools for assessing reclassification and discrimination\n\t\t\n\t\t\tJohanSundström\n\t\t\n\t\t\n\t\t\tLiisaByberg\n\t\t\n\t\t\n\t\t\tRolfGedeborg\n\t\t\n\t\t\n\t\t\tKarlMichaëlsson\n\t\t\n\t\t\n\t\t\tLarsBerglund\n\t\t\n\t\t10.1177/1403494810396556\n\t\t21270137\n\t\t\n\t\n\t\n\t\tScandinavian Journal of Public Health\n\t\tScand J Public Health\n\t\t1403-4948\n\t\t1651-1905\n\t\t\n\t\t\t39\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c833377723bebd866a3aab"},"refKey":13},
{"_key":"60c833427723bebd866a3ab6","_id":"references/60c833427723bebd866a3ab6","_rev":"_cfFmKm6---","tei":"\n\t\n\t\tSnakemake—a scalable bioinformatics workflow engine\n\t\t\n\t\t\tJohannesKöster\n\t\t\n\t\t\n\t\t\tSvenRahmann\n\t\t\n\t\t10.1093/bioinformatics/bty350\n\t\t29788404\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c833427723bebd866a3ab5"},"refKey":5},
{"_key":"60c833427723bebd866a3ab7","_id":"references/60c833427723bebd866a3ab7","_rev":"_cfFmKnG---","tei":"\n\t\n\t\tNextflow enables reproducible computational workflows\n\t\t\n\t\t\tPaoloDi Tommaso\n\t\t\n\t\t\n\t\t\tMariaChatzou\n\t\t\n\t\t\n\t\t\tEvanWFloden\n\t\t\n\t\t\n\t\t\tPabloPrietoBarja\n\t\t\n\t\t\n\t\t\tEmilioPalumbo\n\t\t\n\t\t\n\t\t\tCedricNotredame\n\t\t\n\t\n\t\n\t\tNature biotechnology\n\t\t\n\t\t\t35\n\t\t\t4\n\t\t\t316\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c833427723bebd866a3ab5"},"refKey":6},
{"_key":"60c833427723bebd866a3ab8","_id":"references/60c833427723bebd866a3ab8","_rev":"_cfFmKnS---","tei":"\n\t\n\t\t\n\t\t\tBBushnell\n\t\t\n\t\t\n\t\tBbtools software package\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c833427723bebd866a3ab5"},"refKey":14},
{"_key":"60c833427723bebd866a3ab9","_id":"references/60c833427723bebd866a3ab9","_rev":"_cfFmKne---","tei":"\n\t\n\t\tStringtie enables improved reconstruction of a transcriptome from rna-seq reads\n\t\t\n\t\t\tMihaelaPertea\n\t\t\n\t\t\n\t\t\tMGeo\n\t\t\n\t\t\n\t\t\tCorinaMPertea\n\t\t\n\t\t\n\t\t\tTsung-ChengAntonescu\n\t\t\n\t\t\n\t\t\tJoshuaTChang\n\t\t\n\t\t\n\t\t\tStevenLMendell\n\t\t\n\t\t\n\t\t\tSalzberg\n\t\t\n\t\n\t\n\t\tNature biotechnology\n\t\t\n\t\t\t33\n\t\t\t3\n\t\t\t290\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c833427723bebd866a3ab5"},"refKey":12},
{"_key":"60c833427723bebd866a3aba","_id":"references/60c833427723bebd866a3aba","_rev":"_cfFmKnm---","tei":"\n\t\n\t\tLeveraging multiple transcriptome assembly methods for improved gene structure annotation\n\t\t\n\t\t\tLucaVenturini\n\t\t\t0000-0001-7824-1507\n\t\t\n\t\t\n\t\t\tShabhonamCaim\n\t\t\n\t\t\n\t\t\tGemyGeorgeKaithakottil\n\t\t\n\t\t\n\t\t\tDanielLeeMapleson\n\t\t\n\t\t\n\t\t\tDavidSwarbreck\n\t\t\n\t\t10.1093/gigascience/giy093\n\t\t30052957\n\t\tPMC6105091\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\t2047-217X\n\t\t\n\t\t\t7\n\t\t\t8\n\t\t\t93\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c833427723bebd866a3ab5"},"refKey":17},
{"_key":"60c833657723bebd866a3b36","_id":"references/60c833657723bebd866a3b36","_rev":"_cfFmKny---","tei":"\n\t\n\t\tThe psychophysics toolbox\n\t\t\n\t\t\tDBrainard\n\t\t\n\t\n\t\n\t\tSpatial Vision\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c833657723bebd866a3b35"},"refKey":1},
{"_key":"60c833657723bebd866a3b37","_id":"references/60c833657723bebd866a3b37","_rev":"_cfFmKo----","tei":"\n\t\n\t\tWhat's new in Psychtoolbox-3\n\t\t\n\t\t\tMKleiner\n\t\t\n\t\t\n\t\t\tDBrainard\n\t\t\n\t\t\n\t\t\tDPelli\n\t\t\n\t\t\n\t\t\tAIngling\n\t\t\n\t\t\n\t\t\tRMurray\n\t\t\n\t\t\n\t\t\tCBroussard\n\t\t\n\t\n\t\n\t\tPerception\n\t\t\n\t\t\t36\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c833657723bebd866a3b35"},"refKey":11},
{"_key":"60c833657723bebd866a3b38","_id":"references/60c833657723bebd866a3b38","_rev":"_cfFmKoK---","tei":"\n\t\n\t\tThe VideoToolbox software for visual psychophysics: Transforming numbers into movies\n\t\t\n\t\t\tDenisGPelli\n\t\t\n\t\n\t\n\t\tSpatial Vision\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c833657723bebd866a3b35"},"refKey":13},
{"_key":"60c833677723bebd866a3b41","_id":"references/60c833677723bebd866a3b41","_rev":"_cfFmKoW---","tei":"\n\t\n\t\tFastTree 2 -Approximately Maximum-Likelihood Trees for Large Alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c833677723bebd866a3b40"},"refKey":12},
{"_key":"60c833677723bebd866a3b42","_id":"references/60c833677723bebd866a3b42","_rev":"_cfFmKoi---","tei":"\n\t\n\t\tSpreaD3: interactive visualisation of spatiotemporal history and trait evolutionary processes\n\t\t\n\t\t\tFBielejec\n\t\t\n\t\t\n\t\t\tGBaele\n\t\t\n\t\t\n\t\t\tBVrancken\n\t\t\n\t\t\n\t\t\tMASuchard\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tPLemey\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c833677723bebd866a3b40"},"refKey":16},
{"_key":"60c833727723bebd866a3b53","_id":"references/60c833727723bebd866a3b53","_rev":"_cfFmKou---","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 1. Method and Assessment of Docking Accuracy\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tJayLBanks\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tJasnaJKlicic\n\t\t\n\t\t\n\t\t\tDanielTMainz\n\t\t\n\t\t\n\t\t\tMatthewPRepasky\n\t\t\n\t\t\n\t\t\tEricHKnoll\n\t\t\n\t\t\n\t\t\tMeeShelley\n\t\t\n\t\t\n\t\t\tJasonKPerry\n\t\t\n\t\t\n\t\t\tDavidEShaw\n\t\t\n\t\t\n\t\t\tPerryFrancis\n\t\t\n\t\t\n\t\t\tPeterSShenkin\n\t\t\n\t\t10.1021/jm0306430\n\t\t15027865\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c833727723bebd866a3b52"},"refKey":4},
{"_key":"60c833727723bebd866a3b54","_id":"references/60c833727723bebd866a3b54","_rev":"_cfFmKo6---","tei":"\n\t\n\t\tExtra Precision Glide: Docking and Scoring Incorporating a Model of Hydrophobic Enclosure for Protein−Ligand Complexes\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tMatthewPRepasky\n\t\t\n\t\t\n\t\t\tLeahLFrye\n\t\t\n\t\t\n\t\t\tJeremyRGreenwood\n\t\t\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tPaulCSanschagrin\n\t\t\n\t\t\n\t\t\tDanielTMainz\n\t\t\n\t\t10.1021/jm051256o\n\t\t17034125\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t49\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c833727723bebd866a3b52"},"refKey":5},
{"_key":"60c833727723bebd866a3b55","_id":"references/60c833727723bebd866a3b55","_rev":"_cfFmKpG---","tei":"\n\t\n\t\tGlide: A New Approach for Rapid, Accurate Docking and Scoring. 2. Enrichment Factors in Database Screening\n\t\t\n\t\t\tThomasAHalgren\n\t\t\n\t\t\n\t\t\tRobertBMurphy\n\t\t\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t\n\t\t\tHegeSBeard\n\t\t\n\t\t\n\t\t\tLeahLFrye\n\t\t\n\t\t\n\t\t\tWThomasPollard\n\t\t\n\t\t\n\t\t\tJayLBanks\n\t\t\n\t\t10.1021/jm030644s\n\t\t15027866\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t47\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c833727723bebd866a3b52"},"refKey":9},
{"_key":"60c833727723bebd866a3b56","_id":"references/60c833727723bebd866a3b56","_rev":"_cfFmKpW---","tei":"\n\t\n\t\tA hierarchical approach to all-atom protein loop prediction\n\t\t\n\t\t\tMatthewPJacobson\n\t\t\n\t\t\n\t\t\tDavidLPincus\n\t\t\n\t\t\n\t\t\tChayaSRapp\n\t\t\n\t\t\n\t\t\tTylerJ FDay\n\t\t\n\t\t\n\t\t\tBarryHonig\n\t\t\n\t\t\n\t\t\tDavidEShaw\n\t\t\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t10.1002/prot.10613\n\t\t15048827\n\t\tark:/67375/WNG-JFGMBQSS-S\n\t\tB2D66039DD31AC4DBC9CDBC782CF42D0F2EDBADB\n\t\t\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t55\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c833727723bebd866a3b52"},"refKey":11},
{"_key":"60c833727723bebd866a3b57","_id":"references/60c833727723bebd866a3b57","_rev":"_cfFmKpq---","tei":"\n\t\n\t\tProtein and ligand preparation: Parameters, protocols, and influence on virtual screening enrichments\n\t\t\n\t\t\tGMSastry\n\t\t\n\t\t\n\t\t\tMAdzhigirey\n\t\t\n\t\t\n\t\t\tTDay\n\t\t\n\t\t\n\t\t\tRAnnabhimoju\n\t\t\n\t\t\n\t\t\tWSherman\n\t\t\n\t\t10.1007/s10822-013-9644-8\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\t\n\t\t\t27\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c833727723bebd866a3b52"},"refKey":20},
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{"_key":"60c833db7723bebd866a3b93","_id":"references/60c833db7723bebd866a3b93","_rev":"_cfFmKqO---","tei":"\n\t\n\t\tA Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1080/10635150390235520\n\t\t14530136\n\t\tark:/67375/HXZ-32P26Z5L-9\n\t\t10D069593FA116F90817B5F2773320087F8156B0\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t52\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c833db7723bebd866a3b92"},"refKey":84},
{"_key":"60c833db7723bebd866a3b94","_id":"references/60c833db7723bebd866a3b94","_rev":"_cfFmKqi---","tei":"\n\t\n\t\tSelection of Conserved Blocks from Multiple Alignments for Their Use in Phylogenetic Analysis\n\t\t\n\t\t\tJCastresana\n\t\t\n\t\t10.1093/oxfordjournals.molbev.a026334\n\t\t10742046\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t17\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c833db7723bebd866a3b92"},"refKey":82},
{"_key":"60c833db7723bebd866a3b95","_id":"references/60c833db7723bebd866a3b95","_rev":"_cfFmKqy---","tei":"\n\t\n\t\tImprovement of Phylogenies after Removing Divergent and Ambiguously Aligned Blocks from Protein Sequence Alignments\n\t\t\n\t\t\tGerardTalavera\n\t\t\n\t\t\n\t\t\tJoseCastresana\n\t\t\n\t\t10.1080/10635150701472164\n\t\t17654362\n\t\tark:/67375/HXZ-BPXFB4NP-V\n\t\t7F66247F6AFD2D644E2E779ED931A9CAA1AC8D80\n\t\tdoi:10.1080/ 10635150701472164\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t56\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c833db7723bebd866a3b92"},"refKey":83},
{"_key":"60c833e47723bebd866a3ba7","_id":"references/60c833e47723bebd866a3ba7","_rev":"_cfFmKrC---","tei":"\n\t\n\t\tA SIMPLE ALGORITHM FOR IDENTIFYING ABBREVIATION DEFINITIONS IN BIOMEDICAL TEXT\n\t\t\n\t\t\tArielSSchwartz\n\t\t\n\t\t\n\t\t\tMartiAHearst\n\t\t\n\t\t10.1142/9789812776303_0042\n\t\t\n\t\n\t\n\t\tBiocomputing 2003\n\t\t\t\t\n\t\t\tWORLD SCIENTIFIC\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c833e47723bebd866a3ba6"},"refKey":13},
{"_key":"60c834057723bebd866a3bb4","_id":"references/60c834057723bebd866a3bb4","_rev":"_cfFmKrS---","tei":"\n\t\n\t\tRcpp: SeamlessRandC++Integration\n\t\t\n\t\t\tDirkEddelbuettel\n\t\t\n\t\t\n\t\t\tRomainFrançois\n\t\t\n\t\t10.18637/jss.v040.i08\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t40\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c834057723bebd866a3bb3"},"refKey":14},
{"_key":"60c834057723bebd866a3bb5","_id":"references/60c834057723bebd866a3bb5","_rev":"_cfFmKri---","tei":"\n\t\n\t\tRcppArmadillo: Accelerating R with high-performance C++ linear algebra\n\t\t\n\t\t\tDirkEddelbuettel\n\t\t\n\t\t\n\t\t\tConradSanderson\n\t\t\n\t\t10.1016/j.csda.2013.02.005\n\t\t\n\t\t\n\t\n\t\n\t\tComputational Statistics & Data Analysis\n\t\tComputational Statistics & Data Analysis\n\t\t0167-9473\n\t\t\n\t\t\t71\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c834057723bebd866a3bb3"},"refKey":15},
{"_key":"60c834057723bebd866a3bb6","_id":"references/60c834057723bebd866a3bb6","_rev":"_cfFmKru---","tei":"\n\t\n\t\tNew features of the software MatContfor bifurcation analysis of dynamical systems\n\t\t\n\t\t\tADhooge\n\t\t\n\t\t\n\t\t\tWGovaerts\n\t\t\n\t\t\n\t\t\tYu.AKuznetsov\n\t\t\n\t\t\n\t\t\tHgeG EMeijer\n\t\t\n\t\t\n\t\t\tBSautois\n\t\t\n\t\t10.1080/13873950701742754\n\t\t\n\t\n\t\n\t\tMathematical and Computer Modelling of Dynamical Systems\n\t\tMathematical and Computer Modelling of Dynamical Systems\n\t\t1387-3954\n\t\t1744-5051\n\t\t\n\t\t\t14\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c834057723bebd866a3bb3"},"refKey":12},
{"_key":"60c834057723bebd866a3bb7","_id":"references/60c834057723bebd866a3bb7","_rev":"_cfFmKs----","tei":"\n\t\n\t\tEBImage--an R package for image processing with applications to cellular phenotypes\n\t\t\n\t\t\tGPau\n\t\t\n\t\t\n\t\t\tFFuchs\n\t\t\n\t\t\n\t\t\tOSklyar\n\t\t\n\t\t\n\t\t\tMBoutros\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t10.1093/bioinformatics/btq046\n\t\t20338898\n\t\tPMC2844988\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c834057723bebd866a3bb3"},"refKey":38},
{"_key":"60c834157723bebd866a3bc0","_id":"references/60c834157723bebd866a3bc0","_rev":"_cfFmKsK---","tei":"\n\t\n\t\tUnpaired image-to-image translation using cycle-consistent adversarial networks\n\t\t\n\t\t\tJZhu\n\t\t\n\t\n\t\n\t\tProc. IEEE Int. Conf. Comput. Vision\n\t\t\t\tIEEE Int. Conf. Comput. Vision\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c834157723bebd866a3bbf"},"refKey":106},
{"_key":"60c834157723bebd866a3bc1","_id":"references/60c834157723bebd866a3bc1","_rev":"_cfFmKsa---","tei":"\n\t\n\t\tFramework for data management and visualization of the national lung screening trial pathology images\n\t\t\n\t\t\tASharma\n\t\t\n\t\n\t\n\t\tPathol. Informat. Summit\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c834157723bebd866a3bbf"},"refKey":201},
{"_key":"60c834157723bebd866a3bc2","_id":"references/60c834157723bebd866a3bc2","_rev":"_cfFmKsm---","tei":"\n\t\n\t\tQuPath: Open source software for digital pathology image analysis\n\t\t\n\t\t\tPeterBankhead\n\t\t\t0000-0003-4851-8813\n\t\t\n\t\t\n\t\t\tMauriceBLoughrey\n\t\t\n\t\t\n\t\t\tJoséAFernández\n\t\t\n\t\t\n\t\t\tYvonneDombrowski\n\t\t\n\t\t\n\t\t\tDarraghGMcart\n\t\t\n\t\t\n\t\t\tPhilipDDunne\n\t\t\n\t\t\n\t\t\tStephenMcquaid\n\t\t\n\t\t\n\t\t\tRonanTGray\n\t\t\n\t\t\n\t\t\tLiamJMurray\n\t\t\n\t\t\n\t\t\tHelenGColeman\n\t\t\n\t\t\n\t\t\tJacquelineAJames\n\t\t\n\t\t\n\t\t\tManuelSalto-Tellez\n\t\t\n\t\t\n\t\t\tPeterWHamilton\n\t\t\n\t\t10.1101/099796\n\t\t\n\t\n\t\n\t\tSci. Rep\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tArt. no. 16878\n\n","document":{"$oid":"60c834157723bebd866a3bbf"},"refKey":202},
{"_key":"60c834157723bebd866a3bc3","_id":"references/60c834157723bebd866a3bc3","_rev":"_cfFmKsy---","tei":"\n\t\n\t\tImagenet classification with deep convolutional neural networks\n\t\t\n\t\t\tAKrizhevsky\n\t\t\n\t\t\n\t\t\tSIlya\n\t\t\n\t\t\n\t\t\tEHGeoffrey\n\t\t\n\t\n\t\n\t\tProc\n\t\t\t\tnull\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c834157723bebd866a3bbf"},"refKey":100},
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{"_key":"60c834157723bebd866a3bc5","_id":"references/60c834157723bebd866a3bc5","_rev":"_cfFmKtK---","tei":"\n\t\n\t\tOpenSlide: A vendor-neutral software foundation for digital pathology\n\t\t\n\t\t\tAGoode\n\t\t\n\t\n\t\n\t\tJ. Pathol. Inform\n\t\t\n\t\t\t4\n\t\t\t27\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c834157723bebd866a3bbf"},"refKey":208},
{"_key":"60c834157723bebd866a3bc6","_id":"references/60c834157723bebd866a3bc6","_rev":"_cfFmKtW---","tei":"\n\t\n\t\tOMERO and Bio-Formats 5: flexible access to large bioimaging datasets at scale\n\t\t\n\t\t\tJoshMoore\n\t\t\n\t\t\n\t\t\tMelissaLinkert\n\t\t\n\t\t\n\t\t\tColinBlackburn\n\t\t\n\t\t\n\t\t\tMarkCarroll\n\t\t\n\t\t\n\t\t\tRichardKFerguson\n\t\t\n\t\t\n\t\t\tHelenFlynn\n\t\t\n\t\t\n\t\t\tKennethGillen\n\t\t\n\t\t\n\t\t\tRogerLeigh\n\t\t\n\t\t\n\t\t\tSimonLi\n\t\t\n\t\t\n\t\t\tDominikLindner\n\t\t\n\t\t\n\t\t\tWilliamJMoore\n\t\t\n\t\t\n\t\t\tAndrewJPatterson\n\t\t\n\t\t\n\t\t\tBlazejPindelski\n\t\t\n\t\t\n\t\t\tBalajiRamalingam\n\t\t\n\t\t\n\t\t\tEmilRozbicki\n\t\t\n\t\t\n\t\t\tAleksandraTarkowska\n\t\t\n\t\t\n\t\t\tPetrWalczysko\n\t\t\n\t\t\n\t\t\tChrisAllan\n\t\t\n\t\t\n\t\t\tJean-MarieBurel\n\t\t\n\t\t\n\t\t\tJasonSwedlow\n\t\t\n\t\t10.1117/12.2086370\n\t\n\t\n\t\tMedical Imaging 2015: Image Processing\n\t\t\t\tArt\n\t\t\n\t\t\tSPIE\n\t\t\t\n\t\t\t9413\n\t\t\t941307\n\t\t\n\t\n\n","document":{"$oid":"60c834157723bebd866a3bbf"},"refKey":209},
{"_key":"60c834157723bebd866a3bc7","_id":"references/60c834157723bebd866a3bc7","_rev":"_cfFmKti---","tei":"\n\t\n\t\tThe Orthanc ecosystem for medical imaging\n\t\t\n\t\t\tSJodogne\n\t\t\n\t\n\t\n\t\tJ. Digit. Imag\n\t\t\n\t\t\t31\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c834157723bebd866a3bbf"},"refKey":206},
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{"_key":"60c834187723bebd866a3bdd","_id":"references/60c834187723bebd866a3bdd","_rev":"_cfFmKt6---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c834187723bebd866a3bdb"},"refKey":13},
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{"_key":"60c8355e7723bebd866a3dd2","_id":"references/60c8355e7723bebd866a3dd2","_rev":"_cfFmK3a---","tei":"\n\t\n\t\tViralMSA: Massively scalable reference-guided multiple sequence alignment of viral genomes\n\t\t\n\t\t\tNMoshiri\n\t\t\n\t\tdoi: 10.1101/ 2020.04.20.052068\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t2020\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8355e7723bebd866a3dce"},"refKey":14},
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{"_key":"60c8355e7723bebd866a3dd7","_id":"references/60c8355e7723bebd866a3dd7","_rev":"_cfFmK4S---","tei":"\n\t\n\t\tTreeN93: a non-parametric distance-based method for inferring viral transmission clusters\n\t\t\n\t\t\tNiemaMoshiri\n\t\t\t0000-0003-2209-8128\n\t\t\n\t\t10.1101/383190\n\t\t\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t383190\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8355e7723bebd866a3dce"},"refKey":11},
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{"_key":"60c835707723bebd866a3e04","_id":"references/60c835707723bebd866a3e04","_rev":"_cfFmK5O---","tei":"\n\t\n\t\tA mathematical model and a computerized simulation of PCR using complex templates\n\t\t\n\t\t\tERubin\n\t\t\n\t\t\n\t\t\tAALevy\n\t\t\n\t\t10.1093/nar/24.18.3538\n\t\t8836180\n\t\tPMC146141\n\t\tark:/67375/HXZ-46CS96LH-J\n\t\t36085B092A55F0476BAEE2FD794F7E88B57AA8FB\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t24\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c835707723bebd866a3e01"},"refKey":1},
{"_key":"60c835707723bebd866a3e05","_id":"references/60c835707723bebd866a3e05","_rev":"_cfFmK5a---","tei":"\n\t\n\t\tWhole genome sequence-enabled prediction of sequences performed for random PCR products of Escherichia coli\n\t\t\n\t\t\tKNishigaki\n\t\t\n\t\t\n\t\t\tASaito\n\t\t\n\t\t\n\t\t\tHTakashi\n\t\t\n\t\t\n\t\t\tMNaimuddin\n\t\t\n\t\t10.1093/nar/28.9.1879\n\t\t10756186\n\t\tPMC103271\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t28\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c835707723bebd866a3e01"},"refKey":2},
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{"_key":"60c835987723bebd866a3e8d","_id":"references/60c835987723bebd866a3e8d","_rev":"_cfFmK56---","tei":"\n\t\n\t\tCytoscape 2.8: new features for data integration and network visualization\n\t\t\n\t\t\tMESmoot\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c835987723bebd866a3e8c"},"refKey":18},
{"_key":"60c8359b7723bebd866a3e91","_id":"references/60c8359b7723bebd866a3e91","_rev":"_cfFmK6G---","tei":"\n\t\n\t\tThe synchronous languages 12 years later\n\t\t\n\t\t\tABenveniste\n\t\t\n\t\t\n\t\t\tPCaspi\n\t\t\n\t\t\n\t\t\tSAEdwards\n\t\t\n\t\t\n\t\t\tNHalbwachs\n\t\t\n\t\t\n\t\t\tPLe Guernic\n\t\t\n\t\t\n\t\t\tRDe Simone\n\t\t\n\t\n\t\n\t\tProc. IEEE\n\t\t\n\t\t\t91\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8359b7723bebd866a3e90"},"refKey":5},
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{"_key":"60c835c37723bebd866a3ec2","_id":"references/60c835c37723bebd866a3ec2","_rev":"_cfFmK7i---","tei":"\n\t\n\t\tPhyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data\n\t\t\n\t\t\tPJMcmurdie\n\t\t\n\t\t\n\t\t\tSHolmes\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\te61217\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c835c37723bebd866a3ebf"},"refKey":39},
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{"_key":"60c835c37723bebd866a3ec4","_id":"references/60c835c37723bebd866a3ec4","_rev":"_cfFmK76---","tei":"\n\t\n\t\tRoary: Rapid large-scale prokaryote pan genome analysis\n\t\t\n\t\t\tAndrewJPage\n\t\t\n\t\t\n\t\t\tCarlaACummins\n\t\t\n\t\t\n\t\t\tMartinHunt\n\t\t\n\t\t\n\t\t\tVanessaKWong\n\t\t\n\t\t\n\t\t\tSandraReuter\n\t\t\n\t\t\n\t\t\tMatthewT GHolden\n\t\t\n\t\t\n\t\t\tMariaFookes\n\t\t\n\t\t\n\t\t\tJacquelineAKeane\n\t\t\n\t\t\n\t\t\tJulianParkhill\n\t\t\n\t\t10.1101/019315\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c835c37723bebd866a3ebf"},"refKey":35},
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{"_key":"60c836c17723bebd866a3f90","_id":"references/60c836c17723bebd866a3f90","_rev":"_cfFmK9m---","tei":"\n\t\n\t\tNew Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0\n\t\t\n\t\t\tStéphaneGuindon\n\t\t\n\t\t\n\t\t\tJean-FrançoisDufayard\n\t\t\n\t\t\n\t\t\tVincentLefort\n\t\t\n\t\t\n\t\t\tMariaAnisimova\n\t\t\n\t\t\n\t\t\tWimHordijk\n\t\t\n\t\t\n\t\t\tOlivierGascuel\n\t\t\n\t\t10.1093/sysbio/syq010\n\t\t20525638\n\t\tark:/67375/HXZ-7QZH87D3-D\n\t\t6DBD85CA8FB8FB58836EFA0CE5A853C1C9B7AF77\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t59\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c836c17723bebd866a3f8e"},"refKey":21},
{"_key":"60c836c17723bebd866a3f91","_id":"references/60c836c17723bebd866a3f91","_rev":"_cfFmK9y---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c836c17723bebd866a3f8e"},"refKey":23},
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{"_key":"60c8378b7723bebd866a400f","_id":"references/60c8378b7723bebd866a400f","_rev":"_cfFmL_q---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\t\n\t\t\tNealeBTodd-Brown\n\t\t\n\t\t\n\t\t\tKThomas\n\t\t\n\t\t\n\t\t\tLFerreira\n\t\t\n\t\t\n\t\t\tMABender\n\t\t\n\t\t\n\t\t\tD\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t81\n\t\t\t559\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8378b7723bebd866a400e"},"refKey":41},
{"_key":"60c8378b7723bebd866a4010","_id":"references/60c8378b7723bebd866a4010","_rev":"_cfFmL_6---","tei":"\n\t\n\t\tA note on ENDOG: a computer program for analysing pedigree information\n\t\t\n\t\t\tJPGutierrez\n\t\t\n\t\t\n\t\t\tFGoyache\n\t\t\n\t\t10.1111/j.1439-0388.2005.00512.x\n\t\t16130468\n\t\tark:/67375/WNG-LK3XZLMB-P\n\t\t3C5A99E1ABB4E6AB2497ED269EF6B38F2DCBE936\n\t\t\n\t\n\t\n\t\tJournal of Animal Breeding and Genetics\n\t\tJ Anim Breed Genet\n\t\t0931-2668\n\t\t1439-0388\n\t\t\n\t\t\t122\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8378b7723bebd866a400e"},"refKey":28},
{"_key":"60c837a27723bebd866a4020","_id":"references/60c837a27723bebd866a4020","_rev":"_cfFmLAG---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c837a27723bebd866a401f"},"refKey":11},
{"_key":"60c837a27723bebd866a4021","_id":"references/60c837a27723bebd866a4021","_rev":"_cfFmLAW---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly (Austin)\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLLWang\n\t\t\n\t\t\n\t\t\tMCoon\n\t\t\n\t\t\n\t\t\tTNguyen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\t\n\t\t\n\t\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c837a27723bebd866a401f"},"refKey":9},
{"_key":"60c837a27723bebd866a4022","_id":"references/60c837a27723bebd866a4022","_rev":"_cfFmLAi---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c837a27723bebd866a401f"},"refKey":8},
{"_key":"60c837a27723bebd866a4023","_id":"references/60c837a27723bebd866a4023","_rev":"_cfFmLAy---","tei":"\n\t\n\t\tProteinortho: detection of (Co-) orthologs in large-scale analysis\n\t\t\n\t\t\tMLechner\n\t\t\n\t\t\n\t\t\tSFindeiß\n\t\t\n\t\t\n\t\t\tLSteiner\n\t\t\n\t\t\n\t\t\tMMarz\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t\n\t\t\tSJProhaska\n\t\t\n\t\t10.1186/1471-2105-12-1\n\t\t21199577\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c837a27723bebd866a401f"},"refKey":19},
{"_key":"60c837a27723bebd866a4024","_id":"references/60c837a27723bebd866a4024","_rev":"_cfFmLB----","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c837a27723bebd866a401f"},"refKey":10},
{"_key":"60c837a27723bebd866a4025","_id":"references/60c837a27723bebd866a4025","_rev":"_cfFmLBK---","tei":"\n\t\n\t\tMEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tChristinaKnyaz\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msy096\n\t\t29722887\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c837a27723bebd866a401f"},"refKey":14},
{"_key":"60c837a47723bebd866a4036","_id":"references/60c837a47723bebd866a4036","_rev":"_cfFmLBW---","tei":"\n\t\n\t\tMaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification\n\t\t\n\t\t\tJCox\n\t\t\n\t\t\n\t\t\tMMann\n\t\t\n\t\n\t\n\t\tNat. Biotechnol\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c837a47723bebd866a4035"},"refKey":14},
{"_key":"60c837ac7723bebd866a403c","_id":"references/60c837ac7723bebd866a403c","_rev":"_cfFmLBm---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c837ac7723bebd866a403b"},"refKey":44},
{"_key":"60c837ac7723bebd866a403d","_id":"references/60c837ac7723bebd866a403d","_rev":"_cfFmLBy---","tei":"\n\t\n\t\tAligning Sequence Reads, Clone Sequences and Assembly Contigs with BWA-MEM\n\t\t\n\t\t\tHLi\n\t\t\n\t\tarXiv:1303.3997\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c837ac7723bebd866a403b"},"refKey":43},
{"_key":"60c837ac7723bebd866a403e","_id":"references/60c837ac7723bebd866a403e","_rev":"_cfFmLC----","tei":"\n\t\n\t\tAdapterRemoval: Easy Cleaning of Next Generation Sequencing Reads\n\t\t\n\t\t\tStinusLindgreen\n\t\t\n\t\t10.1186/1756-0500-5-337\n\t\t22748135\n\t\tPMC3532080\n\t\t\n\t\n\t\n\t\tBMC Research Notes\n\t\tBMC Research Notes\n\t\t1756-0500\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t337\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c837ac7723bebd866a403b"},"refKey":42},
{"_key":"60c837ac7723bebd866a403f","_id":"references/60c837ac7723bebd866a403f","_rev":"_cfFmLCK---","tei":"\n\t\n\t\tIDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth\n\t\t\n\t\t\tYPeng\n\t\t\n\t\t\n\t\t\tHC MLeung\n\t\t\n\t\t\n\t\t\tSMYiu\n\t\t\n\t\t\n\t\t\tFY LChin\n\t\t\n\t\t10.1093/bioinformatics/bts174\n\t\t22495754\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t28\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c837ac7723bebd866a403b"},"refKey":46},
{"_key":"60c837ac7723bebd866a4040","_id":"references/60c837ac7723bebd866a4040","_rev":"_cfFmLCW---","tei":"\n\t\n\t\tA Fast and Symmetric DUST Implementation to Mask Low-Complexity DNA Sequences\n\t\t\n\t\t\tAleksandrMorgulis\n\t\t\n\t\t\n\t\t\tEMichaelGertz\n\t\t\n\t\t\n\t\t\tAlejandroASchäffer\n\t\t\n\t\t\n\t\t\tRichaAgarwala\n\t\t\n\t\t10.1089/cmb.2006.13.1028\n\t\t16796549\n\t\t\n\t\n\t\n\t\tJournal of Computational Biology\n\t\tJournal of Computational Biology\n\t\t1066-5277\n\t\t1557-8666\n\t\t\n\t\t\t13\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c837ac7723bebd866a403b"},"refKey":45},
{"_key":"60c838157723bebd866a408c","_id":"references/60c838157723bebd866a408c","_rev":"_cfFmLCi---","tei":"\n\t\n\t\tCOVID-19 in People with Diabetes: Urgently Needed Lessons from Early Reports\n\t\t\n\t\t\tMCRiddle\n\t\t\n\t\n\t\n\t\tDiabetes Care\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c838157723bebd866a408b"},"refKey":22},
{"_key":"60c838247723bebd866a4096","_id":"references/60c838247723bebd866a4096","_rev":"_cfFmLCu---","tei":"\n\t\n\t\tBEARscc determines robustness of single-cell clusters using simulated technical replicates\n\t\t\n\t\t\tDTSeverson\n\t\t\t0000-0002-1750-8332\n\t\t\n\t\t\n\t\t\tRPOwen\n\t\t\t0000-0002-7743-1461\n\t\t\n\t\t\n\t\t\tMJWhite\n\t\t\n\t\t\n\t\t\tXLu\n\t\t\n\t\t\n\t\t\tBSchuster-Böckler\n\t\t\t0000-0002-8892-5133\n\t\t\n\t\t10.1038/s41467-018-03608-y\n\t\t29567991\n\t\tPMC5864873\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t1187\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c838247723bebd866a4095"},"refKey":18},
{"_key":"60c8382b7723bebd866a40a0","_id":"references/60c8382b7723bebd866a40a0","_rev":"_cfFmLC6---","tei":"\n\t\n\t\tGPower: a general power analysis program\n\t\t\n\t\t\tEErdfelder\n\t\t\n\t\t\n\t\t\tFFaul\n\t\t\n\t\t\n\t\t\tABuchner\n\t\t\n\t\n\t\n\t\tBehav Res Methods Instrum Comput\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8382b7723bebd866a409f"},"refKey":26},
{"_key":"60c8383a7723bebd866a40bc","_id":"references/60c8383a7723bebd866a40bc","_rev":"_cfFmLDG---","tei":"\n\t\n\t\tSoftware Abstractions: Logic, Language, and Analysis\n\t\t\n\t\t\tDJackson\n\t\t\n\t\t\n\t\t\t\n\t\t\tThe MIT Press\n\t\t\tCambridge\n\t\t\n\t\n\n","document":{"$oid":"60c8383a7723bebd866a40bb"},"refKey":7},
{"_key":"60c838537723bebd866a40d8","_id":"references/60c838537723bebd866a40d8","_rev":"_cfFmLDS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tFChollet\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c838537723bebd866a40d7"},"refKey":3},
{"_key":"60c838537723bebd866a40d9","_id":"references/60c838537723bebd866a40d9","_rev":"_cfFmLDe---","tei":"\n\t\n\t\tData Structures for Statistical Computing in Python\n\t\t\n\t\t\tWMckinney\n\t\t\n\t\t10.25080/Majora-92bf1922-00a\n\t\t\n\t\n\t\n\t\tProceedings of the 9th Python in Science Conference\n\t\t\t\tthe 9th Python in Science Conference\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c838537723bebd866a40d7"},"refKey":16},
{"_key":"60c838617723bebd866a40ed","_id":"references/60c838617723bebd866a40ed","_rev":"_cfFmLDq---","tei":"\n\t\n\t\tA general implementation of tmle for longitudinal data applied to causal inference in survival analysis\n\t\t\n\t\t\tMOri\n\t\t\n\t\t\n\t\t\tVictorDeStitelman\n\t\t\n\t\t\n\t\t\tMarkJGruttola\n\t\t\n\t\t\n\t\t\tVan Der Laan\n\t\t\n\t\n\t\n\t\tInt. J. Biostat\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c838617723bebd866a40ec"},"refKey":67},
{"_key":"60c838617723bebd866a40ee","_id":"references/60c838617723bebd866a40ee","_rev":"_cfFmLD2---","tei":"\n\t\n\t\tCollaborative double robust targeted maximum likelihood estimation\n\t\t\n\t\t\tJMark\n\t\t\n\t\t\n\t\t\tSusanVan Der Laan\n\t\t\n\t\t\n\t\t\tGruber\n\t\t\n\t\n\t\n\t\tInt. J. Biostat\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c838617723bebd866a40ec"},"refKey":68},
{"_key":"60c838767723bebd866a4120","_id":"references/60c838767723bebd866a4120","_rev":"_cfFmLEC---","tei":"\n\t\n\t\tLearnCoil-VMF: computational evidence for coiled-coil-like motifs in many viral membrane-fusion proteins\n\t\t\n\t\t\tMonaSingh\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t\n\t\t\tPeterSKim\n\t\t\n\t\t10.1006/jmbi.1999.2796\n\t\t10438601\n\t\tS0022-2836(99)92796-1\n\t\tark:/67375/6H6-M896VXVD-T\n\t\tA5F7A548E28D71D28F743DC9B2B6A24AE3409E15\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t290\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c838767723bebd866a411f"},"refKey":24},
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{"_key":"60c8388d7723bebd866a4136","_id":"references/60c8388d7723bebd866a4136","_rev":"_cfFmLF----","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8388d7723bebd866a4132"},"refKey":25},
{"_key":"60c838927723bebd866a4151","_id":"references/60c838927723bebd866a4151","_rev":"_cfFmLFK---","tei":"\n\t\n\t\tComprehensive analysis of biomarkers for prostate cancer based on weighted gene coexpression network analysis\n\t\t\n\t\t\tXChen\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tXPeng\n\t\t\n\t\t\n\t\t\tKLiu\n\t\t\n\t\t\n\t\t\tCZhang\n\t\t\n\t\t\n\t\t\tXZeng\n\t\t\n\t\t\n\t\t\tYLai\n\t\t\n\t\t10.1097/MD.0000000000019628\n\t\t\n\t\n\t\n\t\tMedicine (Baltimore)\n\t\t\n\t\t\t99\n\t\t\t14\n\t\t\te19628\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c838927723bebd866a4150"},"refKey":20},
{"_key":"60c8389a7723bebd866a4162","_id":"references/60c8389a7723bebd866a4162","_rev":"_cfFmLFS---","tei":"\n\t\n\t\tInteractive tree of life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8389a7723bebd866a4161"},"refKey":8},
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{"_key":"60c8389a7723bebd866a4165","_id":"references/60c8389a7723bebd866a4165","_rev":"_cfFmLF2---","tei":"\n\t\n\t\tCoronapp: a web application to annotate and monitor SARS-CoV-2 mutations\n\t\t\n\t\t\tDMercatelli\n\t\t\n\t\t\n\t\t\tLTriboli\n\t\t\n\t\t\n\t\t\tEFornasari\n\t\t\n\t\t\n\t\t\tFRay\n\t\t\n\t\t\n\t\t\tFMGiorgi\n\t\t\n\t\t10.1002/jmv.26678\n\t\t\n\t\n\t\n\t\tJ Med Virol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8389a7723bebd866a4161"},"refKey":9},
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{"_key":"60c838cd7723bebd866a4195","_id":"references/60c838cd7723bebd866a4195","_rev":"_cfFmLGm---","tei":"\n\t\n\t\tVirtual Docking Approaches to Protein Kinase B Inhibition\n\t\t\n\t\t\tMartinoForino\n\t\t\n\t\t\n\t\t\tDawoonJung\n\t\t\n\t\t\n\t\t\tJohnBEaston\n\t\t\n\t\t\n\t\t\tPeterJHoughton\n\t\t\n\t\t\n\t\t\tMaurizioPellecchia\n\t\t\n\t\t10.1021/jm048962u\n\t\t15801821\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t48\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c838cd7723bebd866a4194"},"refKey":8},
{"_key":"60c838e57723bebd866a41a5","_id":"references/60c838e57723bebd866a41a5","_rev":"_cfFmLGy---","tei":"\n\t\n\t\tMrBayes 3: Bayesian phylogenetic inference under mixed models\n\t\t\n\t\t\tFRonquist\n\t\t\n\t\t\n\t\t\tJPHuelsenbeck\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c838e57723bebd866a41a4"},"refKey":28},
{"_key":"60c838e57723bebd866a41a6","_id":"references/60c838e57723bebd866a41a6","_rev":"_cfFmLG6---","tei":"\n\t\n\t\tProtein Structure Modeling with MODELLER\n\t\t\n\t\t\tNarayananEswar\n\t\t\n\t\t\n\t\t\tDavidEramian\n\t\t\n\t\t\n\t\t\tBenWebb\n\t\t\n\t\t\n\t\t\tMin-YiShen\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1007/978-1-60327-058-8_8\n\t\t18542861\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t15\n\t\t\t\n\t\t\n\t\n\t5.6.1-5.6.30\n\n","document":{"$oid":"60c838e57723bebd866a41a4"},"refKey":9},
{"_key":"60c838e57723bebd866a41a7","_id":"references/60c838e57723bebd866a41a7","_rev":"_cfFmLHG---","tei":"\n\t\n\t\tPhylogeny.fr: robust phylogenetic analysis for the non-specialist\n\t\t\n\t\t\tADereeper\n\t\t\n\t\t\n\t\t\tVGuignon\n\t\t\n\t\t\n\t\t\tGBlanc\n\t\t\n\t\t\n\t\t\tSAudic\n\t\t\n\t\t\n\t\t\tSBuffet\n\t\t\n\t\t\n\t\t\tFChevenet\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMLescot\n\t\t\n\t\t\n\t\t\tJMClaverie\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c838e57723bebd866a41a4"},"refKey":6},
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{"_key":"60c839eb7723bebd866a4224","_id":"references/60c839eb7723bebd866a4224","_rev":"_cfFmLH2---","tei":"\n\t\n\t\tAssessment of particulate matter variation during 2011–2015 over a tropical station Agra, India\n\t\t\n\t\t\tPriyanjaliGogikar\n\t\t\n\t\t\n\t\t\tBhishmaTyagi\n\t\t\t0000-0001-9210-383X\n\t\t\n\t\t10.1016/j.atmosenv.2016.09.063\n\t\n\t\n\t\tAtmospheric Environment\n\t\tAtmospheric Environment\n\t\t1352-2310\n\t\t\n\t\t\t147\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tGoogle Earth engine: planetary-scale geospatial analysis for everyone. Remote Sens. Environ. 202\n\n","document":{"$oid":"60c839eb7723bebd866a4223"},"refKey":19},
{"_key":"60c839fc7723bebd866a4235","_id":"references/60c839fc7723bebd866a4235","_rev":"_cfFmLI----","tei":"\n\t\n\t\tBayesian first aid: A package that implements Bayesian alternatives to the classical*. test functions in r\n\t\t\n\t\t\tRBååth\n\t\t\n\t\n\t\n\t\tProc. UseR\n\t\t\t\tUseR\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c839fc7723bebd866a4234"},"refKey":37},
{"_key":"60c839fc7723bebd866a4236","_id":"references/60c839fc7723bebd866a4236","_rev":"_cfFmLIK---","tei":"\n\t\n\t\tMCMCpack: Markov Chain Monte Carlo inR\n\t\t\n\t\t\tAndrewDMartin\n\t\t\n\t\t\n\t\t\tKevinMQuinn\n\t\t\n\t\t\n\t\t\tJongHeePark\n\t\t\n\t\t10.18637/jss.v042.i09\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t42\n\t\t\t9\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c839fc7723bebd866a4234"},"refKey":33},
{"_key":"60c839fc7723bebd866a4237","_id":"references/60c839fc7723bebd866a4237","_rev":"_cfFmLIW---","tei":"\n\t\n\t\tCoda: Convergence diagnosis and output analysis for mcmc\n\t\t\n\t\t\tMPlummer\n\t\t\n\t\t\n\t\t\tNBest\n\t\t\n\t\t\n\t\t\tKCowles\n\t\t\n\t\t\n\t\t\tKVines\n\t\t\n\t\t\n\t\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c839fc7723bebd866a4234"},"refKey":34},
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{"_key":"60c83a527723bebd866a4280","_id":"references/60c83a527723bebd866a4280","_rev":"_cfFmLI6---","tei":"\n\t\n\t\tComputer program]. Version 5.3. Copenhagen: The Nordic Cochrane Centre\n\t\n\t\n\t\tReview Manager (RevMan)\n\t\t\n\t\t\t\n\t\t\tThe Cochrane Collaboration\n\t\t\n\t\n\n","document":{"$oid":"60c83a527723bebd866a427f"},"refKey":18},
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{"_key":"60c83aef7723bebd866a432d","_id":"references/60c83aef7723bebd866a432d","_rev":"_cfFmLKa---","tei":"\n\t\n\t\tInteractive Tree Of Life (iTOL) v4: recent updates and new developments\n\t\t\n\t\t\tILetunic\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83aef7723bebd866a432c"},"refKey":40},
{"_key":"60c83aef7723bebd866a432e","_id":"references/60c83aef7723bebd866a432e","_rev":"_cfFmLKm---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden Markov model: application to complete genomes\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\t\n\t\t\tBLarsson\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t305\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83aef7723bebd866a432c"},"refKey":36},
{"_key":"60c83aef7723bebd866a432f","_id":"references/60c83aef7723bebd866a432f","_rev":"_cfFmLKy---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83aef7723bebd866a432c"},"refKey":18},
{"_key":"60c83aef7723bebd866a4330","_id":"references/60c83aef7723bebd866a4330","_rev":"_cfFmLK6---","tei":"\n\t\n\t\taLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity\n\t\t\n\t\t\tShigehiroKuraku\n\t\t\n\t\t\n\t\t\tChristianMZmasek\n\t\t\n\t\t\n\t\t\tOsamuNishimura\n\t\t\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\n\t\t10.1093/nar/gkt389\n\t\t23677614\n\t\tPMC3692103\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c83aef7723bebd866a432c"},"refKey":37},
{"_key":"60c83aef7723bebd866a4331","_id":"references/60c83aef7723bebd866a4331","_rev":"_cfFmLLG---","tei":"\n\t\n\t\tMAFFT online service: multiple sequence alignment, interactive sequence choice and visualization\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tJRozewicki\n\t\t\n\t\t\n\t\t\tKDYamada\n\t\t\n\t\n\t\n\t\tBrief Bioinform\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83aef7723bebd866a432c"},"refKey":35},
{"_key":"60c83b547723bebd866a436e","_id":"references/60c83b547723bebd866a436e","_rev":"_cfFmLLS---","tei":"\n\t\n\t\tBioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83b547723bebd866a436d"},"refKey":24},
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{"_key":"60c83b727723bebd866a44b7","_id":"references/60c83b727723bebd866a44b7","_rev":"_cfFmLMC---","tei":"\n\t\n\t\tHigh-Fidelity Prototyping of Interactive Systems Can Be Formal Too\n\t\t\n\t\t\tPhilippePalanque\n\t\t\n\t\t\n\t\t\tJean-FrançoisLadry\n\t\t\n\t\t\n\t\t\tDavidNavarre\n\t\t\n\t\t\n\t\t\tEricBarboni\n\t\t\n\t\t10.1007/978-3-642-02574-7_75\n\t\tark:/67375/HCB-ZWPPTLPQ-7\n\t\t16659C8BC9B512D9E6716D42DDE3B3D2DC17468A\n\t\t\n\t\n\t\n\t\tHuman-Computer Interaction. New Trends\n\t\t\t\t\n\t\t\tJAJacko\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t5610\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83b727723bebd866a44b6"},"refKey":6},
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{"_key":"60c83bbc7723bebd866a44ec","_id":"references/60c83bbc7723bebd866a44ec","_rev":"_cfFmLOG---","tei":"\n\t\n\t\tMultiQC: summarize analysis results for multiple tools and samples in a single report\n\t\t\n\t\t\tPhilipEwels\n\t\t\n\t\t\n\t\t\tMånsMagnusson\n\t\t\n\t\t\n\t\t\tSverkerLundin\n\t\t\n\t\t\n\t\t\tMaxKäller\n\t\t\n\t\t10.1093/bioinformatics/btw354\n\t\t27312411\n\t\tPMC5039924\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c83bbc7723bebd866a44e7"},"refKey":37},
{"_key":"60c83bbc7723bebd866a44ed","_id":"references/60c83bbc7723bebd866a44ed","_rev":"_cfFmLOS---","tei":"\n\t\n\t\tGtRNAdb 2.0: an expanded database of transfer RNA genes identified in complete and draft genomes\n\t\t\n\t\t\tPatriciaPChan\n\t\t\n\t\t\n\t\t\tToddMLowe\n\t\t\n\t\t10.1093/nar/gkv1309\n\t\t26673694\n\t\tPMC4702915\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c83bbc7723bebd866a44e7"},"refKey":21},
{"_key":"60c83bf67723bebd866a4512","_id":"references/60c83bf67723bebd866a4512","_rev":"_cfFmLOe---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83bf67723bebd866a4511"},"refKey":57},
{"_key":"60c83c207723bebd866a4531","_id":"references/60c83c207723bebd866a4531","_rev":"_cfFmLOq---","tei":"\n\t\n\t\tData from Chest Imaging with Clinical and Genomic Correlates Representing a Rural COVID-19 Positive Population. The Cancer Imaging Archive\n\t\t\n\t\t\tSDesai\n\t\t\n\t\t10.7937/tcia.2020.py71-5978\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83c207723bebd866a4530"},"refKey":17},
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{"_key":"60c83c307723bebd866a4554","_id":"references/60c83c307723bebd866a4554","_rev":"_cfFmLP----","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83c307723bebd866a4552"},"refKey":51},
{"_key":"60c83c307723bebd866a4555","_id":"references/60c83c307723bebd866a4555","_rev":"_cfFmLPK---","tei":"\n\t\n\t\tStar: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83c307723bebd866a4552"},"refKey":18},
{"_key":"60c83c307723bebd866a4556","_id":"references/60c83c307723bebd866a4556","_rev":"_cfFmLPW---","tei":"\n\t\n\t\tStringtie enables improved reconstruction of a transcriptome from RNA-seq reads\n\t\t\n\t\t\tMPertea\n\t\t\n\t\t\n\t\t\tGMPertea\n\t\t\n\t\t\n\t\t\tCMAntonescu\n\t\t\n\t\t\n\t\t\tT-CChang\n\t\t\n\t\t\n\t\t\tJTMendell\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83c307723bebd866a4552"},"refKey":64},
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{"_key":"60c83c5a7723bebd866a457d","_id":"references/60c83c5a7723bebd866a457d","_rev":"_cfFmLQO---","tei":"\n\t\n\t\tmD3DOCKxb: A Deep Parallel Optimized Software for Molecular Docking with Intel Xeon Phi Coprocessors\n\t\t\n\t\t\tQianCheng\n\t\t\n\t\t\n\t\t\tShaoliangPeng\n\t\t\n\t\t\n\t\t\tYutongLu\n\t\t\n\t\t\n\t\t\tWeiliangZhu\n\t\t\n\t\t\n\t\t\tZhijianXu\n\t\t\n\t\t\n\t\t\tXinbenZhang\n\t\t\n\t\t10.1109/ccgrid.2015.64\n\t\n\t\n\t\t2015 15th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\t15th IEEE/ACM International Symposium\n\n","document":{"$oid":"60c83c5a7723bebd866a457b"},"refKey":46},
{"_key":"60c83c5a7723bebd866a457e","_id":"references/60c83c5a7723bebd866a457e","_rev":"_cfFmLQW---","tei":"\n\t\n\t\tA quantum mechanics-based halogen bonding scoring function for protein-ligand interactions\n\t\t\n\t\t\tZhuoYang\n\t\t\n\t\t\n\t\t\tYingtaoLiu\n\t\t\n\t\t\n\t\t\tZhaoqiangChen\n\t\t\n\t\t\n\t\t\tZhijianXu\n\t\t\n\t\t\n\t\t\tJiyeShi\n\t\t\n\t\t\n\t\t\tKaixianChen\n\t\t\n\t\t\n\t\t\tWeiliangZhu\n\t\t\n\t\t10.1007/s00894-015-2681-6\n\t\t25957658\n\t\n\t\n\t\tJournal of Molecular Modeling\n\t\tJ Mol Model\n\t\t1610-2940\n\t\t0948-5023\n\t\t\n\t\t\t21\n\t\t\t6\n\t\t\t138\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c83c5a7723bebd866a457b"},"refKey":47},
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{"_key":"60c83c6d7723bebd866a4599","_id":"references/60c83c6d7723bebd866a4599","_rev":"_cfFmLQu---","tei":"\n\t\n\t\tAn Introduction to dplR\n\t\t\n\t\t\tAndyBunn\n\t\t\n\t\t\n\t\t\tMK\n\t\t\n\t\t10.1108/eb003648\n\t\n\t\n\t\tInd. Commer. Train\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83c6d7723bebd866a4598"},"refKey":36},
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{"_key":"60c83c727723bebd866a45a2","_id":"references/60c83c727723bebd866a45a2","_rev":"_cfFmLRC---","tei":"\n\t\n\t\tGCUA: general codon usage analysis\n\t\t\n\t\t\tJOMcinerney\n\t\t\n\t\t10.1093/bioinformatics/14.4.372\n\t\t9632833\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t14\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c83c727723bebd866a45a1"},"refKey":41},
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{"_key":"60c83c7e7723bebd866a45ad","_id":"references/60c83c7e7723bebd866a45ad","_rev":"_cfFmLRa---","tei":"\n\t\n\t\tPsych: procedures for psychological, psychometric, and personality research\n\t\t\n\t\t\tWRevelle\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 1.8.12. Retrieved fromhttps\n\n","document":{"$oid":"60c83c7e7723bebd866a45ab"},"refKey":28},
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{"_key":"60c83cc27723bebd866a45c3","_id":"references/60c83cc27723bebd866a45c3","_rev":"_cfFmLRy---","tei":"\n\t\n\t\tRejoinder to commentaries on ‘The BUGS project: Evolution, critique and future directions’\n\t\t\n\t\t\tDavidLunn\n\t\t\n\t\t\n\t\t\tDavidSpiegelhalter\n\t\t\n\t\t\n\t\t\tAndrewThomas\n\t\t\n\t\t\n\t\t\tNickyBest\n\t\t\n\t\t10.1002/sim.3691\n\t\t19827062\n\t\tark:/67375/WNG-CPG8FSKJ-1\n\t\tECF72DA8B3653C51F453DC730DA9BD4614F07D21\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t\n\t\t\t28\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c83cc27723bebd866a45c2"},"refKey":60},
{"_key":"60c83cc27723bebd866a45c4","_id":"references/60c83cc27723bebd866a45c4","_rev":"_cfFmLR6---","tei":"\n\t\n\t\tCODA: convergence diagnosis and output analysis for\n\t\t\n\t\t\tMPlummer\n\t\t\n\t\t\n\t\t\tNBest\n\t\t\n\t\t\n\t\t\tKCowles\n\t\t\n\t\t\n\t\t\tKVines\n\t\t\n\t\n\t\n\t\tMCMC. R. N\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83cc27723bebd866a45c2"},"refKey":61},
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{"_key":"60c83d9c7723bebd866a4616","_id":"references/60c83d9c7723bebd866a4616","_rev":"_cfFmLSm---","tei":"\n\t\n\t\tGlove: global vectors for word representation\n\t\t\n\t\t\tJPennington\n\t\t\n\t\t\n\t\t\tRSocher\n\t\t\n\t\t\n\t\t\tCManning\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tPaper presented at the proceedings of the 2014 conference on empirical methods in natural language processing\n\n","document":{"$oid":"60c83d9c7723bebd866a4615"},"refKey":64},
{"_key":"60c83db67723bebd866a4625","_id":"references/60c83db67723bebd866a4625","_rev":"_cfFmLSy---","tei":"\n\t\n\t\tFully automated ab initio protein structure prediction using I-SITES, HMMSTR and ROSETTA\n\t\t\n\t\t\tCBystroff\n\t\t\n\t\t\n\t\t\tYShao\n\t\t\n\t\t10.1093/bioinformatics/18.suppl_1.s54\n\t\t12169531\n\t\t1460-2059\n\t\tark:/67375/HXZ-TJ7LRJKG-0\n\t\tFE7E8E766121EB99A2F3C2F706ECD096A2F0893D\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t18\n\t\t\tSuppl 1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tSuppl\n\n","document":{"$oid":"60c83db67723bebd866a4624"},"refKey":32},
{"_key":"60c83de77723bebd866a4639","_id":"references/60c83de77723bebd866a4639","_rev":"_cfFmLT----","tei":"\n\t\n\t\tARLEQUIN ver. 3.0: an integrated software package for population genetics data analysis\n\t\t\n\t\t\tLExcoffier\n\t\t\n\t\t\n\t\t\tGLaval\n\t\t\n\t\t\n\t\t\tSSchneider\n\t\t\n\t\n\t\n\t\tEvol Bioinf Online\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83de77723bebd866a4638"},"refKey":10},
{"_key":"60c83de77723bebd866a463a","_id":"references/60c83de77723bebd866a463a","_rev":"_cfFmLTK---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83de77723bebd866a4638"},"refKey":28},
{"_key":"60c83df37723bebd866a4640","_id":"references/60c83df37723bebd866a4640","_rev":"_cfFmLTS---","tei":"\n\t\n\t\tChange-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data: Table 1.\n\t\t\n\t\t\tNamitaTGupta\n\t\t\n\t\t\n\t\t\tJasonAVander Heiden\n\t\t\n\t\t\n\t\t\tMohamedUduman\n\t\t\n\t\t\n\t\t\tDanielGadala-Maria\n\t\t\n\t\t\n\t\t\tGurYaari\n\t\t\n\t\t\n\t\t\tStevenHKleinstein\n\t\t\n\t\t10.1093/bioinformatics/btv359\n\t\t26069265\n\t\tPMC4793929\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c83df37723bebd866a463f"},"refKey":23},
{"_key":"60c83df37723bebd866a4641","_id":"references/60c83df37723bebd866a4641","_rev":"_cfFmLTe---","tei":"\n\t\n\t\tSlingshot: Cell lineage and pseudotime inference for single-cell transcriptomics\n\t\t\n\t\t\tKellyStreet\n\t\t\n\t\t\n\t\t\tDavideRisso\n\t\t\n\t\t\n\t\t\tRussellBFletcher\n\t\t\n\t\t\n\t\t\tDiyaDas\n\t\t\n\t\t\n\t\t\tJohnNgai\n\t\t\n\t\t\n\t\t\tNirYosef\n\t\t\n\t\t\n\t\t\tElizabethPurdom\n\t\t\n\t\t\n\t\t\tSandrineDudoit\n\t\t\n\t\t10.1101/128843\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\t\n\t\t\t19\n\t\t\t477\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c83df37723bebd866a463f"},"refKey":57},
{"_key":"60c83e3d7723bebd866a4672","_id":"references/60c83e3d7723bebd866a4672","_rev":"_cfFmLTq---","tei":"\n\t\n\t\tStatistical Inference for Partially Observed Markov Processes via theRPackagepomp\n\t\t\n\t\t\tAaronAKing\n\t\t\n\t\t\n\t\t\tDaoNguyen\n\t\t\n\t\t\n\t\t\tEdwardLIonides\n\t\t\n\t\t10.18637/jss.v069.i12\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t69\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c83e3d7723bebd866a4671"},"refKey":35},
{"_key":"60c83e4e7723bebd866a4677","_id":"references/60c83e4e7723bebd866a4677","_rev":"_cfFmLT2---","tei":"\n\t\n\t\tScikitlearn: machine learning in python\n\t\t\n\t\t\tFPedregosa\n\t\t\n\t\t\n\t\t\tGVaroquaux\n\t\t\n\t\t\n\t\t\tAGramfort\n\t\t\n\t\n\t\n\t\tJ Mach Learn Res\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83e4e7723bebd866a4676"},"refKey":42},
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{"_key":"60c83e607723bebd866a46a8","_id":"references/60c83e607723bebd866a46a8","_rev":"_cfFmLUK---","tei":"\n\t\n\t\tCase study: using virtual reality in coordination meetings\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83e607723bebd866a46a7"},"refKey":15},
{"_key":"60c83e607723bebd866a46a9","_id":"references/60c83e607723bebd866a46a9","_rev":"_cfFmLUW---","tei":"\n\t\n\t\tBombardier VR train visualization case study\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83e607723bebd866a46a7"},"refKey":18},
{"_key":"60c83e6d7723bebd866a46b2","_id":"references/60c83e6d7723bebd866a46b2","_rev":"_cfFmLUi---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83e6d7723bebd866a46b1"},"refKey":22},
{"_key":"60c83eed7723bebd866a46db","_id":"references/60c83eed7723bebd866a46db","_rev":"_cfFmLUq---","tei":"\n\t\n\t\tComprehensive processing, display and analysis for in vivo MR spectroscopic imaging\n\t\t\n\t\t\tAAMaudsley\n\t\t\n\t\t\n\t\t\tADarkazanli\n\t\t\n\t\t\n\t\t\tJRAlger\n\t\t\n\t\t\n\t\t\tLOHall\n\t\t\n\t\t\n\t\t\tNSchuff\n\t\t\n\t\t\n\t\t\tCStudholme\n\t\t\n\t\n\t\n\t\tNMR Biomed\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83eed7723bebd866a46da"},"refKey":13},
{"_key":"60c83efd7723bebd866a46f4","_id":"references/60c83efd7723bebd866a46f4","_rev":"_cfFmLU2---","tei":"\n\t\n\t\tBayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tRemcoRBouckaert\n\t\t\n\t\t10.1017/cbo9781139095112.007\n\t\n\t\n\t\tBayesian Evolutionary Analysis with BEAST\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2007\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83efd7723bebd866a46f3"},"refKey":33},
{"_key":"60c83efd7723bebd866a46f5","_id":"references/60c83efd7723bebd866a46f5","_rev":"_cfFmLVC---","tei":"\n\t\n\t\tPAML 4: A program package for phylogenetic analysis by maximum likelihood\n\t\t\n\t\t\tZYang\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83efd7723bebd866a46f3"},"refKey":28},
{"_key":"60c83f197723bebd866a470e","_id":"references/60c83f197723bebd866a470e","_rev":"_cfFmLVO---","tei":"\n\t\n\t\tTM-align: a protein structure alignment algorithm based on the TM-score\n\t\t\n\t\t\tYZhang\n\t\t\n\t\t\n\t\t\tJSkolnick\n\t\t\n\t\t10.1093/nar/gki524\n\t\t15849316\n\t\tPMC1084323\n\t\tark:/67375/HXZ-BR1ZD186-H\n\t\tEC84AF482C79E700030E348A2FAD6BAFDD5C4DC2\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c83f197723bebd866a470d"},"refKey":19},
{"_key":"60c83f317723bebd866a4725","_id":"references/60c83f317723bebd866a4725","_rev":"_cfFmLVa---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 15. College Station, TX: StataCorp LLC\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83f317723bebd866a4724"},"refKey":22},
{"_key":"60c83f357723bebd866a472d","_id":"references/60c83f357723bebd866a472d","_rev":"_cfFmLVi---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tDanielPeterson\n\t\t\n\t\t\n\t\t\tAlanFilipski\n\t\t\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t10.1093/molbev/mst197\n\t\t24132122\n\t\tPMC3840312\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c83f357723bebd866a472c"},"refKey":36},
{"_key":"60c83f357723bebd866a472e","_id":"references/60c83f357723bebd866a472e","_rev":"_cfFmLVu---","tei":"\n\t\n\t\tMrModeltest v2. Program Distributed by the Author\n\t\t\n\t\t\tJA ANylander\n\t\t\n\t\n\t\n\t\tEvolutionary Biology Centre\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83f357723bebd866a472c"},"refKey":32},
{"_key":"60c83f407723bebd866a4747","_id":"references/60c83f407723bebd866a4747","_rev":"_cfFmLV6---","tei":"\n\t\n\t\tggplot2: Elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c83f407723bebd866a4746"},"refKey":53},
{"_key":"60c83f407723bebd866a4748","_id":"references/60c83f407723bebd866a4748","_rev":"_cfFmLWG---","tei":"\n\t\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\tJBryan\n\t\t\n\t\treadxl: Read excel files\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83f407723bebd866a4746"},"refKey":54},
{"_key":"60c83f407723bebd866a4749","_id":"references/60c83f407723bebd866a4749","_rev":"_cfFmLWO---","tei":"\n\t\n\t\t\n\t\t\tTLPedersen\n\t\t\n\t\tThe composer of plots\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83f407723bebd866a4746"},"refKey":40},
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{"_key":"60c83f717723bebd866a476c","_id":"references/60c83f717723bebd866a476c","_rev":"_cfFmLWy---","tei":"\n\t\n\t\tIntermodule coupling analysis of Huang-Lian-Jie-Du decoction on stroke\n\t\t\n\t\t\tPWang\n\t\t\n\t\n\t\n\t\tFront Pharmacology\n\t\t\n\t\t\t10\n\t\t\t1288\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83f717723bebd866a476a"},"refKey":97},
{"_key":"60c83f717723bebd866a476d","_id":"references/60c83f717723bebd866a476d","_rev":"_cfFmLX----","tei":"\n\t\n\t\tNetwork pharmacology-based strategy for predicting active ingredients and potential targets of Yangxinshi tablet for treating heart failure\n\t\t\n\t\t\tLangdongChen\n\t\t\n\t\t\n\t\t\tYanCao\n\t\t\n\t\t\n\t\t\tHaiZhang\n\t\t\n\t\t\n\t\t\tDiyaLv\n\t\t\n\t\t\n\t\t\tYahongZhao\n\t\t\n\t\t\n\t\t\tYanjunLiu\n\t\t\n\t\t\n\t\t\tGuanYe\n\t\t\n\t\t\n\t\t\tYifengChai\n\t\t\n\t\t10.1016/j.jep.2017.12.011\n\t\t29366769\n\t\n\t\n\t\tJournal of Ethnopharmacology\n\t\tJournal of Ethnopharmacology\n\t\t0378-8741\n\t\t\n\t\t\t219\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c83f717723bebd866a476a"},"refKey":98},
{"_key":"60c83f717723bebd866a476e","_id":"references/60c83f717723bebd866a476e","_rev":"_cfFmLXK---","tei":"\n\t\n\t\tSymMap: an integrative database of traditional Chinese medicine enhanced by symptom mapping\n\t\t\n\t\t\tYangWu\n\t\t\n\t\t\n\t\t\tFeilongZhang\n\t\t\n\t\t\n\t\t\tKuoYang\n\t\t\t0000-0003-0736-4512\n\t\t\n\t\t\n\t\t\tShuangsangFang\n\t\t\n\t\t\n\t\t\tDechaoBu\n\t\t\n\t\t\n\t\t\tHuiLi\n\t\t\n\t\t\n\t\t\tLiangSun\n\t\t\n\t\t\n\t\t\tHairuoHu\n\t\t\n\t\t\n\t\t\tKuoGao\n\t\t\n\t\t\n\t\t\tWeiWang\n\t\t\n\t\t\n\t\t\tXuezhongZhou\n\t\t\n\t\t\n\t\t\tYiZhao\n\t\t\n\t\t\n\t\t\tJianxinChen\n\t\t\n\t\t10.1093/nar/gky1021\n\t\t30380087\n\t\tPMC6323958\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c83f717723bebd866a476a"},"refKey":99},
{"_key":"60c83f717723bebd866a476f","_id":"references/60c83f717723bebd866a476f","_rev":"_cfFmLXS---","tei":"\n\t\n\t\tLimma powers differential expression analyses for RNA-sequencing and microarray studies\n\t\t\n\t\t\tMERitchie\n\t\t\n\t\t\n\t\t\tBPhipson\n\t\t\n\t\t\n\t\t\tDWu\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t43\n\t\t\t7\n\t\t\te47\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83f717723bebd866a476a"},"refKey":119},
{"_key":"60c83fda7723bebd866a47b2","_id":"references/60c83fda7723bebd866a47b2","_rev":"_cfFmLXe---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c83fda7723bebd866a47b1"},"refKey":50},
{"_key":"60c83fda7723bebd866a47b3","_id":"references/60c83fda7723bebd866a47b3","_rev":"_cfFmLXq---","tei":"\n\t\n\t\tCharmm -a program for macromolecular energy, minimization, and dynamics calculations\n\t\t\n\t\t\tBRBrooks\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83fda7723bebd866a47b1"},"refKey":36},
{"_key":"60c83fda7723bebd866a47b4","_id":"references/60c83fda7723bebd866a47b4","_rev":"_cfFmLX2---","tei":"\n\t\n\t\tUsing PyMOL as a platform for computational drug design\n\t\t\n\t\t\tShuguangYuan\n\t\t\t0000-0001-9858-4742\n\t\t\n\t\t\n\t\t\tHC StephenChan\n\t\t\n\t\t\n\t\t\tZhenquanHu\n\t\t\n\t\t10.1002/wcms.1298\n\t\t\n\t\n\t\n\t\tWiley Interdisciplinary Reviews: Computational Molecular Science\n\t\tWIREs Comput Mol Sci\n\t\t1759-0876\n\t\t\n\t\t\t7\n\t\t\t2\n\t\t\te1298\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c83fda7723bebd866a47b1"},"refKey":49},
{"_key":"60c83fda7723bebd866a47b5","_id":"references/60c83fda7723bebd866a47b5","_rev":"_cfFmLYC---","tei":"\n\t\n\t\tPIPER: an FFT-based protein docking program with pairwise potentials\n\t\t\n\t\t\tDKozakov\n\t\t\n\t\t\n\t\t\tRBrenke\n\t\t\n\t\t\n\t\t\tSRComeau\n\t\t\n\t\t\n\t\t\tSVajda\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t65\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83fda7723bebd866a47b1"},"refKey":34},
{"_key":"60c83fda7723bebd866a47b6","_id":"references/60c83fda7723bebd866a47b6","_rev":"_cfFmLYO---","tei":"\n\t\n\t\tMolecular surface recognition: determination of geometric fit between proteins and their ligands by correlation techniques.\n\t\t\n\t\t\tEKatchalski-Katzir\n\t\t\n\t\t\n\t\t\tIShariv\n\t\t\n\t\t\n\t\t\tMEisenstein\n\t\t\n\t\t\n\t\t\tAAFriesem\n\t\t\n\t\t\n\t\t\tCAflalo\n\t\t\n\t\t\n\t\t\tIAVakser\n\t\t\n\t\t10.1073/pnas.89.6.2195\n\t\t1549581\n\t\tPMC48623\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t89\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c83fda7723bebd866a47b1"},"refKey":35},
{"_key":"60c83fee7723bebd866a47e5","_id":"references/60c83fee7723bebd866a47e5","_rev":"_cfFmLYW---","tei":"\n\t\n\t\tCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c83fee7723bebd866a47e4"},"refKey":9},
{"_key":"60c83fee7723bebd866a47e6","_id":"references/60c83fee7723bebd866a47e6","_rev":"_cfFmLYi---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c83fee7723bebd866a47e4"},"refKey":10},
{"_key":"60c840547723bebd866a4903","_id":"references/60c840547723bebd866a4903","_rev":"_cfFmLYu---","tei":"\n\t\n\t\tMatplotlib: A 2D graphics environment\n\t\t\n\t\t\tJDHunter\n\t\t\n\t\t\n\t\t\t\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\tComputing in science & engineering\n\n","document":{"$oid":"60c840547723bebd866a4902"},"refKey":17},
{"_key":"60c840547723bebd866a4904","_id":"references/60c840547723bebd866a4904","_rev":"_cfFmLY6---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLLWang\n\t\t\n\t\t\n\t\t\tMCoon\n\t\t\n\t\t\n\t\t\tTNguyen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\n\t\n\t\tFly\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c840547723bebd866a4902"},"refKey":13},
{"_key":"60c840547723bebd866a4905","_id":"references/60c840547723bebd866a4905","_rev":"_cfFmLZC---","tei":"\n\t\n\t\tUsing Drosophila melanogaster as a Model for Genotoxic Chemical Mutational Studies with a New Program, SnpSift\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tViralMPatel\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t10.3389/fgene.2012.00035\n\t\t22435069\n\t\tPMC3304048\n\t\t\n\t\n\t\n\t\tFrontiers in Genetics\n\t\tFront. Gene.\n\t\t1664-8021\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c840547723bebd866a4902"},"refKey":14},
{"_key":"60c840b27723bebd866a4935","_id":"references/60c840b27723bebd866a4935","_rev":"_cfFmLZO---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\t10.1093/nar/gkf436\n\t\t12136088\n\t\tPMC135756\n\t\tark:/67375/HXZ-NRP1F2B9-4\n\t\t5EA93CBE48016E67AE51670E4623847EAB8A8265\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c840b27723bebd866a4934"},"refKey":12},
{"_key":"60c840b27723bebd866a4936","_id":"references/60c840b27723bebd866a4936","_rev":"_cfFmLZa---","tei":"\n\t\n\t\tTerrace Aware Data Structure for Phylogenomic Inference from Supermatrices\n\t\t\n\t\t\tOlgaChernomor\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/sysbio/syw037\n\t\t27121966\n\t\tPMC5066062\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\tSyst Biol\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t65\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c840b27723bebd866a4934"},"refKey":13},
{"_key":"60c840ec7723bebd866a4954","_id":"references/60c840ec7723bebd866a4954","_rev":"_cfFmLZm---","tei":"\n\t\n\t\tCombinatorial microRNA target predictions\n\t\t\n\t\t\tAKrek\n\t\t\n\t\t\n\t\t\tDGrün\n\t\t\n\t\t\n\t\t\tMNPoy\n\t\t\n\t\t\n\t\t\tRWolf\n\t\t\n\t\t\n\t\t\tLRosenberg\n\t\t\n\t\t\n\t\t\tEJEpstein\n\t\t\n\t\t\n\t\t\tPMacmenamin\n\t\t\n\t\t\n\t\t\tIDa Piedade\n\t\t\n\t\t\n\t\t\tKCGunsalus\n\t\t\n\t\t\n\t\t\tMStoffel\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t37\n\t\t\t5\n\t\t\t495\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c840ec7723bebd866a4953"},"refKey":32},
{"_key":"60c840ec7723bebd866a4955","_id":"references/60c840ec7723bebd866a4955","_rev":"_cfFmLZy---","tei":"\n\t\n\t\tmiRWalkdatabase: prediction of possible miRNA binding sites by "walking" the genes of three genomes\n\t\t\n\t\t\tHDweep\n\t\t\n\t\t\n\t\t\tCSticht\n\t\t\n\t\t\n\t\t\tPPandey\n\t\t\n\t\t\n\t\t\tNGretz\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t44\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c840ec7723bebd866a4953"},"refKey":34},
{"_key":"60c840ec7723bebd866a4956","_id":"references/60c840ec7723bebd866a4956","_rev":"_cfFmLZ6---","tei":"\n\t\n\t\tmiRNAMap 2.0: genomic maps of microRNAs in metazoan genomes\n\t\t\n\t\t\tS-DHsu\n\t\t\n\t\t\n\t\t\tC-HChu\n\t\t\n\t\t\n\t\t\tA-PTsou\n\t\t\n\t\t\n\t\t\tS-JChen\n\t\t\n\t\t\n\t\t\tH-CChen\n\t\t\n\t\t\n\t\t\tNull-CHsu\n\t\t\n\t\t\n\t\t\tY-HWong\n\t\t\n\t\t\n\t\t\tY-HChen\n\t\t\n\t\t\n\t\t\tG-HChen\n\t\t\n\t\t\n\t\t\tH-DHuang\n\t\t\n\t\t10.1093/nar/gkm1012\n\t\t18029362\n\t\tPMC2238982\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c840ec7723bebd866a4953"},"refKey":26},
{"_key":"60c840ec7723bebd866a4957","_id":"references/60c840ec7723bebd866a4957","_rev":"_cfFmLaG---","tei":"\n\t\n\t\tAnnotation of long noncoding RNAs expressed in collaborative cross founder mice in response to respiratory virus infection reveals a new class of interferon-stimulated transcripts\n\t\t\n\t\t\tLJosset\n\t\t\n\t\t\n\t\t\tNTchitchek\n\t\t\n\t\t\n\t\t\tLEGralinski\n\t\t\n\t\t\n\t\t\tMTFerris\n\t\t\n\t\t\n\t\t\tAJEisfeld\n\t\t\n\t\t\n\t\t\tRRGreen\n\t\t\n\t\t\n\t\t\tMJThomas\n\t\t\n\t\t\n\t\t\tJTisoncik-Go\n\t\t\n\t\t\n\t\t\tGPSchroth\n\t\t\n\t\t\n\t\t\tYKawaoka\n\t\t\n\t\n\t\n\t\tRNA Biol\n\t\t\n\t\t\t11\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c840ec7723bebd866a4953"},"refKey":41},
{"_key":"60c840ec7723bebd866a4958","_id":"references/60c840ec7723bebd866a4958","_rev":"_cfFmLaS---","tei":"\n\t\n\t\tConserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets\n\t\t\n\t\t\tBPLewis\n\t\t\n\t\t\n\t\t\tCBBurge\n\t\t\n\t\t\n\t\t\tDPBartel\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t120\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c840ec7723bebd866a4953"},"refKey":28},
{"_key":"60c840ec7723bebd866a4959","_id":"references/60c840ec7723bebd866a4959","_rev":"_cfFmLae---","tei":"\n\t\n\t\tLncRNAWiki: harnessing community knowledge in collaborative curation of human long non-coding RNAs\n\t\t\n\t\t\tLMa\n\t\t\n\t\t\n\t\t\tALi\n\t\t\n\t\t\n\t\t\tDZou\n\t\t\n\t\t\n\t\t\tXXu\n\t\t\n\t\t\n\t\t\tLXia\n\t\t\n\t\t\n\t\t\tJYu\n\t\t\n\t\t\n\t\t\tVBBajic\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c840ec7723bebd866a4953"},"refKey":40},
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{"_key":"60c8419d7723bebd866a49e6","_id":"references/60c8419d7723bebd866a49e6","_rev":"_cfFmLci---","tei":"\n\t\n\t\tClustal Omega for making accurate alignments of many protein sequences\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8419d7723bebd866a49e5"},"refKey":28},
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{"_key":"60c843137723bebd866a4ae1","_id":"references/60c843137723bebd866a4ae1","_rev":"_cfFmLf----","tei":"\n\t\n\t\tThe Protein Information Resource (PIR)\n\t\t\n\t\t\tWCBarker\n\t\t\n\t\t10.1093/nar/28.1.41\n\t\t10592177\n\t\tPMC102418\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t28\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c843137723bebd866a4add"},"refKey":8},
{"_key":"60c843487723bebd866a4b24","_id":"references/60c843487723bebd866a4b24","_rev":"_cfFmLfK---","tei":"\n\t\n\t\tChEMBL: a large-scale bioactivity database for drug discovery\n\t\t\n\t\t\tAGaulton\n\t\t\n\t\t\n\t\t\tLJBellis\n\t\t\n\t\t\n\t\t\tAPBento\n\t\t\n\t\t\n\t\t\tJChambers\n\t\t\n\t\t\n\t\t\tMDavies\n\t\t\n\t\t\n\t\t\tAHersey\n\t\t\n\t\t\n\t\t\tYLight\n\t\t\n\t\t\n\t\t\tSMcglinchey\n\t\t\n\t\t\n\t\t\tDMichalovich\n\t\t\n\t\t\n\t\t\tBAl-Lazikani\n\t\t\n\t\t\n\t\t\tJPOverington\n\t\t\n\t\t10.1093/nar/gkr777\n\t\t21948594\n\t\tPMC3245175\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c843487723bebd866a4b23"},"refKey":21},
{"_key":"60c843517723bebd866a4b34","_id":"references/60c843517723bebd866a4b34","_rev":"_cfFmLfS---","tei":"\n\t\n\t\tFabSim: Facilitating computational research through automation on large-scale and distributed e-infrastructures\n\t\t\n\t\t\tDerekGroen\n\t\t\t0000-0001-7463-3765\n\t\t\n\t\t\n\t\t\tAgastyaPBhati\n\t\t\n\t\t\n\t\t\tJamesSuter\n\t\t\n\t\t\n\t\t\tJamesHetherington\n\t\t\n\t\t\n\t\t\tStefanJZasada\n\t\t\n\t\t\n\t\t\tPeterVCoveney\n\t\t\n\t\t10.1016/j.cpc.2016.05.020\n\t\t\n\t\n\t\n\t\tComputer Physics Communications\n\t\tComputer Physics Communications\n\t\t0010-4655\n\t\t\n\t\t\t207\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c843517723bebd866a4b33"},"refKey":11},
{"_key":"60c843517723bebd866a4b35","_id":"references/60c843517723bebd866a4b35","_rev":"_cfFmLfe---","tei":"\n\t\n\t\tRunning Simulations in HPC and Cloud Resources by Implementing Enhanced TOSCA Workflows\n\t\t\n\t\t\tJavierCarnero\n\t\t\n\t\t\n\t\t\tFranciscoJavierNieto\n\t\t\n\t\t10.1109/hpcs.2018.00075\n\t\n\t\n\t\t2018 International Conference on High Performance Computing & Simulation (HPCS)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c843517723bebd866a4b33"},"refKey":5},
{"_key":"60c843517723bebd866a4b36","_id":"references/60c843517723bebd866a4b36","_rev":"_cfFmLfq---","tei":"\n\t\n\t\tApache Airavata: design and directions of a science gateway framework\n\t\t\n\t\t\tMarlonEPierce\n\t\t\n\t\t\n\t\t\tSureshMarru\n\t\t\t0000-0002-6374-095X\n\t\t\n\t\t\n\t\t\tLahiruGunathilake\n\t\t\n\t\t\n\t\t\tDonKushanWijeratne\n\t\t\n\t\t\n\t\t\tRaminderSingh\n\t\t\n\t\t\n\t\t\tChathuriWimalasena\n\t\t\n\t\t\n\t\t\tShameeraRatnayaka\n\t\t\n\t\t\n\t\t\tSudhakarPamidighantam\n\t\t\n\t\t10.1002/cpe.3534\n\t\t\n\t\t\n\t\n\t\n\t\tConcurrency and Computation: Practice and Experience\n\t\tConcurrency Computat.: Pract. Exper.\n\t\t1532-0626\n\t\t\n\t\t\t27\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c843517723bebd866a4b33"},"refKey":18},
{"_key":"60c843727723bebd866a4b85","_id":"references/60c843727723bebd866a4b85","_rev":"_cfFmLf2---","tei":"\n\t\n\t\tScanpy for analysis of large-scale single-cell gene expression data\n\t\t\n\t\t\tFAlexanderWolf\n\t\t\t0000-0002-8760-7838\n\t\t\n\t\t\n\t\t\tPhilippAngerer\n\t\t\n\t\t\n\t\t\tFabianJTheis\n\t\t\n\t\t10.1101/174029\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t19\n\t\t\t15\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c843727723bebd866a4b84"},"refKey":64},
{"_key":"60c843727723bebd866a4b86","_id":"references/60c843727723bebd866a4b86","_rev":"_cfFmLgC---","tei":"\n\t\n\t\tFast, sensitive and accurate integration of single-cell data with harmony\n\t\t\n\t\t\tIKorsunsky\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t1\n\t\t\t8\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c843727723bebd866a4b84"},"refKey":32},
{"_key":"60c843727723bebd866a4b87","_id":"references/60c843727723bebd866a4b87","_rev":"_cfFmLgK---","tei":"\n\t\n\t\tSingle-Cell Multi-omic Integration Compares and Contrasts Features of Brain Cell Identity\n\t\t\n\t\t\tJoshuaDWelch\n\t\t\n\t\t\n\t\t\tVelinaKozareva\n\t\t\n\t\t\n\t\t\tAshleyFerreira\n\t\t\n\t\t\n\t\t\tCharlesVanderburg\n\t\t\n\t\t\n\t\t\tCarlyMartin\n\t\t\n\t\t\n\t\t\tEvanZMacosko\n\t\t\n\t\t10.1016/j.cell.2019.05.006\n\t\n\t\n\t\tCell\n\t\tCell\n\t\t0092-8674\n\t\t\n\t\t\t177\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c843727723bebd866a4b84"},"refKey":33},
{"_key":"60c843727723bebd866a4b88","_id":"references/60c843727723bebd866a4b88","_rev":"_cfFmLgW---","tei":"\n\t\n\t\tDeep generative modeling for single-cell transcriptomics\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJRegier\n\t\t\n\t\t\n\t\t\tBCole\n\t\t\n\t\t\n\t\t\tMIJordan\n\t\t\n\t\t\n\t\t\tNYosef\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c843727723bebd866a4b84"},"refKey":23},
{"_key":"60c843727723bebd866a4b89","_id":"references/60c843727723bebd866a4b89","_rev":"_cfFmLgi---","tei":"\n\t\n\t\tCorrecting batch effects in single-cell RNA sequencing data by matching mutual nearest neighbours\n\t\t\n\t\t\tLalehHaghverdi\n\t\t\n\t\t\n\t\t\tAaronT LLun\n\t\t\t0000-0002-3564-4813\n\t\t\n\t\t\n\t\t\tMichaelDMorgan\n\t\t\t0000-0003-0757-0711\n\t\t\n\t\t\n\t\t\tJohnCMarioni\n\t\t\t0000-0001-9092-0852\n\t\t\n\t\t10.1101/165118\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c843727723bebd866a4b84"},"refKey":27},
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{"_key":"60c843d87723bebd866a4bde","_id":"references/60c843d87723bebd866a4bde","_rev":"_cfFmLg2---","tei":"\n\t\n\t\tSwissParam: a fast force field generation tool for small organic molecules\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tMACuendet\n\t\t\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c843d87723bebd866a4bdc"},"refKey":51},
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{"_key":"60c843d97723bebd866a4bf8","_id":"references/60c843d97723bebd866a4bf8","_rev":"_cfFmLhu---","tei":"\n\t\n\t\tIQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies\n\t\t\n\t\t\tLam-TungNguyen\n\t\t\n\t\t\n\t\t\tHeikoASchmidt\n\t\t\n\t\t\n\t\t\tArndtVon Haeseler\n\t\t\n\t\t\n\t\t\tBuiQuangMinh\n\t\t\n\t\t10.1093/molbev/msu300\n\t\t25371430\n\t\tPMC4271533\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t32\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c843d97723bebd866a4bf6"},"refKey":71},
{"_key":"60c843e07723bebd866a4c0b","_id":"references/60c843e07723bebd866a4c0b","_rev":"_cfFmLh6---","tei":"\n\t\n\t\tSWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information\n\t\t\n\t\t\tMBiasini\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tTSchmidt\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c843e07723bebd866a4c0a"},"refKey":31},
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{"_key":"60c843f47723bebd866a4c22","_id":"references/60c843f47723bebd866a4c22","_rev":"_cfFmLjK---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c843f47723bebd866a4c21"},"refKey":13},
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{"_key":"60c846137723bebd866a4e97","_id":"references/60c846137723bebd866a4e97","_rev":"_cfFmLrS---","tei":"\n\t\n\t\tAccelerated probabilistic inference of RNA structure evolution\n\t\t\n\t\t\tIHolmes\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t6\n\t\t\t73\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c846137723bebd866a4e96"},"refKey":18},
{"_key":"60c846137723bebd866a4e98","_id":"references/60c846137723bebd866a4e98","_rev":"_cfFmLre---","tei":"\n\t\n\t\tEfficient pairwise RNA structure prediction and alignment using sequence alignment constraints\n\t\t\n\t\t\tRobinDDowell\n\t\t\n\t\t\n\t\t\tSeanREddy\n\t\t\n\t\t10.1186/1471-2105-7-400\n\t\t16952317\n\t\tPMC1579236\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t400\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c846137723bebd866a4e96"},"refKey":19},
{"_key":"60c846137723bebd866a4e99","_id":"references/60c846137723bebd866a4e99","_rev":"_cfFmLrq---","tei":"\n\t\n\t\tSimulFold: Simultaneously Inferring RNA Structures Including Pseudoknots, Alignments, and Trees Using a Bayesian MCMC Framework\n\t\t\n\t\t\tIrmtraudMMeyer\n\t\t\n\t\t\n\t\t\tIstvánMiklós\n\t\t\n\t\t10.1371/journal.pcbi.0030149\n\t\t17696604\n\t\tPMC1941756\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-734X\n\t\t1553-7358\n\t\t\n\t\t\t3\n\t\t\t8\n\t\t\te149\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c846137723bebd866a4e96"},"refKey":21},
{"_key":"60c846137723bebd866a4e9a","_id":"references/60c846137723bebd866a4e9a","_rev":"_cfFmLr2---","tei":"\n\t\n\t\tDynalign: an algorithm for finding the secondary structure common to two RNA sequences\n\t\t\n\t\t\tDavidHMathews\n\t\t\n\t\t\n\t\t\tDouglasHTurner\n\t\t\n\t\t10.1006/jmbi.2001.5351\n\t\t11902836\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t317\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c846137723bebd866a4e96"},"refKey":12},
{"_key":"60c846137723bebd866a4e9b","_id":"references/60c846137723bebd866a4e9b","_rev":"_cfFmLs----","tei":"\n\t\n\t\tEfficient pairwise RNA structure prediction using probabilistic alignment constraints in Dynalign\n\t\t\n\t\t\tArifHarmanci\n\t\t\n\t\t\n\t\t\tGauravSharma\n\t\t\n\t\t\n\t\t\tDavidHMathews\n\t\t\n\t\t10.1186/1471-2105-8-130\n\t\t17445273\n\t\tPMC1868766\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t130\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c846137723bebd866a4e96"},"refKey":13},
{"_key":"60c846137723bebd866a4e9c","_id":"references/60c846137723bebd866a4e9c","_rev":"_cfFmLsK---","tei":"\n\t\n\t\tAlignment of RNA base pairing probability matrices\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tSH FBernhart\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t10.1093/bioinformatics/bth229\n\t\t15073017\n\t\tark:/67375/HXZ-HTXN5WZC-7\n\t\tD144E5A4C7B88C8B1C14D86FCD2EFAC29B431B98\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c846137723bebd866a4e96"},"refKey":14},
{"_key":"60c846137723bebd866a4e9d","_id":"references/60c846137723bebd866a4e9d","_rev":"_cfFmLsW---","tei":"\n\t\n\t\tLOCAL SEQUENCE-STRUCTURE MOTIFS IN RNA\n\t\t\n\t\t\tRolfBackofen\n\t\t\n\t\t\n\t\t\tSebastianWill\n\t\t\n\t\t10.1142/s0219720004000818\n\t\t15617161\n\t\t\n\t\n\t\n\t\tJournal of Bioinformatics and Computational Biology\n\t\tJ. Bioinform. Comput. Biol.\n\t\t0219-7200\n\t\t1757-6334\n\t\t\n\t\t\t02\n\t\t\t04\n\t\t\t\n\t\t\t\n\t\t\tWorld Scientific Pub Co Pte Lt\n\t\t\n\t\n\n","document":{"$oid":"60c846137723bebd866a4e96"},"refKey":15},
{"_key":"60c846137723bebd866a4e9e","_id":"references/60c846137723bebd866a4e9e","_rev":"_cfFmLse---","tei":"\n\t\n\t\tInferring Non-Coding RNA Families and Classes by Means of Genome-Scale Structure-Based Clustering\n\t\t\n\t\t\tSebastianWill\n\t\t\n\t\t\n\t\t\tKristinReiche\n\t\t\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t\n\t\t\tRolfBackofen\n\t\t\n\t\t10.1371/journal.pcbi.0030065.eor\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-734X\n\t\t1553-7358\n\t\t\n\t\t\tpreprint\n\t\t\t2007\n\t\t\te65\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c846137723bebd866a4e96"},"refKey":16},
{"_key":"60c846157723bebd866a4ee4","_id":"references/60c846157723bebd866a4ee4","_rev":"_cfFmLsq---","tei":"\n\t\n\t\tCollaboration gets the most out of software\n\t\t\n\t\t\tAMorin\n\t\t\n\t\t\n\t\t\tBEisenbraun\n\t\t\n\t\t\n\t\t\tJKey\n\t\t\n\t\t\n\t\t\tPCSanschagrin\n\t\t\n\t\t\n\t\t\tMATimony\n\t\t\n\t\t\n\t\t\tMOttaviano\n\t\t\n\t\t\n\t\t\tPSliz\n\t\t\n\t\t\n\t\t\t\n\t\t\te01456\n\t\t\n\t\n\n","document":{"$oid":"60c846157723bebd866a4ee3"},"refKey":41},
{"_key":"60c846157723bebd866a4ee5","_id":"references/60c846157723bebd866a4ee5","_rev":"_cfFmLs2---","tei":"\n\t\n\t\tiMOSFLM: a new graphical interface for diffraction-image processing with MOSFLM\n\t\t\n\t\t\tTGBattye\n\t\t\n\t\t\n\t\t\tLKontogiannis\n\t\t\n\t\t\n\t\t\tOJohnson\n\t\t\n\t\t\n\t\t\tHRPowell\n\t\t\n\t\t\n\t\t\tAGLeslie\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c846157723bebd866a4ee3"},"refKey":2},
{"_key":"60c846157723bebd866a4ee6","_id":"references/60c846157723bebd866a4ee6","_rev":"_cfFmLtC---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c846157723bebd866a4ee3"},"refKey":14},
{"_key":"60c846157723bebd866a4ee7","_id":"references/60c846157723bebd866a4ee7","_rev":"_cfFmLtK---","tei":"\n\t\n\t\tPHENIX: building new software for automated crystallographic structure determination\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tLWHung\n\t\t\n\t\t\n\t\t\tTRIoerger\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tJCSacchettini\n\t\t\n\t\t\n\t\t\tNKSauter\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t58\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c846157723bebd866a4ee3"},"refKey":0},
{"_key":"60c846157723bebd866a4ee8","_id":"references/60c846157723bebd866a4ee8","_rev":"_cfFmLtW---","tei":"\n\t\n\t\tISOLDE: a physically realistic environment for model building into low-resolution electron-density maps\n\t\t\n\t\t\tTICroll\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c846157723bebd866a4ee3"},"refKey":7},
{"_key":"60c846157723bebd866a4ee9","_id":"references/60c846157723bebd866a4ee9","_rev":"_cfFmLti---","tei":"\n\t\n\t\tCoot: model-building tools for molecular graphics\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t60\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c846157723bebd866a4ee3"},"refKey":13},
{"_key":"60c8465e7723bebd866a4f04","_id":"references/60c8465e7723bebd866a4f04","_rev":"_cfFmLtq---","tei":"\n\t\n\t\tEcoSim: null models software for ecology\n\t\t\n\t\t\tNJGotelli\n\t\t\n\t\t\n\t\t\tGLEntsminger\n\t\t\n\t\n\t\n\t\tAcquired Intelligence and Kesey-Bear\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8465e7723bebd866a4f03"},"refKey":31},
{"_key":"60c8469e7723bebd866a4f26","_id":"references/60c8469e7723bebd866a4f26","_rev":"_cfFmLt2---","tei":"\n\t\n\t\tFlexible selection of the solute region in replica exchange with solute tempering: Application to protein-folding simulations\n\t\t\n\t\t\tMotoshiKamiya\n\t\t\n\t\t\n\t\t\tYujiSugita\n\t\t\n\t\t10.1063/1.5016222\n\t\t30134668\n\t\n\t\n\t\tThe Journal of Chemical Physics\n\t\tThe Journal of Chemical Physics\n\t\t0021-9606\n\t\t1089-7690\n\t\t\n\t\t\t149\n\t\t\t7\n\t\t\t072304\n\t\t\t\n\t\t\tAIP Publishing\n\t\t\n\t\n\n","document":{"$oid":"60c8469e7723bebd866a4f25"},"refKey":57},
{"_key":"60c846cc7723bebd866a4f49","_id":"references/60c846cc7723bebd866a4f49","_rev":"_cfFmLuC---","tei":"\n\t\n\t\tSECUSIM: A Tool for the Cyber-Attack Simulation\n\t\t\n\t\t\tJongSouPark\n\t\t\n\t\t\n\t\t\tJang-SeLee\n\t\t\n\t\t\n\t\t\tHwanKukKim\n\t\t\n\t\t\n\t\t\tJeong-RyeJeong\n\t\t\n\t\t\n\t\t\tDong-BokYeom\n\t\t\n\t\t\n\t\t\tSung-DoChi\n\t\t\n\t\t10.1007/3-540-45600-7_53\n\t\tark:/67375/HCB-DLXHF15C-9\n\t\t09DD110CCBEDF7220AC11F73AC60D3C6EE336CEB\n\t\n\t\n\t\tInformation and Communications Security\n\t\t\t\tXi'an, China\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c846cc7723bebd866a4f48"},"refKey":64},
{"_key":"60c846ff7723bebd866a4f76","_id":"references/60c846ff7723bebd866a4f76","_rev":"_cfFmLuO---","tei":"\n\t\n\t\tResearch electronic data capture (REDCap)—A metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPaulAHarris\n\t\t\n\t\t\n\t\t\tRobertTaylor\n\t\t\n\t\t\n\t\t\tRobertThielke\n\t\t\n\t\t\n\t\t\tJonathonPayne\n\t\t\n\t\t\n\t\t\tNathanielGonzalez\n\t\t\n\t\t\n\t\t\tJoseGConde\n\t\t\n\t\t10.1016/j.jbi.2008.08.010\n\t\t18929686\n\t\tPMC2700030\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c846ff7723bebd866a4f75"},"refKey":14},
{"_key":"60c847037723bebd866a4f7a","_id":"references/60c847037723bebd866a4f7a","_rev":"_cfFmLuW---","tei":"\n\t\n\t\tNetMHCpan-4.1 and NetMHCIIpan-4.0: Improved Predictions of MHC Antigen Presentation by Concurrent Motif Deconvolution and Integration of MS MHC Eluted Ligand Data\n\t\t\n\t\t\tBirkirReynisson\n\t\t\n\t\t\n\t\t\tBrunoAlvarez\n\t\t\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1093/nar/gkaa379/5837056\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c847037723bebd866a4f79"},"refKey":9},
{"_key":"60c8470d7723bebd866a4f7d","_id":"references/60c8470d7723bebd866a4f7d","_rev":"_cfFmLui---","tei":"\n\t\n\t\tThe hepatitis C sequence database in Los Alamos\n\t\t\n\t\t\tCKuiken\n\t\t\n\t\t\n\t\t\tPHraber\n\t\t\n\t\t\n\t\t\tJThurmond\n\t\t\n\t\t\n\t\t\tKYusim\n\t\t\n\t\t10.1093/nar/gkm962\n\t\t18025038\n\t\tPMC2238885\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8470d7723bebd866a4f7c"},"refKey":211},
{"_key":"60c8470d7723bebd866a4f7e","_id":"references/60c8470d7723bebd866a4f7e","_rev":"_cfFmLuu---","tei":"\n\t\n\t\tThe hepatitis C sequence database in Los Alamos\n\t\t\n\t\t\tCKuiken\n\t\t\n\t\t\n\t\t\tPHraber\n\t\t\n\t\t\n\t\t\tJThurmond\n\t\t\n\t\t\n\t\t\tKYusim\n\t\t\n\t\t10.1093/nar/gkm962\n\t\t18025038\n\t\tPMC2238885\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8470d7723bebd866a4f7c"},"refKey":212},
{"_key":"60c8472a7723bebd866a4f9d","_id":"references/60c8472a7723bebd866a4f9d","_rev":"_cfFmLu2---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8472a7723bebd866a4f9c"},"refKey":8},
{"_key":"60c8472a7723bebd866a4f9e","_id":"references/60c8472a7723bebd866a4f9e","_rev":"_cfFmLvC---","tei":"\n\t\n\t\tThree-dimensional context rather than NLS amino acid sequence determines importin a subtype specificity for RCC1\n\t\t\n\t\t\tJMRuijter\n\t\t\n\t\t\n\t\t\tCRamakers\n\t\t\n\t\t\n\t\t\tWMHoogaars\n\t\t\n\t\t\n\t\t\tYKarlen\n\t\t\n\t\t\n\t\t\tOBakker\n\t\t\n\t\t\n\t\t\tMJVan Den Hoff\n\t\t\n\t\t\n\t\t\tAFMoorman\n\t\t\n\t\t\n\t\t\tRSSankhala\n\t\t\n\t\t\n\t\t\tRKLokareddy\n\t\t\n\t\t\n\t\t\tSBegum\n\t\t\n\t\t\n\t\t\tRAPumroy\n\t\t\n\t\t\n\t\t\tREGillilan\n\t\t\n\t\t\n\t\t\tGCingolani\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t979\n\t\t\t\n\t\t\n\t\n\tNat. Commun.\n\n","document":{"$oid":"60c8472a7723bebd866a4f9c"},"refKey":49},
{"_key":"60c8477b7723bebd866a4fdc","_id":"references/60c8477b7723bebd866a4fdc","_rev":"_cfFmLvO---","tei":"\n\t\n\t\t$$\\mathcal {S}$$BIP 2.0: Statistical Model Checking Stochastic Real-Time Systems\n\t\t\n\t\t\tBrahamLotfiMediouni\n\t\t\n\t\t\n\t\t\tAyoubNouri\n\t\t\n\t\t\n\t\t\tMariusBozga\n\t\t\n\t\t\n\t\t\tMahieddineDellabani\n\t\t\n\t\t\n\t\t\tAxelLegay\n\t\t\n\t\t\n\t\t\tSaddekBensalem\n\t\t\n\t\t10.1007/978-3-030-01090-4_33\n\t\t\n\t\t\n\t\n\t\n\t\tAutomated Technology for Verification and Analysis\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t11138\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8477b7723bebd866a4fdb"},"refKey":22},
{"_key":"60c8477b7723bebd866a4fdd","_id":"references/60c8477b7723bebd866a4fdd","_rev":"_cfFmLva---","tei":"\n\t\n\t\tCoupling and Importance Sampling for Statistical Model Checking\n\t\t\n\t\t\tBenoîtBarbot\n\t\t\n\t\t\n\t\t\tSergeHaddad\n\t\t\n\t\t\n\t\t\tClaudinePicaronny\n\t\t\n\t\t10.1007/978-3-642-28756-5_23\n\t\t\n\t\t\n\t\n\t\n\t\tTools and Algorithms for the Construction and Analysis of Systems\n\t\t\t\tBerlin Heidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t7214\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8477b7723bebd866a4fdb"},"refKey":0},
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{"_key":"60c8478b7723bebd866a5007","_id":"references/60c8478b7723bebd866a5007","_rev":"_cfFmLwm---","tei":"\n\t\n\t\tR: a language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c8478b7723bebd866a5006"},"refKey":10},
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{"_key":"60c847a17723bebd866a5023","_id":"references/60c847a17723bebd866a5023","_rev":"_cfFmLxG---","tei":"\n\t\n\t\tCertifying Safety and Termination Proofs for Integer Transition Systems\n\t\t\n\t\t\tMarcBrockschmidt\n\t\t\n\t\t\n\t\t\tSebastiaanJ CJoosten\n\t\t\n\t\t\n\t\t\tRenéThiemann\n\t\t\n\t\t\n\t\t\tAkihisaYamada\n\t\t\n\t\t10.1007/978-3-319-63046-5_28\n\t\t\n\t\t\n\t\n\t\n\t\tAutomated Deduction – CADE 26\n\t\t\t\t\n\t\t\tLDe Moura\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t10395\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c847a17723bebd866a5021"},"refKey":4},
{"_key":"60c847a17723bebd866a5024","_id":"references/60c847a17723bebd866a5024","_rev":"_cfFmLxS---","tei":"\n\t\n\t\tCertification of Termination Proofs Using CeTA\n\t\t\n\t\t\tRenéThiemann\n\t\t\n\t\t\n\t\t\tChristianSternagel\n\t\t\n\t\t10.1007/978-3-642-03359-9_31\n\t\tark:/67375/HCB-GX3373ZR-0\n\t\t79908328B26DF7D03AF8B32739D85B8233A76D3F\n\t\t\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tMWenzel\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t5674\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c847a17723bebd866a5021"},"refKey":23},
{"_key":"60c847a47723bebd866a5036","_id":"references/60c847a47723bebd866a5036","_rev":"_cfFmLxa---","tei":"\n\t\n\t\tImproving the usefulness of a tool for appraising the quality of qualitative, quantitative and mixed methods studies, the Mixed Methods Appraisal Tool (MMAT)\n\t\t\n\t\t\tQuanNhaHong\n\t\t\t0000-0002-2576-5750\n\t\t\n\t\t\n\t\t\tAraceliGonzalez-Reyes\n\t\t\n\t\t\n\t\t\tPierrePluye\n\t\t\n\t\t10.1111/jep.12884\n\t\t29464873\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Evaluation in Clinical Practice\n\t\tJ Eval Clin Pract\n\t\t1356-1294\n\t\t\n\t\t\t24\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c847a47723bebd866a5035"},"refKey":20},
{"_key":"60c847a47723bebd866a5037","_id":"references/60c847a47723bebd866a5037","_rev":"_cfFmLxm---","tei":"\n\t\n\t\tTesting the reliability and efficiency of the pilot Mixed Methods Appraisal Tool (MMAT) for systematic mixed studies review\n\t\t\n\t\t\tRominaPace\n\t\t\n\t\t\n\t\t\tPierrePluye\n\t\t\n\t\t\n\t\t\tGillianBartlett\n\t\t\n\t\t\n\t\t\tAnnCMacaulay\n\t\t\n\t\t\n\t\t\tJonSalsberg\n\t\t\n\t\t\n\t\t\tJustinJagosh\n\t\t\n\t\t\n\t\t\tRobbynSeller\n\t\t\n\t\t10.1016/j.ijnurstu.2011.07.002\n\t\t21835406\n\t\t\n\t\n\t\n\t\tInternational Journal of Nursing Studies\n\t\tInternational Journal of Nursing Studies\n\t\t0020-7489\n\t\t\n\t\t\t49\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c847a47723bebd866a5035"},"refKey":31},
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{"_key":"60c8493b7723bebd866a51c6","_id":"references/60c8493b7723bebd866a51c6","_rev":"_cfFmL4C---","tei":"\n\t\n\t\tCPORT: A Consensus Interface Predictor and Its Performance in Prediction-Driven Docking with HADDOCK\n\t\t\n\t\t\tSjoerdJDe Vries\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\n\t\t10.1371/journal.pone.0017695\n\t\t21464987\n\t\tPMC3064578\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t3\n\t\t\te17695\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c8493b7723bebd866a51bf"},"refKey":22},
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{"_key":"60c849797723bebd866a5228","_id":"references/60c849797723bebd866a5228","_rev":"_cfFmL5m---","tei":"\n\t\n\t\tThe REDCap consortium: building an international community of software partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tLMcleod\n\t\t\n\t\t\n\t\t\tLDelacqua\n\t\t\n\t\t\n\t\t\tGDelacqua\n\t\t\n\t\t\n\t\t\tFKirby\n\t\t\n\t\t\n\t\t\tJDuda\n\t\t\n\t\t\n\t\t\tSN\n\t\t\n\t\t\n\t\t\tRed-CapConsortium\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c849797723bebd866a5224"},"refKey":14},
{"_key":"60c849b87723bebd866a5249","_id":"references/60c849b87723bebd866a5249","_rev":"_cfFmL5u---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1038/msb.2011.75\n\t\t21988835\n\t\tPMC3261699\n\t\t\n\t\n\t\n\t\tMolecular Systems Biology\n\t\tMolecular Systems Biology\n\t\t1744-4292\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c849b87723bebd866a5248"},"refKey":74},
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{"_key":"60c84de57723bebd866a55e6","_id":"references/60c84de57723bebd866a55e6","_rev":"_cfFmMHW---","tei":"\n\t\n\t\tIQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tL-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAHaeseler Von\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c84de57723bebd866a55e1"},"refKey":13},
{"_key":"60c84de57723bebd866a55e7","_id":"references/60c84de57723bebd866a55e7","_rev":"_cfFmMHi---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c84de57723bebd866a55e1"},"refKey":2},
{"_key":"60c84de57723bebd866a55e8","_id":"references/60c84de57723bebd866a55e8","_rev":"_cfFmMHu---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c84de57723bebd866a55e1"},"refKey":10},
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{"_key":"60c84e117723bebd866a5613","_id":"references/60c84e117723bebd866a5613","_rev":"_cfFmMIm---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c84e117723bebd866a5612"},"refKey":21},
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{"_key":"60c84ec27723bebd866a56a7","_id":"references/60c84ec27723bebd866a56a7","_rev":"_cfFmMJ2---","tei":"\n\t\n\t\tCalendar.Help: Designing a Workflow-Based Scheduling Agent with Humans in the Loop\n\t\t\n\t\t\tJustinCranshaw\n\t\t\n\t\t\n\t\t\tRafalKocielnik\n\t\t\n\t\t\n\t\t\tBowenYu\n\t\t\n\t\t\n\t\t\tJaimeTeevan\n\t\t\n\t\t10.2139/ssrn.2940295\n\t\t\n\t\n\t\n\t\tSSRN Electronic Journal\n\t\tSSRN Journal\n\t\t1556-5068\n\t\t\n\t\t\t2017\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c84ec27723bebd866a56a6"},"refKey":5},
{"_key":"60c84ec77723bebd866a56b3","_id":"references/60c84ec77723bebd866a56b3","_rev":"_cfFmMKC---","tei":"\n\t\n\t\tSWAMI: Integrating Biological Databases and Analysis Tools Within User Friendly Environment\n\t\t\n\t\t\tRamiRifaieh\n\t\t\n\t\t\n\t\t\tRogerUnwin\n\t\t\n\t\t\n\t\t\tJeremyCarver\n\t\t\n\t\t\n\t\t\tMarkAMiller\n\t\t\n\t\t10.1007/978-3-540-73255-6_7\n\t\tark:/67375/HCB-QLT7GQVQ-L\n\t\t7DBB20B14A7BB37228A84D6A77F1B6DBF5396195\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\tLecture Notes in Bioinformatics\n\t\t\n\t\t\tSCohen-Boulakia\n\t\t\tVTannen\n\t\t\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t2007. 2007\n\t\t\t4544\n\t\t\t\n\t\t\n\t\n\tData Integration in the Life Sciences\n\n","document":{"$oid":"60c84ec77723bebd866a56b2"},"refKey":21},
{"_key":"60c84ec77723bebd866a56b4","_id":"references/60c84ec77723bebd866a56b4","_rev":"_cfFmMKO---","tei":"\n\t\n\t\tBayesian phylogeography finds its roots\n\t\t\n\t\t\tPLemey\n\t\t\n\t\t\n\t\t\tARambaut\n\t\t\n\t\t\n\t\t\tADrummond\n\t\t\n\t\t\n\t\t\tMSuchard\n\t\t\n\t\n\t\n\t\tPLoS Comput. Biol\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c84ec77723bebd866a56b2"},"refKey":13},
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{"_key":"60c84efb7723bebd866a56f4","_id":"references/60c84efb7723bebd866a56f4","_rev":"_cfFmMLe---","tei":"\n\t\n\t\tEMBOSS: The European Molecular Biology Open Software Suite\n\t\t\n\t\t\tPRice\n\t\t\n\t\t\n\t\t\tILongden\n\t\t\n\t\t\n\t\t\tABleasby\n\t\t\n\t\n\t\n\t\tTrends in Genetics\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c84efb7723bebd866a56f0"},"refKey":49},
{"_key":"60c84efb7723bebd866a56f5","_id":"references/60c84efb7723bebd866a56f5","_rev":"_cfFmMLm---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c84efb7723bebd866a56f0"},"refKey":18},
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{"_key":"60c84fca7723bebd866a577e","_id":"references/60c84fca7723bebd866a577e","_rev":"_cfFmMMq---","tei":"\n\t\n\t\tMetascape provides a biologist-oriented resource for the analysis of systems-level datasets\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tBZhou\n\t\t\n\t\t\n\t\t\tLPache\n\t\t\n\t\t10.1038/s41467-019-09234-6\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t1523\n\t\t\t\n\t\t\n\t\n\tpublished Online First: 2019/04/05\n\n","document":{"$oid":"60c84fca7723bebd866a577d"},"refKey":9},
{"_key":"60c84fda7723bebd866a5786","_id":"references/60c84fda7723bebd866a5786","_rev":"_cfFmMM2---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c84fda7723bebd866a5785"},"refKey":11},
{"_key":"60c850157723bebd866a57a6","_id":"references/60c850157723bebd866a57a6","_rev":"_cfFmMNC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGMShelxl-2013\n\t\t\n\t\t\n\t\t\tSheldrick\n\t\t\n\t\t\n\t\t\t\n\t\t\tGermany\n\t\t\n\t\t\n\t\t\tUniversity of Göttingen\n\t\t\n\t\n\n","document":{"$oid":"60c850157723bebd866a57a5"},"refKey":8},
{"_key":"60c850157723bebd866a57a7","_id":"references/60c850157723bebd866a57a7","_rev":"_cfFmMNK---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAgilentCrysalispro\n\t\t\n\t\t\n\t\t\tTechnoligies\n\t\t\n\t\t1.171.37.33 (release 27-03-2014 CrysAlis171 .NET\n\t\t\n\t\n\n","document":{"$oid":"60c850157723bebd866a57a5"},"refKey":7},
{"_key":"60c850287723bebd866a57b8","_id":"references/60c850287723bebd866a57b8","_rev":"_cfFmMNW---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c850287723bebd866a57b7"},"refKey":1},
{"_key":"60c850287723bebd866a57b9","_id":"references/60c850287723bebd866a57b9","_rev":"_cfFmMNi---","tei":"\n\t\n\t\tInterProScan -an integration platform for the signature-recognition methods in InterPro\n\t\t\n\t\t\tEMZdobnov\n\t\t\n\t\t\n\t\t\tRApweiler\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c850287723bebd866a57b7"},"refKey":58},
{"_key":"60c850287723bebd866a57ba","_id":"references/60c850287723bebd866a57ba","_rev":"_cfFmMNu---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c850287723bebd866a57b7"},"refKey":42},
{"_key":"60c850287723bebd866a57bb","_id":"references/60c850287723bebd866a57bb","_rev":"_cfFmMN6---","tei":"\n\t\n\t\tRDP2: recombination detection and analysis from sequence alignments\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tCWilliamson\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bth490\n\t\t15377507\n\t\tark:/67375/HXZ-1CJ571R5-H\n\t\tFBF994AF07DCF440DBE2361DA623551B56A99871\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c850287723bebd866a57b7"},"refKey":45},
{"_key":"60c850287723bebd866a57bc","_id":"references/60c850287723bebd866a57bc","_rev":"_cfFmMOG---","tei":"\n\t\n\t\tImproved prediction of signal peptides: SignalP 3.0\n\t\t\n\t\t\tJDBendtsen\n\t\t\n\t\t\n\t\t\tHNielsen\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tSBrunak\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t340\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c850287723bebd866a57b7"},"refKey":8},
{"_key":"60c850567723bebd866a57dd","_id":"references/60c850567723bebd866a57dd","_rev":"_cfFmMOS---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c850567723bebd866a57dc"},"refKey":34},
{"_key":"60c850567723bebd866a57de","_id":"references/60c850567723bebd866a57de","_rev":"_cfFmMOa---","tei":"\n\t\n\t\tThe language of RNA: a formal grammar that includes pseudoknots\n\t\t\n\t\t\tERivas\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t10.1093/bioinformatics/16.4.334\n\t\t10869031\n\t\t1367-4803\n\t\tark:/67375/HXZ-RPJ5H8MP-P\n\t\t6CB423BA1D0EDC0B89C05276A3F974A061BF5342\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c850567723bebd866a57dc"},"refKey":47},
{"_key":"60c850567723bebd866a57df","_id":"references/60c850567723bebd866a57df","_rev":"_cfFmMOm---","tei":"\n\t\n\t\tExpanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t\n\t\t\tJSabina\n\t\t\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t\n\t\t\tDHTurner\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t288\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c850567723bebd866a57dc"},"refKey":35},
{"_key":"60c850567723bebd866a57e0","_id":"references/60c850567723bebd866a57e0","_rev":"_cfFmMOy---","tei":"\n\t\n\t\tmfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c850567723bebd866a57dc"},"refKey":59},
{"_key":"60c850827723bebd866a57f8","_id":"references/60c850827723bebd866a57f8","_rev":"_cfFmMP----","tei":"\n\t\n\t\tDiscovery Studio Visualizer\n\t\t\n\t\t\tDSBiovia\n\t\t\n\t\t\n\t\t\t\n\t\t\tSan Diego, CA, USA\n\t\t\n\t\n\n","document":{"$oid":"60c850827723bebd866a57f7"},"refKey":27},
{"_key":"60c850827723bebd866a57f9","_id":"references/60c850827723bebd866a57f9","_rev":"_cfFmMPK---","tei":"\n\t\n\t\tUCSF chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c850827723bebd866a57f7"},"refKey":22},
{"_key":"60c850827723bebd866a57fa","_id":"references/60c850827723bebd866a57fa","_rev":"_cfFmMPW---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c850827723bebd866a57f7"},"refKey":46},
{"_key":"60c850827723bebd866a57fb","_id":"references/60c850827723bebd866a57fb","_rev":"_cfFmMPi---","tei":"\n\t\n\t\tSmall-molecule library screening by docking with PyRx\n\t\t\n\t\t\tSDallakyan\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tChem. Biol\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c850827723bebd866a57f7"},"refKey":31},
{"_key":"60c850827723bebd866a57fc","_id":"references/60c850827723bebd866a57fc","_rev":"_cfFmMPq---","tei":"\n\t\n\t\tpkCSM: Predicting Small-Molecule Pharmacokinetic and Toxicity Properties Using Graph-Based Signatures\n\t\t\n\t\t\tDouglasE VPires\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t\n\t\t\tDavidBAscher\n\t\t\n\t\t10.1021/acs.jmedchem.5b00104\n\t\t25860834\n\t\tPMC4434528\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t58\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c850827723bebd866a57f7"},"refKey":37},
{"_key":"60c850827723bebd866a57fd","_id":"references/60c850827723bebd866a57fd","_rev":"_cfFmMP2---","tei":"\n\t\n\t\tRapid decomposition and visualisation of protein–ligand binding free energies by residue and by water\n\t\t\n\t\t\tChristopherJWoods\n\t\t\n\t\t\n\t\t\tMaturosMalaisree\n\t\t\n\t\t\n\t\t\tJulienMichel\n\t\t\n\t\t\n\t\t\tBenLong\n\t\t\n\t\t\n\t\t\tSimonMcintosh-Smith\n\t\t\n\t\t\n\t\t\tAdrianJMulholland\n\t\t\n\t\t10.1039/c3fd00125c\n\t\t25340314\n\t\t\n\t\t\n\t\n\t\n\t\tFaraday Discuss.\n\t\tFaraday Discuss.\n\t\t1359-6640\n\t\t1364-5498\n\t\t\n\t\t\t169\n\t\t\t\n\t\t\t\n\t\t\tRoyal Society of Chemistry (RSC)\n\t\t\n\t\n\n","document":{"$oid":"60c850827723bebd866a57f7"},"refKey":49},
{"_key":"60c850827723bebd866a57fe","_id":"references/60c850827723bebd866a57fe","_rev":"_cfFmMQC---","tei":"\n\t\n\t\tA water-swap reaction coordinate for the calculation of absolute protein–ligand binding free energies\n\t\t\n\t\t\tChristopherJWoods\n\t\t\n\t\t\n\t\t\tMaturosMalaisree\n\t\t\n\t\t\n\t\t\tSupotHannongbua\n\t\t\n\t\t\n\t\t\tAdrianJMulholland\n\t\t\n\t\t10.1063/1.3519057\n\t\t21303099\n\t\t\n\t\t\n\t\n\t\n\t\tThe Journal of Chemical Physics\n\t\tThe Journal of Chemical Physics\n\t\t0021-9606\n\t\t1089-7690\n\t\t\n\t\t\t134\n\t\t\t5\n\t\t\t054114\n\t\t\t\n\t\t\tAIP Publishing\n\t\t\n\t\n\n","document":{"$oid":"60c850827723bebd866a57f7"},"refKey":50},
{"_key":"60c850827723bebd866a57ff","_id":"references/60c850827723bebd866a57ff","_rev":"_cfFmMQO---","tei":"\n\t\n\t\tSwissADME: a free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules\n\t\t\n\t\t\tAntoineDaina\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t10.1038/srep42717\n\t\t28256516\n\t\tPMC5335600\n\t\t\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c850827723bebd866a57f7"},"refKey":28},
{"_key":"60c8509f7723bebd866a5829","_id":"references/60c8509f7723bebd866a5829","_rev":"_cfFmMQa---","tei":"\n\t\n\t\tChemical Composition of Commercial Cow’s Milk\n\t\t\n\t\t\tAidinForoutan\n\t\t\n\t\t\n\t\t\tAnChiGuo\n\t\t\n\t\t\n\t\t\tRosaVazquez-Fresno\n\t\t\n\t\t\n\t\t\tMatthiasLipfert\n\t\t\n\t\t\n\t\t\tLunZhang\n\t\t\n\t\t\n\t\t\tJiaminZheng\n\t\t\n\t\t\n\t\t\tHasanBadran\n\t\t\t0000-0002-8072-5233\n\t\t\n\t\t\n\t\t\tZacharyBudinski\n\t\t\n\t\t\n\t\t\tRupasriMandal\n\t\t\n\t\t\n\t\t\tBurimNAmetaj\n\t\t\n\t\t\n\t\t\tDavidSWishart\n\t\t\t0000-0002-3207-2434\n\t\t\n\t\t10.1021/acs.jafc.9b00204\n\t\n\t\n\t\tJournal of Agricultural and Food Chemistry\n\t\tJ. Agric. Food Chem.\n\t\t0021-8561\n\t\t1520-5118\n\t\t\n\t\t\t67\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c8509f7723bebd866a5828"},"refKey":11},
{"_key":"60c850ca7723bebd866a5881","_id":"references/60c850ca7723bebd866a5881","_rev":"_cfFmMQm---","tei":"\n\t\n\t\tFitting linear mixed-effects models using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMaechler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c850ca7723bebd866a5880"},"refKey":1},
{"_key":"60c850ca7723bebd866a5882","_id":"references/60c850ca7723bebd866a5882","_rev":"_cfFmMQy---","tei":"\n\t\n\t\tSimultaneous Inference in General Parametric Models\n\t\t\n\t\t\tTorstenHothorn\n\t\t\n\t\t\n\t\t\tFrankBretz\n\t\t\n\t\t\n\t\t\tPeterWestfall\n\t\t\n\t\t10.1002/bimj.200810425\n\t\t18481363\n\t\tark:/67375/WNG-GP2W2GCK-7\n\t\tA04388FABFE3AA9CBCDF5B83DB07031C7F6BF488\n\t\t\n\t\t\n\t\n\t\n\t\tBiometrical Journal\n\t\tBiom. J.\n\t\t0323-3847\n\t\t1521-4036\n\t\t\n\t\t\t50\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c850ca7723bebd866a5880"},"refKey":16},
{"_key":"60c851177723bebd866a58b0","_id":"references/60c851177723bebd866a58b0","_rev":"_cfFmMQ6---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c851177723bebd866a58af"},"refKey":23},
{"_key":"60c851177723bebd866a58b1","_id":"references/60c851177723bebd866a58b1","_rev":"_cfFmMRG---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c851177723bebd866a58af"},"refKey":24},
{"_key":"60c851247723bebd866a58b8","_id":"references/60c851247723bebd866a58b8","_rev":"_cfFmMRS---","tei":"\n\t\n\t\tA Hidden Markov Model Derived Structural Alphabet for Proteins\n\t\t\n\t\t\tA-CCamproux\n\t\t\n\t\t\n\t\t\tRGautier\n\t\t\n\t\t\n\t\t\tPTuffery\n\t\t\n\t\t10.1016/s0022-2836(04)00408-5\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t339\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c851247723bebd866a58b7"},"refKey":28},
{"_key":"60c851247723bebd866a58b9","_id":"references/60c851247723bebd866a58b9","_rev":"_cfFmMRe---","tei":"\n\t\n\t\tI-TASSER: Fully automated protein structure prediction in CASP8\n\t\t\n\t\t\tYangZhang\n\t\t\n\t\t10.1002/prot.22588\n\t\t19768687\n\t\tPMC2782770\n\t\tark:/67375/WNG-3RJJP0P6-5\n\t\t99CD3019D20C1D37C7833A10909B955EA8EE806F\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t77\n\t\t\tS9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c851247723bebd866a58b7"},"refKey":33},
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{"_key":"60c851247723bebd866a58bb","_id":"references/60c851247723bebd866a58bb","_rev":"_cfFmMR2---","tei":"\n\t\n\t\tUCSF chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c851247723bebd866a58b7"},"refKey":36},
{"_key":"60c851247723bebd866a58bc","_id":"references/60c851247723bebd866a58bc","_rev":"_cfFmMS----","tei":"\n\t\n\t\tAIM2 recognizes cytosolic dsDNA and forms a caspase-1-activating inflammasome with ASC\n\t\t\n\t\t\tVHornung\n\t\t\n\t\t\n\t\t\tAAblasser\n\t\t\n\t\t\n\t\t\tMCharrel-Dennis\n\t\t\n\t\t\n\t\t\tFBauernfeind\n\t\t\n\t\t\n\t\t\tGHorvath\n\t\t\n\t\t\n\t\t\tDRCaffrey\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t458\n\t\t\t514\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c851247723bebd866a58b7"},"refKey":29},
{"_key":"60c851427723bebd866a58f3","_id":"references/60c851427723bebd866a58f3","_rev":"_cfFmMSK---","tei":"\n\t\n\t\tHELIQUEST: a web server to screen sequences with specific alpha-helical properties\n\t\t\n\t\t\tRGautier\n\t\t\n\t\t\n\t\t\tDDouguet\n\t\t\n\t\t\n\t\t\tBAntonny\n\t\t\n\t\t\n\t\t\tGDrin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t24\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c851427723bebd866a58f2"},"refKey":7},
{"_key":"60c851427723bebd866a58f4","_id":"references/60c851427723bebd866a58f4","_rev":"_cfFmMSW---","tei":"\n\t\n\t\tImproved PEP-FOLD Approach for Peptide and Miniprotein Structure Prediction\n\t\t\n\t\t\tYiminShen\n\t\t\n\t\t\n\t\t\tJulienMaupetit\n\t\t\n\t\t\n\t\t\tPhilippeDerreumaux\n\t\t\n\t\t\n\t\t\tPierreTufféry\n\t\t\n\t\t10.1021/ct500592m\n\t\t26588162\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t10\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c851427723bebd866a58f2"},"refKey":28},
{"_key":"60c851427723bebd866a58f5","_id":"references/60c851427723bebd866a58f5","_rev":"_cfFmMSi---","tei":"\n\t\n\t\tMPEx: A tool for exploring membrane proteins\n\t\t\n\t\t\tCraigSnider\n\t\t\n\t\t\n\t\t\tSajithJayasinghe\n\t\t\n\t\t\n\t\t\tKalinaHristova\n\t\t\n\t\t\n\t\t\tStephenHWhite\n\t\t\n\t\t10.1002/pro.256\n\t\t19785006\n\t\tPMC2821280\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Science\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t18\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c851427723bebd866a58f2"},"refKey":30},
{"_key":"60c851577723bebd866a5910","_id":"references/60c851577723bebd866a5910","_rev":"_cfFmMSq---","tei":"\n\t\n\t\tLoFreq: a sequencequality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasets\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tPPAw\n\t\t\n\t\t\n\t\t\tDBertrand\n\t\t\n\t\t\n\t\t\tGHYeo\n\t\t\n\t\t\n\t\t\tSHOng\n\t\t\n\t\t\n\t\t\tCHWong\n\t\t\n\t\t\n\t\t\tCCKhor\n\t\t\n\t\t\n\t\t\tRPetric\n\t\t\n\t\t\n\t\t\tMLHibberd\n\t\t\n\t\t\n\t\t\tNNagarajan\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c851577723bebd866a590f"},"refKey":36},
{"_key":"60c851577723bebd866a5911","_id":"references/60c851577723bebd866a5911","_rev":"_cfFmMS2---","tei":"\n\t\n\t\tSNPGenie: estimating evolutionary parameters to detect natural selection using pooled next-generation sequencing data: Table 1.\n\t\t\n\t\t\tChaseWNelson\n\t\t\n\t\t\n\t\t\tLouiseHMoncla\n\t\t\n\t\t\n\t\t\tAustinLHughes\n\t\t\n\t\t10.1093/bioinformatics/btv449\n\t\t26227143\n\t\tPMC4757956\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\tbtv449\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c851577723bebd866a590f"},"refKey":24},
{"_key":"60c851577723bebd866a5912","_id":"references/60c851577723bebd866a5912","_rev":"_cfFmMTC---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118\n\t\t\n\t\t\tPCingolani\n\t\t\n\t\t\n\t\t\tAPlatts\n\t\t\n\t\t\n\t\t\tLWang Le\n\t\t\n\t\t\n\t\t\tMCoon\n\t\t\n\t\t\n\t\t\tTNguyen\n\t\t\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tSJLand\n\t\t\n\t\t\n\t\t\tXLu\n\t\t\n\t\t\n\t\t\tDMRuden\n\t\t\n\t\t\n\t\t\t\n\t\t\t6\n\t\t\t\n\t\t\n\t\n\tiso-2; iso-3. Fly (Austin\n\n","document":{"$oid":"60c851577723bebd866a590f"},"refKey":5},
{"_key":"60c851577723bebd866a5913","_id":"references/60c851577723bebd866a5913","_rev":"_cfFmMTO---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c851577723bebd866a590f"},"refKey":19},
{"_key":"60c851577723bebd866a5914","_id":"references/60c851577723bebd866a5914","_rev":"_cfFmMTa---","tei":"\n\t\n\t\tUsing Drosophila melanogaster as a Model for Genotoxic Chemical Mutational Studies with a New Program, SnpSift\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tViralMPatel\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t10.3389/fgene.2012.00035\n\t\t22435069\n\t\tPMC3304048\n\t\t\n\t\n\t\n\t\tFrontiers in Genetics\n\t\tFront. Gene.\n\t\t1664-8021\n\t\t\n\t\t\t3\n\t\t\t35\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c851577723bebd866a590f"},"refKey":4},
{"_key":"60c8516a7723bebd866a5924","_id":"references/60c8516a7723bebd866a5924","_rev":"_cfFmMTi---","tei":"\n\t\n\t\tRapid Sequence-Based Characterization of African Swine Fever Virus by Use of the Oxford Nanopore MinION Sequence Sensing Device and a Companion Analysis Software Tool\n\t\t\n\t\t\tVKO'donnell\n\t\t\n\t\t\n\t\t\tFRGrau\n\t\t\n\t\t\n\t\t\tGAMayr\n\t\t\n\t\t\n\t\t\tTL SSamayoa\n\t\t\n\t\t\n\t\t\tKADodd\n\t\t\n\t\t\n\t\t\tRWBarrette\n\t\t\n\t\t10.1128/JCM.01104-19\n\t\n\t\n\t\tJ. Clin. Microbiol\n\t\t\n\t\t\t2020\n\t\t\n\t\n\n","document":{"$oid":"60c8516a7723bebd866a5923"},"refKey":36},
{"_key":"60c8516a7723bebd866a5925","_id":"references/60c8516a7723bebd866a5925","_rev":"_cfFmMTu---","tei":"\n\t\n\t\tsimuG: a general-purpose genome simulator\n\t\t\n\t\t\tJia-XingYue\n\t\t\t0000-0002-2122-9221\n\t\t\n\t\t\n\t\t\tGianniLiti\n\t\t\t0000-0002-2318-0775\n\t\t\n\t\t10.1093/bioinformatics/btz424\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8516a7723bebd866a5923"},"refKey":162},
{"_key":"60c8516a7723bebd866a5926","_id":"references/60c8516a7723bebd866a5926","_rev":"_cfFmMT6---","tei":"\n\t\n\t\tDeepSimulator: a deep simulator for Nanopore sequencing\n\t\t\n\t\t\tYuLi\n\t\t\n\t\t\n\t\t\tRenminHan\n\t\t\n\t\t\n\t\t\tChongweiBi\n\t\t\n\t\t\n\t\t\tMoLi\n\t\t\n\t\t\n\t\t\tShengWang\n\t\t\n\t\t\n\t\t\tXinGao\n\t\t\n\t\t10.1093/bioinformatics/bty223\n\t\t29659695\n\t\tPMC6129308\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8516a7723bebd866a5923"},"refKey":163},
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{"_key":"60c851827723bebd866a594d","_id":"references/60c851827723bebd866a594d","_rev":"_cfFmMUm---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c851827723bebd866a594b"},"refKey":48},
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{"_key":"60c851957723bebd866a5962","_id":"references/60c851957723bebd866a5962","_rev":"_cfFmMVS---","tei":"\n\t\n\t\tReal-space refinement in Phenix for cryo-EM and crystallography\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tBillyKPoon\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tOlegVSobolev\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1101/249607\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Struct Biol\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c851957723bebd866a595e"},"refKey":30},
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{"_key":"60c851bf7723bebd866a599a","_id":"references/60c851bf7723bebd866a599a","_rev":"_cfFmMV2---","tei":"\n\t\n\t\tIntroducing "best single template" models as reference baseline for the continuous automated model evaluation (CAMEO)\n\t\t\n\t\t\tJHaas\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\t\n\t\t\tABarbato\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t87\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c851bf7723bebd866a5997"},"refKey":24},
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{"_key":"60c851bf7723bebd866a599c","_id":"references/60c851bf7723bebd866a599c","_rev":"_cfFmMWK---","tei":"\n\t\n\t\tProtein Structure Modeling with MODELLER\n\t\t\n\t\t\tNarayananEswar\n\t\t\n\t\t\n\t\t\tDavidEramian\n\t\t\n\t\t\n\t\t\tBenWebb\n\t\t\n\t\t\n\t\t\tMin-YiShen\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1007/978-1-60327-058-8_8\n\t\t18542861\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tJEColigan\n\t\t\tBMDunn\n\t\t\tDWSpeicher\n\t\t\tPTWingfield\n\t\t\n\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tCurrent Protocols in Protein Science\n\n","document":{"$oid":"60c851bf7723bebd866a5997"},"refKey":23},
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{"_key":"60c852687723bebd866a5a35","_id":"references/60c852687723bebd866a5a35","_rev":"_cfFmMZe---","tei":"\n\t\n\t\tImplementation of heatmaps that offers more control over dimensions and appearance\n\t\t\n\t\t\tRKolde\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c852687723bebd866a5a34"},"refKey":50},
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{"_key":"60c852eb7723bebd866a5aa0","_id":"references/60c852eb7723bebd866a5aa0","_rev":"_cfFmMbC---","tei":"\n\t\n\t\tProViDE: A software tool for accurate estimation of viral diversity in metagenomic samples\n\t\t\n\t\t\tTariniShankarGhosh\n\t\t\n\t\t\n\t\t\tMonzoorulHaqueMohammed\n\t\t\n\t\t\n\t\t\tDinakarKomanduri\n\t\t\n\t\t\n\t\t\tSharmilaShekharMande\n\t\t\n\t\t10.6026/97320630006091\n\t\t21544173\n\t\tPMC3082859\n\t\t\n\t\n\t\n\t\tBioinformation\n\t\tBioinformation\n\t\t0973-8894\n\t\t0973-2063\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tBiomedical Informatics\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":28},
{"_key":"60c852eb7723bebd866a5aa1","_id":"references/60c852eb7723bebd866a5aa1","_rev":"_cfFmMbO---","tei":"\n\t\n\t\tRay Meta: scalable de novo metagenome assembly and profiling\n\t\t\n\t\t\tSébastienBoisvert\n\t\t\n\t\t\n\t\t\tFrédéricRaymond\n\t\t\n\t\t\n\t\t\tÉlénieGodzaridis\n\t\t\n\t\t\n\t\t\tFrançoisLaviolette\n\t\t\n\t\t\n\t\t\tJacquesCorbeil\n\t\t\n\t\t10.1186/gb-2012-13-12-r122\n\t\t23259615\n\t\tPMC4056372\n\t\t13/12: R122\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t13\n\t\t\t12\n\t\t\tR122\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":8},
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{"_key":"60c852eb7723bebd866a5aa3","_id":"references/60c852eb7723bebd866a5aa3","_rev":"_cfFmMbi---","tei":"\n\t\n\t\tThe Evolutionary Analysis of Emerging Low Frequency HIV-1 CXCR4 Using Variants through Time—An Ultra-Deep Approach\n\t\t\n\t\t\tJohnArcher\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tBruceETaillon\n\t\t\n\t\t\n\t\t\tPRichardHarrigan\n\t\t\n\t\t\n\t\t\tMarilynLewis\n\t\t\n\t\t\n\t\t\tDavidLRobertson\n\t\t\n\t\t10.1371/journal.pcbi.1001022\n\t\t21187908\n\t\tPMC3002995\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t6\n\t\t\t12\n\t\t\te1001022\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":5},
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{"_key":"60c852eb7723bebd866a5aa5","_id":"references/60c852eb7723bebd866a5aa5","_rev":"_cfFmMb6---","tei":"\n\t\n\t\tAssembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing\n\t\t\n\t\t\tKonstantinBerlin\n\t\t\n\t\t\n\t\t\tSergeyKoren\n\t\t\n\t\t\n\t\t\tChen-ShanChin\n\t\t\n\t\t\n\t\t\tJamesDrake\n\t\t\n\t\t\n\t\t\tJaneMLandolin\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\n\t\t10.1101/008003\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":7},
{"_key":"60c852eb7723bebd866a5aa6","_id":"references/60c852eb7723bebd866a5aa6","_rev":"_cfFmMcG---","tei":"\n\t\n\t\tBasic Local Alignment Search Tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":2},
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{"_key":"60c852eb7723bebd866a5aa8","_id":"references/60c852eb7723bebd866a5aa8","_rev":"_cfFmMca---","tei":"\n\t\n\t\tMetaVelvet-SL: an extension of the Velvet assembler to a de novo metagenomic assembler utilizing supervised learning\n\t\t\n\t\t\tAfiahayati\n\t\t\n\t\t\n\t\t\tKSato\n\t\t\n\t\t\n\t\t\tYSakakibara\n\t\t\n\t\t10.1093/dnares/dsu041\n\t\t25431440\n\t\tPMC4379979\n\t\t\n\t\n\t\n\t\tDNA Research\n\t\tDNA Research\n\t\t1340-2838\n\t\t1756-1663\n\t\t\n\t\t\t22\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":0},
{"_key":"60c852eb7723bebd866a5aa9","_id":"references/60c852eb7723bebd866a5aa9","_rev":"_cfFmMcm---","tei":"\n\t\n\t\tAccurate phylogenetic classification of variable-length DNA fragments\n\t\t\n\t\t\tAliceCarolynMchardy\n\t\t\n\t\t\n\t\t\tHéctorGarcíaMartín\n\t\t\n\t\t\n\t\t\tAristotelisTsirigos\n\t\t\n\t\t\n\t\t\tPhilipHugenholtz\n\t\t\n\t\t\n\t\t\tIsidoreRigoutsos\n\t\t\n\t\t10.1038/nmeth976\n\t\t17179938\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":46},
{"_key":"60c852eb7723bebd866a5aaa","_id":"references/60c852eb7723bebd866a5aaa","_rev":"_cfFmMcy---","tei":"\n\t\n\t\tFull-length haplotype reconstruction to infer the structure of heterogeneous virus populations\n\t\t\n\t\t\tFrancescaDiGiallonardo\n\t\t\n\t\t\n\t\t\tArminTöpfer\n\t\t\n\t\t\n\t\t\tMelanieRey\n\t\t\n\t\t\n\t\t\tSandhyaPrabhakaran\n\t\t\n\t\t\n\t\t\tYannickDuport\n\t\t\n\t\t\n\t\t\tChristineLeemann\n\t\t\n\t\t\n\t\t\tStefanSchmutz\n\t\t\n\t\t\n\t\t\tNottaniaKCampbell\n\t\t\n\t\t\n\t\t\tBedaJoos\n\t\t\n\t\t\n\t\t\tMariaRitaLecca\n\t\t\n\t\t\n\t\t\tAndreaPatrignani\n\t\t\n\t\t\n\t\t\tMartinDäumer\n\t\t\n\t\t\n\t\t\tChristianBeisel\n\t\t\n\t\t\n\t\t\tPeterRusert\n\t\t\n\t\t\n\t\t\tAlexandraTrkola\n\t\t\n\t\t\n\t\t\tHuldrychFGünthard\n\t\t\n\t\t\n\t\t\tVolkerRoth\n\t\t\n\t\t\n\t\t\tNikoBeerenwinkel\n\t\t\n\t\t\n\t\t\tKarinJMetzner\n\t\t\n\t\t10.1093/nar/gku537\n\t\t24972832\n\t\tPMC4132706\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":29},
{"_key":"60c852eb7723bebd866a5aab","_id":"references/60c852eb7723bebd866a5aab","_rev":"_cfFmMc6---","tei":"\n\t\n\t\tPhymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models\n\t\t\n\t\t\tArthurBrady\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1358\n\t\t19648916\n\t\tPMC2762791\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t6\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPhymmBL Expanded: Confidence Scores, Custom Databases, Parallelization and More\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":9},
{"_key":"60c852eb7723bebd866a5aac","_id":"references/60c852eb7723bebd866a5aac","_rev":"_cfFmMdG---","tei":"\n\t\n\t\tIVA: accuratede novoassembly of RNA virus genomes\n\t\t\n\t\t\tMartinHunt\n\t\t\n\t\t\n\t\t\tAstridGall\n\t\t\n\t\t\n\t\t\tSweeHoeOng\n\t\t\n\t\t\n\t\t\tJacquiBrener\n\t\t\n\t\t\n\t\t\tBridgetFerns\n\t\t\n\t\t\n\t\t\tPhilipGoulder\n\t\t\n\t\t\n\t\t\tEleniNastouli\n\t\t\n\t\t\n\t\t\tJacquelineAKeane\n\t\t\n\t\t\n\t\t\tPaulKellam\n\t\t\n\t\t\n\t\t\tThomasDOtto\n\t\t\n\t\t10.1093/bioinformatics/btv120\n\t\t25725497\n\t\tPMC4495290\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":36},
{"_key":"60c852eb7723bebd866a5aad","_id":"references/60c852eb7723bebd866a5aad","_rev":"_cfFmMdS---","tei":"\n\t\n\t\tIdentification of Novel Viruses Using VirusHunter -- an Automated Data Analysis Pipeline\n\t\t\n\t\t\tGuoyanZhao\n\t\t\n\t\t\n\t\t\tSiddharthKrishnamurthy\n\t\t\n\t\t\n\t\t\tZhengqiuCai\n\t\t\n\t\t\n\t\t\tVsevolodLPopov\n\t\t\n\t\t\n\t\t\tAmeliaPTravassos Da Rosa\n\t\t\n\t\t\n\t\t\tHildaGuzman\n\t\t\n\t\t\n\t\t\tSongCao\n\t\t\n\t\t\n\t\t\tHerbertWVirgin\n\t\t\n\t\t\n\t\t\tRobertBTesh\n\t\t\n\t\t\n\t\t\tDavidWang\n\t\t\n\t\t10.1371/journal.pone.0078470\n\t\t24167629\n\t\tPMC3805514\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t8\n\t\t\t10\n\t\t\te78470\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":74},
{"_key":"60c852eb7723bebd866a5aae","_id":"references/60c852eb7723bebd866a5aae","_rev":"_cfFmMde---","tei":"\n\t\n\t\tMetAMOS: a modular and open source metagenomic assembly and analysis pipeline\n\t\t\n\t\t\tToddJTreangen\n\t\t\n\t\t\n\t\t\tSergeyKoren\n\t\t\n\t\t\n\t\t\tDanielDSommer\n\t\t\n\t\t\n\t\t\tBoLiu\n\t\t\n\t\t\n\t\t\tIrinaAstrovskaya\n\t\t\n\t\t\n\t\t\tBrianOndov\n\t\t\n\t\t\n\t\t\tAaronEDarling\n\t\t\n\t\t\n\t\t\tAdamMPhillippy\n\t\t\n\t\t\n\t\t\tMihaiPop\n\t\t\n\t\t10.1186/gb-2013-14-1-r2\n\t\t23320958\n\t\tPMC4053804\n\t\t14/1: R2\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\tR2\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":66},
{"_key":"60c852eb7723bebd866a5aaf","_id":"references/60c852eb7723bebd866a5aaf","_rev":"_cfFmMdq---","tei":"\n\t\n\t\tPRICE: Software for the Targeted Assembly of Components of (Meta) Genomic Sequence Data\n\t\t\n\t\t\tJGRuby\n\t\t\n\t\t\n\t\t\tPBellare\n\t\t\n\t\t\n\t\t\tJLDerisi\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\tG3 (Bethesda\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":61},
{"_key":"60c852eb7723bebd866a5ab0","_id":"references/60c852eb7723bebd866a5ab0","_rev":"_cfFmMdy---","tei":"\n\t\n\t\tIDBA-UD: A De Novo Assembler for Single-Cell and Metagenomic Sequencing Data with Highly Uneven Depth\n\t\t\n\t\t\tYPeng\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":54},
{"_key":"60c852eb7723bebd866a5ab1","_id":"references/60c852eb7723bebd866a5ab1","_rev":"_cfFmMe----","tei":"\n\t\n\t\tVirSorter: Mining Viral Signal from Microbial Genomic Data\n\t\t\n\t\t\tSRoux\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\te985\n\t\t\t\n\t\t\n\t\n\tPeerJ\n\n","document":{"$oid":"60c852eb7723bebd866a5a99"},"refKey":60},
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{"_key":"60c853037723bebd866a5af6","_id":"references/60c853037723bebd866a5af6","_rev":"_cfFmMeW---","tei":"\n\t\n\t\tepitools: Epidemiology Tools. R package version 0.5-10\n\t\t\n\t\t\tTJAragon\n\t\t\n\t\t\n\t\t\t1\n\t\t\n\t\n\n","document":{"$oid":"60c853037723bebd866a5af4"},"refKey":18},
{"_key":"60c853237723bebd866a5b10","_id":"references/60c853237723bebd866a5b10","_rev":"_cfFmMei---","tei":"\n\t\n\t\tRNA structure analysis of alphacoronavirus terminal genome regions\n\t\t\n\t\t\tRamakanthMadhugiri\n\t\t\n\t\t\n\t\t\tMarkusFricke\n\t\t\n\t\t\n\t\t\tManjaMarz\n\t\t\n\t\t\n\t\t\tJohnZiebuhr\n\t\t\n\t\t10.1016/j.virusres.2014.10.001\n\t\t25307890\n\t\n\t\n\t\tVirus Research\n\t\tVirus Research\n\t\t0168-1702\n\t\t\n\t\t\t194\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c853237723bebd866a5b0f"},"refKey":92},
{"_key":"60c853237723bebd866a5b11","_id":"references/60c853237723bebd866a5b11","_rev":"_cfFmMeq---","tei":"\n\t\n\t\tFreiburg RNA Tools: a web server integrating INTARNA, EXPARNA and LOCARNA\n\t\t\n\t\t\tCSmith\n\t\t\n\t\t\n\t\t\tSHeyne\n\t\t\n\t\t\n\t\t\tASRichter\n\t\t\n\t\t\n\t\t\tSWill\n\t\t\n\t\t\n\t\t\tRBackofen\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c853237723bebd866a5b0f"},"refKey":121},
{"_key":"60c853237723bebd866a5b12","_id":"references/60c853237723bebd866a5b12","_rev":"_cfFmMe2---","tei":"\n\t\n\t\tInferring Noncoding RNA Families and Classes by Means of Genome-Scale Structure-Based Clustering\n\t\t\n\t\t\tSebastianWill\n\t\t\n\t\t\n\t\t\tKristinReiche\n\t\t\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t\n\t\t\tRolfBackofen\n\t\t\n\t\t10.1371/journal.pcbi.0030065\n\t\t17432929\n\t\tPMC1851984\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-734X\n\t\t1553-7358\n\t\t\n\t\t\t3\n\t\t\t4\n\t\t\te65\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c853237723bebd866a5b0f"},"refKey":152},
{"_key":"60c853237723bebd866a5b13","_id":"references/60c853237723bebd866a5b13","_rev":"_cfFmMfC---","tei":"\n\t\n\t\tLocARNA-P: Accurate boundary prediction and improved detection of structural RNAs\n\t\t\n\t\t\tSWill\n\t\t\n\t\t\n\t\t\tTJoshi\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t\n\t\t\tRBackofen\n\t\t\n\t\t10.1261/rna.029041.111\n\t\t22450757\n\t\tPMC3334699\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t18\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c853237723bebd866a5b0f"},"refKey":153},
{"_key":"60c853327723bebd866a5b1b","_id":"references/60c853327723bebd866a5b1b","_rev":"_cfFmMfO---","tei":"\n\t\n\t\tExpanded Sequence Dependence of Thermodynamic Parameters Improves Prediction of RNA Secondary Structure\n\t\t\n\t\t\tDHMathews\n\t\t\n\t\t\n\t\t\tJSabina\n\t\t\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t\n\t\t\tDHTurner\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t288\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c853327723bebd866a5b1a"},"refKey":12},
{"_key":"60c853387723bebd866a5b20","_id":"references/60c853387723bebd866a5b20","_rev":"_cfFmMfW---","tei":"\n\t\n\t\tOpen Source Scientific Tools for Python\n\t\t\n\t\t\tEJones\n\t\t\n\t\t\n\t\t\tTOliphant\n\t\t\n\t\t\n\t\t\tPPeterson\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c853387723bebd866a5b1f"},"refKey":22},
{"_key":"60c853457723bebd866a5b24","_id":"references/60c853457723bebd866a5b24","_rev":"_cfFmMfi---","tei":"\n\t\n\t\tVirtual computational chemistry laboratory--design and description\n\t\t\n\t\t\tIVTetko\n\t\t\n\t\n\t\n\t\tJ. Comput. Aided Mol. Des\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c853457723bebd866a5b23"},"refKey":17},
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{"_key":"60c8537f7723bebd866a5b69","_id":"references/60c8537f7723bebd866a5b69","_rev":"_cfFmMgG---","tei":"\n\t\n\t\tClinical use of Skype: a review of the evidence base\n\t\t\n\t\t\tNigelRArmfield\n\t\t\n\t\t\n\t\t\tLeonardCGray\n\t\t\n\t\t\n\t\t\tAnthonyCSmith\n\t\t\n\t\t10.1258/jtt.2012.sft101\n\t\t22362829\n\t\n\t\n\t\tJournal of Telemedicine and Telecare\n\t\tJ Telemed Telecare\n\t\t1357-633X\n\t\t1758-1109\n\t\t\n\t\t\t18\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c8537f7723bebd866a5b68"},"refKey":0},
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{"_key":"60c853857723bebd866a5b78","_id":"references/60c853857723bebd866a5b78","_rev":"_cfFmMga---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c853857723bebd866a5b77"},"refKey":70},
{"_key":"60c853857723bebd866a5b79","_id":"references/60c853857723bebd866a5b79","_rev":"_cfFmMgm---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c853857723bebd866a5b77"},"refKey":73},
{"_key":"60c853bb7723bebd866a5ba8","_id":"references/60c853bb7723bebd866a5ba8","_rev":"_cfFmMgy---","tei":"\n\t\n\t\tnetwork: A Package for Managing Relational Data inR\n\t\t\n\t\t\tCarterTButts\n\t\t\n\t\t10.18637/jss.v024.i02\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t24\n\t\t\t2\n\t\t\t24\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c853bb7723bebd866a5ba7"},"refKey":9},
{"_key":"60c853bb7723bebd866a5ba9","_id":"references/60c853bb7723bebd866a5ba9","_rev":"_cfFmMh----","tei":"\n\t\n\t\tnetwork: A Package for Managing Relational Data inR\n\t\t\n\t\t\tCarterTButts\n\t\t\n\t\t10.18637/jss.v024.i02\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t24\n\t\t\t2\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c853bb7723bebd866a5ba7"},"refKey":10},
{"_key":"60c853bb7723bebd866a5baa","_id":"references/60c853bb7723bebd866a5baa","_rev":"_cfFmMhG---","tei":"\n\t\n\t\tGgplot2: Elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c853bb7723bebd866a5ba7"},"refKey":68},
{"_key":"60c853bb7723bebd866a5bab","_id":"references/60c853bb7723bebd866a5bab","_rev":"_cfFmMhS---","tei":"\n\t\n\t\tBoot: Bootstrap R (S-plus) functions. R package version\n\t\t\n\t\t\tACanty\n\t\t\n\t\t\n\t\t\tBRipley\n\t\t\n\t\t\n\t\t\t\n\t\t\t1\n\t\t\n\t\n\n","document":{"$oid":"60c853bb7723bebd866a5ba7"},"refKey":13},
{"_key":"60c853bb7723bebd866a5bac","_id":"references/60c853bb7723bebd866a5bac","_rev":"_cfFmMhe---","tei":"\n\t\n\t\tIntroduction\n\t\t\n\t\t\tACDavison\n\t\t\n\t\t\n\t\t\tDVHinkley\n\t\t\n\t\t10.1017/cbo9780511802843.002\n\t\n\t\n\t\tBootstrap methods and their application\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t1997\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c853bb7723bebd866a5ba7"},"refKey":18},
{"_key":"60c853bb7723bebd866a5bad","_id":"references/60c853bb7723bebd866a5bad","_rev":"_cfFmMhq---","tei":"\n\t\n\t\tIRR: Various coefficients of interrater reliability and agreement\n\t\t\n\t\t\tMGamer\n\t\t\n\t\t\n\t\t\tJLemon\n\t\t\n\t\t\n\t\t\tIF PSingh\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c853bb7723bebd866a5ba7"},"refKey":26},
{"_key":"60c853bb7723bebd866a5bae","_id":"references/60c853bb7723bebd866a5bae","_rev":"_cfFmMh2---","tei":"\n\t\n\t\tFitting linear mixed-effects models using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMächler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c853bb7723bebd866a5ba7"},"refKey":3},
{"_key":"60c853e67723bebd866a5bce","_id":"references/60c853e67723bebd866a5bce","_rev":"_cfFmMiC---","tei":"\n\t\n\t\tStataCorp. Stata Statistical Software: Release 14; StataCorp LP: College Station\n\t\t\t\tTX, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c853e67723bebd866a5bcd"},"refKey":45},
{"_key":"60c854087723bebd866a5be4","_id":"references/60c854087723bebd866a5be4","_rev":"_cfFmMiO---","tei":"\n\t\n\t\tFlexible automatic support for web accessibility validation\n\t\t\n\t\t\tGBroccia\n\t\t\n\t\t\n\t\t\tMManca\n\t\t\n\t\t\n\t\t\tFPaternò\n\t\t\n\t\t\n\t\t\tFPulina\n\t\t\n\t\t10.1145/3397871\n\t\t\n\t\n\t\n\t\tProceedings of the ACM on Human-Computer Interaction\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c854087723bebd866a5be3"},"refKey":2},
{"_key":"60c854337723bebd866a5bf9","_id":"references/60c854337723bebd866a5bf9","_rev":"_cfFmMia---","tei":"\n\t\n\t\tDefining window-boundaries for genomic analyses using smoothing spline techniques\n\t\t\n\t\t\tTimothyMBeissinger\n\t\t\n\t\t\n\t\t\tGuilhermeJmRosa\n\t\t\n\t\t\n\t\t\tShawnMKaeppler\n\t\t\n\t\t\n\t\t\tDanielGianola\n\t\t\n\t\t\n\t\t\tNataliaDe Leon\n\t\t\n\t\t10.1186/s12711-015-0105-9\n\t\t25928167\n\t\tPMC4404117\n\t\t\n\t\n\t\n\t\tGenetics Selection Evolution\n\t\tGenet Sel Evol\n\t\t1297-9686\n\t\t\n\t\t\t47\n\t\t\t1\n\t\t\t30\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c854337723bebd866a5bf8"},"refKey":12},
{"_key":"60c854337723bebd866a5bfa","_id":"references/60c854337723bebd866a5bfa","_rev":"_cfFmMim---","tei":"\n\t\n\t\tExploiting biological priors and sequence variants enhances QTL discovery and genomic prediction of complex traits\n\t\t\n\t\t\tIMMacleod\n\t\t\n\t\t\n\t\t\tPJBowman\n\t\t\n\t\t\n\t\t\tCJVander Jagt\n\t\t\n\t\t\n\t\t\tMHaile-Mariam\n\t\t\n\t\t\n\t\t\tKEKemper\n\t\t\n\t\t\n\t\t\tAJChamberlain\n\t\t\n\t\t\n\t\t\tCSchrooten\n\t\t\n\t\t\n\t\t\tBJHayes\n\t\t\n\t\t\n\t\t\tMEGoddard\n\t\t\n\t\t10.1186/s12864-016-2443-6\n\t\t26920147\n\t\tPMC4769584\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t144\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c854337723bebd866a5bf8"},"refKey":7},
{"_key":"60c854337723bebd866a5bfb","_id":"references/60c854337723bebd866a5bfb","_rev":"_cfFmMiy---","tei":"\n\t\n\t\tSingle Pathogen Challenge with Agents of the Bovine Respiratory Disease Complex\n\t\t\n\t\t\tLaurelJGershwin\n\t\t\n\t\t\n\t\t\tAlisonLVan Eenennaam\n\t\t\n\t\t\n\t\t\tMarkLAnderson\n\t\t\n\t\t\n\t\t\tHeatherAMceligot\n\t\t\n\t\t\n\t\t\tMattXShao\n\t\t\n\t\t\n\t\t\tRachelToaff-Rosenstein\n\t\t\n\t\t\n\t\t\tJeremyFTaylor\n\t\t\n\t\t\n\t\t\tHollyLNeibergs\n\t\t\n\t\t\n\t\t\tJamesWomack\n\t\t\n\t\t10.1371/journal.pone.0142479\n\t\t26571015\n\t\tPMC4646450\n\t\t\n\t\n\t\n\t\tPLOS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t10\n\t\t\t11\n\t\t\te0142479\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c854337723bebd866a5bf8"},"refKey":40},
{"_key":"60c854437723bebd866a5c13","_id":"references/60c854437723bebd866a5c13","_rev":"_cfFmMi6---","tei":"\n\t\n\t\tmeta: an R package for meta-analysis\n\t\t\n\t\t\tGSchwarzer\n\t\t\n\t\n\t\n\t\tR News\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c854437723bebd866a5c12"},"refKey":3},
{"_key":"60c8547c7723bebd866a5c35","_id":"references/60c8547c7723bebd866a5c35","_rev":"_cfFmMjG---","tei":"\n\t\n\t\tBiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks\n\t\t\n\t\t\tSMaere\n\t\t\n\t\t\n\t\t\tKHeymans\n\t\t\n\t\t\n\t\t\tMKuiper\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8547c7723bebd866a5c34"},"refKey":28},
{"_key":"60c8547c7723bebd866a5c36","_id":"references/60c8547c7723bebd866a5c36","_rev":"_cfFmMjS---","tei":"\n\t\n\t\tGOlorize: a Cytoscape plug-in for network visualization with Gene Ontology-based layout and coloring\n\t\t\n\t\t\tOGarcia\n\t\t\n\t\t\n\t\t\tCSaveanu\n\t\t\n\t\t\n\t\t\tMCline\n\t\t\n\t\t\n\t\t\tMFromont-Racine\n\t\t\n\t\t\n\t\t\tAJacquier\n\t\t\n\t\t\n\t\t\tBSchwikowski\n\t\t\n\t\t\n\t\t\tTAittokallio\n\t\t\n\t\t10.1093/bioinformatics/btl605\n\t\t17127678\n\t\tark:/67375/HXZ-TRJKLVBL-C\n\t\t84079A83F6E1D83A6BB6D982C07AAE135B4BA992\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8547c7723bebd866a5c34"},"refKey":29},
{"_key":"60c8549a7723bebd866a5c5d","_id":"references/60c8549a7723bebd866a5c5d","_rev":"_cfFmMje---","tei":"\n\t\n\t\tDOCK 4.0: search strategies for automated molecular docking of flexible molecule databases\n\t\t\n\t\t\tTJ AEwing\n\t\t\n\t\n\t\n\t\tJ. Comput. Aided Mol. Des\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8549a7723bebd866a5c5c"},"refKey":6},
{"_key":"60c8549a7723bebd866a5c5e","_id":"references/60c8549a7723bebd866a5c5e","_rev":"_cfFmMjq---","tei":"\n\t\n\t\tA fast method of molecular shape comparison: A simple application of a Gaussian description of molecular shape\n\t\t\n\t\t\tJAGrant\n\t\t\n\t\t\n\t\t\tMAGallardo\n\t\t\n\t\t\n\t\t\tBTPickup\n\t\t\n\t\t10.1002/(sici)1096-987x(19961115)17:14<1653::aid-jcc7>3.0.co;2-k\n\t\tark:/67375/WNG-8FXPNCZX-5\n\t\t1BF5DA38FABAC6690FD18ACA6431B324DA571E2B\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t17\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8549a7723bebd866a5c5c"},"refKey":26},
{"_key":"60c8549a7723bebd866a5c5f","_id":"references/60c8549a7723bebd866a5c5f","_rev":"_cfFmMj2---","tei":"\n\t\n\t\tA Fast Flexible Docking Method using an Incremental Construction Algorithm\n\t\t\n\t\t\tMatthiasRarey\n\t\t\n\t\t\n\t\t\tBerndKramer\n\t\t\n\t\t\n\t\t\tThomasLengauer\n\t\t\n\t\t\n\t\t\tGerhardKlebe\n\t\t\n\t\t10.1006/jmbi.1996.0477\n\t\t8780787\n\t\tS0022-2836(96)90477-5\n\t\tark:/67375/6H6-KZF2QWF4-4\n\t\tF66F5BD4CAA28D99062DF70CF99157C7E2F4FDFD\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t261\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8549a7723bebd866a5c5c"},"refKey":5},
{"_key":"60c8549a7723bebd866a5c60","_id":"references/60c8549a7723bebd866a5c60","_rev":"_cfFmMk----","tei":"\n\t\n\t\tGlide: a new approach for rapid, accurate docking and scoring. 2. Enrichment factors in database screening\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\n\t\n\t\tJ. Med. Chem\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8549a7723bebd866a5c5c"},"refKey":10},
{"_key":"60c8549a7723bebd866a5c61","_id":"references/60c8549a7723bebd866a5c61","_rev":"_cfFmMkK---","tei":"\n\t\n\t\tLigandFit: a novel method for the shape-directed rapid docking of ligands to protein active sites\n\t\t\n\t\t\tCMVenkatachalam\n\t\t\n\t\n\t\n\t\tJ. Mol. Graphics Model\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8549a7723bebd866a5c5c"},"refKey":11},
{"_key":"60c8549a7723bebd866a5c62","_id":"references/60c8549a7723bebd866a5c62","_rev":"_cfFmMkW---","tei":"\n\t\n\t\tAutomated docking using a Lamarckian genetic algorithm and an empirical binding free energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8549a7723bebd866a5c5c"},"refKey":9},
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{"_key":"60c854a07723bebd866a5c6e","_id":"references/60c854a07723bebd866a5c6e","_rev":"_cfFmMkq---","tei":"\n\t\n\t\tStata 10 Base Reference Manual\n\t\t\t\tCollege Station, Texas\n\t\t\n\t\t\tStata Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tStataCorp: xtnbreg\n\n","document":{"$oid":"60c854a07723bebd866a5c6c"},"refKey":22},
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{"_key":"60c854c57723bebd866a5c7e","_id":"references/60c854c57723bebd866a5c7e","_rev":"_cfFmMlC---","tei":"\n\t\n\t\tpblat: a multithread blat algorithm speeding up aligning sequences to genomes\n\t\t\n\t\t\tMengWang\n\t\t\n\t\t\n\t\t\tLeiKong\n\t\t\n\t\t10.1186/s12859-019-2597-8\n\t\t30646844\n\t\tPMC6334396\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t28\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c854c57723bebd866a5c7c"},"refKey":10},
{"_key":"60c854c57723bebd866a5c7f","_id":"references/60c854c57723bebd866a5c7f","_rev":"_cfFmMlO---","tei":"\n\t\n\t\tData, disease and diplomacy: GISAID's innovative contribution to global health\n\t\t\n\t\t\tStefanElbe\n\t\t\n\t\t\n\t\t\tGemmaBuckland-Merrett\n\t\t\n\t\t10.1002/gch2.1018\n\t\t\n\t\n\t\n\t\tGlobal Challenges\n\t\tGlobal Challenges\n\t\t2056-6646\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c854c57723bebd866a5c7c"},"refKey":0},
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{"_key":"60c854c77723bebd866a5c94","_id":"references/60c854c77723bebd866a5c94","_rev":"_cfFmMli---","tei":"\n\t\n\t\tPROCHECK: A program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c854c77723bebd866a5c92"},"refKey":47},
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{"_key":"60c8570e7723bebd866a5ed7","_id":"references/60c8570e7723bebd866a5ed7","_rev":"_cfFmMum---","tei":"\n\t\n\t\tA simple test for heteroscedasticity and random coefficient variation\n\t\t\n\t\t\tTBreusch\n\t\t\n\t\t\n\t\t\tAPagan\n\t\t\n\t\n\t\n\t\tEconometrica\n\t\t\n\t\t\t47\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8570e7723bebd866a5ed6"},"refKey":42},
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{"_key":"60c857d87723bebd866a5f72","_id":"references/60c857d87723bebd866a5f72","_rev":"_cfFmMve---","tei":"\n\t\n\t\tAn integrative approach to CTL epitope prediction: A combined algorithm integrating MHC class I binding, TAP transport efficiency, and proteasomal cleavage predictions\n\t\t\n\t\t\tMetteVoldbyLarsen\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tKasperLamberth\n\t\t\n\t\t\n\t\t\tSørenBuus\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1002/eji.200425811\n\t\t15997466\n\t\n\t\n\t\tEuropean Journal of Immunology\n\t\tEur. J. Immunol.\n\t\t0014-2980\n\t\t1521-4141\n\t\t\n\t\t\t35\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c857d87723bebd866a5f71"},"refKey":25},
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{"_key":"60c858287723bebd866a5fd4","_id":"references/60c858287723bebd866a5fd4","_rev":"_cfFmMw2---","tei":"\n\t\n\t\tAn Introduction to SCIP\n\t\t\n\t\t\tCSchwarz\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversity of Bayreuth\n\t\t\n\t\n\n","document":{"$oid":"60c858287723bebd866a5fd3"},"refKey":12},
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{"_key":"60c858567723bebd866a5ffb","_id":"references/60c858567723bebd866a5ffb","_rev":"_cfFmMxO---","tei":"\n\t\n\t\tAn indirect immunocolorimetric assay to detect rubella virus infected cells\n\t\t\n\t\t\tMin-HsinChen\n\t\t\n\t\t\n\t\t\tZhenZhu\n\t\t\n\t\t\n\t\t\tYanZhang\n\t\t\n\t\t\n\t\t\tSheenaFavors\n\t\t\n\t\t\n\t\t\tWen-BoXu\n\t\t\n\t\t\n\t\t\tDavidAFeatherstone\n\t\t\n\t\t\n\t\t\tJosephPIcenogle\n\t\t\n\t\t10.1016/j.jviromet.2007.08.021\n\t\t17919742\n\t\n\t\n\t\tJournal of Virological Methods\n\t\tJournal of Virological Methods\n\t\t0166-0934\n\t\t\n\t\t\t146\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c858567723bebd866a5ff9"},"refKey":7},
{"_key":"60c8585c7723bebd866a600c","_id":"references/60c8585c7723bebd866a600c","_rev":"_cfFmMxW---","tei":"\n\t\n\t\tPrecision mapping of the human O GalNAc glycoproteome through SimpleCell technology\n\t\t\n\t\t\tCSteentoft\n\t\t\n\t\t\n\t\t\tSYVakhrushev\n\t\t\n\t\t\n\t\t\tHJJoshi\n\t\t\n\t\t\n\t\t\tYKong\n\t\t\n\t\t\n\t\t\tMBVester Christensen\n\t\t\n\t\t\n\t\t\tTKatrine\n\t\t\n\t\t\n\t\t\t..Silva\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\n\t\n\t\tThe EMBO journal\n\t\t\n\t\t\t32\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8585c7723bebd866a600b"},"refKey":27},
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{"_key":"60c858727723bebd866a602c","_id":"references/60c858727723bebd866a602c","_rev":"_cfFmMxu---","tei":"\n\t\n\t\tGROMACS: Fast, flexible, and free\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tGerritGroenhof\n\t\t\n\t\t\n\t\t\tAlanEMark\n\t\t\n\t\t\n\t\t\tHermanJ CBerendsen\n\t\t\n\t\t10.1002/jcc.20291\n\t\t16211538\n\t\tark:/67375/WNG-FZWKDCST-G\n\t\t1B9A91E56BE3B9919FC3D0665CD10F2EB65C307A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c858727723bebd866a602a"},"refKey":32},
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{"_key":"60c8587f7723bebd866a6043","_id":"references/60c8587f7723bebd866a6043","_rev":"_cfFmMya---","tei":"\n\t\n\t\tSTRING v11: Protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets\n\t\t\n\t\t\tDSzklarczyk\n\t\t\n\t\t10.1093/nar/gky1131\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8587f7723bebd866a6041"},"refKey":49},
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{"_key":"60c858bb7723bebd866a6084","_id":"references/60c858bb7723bebd866a6084","_rev":"_cfFmMzG---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c858bb7723bebd866a6083"},"refKey":42},
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{"_key":"60c858c27723bebd866a6091","_id":"references/60c858c27723bebd866a6091","_rev":"_cfFmMze---","tei":"\n\t\n\t\tBioEdit: a user friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symposium Series\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c858c27723bebd866a608f"},"refKey":14},
{"_key":"60c858c27723bebd866a6092","_id":"references/60c858c27723bebd866a6092","_rev":"_cfFmMzq---","tei":"\n\t\n\t\tGeneDoc: analysis and visualization of genetic variation\n\t\t\n\t\t\tKBNicholas\n\t\t\n\t\t\n\t\t\tHBNicholasJr\n\t\t\n\t\t\n\t\t\tIIDeerfield\n\t\t\n\t\t\n\t\t\tDW\n\t\t\n\t\n\t\n\t\tEMBnet. NEWS\n\t\t\n\t\t\t4\n\t\t\t14\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c858c27723bebd866a608f"},"refKey":28},
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{"_key":"60c858db7723bebd866a60a7","_id":"references/60c858db7723bebd866a60a7","_rev":"_cfFmM0W---","tei":"\n\t\n\t\tReliable B Cell Epitope Predictions: Impacts of Method Development and Improved Benchmarking\n\t\t\n\t\t\tJensVindahlKringelum\n\t\t\n\t\t\n\t\t\tClausLundegaard\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1371/journal.pcbi.1002829\n\t\t23300419\n\t\tPMC3531324\n\t\t\n\t\n\t\n\t\tPLoS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t8\n\t\t\t12\n\t\t\te1002829\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c858db7723bebd866a60a3"},"refKey":50},
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{"_key":"60c858e97723bebd866a6107","_id":"references/60c858e97723bebd866a6107","_rev":"_cfFmM2O---","tei":"\n\t\n\t\tSeq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tNicholasCGrass\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t13\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c858e97723bebd866a6103"},"refKey":18},
{"_key":"60c859277723bebd866a6117","_id":"references/60c859277723bebd866a6117","_rev":"_cfFmM2a---","tei":"\n\t\n\t\tGROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tCarstenKutzner\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1021/ct700301q\n\t\t26620784\n\t\t\n\t\n\t\n\t\tJournal of Chemical Theory and Computation\n\t\tJ. Chem. Theory Comput.\n\t\t1549-9618\n\t\t1549-9626\n\t\t\n\t\t\t4\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c859277723bebd866a6116"},"refKey":7},
{"_key":"60c8593d7723bebd866a6132","_id":"references/60c8593d7723bebd866a6132","_rev":"_cfFmM2m---","tei":"\n\t\n\t\tConserved epitopes in variants of amastin protein of Trypanosoma cruzi for vaccine design: A bioinformatics approach\n\t\t\n\t\t\tParvezSinghSlathia\n\t\t\t0000-0002-9064-041X\n\t\t\n\t\t\n\t\t\tPreetiSharma\n\t\t\n\t\t10.1016/j.micpath.2018.10.006\n\t\t30296452\n\t\n\t\n\t\tMicrobial Pathogenesis\n\t\tMicrobial Pathogenesis\n\t\t0882-4010\n\t\t\n\t\t\t125\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8593d7723bebd866a6131"},"refKey":25},
{"_key":"60c8593d7723bebd866a6133","_id":"references/60c8593d7723bebd866a6133","_rev":"_cfFmM2y---","tei":"\n\t\n\t\tErrors in protein structures\n\t\t\n\t\t\tRobW WHooft\n\t\t\n\t\t\n\t\t\tGertVriend\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t\n\t\t\tEnriqueEAbola\n\t\t\n\t\t10.1038/381272a0\n\t\t8692262\n\t\tark:/67375/GT4-MH4C5DJN-F\n\t\t9C31354504B657A735E6F9CEEC92917D9141802D\n\t\t\n\t\n\t\n\t\tNature\n\t\tNature\n\t\t0028-0836\n\t\t1476-4687\n\t\t\n\t\t\t381\n\t\t\t6580\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8593d7723bebd866a6131"},"refKey":41},
{"_key":"60c8593d7723bebd866a6134","_id":"references/60c8593d7723bebd866a6134","_rev":"_cfFmM3----","tei":"\n\t\n\t\tVerification of protein structures: Patterns of nonbonded atomic interactions\n\t\t\n\t\t\tChrisColovos\n\t\t\n\t\t\n\t\t\tToddOYeates\n\t\t\n\t\t10.1002/pro.5560020916\n\t\t8401235\n\t\tPMC2142462\n\t\t\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\tProtein Sci.\n\t\t0961-8368\n\t\t1469-896X\n\t\t\n\t\t\t2\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8593d7723bebd866a6131"},"refKey":42},
{"_key":"60c8593d7723bebd866a6135","_id":"references/60c8593d7723bebd866a6135","_rev":"_cfFmM3G---","tei":"\n\t\n\t\tAQUA and PROCHECK-NMR: Programs for checking the quality of protein structures solved by NMR\n\t\t\n\t\t\tRomana.Laskowski\n\t\t\n\t\t\n\t\t\tJacAntoonc. Rullmann\n\t\t\n\t\t\n\t\t\tMalcolmw.Macarthur\n\t\t\n\t\t\n\t\t\tRobertKaptein\n\t\t\n\t\t\n\t\t\tJanetm.Thornton\n\t\t\n\t\t10.1007/bf00228148\n\t\t9008363\n\t\tark:/67375/1BB-VZ6PBK9M-W\n\t\tCC3775D759877F1E6637576170136BFB32AA63AA\n\t\t\n\t\n\t\n\t\tJournal of Biomolecular NMR\n\t\tJ Biomol NMR\n\t\t0925-2738\n\t\t1573-5001\n\t\t\n\t\t\t8\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8593d7723bebd866a6131"},"refKey":43},
{"_key":"60c859607723bebd866a615c","_id":"references/60c859607723bebd866a615c","_rev":"_cfFmM3S---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c859607723bebd866a615b"},"refKey":23},
{"_key":"60c859847723bebd866a6172","_id":"references/60c859847723bebd866a6172","_rev":"_cfFmM3e---","tei":"\n\t\n\t\tIntroduction to the Analysis of Environmental Sequences: Metagenomics with MEGAN\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tSuparnaMitra\n\t\t\n\t\t10.1007/978-1-61779-585-5_17\n\t\t22399469\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t21\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c859847723bebd866a6171"},"refKey":59},
{"_key":"60c859bc7723bebd866a619f","_id":"references/60c859bc7723bebd866a619f","_rev":"_cfFmM3q---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMAbraham\n\t\t\n\t\t\n\t\t\tDSpoel\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tTTeam\n\t\t\n\t\t\n\t\t\tUser\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c859bc7723bebd866a619e"},"refKey":48},
{"_key":"60c859bc7723bebd866a61a0","_id":"references/60c859bc7723bebd866a61a0","_rev":"_cfFmM32---","tei":"\n\t\n\t\tGROMACS: Fast, flexible, and free\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c859bc7723bebd866a619e"},"refKey":49},
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{"_key":"60c859bf7723bebd866a61ae","_id":"references/60c859bf7723bebd866a61ae","_rev":"_cfFmM4W---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\t: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c859bf7723bebd866a61ac"},"refKey":25},
{"_key":"60c859bf7723bebd866a61af","_id":"references/60c859bf7723bebd866a61af","_rev":"_cfFmM4i---","tei":"\n\t\n\t\tPan-cancer network analysis identifies combinations of rare somatic mutations across pathways and protein complexes\n\t\t\n\t\t\tMarkD MLeiserson\n\t\t\n\t\t\n\t\t\tFabioVandin\n\t\t\n\t\t\n\t\t\tHsin-TaWu\n\t\t\n\t\t\n\t\t\tJasonRDobson\n\t\t\n\t\t\n\t\t\tJonathanVEldridge\n\t\t\n\t\t\n\t\t\tJacobLThomas\n\t\t\n\t\t\n\t\t\tAlexandraPapoutsaki\n\t\t\n\t\t\n\t\t\tYounhunKim\n\t\t\n\t\t\n\t\t\tBeifangNiu\n\t\t\n\t\t\n\t\t\tMichaelMclellan\n\t\t\n\t\t\n\t\t\tMichaelSLawrence\n\t\t\n\t\t\n\t\t\tAbelGonzalez-Perez\n\t\t\n\t\t\n\t\t\tDavidTamborero\n\t\t\n\t\t\n\t\t\tYuweiCheng\n\t\t\n\t\t\n\t\t\tGregoryARyslik\n\t\t\n\t\t\n\t\t\tNuriaLopez-Bigas\n\t\t\t0000-0003-4925-8988\n\t\t\n\t\t\n\t\t\tGadGetz\n\t\t\n\t\t\n\t\t\tLiDing\n\t\t\n\t\t\n\t\t\tBenjaminJRaphael\n\t\t\n\t\t10.1038/ng.3168\n\t\t25501392\n\t\tPMC4444046\n\t\t\n\t\t\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t47\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c859bf7723bebd866a61ac"},"refKey":62},
{"_key":"60c859bf7723bebd866a61b0","_id":"references/60c859bf7723bebd866a61b0","_rev":"_cfFmM4q---","tei":"\n\t\n\t\tNetwork propagation: a universal amplifier of genetic associations\n\t\t\n\t\t\tLenoreCowen\n\t\t\n\t\t\n\t\t\tTreyIdeker\n\t\t\n\t\t\n\t\t\tBenjaminJRaphael\n\t\t\n\t\t\n\t\t\tRodedSharan\n\t\t\n\t\t10.1038/nrg.2017.38\n\t\t28607512\n\t\t\n\t\n\t\n\t\tNature Reviews Genetics\n\t\tNat Rev Genet\n\t\t1471-0056\n\t\t1471-0064\n\t\t\n\t\t\t18\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c859bf7723bebd866a61ac"},"refKey":63},
{"_key":"60c859bf7723bebd866a61b1","_id":"references/60c859bf7723bebd866a61b1","_rev":"_cfFmM42---","tei":"\n\t\n\t\tIntAct: an open source molecular interaction database\n\t\t\n\t\t\tHHermjakob\n\t\t\n\t\t\n\t\t\tLMontecchi-Palazzi\n\t\t\n\t\t\n\t\t\tCLewington\n\t\t\n\t\t\n\t\t\tSMudali\n\t\t\n\t\t\n\t\t\tSKerrien\n\t\t\n\t\t\n\t\t\tSOrchard\n\t\t\n\t\t10.1093/nar/gkh052\n\t\t14681455\n\t\tPMC308786\n\t\tark:/67375/HXZ-6ZBCX15Q-C\n\t\t55E4E54B1CCBE6F7694742768E2EAD6655AAA571\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t90001\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c859bf7723bebd866a61ac"},"refKey":21},
{"_key":"60c859bf7723bebd866a61b2","_id":"references/60c859bf7723bebd866a61b2","_rev":"_cfFmM5C---","tei":"\n\t\n\t\tThe MIntAct project—IntAct as a common curation platform for 11 molecular interaction databases\n\t\t\n\t\t\tSandraOrchard\n\t\t\n\t\t\n\t\t\tMaisAmmari\n\t\t\n\t\t\n\t\t\tBrunoAranda\n\t\t\n\t\t\n\t\t\tLionelBreuza\n\t\t\n\t\t\n\t\t\tLeonardoBriganti\n\t\t\n\t\t\n\t\t\tFionaBroackes-Carter\n\t\t\n\t\t\n\t\t\tNancyHCampbell\n\t\t\n\t\t\n\t\t\tGayatriChavali\n\t\t\n\t\t\n\t\t\tCarolChen\n\t\t\n\t\t\n\t\t\tNoemiDel-Toro\n\t\t\n\t\t\n\t\t\tMargaretDuesbury\n\t\t\n\t\t\n\t\t\tMarineDumousseau\n\t\t\n\t\t\n\t\t\tEugeniaGaleota\n\t\t\n\t\t\n\t\t\tUrsulaHinz\n\t\t\n\t\t\n\t\t\tMartaIannuccelli\n\t\t\n\t\t\n\t\t\tSruthiJagannathan\n\t\t\n\t\t\n\t\t\tRafaelJimenez\n\t\t\n\t\t\n\t\t\tJyotiKhadake\n\t\t\n\t\t\n\t\t\tAstridLagreid\n\t\t\n\t\t\n\t\t\tLuanaLicata\n\t\t\n\t\t\n\t\t\tRuthCLovering\n\t\t\n\t\t\n\t\t\tBirgitMeldal\n\t\t\n\t\t\n\t\t\tAnnaNMelidoni\n\t\t\n\t\t\n\t\t\tMilaMilagros\n\t\t\n\t\t\n\t\t\tDanielePeluso\n\t\t\n\t\t\n\t\t\tLiviaPerfetto\n\t\t\n\t\t\n\t\t\tPabloPorras\n\t\t\n\t\t\n\t\t\tArathiRaghunath\n\t\t\n\t\t\n\t\t\tSylvieRicard-Blum\n\t\t\n\t\t\n\t\t\tBerndRoechert\n\t\t\n\t\t\n\t\t\tAndreStutz\n\t\t\n\t\t\n\t\t\tMichaelTognolli\n\t\t\n\t\t\n\t\t\tKimVan Roey\n\t\t\n\t\t\n\t\t\tGianniCesareni\n\t\t\n\t\t\n\t\t\tHenningHermjakob\n\t\t\n\t\t10.1093/nar/gkt1115\n\t\t24234451\n\t\tPMC3965093\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl. Acids Res.\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c859bf7723bebd866a61ac"},"refKey":22},
{"_key":"60c859bf7723bebd866a61b3","_id":"references/60c859bf7723bebd866a61b3","_rev":"_cfFmM5O---","tei":"\n\t\n\t\tRCy3: Network biology using Cytoscape from within R\n\t\t\n\t\t\tJAGustavsen\n\t\t\n\t\t\n\t\t\tSPai\n\t\t\n\t\t\n\t\t\tRIsserlin\n\t\t\n\t\t\n\t\t\tBDemchak\n\t\t\n\t\t\n\t\t\tARPico\n\t\t\n\t\t\n\t\n\tversion 3; peer review: 3 approved\n\n","document":{"$oid":"60c859bf7723bebd866a61ac"},"refKey":43},
{"_key":"60c859bf7723bebd866a61b4","_id":"references/60c859bf7723bebd866a61b4","_rev":"_cfFmM5a---","tei":"\n\t\n\t\tDiscovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE)\n\t\t\n\t\t\tEvanOPaull\n\t\t\n\t\t\n\t\t\tDanielECarlin\n\t\t\n\t\t\n\t\t\tMarioNiepel\n\t\t\n\t\t\n\t\t\tPeterKSorger\n\t\t\n\t\t\n\t\t\tDavidHaussler\n\t\t\n\t\t\n\t\t\tJoshuaMStuart\n\t\t\n\t\t10.1093/bioinformatics/btt471\n\t\t23986566\n\t\tPMC3799471\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c859bf7723bebd866a61ac"},"refKey":28},
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{"_key":"60c85b2d7723bebd866a6371","_id":"references/60c85b2d7723bebd866a6371","_rev":"_cfFmN_O---","tei":"\n\t\n\t\tlimma powers differential expression analyses for RNA-sequencing and microarray studies\n\t\t\n\t\t\tMERitchie\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\t7\n\t\t\te47\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85b2d7723bebd866a6370"},"refKey":16},
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{"_key":"60c85c557723bebd866a644d","_id":"references/60c85c557723bebd866a644d","_rev":"_cfFmNAe---","tei":"\n\t\n\t\tGromacs Workshop Introduction to Molecular Simulation and Gromacs\n\t\t\n\t\t\tELindahl\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85c557723bebd866a644b"},"refKey":55},
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{"_key":"60c85c967723bebd866a6463","_id":"references/60c85c967723bebd866a6463","_rev":"_cfFmNBC---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c85c967723bebd866a6461"},"refKey":64},
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{"_key":"60c85cad7723bebd866a6490","_id":"references/60c85cad7723bebd866a6490","_rev":"_cfFmNBm---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c85cad7723bebd866a648e"},"refKey":58},
{"_key":"60c85cad7723bebd866a6491","_id":"references/60c85cad7723bebd866a6491","_rev":"_cfFmNBy---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tAdrianPlatts\n\t\t\n\t\t\n\t\t\tLeLilyWang\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tLuanWang\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\tPMC3679285\n\t\t\n\t\n\t\n\t\tFly\n\t\tFly\n\t\t1933-6934\n\t\t1933-6942\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c85cad7723bebd866a648e"},"refKey":56},
{"_key":"60c85cad7723bebd866a6492","_id":"references/60c85cad7723bebd866a6492","_rev":"_cfFmNC----","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c85cad7723bebd866a648e"},"refKey":55},
{"_key":"60c85cad7723bebd866a6493","_id":"references/60c85cad7723bebd866a6493","_rev":"_cfFmNCK---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1093/bioinformatics/bty407\n\t\t29790939\n\t\tPMC6247931\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c85cad7723bebd866a648e"},"refKey":63},
{"_key":"60c85ce07723bebd866a64b5","_id":"references/60c85ce07723bebd866a64b5","_rev":"_cfFmNCW---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85ce07723bebd866a64b4"},"refKey":27},
{"_key":"60c85ce07723bebd866a64b6","_id":"references/60c85ce07723bebd866a64b6","_rev":"_cfFmNCi---","tei":"\n\t\n\t\tRDP2: recombination detection and analysis from sequence alignments\n\t\t\n\t\t\tDPMartin\n\t\t\n\t\t\n\t\t\tCWilliamson\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t10.1093/bioinformatics/bth490\n\t\t15377507\n\t\tark:/67375/HXZ-1CJ571R5-H\n\t\tFBF994AF07DCF440DBE2361DA623551B56A99871\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c85ce07723bebd866a64b4"},"refKey":29},
{"_key":"60c85ce07723bebd866a64b7","_id":"references/60c85ce07723bebd866a64b7","_rev":"_cfFmNCu---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85ce07723bebd866a64b4"},"refKey":28},
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{"_key":"60c85ce67723bebd866a64c1","_id":"references/60c85ce67723bebd866a64c1","_rev":"_cfFmNDG---","tei":"\n\t\n\t\tFastML: a web server for probabilistic reconstruction of ancestral sequences\n\t\t\n\t\t\tHAshkenazy\n\t\t\n\t\t\n\t\t\tOPenn\n\t\t\n\t\t\n\t\t\tADoron-Faigenboim\n\t\t\n\t\t\n\t\t\tOCohen\n\t\t\n\t\t\n\t\t\tGCannarozzi\n\t\t\n\t\t\n\t\t\tOZomer\n\t\t\n\t\t\n\t\t\tTPupko\n\t\t\n\t\t10.1093/nar/gks498\n\t\t22661579\n\t\tPMC3394241\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c85ce67723bebd866a64bf"},"refKey":41},
{"_key":"60c85ce67723bebd866a64c2","_id":"references/60c85ce67723bebd866a64c2","_rev":"_cfFmNDS---","tei":"\n\t\n\t\tEasyfig: A genome comparison visualizer\n\t\t\n\t\t\tMJSullivan\n\t\t\n\t\t\n\t\t\tNKPetty\n\t\t\n\t\t\n\t\t\tSABeatson\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85ce67723bebd866a64bf"},"refKey":36},
{"_key":"60c85d0d7723bebd866a64da","_id":"references/60c85d0d7723bebd866a64da","_rev":"_cfFmNDe---","tei":"\n\t\n\t\tMolecular Epidemiology of Human Coronavirus OC43 Reveals Evolution of Different Genotypes over Time and Recent Emergence of a Novel Genotype due to Natural Recombination\n\t\t\n\t\t\tSK PLau\n\t\t\n\t\t\n\t\t\tPLee\n\t\t\n\t\t\n\t\t\tAK LTsang\n\t\t\n\t\t\n\t\t\tCC YYip\n\t\t\n\t\t\n\t\t\tHTse\n\t\t\n\t\t\n\t\t\tRALee\n\t\t\n\t\t\n\t\t\tL-YSo\n\t\t\n\t\t\n\t\t\tY-LLau\n\t\t\n\t\t\n\t\t\tK-HChan\n\t\t\n\t\t\n\t\t\tPC YWoo\n\t\t\n\t\t\n\t\t\tK-YYuen\n\t\t\n\t\t10.1128/jvi.05512-11\n\t\t21849456\n\t\tPMC3194943\n\t\t\n\t\n\t\n\t\tJournal of Virology\n\t\tJournal of Virology\n\t\t0022-538X\n\t\t\n\t\t\t85\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Society for Microbiology\n\t\t\n\t\n\n","document":{"$oid":"60c85d0d7723bebd866a64d9"},"refKey":32},
{"_key":"60c85d147723bebd866a64e4","_id":"references/60c85d147723bebd866a64e4","_rev":"_cfFmNDq---","tei":"\n\t\n\t\tStatistical Inference for Partially Observed Markov Processes via theRPackagepomp\n\t\t\n\t\t\tAaronAKing\n\t\t\n\t\t\n\t\t\tDaoNguyen\n\t\t\n\t\t\n\t\t\tEdwardLIonides\n\t\t\n\t\t10.18637/jss.v069.i12\n\t\tdoi:10. 18637/jss.v069.i12\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t69\n\t\t\t12\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c85d147723bebd866a64e3"},"refKey":30},
{"_key":"60c85d147723bebd866a64e5","_id":"references/60c85d147723bebd866a64e5","_rev":"_cfFmNDy---","tei":"\n\t\n\t\tStatistical Inference for Partially Observed Markov Processes via theRPackagepomp\n\t\t\n\t\t\tAaronAKing\n\t\t\n\t\t\n\t\t\tDaoNguyen\n\t\t\n\t\t\n\t\t\tEdwardLIonides\n\t\t\n\t\t10.18637/jss.v069.i12\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t69\n\t\t\t12\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\tR package version 1.4.1.1. See\n\n","document":{"$oid":"60c85d147723bebd866a64e3"},"refKey":31},
{"_key":"60c85d547723bebd866a6519","_id":"references/60c85d547723bebd866a6519","_rev":"_cfFmNE----","tei":"\n\t\n\t\tDAVID: Database for annotation, visualization, and integrated discovery\n\t\t\n\t\t\tGDennis\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tDAHosack\n\t\t\n\t\t\n\t\t\tJYang\n\t\t\n\t\t\n\t\t\tWGao\n\t\t\n\t\t\n\t\t\tHCLane\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85d547723bebd866a6518"},"refKey":51},
{"_key":"60c85d547723bebd866a651a","_id":"references/60c85d547723bebd866a651a","_rev":"_cfFmNEK---","tei":"\n\t\n\t\tHuman MicroRNA Targets\n\t\t\n\t\t\tBinoJohn\n\t\t\n\t\t\n\t\t\tAntonJEnright\n\t\t\n\t\t\n\t\t\tAlexeiAravin\n\t\t\n\t\t\n\t\t\tThomasTuschl\n\t\t\n\t\t\n\t\t\tChrisSander\n\t\t\n\t\t\n\t\t\tDeboraSMarks\n\t\t\n\t\t10.1371/journal.pbio.0020363\n\t\t15502875\n\t\tPMC521178\n\t\t\n\t\n\t\n\t\tPLoS Biology\n\t\tPLoS Biol\n\t\t1545-7885\n\t\t\n\t\t\t2\n\t\t\t11\n\t\t\te363\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c85d547723bebd866a6518"},"refKey":43},
{"_key":"60c85d547723bebd866a651b","_id":"references/60c85d547723bebd866a651b","_rev":"_cfFmNEW---","tei":"\n\t\n\t\tIntegration of biological networks and gene expression data using Cytoscape\n\t\t\n\t\t\tMSCline\n\t\t\n\t\t\n\t\t\tMSmoot\n\t\t\n\t\t\n\t\t\tECerami\n\t\t\n\t\t\n\t\t\tAKuchinsky\n\t\t\n\t\t\n\t\t\tNLandys\n\t\t\n\t\t\n\t\t\tCWorkman\n\t\t\n\t\t\n\t\t\tRChristmas\n\t\t\n\t\t\n\t\t\tIAvila-Campilo\n\t\t\n\t\t\n\t\t\tMCreech\n\t\t\n\t\t\n\t\t\tBGross\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t2\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85d547723bebd866a6518"},"refKey":55},
{"_key":"60c85d547723bebd866a651c","_id":"references/60c85d547723bebd866a651c","_rev":"_cfFmNEi---","tei":"\n\t\n\t\tMost mammalian mRNAs are conserved targets of microRNAs\n\t\t\n\t\t\tRCFriedman\n\t\t\n\t\t\n\t\t\tKk-HFarh\n\t\t\n\t\t\n\t\t\tCBBurge\n\t\t\n\t\t\n\t\t\tDPBartel\n\t\t\n\t\n\t\n\t\tGen Res\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85d547723bebd866a6518"},"refKey":44},
{"_key":"60c85d577723bebd866a652a","_id":"references/60c85d577723bebd866a652a","_rev":"_cfFmNEq---","tei":"\n\t\n\t\tEnsembl variation resources\n\t\t\n\t\t\tSarahEHunt\n\t\t\n\t\t\n\t\t\tWilliamMclaren\n\t\t\n\t\t\n\t\t\tLaurentGil\n\t\t\n\t\t\n\t\t\tAnjaThormann\n\t\t\n\t\t\n\t\t\tHelenSchuilenburg\n\t\t\n\t\t\n\t\t\tDanSheppard\n\t\t\n\t\t\n\t\t\tAndrewParton\n\t\t\n\t\t\n\t\t\tIrinaMArmean\n\t\t\n\t\t\n\t\t\tStephenJTrevanion\n\t\t\n\t\t\n\t\t\tPaulFlicek\n\t\t\n\t\t\n\t\t\tFionaCunningham\n\t\t\n\t\t10.1093/database/bay119\n\t\t30576484\n\t\tPMC6310513\n\t\t\n\t\n\t\n\t\tDatabase\n\t\t1758-0463\n\t\t\n\t\t\t2018\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c85d577723bebd866a6529"},"refKey":23},
{"_key":"60c85d577723bebd866a652b","_id":"references/60c85d577723bebd866a652b","_rev":"_cfFmNE2---","tei":"\n\t\n\t\tThe Ensembl Genome Browser: Strategies for Accessing Eukaryotic Genome Data\n\t\t\n\t\t\tVictoriaNewman\n\t\t\n\t\t\n\t\t\tBenjaminMoore\n\t\t\n\t\t\n\t\t\tHelenSparrow\n\t\t\n\t\t\n\t\t\tEmilyPerry\n\t\t\n\t\t10.1007/978-1-4939-7737-6_6\n\t\t29761458\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1757\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85d577723bebd866a6529"},"refKey":24},
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{"_key":"60c85d5c7723bebd866a6538","_id":"references/60c85d5c7723bebd866a6538","_rev":"_cfFmNFO---","tei":"\n\t\n\t\t\n\t\tStataCorp. Stata Statistical Software: Release 16 2019\n\t\t\t\tCollege Station, TX\n\t\t\n\t\n\tStataCorp LLC\n\n","document":{"$oid":"60c85d5c7723bebd866a6537"},"refKey":20},
{"_key":"60c85d5f7723bebd866a653f","_id":"references/60c85d5f7723bebd866a653f","_rev":"_cfFmNFW---","tei":"\n\t\n\t\tMATSim-T: Architecture and simulation\n\t\t\n\t\t\tMBalmer\n\t\t\n\t\t\n\t\t\tMRieser\n\t\t\n\t\t\n\t\t\tKMeister\n\t\t\n\t\t\n\t\t\tDCharypar\n\t\t\n\t\t\n\t\t\tNLefebvre\n\t\t\n\t\t\n\t\t\tKNagel\n\t\t\n\t\n\t\n\t\tMulti-agent systems for traffic and transportation engineering\n\t\t\t\t\n\t\t\tAL CBazzan\n\t\t\t& FKlugl\n\t\t\n\t\tHershey, PA\n\t\t\n\t\t\tIGI Global\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85d5f7723bebd866a653e"},"refKey":4},
{"_key":"60c85d5f7723bebd866a6540","_id":"references/60c85d5f7723bebd866a6540","_rev":"_cfFmNFi---","tei":"\n\t\n\t\tTRANSIMS for transportation planning\n\t\t\n\t\t\tKNagel\n\t\t\n\t\t\n\t\t\tRLBeckman\n\t\t\n\t\t\n\t\t\tCLBarrett\n\t\t\n\t\n\t\n\t\tthe 6th International Conference on Computers in Urban Planning and Urban Management\n\t\t\t\tFranco Angeli, Milano, Italy\n\t\t\n\t\t\t\n\t\t\n\t\n\tPaper presented at\n\n","document":{"$oid":"60c85d5f7723bebd866a653e"},"refKey":47},
{"_key":"60c85d5f7723bebd866a6541","_id":"references/60c85d5f7723bebd866a6541","_rev":"_cfFmNFy---","tei":"\n\t\n\t\tCongestion pricing in a real-world oriented agent-based simulation context\n\t\t\n\t\t\tIhabKaddoura\n\t\t\t0000-0002-0940-2255\n\t\t\n\t\t\n\t\t\tKaiNagel\n\t\t\t0000-0003-2775-6898\n\t\t\n\t\t10.1016/j.retrec.2019.01.002\n\t\n\t\n\t\tResearch in Transportation Economics\n\t\tResearch in Transportation Economics\n\t\t0739-8859\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c85d5f7723bebd866a653e"},"refKey":41},
{"_key":"60c85d5f7723bebd866a6542","_id":"references/60c85d5f7723bebd866a6542","_rev":"_cfFmNG----","tei":"\n\t\n\t\tPOLARIS: Agent-based modeling framework development and implementation for integrated travel demand and network and operations simulations\n\t\t\n\t\t\tJAuld\n\t\t\n\t\t\n\t\t\tMHope\n\t\t\n\t\t\n\t\t\tHLey\n\t\t\n\t\t\n\t\t\tVSokolov\n\t\t\n\t\t\n\t\t\tBXu\n\t\t\n\t\t\n\t\t\tKZhang\n\t\t\n\t\n\t\n\t\tTransportation Research Part C: Emerging Technologies\n\t\t\n\t\t\t64\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85d5f7723bebd866a653e"},"refKey":0},
{"_key":"60c85d6c7723bebd866a657c","_id":"references/60c85d6c7723bebd866a657c","_rev":"_cfFmNGK---","tei":"\n\t\n\t\tAutomated detection of infectious disease outbreaks: hierarchical time series models\n\t\t\n\t\t\tSimonHHeisterkamp\n\t\t\n\t\t\n\t\t\tArnoldL MDekkers\n\t\t\n\t\t\n\t\t\tJannekeC MHeijne\n\t\t\n\t\t10.1002/sim.2674\n\t\t16958149\n\t\tark:/67375/WNG-FQR6VZLN-2\n\t\tB0268E768FBE4AE95E73E2BF330C06941172D0CA\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t1097-0258\n\t\t\n\t\t\t25\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c85d6c7723bebd866a657b"},"refKey":20},
{"_key":"60c85d6c7723bebd866a657d","_id":"references/60c85d6c7723bebd866a657d","_rev":"_cfFmNGS---","tei":"\n\t\n\t\tBayesian statistical instrument for trend detection and time-series modelling\n\t\t\n\t\t\tAlmDekkers\n\t\t\n\t\t\n\t\t\tSHHeisterkamp\n\t\t\n\t\t\n\t\t\tNpbats\n\t\t\n\t\t\n\t\n\tin Dutch\n\n","document":{"$oid":"60c85d6c7723bebd866a657b"},"refKey":21},
{"_key":"60c85d757723bebd866a6581","_id":"references/60c85d757723bebd866a6581","_rev":"_cfFmNGe---","tei":"\n\t\n\t\tBeeptrace: blockchain-enabled privacy-preserving contact tracing for COVID-19 pandemic and beyond\n\t\t\n\t\t\tHXu\n\t\t\n\t\t\n\t\t\tLZhang\n\t\t\n\t\t\n\t\t\tOOnireti\n\t\t\n\t\t\n\t\t\tYFang\n\t\t\n\t\t\n\t\t\tWBBuchanan\n\t\t\n\t\t\n\t\t\tMAImran\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85d757723bebd866a6580"},"refKey":31},
{"_key":"60c85d8c7723bebd866a65af","_id":"references/60c85d8c7723bebd866a65af","_rev":"_cfFmNGq---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c85d8c7723bebd866a65ae"},"refKey":34},
{"_key":"60c85d977723bebd866a65b9","_id":"references/60c85d977723bebd866a65b9","_rev":"_cfFmNG2---","tei":"\n\t\n\t\tBetter than BiBa: Short One-Time Signatures with Fast Signing and Verifying\n\t\t\n\t\t\tLeonidReyzin\n\t\t\n\t\t\n\t\t\tNatanReyzin\n\t\t\n\t\t10.1007/3-540-45450-0_11\n\t\tark:/67375/HCB-890P7XD9-N\n\t\tC0CFFA316F5B05DF6E3331054D2ED47ACFC74680\n\t\t\n\t\n\t\n\t\tInformation Security and Privacy\n\t\t\t\t\n\t\t\tLBatten\n\t\t\tJSeberry\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t2384\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85d977723bebd866a65b8"},"refKey":22},
{"_key":"60c85da57723bebd866a65c4","_id":"references/60c85da57723bebd866a65c4","_rev":"_cfFmNHC---","tei":"\n\t\n\t\tTANDEM: matching proteins with tandem mass spectra\n\t\t\n\t\t\tRR CCraig\n\t\t\n\t\t\n\t\t\tBeavis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85da57723bebd866a65c3"},"refKey":2},
{"_key":"60c85da57723bebd866a65c5","_id":"references/60c85da57723bebd866a65c5","_rev":"_cfFmNHO---","tei":"\n\t\n\t\tOpen mass spectrometry search algorithm\n\t\t\n\t\t\tLYGeer\n\t\t\n\t\t\n\t\t\tSPMarkey\n\t\t\n\t\t\n\t\t\tJAKowalak\n\t\t\n\t\t\n\t\t\tLWagner\n\t\t\n\t\t\n\t\t\tMXu\n\t\t\n\t\t\n\t\t\tDMMaynard\n\t\t\n\t\t\n\t\t\tXYYang\n\t\t\n\t\t\n\t\t\tWY HShi & S\n\t\t\n\t\t\n\t\t\tBryant\n\t\t\n\t\n\t\n\t\tJournal of Proteome Research\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85da57723bebd866a65c3"},"refKey":1},
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{"_key":"60c85ed37723bebd866a6700","_id":"references/60c85ed37723bebd866a6700","_rev":"_cfFmNL6---","tei":"\n\t\n\t\tPractical comparison of aberration detection algorithms for biosurveillance systems\n\t\t\n\t\t\tHongZhou\n\t\t\n\t\t\n\t\t\tHowardBurkom\n\t\t\n\t\t\n\t\t\tCarlaAWinston\n\t\t\n\t\t\n\t\t\tAchintyaDey\n\t\t\n\t\t\n\t\t\tUmedAjani\n\t\t\n\t\t10.1016/j.jbi.2015.08.023\n\t\t26334478\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\tJournal of Biomedical Informatics\n\t\t1532-0464\n\t\t\n\t\t\t57\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c85ed37723bebd866a66fe"},"refKey":21},
{"_key":"60c85ed37723bebd866a6701","_id":"references/60c85ed37723bebd866a6701","_rev":"_cfFmNMG---","tei":"\n\t\n\t\tEnhancing Time-Series Detection Algorithms for Automated Biosurveillance\n\t\t\n\t\t\tJeromeITokars\n\t\t\n\t\t\n\t\t\tHBurkom\n\t\t\n\t\t\n\t\t\tJXing\n\t\t\n\t\t\n\t\t\tREnglish\n\t\t\n\t\t\n\t\t\tSBloom\n\t\t\n\t\t\n\t\t\tKCox\n\t\t\n\t\t10.3201/eid1504.080616\n\t\t19331728\n\t\tPMC2671446\n\t\n\t\n\t\tEmerging Infectious Diseases\n\t\tEmerg. Infect. Dis.\n\t\t1080-6040\n\t\t\n\t\t\t15\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tCenters for Disease Control and Prevention (CDC)\n\t\t\n\t\n\n","document":{"$oid":"60c85ed37723bebd866a66fe"},"refKey":22},
{"_key":"60c85ef27723bebd866a6721","_id":"references/60c85ef27723bebd866a6721","_rev":"_cfFmNMO---","tei":"\n\t\n\t\tProtein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons\n\t\t\n\t\t\tANicholls\n\t\t\n\t\t\n\t\t\tKASharp\n\t\t\n\t\t\n\t\t\tBHonig\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85ef27723bebd866a6720"},"refKey":46},
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{"_key":"60c85ef27723bebd866a6723","_id":"references/60c85ef27723bebd866a6723","_rev":"_cfFmNMm---","tei":"\n\t\n\t\tMOLSCRIPT: a program to produce both detailed and schematic plots of protein structures\n\t\t\n\t\t\tPJKraulis\n\t\t\n\t\n\t\n\t\tJ Appl Crystallogr\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85ef27723bebd866a6720"},"refKey":47},
{"_key":"60c85ef27723bebd866a6724","_id":"references/60c85ef27723bebd866a6724","_rev":"_cfFmNMy---","tei":"\n\t\n\t\tLearnCoil-VMF: computational evidence for coiled-coil-like motifs in many viral membrane-fusion proteins\n\t\t\n\t\t\tMonaSingh\n\t\t\n\t\t\n\t\t\tBonnieBerger\n\t\t\n\t\t\n\t\t\tPeterSKim\n\t\t\n\t\t10.1006/jmbi.1999.2796\n\t\t10438601\n\t\tS0022-2836(99)92796-1\n\t\tark:/67375/6H6-M896VXVD-T\n\t\tA5F7A548E28D71D28F743DC9B2B6A24AE3409E15\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t290\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c85ef27723bebd866a6720"},"refKey":33},
{"_key":"60c85f4b7723bebd866a675d","_id":"references/60c85f4b7723bebd866a675d","_rev":"_cfFmNM6---","tei":"\n\t\n\t\tHelmholtz Free Energy of Peptide Hydrogen Bonds in Proteins\n\t\t\n\t\t\tManfredJSippl\n\t\t\n\t\t10.1006/jmbi.1996.0427\n\t\t8709145\n\t\tS0022-2836(96)90427-1\n\t\tark:/67375/6H6-QZWZ732P-F\n\t\tC6CC543F94279513303107762DEC89542F9A25E8\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t260\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":20},
{"_key":"60c85f4b7723bebd866a675e","_id":"references/60c85f4b7723bebd866a675e","_rev":"_cfFmNNG---","tei":"\n\t\n\t\tTools for comparative protein structure modeling and analysis\n\t\t\n\t\t\tNEswar\n\t\t\n\t\t\n\t\t\tJBino\n\t\t\n\t\t\n\t\t\tNMirkovic\n\t\t\n\t\t\n\t\t\tAFiser\n\t\t\n\t\t\n\t\t\tVAIlyin\n\t\t\n\t\t\n\t\t\tUPieper\n\t\t\n\t\t\n\t\t\tACStuart\n\t\t\n\t\t\n\t\t\tMAMarti-Renom\n\t\t\n\t\t\n\t\t\tMSMadhusudhan\n\t\t\n\t\t\n\t\t\tBYerkovich\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\t10.1093/nar/gkg543\n\t\t12824331\n\t\tPMC168950\n\t\tark:/67375/HXZ-1VF4H4B7-F\n\t\t65302D2B545E04BAFD3DE7DF06454141EB626FB2\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":17},
{"_key":"60c85f4b7723bebd866a675f","_id":"references/60c85f4b7723bebd866a675f","_rev":"_cfFmNNS---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRobertoSánchez\n\t\t\n\t\t\n\t\t\tUrsulaPieper\n\t\t\n\t\t\n\t\t\tFranciscoMelo\n\t\t\n\t\t\n\t\t\tNarayananEswar\n\t\t\n\t\t\n\t\t\tMarcAMartí-Renom\n\t\t\n\t\t\n\t\t\tMSMadhusudhan\n\t\t\n\t\t\n\t\t\tNebojšaMirković\n\t\t\n\t\t\n\t\t\tAndrejŠali\n\t\t\n\t\t10.1038/80776\n\t\t11104007\n\t\tark:/67375/GT4-BMD2Z9S3-B\n\t\t014CCC50420F256A6FCCBDB4F768027FA7042053\n\t\n\t\n\t\tNature Structural Biology\n\t\tNat. Struct Biol.\n\t\t1072-8368\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":18},
{"_key":"60c85f4b7723bebd866a6760","_id":"references/60c85f4b7723bebd866a6760","_rev":"_cfFmNNe---","tei":"\n\t\n\t\tPRINTS and its automatic supplement, prePRINTS\n\t\t\n\t\t\tTKAttwood\n\t\t\n\t\t\n\t\t\tPBradley\n\t\t\n\t\t\n\t\t\tDRFlower\n\t\t\n\t\t\n\t\t\tAGaulton\n\t\t\n\t\t\n\t\t\tNMaudling\n\t\t\n\t\t\n\t\t\tALMitchell\n\t\t\n\t\t\n\t\t\tGMoulton\n\t\t\n\t\t\n\t\t\tANordle\n\t\t\n\t\t\n\t\t\tKPaine\n\t\t\n\t\t\n\t\t\tPTaylor\n\t\t\n\t\t\n\t\t\tAUddin\n\t\t\n\t\t\n\t\t\tCZygouri\n\t\t\n\t\t10.1093/nar/gkg030\n\t\t12520033\n\t\tPMC165477\n\t\tark:/67375/HXZ-R4QWVL6Z-7\n\t\tC8610AE2A4871B3F2F4C627C4537A1F2C84485A1\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":14},
{"_key":"60c85f4b7723bebd866a6761","_id":"references/60c85f4b7723bebd866a6761","_rev":"_cfFmNNm---","tei":"\n\t\n\t\tThe PROSITE database, its status in 1999\n\t\t\n\t\t\tKHofmann\n\t\t\n\t\t\n\t\t\tPBucher\n\t\t\n\t\t\n\t\t\tLFalquet\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\t10.1093/nar/27.1.215\n\t\t9847184\n\t\tPMC148139\n\t\tark:/67375/HXZ-K5XQCW4P-D\n\t\tBDB5C6FF49777C4E67680F3EEA4B01C3D7E64AE1\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":13},
{"_key":"60c85f4b7723bebd866a6762","_id":"references/60c85f4b7723bebd866a6762","_rev":"_cfFmNNy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":9},
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{"_key":"60c85f4b7723bebd866a6764","_id":"references/60c85f4b7723bebd866a6764","_rev":"_cfFmNOK---","tei":"\n\t\n\t\tThe estimation of statistical parameters for local alignment score distributions\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tRBunschuh\n\t\t\n\t\t\n\t\t\tROlsen\n\t\t\n\t\t\n\t\t\tTHwa\n\t\t\n\t\t10.1093/nar/29.2.351\n\t\t11139604\n\t\tPMC29669\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":10},
{"_key":"60c85f4b7723bebd866a6765","_id":"references/60c85f4b7723bebd866a6765","_rev":"_cfFmNOS---","tei":"\n\t\n\t\tMultiple protein sequence alignment from tertiary structure comparison: Assignment of global and residue confidence levels\n\t\t\n\t\t\tRobertBRussell\n\t\t\n\t\t\n\t\t\tGeoffreyJBarton\n\t\t\n\t\t10.1002/prot.340140216\n\t\t1409577\n\t\tark:/67375/WNG-55KHW5BQ-P\n\t\tB001C10115EFE116758F4119B41BF083249CF536\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t14\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":21},
{"_key":"60c85f4b7723bebd866a6766","_id":"references/60c85f4b7723bebd866a6766","_rev":"_cfFmNOe---","tei":"\n\t\n\t\tBiomolecular simulation: the GROMOS96 manual and user guide\n\t\t\n\t\t\tWVan Gunsteren\n\t\t\n\t\t\n\t\t\tSBilleter\n\t\t\n\t\t\n\t\t\tAEising\n\t\t\n\t\t\n\t\t\tPHünenberger\n\t\t\n\t\t\n\t\t\tPFrüger\n\t\t\n\t\t\n\t\t\tAMark\n\t\t\n\t\t\n\t\t\tWScott\n\t\t\n\t\t\n\t\t\tITironi\n\t\t\n\t\t\n\t\t\t\n\t\t\tVerlag der Fachvereine\n\t\t\tZürich\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":19},
{"_key":"60c85f4b7723bebd866a6767","_id":"references/60c85f4b7723bebd866a6767","_rev":"_cfFmNOq---","tei":"\n\t\n\t\tFUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties11Edited by B. Honig\n\t\t\n\t\t\tJiyeShi\n\t\t\n\t\t\n\t\t\tTomLBlundell\n\t\t\n\t\t\n\t\t\tKenjiMizuguchi\n\t\t\n\t\t10.1006/jmbi.2001.4762\n\t\t11419950\n\t\tS0022-2836(01)94762-X\n\t\tark:/67375/6H6-8P356814-H\n\t\tF56625DED4F33A6F114081248CD68318108FB080\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t310\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":16},
{"_key":"60c85f4b7723bebd866a6768","_id":"references/60c85f4b7723bebd866a6768","_rev":"_cfFmNO2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tLiamJMcguffin\n\t\t\n\t\t\n\t\t\tRichardTSmith\n\t\t\n\t\t\n\t\t\tKevinBryson\n\t\t\n\t\t\n\t\t\tSøren-AkselSørensen\n\t\t\n\t\t\n\t\t\tDavidTJones\n\t\t\n\t\t10.1186/1471-2105-7-288\n\t\t16759376\n\t\tPMC1513610\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t288\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c85f4b7723bebd866a675c"},"refKey":29},
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{"_key":"60c85f4d7723bebd866a6795","_id":"references/60c85f4d7723bebd866a6795","_rev":"_cfFmNPW---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c85f4d7723bebd866a6794"},"refKey":21},
{"_key":"60c85f4d7723bebd866a6796","_id":"references/60c85f4d7723bebd866a6796","_rev":"_cfFmNPi---","tei":"\n\t\n\t\tSolving the Problem of Comparing Whole Bacterial Genomes across Different Sequencing Platforms\n\t\t\n\t\t\tRolfSKaas\n\t\t\n\t\t\n\t\t\tPimlapasLeekitcharoenphon\n\t\t\n\t\t\n\t\t\tFrankMAarestrup\n\t\t\n\t\t\n\t\t\tOleLund\n\t\t\n\t\t10.1371/journal.pone.0104984\n\t\t25110940\n\t\tPMC4128722\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\te104984\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c85f4d7723bebd866a6794"},"refKey":22},
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{"_key":"60c85f607723bebd866a67ad","_id":"references/60c85f607723bebd866a67ad","_rev":"_cfFmNP2---","tei":"\n\t\n\t\tBCFtools/csq: haplotype-aware variant consequences\n\t\t\n\t\t\tPetrDanecek\n\t\t\n\t\t\n\t\t\tShaneAMccarthy\n\t\t\n\t\t10.1093/bioinformatics/btx100\n\t\t28205675\n\t\tPMC5870570\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c85f607723bebd866a67ab"},"refKey":27},
{"_key":"60c85f607723bebd866a67ae","_id":"references/60c85f607723bebd866a67ae","_rev":"_cfFmNQC---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAnthonyMBolger\n\t\t\n\t\t\n\t\t\tMarcLohse\n\t\t\n\t\t\n\t\t\tBjoernUsadel\n\t\t\n\t\t10.1093/bioinformatics/btu170\n\t\t24695404\n\t\tPMC4103590\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c85f607723bebd866a67ab"},"refKey":21},
{"_key":"60c85f687723bebd866a67bf","_id":"references/60c85f687723bebd866a67bf","_rev":"_cfFmNQO---","tei":"\n\t\n\t\tUCSF Chimera-A visualization sustem for exploratory research and analysis\n\t\t\n\t\t\tEPettersen\n\t\t\n\t\t\n\t\t\tTGoddard\n\t\t\n\t\t\n\t\t\tCHuang\n\t\t\n\t\t\n\t\t\tGCouch\n\t\t\n\t\t\n\t\t\tDGreenblatt\n\t\t\n\t\t\n\t\t\tEMeng\n\t\t\n\t\t\n\t\t\tRFerrin\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85f687723bebd866a67be"},"refKey":41},
{"_key":"60c85f687723bebd866a67c0","_id":"references/60c85f687723bebd866a67c0","_rev":"_cfFmNQW---","tei":"\n\t\n\t\tUCSF ChimeraX: structure visualization for researchers, educators, and developers\n\t\t\n\t\t\tEPettersen\n\t\t\n\t\t\n\t\t\tTGoddard\n\t\t\n\t\t\n\t\t\tCHuang\n\t\t\n\t\t\n\t\t\tEMeng\n\t\t\n\t\t\n\t\t\tGCouch\n\t\t\n\t\t\n\t\t\tTCroll\n\t\t\n\t\t\n\t\t\tJMorris\n\t\t\n\t\t\n\t\t\tTFerrin\n\t\t\n\t\t10.1002/pro.3943\n\t\n\t\n\t\tProtein Science\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85f687723bebd866a67be"},"refKey":40},
{"_key":"60c85f687723bebd866a67c1","_id":"references/60c85f687723bebd866a67c1","_rev":"_cfFmNQi---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85f687723bebd866a67be"},"refKey":19},
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{"_key":"60c85fb47723bebd866a6816","_id":"references/60c85fb47723bebd866a6816","_rev":"_cfFmNRm---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t2231712\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85fb47723bebd866a6815"},"refKey":10},
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{"_key":"60c85fbb7723bebd866a6823","_id":"references/60c85fbb7723bebd866a6823","_rev":"_cfFmNR6---","tei":"\n\t\n\t\tArlequin: a software for population genetic data analysis\n\t\t\n\t\t\tSSchneider\n\t\t\n\t\t\n\t\t\tDRoessli\n\t\t\n\t\t\n\t\t\tLExcoffier\n\t\t\n\t\t\n\t\t\t\n\t\t\tGeneva (Switzerland\n\t\t\n\t\t\n\t\t\tUniversity of Geneva\n\t\t\n\t\n\n","document":{"$oid":"60c85fbb7723bebd866a6821"},"refKey":52},
{"_key":"60c85fbb7723bebd866a6824","_id":"references/60c85fbb7723bebd866a6824","_rev":"_cfFmNSG---","tei":"\n\t\n\t\tPhylogeny inference package (Phylip) version 3.5c\n\t\t\n\t\t\tJFelsenstein\n\t\t\n\t\t\n\t\t\t\n\t\t\tSeattle (WA\n\t\t\n\t\t\n\t\t\tUniversity of Washington\n\t\t\n\t\n\n","document":{"$oid":"60c85fbb7723bebd866a6821"},"refKey":11},
{"_key":"60c85fbb7723bebd866a6825","_id":"references/60c85fbb7723bebd866a6825","_rev":"_cfFmNSS---","tei":"\n\t\n\t\tEstimation of genetic relatedness using allozyme data\n\t\t\n\t\t\tDCQueller\n\t\t\n\t\t\n\t\t\tKFGoodnight\n\t\t\n\t\n\t\n\t\tEvolution\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85fbb7723bebd866a6821"},"refKey":47},
{"_key":"60c85fbb7723bebd866a6826","_id":"references/60c85fbb7723bebd866a6826","_rev":"_cfFmNSa---","tei":"\n\t\n\t\tTreeview: an application to display phylogenetic trees on personal computers\n\t\t\n\t\t\tRdmPage\n\t\t\n\t\n\t\n\t\tComput Appl Biol Sci\n\t\t\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85fbb7723bebd866a6821"},"refKey":45},
{"_key":"60c85fbb7723bebd866a6827","_id":"references/60c85fbb7723bebd866a6827","_rev":"_cfFmNSm---","tei":"\n\t\n\t\tMicrosat (version 1.5): a computer program for calculating various statistics on microsatellite allele data\n\t\t\n\t\t\tEMinch\n\t\t\n\t\t\n\t\t\tARuiz-Linares\n\t\t\n\t\t\n\t\t\tDBGoldstein\n\t\t\n\t\t\n\t\t\tMWFeldman\n\t\t\n\t\t\n\t\t\tLLCavalli-Sforza\n\t\t\n\t\t\n\t\t\t\n\t\t\tStanford (CA\n\t\t\n\t\t\n\t\t\tStanford University Medical Center\n\t\t\n\t\n\n","document":{"$oid":"60c85fbb7723bebd866a6821"},"refKey":36},
{"_key":"60c85fbb7723bebd866a6828","_id":"references/60c85fbb7723bebd866a6828","_rev":"_cfFmNSy---","tei":"\n\t\n\t\tGenepop (version 1.2) population genetics software for exact tests and ecumenicism\n\t\t\n\t\t\tMRaymond\n\t\t\n\t\t\n\t\t\tFRousset\n\t\t\n\t\n\t\n\t\tJ Hered\n\t\t\n\t\t\t86\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85fbb7723bebd866a6821"},"refKey":48},
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{"_key":"60c85fdd7723bebd866a6847","_id":"references/60c85fdd7723bebd866a6847","_rev":"_cfFmNTG---","tei":"\n\t\n\t\tCloud Data Warehouse\n\t\t\n\t\t\tBigquery\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c85fdd7723bebd866a6846"},"refKey":18},
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{"_key":"60c85fdd7723bebd866a6849","_id":"references/60c85fdd7723bebd866a6849","_rev":"_cfFmNTe---","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c85fdd7723bebd866a6846"},"refKey":22},
{"_key":"60c85ff47723bebd866a6860","_id":"references/60c85ff47723bebd866a6860","_rev":"_cfFmNTq---","tei":"\n\t\n\t\tExtending SAT Solvers to Cryptographic Problems\n\t\t\n\t\t\tMateSoos\n\t\t\n\t\t\n\t\t\tKarstenNohl\n\t\t\n\t\t\n\t\t\tClaudeCastelluccia\n\t\t\n\t\t10.1007/978-3-642-02777-2_24\n\t\tark:/67375/HCB-VQNM32T5-F\n\t\t4A3940AD002371AE6D5C53B1EDF90B0995B1ED5A\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85ff47723bebd866a685f"},"refKey":52},
{"_key":"60c85ff47723bebd866a6861","_id":"references/60c85ff47723bebd866a6861","_rev":"_cfFmNTy---","tei":"\n\t\n\t\tImproved Static Symmetry Breaking for SAT\n\t\t\n\t\t\tJoDevriendt\n\t\t\n\t\t\n\t\t\tBartBogaerts\n\t\t\n\t\t\n\t\t\tMauriceBruynooghe\n\t\t\n\t\t\n\t\t\tMarcDenecker\n\t\t\n\t\t10.1007/978-3-319-40970-2_8\n\t\n\t\n\t\tTheory and Applications of Satisfiability Testing – SAT 2016\n\t\t\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c85ff47723bebd866a685f"},"refKey":22},
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{"_key":"60c8613b7723bebd866a69b9","_id":"references/60c8613b7723bebd866a69b9","_rev":"_cfFmNa----","tei":"\n\t\n\t\tCompositional CompCert\n\t\t\n\t\t\tGordonStewart\n\t\t\n\t\t\n\t\t\tLennartBeringer\n\t\t\n\t\t\n\t\t\tSantiagoCuellar\n\t\t\n\t\t\n\t\t\tAndrewWAppel\n\t\t\n\t\t10.1145/2676726.2676985\n\t\n\t\n\t\tProceedings of the 42nd Annual ACM SIGPLAN-SIGACT Symposium on Principles of Programming Languages - POPL '15\n\t\t\t\tthe 42nd Annual ACM SIGPLAN-SIGACT Symposium on Principles of Programming Languages - POPL '15\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8613b7723bebd866a69ae"},"refKey":56},
{"_key":"60c8613b7723bebd866a69ba","_id":"references/60c8613b7723bebd866a69ba","_rev":"_cfFmNaK---","tei":"\n\t\n\t\tAn abstract stack based approach to verified compositional compilation to machine code\n\t\t\n\t\t\tYutingWang\n\t\t\n\t\t\n\t\t\tPierreWilke\n\t\t\n\t\t\n\t\t\tZhongShao\n\t\t\n\t\t10.1145/3290375\n\t\t\n\t\n\t\n\t\tProceedings of the ACM on Programming Languages\n\t\tProc. ACM Program. Lang.\n\t\t2475-1421\n\t\t\n\t\t\t3\n\t\t\tPOPL\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c8613b7723bebd866a69ae"},"refKey":60},
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{"_key":"60c8613b7723bebd866a69bc","_id":"references/60c8613b7723bebd866a69bc","_rev":"_cfFmNai---","tei":"\n\t\n\t\tFormalizing the LLVM intermediate representation for verified program transformations\n\t\t\n\t\t\tJianzhouZhao\n\t\t\n\t\t\n\t\t\tSantoshNagarakatte\n\t\t\n\t\t\n\t\t\tMiloM KMartin\n\t\t\n\t\t\n\t\t\tSteveZdancewic\n\t\t\n\t\t10.1145/2103656.2103709\n\t\t\n\t\n\t\n\t\tProceedings of the 39th annual ACM SIGPLAN-SIGACT symposium on Principles of programming languages - POPL '12\n\t\t\t\tthe 39th annual ACM SIGPLAN-SIGACT symposium on Principles of programming languages - POPL '12\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8613b7723bebd866a69ae"},"refKey":63},
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{"_key":"60c8614c7723bebd866a69d4","_id":"references/60c8614c7723bebd866a69d4","_rev":"_cfFmNbC---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8614c7723bebd866a69d2"},"refKey":64},
{"_key":"60c8614c7723bebd866a69d5","_id":"references/60c8614c7723bebd866a69d5","_rev":"_cfFmNbO---","tei":"\n\t\n\t\tMAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data\n\t\t\n\t\t\tGregFinak\n\t\t\n\t\t\n\t\t\tAndrewMcdavid\n\t\t\n\t\t\n\t\t\tMasanaoYajima\n\t\t\n\t\t\n\t\t\tJingyuanDeng\n\t\t\n\t\t\n\t\t\tVivianGersuk\n\t\t\n\t\t\n\t\t\tAlexKShalek\n\t\t\n\t\t\n\t\t\tChloeKSlichter\n\t\t\n\t\t\n\t\t\tHannahWMiller\n\t\t\n\t\t\n\t\t\tMJulianaMcelrath\n\t\t\n\t\t\n\t\t\tMartinPrlic\n\t\t\n\t\t\n\t\t\tPeterSLinsley\n\t\t\n\t\t\n\t\t\tRaphaelGottardo\n\t\t\n\t\t10.1186/s13059-015-0844-5\n\t\t26653891\n\t\tPMC4676162\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t278\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8614c7723bebd866a69d2"},"refKey":27},
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{"_key":"60c862087723bebd866a6a82","_id":"references/60c862087723bebd866a6a82","_rev":"_cfFmNcm---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. (R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c862087723bebd866a6a80"},"refKey":79},
{"_key":"60c862087723bebd866a6a83","_id":"references/60c862087723bebd866a6a83","_rev":"_cfFmNcu---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c862087723bebd866a6a80"},"refKey":76},
{"_key":"60c862087723bebd866a6a84","_id":"references/60c862087723bebd866a6a84","_rev":"_cfFmNc6---","tei":"\n\t\n\t\tClustal Omega, accurate alignment of very large numbers of sequences\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tMethods Mol. Biol\n\t\t\n\t\t\t1079\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c862087723bebd866a6a80"},"refKey":82},
{"_key":"60c862187723bebd866a6aa1","_id":"references/60c862187723bebd866a6aa1","_rev":"_cfFmNdG---","tei":"\n\t\n\t\tBeamline Scheduling Software: administration software for automatic operation of the RIKEN structural genomics beamlines at SPring-8\n\t\t\n\t\t\tGoUeno\n\t\t\n\t\t\n\t\t\tHiroyukiKanda\n\t\t\n\t\t\n\t\t\tTakashiKumasaka\n\t\t\n\t\t\n\t\t\tMasakiYamamoto\n\t\t\n\t\t10.1107/s0909049505004735\n\t\t15840925\n\t\tark:/67375/WNG-M3WD4G3W-3\n\t\t7EECB18CFDE44797151226909C6337E2F7EE3817\n\t\t\n\t\n\t\n\t\tJournal of Synchrotron Radiation\n\t\tJ Synchrotron Radiat\n\t\t0909-0495\n\t\t\n\t\t\t12\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\tmethods communications\n\n","document":{"$oid":"60c862187723bebd866a6aa0"},"refKey":22},
{"_key":"60c862187723bebd866a6aa2","_id":"references/60c862187723bebd866a6aa2","_rev":"_cfFmNdS---","tei":"\n\t\n\t\tRemote access and automation of SPring-8 MX beamlines\n\t\t\n\t\t\tGoUeno\n\t\t\n\t\t\n\t\t\tTakaakiHikima\n\t\t\n\t\t\n\t\t\tKeitaroYamashita\n\t\t\n\t\t\n\t\t\tKunioHirata\n\t\t\n\t\t\n\t\t\tKazuyaHasegawa\n\t\t\n\t\t\n\t\t\tHironoriMurakami\n\t\t\n\t\t\n\t\t\tYukitoFurukawa\n\t\t\n\t\t\n\t\t\tNobuhiroMizuno\n\t\t\n\t\t\n\t\t\tTakashiKumasaka\n\t\t\n\t\t\n\t\t\tMasakiYamamoto\n\t\t\n\t\t10.1063/1.4952941\n\t\t\n\t\n\t\n\t\tAIP Conf. Proc. 1741\n\t\t\t\t\n\t\t\tAuthor(s)\n\t\t\t\n\t\t\t50021\n\t\t\n\t\n\n","document":{"$oid":"60c862187723bebd866a6aa0"},"refKey":25},
{"_key":"60c862307723bebd866a6ab4","_id":"references/60c862307723bebd866a6ab4","_rev":"_cfFmNda---","tei":"\n\t\n\t\tAn R Package for a Fast Calculation to Semi-partial Correlation Coefficients. Communications for statistical applications and methods 665-674\n\t\t\n\t\t\tSKim\n\t\t\n\t\t\n\t\t\tPpcor\n\t\t\n\t\t10.5351/CSAM.2015.22.6.665\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c862307723bebd866a6ab3"},"refKey":12},
{"_key":"60c862527723bebd866a6ac4","_id":"references/60c862527723bebd866a6ac4","_rev":"_cfFmNdm---","tei":"\n\t\n\t\tDADA2: High resolution sample inference from amplicon data\n\t\t\n\t\t\tBenjaminJCallahan\n\t\t\n\t\t\n\t\t\tPaulJMcmurdie\n\t\t\n\t\t\n\t\t\tMichaelJRosen\n\t\t\n\t\t\n\t\t\tAndrewWHan\n\t\t\n\t\t\n\t\t\tAmyJJohnson\n\t\t\n\t\t\n\t\t\tSusanPHolmes\n\t\t\n\t\t10.1101/024034\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c862527723bebd866a6ac3"},"refKey":37},
{"_key":"60c862527723bebd866a6ac5","_id":"references/60c862527723bebd866a6ac5","_rev":"_cfFmNdy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tGJHannon\n\t\t\n\t\t\n\t\t\tFastx-Toolkit\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c862527723bebd866a6ac3"},"refKey":35},
{"_key":"60c862527723bebd866a6ac6","_id":"references/60c862527723bebd866a6ac6","_rev":"_cfFmNe----","tei":"\n\t\n\t\tImproving indicator species analysis by combining groups of sites\n\t\t\n\t\t\tMDe Cáceres\n\t\t\n\t\t\n\t\t\tPLegendre\n\t\t\n\t\t\n\t\t\tMMoretti\n\t\t\n\t\n\t\n\t\tOikos\n\t\t\n\t\t\t119\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c862527723bebd866a6ac3"},"refKey":46},
{"_key":"60c862587723bebd866a6ad4","_id":"references/60c862587723bebd866a6ad4","_rev":"_cfFmNeG---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchaffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c862587723bebd866a6ad3"},"refKey":36},
{"_key":"60c862587723bebd866a6ad5","_id":"references/60c862587723bebd866a6ad5","_rev":"_cfFmNeS---","tei":"\n\t\n\t\tRNAsoft: a suite of RNA secondary structure prediction and design software tools\n\t\t\n\t\t\tMAndronescu\n\t\t\n\t\t\n\t\t\tRAguirre-Hernandez\n\t\t\n\t\t\n\t\t\tACondon\n\t\t\n\t\t\n\t\t\tHHHoos\n\t\t\n\t\t10.1093/nar/gkg612\n\t\t12824338\n\t\tPMC169018\n\t\tark:/67375/HXZ-FKVNZ3X9-V\n\t\tCD66641E4E8F500D8AFC079C820465E52F020DF5\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c862587723bebd866a6ad3"},"refKey":26},
{"_key":"60c862677723bebd866a6ae7","_id":"references/60c862677723bebd866a6ae7","_rev":"_cfFmNee---","tei":"\n\t\n\t\tPhylogenetic Clustering by Linear Integer Programming (PhyCLIP)\n\t\t\n\t\t\tAlvinXHan\n\t\t\t0000-0001-6281-8498\n\t\t\n\t\t\n\t\t\tEdythParker\n\t\t\t0000-0001-8312-1446\n\t\t\n\t\t\n\t\t\tFritsScholer\n\t\t\n\t\t\n\t\t\tSebastianMaurer-Stroh\n\t\t\n\t\t\n\t\t\tColinARussell\n\t\t\n\t\t10.1093/molbev/msz053\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t36\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c862677723bebd866a6ae6"},"refKey":1},
{"_key":"60c862677723bebd866a6ae8","_id":"references/60c862677723bebd866a6ae8","_rev":"_cfFmNeq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMCProsperi\n\t\t\n\t\t\n\t\t\tMCiccozzi\n\t\t\n\t\t\n\t\t\tIFanti\n\t\t\n\t\t\n\t\t\tFSaladini\n\t\t\n\t\t\n\t\t\tMPecorari\n\t\t\n\t\t\n\t\t\tVBorghi\n\t\t\n\t\t\n\t\t\tSDiGiambenedetto\n\t\t\n\t\t\n\t\t\tBBruzzone\n\t\t\n\t\t\n\t\t\tACapetti\n\t\t\n\t\t\n\t\t\tAVivarelli\n\t\t\n\t\t\n\t\t\tSRusconi\n\t\t\n\t\t\n\t\t\tMCRe\n\t\t\n\t\t\n\t\t\tMRGismondo\n\t\t\n\t\t\n\t\t\tLSighinolfi\n\t\t\n\t\t\n\t\t\tRRGray\n\t\t\n\t\t\n\t\t\tMSalemi\n\t\t\n\t\t\n\t\t\tMZazzi\n\t\t\n\t\t\n\t\t\tADe Luca\n\t\t\n\t\t\n\t\t\tAGiacometti\n\t\t\n\t\t\n\t\t\tLButini\n\t\t\n\t\t\n\t\t\tSMenzo\n\t\t\n\t\t\n\t\t\tDTacconi\n\t\t\n\t\t\n\t\t\tGCorbelli\n\t\t\n\t\t\n\t\t\tSZanussi\n\t\t\n\t\t\n\t\t\tLMonno\n\t\t\n\t\t\n\t\t\tGPunzi\n\t\t\n\t\t\n\t\t\tFMaggiolo\n\t\t\n\t\t\n\t\t\tACallegaro\n\t\t\n\t\t\n\t\t\tLCalza\n\t\t\n\t\t\n\t\t\tMCRe\n\t\t\n\t\t\n\t\t\tRPrister\n\t\t\n\t\t\n\t\t\t?\n\t\t\n\t\t\n\t\t\tPTurconi\n\t\t\n\t\t\n\t\t\tAMandas\n\t\t\n\t\t\n\t\t\tSTini\n\t\t\n\t\t\n\t\t\tAZoncada\n\t\t\n\t\t\n\t\t\tEPaolini\n\t\t\n\t\t\n\t\t\tGAmadio\n\t\t\n\t\t\n\t\t\tLSighinolfi\n\t\t\n\t\t\n\t\t\tGZuccati\n\t\t\n\t\t\n\t\t\tMMorfini\n\t\t\n\t\t\n\t\t\tRManetti\n\t\t\n\t\t\n\t\t\tPCorsi\n\t\t\n\t\t\n\t\t\tLGalli\n\t\t\n\t\t\n\t\t\tMDiPietro\n\t\t\n\t\t\n\t\t\tFBartalesi\n\t\t\n\t\t\n\t\t\tGColao\n\t\t\n\t\t\n\t\t\tATosti\n\t\t\n\t\t\n\t\t\tADiBiagio\n\t\t\n\t\t\n\t\t\tMSetti\n\t\t\n\t\t\n\t\t\tBBruzzone\n\t\t\n\t\t\n\t\t\tGPenco\n\t\t\n\t\t\n\t\t\tMTrezzi\n\t\t\n\t\t\n\t\t\tAOrani\n\t\t\n\t\t\n\t\t\tRPardelli\n\t\t\n\t\t\n\t\t\tMDe Gennaro\n\t\t\n\t\t\n\t\t\tAChiodera\n\t\t\n\t\t\n\t\t\tAScalzini\n\t\t\n\t\t\n\t\t\tLPalvarini\n\t\t\n\t\t\n\t\t\tPAlmi\n\t\t\n\t\t\n\t\t\tGTodaro\n\t\t\n\t\t\n\t\t\tPCicconi\n\t\t\n\t\t\n\t\t\tSRusconi\n\t\t\n\t\t\n\t\t\tMRGismondo\n\t\t\n\t\t\n\t\t\tMRGismondo\n\t\t\n\t\t\n\t\t\tVMicheli\n\t\t\n\t\t\n\t\t\tMLBiondi\n\t\t\n\t\t\n\t\t\tNGianotti\n\t\t\n\t\t\n\t\t\tACapetti\n\t\t\n\t\t\n\t\t\tPMeraviglia\n\t\t\n\t\t\n\t\t\tEBoeri\n\t\t\n\t\t\n\t\t\tCMussini\n\t\t\n\t\t\n\t\t\tMPecorari\n\t\t\n\t\t\n\t\t\tASoria\n\t\t\n\t\t\n\t\t\tLVecchi\n\t\t\n\t\t\n\t\t\tMSantirocchi\n\t\t\n\t\t\n\t\t\tDBrustia\n\t\t\n\t\t\n\t\t\tPRavanini\n\t\t\n\t\t\n\t\t\tFBello\n\t\t\n\t\t\n\t\t\tNRomano\n\t\t\n\t\t\n\t\t\tSMancuso\n\t\t\n\t\t\n\t\t\tCCalzetti\n\t\t\n\t\t\n\t\t\tRMaserati\n\t\t\n\t\t\n\t\t\tGFilice\n\t\t\n\t\t\n\t\t\tFBaldanti\n\t\t\n\t\t\n\t\t\tDFrancisci\n\t\t\n\t\t\n\t\t\tGParruti\n\t\t\n\t\t\n\t\t\tEPolilli\n\t\t\n\t\t\n\t\t\tDSacchini\n\t\t\n\t\t\n\t\t\tCMartinelli\n\t\t\n\t\t\n\t\t\tRConsolini\n\t\t\n\t\t\n\t\t\tLVatteroni\n\t\t\n\t\t\n\t\t\tAVivarelli\n\t\t\n\t\t\n\t\t\tDDionisio\n\t\t\n\t\t\n\t\t\tANerli\n\t\t\n\t\t\n\t\t\tLLenzi\n\t\t\n\t\t\n\t\t\tGMagnani\n\t\t\n\t\t\n\t\t\tPOrtolani\n\t\t\n\t\t\n\t\t\tMAndreoni\n\t\t\n\t\t\n\t\t\tGPalamara\n\t\t\n\t\t\n\t\t\tCFimiani\n\t\t\n\t\t\n\t\t\tLPalmisano\n\t\t\n\t\t\n\t\t\tADe Luca\n\t\t\n\t\t\n\t\t\tGFadda\n\t\t\n\t\t\n\t\t\tVVullo\n\t\t\n\t\t\n\t\t\tOTurriziani\n\t\t\n\t\t\n\t\t\tMMontano\n\t\t\n\t\t\n\t\t\tGCenderello\n\t\t\n\t\t\n\t\t\tAGonnelli\n\t\t\n\t\t\n\t\t\tMZazzi\n\t\t\n\t\t\n\t\t\tMPalumbo\n\t\t\n\t\t\n\t\t\tVGhisetti\n\t\t\n\t\t\n\t\t\tSBonora\n\t\t\n\t\t\n\t\t\tPDelle Foglie\n\t\t\n\t\t\n\t\t\tCRossi\n\t\t\n\t\t\n\t\t\tPGrossi\n\t\t\n\t\t\n\t\t\tESeminari\n\t\t\n\t\t\n\t\t\tFPoletti\n\t\t\n\t\t\n\t\t\tVMondino\n\t\t\n\t\t\n\t\t\tMMalena\n\t\t\n\t\t\n\t\t\tELattuada\n\t\t\n\t\n\t\n\t\tNat Commun\n\t\t\n\t\t\t2\n\t\t\t321\n\t\t\t\n\t\t\n\t\n\tA novel methodology for large-scale phylogeny partition\n\n","document":{"$oid":"60c862677723bebd866a6ae6"},"refKey":8},
{"_key":"60c8626e7723bebd866a6b07","_id":"references/60c8626e7723bebd866a6b07","_rev":"_cfFmNe2---","tei":"\n\t\n\t\tHexServer: an FFT-based protein docking server powered by graphics processors\n\t\t\n\t\t\tGMacindoe\n\t\t\n\t\t\n\t\t\tLMavridis\n\t\t\n\t\t\n\t\t\tVVenkatraman\n\t\t\n\t\t\n\t\t\tMDDevignes\n\t\t\n\t\t\n\t\t\tDWRitchie\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8626e7723bebd866a6b06"},"refKey":40},
{"_key":"60c8628b7723bebd866a6b17","_id":"references/60c8628b7723bebd866a6b17","_rev":"_cfFmNf----","tei":"\n\t\n\t\tResearch electronic data capture (REDCap) -A metadatadriven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJConde\n\t\t\n\t\n\t\n\t\tJournal of Biomedical Informatics\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8628b7723bebd866a6b16"},"refKey":6},
{"_key":"60c862a17723bebd866a6b25","_id":"references/60c862a17723bebd866a6b25","_rev":"_cfFmNfK---","tei":"\n\t\n\t\tInference of Population Structure using Dense Haplotype Data\n\t\t\n\t\t\tDanielJohnLawson\n\t\t\n\t\t\n\t\t\tGarrettHellenthal\n\t\t\n\t\t\n\t\t\tSimonMyers\n\t\t\n\t\t\n\t\t\tDanielFalush\n\t\t\n\t\t10.1371/journal.pgen.1002453\n\t\t22291602\n\t\tPMC3266881\n\t\t\n\t\t\n\t\n\t\n\t\tPLoS Genetics\n\t\tPLoS Genet\n\t\t1553-7404\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\te1002453\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c862a17723bebd866a6b24"},"refKey":64},
{"_key":"60c862a17723bebd866a6b26","_id":"references/60c862a17723bebd866a6b26","_rev":"_cfFmNfW---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tASivachenko\n\t\t\n\t\t\n\t\t\tKCibulskis\n\t\t\n\t\t\n\t\t\tAKernytsky\n\t\t\n\t\t\n\t\t\tKGarimella\n\t\t\n\t\t\n\t\t\tDAltshuler\n\t\t\n\t\t\n\t\t\tSGabriel\n\t\t\n\t\t\n\t\t\tMDaly\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t10.1101/gr.107524.110\n\t\t20644199\n\t\tPMC2928508\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t20\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c862a17723bebd866a6b24"},"refKey":73},
{"_key":"60c862a17723bebd866a6b27","_id":"references/60c862a17723bebd866a6b27","_rev":"_cfFmNfi---","tei":"\n\t\n\t\tDnaSP 6: DNA Sequence Polymorphism Analysis of Large Data Sets\n\t\t\n\t\t\tJulioRozas\n\t\t\n\t\t\n\t\t\tAlbertFerrer-Mata\n\t\t\n\t\t\n\t\t\tJuanCarlosSánchez-Delbarrio\n\t\t\n\t\t\n\t\t\tSaraGuirao-Rico\n\t\t\n\t\t\n\t\t\tPabloLibrado\n\t\t\n\t\t\n\t\t\tSebastiánERamos-Onsins\n\t\t\n\t\t\n\t\t\tAlejandroSánchez-Gracia\n\t\t\n\t\t10.1093/molbev/msx248\n\t\t29029172\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t34\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c862a17723bebd866a6b24"},"refKey":92},
{"_key":"60c862a17723bebd866a6b28","_id":"references/60c862a17723bebd866a6b28","_rev":"_cfFmNfq---","tei":"\n\t\n\t\tTransDecoder (find coding regions within transcripts)\n\t\t\n\t\t\tBHaas\n\t\t\n\t\t\n\t\t\tAPapanicolaou\n\t\t\n\t\t\n\t\n\t\n\t\tGithub. 3.1\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c862a17723bebd866a6b24"},"refKey":47},
{"_key":"60c862a17723bebd866a6b29","_id":"references/60c862a17723bebd866a6b29","_rev":"_cfFmNf6---","tei":"\n\t\n\t\tPOPSICLE: A Software Suite to Study Population Structure and Ancestral Determinants of Phenotypes using Whole Genome Sequencing Data\n\t\t\n\t\t\tJahangheerSShaik\n\t\t\t0000-0001-5509-6570\n\t\t\n\t\t\n\t\t\tAsisKhan\n\t\t\n\t\t\n\t\t\tMichaelEGrigg\n\t\t\n\t\t10.1101/338210\n\t\t\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c862a17723bebd866a6b24"},"refKey":97},
{"_key":"60c862a17723bebd866a6b2a","_id":"references/60c862a17723bebd866a6b2a","_rev":"_cfFmNgC---","tei":"\n\t\n\t\tToward almost closed genomes with GapFiller\n\t\t\n\t\t\tMartenBoetzer\n\t\t\n\t\t\n\t\t\tWalterPirovano\n\t\t\n\t\t10.1186/gb-2012-13-6-r56\n\t\t22731987\n\t\tPMC3446322\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t13\n\t\t\t6\n\t\t\tR56\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c862a17723bebd866a6b24"},"refKey":14},
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{"_key":"60c862a17723bebd866a6b2c","_id":"references/60c862a17723bebd866a6b2c","_rev":"_cfFmNga---","tei":"\n\t\n\t\tBCFtools/RoH: a hidden Markov model approach for detecting autozygosity from next-generation sequencing data\n\t\t\n\t\t\tVagheeshNarasimhan\n\t\t\n\t\t\n\t\t\tPetrDanecek\n\t\t\n\t\t\n\t\t\tAylwynScally\n\t\t\n\t\t\n\t\t\tYaliXue\n\t\t\n\t\t\n\t\t\tChrisTyler-Smith\n\t\t\n\t\t\n\t\t\tRichardDurbin\n\t\t\n\t\t10.1093/bioinformatics/btw044\n\t\t26826718\n\t\tPMC4892413\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c862a17723bebd866a6b24"},"refKey":78},
{"_key":"60c862a17723bebd866a6b2d","_id":"references/60c862a17723bebd866a6b2d","_rev":"_cfFmNgm---","tei":"\n\t\n\t\tImproved whole-chromosome phasing for disease and population genetic studies\n\t\t\n\t\t\tOlivierDelaneau\n\t\t\n\t\t\n\t\t\tJean-FrancoisZagury\n\t\t\n\t\t\n\t\t\tJonathanMarchini\n\t\t\n\t\t10.1038/nmeth.2307\n\t\t23269371\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c862a17723bebd866a6b24"},"refKey":29},
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{"_key":"60c862a17723bebd866a6b30","_id":"references/60c862a17723bebd866a6b30","_rev":"_cfFmNhG---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c862a17723bebd866a6b24"},"refKey":70},
{"_key":"60c862a17723bebd866a6b31","_id":"references/60c862a17723bebd866a6b31","_rev":"_cfFmNhS---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c862a17723bebd866a6b24"},"refKey":63},
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{"_key":"60c862de7723bebd866a6b6c","_id":"references/60c862de7723bebd866a6b6c","_rev":"_cfFmNhq---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tDNPerkins\n\t\t\n\t\t\n\t\t\tDjcPappin\n\t\t\n\t\t\n\t\t\tDMCreasy\n\t\t\n\t\t\n\t\t\tJSCottrell\n\t\t\n\t\n\t\n\t\tElectrophoresis\n\t\t\n\t\t\t20\n\t\t\t3551\n\t\t\t\n\t\t\n\t\n\tPubMed: 10612281\n\n","document":{"$oid":"60c862de7723bebd866a6b6a"},"refKey":248},
{"_key":"60c862de7723bebd866a6b6d","_id":"references/60c862de7723bebd866a6b6d","_rev":"_cfFmNhy---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tIVShilov\n\t\t\n\t\t\n\t\t\tSLSeymour\n\t\t\n\t\t\n\t\t\tAAPatel\n\t\t\n\t\t\n\t\t\tALoboda\n\t\t\n\t\t\n\t\t\tWHTang\n\t\t\n\t\t\n\t\t\tSPKeating\n\t\t\n\t\t\n\t\t\tCLHunter\n\t\t\n\t\t\n\t\t\tLMNuwaysir\n\t\t\n\t\t\n\t\t\tDASchaeffer\n\t\t\n\t\n\t\n\t\tMol. Cell. Proteomics\n\t\t\n\t\t\t6\n\t\t\t1638\n\t\t\t\n\t\t\n\t\n\tPubMed: 17533153\n\n","document":{"$oid":"60c862de7723bebd866a6b6a"},"refKey":252},
{"_key":"60c862f27723bebd866a6b7a","_id":"references/60c862f27723bebd866a6b7a","_rev":"_cfFmNi----","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c862f27723bebd866a6b79"},"refKey":48},
{"_key":"60c862f27723bebd866a6b7b","_id":"references/60c862f27723bebd866a6b7b","_rev":"_cfFmNiK---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c862f27723bebd866a6b79"},"refKey":49},
{"_key":"60c863087723bebd866a6b94","_id":"references/60c863087723bebd866a6b94","_rev":"_cfFmNiW---","tei":"\n\t\n\t\tGene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\t\n\t\t\tBLEbert\n\t\t\n\t\t\n\t\t\tMAGillette\n\t\t\n\t\t\n\t\t\tAPaulovich\n\t\t\n\t\t\n\t\t\tSLPomeroy\n\t\t\n\t\t\n\t\t\tTRGolub\n\t\t\n\t\t\n\t\t\tESLander\n\t\t\n\t\t\n\t\t\tJPMesirov\n\t\t\n\t\t10.1073/pnas.0506580102\n\t\t16199517\n\t\tPMC1239896\n\t\t\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t102\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c863087723bebd866a6b93"},"refKey":21},
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{"_key":"60c863087723bebd866a6b96","_id":"references/60c863087723bebd866a6b96","_rev":"_cfFmNiq---","tei":"\n\t\n\t\tNear-optimal probabilistic RNA-seq quantification\n\t\t\n\t\t\tNicolasLBray\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tPállMelsted\n\t\t\t0000-0002-8418-6724\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nbt.3519\n\t\t27043002\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t34\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c863087723bebd866a6b93"},"refKey":59},
{"_key":"60c863087723bebd866a6b97","_id":"references/60c863087723bebd866a6b97","_rev":"_cfFmNi2---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinforma Oxf Engl\n\t\t\n\t\t\t30\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c863087723bebd866a6b93"},"refKey":58},
{"_key":"60c863087723bebd866a6b98","_id":"references/60c863087723bebd866a6b98","_rev":"_cfFmNjC---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMichaelILove\n\t\t\n\t\t\n\t\t\tWolfgangHuber\n\t\t\n\t\t\n\t\t\tSimonAnders\n\t\t\n\t\t10.1186/s13059-014-0550-8\n\t\t25516281\n\t\tPMC4302049\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t15\n\t\t\t12\n\t\t\t550\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c863087723bebd866a6b93"},"refKey":60},
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{"_key":"60c863c47723bebd866a6c99","_id":"references/60c863c47723bebd866a6c99","_rev":"_cfFmNnq---","tei":"\n\t\n\t\tA Stochastic Simulator of Birth-Death Master Equations with Application to Phylodynamics\n\t\t\n\t\t\tTGVaughan\n\t\t\n\t\t\n\t\t\tAJDrummond\n\t\t\n\t\t10.1093/molbev/mst057\n\t\t23505043\n\t\tPMC3649681\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c863c47723bebd866a6c98"},"refKey":42},
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{"_key":"60c8648e7723bebd866a6d06","_id":"references/60c8648e7723bebd866a6d06","_rev":"_cfFmNo6---","tei":"\n\t\n\t\tMultiple imputation of discrete and continuous data by fully conditional specification\n\t\t\n\t\t\tSVan Buuren\n\t\t\n\t\n\t\n\t\tStat Methods Med Res\n\t\t\n\t\t\t16\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8648e7723bebd866a6d04"},"refKey":29},
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{"_key":"60c864b37723bebd866a6d21","_id":"references/60c864b37723bebd866a6d21","_rev":"_cfFmNqS---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tSubgroup 1000 Genome Project Data Processing\n\n","document":{"$oid":"60c864b37723bebd866a6d19"},"refKey":48},
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{"_key":"60c8677f7723bebd866a6f71","_id":"references/60c8677f7723bebd866a6f71","_rev":"_cfFmNvu---","tei":"\n\t\n\t\tStructure-based virtual screening, molecular dynamics simulation and MM-PBSA toward identifying the inhibitors for two-component regulatory system protein NarL of Mycobacterium Tuberculosis\n\t\t\n\t\t\tNiranjanKumar\n\t\t\n\t\t\n\t\t\tRakeshSrivastava\n\t\t\n\t\t\n\t\t\tAmreshPrakash\n\t\t\t0000-0002-4821-1654\n\t\t\n\t\t\n\t\t\tAndrew.MLynn\n\t\t\n\t\t10.1080/07391102.2019.1657499\n\t\t\n\t\n\t\n\t\tJournal of Biomolecular Structure and Dynamics\n\t\tJournal of Biomolecular Structure and Dynamics\n\t\t0739-1102\n\t\t1538-0254\n\t\t\n\t\t\t38\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c8677f7723bebd866a6f70"},"refKey":39},
{"_key":"60c8677f7723bebd866a6f72","_id":"references/60c8677f7723bebd866a6f72","_rev":"_cfFmNv2---","tei":"\n\t\n\t\tComparison of molecular mechanics-Poisson-Boltzmann surface area (MM-PBSA) and molecular mechanics-three-dimensional reference interaction site model (MM-3D-RISM) method to calculate the binding free energy of protein-ligand complexes: Effect of metal ion and advance statistical test\n\t\t\n\t\t\tPreetiPandey\n\t\t\n\t\t\n\t\t\tRakeshSrivastava\n\t\t\n\t\t\n\t\t\tPradiptaBandyopadhyay\n\t\t\n\t\t10.1016/j.cplett.2018.01.059\n\t\t\n\t\n\t\n\t\tChemical Physics Letters\n\t\tChemical Physics Letters\n\t\t0009-2614\n\t\t\n\t\t\t695\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8677f7723bebd866a6f70"},"refKey":56},
{"_key":"60c8677f7723bebd866a6f73","_id":"references/60c8677f7723bebd866a6f73","_rev":"_cfFmNwC---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8677f7723bebd866a6f70"},"refKey":68},
{"_key":"60c8677f7723bebd866a6f74","_id":"references/60c8677f7723bebd866a6f74","_rev":"_cfFmNwO---","tei":"\n\t\n\t\tMore bang for your buck: Improved use of GPU nodes for GROMACS 2018\n\t\t\n\t\t\tCarstenKutzner\n\t\t\t0000-0002-8719-0307\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tMartinFechner\n\t\t\n\t\t\n\t\t\tAnsgarEsztermann\n\t\t\n\t\t\n\t\t\tBertLGroot\n\t\t\n\t\t\n\t\t\tHelmutGrubmüller\n\t\t\n\t\t10.1002/jcc.26011\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ Comput Chem\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t40\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8677f7723bebd866a6f70"},"refKey":42},
{"_key":"60c8677f7723bebd866a6f75","_id":"references/60c8677f7723bebd866a6f75","_rev":"_cfFmNwa--_","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8677f7723bebd866a6f70"},"refKey":49},
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{"_key":"60c8677f7723bebd866a6f77","_id":"references/60c8677f7723bebd866a6f77","_rev":"_cfFmNwy---","tei":"\n\t\n\t\tCHARMM36m: an improved force field for folded and intrinsically disordered proteins\n\t\t\n\t\t\tJingHuang\n\t\t\n\t\t\n\t\t\tSarahRauscher\n\t\t\n\t\t\n\t\t\tGrzegorzNawrocki\n\t\t\n\t\t\n\t\t\tTingRan\n\t\t\n\t\t\n\t\t\tMichaelFeig\n\t\t\t0000-0001-9380-6422\n\t\t\n\t\t\n\t\t\tBertLDe Groot\n\t\t\n\t\t\n\t\t\tHelmutGrubmüller\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\t0000-0003-4290-182X\n\t\t\n\t\t10.1038/nmeth.4067\n\t\t27819658\n\t\tPMC5199616\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8677f7723bebd866a6f70"},"refKey":28},
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{"_key":"60c867e57723bebd866a6fdc","_id":"references/60c867e57723bebd866a6fdc","_rev":"_cfFmNyS---","tei":"\n\t\n\t\tDatabase resources of the National Center for Biotechnology\n\t\t\n\t\t\tDLWheeler\n\t\t\n\t\t10.1093/nar/gkg033\n\t\t12519941\n\t\tPMC165480\n\t\tark:/67375/HXZ-L18ZHFW5-0\n\t\t939EE045EC449D98B4CED37FFA6FB623659FC44C\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c867e57723bebd866a6fd9"},"refKey":50},
{"_key":"60c867e57723bebd866a6ff4","_id":"references/60c867e57723bebd866a6ff4","_rev":"_cfFmNye---","tei":"\n\t\n\t\tMicroRNA targeting specificity in mammals: determinants beyond seed pairing\n\t\t\n\t\t\tAGrimson\n\t\t\n\t\n\t\n\t\tMol. Cell\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c867e57723bebd866a6ff3"},"refKey":37},
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{"_key":"60c8682d7723bebd866a7031","_id":"references/60c8682d7723bebd866a7031","_rev":"_cfFmNy2---","tei":"\n\t\n\t\tThe CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tFPlewniak\n\t\t\n\t\t\n\t\t\tFJeanmougin\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8682d7723bebd866a7030"},"refKey":66},
{"_key":"60c8682d7723bebd866a7032","_id":"references/60c8682d7723bebd866a7032","_rev":"_cfFmNz----","tei":"\n\t\n\t\tPhyloDraw: a phylogenetic tree drawing system\n\t\t\n\t\t\tJ-HChoi\n\t\t\n\t\t\n\t\t\tH-YJung\n\t\t\n\t\t\n\t\t\tH-SKim\n\t\t\n\t\t\n\t\t\tH-GCho\n\t\t\n\t\t10.1093/bioinformatics/16.11.1056\n\t\t11159323\n\t\t1460-2059\n\t\tark:/67375/HXZ-3FKMGL1X-Z\n\t\t8BA1D19CE0071326F59A0D93D1DCE5C7E6FA6FD2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t16\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8682d7723bebd866a7030"},"refKey":72},
{"_key":"60c8682d7723bebd866a7033","_id":"references/60c8682d7723bebd866a7033","_rev":"_cfFmNzK---","tei":"\n\t\n\t\tDnaSP version 3: an integrated program for molecular population genetics and molecular evolution analysis\n\t\t\n\t\t\tJRozas\n\t\t\n\t\t\n\t\t\tRRozas\n\t\t\n\t\t10.1093/bioinformatics/15.2.174\n\t\t10089204\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t15\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8682d7723bebd866a7030"},"refKey":69},
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{"_key":"60c86ab67723bebd866a72bb","_id":"references/60c86ab67723bebd866a72bb","_rev":"_cfFmN6K---","tei":"\n\t\n\t\tEADock: Docking of small molecules into protein active sites with a multiobjective evolutionary optimization\n\t\t\n\t\t\tAurélienGrosdidier\n\t\t\n\t\t\n\t\t\tVincentZoete\n\t\t\n\t\t\n\t\t\tOlivierMichielin\n\t\t\n\t\t10.1002/prot.21367\n\t\t17380512\n\t\tark:/67375/WNG-ZVBT9PSN-X\n\t\t1653A347B4181BB54BA85B1138D3B822F8403E96\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t67\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":1},
{"_key":"60c86ab67723bebd866a72bc","_id":"references/60c86ab67723bebd866a72bc","_rev":"_cfFmN6W---","tei":"\n\t\n\t\tFlexE: efficient molecular docking considering protein structure variations1 1Edited by J. Thornton\n\t\t\n\t\t\tHolgerClaußen\n\t\t\n\t\t\n\t\t\tChristianBuning\n\t\t\n\t\t\n\t\t\tMatthiasRarey\n\t\t\n\t\t\n\t\t\tThomasLengauer\n\t\t\n\t\t10.1006/jmbi.2001.4551\n\t\t11327774\n\t\tS0022-2836(01)94551-6\n\t\tark:/67375/6H6-16LS9PH5-D\n\t\tDD01B13F49C0806E453FA14F9AA3428B3BE75B06\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t308\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":13},
{"_key":"60c86ab67723bebd866a72bd","_id":"references/60c86ab67723bebd866a72bd","_rev":"_cfFmN6e---","tei":"\n\t\n\t\tGlide: a new approach for rapid, accurate docking and scoring. 1. Method and assessment of docking accuracy\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tJLBanks\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\t\n\t\t\tJJKlicic\n\t\t\n\t\t\n\t\t\tDTMainz\n\t\t\n\t\t\n\t\t\tMPRepasky\n\t\t\n\t\t\n\t\t\tEHKnoll\n\t\t\n\t\t\n\t\t\tMShelley\n\t\t\n\t\t\n\t\t\tJKPerry\n\t\t\n\t\t\n\t\t\tDEShaw\n\t\t\n\t\t\n\t\t\tPFrancis\n\t\t\n\t\t\n\t\t\tPSShenkin\n\t\t\n\t\n\t\n\t\tJ Med Chem\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":17},
{"_key":"60c86ab67723bebd866a72be","_id":"references/60c86ab67723bebd866a72be","_rev":"_cfFmN6q---","tei":"\n\t\n\t\tGlide: a new approach for rapid, accurate docking and scoring. 2. Enrichment factors in database screening\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tHSBeard\n\t\t\n\t\t\n\t\t\tLLFrye\n\t\t\n\t\t\n\t\t\tWTPollard\n\t\t\n\t\t\n\t\t\tJLBanks\n\t\t\n\t\n\t\n\t\tJ Med Chem\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":20},
{"_key":"60c86ab67723bebd866a72bf","_id":"references/60c86ab67723bebd866a72bf","_rev":"_cfFmN62---","tei":"\n\t\n\t\tExtra precision glide: docking and scoring incorporating a model of hydrophobic enclosure for protein-ligand complexes\n\t\t\n\t\t\tRAFriesner\n\t\t\n\t\t\n\t\t\tRBMurphy\n\t\t\n\t\t\n\t\t\tMPRepasky\n\t\t\n\t\t\n\t\t\tLLFrye\n\t\t\n\t\t\n\t\t\tJRGreenwood\n\t\t\n\t\t\n\t\t\tTAHalgren\n\t\t\n\t\n\t\n\t\tJ Med Chem\n\t\t\n\t\t\t49\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":21},
{"_key":"60c86ab67723bebd866a72c0","_id":"references/60c86ab67723bebd866a72c0","_rev":"_cfFmN7C---","tei":"\n\t\n\t\tAutomated docking using a Lamarckian genetic algorithm and an empirical binding free energy function\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\t\n\t\t\tRSHalliday\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWEHart\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":8},
{"_key":"60c86ab67723bebd866a72c1","_id":"references/60c86ab67723bebd866a72c1","_rev":"_cfFmN7O---","tei":"\n\t\n\t\tA semiempirical free energy force field with charge-based desolvation\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":9},
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{"_key":"60c86ab67723bebd866a72c3","_id":"references/60c86ab67723bebd866a72c3","_rev":"_cfFmN7i---","tei":"\n\t\n\t\tDOCK 4.0: search strategies for automated molecular docking of flexible molecule databases\n\t\t\n\t\t\tTJEwing\n\t\t\n\t\t\n\t\t\tSMakino\n\t\t\n\t\t\n\t\t\tAGSkillman\n\t\t\n\t\t\n\t\t\tIDKuntz\n\t\t\n\t\n\t\n\t\tJ Comput Aided Mol Des\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":14},
{"_key":"60c86ab67723bebd866a72c4","_id":"references/60c86ab67723bebd866a72c4","_rev":"_cfFmN7u---","tei":"\n\t\n\t\tEfficient electrostatic solvation model for protein-fragment docking\n\t\t\n\t\t\tNicolasMajeux\n\t\t\n\t\t\n\t\t\tMarcoScarsi\n\t\t\n\t\t\n\t\t\tAmedeoCaflisch\n\t\t\n\t\t10.1002/1097-0134(20010201)42:2<256::aid-prot130>3.0.co;2-4\n\t\t11119650\n\t\tark:/67375/WNG-2WZ7SLVV-7\n\t\t30A0B889684F69B5A11684672EB14C13C1022D74\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t42\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":81},
{"_key":"60c86ab67723bebd866a72c5","_id":"references/60c86ab67723bebd866a72c5","_rev":"_cfFmN76---","tei":"\n\t\n\t\tMolDock: A New Technique for High-Accuracy Molecular Docking\n\t\t\n\t\t\tRenéThomsen\n\t\t\n\t\t\n\t\t\tMikaelHChristensen\n\t\t\n\t\t10.1021/jm051197e\n\t\t16722650\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t49\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\tJ Chem Phys\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":22},
{"_key":"60c86ab67723bebd866a72c6","_id":"references/60c86ab67723bebd866a72c6","_rev":"_cfFmN8G---","tei":"\n\t\n\t\tLigBuilder: A multipurpose program for structure-based drug design\n\t\t\n\t\t\tRWang\n\t\t\n\t\t\n\t\t\tYGao\n\t\t\n\t\t\n\t\t\tLLai\n\t\t\n\t\n\t\n\t\tJ Mol Model\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":77},
{"_key":"60c86ab67723bebd866a72c7","_id":"references/60c86ab67723bebd866a72c7","_rev":"_cfFmN8O---","tei":"\n\t\n\t\tNovel generalized Born methods\n\t\t\n\t\t\tMSLee\n\t\t\n\t\t\n\t\t\tFRSalsbury\n\t\t\n\t\t\n\t\t\tCLBrooks\n\t\t\n\t\n\t\n\t\tJournal of Chemical Physics\n\t\t\n\t\t\t116\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c86ab67723bebd866a72b9"},"refKey":28},
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{"_key":"60c86ad57723bebd866a730f","_id":"references/60c86ad57723bebd866a730f","_rev":"_cfFmN8y---","tei":"\n\t\n\t\tRestoring Low Resolution Structure of Biological Macromolecules from Solution Scattering Using Simulated Annealing\n\t\t\n\t\t\tDISvergun\n\t\t\n\t\t10.1016/s0006-3495(99)77443-6\n\t\t10354416\n\t\tPMC1300260\n\t\tS0006-3495(99)77443-6\n\t\tark:/67375/6H6-RRXGT91N-N\n\t\t546AB47AC3E005C9E7AE83AB6F1D439C0CD34DFB\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t76\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c86ad57723bebd866a730e"},"refKey":53},
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{"_key":"60c86e597723bebd866a7541","_id":"references/60c86e597723bebd866a7541","_rev":"_cfFmODq---","tei":"\n\t\n\t\tEfficiently controlling for case-control imbalance and sample relatedness in large-scale genetic association studies\n\t\t\n\t\t\tWeiZhou\n\t\t\n\t\t\n\t\t\tJonasBNielsen\n\t\t\t0000-0002-6654-2852\n\t\t\n\t\t\n\t\t\tLarsGFritsche\n\t\t\t0000-0002-2110-1690\n\t\t\n\t\t\n\t\t\tRounakDey\n\t\t\n\t\t\n\t\t\tMaikenEGabrielsen\n\t\t\n\t\t\n\t\t\tBrookeNWolford\n\t\t\t0000-0003-3153-1552\n\t\t\n\t\t\n\t\t\tJonathonLefaive\n\t\t\n\t\t\n\t\t\tPeterVandehaar\n\t\t\n\t\t\n\t\t\tSarahAGagliano\n\t\t\n\t\t\n\t\t\tAliyaGifford\n\t\t\n\t\t\n\t\t\tLisaABastarache\n\t\t\n\t\t\n\t\t\tWei-QiWei\n\t\t\n\t\t\n\t\t\tJoshuaCDenny\n\t\t\n\t\t\n\t\t\tMaoxuanLin\n\t\t\n\t\t\n\t\t\tKristianHveem\n\t\t\n\t\t\n\t\t\tHyunMinKang\n\t\t\n\t\t\n\t\t\tGoncaloRAbecasis\n\t\t\n\t\t\n\t\t\tCristenJWiller\n\t\t\t0000-0001-5645-4966\n\t\t\n\t\t\n\t\t\tSeunggeunLee\n\t\t\t0000-0002-8097-3878\n\t\t\n\t\t10.1038/s41588-018-0184-y\n\t\t30104761\n\t\n\t\n\t\tNature Genetics\n\t\tNat Genet\n\t\t1061-4036\n\t\t1546-1718\n\t\t\n\t\t\t50\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c86e597723bebd866a7540"},"refKey":13},
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{"_key":"60c870b47723bebd866a7719","_id":"references/60c870b47723bebd866a7719","_rev":"_cfFmOLq---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c870b47723bebd866a7716"},"refKey":18},
{"_key":"60c870c77723bebd866a772b","_id":"references/60c870c77723bebd866a772b","_rev":"_cfFmOL2---","tei":"\n\t\n\t\tScheme for ranking potential HLA-A2 binding peptides based on independent binding of individual peptide sidechains\n\t\t\n\t\t\tKCParker\n\t\t\n\t\t\n\t\t\tMABednarek\n\t\t\n\t\t\n\t\t\tJEColigan\n\t\t\n\t\n\t\n\t\tJ. Immunol\n\t\t\n\t\t\t152\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c870c77723bebd866a772a"},"refKey":22},
{"_key":"60c870c77723bebd866a772c","_id":"references/60c870c77723bebd866a772c","_rev":"_cfFmOMC---","tei":"\n\t\n\t\tMHC Ligands and Peptide Motifs\n\t\t\n\t\t\tHans-GeorgRammensee\n\t\t\n\t\t\n\t\t\tJuttaBachmann\n\t\t\n\t\t\n\t\t\tStefanStevanović\n\t\t\n\t\t10.1007/978-3-662-22162-4\n\t\n\t\n\t\tImmunogenetics\n\t\t1431-0414\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\n\t\n\n","document":{"$oid":"60c870c77723bebd866a772a"},"refKey":25},
{"_key":"60c870cd7723bebd866a7733","_id":"references/60c870cd7723bebd866a7733","_rev":"_cfFmOMO---","tei":"\n\t\n\t\t\n\t\tFederal Foreign Office. Außenminister Maas zum Kabinetsbeschluss über die Verlängerung der weltweiten reisewarnung bis zum 31.08. press release\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c870cd7723bebd866a7732"},"refKey":16},
{"_key":"60c870e37723bebd866a7743","_id":"references/60c870e37723bebd866a7743","_rev":"_cfFmOMa---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t21546353\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c870e37723bebd866a7742"},"refKey":20},
{"_key":"60c870f07723bebd866a7752","_id":"references/60c870f07723bebd866a7752","_rev":"_cfFmOMm---","tei":"\n\t\n\t\tHybrid correction of highly noisy long reads using a variable-order de Bruijn graph\n\t\t\n\t\t\tPierreMorisse\n\t\t\n\t\t\n\t\t\tThierryLecroq\n\t\t\n\t\t\n\t\t\tArnaudLefebvre\n\t\t\n\t\t10.1093/bioinformatics/bty521\n\t\t29955770\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c870f07723bebd866a7751"},"refKey":43},
{"_key":"60c870f07723bebd866a7753","_id":"references/60c870f07723bebd866a7753","_rev":"_cfFmOMu---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t10.1016/S0022-2836(05\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c870f07723bebd866a7751"},"refKey":1},
{"_key":"60c870f07723bebd866a7754","_id":"references/60c870f07723bebd866a7754","_rev":"_cfFmOM6---","tei":"\n\t\n\t\tCanu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation\n\t\t\n\t\t\tSKoren\n\t\t\n\t\t\n\t\t\tBPWalenz\n\t\t\n\t\t\n\t\t\tKBerlin\n\t\t\n\t\t\n\t\t\tJRMiller\n\t\t\n\t\t\n\t\t\tNHBergman\n\t\t\n\t\t\n\t\t\tAMPhillippy\n\t\t\n\t\tdoi:10 .1101/gr.215087.116\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c870f07723bebd866a7751"},"refKey":26},
{"_key":"60c870f07723bebd866a7755","_id":"references/60c870f07723bebd866a7755","_rev":"_cfFmONG---","tei":"\n\t\n\t\tOcoco: an online consensus caller\n\t\t\n\t\t\tKBrǐnda\n\t\t\n\t\t\n\t\t\tVBoeva\n\t\t\n\t\t\n\t\t\tGKucherov\n\t\t\n\t\tarXiv:1712.01146\n\t\t\n\t\t\t\n\t\t\n\t\n\tq-bio.GN\n\n","document":{"$oid":"60c870f07723bebd866a7751"},"refKey":5},
{"_key":"60c871387723bebd866a779f","_id":"references/60c871387723bebd866a779f","_rev":"_cfFmONS---","tei":"\n\t\n\t\tScalable machine learning-assisted model exploration and inference using Sciope\n\t\t\n\t\t\tPSingh\n\t\t\n\t\t\n\t\t\tFWrede\n\t\t\n\t\t\n\t\t\tAHellander\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c871387723bebd866a779e"},"refKey":5},
{"_key":"60c871387723bebd866a77a0","_id":"references/60c871387723bebd866a77a0","_rev":"_cfFmONe---","tei":"\n\t\n\t\tEstimation of Parameters for Macroparasite Population Evolution Using Approximate Bayesian Computation\n\t\t\n\t\t\tCCDrovandi\n\t\t\n\t\t\n\t\t\tANPettitt\n\t\t\n\t\t10.1111/j.1541-0420.2010.01410.x\n\t\t20345496\n\t\tark:/67375/WNG-91KN5JMZ-D\n\t\tCE462969285FA44CDE9F5912304FF92EF486C925\n\t\t\n\t\n\t\n\t\tBiometrics\n\t\t0006-341X\n\t\t\n\t\t\t67\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c871387723bebd866a779e"},"refKey":3},
{"_key":"60c8713d7723bebd866a77b0","_id":"references/60c8713d7723bebd866a77b0","_rev":"_cfFmONm---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\t: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c8713d7723bebd866a77af"},"refKey":23},
{"_key":"60c871447723bebd866a77b7","_id":"references/60c871447723bebd866a77b7","_rev":"_cfFmONy---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. Vienna, Austria: R Foundation for Statistical Computing\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c871447723bebd866a77b6"},"refKey":28},
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{"_key":"60c8717e7723bebd866a77db","_id":"references/60c8717e7723bebd866a77db","_rev":"_cfFmOOK---","tei":"\n\t\n\t\tProDy: Protein Dynamics Inferred from Theory and Experiments\n\t\t\n\t\t\tABakan\n\t\t\n\t\t\n\t\t\tLMMeireles\n\t\t\n\t\t\n\t\t\tIBahar\n\t\t\n\t\t10.1093/bioinformatics/btr168\n\t\t21471012\n\t\tPMC3102222\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8717e7723bebd866a77d9"},"refKey":23},
{"_key":"60c8717e7723bebd866a77dc","_id":"references/60c8717e7723bebd866a77dc","_rev":"_cfFmOOW---","tei":"\n\t\n\t\tProtein Structure Modeling with MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1007/978-1-4939-0366-5_1\n\t\t24573470\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1137\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8717e7723bebd866a77d9"},"refKey":22},
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{"_key":"60c8718b7723bebd866a77f7","_id":"references/60c8718b7723bebd866a77f7","_rev":"_cfFmOOq---","tei":"\n\t\n\t\tNIH Image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCarolineASchneider\n\t\t\n\t\t\n\t\t\tWayneSRasband\n\t\t\n\t\t\n\t\t\tKevinWEliceiri\n\t\t\n\t\t10.1038/nmeth.2089\n\t\t22930834\n\t\tPMC5554542\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8718b7723bebd866a77f6"},"refKey":38},
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{"_key":"60c871e17723bebd866a782c","_id":"references/60c871e17723bebd866a782c","_rev":"_cfFmOPC---","tei":"\n\t\n\t\tPredictive functional profiling of microbial communities using 16S rRNA marker gene sequences\n\t\t\n\t\t\tMgiLangille\n\t\t\n\t\t\n\t\t\tJZaneveld\n\t\t\n\t\t\n\t\t\tJGCaporaso\n\t\t\n\t\t\n\t\t\tDMcdonald\n\t\t\n\t\t\n\t\t\tDanKReyes\n\t\t\n\t\t\n\t\t\tJAClemente\n\t\t\n\t\t\n\t\t\tJCBurkepile\n\t\t\n\t\t\n\t\t\tDEThurber\n\t\t\n\t\t\n\t\t\tRlvKnight\n\t\t\n\t\t\n\t\t\tR\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c871e17723bebd866a782b"},"refKey":25},
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{"_key":"60c874c17723bebd866a7a89","_id":"references/60c874c17723bebd866a7a89","_rev":"_cfFmOYO---","tei":"\n\t\n\t\tANNOVAR: functional annotation of genetic variants from high-throughput sequencing data\n\t\t\n\t\t\tKWang\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tHHakonarson\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t38\n\t\t\te164\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c874c17723bebd866a7a88"},"refKey":70},
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{"_key":"60c874c17723bebd866a7a8b","_id":"references/60c874c17723bebd866a7a8b","_rev":"_cfFmOYm---","tei":"\n\t\n\t\tPatchwork: allele-specific copy number analysis of whole-genome sequenced tumor tissue\n\t\t\n\t\t\tMarkusMayrhofer\n\t\t\n\t\t\n\t\t\tSebastianDilorenzo\n\t\t\n\t\t\n\t\t\tAndersIsaksson\n\t\t\n\t\t10.1186/gb-2013-14-3-r24\n\t\t23531354\n\t\tPMC4053982\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t14\n\t\t\t3\n\t\t\tR24\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c874c17723bebd866a7a88"},"refKey":42},
{"_key":"60c874c17723bebd866a7a8c","_id":"references/60c874c17723bebd866a7a8c","_rev":"_cfFmOYy---","tei":"\n\t\n\t\tSomaticSniper: identification of somatic point mutations in whole genome sequencing data\n\t\t\n\t\t\tDELarson\n\t\t\n\t\t\n\t\t\tCCHarris\n\t\t\n\t\t\n\t\t\tKChen\n\t\t\n\t\t\n\t\t\tDCKoboldt\n\t\t\n\t\t\n\t\t\tTEAbbott\n\t\t\n\t\t\n\t\t\tDJDooling\n\t\t\n\t\t\n\t\t\tTJLey\n\t\t\n\t\t\n\t\t\tERMardis\n\t\t\n\t\t\n\t\t\tRKWilson\n\t\t\n\t\t\n\t\t\tLDing\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c874c17723bebd866a7a88"},"refKey":36},
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{"_key":"60c874c17723bebd866a7aa1","_id":"references/60c874c17723bebd866a7aa1","_rev":"_cfFmOZS---","tei":"\n\t\n\t\tThe VSGB 2.0 model: A next generation energy model for high resolution protein structure modeling\n\t\t\n\t\t\tJianingLi\n\t\t\n\t\t\n\t\t\tRobertAbel\n\t\t\n\t\t\n\t\t\tKaiZhu\n\t\t\n\t\t\n\t\t\tYixiangCao\n\t\t\n\t\t\n\t\t\tSuwenZhao\n\t\t\n\t\t\n\t\t\tRichardAFriesner\n\t\t\n\t\t10.1002/prot.23106\n\t\t21905107\n\t\tPMC3206729\n\t\tark:/67375/WNG-Z1Z7KH0T-P\n\t\t932DE26ACB0DED493B70D38AFC7959E5E0768837\n\t\t\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t79\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c874c17723bebd866a7aa0"},"refKey":26},
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{"_key":"60c875557723bebd866a7b10","_id":"references/60c875557723bebd866a7b10","_rev":"_cfFmObe---","tei":"\n\t\n\t\tComparison of Ligand Affinity Ranking Using AutoDock-GPU and MM-GBSA Scores in the D3R Grand Challenge 4\n\t\t\n\t\t\tLéaEl Khoury\n\t\t\n\t\t\n\t\t\tDiogoSantos-Martins\n\t\t\t0000-0003-4622-3747\n\t\t\n\t\t\n\t\t\tSukanyaSasmal\n\t\t\n\t\t\n\t\t\tJéromeEberhardt\n\t\t\n\t\t\n\t\t\tGiuliaBianco\n\t\t\n\t\t\n\t\t\tFrancescaAlessandraAmbrosio\n\t\t\n\t\t\n\t\t\tLeonardoSolis-Vasquez\n\t\t\n\t\t\n\t\t\tAndreasKoch\n\t\t\n\t\t\n\t\t\tStefanoForli\n\t\t\n\t\t\n\t\t\tDavidMobley\n\t\t\n\t\t10.26434/chemrxiv.8309690.v1\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\t\n\t\t\t33\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c875557723bebd866a7b0d"},"refKey":35},
{"_key":"60c875557723bebd866a7b11","_id":"references/60c875557723bebd866a7b11","_rev":"_cfFmOby---","tei":"\n\t\n\t\tA Performance and Energy Evaluation of OpenCL-accelerated Molecular Docking\n\t\t\n\t\t\tLeonardoSolis-Vasquez\n\t\t\n\t\t\n\t\t\tAndreasKoch\n\t\t\n\t\t10.1145/3078155.3078167\n\t\tIEEE: 2020\n\t\n\t\n\t\tProceedings of the 5th International Workshop on OpenCL - IWOCL 2017\n\t\t\t\tthe 5th International Workshop on OpenCL - IWOCL 2017\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c875557723bebd866a7b0d"},"refKey":36},
{"_key":"60c875557723bebd866a7b12","_id":"references/60c875557723bebd866a7b12","_rev":"_cfFmOc----","tei":"\n\t\n\t\tAccelerating AutoDock4 with GPUs and Gradient-Based Local Search\n\t\t\n\t\t\tDiogoSantos-Martins\n\t\t\t0000-0003-4622-3747\n\t\t\n\t\t\n\t\t\tLeonardoSolis-Vasquez\n\t\t\n\t\t\n\t\t\tAndreasKoch\n\t\t\n\t\t\n\t\t\tStefanoForli\n\t\t\t0000-0002-5964-7111\n\t\t\n\t\t10.26434/chemrxiv.9702389\n\t\t\n\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c875557723bebd866a7b0d"},"refKey":37},
{"_key":"60c875557723bebd866a7b13","_id":"references/60c875557723bebd866a7b13","_rev":"_cfFmOcK---","tei":"\n\t\n\t\tUsing AutoDock for Ligand-Receptor Docking\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/0471250953.bi0814s24\n\t\t19085980\n\t\t8.14. 1-8.14. 40\n\t\n\t\n\t\tCurrent protocols in bioinformatics\n\t\t\n\t\t\t24\n\t\t\t1\n\t\t\t\n\t\t\tJohn Wiley & Sons, Inc.\n\t\t\n\t\n\n","document":{"$oid":"60c875557723bebd866a7b0d"},"refKey":135},
{"_key":"60c875557723bebd866a7b14","_id":"references/60c875557723bebd866a7b14","_rev":"_cfFmOca---","tei":"\n\t\n\t\tAutoDock Version 4.2\n\t\t\n\t\t\tWForli\n\t\t\n\t\t\n\t\t\tSHalliday\n\t\t\n\t\t\n\t\t\tRBelew\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t\n\t\t\t2012\n\t\t\n\t\n\n","document":{"$oid":"60c875557723bebd866a7b0d"},"refKey":141},
{"_key":"60c875557723bebd866a7b15","_id":"references/60c875557723bebd866a7b15","_rev":"_cfFmOcm---","tei":"\n\t\n\t\tVinaMPI: Facilitating multiple receptor high-throughput virtual docking on high-performance computers\n\t\t\n\t\t\tSallyREllingson\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tJeromeBaudry\n\t\t\n\t\t10.1002/jcc.23367\n\t\t23813626\n\t\tark:/67375/WNG-Q7X4W1XJ-1\n\t\t17F04335D831FEF10DCC77A9AD214FFBDCD56246\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t34\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c875557723bebd866a7b0d"},"refKey":133},
{"_key":"60c875557723bebd866a7b16","_id":"references/60c875557723bebd866a7b16","_rev":"_cfFmOcy---","tei":"\n\t\n\t\tA semiempirical free energy force field with charge-based desolvation\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t28\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c875557723bebd866a7b0d"},"refKey":33},
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{"_key":"60c875557723bebd866a7b18","_id":"references/60c875557723bebd866a7b18","_rev":"_cfFmOdO---","tei":"\n\t\n\t\tAutoDock and AutoDockTools for Protein-Ligand Docking: Beta-Site Amyloid Precursor Protein Cleaving Enzyme 1(BACE1) as a Case Study\n\t\t\n\t\t\tNehmeEl-Hachem\n\t\t\n\t\t\n\t\t\tBenjaminHaibe-Kains\n\t\t\n\t\t\n\t\t\tAtharKhalil\n\t\t\n\t\t\n\t\t\tFirasHKobeissy\n\t\t\n\t\t\n\t\t\tGeorgesNemer\n\t\t\n\t\t10.1007/978-1-4939-6952-4_20\n\t\t28508374\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c875557723bebd866a7b0d"},"refKey":134},
{"_key":"60c875557723bebd866a7b19","_id":"references/60c875557723bebd866a7b19","_rev":"_cfFmOde---","tei":"\n\t\n\t\tSciPy and NumPy: an overview for developers\n\t\t\n\t\t\tEBressert\n\t\t\n\t\t\n\t\t\tReilly Media, Inc\n\t\t\t2012\n\t\t\n\t\n\n","document":{"$oid":"60c875557723bebd866a7b0d"},"refKey":126},
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{"_key":"60c8765d7723bebd866a7b81","_id":"references/60c8765d7723bebd866a7b81","_rev":"_cfFmOgS---","tei":"\n\t\n\t\tGlyTouCan 1.0 – The international glycan structure repository\n\t\t\n\t\t\tKiyokoAoki-Kinoshita\n\t\t\n\t\t\n\t\t\tSanjayAgravat\n\t\t\n\t\t\n\t\t\tNobuyukiPAoki\n\t\t\t0000-0002-5928-5931\n\t\t\n\t\t\n\t\t\tSenaArpinar\n\t\t\n\t\t\n\t\t\tRichardDCummings\n\t\t\n\t\t\n\t\t\tAkihiroFujita\n\t\t\n\t\t\n\t\t\tNoriakiFujita\n\t\t\n\t\t\n\t\t\tGeraldMHart\n\t\t\n\t\t\n\t\t\tStuartMHaslam\n\t\t\n\t\t\n\t\t\tToshisukeKawasaki\n\t\t\n\t\t\n\t\t\tMasaakiMatsubara\n\t\t\n\t\t\n\t\t\tKelleyWMoreman\n\t\t\n\t\t\n\t\t\tShujiroOkuda\n\t\t\n\t\t\n\t\t\tMichaelPierce\n\t\t\n\t\t\n\t\t\tRenéRanzinger\n\t\t\n\t\t\n\t\t\tToshihideShikanai\n\t\t\n\t\t\n\t\t\tDaisukeShinmachi\n\t\t\n\t\t\n\t\t\tElenaSolovieva\n\t\t\n\t\t\n\t\t\tYoshinoriSuzuki\n\t\t\n\t\t\n\t\t\tShinichiroTsuchiya\n\t\t\n\t\t\n\t\t\tIssakuYamada\n\t\t\n\t\t\n\t\t\tWilliamSYork\n\t\t\n\t\t\n\t\t\tJosephZaia\n\t\t\n\t\t\n\t\t\tHisashiNarimatsu\n\t\t\n\t\t10.1093/nar/gkv1041\n\t\t26476458\n\t\tPMC4702779\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8765d7723bebd866a7b7b"},"refKey":0},
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{"_key":"60c8769a7723bebd866a7bb0","_id":"references/60c8769a7723bebd866a7bb0","_rev":"_cfFmOgq---","tei":"\n\t\n\t\tVienna: R Foundation for Statistical Computing\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\t\n\t\t\tJWing\n\t\t\n\t\t\n\t\t\tAWilliams\n\t\t\n\t\t\n\t\t\tCKeefer\n\t\t\n\t\t\n\t\t\tAEngelhardt\n\t\t\n\t\t\n\t\n\t\n\t\tAvailable at\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tCaret: classification and regression training. R Package\n\n","document":{"$oid":"60c8769a7723bebd866a7baf"},"refKey":10},
{"_key":"60c8769f7723bebd866a7bb3","_id":"references/60c8769f7723bebd866a7bb3","_rev":"_cfFmOg2---","tei":"\n\t\n\t\tDOCK 6: combining techniques to model RNA-small molecule complexes\n\t\t\n\t\t\tPTLang\n\t\t\n\t\t\n\t\t\tSRBrozell\n\t\t\n\t\t\n\t\t\tSMukherjee\n\t\t\n\t\n\t\n\t\tRNA\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8769f7723bebd866a7bb2"},"refKey":28},
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{"_key":"60c8769f7723bebd866a7bb5","_id":"references/60c8769f7723bebd866a7bb5","_rev":"_cfFmOhO---","tei":"\n\t\n\t\tBcl::Cluster: A method for clustering biological molecules coupled with visualization in the Pymol Molecular Graphics System\n\t\t\n\t\t\tNathanAlexander\n\t\t\n\t\t\n\t\t\tNilsWoetzel\n\t\t\n\t\t\n\t\t\tJensMeiler\n\t\t\n\t\t10.1109/iccabs.2011.5729867\n\t\t27818847\n\t\tPMC5091839\n\t\t\n\t\n\t\n\t\t2011 IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences (ICCABS)\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t2011\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8769f7723bebd866a7bb2"},"refKey":31},
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{"_key":"60c876b47723bebd866a7bc7","_id":"references/60c876b47723bebd866a7bc7","_rev":"_cfFmOhm---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c876b47723bebd866a7bc6"},"refKey":72},
{"_key":"60c876b47723bebd866a7bc8","_id":"references/60c876b47723bebd866a7bc8","_rev":"_cfFmOhy---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c876b47723bebd866a7bc6"},"refKey":22},
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{"_key":"60c876e77723bebd866a7c02","_id":"references/60c876e77723bebd866a7c02","_rev":"_cfFmOii---","tei":"\n\t\n\t\tMfold web server for nucleic acid folding and hybridization prediction\n\t\t\n\t\t\tMZuker\n\t\t\n\t\t10.1093/nar/gkg595\n\t\t12824337\n\t\tPMC169194\n\t\tark:/67375/HXZ-CTS3N10R-1\n\t\tF1A174A592D046D94F933F3C8A3EC56E88054798\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c876e77723bebd866a7c00"},"refKey":58},
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{"_key":"60c877637723bebd866a7c9a","_id":"references/60c877637723bebd866a7c9a","_rev":"_cfFmOja---","tei":"\n\t\n\t\tbrms: An R package for Bayesian multilevel models using Stan\n\t\t\n\t\t\tP-CBürkner\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t80\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c877637723bebd866a7c99"},"refKey":11},
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{"_key":"60c878147723bebd866a7cf1","_id":"references/60c878147723bebd866a7cf1","_rev":"_cfFmOmO---","tei":"\n\t\n\t\tGROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit\n\t\t\n\t\t\tSanderPronk\n\t\t\n\t\t\n\t\t\tSzilárdPáll\n\t\t\n\t\t\n\t\t\tRolandSchulz\n\t\t\n\t\t\n\t\t\tPerLarsson\n\t\t\n\t\t\n\t\t\tPärBjelkmar\n\t\t\n\t\t\n\t\t\tRossenApostolov\n\t\t\n\t\t\n\t\t\tMichaelRShirts\n\t\t\n\t\t\n\t\t\tJeremyCSmith\n\t\t\n\t\t\n\t\t\tPeterMKasson\n\t\t\n\t\t\n\t\t\tDavidVan Der Spoel\n\t\t\n\t\t\n\t\t\tBerkHess\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\n\t\t10.1093/bioinformatics/btt055\n\t\t23407358\n\t\tPMC3605599\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tet al. GROMACS 4.\n\n","document":{"$oid":"60c878147723bebd866a7cf0"},"refKey":45},
{"_key":"60c878147723bebd866a7cf2","_id":"references/60c878147723bebd866a7cf2","_rev":"_cfFmOma---","tei":"\n\t\n\t\tGROMACS: A message-passing parallel molecular dynamics implementation\n\t\t\n\t\t\tHJ CBerendsen\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tRVan Drunen\n\t\t\n\t\t10.1016/0010-4655(95)00042-e\n\t\t0010-4655(95)00042-E\n\t\tark:/67375/6H6-HJ5LH537-Z\n\t\tED4C449E2ADF3B54767FC22AD61D87D47A633990\n\t\n\t\n\t\tComputer Physics Communications\n\t\tComputer Physics Communications\n\t\t0010-4655\n\t\t\n\t\t\t91\n\t\t\t1-3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c878147723bebd866a7cf0"},"refKey":46},
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{"_key":"60c878457723bebd866a7d23","_id":"references/60c878457723bebd866a7d23","_rev":"_cfFmOnS---","tei":"\n\t\n\t\tBepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes\n\t\t\n\t\t\tMartinClosterJespersen\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t10.1093/nar/gkx346\n\t\t28472356\n\t\tPMC5570230\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t45\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c878457723bebd866a7d21"},"refKey":14},
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{"_key":"60c8796e7723bebd866a7e41","_id":"references/60c8796e7723bebd866a7e41","_rev":"_cfFmOqy---","tei":"\n\t\n\t\tViennaRNA Package 2.0\n\t\t\n\t\t\tRonnyLorenz\n\t\t\n\t\t\n\t\t\tStephanHBernhart\n\t\t\n\t\t\n\t\t\tChristianHöner Zu Siederdissen\n\t\t\n\t\t\n\t\t\tHakimTafer\n\t\t\n\t\t\n\t\t\tChristophFlamm\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t10.1186/1748-7188-6-26\n\t\t22115189\n\t\tPMC3319429\n\t\t\n\t\t\n\t\n\t\n\t\tAlgorithms for Molecular Biology\n\t\tAlgorithms Mol Biol\n\t\t1748-7188\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t26\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8796e7723bebd866a7e40"},"refKey":33},
{"_key":"60c8796e7723bebd866a7e42","_id":"references/60c8796e7723bebd866a7e42","_rev":"_cfFmOr----","tei":"\n\t\n\t\tANNOVAR: functional annotation of genetic variants from high-throughput sequencing data\n\t\t\n\t\t\tKWang\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tHHakonarson\n\t\t\n\t\t10.1093/nar/gkq603\n\t\t20601685\n\t\tPMC2938201\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8796e7723bebd866a7e40"},"refKey":29},
{"_key":"60c8796e7723bebd866a7e43","_id":"references/60c8796e7723bebd866a7e43","_rev":"_cfFmOrK---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1093/bioinformatics/bty407\n\t\t29790939\n\t\tPMC6247931\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8796e7723bebd866a7e40"},"refKey":35},
{"_key":"60c879707723bebd866a7e55","_id":"references/60c879707723bebd866a7e55","_rev":"_cfFmOrS---","tei":"\n\t\n\t\tIterative methods for the three-dimensional reconstruction of an object from projections\n\t\t\n\t\t\tPeterGilbert\n\t\t\n\t\t10.1016/0022-5193(72)90180-4\n\t\t5070894\n\t\t0022-5193(72)90180-4\n\t\tark:/67375/6H6-DB99QPDM-B\n\t\t0E9051853FBA782B7468020B006E1C3C7854A517\n\t\n\t\n\t\tJournal of Theoretical Biology\n\t\tJournal of Theoretical Biology\n\t\t0022-5193\n\t\t\n\t\t\t36\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c879707723bebd866a7e54"},"refKey":17},
{"_key":"60c879917723bebd866a7e62","_id":"references/60c879917723bebd866a7e62","_rev":"_cfFmOre---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMediapipe\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\t10\n\t\t\n\t\n\n","document":{"$oid":"60c879917723bebd866a7e61"},"refKey":7},
{"_key":"60c879957723bebd866a7e6c","_id":"references/60c879957723bebd866a7e6c","_rev":"_cfFmOrq---","tei":"\n\t\n\t\tDroplet barcoding for single-cell transcriptomics applied to embryonic stem cells\n\t\t\n\t\t\tAMKlein\n\t\t\n\t\t\n\t\t\tLMazutis\n\t\t\n\t\t\n\t\t\tIAkartuna\n\t\t\n\t\t\n\t\t\tNTallapragada\n\t\t\n\t\t\n\t\t\tAVeres\n\t\t\n\t\t\n\t\t\tVLi\n\t\t\n\t\t\n\t\t\tLPeshkin\n\t\t\n\t\t\n\t\t\tDAWeitz\n\t\t\n\t\t\n\t\t\tMWKirschner\n\t\t\n\t\n\t\n\t\tCell\n\t\t\n\t\t\t161\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c879957723bebd866a7e6b"},"refKey":77},
{"_key":"60c87a227723bebd866a7eb0","_id":"references/60c87a227723bebd866a7eb0","_rev":"_cfFmOr2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tEf;Pettersen\n\t\t\n\t\t\n\t\t\tTd;Goddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c87a227723bebd866a7eaf"},"refKey":35},
{"_key":"60c87a227723bebd866a7eb1","_id":"references/60c87a227723bebd866a7eb1","_rev":"_cfFmOsC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMd;Hanwell\n\t\t\n\t\t\n\t\t\tDECurtis\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c87a227723bebd866a7eaf"},"refKey":37},
{"_key":"60c87a227723bebd866a7eb2","_id":"references/60c87a227723bebd866a7eb2","_rev":"_cfFmOsK---","tei":"\n\t\n\t\tBlundell TL Comparative Protein Modelling by Satisfaction of Spatial Restraints\n\t\t\n\t\t\tAAndrejšali\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t234\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 8254673\n\n","document":{"$oid":"60c87a227723bebd866a7eaf"},"refKey":45},
{"_key":"60c87a677723bebd866a7ed9","_id":"references/60c87a677723bebd866a7ed9","_rev":"_cfFmOsW---","tei":"\n\t\n\t\tIntegrative analysis of environmental sequences using MEGAN4\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tSMitra\n\t\t\n\t\t\n\t\t\tH-JRuscheweyh\n\t\t\n\t\t\n\t\t\tNWeber\n\t\t\n\t\t\n\t\t\tSCSchuster\n\t\t\n\t\t10.1101/gr.120618.111\n\t\t21690186\n\t\tPMC3166839\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t21\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c87a677723bebd866a7ed8"},"refKey":30},
{"_key":"60c87a677723bebd866a7eda","_id":"references/60c87a677723bebd866a7eda","_rev":"_cfFmOsi---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp. Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c87a677723bebd866a7ed8"},"refKey":26},
{"_key":"60c87a677723bebd866a7edb","_id":"references/60c87a677723bebd866a7edb","_rev":"_cfFmOsu---","tei":"\n\t\n\t\tMEGA6: Molecular Evolutionary Genetics Analysis Version 6.0\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tDanielPeterson\n\t\t\n\t\t\n\t\t\tAlanFilipski\n\t\t\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t10.1093/molbev/mst197\n\t\t24132122\n\t\tPMC3840312\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c87a677723bebd866a7ed8"},"refKey":74},
{"_key":"60c87a677723bebd866a7edc","_id":"references/60c87a677723bebd866a7edc","_rev":"_cfFmOs6---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t10.1093/bioinformatics/btm404\n\t\t17846036\n\t\tark:/67375/HXZ-H5KP9B27-3\n\t\t2F26411B6DB5E84BFCF2EE763736DB55C19A69B8\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c87a677723bebd866a7ed8"},"refKey":40},
{"_key":"60c87a677723bebd866a7edd","_id":"references/60c87a677723bebd866a7edd","_rev":"_cfFmOtC---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\t10.1016/S0022-2836(05\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c87a677723bebd866a7ed8"},"refKey":0},
{"_key":"60c87ad97723bebd866a7f21","_id":"references/60c87ad97723bebd866a7f21","_rev":"_cfFmOtO---","tei":"\n\t\n\t\t[20] Processing of X-ray diffraction data collected in oscillation mode\n\t\t\n\t\t\tZbyszekOtwinowski\n\t\t\n\t\t\n\t\t\tWladekMinor\n\t\t\n\t\t10.1016/s0076-6879(97)76066-x\n\t\t27799103\n\t\t\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t276\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c87ad97723bebd866a7f20"},"refKey":23},
{"_key":"60c87afe7723bebd866a7f3d","_id":"references/60c87afe7723bebd866a7f3d","_rev":"_cfFmOta---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 60\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t30\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c87afe7723bebd866a7f3c"},"refKey":24},
{"_key":"60c87b027723bebd866a7f44","_id":"references/60c87b027723bebd866a7f44","_rev":"_cfFmOtm---","tei":"\n\t\n\t\tComplex Stability Is Encoded in Binding Patch Softness: A Monomer-Based Approach to Predict Inter-Subunit Affinity of Protein Dimers\n\t\t\n\t\t\tHHadi-Alijanvand\n\t\t\n\t\t10.1021/acs.jproteome.9b00594\n\t\n\t\n\t\tJ. Proteome Res\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c87b027723bebd866a7f43"},"refKey":34},
{"_key":"60c87b027723bebd866a7f45","_id":"references/60c87b027723bebd866a7f45","_rev":"_cfFmOty---","tei":"\n\t\n\t\tProDy: Protein Dynamics Inferred from Theory and Experiments\n\t\t\n\t\t\tABakan\n\t\t\n\t\t\n\t\t\tLMMeireles\n\t\t\n\t\t\n\t\t\tIBahar\n\t\t\n\t\t10.1093/bioinformatics/btr168\n\t\t21471012\n\t\tPMC3102222\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c87b027723bebd866a7f43"},"refKey":49},
{"_key":"60c87b457723bebd866a7f7e","_id":"references/60c87b457723bebd866a7f7e","_rev":"_cfFmOt6---","tei":"\n\t\n\t\tThe Iterative Protein Redesign and Optimization (IPRO) suite of programs\n\t\t\n\t\t\tRobertJPantazes\n\t\t\n\t\t\n\t\t\tMatthewJGrisewood\n\t\t\n\t\t\n\t\t\tTongLi\n\t\t\n\t\t\n\t\t\tNathanaelPGifford\n\t\t\n\t\t\n\t\t\tCostasDMaranas\n\t\t\n\t\t10.1002/jcc.23796\n\t\t25448866\n\t\tark:/67375/WNG-CWF6LD0N-2\n\t\tB1557D5753F89E76A6136A096277461702B48615\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t36\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c87b457723bebd866a7f7d"},"refKey":22},
{"_key":"60c87b457723bebd866a7f7f","_id":"references/60c87b457723bebd866a7f7f","_rev":"_cfFmOuG---","tei":"\n\t\n\t\tIPRO+/À: Computational protein design tool allowing for insertions and deletions\n\t\t\n\t\t\tRChowdhury\n\t\t\n\t\n\t\n\t\tStructure\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c87b457723bebd866a7f7d"},"refKey":23},
{"_key":"60c87b6c7723bebd866a7fa8","_id":"references/60c87b6c7723bebd866a7fa8","_rev":"_cfFmOuS---","tei":"\n\t\n\t\tMOLMOL: a program for display and analysis of macromolecular structures\n\t\t\n\t\t\tRKoradi\n\t\t\n\t\t\n\t\t\tMBilleter\n\t\t\n\t\t\n\t\t\tKWu\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c87b6c7723bebd866a7fa7"},"refKey":20},
{"_key":"60c87b6c7723bebd866a7fa9","_id":"references/60c87b6c7723bebd866a7fa9","_rev":"_cfFmOue---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tFAStephen\n\t\t\n\t\t\n\t\t\tLMThomas\n\t\t\n\t\t\n\t\t\tASAlejandro\n\t\t\n\t\t\n\t\t\tZJinghui\n\t\t\n\t\t\n\t\t\tZZheng\n\t\t\n\t\t\n\t\t\tMWebb\n\t\t\n\t\t\n\t\t\tJLDavid\n\t\t\n\t\n\t\n\t\tNucleic Acid Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c87b6c7723bebd866a7fa7"},"refKey":46},
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{"_key":"60c87ff27723bebd866a83f3","_id":"references/60c87ff27723bebd866a83f3","_rev":"_cfFmP-S---","tei":"\n\t\n\t\tIgBLAST: an immunoglobulin variable domain sequence analysis tool\n\t\t\n\t\t\tJianYe\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t\n\t\t\tJamesMOstell\n\t\t\n\t\t10.1093/nar/gkt382\n\t\t23671333\n\t\tPMC3692102\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c87ff27723bebd866a83f1"},"refKey":46},
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{"_key":"60c880117723bebd866a8416","_id":"references/60c880117723bebd866a8416","_rev":"_cfFmP-q---","tei":"\n\t\n\t\tGROMACS: high performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSPáll\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\n\t\n\t\tSoftw.X\n\t\t\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c880117723bebd866a8415"},"refKey":0},
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{"_key":"60c880417723bebd866a8454","_id":"references/60c880417723bebd866a8454","_rev":"_cfFmP_W---","tei":"\n\t\n\t\tWeb-based analysis and publication of flow cytometry experiments\n\t\t\n\t\t\tNKotecha\n\t\t\n\t\t\n\t\t\tPOKrutzik\n\t\t\n\t\t\n\t\t\tJMIrish\n\t\t\n\t\n\t\n\t\tCurr. Protoc. Cytom\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c880417723bebd866a8453"},"refKey":26},
{"_key":"60c880d57723bebd866a84b8","_id":"references/60c880d57723bebd866a84b8","_rev":"_cfFmP_i---","tei":"\n\t\n\t\tA simple method to control over-alignment in the MAFFT multiple sequence alignment program\n\t\t\n\t\t\tKazutakaKatoh\n\t\t\n\t\t\n\t\t\tDaronMStandley\n\t\t\n\t\t10.1093/bioinformatics/btw108\n\t\t27153688\n\t\tPMC4920119\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c880d57723bebd866a84b7"},"refKey":53},
{"_key":"60c880d57723bebd866a84b9","_id":"references/60c880d57723bebd866a84b9","_rev":"_cfFmP_q---","tei":"\n\t\n\t\tRecognition of errors in three-dimensional structures of proteins\n\t\t\n\t\t\tManfredJSippl\n\t\t\n\t\t10.1002/prot.340170404\n\t\t8108378\n\t\tark:/67375/WNG-6LVBQ0J7-4\n\t\t4DC39DDFBCAC1BC68B046E2128D670FFB51CC559\n\t\n\t\n\t\tProteins: Structure, Function, and Genetics\n\t\tProteins\n\t\t0887-3585\n\t\t1097-0134\n\t\t\n\t\t\t17\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c880d57723bebd866a84b7"},"refKey":59},
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{"_key":"60c880d57723bebd866a84bb","_id":"references/60c880d57723bebd866a84bb","_rev":"_cfFmPAC---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c880d57723bebd866a84b7"},"refKey":63},
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{"_key":"60c8829a7723bebd866a8553","_id":"references/60c8829a7723bebd866a8553","_rev":"_cfFmPBK---","tei":"\n\t\n\t\tBuilding Predictive Models in R Using the caret Package\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t28\n\t\t\t5\n\t\t\t26\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8829a7723bebd866a8552"},"refKey":13},
{"_key":"60c882a47723bebd866a8560","_id":"references/60c882a47723bebd866a8560","_rev":"_cfFmPBW---","tei":"\n\t\n\t\tFairML : ToolBox for diagnosing bias in predictive modeling: Massachusetts Institute of Technology\n\t\t\n\t\t\tJAAdebayo\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c882a47723bebd866a855f"},"refKey":7},
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{"_key":"60c883177723bebd866a85da","_id":"references/60c883177723bebd866a85da","_rev":"_cfFmPDW---","tei":"\n\t\n\t\tProsit: proteome-wide prediction of peptide tandem mass spectra by deep learning\n\t\t\n\t\t\tSGessulat\n\t\t\n\t\t\n\t\t\tTSchmidt\n\t\t\n\t\t\n\t\t\tDPZolg\n\t\t\n\t\t\n\t\t\tPSamaras\n\t\t\n\t\t\n\t\t\tKSchnatbaum\n\t\t\n\t\t\n\t\t\tJZerweck\n\t\t\n\t\t\n\t\t\tTKnaute\n\t\t\n\t\t\n\t\t\tJRechenberger\n\t\t\n\t\t\n\t\t\tBDelanghe\n\t\t\n\t\t\n\t\t\tAHuhmer\n\t\t\n\t\t\n\t\t\tUReimer\n\t\t\n\t\t\n\t\t\tH.-CEhrlich\n\t\t\n\t\t\n\t\t\tSAiche\n\t\t\n\t\t\n\t\t\tBKuster\n\t\t\n\t\t\n\t\t\tMWilhelm\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\t\n\t\t\t16\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c883177723bebd866a85d8"},"refKey":1},
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{"_key":"60c883637723bebd866a8606","_id":"references/60c883637723bebd866a8606","_rev":"_cfFmPD6---","tei":"\n\t\n\t\tEMBOSS: the European Molecular Biology Open Software Suite\n\t\t\n\t\t\tPRice\n\t\t\n\t\n\t\n\t\tTrends Genet\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c883637723bebd866a8604"},"refKey":30},
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{"_key":"60c883b17723bebd866a8650","_id":"references/60c883b17723bebd866a8650","_rev":"_cfFmPFG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\n\t\n\t\tMethods Enzymol\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c883b17723bebd866a864d"},"refKey":47},
{"_key":"60c883b17723bebd866a8651","_id":"references/60c883b17723bebd866a8651","_rev":"_cfFmPFS---","tei":"\n\t\n\t\tHKL2MAP: a graphical user interface for macromolecular phasing withSHELXprograms\n\t\t\n\t\t\tThomasPape\n\t\t\n\t\t\n\t\t\tThomasRSchneider\n\t\t\n\t\t10.1107/s0021889804018047\n\t\tark:/67375/WNG-4C93X4RN-2\n\t\t27CF5B6E66F9D7CBEA158E134AE9F02D2A153F06\n\t\t\n\t\n\t\n\t\tJournal of Applied Crystallography\n\t\tJ Appl Cryst\n\t\t0021-8898\n\t\t\n\t\t\t37\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c883b17723bebd866a864d"},"refKey":49},
{"_key":"60c883b17723bebd866a8652","_id":"references/60c883b17723bebd866a8652","_rev":"_cfFmPFe---","tei":"\n\t\n\t\tDensity modification for macromolecular phase improvement\n\t\t\n\t\t\tKevinDCowtan\n\t\t\n\t\t\n\t\t\tKamY JZhang\n\t\t\n\t\t10.1016/s0079-6107(99)00008-5\n\t\t10581970\n\t\tS0079-6107(99)00008-5\n\t\tark:/67375/6H6-WV5Q2RZW-X\n\t\tD3172C116B1E4A078649117084188171D66E6BDA\n\t\n\t\n\t\tProgress in Biophysics and Molecular Biology\n\t\tProgress in Biophysics and Molecular Biology\n\t\t0079-6107\n\t\t\n\t\t\t72\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c883b17723bebd866a864d"},"refKey":8},
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{"_key":"60c8861d7723bebd866a8832","_id":"references/60c8861d7723bebd866a8832","_rev":"_cfFmPKS---","tei":"\n\t\n\t\tDeuteros: software for rapid analysis and visualization of data from differential hydrogen deuterium exchange-mass spectrometry\n\t\t\n\t\t\tAndyM CLau\n\t\t\t0000-0003-0572-7826\n\t\t\n\t\t\n\t\t\tZainabAhdash\n\t\t\n\t\t\n\t\t\tChloeMartens\n\t\t\t0000-0002-1617-4238\n\t\t\n\t\t\n\t\t\tArgyrisPolitis\n\t\t\t0000-0002-6658-3224\n\t\t\n\t\t10.1101/417998\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8861d7723bebd866a882f"},"refKey":33},
{"_key":"60c8861d7723bebd866a8833","_id":"references/60c8861d7723bebd866a8833","_rev":"_cfFmPKe---","tei":"\n\t\n\t\tCDtool—an integrated software package for circular dichroism spectroscopic data processing, analysis, and archiving\n\t\t\n\t\t\tJGLees\n\t\t\n\t\t\n\t\t\tBRSmith\n\t\t\n\t\t\n\t\t\tFWien\n\t\t\n\t\t\n\t\t\tAJMiles\n\t\t\n\t\t\n\t\t\tBAWallace\n\t\t\n\t\t10.1016/j.ab.2004.06.002\n\t\t15325297\n\t\t\n\t\n\t\n\t\tAnalytical Biochemistry\n\t\tAnalytical Biochemistry\n\t\t0003-2697\n\t\t\n\t\t\t332\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8861d7723bebd866a882f"},"refKey":46},
{"_key":"60c8861d7723bebd866a8834","_id":"references/60c8861d7723bebd866a8834","_rev":"_cfFmPKm---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System Version 1\n\t\t\n\t\t\tLLSchrodinger\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8861d7723bebd866a882f"},"refKey":51},
{"_key":"60c886327723bebd866a885c","_id":"references/60c886327723bebd866a885c","_rev":"_cfFmPKy---","tei":"\n\t\n\t\tShiny: web application for R. R package version\n\t\t\n\t\t\tWChang\n\t\t\n\t\t\n\t\t\tJCheng\n\t\t\n\t\t\n\t\t\tYAllaire\n\t\t\n\t\t\n\t\t\tXie\n\t\t\n\t\t\n\t\t\tJMcpherson\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c886327723bebd866a885b"},"refKey":23},
{"_key":"60c886487723bebd866a886d","_id":"references/60c886487723bebd866a886d","_rev":"_cfFmPL----","tei":"\n\t\n\t\tThe S Language\n\t\t\n\t\t\tWNVenables\n\t\t\n\t\t\n\t\t\tBDRipley\n\t\t\n\t\t10.1007/978-0-387-21706-2_3\n\t\tark:/67375/HCB-F4RVWM85-8\n\t\tF31468BE7FFA0DBA9350D3C2376D592C43F2EC54\n\t\n\t\n\t\tModern Applied Statistics with S\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tFourth edition\n\n","document":{"$oid":"60c886487723bebd866a886c"},"refKey":48},
{"_key":"60c886567723bebd866a8872","_id":"references/60c886567723bebd866a8872","_rev":"_cfFmPLG---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c886567723bebd866a8871"},"refKey":54},
{"_key":"60c886567723bebd866a8873","_id":"references/60c886567723bebd866a8873","_rev":"_cfFmPLS---","tei":"\n\t\n\t\tComparison of mapping algorithms used in high-throughput sequencing: application to Ion Torrent data\n\t\t\n\t\t\tSégolèneCaboche\n\t\t\n\t\t\n\t\t\tChristopheAudebert\n\t\t\n\t\t\n\t\t\tYvesLemoine\n\t\t\n\t\t\n\t\t\tDavidHot\n\t\t\n\t\t10.1186/1471-2164-15-264\n\t\t24708189\n\t\tPMC4051166\n\t\t\n\t\n\t\n\t\tBMC Genomics\n\t\tBMC Genomics\n\t\t1471-2164\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t264\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c886567723bebd866a8871"},"refKey":48},
{"_key":"60c886567723bebd866a8874","_id":"references/60c886567723bebd866a8874","_rev":"_cfFmPLe---","tei":"\n\t\n\t\tMEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph\n\t\t\n\t\t\tDinghuaLi\n\t\t\n\t\t\n\t\t\tChi-ManLiu\n\t\t\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tKunihikoSadakane\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t10.1093/bioinformatics/btv033\n\t\t25609793\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c886567723bebd866a8871"},"refKey":60},
{"_key":"60c886567723bebd866a8875","_id":"references/60c886567723bebd866a8875","_rev":"_cfFmPLm---","tei":"\n\t\n\t\tSPAdes: A new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tBAnton\n\t\t\n\t\t\n\t\t\tNSergey\n\t\t\n\t\t\n\t\t\tADmitry\n\t\t\n\t\t\n\t\t\tAAlexey\n\t\t\n\t\t\n\t\t\tDMikhail\n\t\t\n\t\t\n\t\t\tSAlexander\n\t\t\n\t\t\n\t\t\tMValery\n\t\t\n\t\t\n\t\t\tISergey\n\t\t\n\t\t\n\t\t\tPSon\n\t\t\n\t\t\n\t\t\tDAndrey\n\t\t\n\t\n\t\n\t\tJ. Comput. Biol\n\t\t\n\t\t\t19\n\t\t\t455\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c886567723bebd866a8871"},"refKey":61},
{"_key":"60c886567723bebd866a8876","_id":"references/60c886567723bebd866a8876","_rev":"_cfFmPLy---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c886567723bebd866a8871"},"refKey":56},
{"_key":"60c886567723bebd866a8877","_id":"references/60c886567723bebd866a8877","_rev":"_cfFmPM----","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp324\n\t\t19451168\n\t\tPMC2705234\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c886567723bebd866a8871"},"refKey":6},
{"_key":"60c886567723bebd866a8878","_id":"references/60c886567723bebd866a8878","_rev":"_cfFmPMK---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKIKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\t10.1093/nar/gkf436\n\t\t12136088\n\t\tPMC135756\n\t\tark:/67375/HXZ-NRP1F2B9-4\n\t\t5EA93CBE48016E67AE51670E4623847EAB8A8265\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c886567723bebd866a8871"},"refKey":24},
{"_key":"60c886567723bebd866a88ba","_id":"references/60c886567723bebd866a88ba","_rev":"_cfFmPMS---","tei":"\n\t\n\t\tRefinement of severely incomplete structures with maximum likelihood in BUSTER-TNT\n\t\t\n\t\t\tEBlanc\n\t\t\n\t\t\n\t\t\tPRoversi\n\t\t\n\t\t\n\t\t\tCVonrhein\n\t\t\n\t\t\n\t\t\tCFlensburg\n\t\t\n\t\t\n\t\t\tSMLea\n\t\t\n\t\t\n\t\t\tGBricogne\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t60\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c886567723bebd866a88b9"},"refKey":36},
{"_key":"60c886597723bebd866a88c1","_id":"references/60c886597723bebd866a88c1","_rev":"_cfFmPMe---","tei":"\n\t\n\t\t\n\t\t\tAAKing\n\t\t\n\t\t\n\t\t\tELIonides\n\t\t\n\t\t\n\t\t\tCMBretó\n\t\t\n\t\t\n\t\t\tSEllner\n\t\t\n\t\t\n\t\t\tBKendall\n\t\t\n\t\t\n\t\t\tHWearing\n\t\t\n\t\t\n\t\t\tMJFerrari\n\t\t\n\t\t\n\t\t\tMLavine\n\t\t\n\t\t\n\t\t\tDCReuman\n\t\t\n\t\tpomp: Statistical inference for partially observed Markov processes\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tR package\n\n","document":{"$oid":"60c886597723bebd866a88c0"},"refKey":8},
{"_key":"60c886aa7723bebd866a88f5","_id":"references/60c886aa7723bebd866a88f5","_rev":"_cfFmPMq---","tei":"\n\t\n\t\tProtein-ligand docking and virtual screening with GOLD in virtual screening in drug discovery\n\t\t\n\t\t\tJCCole\n\t\t\n\t\t\n\t\t\tJwmNissink\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\n\t\n\t\tVirtual screening in drug discovery\n\t\t\t\t\n\t\t\tBShoichet\n\t\t\tJAlvarez\n\t\t\n\t\tBoca Raton\n\t\t\n\t\t\tCRC Press\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c886aa7723bebd866a88f4"},"refKey":17},
{"_key":"60c886aa7723bebd866a88f6","_id":"references/60c886aa7723bebd866a88f6","_rev":"_cfFmPMy---","tei":"\n\t\n\t\tScalable molecular dynamics with NAMD\n\t\t\n\t\t\tJCPhillips\n\t\t\n\t\t\n\t\t\tRBraun\n\t\t\n\t\t\n\t\t\tWWang\n\t\t\n\t\t\n\t\t\tJGumbart\n\t\t\n\t\t\n\t\t\tETajkhorshid\n\t\t\n\t\t\n\t\t\tEVilla\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c886aa7723bebd866a88f4"},"refKey":21},
{"_key":"60c886aa7723bebd866a88f7","_id":"references/60c886aa7723bebd866a88f7","_rev":"_cfFmPN----","tei":"\n\t\n\t\tVMD-visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Mol Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c886aa7723bebd866a88f4"},"refKey":23},
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{"_key":"60c886b37723bebd866a8909","_id":"references/60c886b37723bebd866a8909","_rev":"_cfFmPNe---","tei":"\n\t\n\t\tSaTScan TM user guide for version 9\n\t\t\n\t\t\tMKulldorff\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c886b37723bebd866a8908"},"refKey":12},
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{"_key":"60c886ba7723bebd866a8911","_id":"references/60c886ba7723bebd866a8911","_rev":"_cfFmPN2---","tei":"\n\t\n\t\tGromacs: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSPáll\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindah\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tSoftwareX 1-2:19-25\n\n","document":{"$oid":"60c886ba7723bebd866a890f"},"refKey":35},
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{"_key":"60c886ba7723bebd866a8913","_id":"references/60c886ba7723bebd866a8913","_rev":"_cfFmPOK---","tei":"\n\t\n\t\t3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures\n\t\t\n\t\t\tXiang-JunLu\n\t\t\n\t\t\n\t\t\tWilmaKOlson\n\t\t\n\t\t10.1038/nprot.2008.104\n\t\t18600227\n\t\tPMC3065354\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t3\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c886ba7723bebd866a890f"},"refKey":25},
{"_key":"60c886ba7723bebd866a8914","_id":"references/60c886ba7723bebd866a8914","_rev":"_cfFmPOW---","tei":"\n\t\n\t\tWeb 3DNA 2.0 for the analysis, visualization, and modeling of 3D nucleic acid structures\n\t\t\n\t\t\tShuxiangLi\n\t\t\n\t\t\n\t\t\tWilmaKOlson\n\t\t\n\t\t\n\t\t\tXiang-JunLu\n\t\t\n\t\t10.1093/nar/gkz394\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c886ba7723bebd866a890f"},"refKey":31},
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{"_key":"60c8873c7723bebd866a89a1","_id":"references/60c8873c7723bebd866a89a1","_rev":"_cfFmPPO---","tei":"\n\t\n\t\tInteractive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees\n\t\t\n\t\t\tIvicaLetunic\n\t\t\t0000-0003-3560-4288\n\t\t\n\t\t\n\t\t\tPeerBork\n\t\t\n\t\t10.1093/nar/gkw290\n\t\t27095192\n\t\tPMC4987883\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t44\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8873c7723bebd866a89a0"},"refKey":15},
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{"_key":"60c888b57723bebd866a8ab9","_id":"references/60c888b57723bebd866a8ab9","_rev":"_cfFmPSy---","tei":"\n\t\n\t\tPrediction of RNA secondary structure by free energy minimization\n\t\t\n\t\t\tDavidHMathews\n\t\t\n\t\t\n\t\t\tDouglasHTurner\n\t\t\n\t\t10.1016/j.sbi.2006.05.010\n\t\t16713706\n\t\n\t\n\t\tCurrent Opinion in Structural Biology\n\t\tCurrent Opinion in Structural Biology\n\t\t0959-440X\n\t\t\n\t\t\t16\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c888b57723bebd866a8ab6"},"refKey":8},
{"_key":"60c888b57723bebd866a8aba","_id":"references/60c888b57723bebd866a8aba","_rev":"_cfFmPS6---","tei":"\n\t\n\t\tCONTRAfold: RNA secondary structure prediction without physics-based models\n\t\t\n\t\t\tCBDo\n\t\t\n\t\t\n\t\t\tDAWoods\n\t\t\n\t\t\n\t\t\tSBatzoglou\n\t\t\n\t\t10.1093/bioinformatics/btl246\n\t\t16873527\n\t\tark:/67375/HXZ-C13P62LX-L\n\t\t73AA6C585C59F484D11A7AA069CC3B5C29F9404C\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t22\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c888b57723bebd866a8ab6"},"refKey":9},
{"_key":"60c888be7723bebd866a8ad3","_id":"references/60c888be7723bebd866a8ad3","_rev":"_cfFmPTG---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tWolframResearch\n\t\t\n\t\t\n\t\t\t.IMathematica\n\t\t\n\t\t12.0\n\t\t\n\t\t\t\n\t\t\tWolfram Research\n\t\t\tChampaign, IL, USA\n\t\t\n\t\n\n","document":{"$oid":"60c888be7723bebd866a8ad2"},"refKey":19},
{"_key":"60c888be7723bebd866a8ad4","_id":"references/60c888be7723bebd866a8ad4","_rev":"_cfFmPTS---","tei":"\n\t\n\t\tAn Elementary Introduction to the Wolfram Language\n\t\t\n\t\t\tSWolfram\n\t\t\n\t\n\t\n\t\tWolfram Media\n\t\t\t\tChampaign, IL, USA\n\t\t\n\t\t\t\n\t\t\t340\n\t\t\n\t\n\t2nd ed.\n\n","document":{"$oid":"60c888be7723bebd866a8ad2"},"refKey":18},
{"_key":"60c888c57723bebd866a8ae5","_id":"references/60c888c57723bebd866a8ae5","_rev":"_cfFmPTa---","tei":"\n\t\n\t\tZINCPharmer: pharmacophore search of the ZINC database\n\t\t\n\t\t\tDRKoes\n\t\t\n\t\t\n\t\t\tCJCamacho\n\t\t\n\t\t10.1093/nar/gks378\n\t\t22553363\n\t\tPMC3394271\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c888c57723bebd866a8ae4"},"refKey":28},
{"_key":"60c8890f7723bebd866a8b16","_id":"references/60c8890f7723bebd866a8b16","_rev":"_cfFmPTm---","tei":"\n\t\n\t\tThe Comprehensive R Archive Network\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8890f7723bebd866a8b15"},"refKey":21},
{"_key":"60c889297723bebd866a8b25","_id":"references/60c889297723bebd866a8b25","_rev":"_cfFmPTy---","tei":"\n\t\n\t\tFastQC: a quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\t\n\t\n\t\n\t\tBabraham Bioinformatics. GPL v3\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c889297723bebd866a8b24"},"refKey":3},
{"_key":"60c889297723bebd866a8b26","_id":"references/60c889297723bebd866a8b26","_rev":"_cfFmPT6---","tei":"\n\t\n\t\tRSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome\n\t\t\n\t\t\tBoLi\n\t\t\n\t\t\n\t\t\tColinNDewey\n\t\t\n\t\t10.1186/1471-2105-12-323\n\t\t21816040\n\t\tPMC3163565\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t323\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c889297723bebd866a8b24"},"refKey":46},
{"_key":"60c889297723bebd866a8b27","_id":"references/60c889297723bebd866a8b27","_rev":"_cfFmPUG---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tAlexanderDobin\n\t\t\n\t\t\n\t\t\tCarrieADavis\n\t\t\n\t\t\n\t\t\tFelixSchlesinger\n\t\t\n\t\t\n\t\t\tJorgDrenkow\n\t\t\n\t\t\n\t\t\tChrisZaleski\n\t\t\n\t\t\n\t\t\tSonaliJha\n\t\t\n\t\t\n\t\t\tPhilippeBatut\n\t\t\n\t\t\n\t\t\tMarkChaisson\n\t\t\n\t\t\n\t\t\tThomasRGingeras\n\t\t\n\t\t10.1093/bioinformatics/bts635\n\t\t23104886\n\t\tPMC3530905\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t29\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c889297723bebd866a8b24"},"refKey":24},
{"_key":"60c889297723bebd866a8b28","_id":"references/60c889297723bebd866a8b28","_rev":"_cfFmPUS---","tei":"\n\t\n\t\tMultiQC: summarize analysis results for multiple tools and samples in a single report\n\t\t\n\t\t\tPhilipEwels\n\t\t\n\t\t\n\t\t\tMånsMagnusson\n\t\t\n\t\t\n\t\t\tSverkerLundin\n\t\t\n\t\t\n\t\t\tMaxKäller\n\t\t\n\t\t10.1093/bioinformatics/btw354\n\t\t27312411\n\t\tPMC5039924\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c889297723bebd866a8b24"},"refKey":25},
{"_key":"60c889297723bebd866a8b36","_id":"references/60c889297723bebd866a8b36","_rev":"_cfFmPUe---","tei":"\n\t\n\t\tChinese and Italian COVID-19 outbreaks can be correctly described by a modified SIRD model\n\t\t\n\t\t\tDCaccavo\n\t\t\n\t\n\t\n\t\tmedRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c889297723bebd866a8b35"},"refKey":2},
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{"_key":"60c889c17723bebd866a8be1","_id":"references/60c889c17723bebd866a8be1","_rev":"_cfFmPW----","tei":"\n\t\n\t\tAnalyzing recursive programs using a fixed-point calculus\n\t\t\n\t\t\tSalvatoreLa Torre\n\t\t\n\t\t\n\t\t\tMadhusudanParthasarathy\n\t\t\n\t\t\n\t\t\tGennaroParlato\n\t\t\n\t\t10.1145/1542476.1542500\n\t\t\n\t\n\t\n\t\tProceedings of the 2009 ACM SIGPLAN conference on Programming language design and implementation - PLDI '09\n\t\t\t\tthe 2009 ACM SIGPLAN conference on Programming language design and implementation - PLDI '09\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t44\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c889c17723bebd866a8be0"},"refKey":21},
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{"_key":"60c889cc7723bebd866a8bfd","_id":"references/60c889cc7723bebd866a8bfd","_rev":"_cfFmPWq---","tei":"\n\t\n\t\tAnalysis of metabolomics datasets with high-performance computing and metabolite atlases\n\t\t\n\t\t\tYYao\n\t\t\n\t\t\n\t\t\tTSun\n\t\t\n\t\t\n\t\t\tTWang\n\t\t\n\t\t\n\t\t\tORuebel\n\t\t\n\t\t\n\t\t\tTNorthen\n\t\t\n\t\t\n\t\t\tBPBowen\n\t\t\n\t\n\t\n\t\tMetabolites\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c889cc7723bebd866a8bfb"},"refKey":19},
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{"_key":"60c88a4c7723bebd866a8c76","_id":"references/60c88a4c7723bebd866a8c76","_rev":"_cfFmPZG---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tStephenFAltschul\n\t\t\n\t\t\n\t\t\tWarrenGish\n\t\t\n\t\t\n\t\t\tWebbMiller\n\t\t\n\t\t\n\t\t\tEugeneWMyers\n\t\t\n\t\t\n\t\t\tDavidJLipman\n\t\t\n\t\t10.1016/s0022-2836(05)80360-2\n\t\t2231712\n\t\tS0022-2836(05)80360-2\n\t\tark:/67375/6H6-H5SLNKXL-D\n\t\t9FFEE554E2AE49DB0AC69D4B43CB2DC4AFC66D6F\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c88a4c7723bebd866a8c75"},"refKey":35},
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{"_key":"60c88b6d7723bebd866a8d4f","_id":"references/60c88b6d7723bebd866a8d4f","_rev":"_cfFmPaq---","tei":"\n\t\n\t\tGROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit\n\t\t\n\t\t\tSPronk\n\t\t\n\t\t\n\t\t\tSPall\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tPLarsson\n\t\t\n\t\t\n\t\t\tPBjelkmar\n\t\t\n\t\t\n\t\t\tRApostolov\n\t\t\n\t\t\n\t\t\tMRShirts\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tPMKasson\n\t\t\n\t\t\n\t\t\tDVan Der Spoel\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\n\t\n\t\tC. Besançon, et al. Methods\n\t\t\n\t\t\t173\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88b6d7723bebd866a8d4d"},"refKey":42},
{"_key":"60c88b6d7723bebd866a8d50","_id":"references/60c88b6d7723bebd866a8d50","_rev":"_cfFmPay---","tei":"\n\t\n\t\tThree-dimensional representations of complex carbohydrates and polysaccharides--SweetUnityMol: A video game-based computer graphic software\n\t\t\n\t\t\tSPerez\n\t\t\n\t\t\n\t\t\tTTubiana\n\t\t\n\t\t\n\t\t\tAImberty\n\t\t\n\t\t\n\t\t\tMBaaden\n\t\t\n\t\t10.1093/glycob/cwu133\n\t\t25475093\n\t\t\n\t\n\t\n\t\tGlycobiology\n\t\tGlycobiology\n\t\t0959-6658\n\t\t1460-2423\n\t\t\n\t\t\t25\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c88b6d7723bebd866a8d4d"},"refKey":37},
{"_key":"60c88b6d7723bebd866a8d51","_id":"references/60c88b6d7723bebd866a8d51","_rev":"_cfFmPb----","tei":"\n\t\n\t\tAzahar: a PyMOL plugin for construction, visualization and analysis of glycan molecules\n\t\t\n\t\t\tAgustinaArroyuelo\n\t\t\t0000-0002-7249-755X\n\t\t\n\t\t\n\t\t\tJorgeAVila\n\t\t\n\t\t\n\t\t\tOsvaldoAMartin\n\t\t\n\t\t10.1007/s10822-016-9944-x\n\t\t27549814\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t30\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c88b6d7723bebd866a8d4d"},"refKey":31},
{"_key":"60c88b6d7723bebd866a8d52","_id":"references/60c88b6d7723bebd866a8d52","_rev":"_cfFmPbK---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System, Version 1\n\t\t\n\t\t\tLL CSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88b6d7723bebd866a8d4d"},"refKey":14},
{"_key":"60c88b6d7723bebd866a8d53","_id":"references/60c88b6d7723bebd866a8d53","_rev":"_cfFmPbS---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88b6d7723bebd866a8d4d"},"refKey":15},
{"_key":"60c88b827723bebd866a8d98","_id":"references/60c88b827723bebd866a8d98","_rev":"_cfFmPbe---","tei":"\n\t\n\t\tMEGA6: molecular evolutionary genetics analysis version 6.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tAFilipski\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88b827723bebd866a8d97"},"refKey":52},
{"_key":"60c88b887723bebd866a8da1","_id":"references/60c88b887723bebd866a8da1","_rev":"_cfFmPbq---","tei":"\n\t\n\t\tFastQC: a Quality Control Tool for High Throughput Sequence Data\n\t\t\n\t\t\tSABittencourt\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88b887723bebd866a8da0"},"refKey":40},
{"_key":"60c88b887723bebd866a8da2","_id":"references/60c88b887723bebd866a8da2","_rev":"_cfFmPby---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88b887723bebd866a8da0"},"refKey":41},
{"_key":"60c88b887723bebd866a8da3","_id":"references/60c88b887723bebd866a8da3","_rev":"_cfFmPc----","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88b887723bebd866a8da0"},"refKey":42},
{"_key":"60c88b977723bebd866a8dac","_id":"references/60c88b977723bebd866a8dac","_rev":"_cfFmPcK---","tei":"\n\t\n\t\tClustal-W -Improving the Sensitivity of Progressive Multiple Sequence Alignment through Sequence Weighting, Position-Specific Gap Penalties and Weight Matrix Choice\n\t\t\n\t\t\tJDThompson\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88b977723bebd866a8dab"},"refKey":52},
{"_key":"60c88b977723bebd866a8dad","_id":"references/60c88b977723bebd866a8dad","_rev":"_cfFmPcS---","tei":"\n\t\n\t\tMuMIn: multi-model inference\n\t\t\n\t\t\t´kBarton\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package, version 0.12.2. Available\n\n","document":{"$oid":"60c88b977723bebd866a8dab"},"refKey":66},
{"_key":"60c88bcd7723bebd866a8dcc","_id":"references/60c88bcd7723bebd866a8dcc","_rev":"_cfFmPce---","tei":"\n\t\n\t\tMOLE 2.0: advanced approach for analysis of biomacromolecular channels\n\t\t\n\t\t\tDavidSehnal\n\t\t\n\t\t\n\t\t\tRadkaSvobodová Vařeková\n\t\t\n\t\t\n\t\t\tKarelBerka\n\t\t\n\t\t\n\t\t\tLukášPravda\n\t\t\n\t\t\n\t\t\tVeronikaNavrátilová\n\t\t\n\t\t\n\t\t\tPavelBanáš\n\t\t\n\t\t\n\t\t\tCrina-MariaIonescu\n\t\t\n\t\t\n\t\t\tMichalOtyepka\n\t\t\n\t\t\n\t\t\tJaroslavKoča\n\t\t\n\t\t10.1186/1758-2946-5-39\n\t\t23953065\n\t\tPMC3765717\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJournal of Cheminformatics\n\t\t1758-2946\n\t\t\n\t\t\t5\n\t\t\t1\n\t\t\t39\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c88bcd7723bebd866a8dcb"},"refKey":51},
{"_key":"60c88bcd7723bebd866a8dcd","_id":"references/60c88bcd7723bebd866a8dcd","_rev":"_cfFmPcq---","tei":"\n\t\n\t\tHMMER Web Server: Interactive Sequence Similarity Searching\n\t\t\n\t\t\tRDFinn\n\t\t\n\t\t\n\t\t\tJClements\n\t\t\n\t\t\n\t\t\tSREddy\n\t\t\n\t\t\n\t\t\tD; R\n\t\t\n\t\t\n\t\t\tJFinn\n\t\t\n\t\t\n\t\t\tSRClements\n\t\t\n\t\t\n\t\t\tEddy\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t\n\t\t\t39\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88bcd7723bebd866a8dcb"},"refKey":15},
{"_key":"60c88bcd7723bebd866a8dce","_id":"references/60c88bcd7723bebd866a8dce","_rev":"_cfFmPcy---","tei":"\n\t\n\t\tIntroducing "best single template" models as reference baseline for the Continuous Automated Model Evaluation (CAMEO)\n\t\t\n\t\t\tJHaas\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\t\n\t\t\tABarbato\n\t\t\n\t\t\n\t\t\tFAckermann\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tASmolinski\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\t10.1002/prot.25815\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t87\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88bcd7723bebd866a8dcb"},"refKey":19},
{"_key":"60c88bcd7723bebd866a8dcf","_id":"references/60c88bcd7723bebd866a8dcf","_rev":"_cfFmPd----","tei":"\n\t\n\t\t\n\t\t\tEGasteiger\n\t\t\n\t\t\n\t\t\tCHoogland\n\t\t\n\t\t\n\t\t\tAGattiker\n\t\t\n\t\t\n\t\t\tSDuvaud\n\t\t\n\t\t\n\t\t\tMRWilkins\n\t\t\n\t\t\n\t\t\tRDAppel\n\t\t\n\t\t\n\t\t\tABairoch\n\t\t\n\t\tProtein Identification and Analysis Tools on the ExPASy Server ;( In) John M. Walker\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tThe Proteomics Protocols Handbook\n\n","document":{"$oid":"60c88bcd7723bebd866a8dcb"},"refKey":17},
{"_key":"60c88bcd7723bebd866a8dd0","_id":"references/60c88bcd7723bebd866a8dd0","_rev":"_cfFmPdK---","tei":"\n\t\n\t\tPymol: An open-source molecular graphics tool\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\n\t\n\t\tCCP4 Newsletter On Protein Crystallography\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88bcd7723bebd866a8dcb"},"refKey":12},
{"_key":"60c88bcd7723bebd866a8dd1","_id":"references/60c88bcd7723bebd866a8dd1","_rev":"_cfFmPdW---","tei":"\n\t\n\t\t\n\t\t\tNEswar\n\t\t\n\t\t\n\t\t\tBWebb\n\t\t\n\t\t\n\t\t\tMAMarti-Renom\n\t\t\n\t\t\n\t\t\tMSMadhusudhan\n\t\t\n\t\t\n\t\t\tDEramian\n\t\t\n\t\t\n\t\t\tMYShen\n\t\t\n\t\t\n\t\t\tUPieper\n\t\t\n\t\t\n\t\t\tASali\n\t\t\n\t\t\n\t\t\tJEColigan\n\t\t\n\t\t\n\t\t\tBMDunn\n\t\t\n\t\t\n\t\t\tDWSpeicher\n\t\t\n\t\t\n\t\t\tPTWingfield\n\t\t\n\t\n\t\n\t\tComparative Protein Structure Modelling Using MODELLER\n\t\t\t\t\n\t\t\t\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88bcd7723bebd866a8dcb"},"refKey":14},
{"_key":"60c88bec7723bebd866a8dfe","_id":"references/60c88bec7723bebd866a8dfe","_rev":"_cfFmPdi---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88bec7723bebd866a8dfd"},"refKey":35},
{"_key":"60c88bec7723bebd866a8dff","_id":"references/60c88bec7723bebd866a8dff","_rev":"_cfFmPdu---","tei":"\n\t\n\t\tPhylogeny.fr: Robust phylogenetic analysis for the nonspecialist\n\t\t\n\t\t\tADereeper\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c88bec7723bebd866a8dfd"},"refKey":37},
{"_key":"60c88bec7723bebd866a8e00","_id":"references/60c88bec7723bebd866a8e00","_rev":"_cfFmPd2---","tei":"\n\t\n\t\tPAML 4: Phylogenetic analysis by maximum likelihood\n\t\t\n\t\t\tZYang\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88bec7723bebd866a8dfd"},"refKey":38},
{"_key":"60c88c067723bebd866a8e14","_id":"references/60c88c067723bebd866a8e14","_rev":"_cfFmPeC---","tei":"\n\t\n\t\tXGBoost: A scalable tree boosting system\n\t\t\n\t\t\tTChen\n\t\t\n\t\t\n\t\t\tCGuestrin\n\t\t\n\t\t10.1145/2939672.2939785\n\t\t\n\t\n\t\n\t\tProceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining -KDD\n\t\t\t\tthe 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining -KDD\n\t\t\n\t\t\t\n\t\t\t16\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88c067723bebd866a8e13"},"refKey":15},
{"_key":"60c88c1f7723bebd866a8e26","_id":"references/60c88c1f7723bebd866a8e26","_rev":"_cfFmPeO---","tei":"\n\t\n\t\tCOVID-19 Mobility Data Network\n\t\t\n\t\tCOVID-19 Mobility Data Network\n\t\t\t\t\n\t\n\tInternet. cited 28 Oct 2020\n\n","document":{"$oid":"60c88c1f7723bebd866a8e25"},"refKey":19},
{"_key":"60c88c1f7723bebd866a8e27","_id":"references/60c88c1f7723bebd866a8e27","_rev":"_cfFmPea---","tei":"\n\t\n\t\tFacebook Disaster Maps: Aggregate Insights for Crisis Response & Recovery\n\t\t\n\t\t\tPMaas\n\t\t\n\t\t10.1145/3292500.3340412\n\t\n\t\n\t\tProceedings of the 25th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining\n\t\t\t\tthe 25th ACM SIGKDD International Conference on Knowledge Discovery & Data MiningNew York, NY, USA\n\t\t\n\t\t\tAssociation for Computing Machinery\n\t\t\t\n\t\t\t3173\n\t\t\n\t\n\n","document":{"$oid":"60c88c1f7723bebd866a8e25"},"refKey":20},
{"_key":"60c88c567723bebd866a8e33","_id":"references/60c88c567723bebd866a8e33","_rev":"_cfFmPei---","tei":"\n\t\n\t\tInvestigating PSMA-targeted radioligand therapy efficacy as a function of cellular PSMA levels and intra-tumoral PSMA heterogeneity\n\t\t\n\t\t\tKCurrent\n\t\t\n\t\t\n\t\t\tCMeyer\n\t\t\n\t\t\n\t\t\tCEMagyar\n\t\t\n\t\n\t\n\t\tClin Cancer Res\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88c567723bebd866a8e32"},"refKey":15},
{"_key":"60c88c5d7723bebd866a8e38","_id":"references/60c88c5d7723bebd866a8e38","_rev":"_cfFmPeu---","tei":"\n\t\n\t\tVisualizing density maps with UCSF Chimera\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1016/j.jsb.2006.06.010\n\t\t16963278\n\t\n\t\n\t\tJournal of Structural Biology\n\t\tJournal of Structural Biology\n\t\t1047-8477\n\t\t\n\t\t\t157\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c88c5d7723bebd866a8e37"},"refKey":20},
{"_key":"60c88c5d7723bebd866a8e39","_id":"references/60c88c5d7723bebd866a8e39","_rev":"_cfFmPe6---","tei":"\n\t\n\t\tRELION-3: new tools for automated high-resolution cryo-EM structure determination\n\t\t\n\t\t\tJasenkoZivanov\n\t\t\t0000-0001-8407-0759\n\t\t\n\t\t\n\t\t\tTakanoriNakane\n\t\t\t0000-0003-2697-2767\n\t\t\n\t\t\n\t\t\tBjörnForsberg\n\t\t\t0000-0002-6247-4063\n\t\t\n\t\t\n\t\t\tDariKimanius\n\t\t\t0000-0002-2662-6373\n\t\t\n\t\t\n\t\t\tWimJ HHagen\n\t\t\t0000-0001-6229-2692\n\t\t\n\t\t\n\t\t\tErikLindahl\n\t\t\t0000-0002-2734-2794\n\t\t\n\t\t\n\t\t\tSjorsH WScheres\n\t\t\t0000-0002-0462-6540\n\t\t\n\t\t10.1101/421123\n\t\t\n\t\n\t\n\t\tNew tools for automated high-resolution cryo-EM structure determination in RELION-3\n\t\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88c5d7723bebd866a8e37"},"refKey":110},
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{"_key":"60c88c787723bebd866a8ea3","_id":"references/60c88c787723bebd866a8ea3","_rev":"_cfFmPfm---","tei":"\n\t\n\t\tggseqlogo: a versatile R package for drawing sequence logos\n\t\t\n\t\t\tOmarWagih\n\t\t\t0000-0002-2162-0431\n\t\t\n\t\t\n\t\t\tGgseqlogo\n\t\t\n\t\t10.1093/bioinformatics/btx469\n\t\t29036507\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c88c787723bebd866a8ea2"},"refKey":49},
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{"_key":"60c88d6a7723bebd866a8f98","_id":"references/60c88d6a7723bebd866a8f98","_rev":"_cfFmPkK---","tei":"\n\t\n\t\tSpecies-level functional profiling of metagenomes and metatranscriptomes\n\t\t\n\t\t\tEAFranzosa\n\t\t\n\t\t\n\t\t\tLJMciver\n\t\t\n\t\t\n\t\t\tGRahnavard\n\t\t\n\t\t\n\t\t\tLRThompson\n\t\t\n\t\t\n\t\t\tMSchirmer\n\t\t\n\t\t\n\t\t\tGWeingart\n\t\t\n\t\t\n\t\t\tKSLipson\n\t\t\n\t\t\n\t\t\tRKnight\n\t\t\n\t\t\n\t\t\tJGCaporaso\n\t\t\n\t\t\n\t\t\tNSegata\n\t\t\n\t\t10.1038/s41592-018-0176-y\n\t\t\n\t\n\t\n\t\tHuttenhower C\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tNat Methods\n\n","document":{"$oid":"60c88d6a7723bebd866a8f96"},"refKey":30},
{"_key":"60c88d6b7723bebd866a8f9d","_id":"references/60c88d6b7723bebd866a8f9d","_rev":"_cfFmPkW---","tei":"\n\t\n\t\tAccurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tDePreter\n\t\t\n\t\t\n\t\t\tKPattyn\n\t\t\n\t\t\n\t\t\tFPoppe\n\t\t\n\t\t\n\t\t\tBVan Roy\n\t\t\n\t\t\n\t\t\tN\n\t\t\n\t\t\n\t\t\tDePaepe\n\t\t\n\t\t\n\t\t\tASpeleman\n\t\t\n\t\t\n\t\t\tF\n\t\t\n\t\tresearch 0034.1-0034.11\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88d6b7723bebd866a8f9c"},"refKey":28},
{"_key":"60c88d7d7723bebd866a8fd6","_id":"references/60c88d7d7723bebd866a8fd6","_rev":"_cfFmPkm---","tei":"\n\t\n\t\tHISAT: a fast spliced aligner with low memory requirements\n\t\t\n\t\t\tDaehwanKim\n\t\t\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\t0000-0002-8859-7432\n\t\t\n\t\t10.1038/nmeth.3317\n\t\t25751142\n\t\tPMC4655817\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c88d7d7723bebd866a8fd5"},"refKey":17},
{"_key":"60c88d7d7723bebd866a8fd7","_id":"references/60c88d7d7723bebd866a8fd7","_rev":"_cfFmPky---","tei":"\n\t\n\t\tFast and accurate long-read alignment with Burrows–Wheeler transform\n\t\t\n\t\t\tHengLi\n\t\t\n\t\t\n\t\t\tRichardDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp698\n\t\t20080505\n\t\tPMC2828108\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c88d7d7723bebd866a8fd5"},"refKey":19},
{"_key":"60c88d8c7723bebd866a8fe0","_id":"references/60c88d8c7723bebd866a8fe0","_rev":"_cfFmPk6---","tei":"\n\t\n\t\tSoftware for computing and annotating genomic ranges\n\t\t\n\t\t\tMLawrence\n\t\t\n\t\n\t\n\t\tPLoS Comp. Biol\n\t\t\n\t\t\t9\n\t\t\te1003118\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88d8c7723bebd866a8fdf"},"refKey":88},
{"_key":"60c88d8c7723bebd866a8fe1","_id":"references/60c88d8c7723bebd866a8fe1","_rev":"_cfFmPlG---","tei":"\n\t\n\t\tThe sequence alignment/map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88d8c7723bebd866a8fdf"},"refKey":87},
{"_key":"60c88d8c7723bebd866a8fe2","_id":"references/60c88d8c7723bebd866a8fe2","_rev":"_cfFmPlS---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88d8c7723bebd866a8fdf"},"refKey":35},
{"_key":"60c88d9a7723bebd866a8ff4","_id":"references/60c88d9a7723bebd866a8ff4","_rev":"_cfFmPle---","tei":"\n\t\n\t\tComplex heatmaps reveal patterns and correlations in multidimensional genomic data\n\t\t\n\t\t\tZGu\n\t\t\n\t\t\n\t\t\tREils\n\t\t\n\t\t\n\t\t\tMSchlesner\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88d9a7723bebd866a8ff3"},"refKey":21},
{"_key":"60c88da77723bebd866a8ffe","_id":"references/60c88da77723bebd866a8ffe","_rev":"_cfFmPlq---","tei":"\n\t\n\t\tNextflow enables reproducible computational workflows\n\t\t\n\t\t\tPaoloDi Tommaso\n\t\t\t0000-0002-5431-190X\n\t\t\n\t\t\n\t\t\tMariaChatzou\n\t\t\n\t\t\n\t\t\tEvanWFloden\n\t\t\n\t\t\n\t\t\tPabloPrietoBarja\n\t\t\n\t\t\n\t\t\tEmilioPalumbo\n\t\t\n\t\t\n\t\t\tCedricNotredame\n\t\t\n\t\t10.1038/nbt.3820\n\t\t28398311\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t35\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c88da77723bebd866a8ffd"},"refKey":57},
{"_key":"60c88da77723bebd866a8fff","_id":"references/60c88da77723bebd866a8fff","_rev":"_cfFmPl2---","tei":"\n\t\n\t\thdbscan: Hierarchical density based clustering\n\t\t\n\t\t\tLelandMcinnes\n\t\t\t0000-0003-2143-6834\n\t\t\n\t\t\n\t\t\tJohnHealy\n\t\t\n\t\t\n\t\t\tSteveAstels\n\t\t\n\t\t10.21105/joss.00205\n\t\n\t\n\t\tThe Journal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t2\n\t\t\t11\n\t\t\t205\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c88da77723bebd866a8ffd"},"refKey":59},
{"_key":"60c88da77723bebd866a9000","_id":"references/60c88da77723bebd866a9000","_rev":"_cfFmPm----","tei":"\n\t\n\t\tUniform manifold approximation and projection for dimension reduction\n\t\t\n\t\t\tLMcinnes\n\t\t\n\t\t\n\t\t\tJHealy\n\t\t\n\t\t\n\t\t\tJMelville\n\t\t\n\t\t\n\t\t\tUmap\n\t\t\n\t\tarXiv:1802.03426\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88da77723bebd866a8ffd"},"refKey":58},
{"_key":"60c88da77723bebd866a9001","_id":"references/60c88da77723bebd866a9001","_rev":"_cfFmPmK---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c88da77723bebd866a8ffd"},"refKey":60},
{"_key":"60c88da77723bebd866a9002","_id":"references/60c88da77723bebd866a9002","_rev":"_cfFmPmW---","tei":"\n\t\n\t\tMEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data\n\t\t\n\t\t\tDanielHHuson\n\t\t\n\t\t\n\t\t\tSinaBeier\n\t\t\n\t\t\n\t\t\tIsabellFlade\n\t\t\n\t\t\n\t\t\tAnnaGórska\n\t\t\t0000-0003-3305-8711\n\t\t\n\t\t\n\t\t\tMohamedEl-Hadidi\n\t\t\t0000-0002-0360-3654\n\t\t\n\t\t\n\t\t\tSuparnaMitra\n\t\t\t0000-0002-9378-1496\n\t\t\n\t\t\n\t\t\tHans-JoachimRuscheweyh\n\t\t\n\t\t\n\t\t\tRewatiTappu\n\t\t\n\t\t10.1371/journal.pcbi.1004957\n\t\t27327495\n\t\tPMC4915700\n\t\t\n\t\n\t\n\t\tPLOS Computational Biology\n\t\tPLoS Comput Biol\n\t\t1553-7358\n\t\t\n\t\t\t12\n\t\t\t6\n\t\t\te1004957\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c88da77723bebd866a8ffd"},"refKey":49},
{"_key":"60c88da77723bebd866a9003","_id":"references/60c88da77723bebd866a9003","_rev":"_cfFmPmi---","tei":"\n\t\n\t\tFastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments\n\t\t\n\t\t\tMorganNPrice\n\t\t\n\t\t\n\t\t\tParamvirSDehal\n\t\t\n\t\t\n\t\t\tAdamPArkin\n\t\t\n\t\t10.1371/journal.pone.0009490\n\t\t20224823\n\t\tPMC2835736\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t5\n\t\t\t3\n\t\t\te9490\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\te9490. [CrossRef\n\n","document":{"$oid":"60c88da77723bebd866a8ffd"},"refKey":61},
{"_key":"60c88da77723bebd866a9004","_id":"references/60c88da77723bebd866a9004","_rev":"_cfFmPmu---","tei":"\n\t\n\t\tAnvi’o: an advanced analysis and visualization platform for ‘omics data\n\t\t\n\t\t\tAMuratEren\n\t\t\n\t\t\n\t\t\tÖzcanCEsen\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tJosephHVineis\n\t\t\n\t\t\n\t\t\tHilaryGMorrison\n\t\t\n\t\t\n\t\t\tMitchellLSogin\n\t\t\n\t\t\n\t\t\tTomODelmont\n\t\t\n\t\t10.7717/peerj.1319\n\t\t26500826\n\t\tPMC4614810\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t2167-8359\n\t\t\n\t\t\t3\n\t\t\te1319\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\t3, e1319. [CrossRef\n\n","document":{"$oid":"60c88da77723bebd866a8ffd"},"refKey":51},
{"_key":"60c88dbc7723bebd866a9039","_id":"references/60c88dbc7723bebd866a9039","_rev":"_cfFmPm2---","tei":"\n\t\n\t\tSecondgeneration PLINK: rising to the challenge of larger and richer datasets\n\t\t\n\t\t\tCCChang\n\t\t\n\t\t\n\t\t\tCCChow\n\t\t\n\t\t\n\t\t\tLCTellier\n\t\t\n\t\t\n\t\t\tSVattikuti\n\t\t\n\t\t\n\t\t\tSMPurcell\n\t\t\n\t\t\n\t\t\tJJLee\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dbc7723bebd866a9038"},"refKey":56},
{"_key":"60c88dbc7723bebd866a903a","_id":"references/60c88dbc7723bebd866a903a","_rev":"_cfFmPnC---","tei":"\n\t\n\t\tGenome-wide efficient mixed-model analysis for association studies\n\t\t\n\t\t\tXZhou\n\t\t\n\t\t\n\t\t\tMStephens\n\t\t\n\t\n\t\n\t\tNat Genet\n\t\t\n\t\t\t44\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dbc7723bebd866a9038"},"refKey":58},
{"_key":"60c88dbc7723bebd866a903b","_id":"references/60c88dbc7723bebd866a903b","_rev":"_cfFmPnO---","tei":"\n\t\n\t\tpROC: an open-source package for R and S+ to analyze and compare ROC curves\n\t\t\n\t\t\tXRobin\n\t\t\n\t\t\n\t\t\tNTurck\n\t\t\n\t\t\n\t\t\tAHainard\n\t\t\n\t\t\n\t\t\tNTiberti\n\t\t\n\t\t\n\t\t\tFLisacek\n\t\t\n\t\t\n\t\t\tJ-CSanchez\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t77\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dbc7723bebd866a9038"},"refKey":67},
{"_key":"60c88dbc7723bebd866a903c","_id":"references/60c88dbc7723bebd866a903c","_rev":"_cfFmPnW---","tei":"\n\t\n\t\tEfficient leave-one-out cross-validation and WAIC for Bayesian models\n\t\t\n\t\t\tAVehtari\n\t\t\n\t\t\n\t\t\tJGabry\n\t\t\n\t\t\n\t\t\tMMagnusson\n\t\t\n\t\t\n\t\t\tYYao\n\t\t\n\t\t\n\t\t\tPBürkner\n\t\t\n\t\t\n\t\t\tTPaananen\n\t\t\n\t\t\n\t\t\tGelmanALoo\n\t\t\n\t\t\n\t\t\n\t\n\tR package version 2.3.1. 2020.\n\n","document":{"$oid":"60c88dbc7723bebd866a9038"},"refKey":66},
{"_key":"60c88dbc7723bebd866a903d","_id":"references/60c88dbc7723bebd866a903d","_rev":"_cfFmPni---","tei":"\n\t\n\t\tStan: a probabilistic programming language\n\t\t\n\t\t\tBCarpenter\n\t\t\n\t\t\n\t\t\tAGelman\n\t\t\n\t\t\n\t\t\tMDHoffman\n\t\t\n\t\t\n\t\t\tDLee\n\t\t\n\t\t\n\t\t\tBGoodrich\n\t\t\n\t\t\n\t\t\tMBetancourt\n\t\t\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t76\n\t\t\t1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dbc7723bebd866a9038"},"refKey":63},
{"_key":"60c88dbc7723bebd866a903e","_id":"references/60c88dbc7723bebd866a903e","_rev":"_cfFmPnu---","tei":"\n\t\n\t\tHaploview: analysis and visualization of LD and haplotype maps\n\t\t\n\t\t\tJCBarrett\n\t\t\n\t\t\n\t\t\tBFry\n\t\t\n\t\t\n\t\t\tJMaller\n\t\t\n\t\t\n\t\t\tMJDaly\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dbc7723bebd866a9038"},"refKey":60},
{"_key":"60c88dbc7723bebd866a903f","_id":"references/60c88dbc7723bebd866a903f","_rev":"_cfFmPn2---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVienna: R Foundation for Statistical Computing\n\n","document":{"$oid":"60c88dbc7723bebd866a9038"},"refKey":64},
{"_key":"60c88dbd7723bebd866a904e","_id":"references/60c88dbd7723bebd866a904e","_rev":"_cfFmPoC---","tei":"\n\t\n\t\tCNS, a program system for structure-determination and refinement\n\t\t\n\t\t\tATBrunger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tPGros\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tJ-SJiang\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tLMRice\n\t\t\n\t\t\n\t\t\tTSimonson\n\t\t\n\t\t10.1107/97809553602060000860\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dbd7723bebd866a904d"},"refKey":44},
{"_key":"60c88dbd7723bebd866a904f","_id":"references/60c88dbd7723bebd866a904f","_rev":"_cfFmPoO---","tei":"\n\t\n\t\tMOLSCRIPT: a program to produce both detailed and schematic plots of protein structures\n\t\t\n\t\t\tPJKraulis\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallog\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dbd7723bebd866a904d"},"refKey":51},
{"_key":"60c88dbd7723bebd866a9050","_id":"references/60c88dbd7723bebd866a9050","_rev":"_cfFmPoW---","tei":"\n\t\n\t\tThe CCP4 suite: programs for protein crystallography\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dbd7723bebd866a904d"},"refKey":42},
{"_key":"60c88dbd7723bebd866a9051","_id":"references/60c88dbd7723bebd866a9051","_rev":"_cfFmPoi---","tei":"\n\t\n\t\tNot your average density\n\t\t\n\t\t\tGerardJKleywegt\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t10.1016/s0969-2126(97)00305-5\n\t\t9438862\n\t\tS0969-2126(97)00305-5\n\t\tark:/67375/6H6-H1C9TQ4P-S\n\t\tF6578EA700DD5F04F0BD7211E46B66708FF211A8\n\t\n\t\n\t\tStructure\n\t\tStructure\n\t\t0969-2126\n\t\t\n\t\t\t5\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c88dbd7723bebd866a904d"},"refKey":48},
{"_key":"60c88dbd7723bebd866a9052","_id":"references/60c88dbd7723bebd866a9052","_rev":"_cfFmPou---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThorton\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallog\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dbd7723bebd866a904d"},"refKey":47},
{"_key":"60c88dbd7723bebd866a9053","_id":"references/60c88dbd7723bebd866a9053","_rev":"_cfFmPo2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tOtwinowski\n\t\t\n\t\n\t\n\t\tMethods in Enzymology\n\t\tMacromolecular Crystallography, Part A (Carter, C. W. & Sweet, R. M.\n\t\t\n\t\t\t276\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dbd7723bebd866a904d"},"refKey":41},
{"_key":"60c88dc97723bebd866a9063","_id":"references/60c88dc97723bebd866a9063","_rev":"_cfFmPpC---","tei":"\n\t\n\t\tA new mathematical model for relative quantification in realtime RT-PCR\n\t\t\n\t\t\tMWPfaffl\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t29\n\t\t\te45\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dc97723bebd866a9062"},"refKey":33},
{"_key":"60c88dc97723bebd866a9064","_id":"references/60c88dc97723bebd866a9064","_rev":"_cfFmPpO---","tei":"\n\t\n\t\tData Analysis Software\n\t\t\n\t\t\tMWPfaffl\n\t\t\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tMKubista\n\t\t\n\t\t\n\t\t\tJLogan\n\t\t\n\t\t\n\t\t\tKEdwards\n\t\t\n\t\t\n\t\t\tNSaunders\n\t\t\n\t\n\t\n\t\tReal-Time PCR: Current Technology and Applications\n\t\t\t\tLondon\n\t\t\n\t\t\tHealth Protection Agency\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dc97723bebd866a9062"},"refKey":36},
{"_key":"60c88dc97723bebd866a9065","_id":"references/60c88dc97723bebd866a9065","_rev":"_cfFmPpW---","tei":"\n\t\n\t\tRelative expression software tool (REST) for group-wise comparison and statistical analysis of relative expression results in real-time PCR\n\t\t\n\t\t\tMWPfaffl\n\t\t\n\t\t\n\t\t\tGWHorgan\n\t\t\n\t\t\n\t\t\tLDempfle\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t30\n\t\t\te36\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dc97723bebd866a9062"},"refKey":34},
{"_key":"60c88dc97723bebd866a9066","_id":"references/60c88dc97723bebd866a9066","_rev":"_cfFmPpi---","tei":"\n\t\n\t\tDetermination of stable housekeeping genes, differentially regulated target genes and sample integrity: BestKeeper-Excel-based tool using pair-wise correlations\n\t\t\n\t\t\tMWPfaffl\n\t\t\n\t\t\n\t\t\tATichopad\n\t\t\n\t\t\n\t\t\tCPrgomet\n\t\t\n\t\t\n\t\t\tTPNeuvians\n\t\t\n\t\n\t\n\t\tBiotechnol. Lett\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dc97723bebd866a9062"},"refKey":35},
{"_key":"60c88dc97723bebd866a9067","_id":"references/60c88dc97723bebd866a9067","_rev":"_cfFmPpu---","tei":"\n\t\n\t\tReference Gene Validation Software for Improved Normalization\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tMKubista\n\t\t\n\t\t\n\t\t\tMWPfaffl\n\t\t\n\t\n\t\n\t\tReal-Time PCR: Current Technology and Applications\n\t\t\t\t\n\t\t\tJLogan\n\t\t\tKEdwards\n\t\t\tNSaunders\n\t\t\n\t\tHealth Protection Agency, London\n\t\t\n\t\t\tCaister Academic Press\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88dc97723bebd866a9062"},"refKey":44},
{"_key":"60c88df87723bebd866a909d","_id":"references/60c88df87723bebd866a909d","_rev":"_cfFmPp2---","tei":"\n\t\n\t\tPrediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence\n\t\t\n\t\t\tNikolajBlom\n\t\t\n\t\t\n\t\t\tThomasSicheritz-Pontén\n\t\t\n\t\t\n\t\t\tRamneekGupta\n\t\t\n\t\t\n\t\t\tSteenGammeltoft\n\t\t\n\t\t\n\t\t\tSørenBrunak\n\t\t\n\t\t10.1002/pmic.200300771\n\t\t15174133\n\t\tark:/67375/WNG-HD5ZNZ2S-G\n\t\t2FC5878BEFE279DA3613D377D3C9BC82A545F1BB\n\t\t\n\t\n\t\n\t\tPROTEOMICS\n\t\tPROTEOMICS\n\t\t1615-9853\n\t\t1615-9861\n\t\t\n\t\t\t4\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c88df87723bebd866a909c"},"refKey":24},
{"_key":"60c88e3b7723bebd866a90a8","_id":"references/60c88e3b7723bebd866a90a8","_rev":"_cfFmPqC---","tei":"\n\t\n\t\tResearch Electronic Data Capture (REDCap)da metadata-driven methodology and workflow process for providing translational research informatics support\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tRThielke\n\t\t\n\t\t\n\t\t\tJPayne\n\t\t\n\t\t\n\t\t\tNGonzalez\n\t\t\n\t\t\n\t\t\tJGConde\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88e3b7723bebd866a90a7"},"refKey":10},
{"_key":"60c88e3b7723bebd866a90a9","_id":"references/60c88e3b7723bebd866a90a9","_rev":"_cfFmPqO---","tei":"\n\t\n\t\tThe REDCap Consortium: building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tRTaylor\n\t\t\n\t\t\n\t\t\tBLMinor\n\t\t\n\t\t\n\t\t\tVElliott\n\t\t\n\t\t\n\t\t\tMFernandez\n\t\t\n\t\t\n\t\t\tO'Neal\n\t\t\n\t\t\n\t\t\tL\n\t\t\n\t\n\t\n\t\tJ Biomed Inform\n\t\t\n\t\t\t95\n\t\t\t103208\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88e3b7723bebd866a90a7"},"refKey":11},
{"_key":"60c88e897723bebd866a90ed","_id":"references/60c88e897723bebd866a90ed","_rev":"_cfFmPqW---","tei":"\n\t\n\t\tCABS-dock web server for the flexible docking of peptides to proteins without prior knowledge of the binding site\n\t\t\n\t\t\tMKurcinski\n\t\t\n\t\t\n\t\t\tMJamroz\n\t\t\n\t\t\n\t\t\tMBlaszczyk\n\t\t\n\t\t\n\t\t\tAKolinski\n\t\t\n\t\t\n\t\t\tSKmiecik\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88e897723bebd866a90ec"},"refKey":42},
{"_key":"60c88e897723bebd866a90ee","_id":"references/60c88e897723bebd866a90ee","_rev":"_cfFmPqi---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tLSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tVersion 1.6\n\n","document":{"$oid":"60c88e897723bebd866a90ec"},"refKey":37},
{"_key":"60c88e897723bebd866a90ef","_id":"references/60c88e897723bebd866a90ef","_rev":"_cfFmPqu---","tei":"\n\t\n\t\tPRODIGY: a web server for predicting the binding affinity of protein-protein complexes\n\t\t\n\t\t\tLCXue\n\t\t\n\t\t\n\t\t\tJPRodrigues\n\t\t\n\t\t\n\t\t\tPLKastritis\n\t\t\n\t\t\n\t\t\tAMBonvin\n\t\t\n\t\t\n\t\t\tAVangone\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88e897723bebd866a90ec"},"refKey":38},
{"_key":"60c88e897723bebd866a90f0","_id":"references/60c88e897723bebd866a90f0","_rev":"_cfFmPq2---","tei":"\n\t\n\t\tPep-Calc.com: a set of web utilities for the calculation of peptide and peptoid properties and automatic mass spectral peak assignment\n\t\t\n\t\t\tSamLear\n\t\t\n\t\t\n\t\t\tStevenLCobb\n\t\t\n\t\t10.1007/s10822-016-9902-7\n\t\t26909892\n\t\tPMC4801989\n\t\t\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t1573-4951\n\t\t\n\t\t\t30\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c88e897723bebd866a90ec"},"refKey":43},
{"_key":"60c88e897723bebd866a90f1","_id":"references/60c88e897723bebd866a90f1","_rev":"_cfFmPrC---","tei":"\n\t\n\t\tHawkDock: a web server to predict and analyze the protein–protein complex based on computational docking and MM/GBSA\n\t\t\n\t\t\tGaoqiWeng\n\t\t\n\t\t\n\t\t\tErchengWang\n\t\t\n\t\t\n\t\t\tZheWang\n\t\t\n\t\t\n\t\t\tHuiLiu\n\t\t\n\t\t\n\t\t\tFengZhu\n\t\t\t0000-0001-8069-0053\n\t\t\n\t\t\n\t\t\tDanLi\n\t\t\n\t\t\n\t\t\tTingjunHou\n\t\t\n\t\t10.1093/nar/gkz397\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c88e897723bebd866a90ec"},"refKey":39},
{"_key":"60c88e897723bebd866a90f2","_id":"references/60c88e897723bebd866a90f2","_rev":"_cfFmPrO---","tei":"\n\t\n\t\t3: Desmond Molecular Dynamics System\n\t\t\n\t\t\tSRelease\n\t\t\n\t\n\t\n\t\tMaestro-Desmond Interoperability Tools, Schr€ odinger\n\t\t\t\tNew York, NY; New York, NY\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tDE Shaw research\n\t\t\n\t\n\n","document":{"$oid":"60c88e897723bebd866a90ec"},"refKey":40},
{"_key":"60c88e8a7723bebd866a9115","_id":"references/60c88e8a7723bebd866a9115","_rev":"_cfFmPrW---","tei":"\n\t\n\t\tArtic Network\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88e8a7723bebd866a9114"},"refKey":31},
{"_key":"60c88e9e7723bebd866a9119","_id":"references/60c88e9e7723bebd866a9119","_rev":"_cfFmPri---","tei":"\n\t\n\t\tSutime: A library for recognizing and normalizing time expressions\n\t\t\n\t\t\tAXChang\n\t\t\n\t\t\n\t\t\tCDManning\n\t\t\n\t\n\t\n\t\tLREC\n\t\t\n\t\t\t2012\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88e9e7723bebd866a9118"},"refKey":11},
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{"_key":"60c88ea07723bebd866a9130","_id":"references/60c88ea07723bebd866a9130","_rev":"_cfFmPsC---","tei":"\n\t\n\t\tA systematic comparison of software dedicated to meta-analysis of causal studies\n\t\t\n\t\t\tLeonBax\n\t\t\n\t\t\n\t\t\tLy-MeeYu\n\t\t\n\t\t\n\t\t\tNoriakiIkeda\n\t\t\n\t\t\n\t\t\tKarelGmMoons\n\t\t\n\t\t10.1186/1471-2288-7-40\n\t\t17845719\n\t\tPMC2048970\n\t\t\n\t\n\t\n\t\tBMC Medical Research Methodology\n\t\tBMC Med Res Methodol\n\t\t1471-2288\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t40\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c88ea07723bebd866a912f"},"refKey":61},
{"_key":"60c88ebf7723bebd866a9140","_id":"references/60c88ebf7723bebd866a9140","_rev":"_cfFmPsO---","tei":"\n\t\n\t\tRestoring function in exhausted CD8 T cells during chronic viral infection\n\t\t\n\t\t\tDLBarber\n\t\t\n\t\t\n\t\t\tEJWherry\n\t\t\n\t\t\n\t\t\tDMasopust\n\t\t\n\t\n\t\n\t\tNature\n\t\t\n\t\t\t439\n\t\t\t7077\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c88ebf7723bebd866a913f"},"refKey":25},
{"_key":"60c88ec17723bebd866a9144","_id":"references/60c88ec17723bebd866a9144","_rev":"_cfFmPsW---","tei":"\n\t\n\t\tWordNet\n\t\t\t\t\n\t\n\thttp://wordnet.princeton.edu/\n\n","document":{"$oid":"60c88ec17723bebd866a9143"},"refKey":21},
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{"_key":"60c88fa57723bebd866a91e2","_id":"references/60c88fa57723bebd866a91e2","_rev":"_cfFmPti---","tei":"\n\t\n\t\tAn experimental determination of the H2S overall mass transfer coefficient from quiescent surfaces at wastewater treatment plants\n\t\t\n\t\t\tJaneMeriSantos\n\t\t\n\t\t\n\t\t\tVirginieKreim\n\t\t\n\t\t\n\t\t\tJean-MichelGuillot\n\t\t\n\t\t\n\t\t\tNeyvalCostaReis\n\t\t\n\t\t\n\t\t\tLeandroMeloDe Sá\n\t\t\n\t\t\n\t\t\tNigelJohnHoran\n\t\t\n\t\t10.1016/j.atmosenv.2012.06.014\n\t\n\t\n\t\tAtmospheric Environment\n\t\tAtmospheric Environment\n\t\t1352-2310\n\t\t\n\t\t\t60\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c88fa57723bebd866a91e1"},"refKey":14},
{"_key":"60c8905f7723bebd866a9258","_id":"references/60c8905f7723bebd866a9258","_rev":"_cfFmPtu---","tei":"\n\t\n\t\tMAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tKKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\t10.1093/nar/gkf436\n\t\t12136088\n\t\tPMC135756\n\t\tark:/67375/HXZ-NRP1F2B9-4\n\t\t5EA93CBE48016E67AE51670E4623847EAB8A8265\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t30\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8905f7723bebd866a9257"},"refKey":10},
{"_key":"60c8905f7723bebd866a9259","_id":"references/60c8905f7723bebd866a9259","_rev":"_cfFmPt2---","tei":"\n\t\n\t\tPAML 4: Phylogenetic Analysis by Maximum Likelihood\n\t\t\n\t\t\tZYang\n\t\t\n\t\t10.1093/molbev/msm088\n\t\t17483113\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8905f7723bebd866a9257"},"refKey":26},
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{"_key":"60c890aa7723bebd866a9290","_id":"references/60c890aa7723bebd866a9290","_rev":"_cfFmPuW---","tei":"\n\t\n\t\tOpen Babel: an open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\t\n\t\t\tCMorley\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\n\t\n\t\tJ. Cheminform\n\t\t\n\t\t\t3\n\t\t\t1\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c890aa7723bebd866a928e"},"refKey":12},
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{"_key":"60c8917c7723bebd866a92fb","_id":"references/60c8917c7723bebd866a92fb","_rev":"_cfFmPvC---","tei":"\n\t\n\t\tAccurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tKDe Preter\n\t\t\n\t\t\n\t\t\tFPattyn\n\t\t\n\t\t\n\t\t\tBPoppe\n\t\t\n\t\t\n\t\t\tNVan Roy\n\t\t\n\t\t\n\t\t\tADe Paepe\n\t\t\n\t\t10.1186/gb-2002-3-7-research0034\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t3\n\t\t\tH34\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8917c7723bebd866a92fa"},"refKey":48},
{"_key":"60c8917c7723bebd866a92fc","_id":"references/60c8917c7723bebd866a92fc","_rev":"_cfFmPvO---","tei":"\n\t\n\t\tA new mathematical model for relative quantification in real-time RT-PCR\n\t\t\n\t\t\tMWPfaffl\n\t\t\n\t\t10.1093/nar/29.9.e45\n\t\t11328886\n\t\tPMC55695\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t29\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8917c7723bebd866a92fa"},"refKey":35},
{"_key":"60c8917c7723bebd866a92fd","_id":"references/60c8917c7723bebd866a92fd","_rev":"_cfFmPvW---","tei":"\n\t\n\t\tNormalization of Real-Time Quantitative Reverse Transcription-PCR Data: A Model-Based Variance Estimation Approach to Identify Genes Suited for Normalization, Applied to Bladder and Colon Cancer Data Sets\n\t\t\n\t\t\tClausLindbjergAndersen\n\t\t\n\t\t\n\t\t\tJensLedetJensen\n\t\t\n\t\t\n\t\t\tTorbenFalckØrntoft\n\t\t\n\t\t10.1158/0008-5472.can-04-0496\n\t\t15289330\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t64\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c8917c7723bebd866a92fa"},"refKey":0},
{"_key":"60c8917c7723bebd866a92fe","_id":"references/60c8917c7723bebd866a92fe","_rev":"_cfFmPvi---","tei":"\n\t\n\t\tPrimer3 on the WWW for General Users and for Biologist Programmers\n\t\t\n\t\t\tSteveRozen\n\t\t\n\t\t\n\t\t\tHelenSkaletsky\n\t\t\n\t\t10.1385/1-59259-192-2:365\n\t\t\n\t\n\t\n\t\tBioinformatics Methods and Protocols\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t2000\n\t\t\t132\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8917c7723bebd866a92fa"},"refKey":38},
{"_key":"60c891887723bebd866a9338","_id":"references/60c891887723bebd866a9338","_rev":"_cfFmPvu---","tei":"\n\t\n\t\tUser-guided 3D active contour segmentation of anatomical structures: Significantly improved efficiency and reliability\n\t\t\n\t\t\tPaulAYushkevich\n\t\t\n\t\t\n\t\t\tJosephPiven\n\t\t\n\t\t\n\t\t\tHeatherCodyHazlett\n\t\t\n\t\t\n\t\t\tRachelGimpelSmith\n\t\t\n\t\t\n\t\t\tSeanHo\n\t\t\n\t\t\n\t\t\tJamesCGee\n\t\t\n\t\t\n\t\t\tGuidoGerig\n\t\t\n\t\t10.1016/j.neuroimage.2006.01.015\n\t\t16545965\n\t\t\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t31\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c891887723bebd866a9337"},"refKey":45},
{"_key":"60c891887723bebd866a9339","_id":"references/60c891887723bebd866a9339","_rev":"_cfFmPv6---","tei":"\n\t\n\t\tRegion of interest analysis using A\n\t\t\n\t\t\tMBrett\n\t\t\n\t\t\n\t\t\tJLAnton\n\t\t\n\t\t\n\t\t\tRValabregue\n\t\t\n\t\t\n\t\t\tJB ; KPoline\n\t\t\n\t\t\n\t\t\tYamamoto\n\t\t\n\t\n\t\n\t\tClinical\n\t\t\n\t\t\t23\n\t\t\t101923\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c891887723bebd866a9337"},"refKey":6},
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{"_key":"60c891897723bebd866a9344","_id":"references/60c891897723bebd866a9344","_rev":"_cfFmPwa---","tei":"\n\t\n\t\tImputing missing covariate values for the Cox model\n\t\t\n\t\t\tIanRWhite\n\t\t\n\t\t\n\t\t\tPatrickRoyston\n\t\t\n\t\t10.1002/sim.3618\n\t\t19452569\n\t\tPMC2998703\n\t\tark:/67375/WNG-CDTD7S7M-N\n\t\t2D31B06DE37C22C0B04511417C1CA53FF21CB689\n\t\t\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t1097-0258\n\t\t\n\t\t\t28\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c891897723bebd866a9341"},"refKey":15},
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{"_key":"60c891917723bebd866a934f","_id":"references/60c891917723bebd866a934f","_rev":"_cfFmPxC---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t2012\n\t\t\t8\n\t\t\t772\n\t\t\n\t\n\n","document":{"$oid":"60c891917723bebd866a934c"},"refKey":37},
{"_key":"60c891917723bebd866a9350","_id":"references/60c891917723bebd866a9350","_rev":"_cfFmPxO---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\t\n\t\t\tFTHeer\n\t\t\n\t\t\n\t\t\tTapDe Beer\n\t\t\n\t\t\n\t\t\tCRempfer\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t2018\n\t\t\tW1\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c891917723bebd866a934c"},"refKey":40},
{"_key":"60c891987723bebd866a9369","_id":"references/60c891987723bebd866a9369","_rev":"_cfFmPxa---","tei":"\n\t\n\t\tR software: Version 3.5.1. R Found Stat Comput Published Online First\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t10.1007/978-3-540-74686-7\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c891987723bebd866a9368"},"refKey":16},
{"_key":"60c891987723bebd866a936a","_id":"references/60c891987723bebd866a936a","_rev":"_cfFmPxi---","tei":"\n\t\n\t\tBase de datos SIDIAP: la historia clínica informatizada de Atención Primaria como fuente de información para la investigación epidemiológica\n\t\t\n\t\t\tBonaventuraBolíbar\n\t\t\n\t\t\n\t\t\tFrancescFina Avilés\n\t\t\n\t\t\n\t\t\tRosaMorros\n\t\t\n\t\t\n\t\t\tMariaDel Mar Garcia-Gil\n\t\t\n\t\t\n\t\t\tEduardHermosilla\n\t\t\n\t\t\n\t\t\tRafaelRamos\n\t\t\n\t\t\n\t\t\tMagdalenaRosell\n\t\t\n\t\t\n\t\t\tJordiRodríguez\n\t\t\n\t\t\n\t\t\tManuelMedina\n\t\t\n\t\t\n\t\t\tSebastianCalero\n\t\t\n\t\t\n\t\t\tDanielPrieto-Alhambra\n\t\t\n\t\t10.1016/j.medcli.2012.01.020\n\t\t22444996\n\t\n\t\n\t\tMedicina Clínica\n\t\tMedicina Clínica\n\t\t0025-7753\n\t\t\n\t\t\t138\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c891987723bebd866a9368"},"refKey":13},
{"_key":"60c891b67723bebd866a9371","_id":"references/60c891b67723bebd866a9371","_rev":"_cfFmPxu---","tei":"\n\t\n\t\tR interface to the levenberg-marquardt nonlinear least-squares algorithm found in MINPACK, plus support for bounds. R package version 1.2-1\n\t\t\n\t\t\tTVElzhov\n\t\t\t\n\t\t\t\t& minpack.\n\t\t\t\n\t\t\n\t\t\n\t\t\tKMMullen\n\t\t\t\n\t\t\t\t& minpack.\n\t\t\t\n\t\t\n\t\t\n\t\t\tA.-NSpiess\n\t\t\t\n\t\t\t\t& minpack.\n\t\t\t\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\t\n\t\t\t\t& minpack.\n\t\t\t\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c891b67723bebd866a9370"},"refKey":6},
{"_key":"60c891cc7723bebd866a937b","_id":"references/60c891cc7723bebd866a937b","_rev":"_cfFmPx6---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c891cc7723bebd866a937a"},"refKey":9},
{"_key":"60c891da7723bebd866a9385","_id":"references/60c891da7723bebd866a9385","_rev":"_cfFmPyG---","tei":"\n\t\n\t\tIntroducing Fireant: A Freeware, Multiplatform Social Media Data-Analysis Tool\n\t\t\n\t\t\tLaurenceAnthony\n\t\t\t0000-0002-8249-2824\n\t\t\n\t\t10.1109/tpc.2018.2870681\n\t\n\t\n\t\tIEEE Transactions on Professional Communication\n\t\tIEEE Trans. Profess. Commun.\n\t\t0361-1434\n\t\t1558-1500\n\t\t\n\t\t\t61\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c891da7723bebd866a9384"},"refKey":2},
{"_key":"60c891dc7723bebd866a938b","_id":"references/60c891dc7723bebd866a938b","_rev":"_cfFmPyO---","tei":"\n\t\n\t\tFlowSense: A Natural Language Interface for Visual Data Exploration within a Dataflow System\n\t\t\n\t\t\tBowenYu\n\t\t\n\t\t\n\t\t\tClaudioTSilva\n\t\t\n\t\t10.1109/tvcg.2019.2934668\n\t\t\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Visualization and Computer Graphics\n\t\tIEEE Trans. Visual. Comput. Graphics\n\t\t1077-2626\n\t\t2160-9306\n\t\t\n\t\t\t26\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tInstitute of Electrical and Electronics Engineers (IEEE)\n\t\t\n\t\n\n","document":{"$oid":"60c891dc7723bebd866a938a"},"refKey":10},
{"_key":"60c891ed7723bebd866a9396","_id":"references/60c891ed7723bebd866a9396","_rev":"_cfFmPya---","tei":"\n\t\n\t\tA. Ma'ayan, Enrichr, A comprehensive gene set enrichment analysis web server 2016 update\n\t\t\n\t\t\tMVKuleshov\n\t\t\n\t\t\n\t\t\tMRJones\n\t\t\n\t\t\n\t\t\tADRouillard\n\t\t\n\t\t\n\t\t\tNFFernandez\n\t\t\n\t\t\n\t\t\tQDuan\n\t\t\n\t\t\n\t\t\tZWang\n\t\t\n\t\t\n\t\t\tSKoplev\n\t\t\n\t\t\n\t\t\tSLJenkins\n\t\t\n\t\t\n\t\t\tKMJagodnik\n\t\t\n\t\t\n\t\t\tALachmann\n\t\t\n\t\t\n\t\t\tMGMcdermott\n\t\t\n\t\t\n\t\t\tCDMonteiro\n\t\t\n\t\t\n\t\t\tGWGundersen\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t44\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c891ed7723bebd866a9395"},"refKey":12},
{"_key":"60c891ed7723bebd866a9397","_id":"references/60c891ed7723bebd866a9397","_rev":"_cfFmPym---","tei":"\n\t\n\t\tGene set analysis toolkit with revamped UIs and APIs\n\t\t\n\t\t\tYLiao\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tEJJaehnig\n\t\t\n\t\t\n\t\t\tZShi\n\t\t\n\t\t\n\t\t\tBZhang\n\t\t\n\t\t\n\t\t\tWebgestalt\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c891ed7723bebd866a9395"},"refKey":14},
{"_key":"60c891ed7723bebd866a9398","_id":"references/60c891ed7723bebd866a9398","_rev":"_cfFmPyu---","tei":"\n\t\n\t\tToppGene Suite for gene list enrichment analysis and candidate gene prioritization\n\t\t\n\t\t\tJChen\n\t\t\n\t\t\n\t\t\tEEBardes\n\t\t\n\t\t\n\t\t\tBJAronow\n\t\t\n\t\t\n\t\t\tAGJegga\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c891ed7723bebd866a9395"},"refKey":11},
{"_key":"60c891ed7723bebd866a9399","_id":"references/60c891ed7723bebd866a9399","_rev":"_cfFmPy6---","tei":"\n\t\n\t\tNetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis\n\t\t\n\t\t\tGuangyanZhou\n\t\t\n\t\t\n\t\t\tOthmanSoufan\n\t\t\n\t\t\n\t\t\tJessicaEwald\n\t\t\n\t\t\n\t\t\tRobertE WHancock\n\t\t\n\t\t\n\t\t\tNiladriBasu\n\t\t\n\t\t\n\t\t\tJianguoXia\n\t\t\t0000-0003-2040-2624\n\t\t\n\t\t10.1093/nar/gkz240\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c891ed7723bebd866a9395"},"refKey":16},
{"_key":"60c891ed7723bebd866a939a","_id":"references/60c891ed7723bebd866a939a","_rev":"_cfFmPzG---","tei":"\n\t\n\t\tThe DisGeNET knowledge platform for disease genomics: 2019 update\n\t\t\n\t\t\tJPinero\n\t\t\n\t\t\n\t\t\tJMRamirez-Anguita\n\t\t\n\t\t\n\t\t\tJSauch-Pitarch\n\t\t\n\t\t\n\t\t\tFRonzano\n\t\t\n\t\t\n\t\t\tECenteno\n\t\t\n\t\t\n\t\t\tFSanz\n\t\t\n\t\t\n\t\t\tLIFurlong\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t48\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c891ed7723bebd866a9395"},"refKey":10},
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{"_key":"60c892387723bebd866a93c8","_id":"references/60c892387723bebd866a93c8","_rev":"_cfFmPza---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c892387723bebd866a93c7"},"refKey":42},
{"_key":"60c892387723bebd866a93c9","_id":"references/60c892387723bebd866a93c9","_rev":"_cfFmPzm---","tei":"\n\t\n\t\tDifferential Expression Analysis for RNA-Seq Data\n\t\t\n\t\t\tRashiGupta\n\t\t\n\t\t\n\t\t\tIshaDewan\n\t\t\n\t\t\n\t\t\tRichaBharti\n\t\t\n\t\t\n\t\t\tAlokBhattacharya\n\t\t\n\t\t10.5402/2012/817508\n\t\t25937942\n\t\tPMC4393055\n\t\t\n\t\n\t\n\t\tISRN Bioinformatics\n\t\tISRN Bioinformatics\n\t\t2090-7346\n\t\t\n\t\t\t2012\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c892387723bebd866a93c7"},"refKey":46},
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{"_key":"60c8927b7723bebd866a93ef","_id":"references/60c8927b7723bebd866a93ef","_rev":"_cfFmP0m---","tei":"\n\t\n\t\tOntobee: A Linked Data Server and Browser for Ontology Terms\n\t\t\n\t\t\tZXiang\n\t\t\n\t\t\n\t\t\tMc\n\t\t\n\t\t\n\t\t\tARuttenberg\n\t\t\n\t\t\n\t\t\tYHe\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8927b7723bebd866a93ed"},"refKey":40},
{"_key":"60c8927d7723bebd866a93f7","_id":"references/60c8927d7723bebd866a93f7","_rev":"_cfFmP0y---","tei":"\n\t\n\t\tMiXCR: software for comprehensive adaptive immunity profiling\n\t\t\n\t\t\tDmitriyABolotin\n\t\t\n\t\t\n\t\t\tStanislavPoslavsky\n\t\t\n\t\t\n\t\t\tIgorMitrophanov\n\t\t\t0000-0002-5370-2706\n\t\t\n\t\t\n\t\t\tMikhailShugay\n\t\t\t0000-0001-7826-7942\n\t\t\n\t\t\n\t\t\tIlgarZMamedov\n\t\t\n\t\t\n\t\t\tEkaterinaVPutintseva\n\t\t\n\t\t\n\t\t\tDmitriyMChudakov\n\t\t\t0000-0003-0430-790X\n\t\t\n\t\t10.1038/nmeth.3364\n\t\t25924071\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t12\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8927d7723bebd866a93f6"},"refKey":22},
{"_key":"60c892987723bebd866a9402","_id":"references/60c892987723bebd866a9402","_rev":"_cfFmP1----","tei":"\n\t\n\t\tThe package adehabitat for the R software: tool for the analysis of space and habitat use by animals\n\t\t\n\t\t\tCCalenge\n\t\t\n\t\n\t\n\t\tEcol Model\n\t\t\n\t\t\t197\n\t\t\t1035\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c892987723bebd866a9401"},"refKey":50},
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{"_key":"60c892f67723bebd866a9471","_id":"references/60c892f67723bebd866a9471","_rev":"_cfFmP5u---","tei":"\n\t\n\t\tAntibody structure determination using a combination of homology modeling, energy-based refinement, and loop prediction\n\t\t\n\t\t\tKaiZhu\n\t\t\n\t\t\n\t\t\tTylerDay\n\t\t\n\t\t\n\t\t\tDoraWarshaviak\n\t\t\n\t\t\n\t\t\tColleenMurrett\n\t\t\n\t\t\n\t\t\tRichardFriesner\n\t\t\n\t\t\n\t\t\tDavidPearlman\n\t\t\n\t\t10.1002/prot.24551\n\t\t24619874\n\t\tPMC5282925\n\t\tark:/67375/WNG-CNPQX37J-K\n\t\tAA15B87111AE407236B27D975E73C7D33D0E8C04\n\t\t\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t82\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c892f67723bebd866a946f"},"refKey":56},
{"_key":"60c892f67723bebd866a9472","_id":"references/60c892f67723bebd866a9472","_rev":"_cfFmP52---","tei":"\n\t\n\t\tScaling and assessment of data quality\n\t\t\n\t\t\tPEvans\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t62\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c892f67723bebd866a946f"},"refKey":18},
{"_key":"60c892f67723bebd866a9473","_id":"references/60c892f67723bebd866a9473","_rev":"_cfFmP6C---","tei":"\n\t\n\t\tUCSF Chimera--a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c892f67723bebd866a946f"},"refKey":40},
{"_key":"60c892f67723bebd866a9474","_id":"references/60c892f67723bebd866a9474","_rev":"_cfFmP6O---","tei":"\n\t\n\t\tABodyBuilder: Automated antibody structure prediction with data–driven accuracy estimation\n\t\t\n\t\t\tJinwooLeem\n\t\t\n\t\t\n\t\t\tJamesDunbar\n\t\t\n\t\t\n\t\t\tGuyGeorges\n\t\t\n\t\t\n\t\t\tJiyeShi\n\t\t\n\t\t\n\t\t\tCharlotteMDeane\n\t\t\n\t\t10.1080/19420862.2016.1205773\n\t\t27392298\n\t\tPMC5058620\n\t\t\n\t\n\t\n\t\tmAbs\n\t\tmAbs\n\t\t1942-0862\n\t\t1942-0870\n\t\t\n\t\t\t8\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\n","document":{"$oid":"60c892f67723bebd866a946f"},"refKey":35},
{"_key":"60c892f67723bebd866a9475","_id":"references/60c892f67723bebd866a9475","_rev":"_cfFmP6a---","tei":"\n\t\n\t\tThePDB_REDOserver for macromolecular structure model optimization\n\t\t\n\t\t\tRobbiePJoosten\n\t\t\n\t\t\n\t\t\tFeiLong\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t\n\t\t\tAnastassisPerrakis\n\t\t\n\t\t10.1107/s2052252514009324\n\t\t25075342\n\t\tPMC4107921\n\t\t\n\t\n\t\n\t\tIUCrJ\n\t\tInt Union Crystallogr J\n\t\t2052-2525\n\t\t\n\t\t\t1\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c892f67723bebd866a946f"},"refKey":26},
{"_key":"60c892f67723bebd866a9476","_id":"references/60c892f67723bebd866a9476","_rev":"_cfFmP6i---","tei":"\n\t\n\t\tRecent developments in software for the automation of crystallographic macromolecular structure determination\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t10.1016/s0959-440x(00)00132-9\n\t\t11042455\n\t\tS0959-440X(00)00132-9\n\t\tark:/67375/6H6-G7Q94KD3-H\n\t\tE7F00791112658814D56C871009098BE55948E30\n\t\n\t\n\t\tCurrent Opinion in Structural Biology\n\t\tCurrent Opinion in Structural Biology\n\t\t0959-440X\n\t\t\n\t\t\t10\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c892f67723bebd866a946f"},"refKey":0},
{"_key":"60c893057723bebd866a9492","_id":"references/60c893057723bebd866a9492","_rev":"_cfFmP6u---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893057723bebd866a9491"},"refKey":35},
{"_key":"60c893057723bebd866a9493","_id":"references/60c893057723bebd866a9493","_rev":"_cfFmP66---","tei":"\n\t\n\t\tUCSF ChimeraX: Meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tJHMorris\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893057723bebd866a9491"},"refKey":13},
{"_key":"60c893057723bebd866a9494","_id":"references/60c893057723bebd866a9494","_rev":"_cfFmP7C---","tei":"\n\t\n\t\tEMAN2: an extensible image processing suite for electron microscopy\n\t\t\n\t\t\tGTang\n\t\t\n\t\t\n\t\t\tLPeng\n\t\t\n\t\t\n\t\t\tPRBaldwin\n\t\t\n\t\t\n\t\t\tDSMann\n\t\t\n\t\t\n\t\t\tWJiang\n\t\t\n\t\t\n\t\t\tIRees\n\t\t\n\t\t\n\t\t\tSJLudtke\n\t\t\n\t\n\t\n\t\tJ. Struct. Biol\n\t\t\n\t\t\t157\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893057723bebd866a9491"},"refKey":49},
{"_key":"60c893057723bebd866a9495","_id":"references/60c893057723bebd866a9495","_rev":"_cfFmP7O---","tei":"\n\t\n\t\tAutomated map sharpening by maximization of detail and connectivity\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\t0000-0001-6384-0320\n\t\t\n\t\t\n\t\t\tOlegSobolev\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t10.1101/247049\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c893057723bebd866a9491"},"refKey":51},
{"_key":"60c893057723bebd866a9496","_id":"references/60c893057723bebd866a9496","_rev":"_cfFmP7a---","tei":"\n\t\n\t\tAnisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy\n\t\t\n\t\t\tShawnQZheng\n\t\t\n\t\t\n\t\t\tEugenePalovcak\n\t\t\n\t\t\n\t\t\tJean-PaulArmache\n\t\t\n\t\t\n\t\t\tYifanCheng\n\t\t\n\t\t\n\t\t\tDavidAAgard\n\t\t\n\t\t10.1101/061960\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c893057723bebd866a9491"},"refKey":71},
{"_key":"60c893057723bebd866a9497","_id":"references/60c893057723bebd866a9497","_rev":"_cfFmP7m---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893057723bebd866a9491"},"refKey":0},
{"_key":"60c893057723bebd866a9498","_id":"references/60c893057723bebd866a9498","_rev":"_cfFmP7u---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tFValentin\n\t\t\n\t\t\n\t\t\tIMWallace\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893057723bebd866a9491"},"refKey":26},
{"_key":"60c893057723bebd866a9499","_id":"references/60c893057723bebd866a9499","_rev":"_cfFmP76---","tei":"\n\t\n\t\tNew tools for the analysis and validation of Cryo-EM maps and atomic models\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tBrunoPKlaholz\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tBillyKPoon\n\t\t\n\t\t\n\t\t\tOlegVSobolev\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tAlexandreUrzhumtsev\n\t\t\n\t\t10.1101/279844\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Struct. Biol\n\t\t\n\t\t\t74\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c893057723bebd866a9491"},"refKey":1},
{"_key":"60c893057723bebd866a949a","_id":"references/60c893057723bebd866a949a","_rev":"_cfFmP8G---","tei":"\n\t\n\t\tPROPKA3: Consistent Treatment of Internal and Surface Residues in Empirical pKa Predictions\n\t\t\n\t\t\tMHOlsson\n\t\t\n\t\t\n\t\t\tCRSøndergaard\n\t\t\n\t\t\n\t\t\tMRostkowski\n\t\t\n\t\t\n\t\t\tJHJensen\n\t\t\n\t\n\t\n\t\tJ. Chem. Theory Comput\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893057723bebd866a9491"},"refKey":31},
{"_key":"60c893057723bebd866a949b","_id":"references/60c893057723bebd866a949b","_rev":"_cfFmP8O---","tei":"\n\t\n\t\tImproved Treatment of Ligands and Coupling Effects in Empirical Calculation and Rationalization of pKa Values\n\t\t\n\t\t\tCRSøndergaard\n\t\t\n\t\t\n\t\t\tMHOlsson\n\t\t\n\t\t\n\t\t\tMRostkowski\n\t\t\n\t\t\n\t\t\tJHJensen\n\t\t\n\t\n\t\n\t\tJ. Chem. Theory Comput\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893057723bebd866a9491"},"refKey":46},
{"_key":"60c8934c7723bebd866a94ed","_id":"references/60c8934c7723bebd866a94ed","_rev":"_cfFmP8a---","tei":"\n\t\n\t\tA multi-crystal method for extracting obscured crystallographic states from conventionally uninterpretable electron density\n\t\t\n\t\t\tNicholasMPearce\n\t\t\n\t\t\n\t\t\tTobiasKrojer\n\t\t\n\t\t\n\t\t\tAnthonyRBradley\n\t\t\n\t\t\n\t\t\tPatrickCollins\n\t\t\t0000-0002-6265-9922\n\t\t\n\t\t\n\t\t\tRadosławPNowak\n\t\t\n\t\t\n\t\t\tRomainTalon\n\t\t\n\t\t\n\t\t\tBrianDMarsden\n\t\t\n\t\t\n\t\t\tSebastianKelm\n\t\t\n\t\t\n\t\t\tJiyeShi\n\t\t\n\t\t\n\t\t\tCharlotteMDeane\n\t\t\t0000-0003-1388-2252\n\t\t\n\t\t\n\t\t\tFrankVon Delft\n\t\t\t0000-0003-0378-0017\n\t\t\n\t\t10.1038/ncomms15123\n\t\t28436492\n\t\tPMC5413968\n\t\t\n\t\n\t\n\t\tNature Communications\n\t\tNat Commun\n\t\t2041-1723\n\t\t\n\t\t\t8\n\t\t\t1\n\t\t\t15123\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c8934c7723bebd866a94ec"},"refKey":42},
{"_key":"60c8934c7723bebd866a94ee","_id":"references/60c8934c7723bebd866a94ee","_rev":"_cfFmP8q---","tei":"\n\t\n\t\tDecision making in xia2\n\t\t\n\t\t\tGWinter\n\t\t\n\t\t\n\t\t\tCM CLobley\n\t\t\n\t\t\n\t\t\tSMPrince\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8934c7723bebd866a94ec"},"refKey":69},
{"_key":"60c8934c7723bebd866a94ef","_id":"references/60c8934c7723bebd866a94ef","_rev":"_cfFmP82---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. Sect. D.-Struct. Biol\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8934c7723bebd866a94ec"},"refKey":72},
{"_key":"60c8934c7723bebd866a94f0","_id":"references/60c8934c7723bebd866a94f0","_rev":"_cfFmP9C---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPREvans\n\t\t\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D\n\t\t\n\t\t\t69\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8934c7723bebd866a94ec"},"refKey":70},
{"_key":"60c893507723bebd866a9500","_id":"references/60c893507723bebd866a9500","_rev":"_cfFmP9O---","tei":"\n\t\n\t\tPHENIX: Building new software for automated crystallographic structure determination\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tActa Crystallogr D\n\t\t\n\t\t\t58\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893507723bebd866a94ff"},"refKey":37},
{"_key":"60c893507723bebd866a9501","_id":"references/60c893507723bebd866a9501","_rev":"_cfFmP9W---","tei":"\n\t\n\t\tCoot: Model-building tools for molecular graphics\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\n\t\n\t\tActa Crystallogr D\n\t\t\n\t\t\t60\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893507723bebd866a94ff"},"refKey":38},
{"_key":"60c893507723bebd866a9502","_id":"references/60c893507723bebd866a9502","_rev":"_cfFmP9i---","tei":"\n\t\n\t\tOptimal description of a protein structure in terms of multiple groups undergoing TLS motion\n\t\t\n\t\t\tJayPainter\n\t\t\n\t\t\n\t\t\tEthanAMerritt\n\t\t\n\t\t10.1107/s0907444906005270\n\t\t16552146\n\t\tark:/67375/WNG-FC63GJWS-B\n\t\t479D3D7E91E2D3CEBC80F006DABA41C92203ED47\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t62\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c893507723bebd866a94ff"},"refKey":40},
{"_key":"60c8938f7723bebd866a9524","_id":"references/60c8938f7723bebd866a9524","_rev":"_cfFmP9y---","tei":"\n\t\n\t\tMeeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8938f7723bebd866a9523"},"refKey":18},
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{"_key":"60c8938f7723bebd866a9526","_id":"references/60c8938f7723bebd866a9526","_rev":"_cfFmQ-G---","tei":"\n\t\n\t\tUCSF Chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\n\t\n\t\tJournal of computational chemistry\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8938f7723bebd866a9523"},"refKey":50},
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{"_key":"60c8938f7723bebd866a9528","_id":"references/60c8938f7723bebd866a9528","_rev":"_cfFmQ-e---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJournal of molecular graphics\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8938f7723bebd866a9523"},"refKey":28},
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{"_key":"60c893927723bebd866a9535","_id":"references/60c893927723bebd866a9535","_rev":"_cfFmQ-y---","tei":"\n\t\n\t\tAdvanced Bayesian multilevel modeling with the R package brms\n\t\t\n\t\t\tP-CBürkner\n\t\t\n\t\t10.32614/RJ-2018-017\n\t\n\t\n\t\tR Journal\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893927723bebd866a9533"},"refKey":51},
{"_key":"60c893927723bebd866a9536","_id":"references/60c893927723bebd866a9536","_rev":"_cfFmQ_----","tei":"\n\t\n\t\tR: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893927723bebd866a9533"},"refKey":52},
{"_key":"60c893927723bebd866a9537","_id":"references/60c893927723bebd866a9537","_rev":"_cfFmQ_K---","tei":"\n\t\n\t\tDoing meta-analysis in R: a hands-on guide\n\t\t\n\t\t\tMHarrer\n\t\t\n\t\t\n\t\t\tPCuijpers\n\t\t\n\t\t\n\t\t\tTAFurukawa\n\t\t\n\t\t\n\t\t\tDDEbert\n\t\t\n\t\t10.5281/zenodo.2551803\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893927723bebd866a9533"},"refKey":53},
{"_key":"60c893b47723bebd866a9546","_id":"references/60c893b47723bebd866a9546","_rev":"_cfFmQ_W---","tei":"\n\t\n\t\tLinkedGeoData: Adding a Spatial Dimension to the Web of Data\n\t\t\n\t\t\tSörenAuer\n\t\t\n\t\t\n\t\t\tJensLehmann\n\t\t\n\t\t\n\t\t\tSebastianHellmann\n\t\t\n\t\t10.1007/978-3-642-04930-9_46\n\t\tark:/67375/HCB-9W4C78DN-Z\n\t\t10A32E6E6108E7346770A016C02FD86597B62241\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tABernstein\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t5823\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893b47723bebd866a9545"},"refKey":0},
{"_key":"60c893c97723bebd866a9560","_id":"references/60c893c97723bebd866a9560","_rev":"_cfFmQ_e---","tei":"\n\t\n\t\tAutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOlegTrott\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21334\n\t\t19499576\n\t\tPMC3041641\n\t\tark:/67375/WNG-RW8L5TL2-G\n\t\t4E9BFB7586BE5C9BD62C7BFF997C88C1A5FFD30A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c893c97723bebd866a955f"},"refKey":50},
{"_key":"60c893d77723bebd866a9573","_id":"references/60c893d77723bebd866a9573","_rev":"_cfFmQ_q---","tei":"\n\t\n\t\tUCSF ChimeraX: structure visualization for researchers, educators, and developers\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t10.1002/pro.3943\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c893d77723bebd866a9572"},"refKey":104},
{"_key":"60c894057723bebd866a9585","_id":"references/60c894057723bebd866a9585","_rev":"_cfFmQ_2---","tei":"\n\t\n\t\tHow Indians responded to the Arogya Setu app?\n\t\t\n\t\t\tPBKodali\n\t\t\n\t\t\n\t\t\tSHense\n\t\t\n\t\t\n\t\t\tSKopparty\n\t\t\n\t\t\n\t\t\tGRKalapala\n\t\t\n\t\t\n\t\t\tBHaloi\n\t\t\n\t\n\t\n\t\tIndian J Public Health\n\t\t\n\t\t\t64\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tSupplement\n\n","document":{"$oid":"60c894057723bebd866a9584"},"refKey":14},
{"_key":"60c894457723bebd866a963d","_id":"references/60c894457723bebd866a963d","_rev":"_cfFmQA----","tei":"\n\t\n\t\tExploreDTI: A graphical toolbox for processing, analyzing, and visualizing diffusion MR data\n\t\t\n\t\t\tALeemans\n\t\t\n\t\t\n\t\t\tBJeurissen\n\t\t\n\t\t\n\t\t\tJSijbers\n\t\t\n\t\t\n\t\t\tDJones\n\t\t\n\t\t\n\t\t\t\n\t\t\t3537\n\t\t\n\t\n\n","document":{"$oid":"60c894457723bebd866a963c"},"refKey":38},
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{"_key":"60c894c47723bebd866a968a","_id":"references/60c894c47723bebd866a968a","_rev":"_cfFmQAW---","tei":"\n\t\n\t\tUniversity of Wisconsin School of Medicine Public Health. 2015 Area Deprivation Index v2\n\t\tGeopy 2.0.0\n\t\t\n\t\t\n\t\t\t\n\t\t\t28\n\t\t\n\t\n\n","document":{"$oid":"60c894c47723bebd866a9689"},"refKey":23},
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{"_key":"60c894e77723bebd866a9699","_id":"references/60c894e77723bebd866a9699","_rev":"_cfFmQAq---","tei":"\n\t\n\t\tImproved method for predicting linear B-cell epitopes\n\t\t\n\t\t\tJELarsen\n\t\t\n\t\t\n\t\t\tOLund\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunome Res\n\t\t\n\t\t\t2\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c894e77723bebd866a9698"},"refKey":9},
{"_key":"60c894e77723bebd866a96a0","_id":"references/60c894e77723bebd866a96a0","_rev":"_cfFmQA2---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\n\t\n\t\tR Foundation for Statistical Computing\n\t\t\t\tVienna (Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c894e77723bebd866a969f"},"refKey":15},
{"_key":"60c895787723bebd866a96ce","_id":"references/60c895787723bebd866a96ce","_rev":"_cfFmQBC---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c895787723bebd866a96cd"},"refKey":16},
{"_key":"60c895787723bebd866a96cf","_id":"references/60c895787723bebd866a96cf","_rev":"_cfFmQBO---","tei":"\n\t\n\t\tThe Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data\n\t\t\n\t\t\tAaronMckenna\n\t\t\n\t\t\n\t\t\tMHanna\n\t\t\n\t\t\n\t\t\tEBanks\n\t\t\n\t\t\n\t\t\tASivachenko\n\t\t\n\t\t\n\t\t\tKCibulskis\n\t\t\n\t\t\n\t\t\tAKernytsky\n\t\t\n\t\t\n\t\t\tKGarimella\n\t\t\n\t\t\n\t\t\tDAltshuler\n\t\t\n\t\t\n\t\t\tSGabriel\n\t\t\n\t\t\n\t\t\tMDaly\n\t\t\n\t\t\n\t\t\tMADepristo\n\t\t\n\t\t10.1101/gr.107524.110\n\t\t20644199\n\t\tPMC2928508\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t20\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c895787723bebd866a96cd"},"refKey":17},
{"_key":"60c895787723bebd866a96d0","_id":"references/60c895787723bebd866a96d0","_rev":"_cfFmQBW---","tei":"\n\t\n\t\tBCFtools/csq: haplotype-aware variant consequences\n\t\t\n\t\t\tPetrDanecek\n\t\t\n\t\t\n\t\t\tShaneAMccarthy\n\t\t\n\t\t10.1093/bioinformatics/btx100\n\t\t28205675\n\t\tPMC5870570\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c895787723bebd866a96cd"},"refKey":18},
{"_key":"60c895787723bebd866a96d1","_id":"references/60c895787723bebd866a96d1","_rev":"_cfFmQBi---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c895787723bebd866a96cd"},"refKey":15},
{"_key":"60c895f97723bebd866a9720","_id":"references/60c895f97723bebd866a9720","_rev":"_cfFmQBu---","tei":"\n\t\n\t\tPVS: a web server for protein sequence variability analysis tuned to facilitate conserved epitope discovery\n\t\t\n\t\t\tMGarcia-Boronat\n\t\t\n\t\t\n\t\t\tCMDiez-Rivero\n\t\t\n\t\t\n\t\t\tELReinherz\n\t\t\n\t\t\n\t\t\tPAReche\n\t\t\n\t\t10.1093/nar/gkn211\n\t\t18442995\n\t\tPMC2447719\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t36\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c895f97723bebd866a971f"},"refKey":9},
{"_key":"60c895f97723bebd866a9721","_id":"references/60c895f97723bebd866a9721","_rev":"_cfFmQB6---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tBLAST PROGRAMS\n\t\t\n\t\n\n","document":{"$oid":"60c895f97723bebd866a971f"},"refKey":7},
{"_key":"60c896167723bebd866a9748","_id":"references/60c896167723bebd866a9748","_rev":"_cfFmQCG---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c896167723bebd866a9747"},"refKey":30},
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{"_key":"60c8982b7723bebd866a989d","_id":"references/60c8982b7723bebd866a989d","_rev":"_cfFmQG2---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAndrewWaterhouse\n\t\t\n\t\t\n\t\t\tMartinoBertoni\n\t\t\n\t\t\n\t\t\tStefanBienert\n\t\t\n\t\t\n\t\t\tGabrielStuder\n\t\t\n\t\t\n\t\t\tGerardoTauriello\n\t\t\n\t\t\n\t\t\tRafalGumienny\n\t\t\n\t\t\n\t\t\tFlorianTHeer\n\t\t\n\t\t\n\t\t\tTjaartA PDe beer\n\t\t\n\t\t\n\t\t\tChristineRempfer\n\t\t\n\t\t\n\t\t\tLorenzaBordoli\n\t\t\n\t\t\n\t\t\tRosalbaLepore\n\t\t\n\t\t\n\t\t\tTorstenSchwede\n\t\t\t0000-0003-2715-335X\n\t\t\n\t\t10.1093/nar/gky427\n\t\t29788355\n\t\tPMC6030848\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8982b7723bebd866a989c"},"refKey":57},
{"_key":"60c8982b7723bebd866a989e","_id":"references/60c8982b7723bebd866a989e","_rev":"_cfFmQHC---","tei":"\n\t\n\t\tEmpirical Scoring Functions for Advanced Protein−Ligand Docking with PLANTS\n\t\t\n\t\t\tOliverKorb\n\t\t\n\t\t\n\t\t\tThomasStützle\n\t\t\n\t\t\n\t\t\tThomasEExner\n\t\t\n\t\t10.1021/ci800298z\n\t\t19125657\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t49\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8982b7723bebd866a989c"},"refKey":12},
{"_key":"60c8982b7723bebd866a989f","_id":"references/60c8982b7723bebd866a989f","_rev":"_cfFmQHO---","tei":"\n\t\n\t\tBLAST+: architecture and applications\n\t\t\n\t\t\tChristiamCamacho\n\t\t\n\t\t\n\t\t\tGeorgeCoulouris\n\t\t\n\t\t\n\t\t\tVahramAvagyan\n\t\t\n\t\t\n\t\t\tNingMa\n\t\t\n\t\t\n\t\t\tJasonPapadopoulos\n\t\t\n\t\t\n\t\t\tKevinBealer\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\n\t\t10.1186/1471-2105-10-421\n\t\t20003500\n\t\tPMC2803857\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t10\n\t\t\t1\n\t\t\t421\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8982b7723bebd866a989c"},"refKey":58},
{"_key":"60c8982b7723bebd866a98a0","_id":"references/60c8982b7723bebd866a98a0","_rev":"_cfFmQHW---","tei":"\n\t\n\t\tHHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment\n\t\t\n\t\t\tMichaelRemmert\n\t\t\n\t\t\n\t\t\tAndreasBiegert\n\t\t\n\t\t\n\t\t\tAndreasHauser\n\t\t\n\t\t\n\t\t\tJohannesSöding\n\t\t\n\t\t10.1038/nmeth.1818\n\t\t22198341\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8982b7723bebd866a989c"},"refKey":59},
{"_key":"60c898587723bebd866a98e8","_id":"references/60c898587723bebd866a98e8","_rev":"_cfFmQHi---","tei":"\n\t\n\t\tPackage'binom'-Binomial Confidence Intervals For Several Parameterizations. Version 1.1-1\n\t\t\n\t\t\tSDorai-Raj\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c898587723bebd866a98e7"},"refKey":17},
{"_key":"60c8985f7723bebd866a98ed","_id":"references/60c8985f7723bebd866a98ed","_rev":"_cfFmQHu---","tei":"\n\t\n\t\tIdentifying and removing the cell-cycle effect from single-cell RNA-Sequencing data\n\t\t\n\t\t\tMartinBarron\n\t\t\n\t\t\n\t\t\tJunLi\n\t\t\n\t\t10.1038/srep33892\n\t\t27670849\n\t\tPMC5037372\n\t\t\n\t\t\n\t\n\t\n\t\tScientific Reports\n\t\tSci Rep\n\t\t2045-2322\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t33892\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c8985f7723bebd866a98ec"},"refKey":18},
{"_key":"60c8986e7723bebd866a98f5","_id":"references/60c8986e7723bebd866a98f5","_rev":"_cfFmQH6---","tei":"\n\t\n\t\tImplementation and applications of EMOD, an individual-based multi-disease modeling platform\n\t\t\n\t\t\tAnnaBershteyn\n\t\t\n\t\t\n\t\t\tJalineGerardin\n\t\t\n\t\t\n\t\t\tDanielBridenbecker\n\t\t\n\t\t\n\t\t\tChristopherWLorton\n\t\t\n\t\t\n\t\t\tJonathanBloedow\n\t\t\n\t\t\n\t\t\tRobertSBaker\n\t\t\n\t\t\n\t\t\tGuillaumeChabot-Couture\n\t\t\n\t\t\n\t\t\tYeChen\n\t\t\n\t\t\n\t\t\tThomasFischle\n\t\t\n\t\t\n\t\t\tKurtFrey\n\t\t\n\t\t\n\t\t\tJillianSGauld\n\t\t\n\t\t\n\t\t\tHaoHu\n\t\t\n\t\t\n\t\t\tAmandaSIzzo\n\t\t\n\t\t\n\t\t\tDanielJKlein\n\t\t\n\t\t\n\t\t\tDejanLukacevic\n\t\t\n\t\t\n\t\t\tKevinAMccarthy\n\t\t\n\t\t\n\t\t\tJoelCMiller\n\t\t\n\t\t\n\t\t\tAndreLinOuedraogo\n\t\t\n\t\t\n\t\t\tTAlexPerkins\n\t\t\n\t\t\n\t\t\tJeffreySteinkraus\n\t\t\n\t\t\n\t\t\tQuirineATen Bosch\n\t\t\n\t\t\n\t\t\tHung-FuTing\n\t\t\n\t\t\n\t\t\tSvetlanaTitova\n\t\t\n\t\t\n\t\t\tBradleyGWagner\n\t\t\n\t\t\n\t\t\tPhilipAWelkhoff\n\t\t\n\t\t\n\t\t\tEdwardAWenger\n\t\t\n\t\t\n\t\t\tChristianNWiswell\n\t\t\n\t\t10.1093/femspd/fty059\n\t\t29986020\n\t\tPMC6067119\n\t\t\n\t\n\t\n\t\tPathogens and Disease\n\t\t2049-632X\n\t\t\n\t\t\t76\n\t\t\t5\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8986e7723bebd866a98f4"},"refKey":23},
{"_key":"60c8988b7723bebd866a9909","_id":"references/60c8988b7723bebd866a9909","_rev":"_cfFmQIC---","tei":"\n\t\n\t\tAROC: Covariate-Adjusted Receiver Operating Characteristic Curve Inference\n\t\t\n\t\t\tMXRodriguez-Alvarez\n\t\t\n\t\t\n\t\t\tVInacio De Carvalho\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8988b7723bebd866a9908"},"refKey":13},
{"_key":"60c898997723bebd866a991e","_id":"references/60c898997723bebd866a991e","_rev":"_cfFmQIO---","tei":"\n\t\n\t\tLoss of Smell and Taste in 2013 European Patients With Mild to Moderate COVID-19\n\t\t\n\t\t\tJRLechien\n\t\t\n\t\t\n\t\t\tCMChiesa-Estomba\n\t\t\n\t\t\n\t\t\tSHans\n\t\t\n\t\t\n\t\t\tMRosariaBarillari\n\t\t\n\t\t\n\t\t\tLJouffe\n\t\t\n\t\t\n\t\t\tSSaussez\n\t\t\n\t\t10.7326/M20-2428\n\t\n\t\n\t\tAnnals of Internal Medicine\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c898997723bebd866a991d"},"refKey":7},
{"_key":"60c898cf7723bebd866a994d","_id":"references/60c898cf7723bebd866a994d","_rev":"_cfFmQIa---","tei":"\n\t\n\t\tBringing the web up to speed with WebAssembly\n\t\t\n\t\t\tAndreasHaas\n\t\t\n\t\t\n\t\t\tAndreasRossberg\n\t\t\n\t\t\n\t\t\tDerekLSchuff\n\t\t\n\t\t\n\t\t\tBenLTitzer\n\t\t\n\t\t\n\t\t\tMichaelHolman\n\t\t\n\t\t\n\t\t\tDanGohman\n\t\t\n\t\t\n\t\t\tLukeWagner\n\t\t\n\t\t\n\t\t\tAlonZakai\n\t\t\n\t\t\n\t\t\tJFBastien\n\t\t\n\t\t10.1145/3140587.3062363\n\t\t\n\t\n\t\n\t\tACM SIGPLAN Notices\n\t\tSIGPLAN Not.\n\t\t0362-1340\n\t\t\n\t\t\t52\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c898cf7723bebd866a994c"},"refKey":1},
{"_key":"60c898d47723bebd866a9952","_id":"references/60c898d47723bebd866a9952","_rev":"_cfFmQIi---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tTableau\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c898d47723bebd866a9951"},"refKey":22},
{"_key":"60c898e97723bebd866a995f","_id":"references/60c898e97723bebd866a995f","_rev":"_cfFmQIu---","tei":"\n\t\n\t\tFlexible and Versatile as a Chameleon—Sophisticated Functions of microRNA-199a\n\t\t\n\t\t\tShenGu\n\t\t\n\t\t\n\t\t\tWai-YeeChan\n\t\t\n\t\t10.3390/ijms13078449\n\t\t22942713\n\t\tPMC3430244\n\t\t\n\t\n\t\n\t\tInternational Journal of Molecular Sciences\n\t\tIJMS\n\t\t1422-0067\n\t\t\n\t\t\t13\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tMDPI AG\n\t\t\n\t\n\n","document":{"$oid":"60c898e97723bebd866a995e"},"refKey":31},
{"_key":"60c898e97723bebd866a9960","_id":"references/60c898e97723bebd866a9960","_rev":"_cfFmQI6---","tei":"\n\t\n\t\tOn the use of sequence homologies to predict protein structure: identical pentapeptides can have completely different conformations.\n\t\t\n\t\t\tWKabsch\n\t\t\n\t\t\n\t\t\tCSander\n\t\t\n\t\t10.1073/pnas.81.4.1075\n\t\t6422466\n\t\tPMC344767\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t81\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c898e97723bebd866a995e"},"refKey":3},
{"_key":"60c898e97723bebd866a996a","_id":"references/60c898e97723bebd866a996a","_rev":"_cfFmQJC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tSKlein\n\t\t\n\t\t\n\t\t\tMStaring\n\t\t\n\t\t\n\t\n\telastix, see [12, 27\n\n","document":{"$oid":"60c898e97723bebd866a9969"},"refKey":9},
{"_key":"60c898e97723bebd866a996b","_id":"references/60c898e97723bebd866a996b","_rev":"_cfFmQJO---","tei":"\n\t\n\t\tSimpleElastix, see\n\t\t\n\t\t\tKMarstal\n\t\t\n\t\t\n\t\t\t18\n\t\t\n\t\n\n","document":{"$oid":"60c898e97723bebd866a9969"},"refKey":15},
{"_key":"60c898e97723bebd866a996c","_id":"references/60c898e97723bebd866a996c","_rev":"_cfFmQJa---","tei":"\n\t\n\t\t\n\t\t\tLIbanez\n\t\t\n\t\tITK, see\n\t\t\t\t\n\t\t\t33\n\t\t\n\t\n\n","document":{"$oid":"60c898e97723bebd866a9969"},"refKey":7},
{"_key":"60c898e97723bebd866a996d","_id":"references/60c898e97723bebd866a996d","_rev":"_cfFmQJi---","tei":"\n\t\n\t\tWilliams' Strategies to Orchestrate Renzulli's Triad\n\t\t\n\t\t\tTWilliams\n\t\t\n\t\t\n\t\t\tCKelley\n\t\t\n\t\t10.1177/107621757900200401\n\t\t\n\t\n\t\n\t\tG/C/T\n\t\tG/C/T\n\t\t0164-9728\n\t\t\n\t\t\t2\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c898e97723bebd866a9969"},"refKey":30},
{"_key":"60c898e97723bebd866a996e","_id":"references/60c898e97723bebd866a996e","_rev":"_cfFmQJu---","tei":"\n\t\n\t\tGNU parallel -the command-line power tool, see\n\t\t\n\t\t\tOTange\n\t\t\n\t\t\n\t\t\t29\n\t\t\n\t\n\n","document":{"$oid":"60c898e97723bebd866a9969"},"refKey":28},
{"_key":"60c898f37723bebd866a998f","_id":"references/60c898f37723bebd866a998f","_rev":"_cfFmQJ6---","tei":"\n\t\n\t\tGenome Project Data Processing Subgroup. The Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGRAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c898f37723bebd866a998e"},"refKey":50},
{"_key":"60c898f37723bebd866a9990","_id":"references/60c898f37723bebd866a9990","_rev":"_cfFmQKG---","tei":"\n\t\n\t\tmethylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles\n\t\t\n\t\t\tAltunaAkalin\n\t\t\n\t\t\n\t\t\tMatthiasKormaksson\n\t\t\n\t\t\n\t\t\tShengLi\n\t\t\n\t\t\n\t\t\tFrancineEGarrett-Bakelman\n\t\t\n\t\t\n\t\t\tMariaEFigueroa\n\t\t\n\t\t\n\t\t\tAriMelnick\n\t\t\n\t\t\n\t\t\tChristopherEMason\n\t\t\n\t\t10.1186/gb-2012-13-10-r87\n\t\t23034086\n\t\tPMC3491415\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t13\n\t\t\t10\n\t\t\tR87\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c898f37723bebd866a998e"},"refKey":52},
{"_key":"60c898f67723bebd866a999b","_id":"references/60c898f67723bebd866a999b","_rev":"_cfFmQKO---","tei":"\n\t\n\t\t\n\t\t23.0\n\t\n\t\n\t\tArmonk: SPSS. Inc\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tIBM-SPSS Statistics for Windows\n\t\t\n\t\n\n","document":{"$oid":"60c898f67723bebd866a999a"},"refKey":8},
{"_key":"60c899227723bebd866a99ac","_id":"references/60c899227723bebd866a99ac","_rev":"_cfFmQKa---","tei":"\n\t\n\t\tRAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies\n\t\t\n\t\t\tAStamatakis\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c899227723bebd866a99ab"},"refKey":92},
{"_key":"60c899227723bebd866a99ad","_id":"references/60c899227723bebd866a99ad","_rev":"_cfFmQKm---","tei":"\n\t\n\t\tReliable ABC model choice via random forests\n\t\t\n\t\t\tPPudlo\n\t\t\n\t\t\n\t\t\tJMMarin\n\t\t\n\t\t\n\t\t\tAEstoup\n\t\t\n\t\t\n\t\t\tJMCornuet\n\t\t\n\t\t\n\t\t\tMGautier\n\t\t\n\t\t\n\t\t\tCPRobert\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c899227723bebd866a99ab"},"refKey":83},
{"_key":"60c899317723bebd866a99b8","_id":"references/60c899317723bebd866a99b8","_rev":"_cfFmQKu---","tei":"\n\t\n\t\tA flexible spatial scan statistic with a restricted likelihood ratio for detecting disease clusters\n\t\t\n\t\t\tToshiroTango\n\t\t\n\t\t\n\t\t\tKunihikoTakahashi\n\t\t\n\t\t10.1002/sim.5478\n\t\t22807146\n\t\tark:/67375/WNG-0QLRH2B4-7\n\t\tA0A9CFD02DA7FADED0DD10EA8B94C1C3389BB0AF\n\t\t\n\t\n\t\n\t\tStatistics in Medicine\n\t\tStatist. Med.\n\t\t0277-6715\n\t\t\n\t\t\t31\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\tStatistics in Medicine\n\n","document":{"$oid":"60c899317723bebd866a99b7"},"refKey":20},
{"_key":"60c899317723bebd866a99b9","_id":"references/60c899317723bebd866a99b9","_rev":"_cfFmQK6---","tei":"\n\t\n\t\tsf: simple features for R\n\t\t\n\t\t\tEPebesma\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c899317723bebd866a99b7"},"refKey":15},
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{"_key":"60c89b3d7723bebd866a9af1","_id":"references/60c89b3d7723bebd866a9af1","_rev":"_cfFmQPe---","tei":"\n\t\n\t\tThe MERRA-2 Aerosol Reanalysis, 1980 Onward. Part I: System Description and Data Assimilation Evaluation\n\t\t\n\t\t\tCARandles\n\t\t\n\t\t\n\t\t\tAMDa Silva\n\t\t\n\t\t\n\t\t\tVBuchard\n\t\t\n\t\t\n\t\t\tPRColarco\n\t\t\n\t\t\n\t\t\tADarmenov\n\t\t\n\t\t\n\t\t\tRGovindaraju\n\t\t\n\t\t\n\t\t\tASmirnov\n\t\t\n\t\t\n\t\t\tBHolben\n\t\t\n\t\t\n\t\t\tRFerrare\n\t\t\n\t\t\n\t\t\tJHair\n\t\t\n\t\t\n\t\t\tYShinozuka\n\t\t\n\t\t\n\t\t\tCJFlynn\n\t\t\n\t\t10.1175/jcli-d-16-0609.1\n\t\t29576684\n\t\tPMC5859955\n\t\t\n\t\n\t\n\t\tJournal of Climate\n\t\tJ. Climate\n\t\t0894-8755\n\t\t1520-0442\n\t\t\n\t\t\t30\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\tAmerican Meteorological Society\n\t\t\n\t\n\n","document":{"$oid":"60c89b3d7723bebd866a9af0"},"refKey":52},
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{"_key":"60c89b4c7723bebd866a9b22","_id":"references/60c89b4c7723bebd866a9b22","_rev":"_cfFmQP2---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tLSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c89b4c7723bebd866a9b21"},"refKey":43},
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{"_key":"60c89bc17723bebd866a9b55","_id":"references/60c89bc17723bebd866a9b55","_rev":"_cfFmQQK---","tei":"\n\t\n\t\tSimplifying the implementation of modern scale scoring methods with an automated R package: Automated moderated nonlinear factor analysis (aMNLFA)\n\t\t\n\t\t\tNishaCGottfredson\n\t\t\t0000-0002-4765-7179\n\t\t\n\t\t\n\t\t\tVeronicaTCole\n\t\t\n\t\t\n\t\t\tMichaelLGiordano\n\t\t\n\t\t\n\t\t\tDanielJBauer\n\t\t\n\t\t\n\t\t\tAndreaMHussong\n\t\t\n\t\t\n\t\t\tSusanTEnnett\n\t\t\n\t\t10.1016/j.addbeh.2018.10.031\n\t\t30385076\n\t\n\t\n\t\tAddictive Behaviors\n\t\tAddictive Behaviors\n\t\t0306-4603\n\t\t\n\t\t\t94\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c89bc17723bebd866a9b54"},"refKey":31},
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{"_key":"60c89c097723bebd866a9b7c","_id":"references/60c89c097723bebd866a9b7c","_rev":"_cfFmQQq---","tei":"\n\t\n\t\tSciPy 1.0: fundamental algorithms for scientific computing in Python\n\t\t\n\t\t\tPVirtanen\n\t\t\n\t\t\n\t\t\tRGommers\n\t\t\n\t\t\n\t\t\tTEOliphant\n\t\t\n\t\t\n\t\t\tMHaberland\n\t\t\n\t\t\n\t\t\tTReddy\n\t\t\n\t\t\n\t\t\tDCournapeau\n\t\t\n\t\t\n\t\t\tEBurovski\n\t\t\n\t\t\n\t\t\tPPeterson\n\t\t\n\t\t\n\t\t\tWWeckesser\n\t\t\n\t\t\n\t\t\tJBright\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c89c097723bebd866a9b7b"},"refKey":31},
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{"_key":"60c89c907723bebd866a9be9","_id":"references/60c89c907723bebd866a9be9","_rev":"_cfFmQRW---","tei":"\n\t\n\t\tThe SWISS-MODEL workspace: a web-based environment for protein structure homology modelling\n\t\t\n\t\t\tKArnold\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\t\n\t\t\tJKopp\n\t\t\n\t\t\n\t\t\tTSchwede\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c89c907723bebd866a9be8"},"refKey":0},
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{"_key":"60c89d3d7723bebd866a9c61","_id":"references/60c89d3d7723bebd866a9c61","_rev":"_cfFmQSu---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c89d3d7723bebd866a9c60"},"refKey":39},
{"_key":"60c89d487723bebd866a9c6c","_id":"references/60c89d487723bebd866a9c6c","_rev":"_cfFmQS6---","tei":"\n\t\n\t\t\n\t\t\tIncRstudio\n\t\t\n\t\t\n\t\t\tServer\n\t\t\n\t\t\n\t\t\tBoston\n\t\t\n\t\t\n\t\t\tMa: Rstudio\n\t\t\n\t\t\n\t\tInc; 2016. 25. International Society for Disease Surveillance. NSSP Data Quality Workgroup\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c89d487723bebd866a9c6b"},"refKey":24},
{"_key":"60c89dc77723bebd866a9cb8","_id":"references/60c89dc77723bebd866a9cb8","_rev":"_cfFmQTC---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c89dc77723bebd866a9cb7"},"refKey":23},
{"_key":"60c89e027723bebd866a9cd1","_id":"references/60c89e027723bebd866a9cd1","_rev":"_cfFmQTO---","tei":"\n\t\n\t\tVMD: Visual molecular dynamics\n\t\t\n\t\t\tWilliamHumphrey\n\t\t\n\t\t\n\t\t\tAndrewDalke\n\t\t\n\t\t\n\t\t\tKlausSchulten\n\t\t\n\t\t10.1016/0263-7855(96)00018-5\n\t\t8744570\n\t\t0263-7855(96)00018-5\n\t\tark:/67375/6H6-BXZWJ05D-M\n\t\t826C9E15BEBD4F117A7CD8C161EF5BF170F59B52\n\t\t\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t14\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c89e027723bebd866a9cd0"},"refKey":19},
{"_key":"60c89e027723bebd866a9cd2","_id":"references/60c89e027723bebd866a9cd2","_rev":"_cfFmQTa---","tei":"\n\t\n\t\tLEA3D: A Computer-Aided Ligand Design for Structure-Based Drug Design\n\t\t\n\t\t\tDominiqueDouguet\n\t\t\n\t\t\n\t\t\tHélèneMunier-Lehmann\n\t\t\n\t\t\n\t\t\tGillesLabesse\n\t\t\n\t\t\n\t\t\tSylviePochet\n\t\t\n\t\t10.1021/jm0492296\n\t\t15801836\n\t\t\n\t\n\t\n\t\tJournal of Medicinal Chemistry\n\t\tJ. Med. Chem.\n\t\t0022-2623\n\t\t1520-4804\n\t\t\n\t\t\t48\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c89e027723bebd866a9cd0"},"refKey":12},
{"_key":"60c89e027723bebd866a9cd3","_id":"references/60c89e027723bebd866a9cd3","_rev":"_cfFmQTi---","tei":"\n\t\n\t\tLigPlot+: Multiple Ligand–Protein Interaction Diagrams for Drug Discovery\n\t\t\n\t\t\tRomanALaskowski\n\t\t\n\t\t\n\t\t\tMarkBSwindells\n\t\t\n\t\t10.1021/ci200227u\n\t\t21919503\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t51\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c89e027723bebd866a9cd0"},"refKey":31},
{"_key":"60c89e027723bebd866a9cd4","_id":"references/60c89e027723bebd866a9cd4","_rev":"_cfFmQTu---","tei":"\n\t\n\t\tCHARMM36 all-atom additive protein force field: Validation based on comparison to NMR data\n\t\t\n\t\t\tJingHuang\n\t\t\n\t\t\n\t\t\tAlexanderDMackerell\n\t\t\n\t\t10.1002/jcc.23354\n\t\t23832629\n\t\tPMC3800559\n\t\tark:/67375/WNG-7HWQQHWF-9\n\t\t253DCE9C826B1834B692C2D5FEF33E5E45D17CCA\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t34\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c89e027723bebd866a9cd0"},"refKey":17},
{"_key":"60c89e027723bebd866a9cd5","_id":"references/60c89e027723bebd866a9cd5","_rev":"_cfFmQT6---","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c89e027723bebd866a9cd0"},"refKey":34},
{"_key":"60c89e027723bebd866a9cd6","_id":"references/60c89e027723bebd866a9cd6","_rev":"_cfFmQUC---","tei":"\n\t\n\t\tComputational protein–ligand docking and virtual drug screening with the AutoDock suite\n\t\t\n\t\t\tStefanoForli\n\t\t\t0000-0002-5964-7111\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tMichaelEPique\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1038/nprot.2016.051\n\t\t27077332\n\t\tPMC4868550\n\t\t\n\t\t\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t11\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c89e027723bebd866a9cd0"},"refKey":13},
{"_key":"60c89e2b7723bebd866a9d01","_id":"references/60c89e2b7723bebd866a9d01","_rev":"_cfFmQUO---","tei":"\n\t\n\t\tProgram DYNAFIT for the Analysis of Enzyme Kinetic Data: Application to HIV Proteinase\n\t\t\n\t\t\tPKuzmic\n\t\t\n\t\t10.1006/abio.1996.0238\n\t\t8660575\n\t\tS0003-2697(96)90238-9\n\t\tark:/67375/6H6-N8MHC6G9-1\n\t\tB8FD9B89130634FBA9E3CFB815E10605B1554A1B\n\t\t\n\t\n\t\n\t\tAnalytical Biochemistry\n\t\tAnalytical Biochemistry\n\t\t0003-2697\n\t\t\n\t\t\t237\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c89e2b7723bebd866a9d00"},"refKey":38},
{"_key":"60c89e3a7723bebd866a9d07","_id":"references/60c89e3a7723bebd866a9d07","_rev":"_cfFmQUa---","tei":"\n\t\n\t\tImprovement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments\n\t\t\n\t\t\tGTalavera\n\t\t\n\t\t\n\t\t\tJCastresana\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t56\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c89e3a7723bebd866a9d06"},"refKey":16},
{"_key":"60c89e3a7723bebd866a9d08","_id":"references/60c89e3a7723bebd866a9d08","_rev":"_cfFmQUm---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c89e3a7723bebd866a9d06"},"refKey":17},
{"_key":"60c89e3a7723bebd866a9d09","_id":"references/60c89e3a7723bebd866a9d09","_rev":"_cfFmQUu---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c89e3a7723bebd866a9d06"},"refKey":11},
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{"_key":"60c89e3a7723bebd866a9d0b","_id":"references/60c89e3a7723bebd866a9d0b","_rev":"_cfFmQVG---","tei":"\n\t\n\t\tMEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph\n\t\t\n\t\t\tDLi\n\t\t\n\t\t\n\t\t\tC.-MLiu\n\t\t\n\t\t\n\t\t\tRLuo\n\t\t\n\t\t\n\t\t\tKSadakane\n\t\t\n\t\t\n\t\t\tT.-WLam\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c89e3a7723bebd866a9d06"},"refKey":12},
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{"_key":"60c8a4167723bebd866aa51c","_id":"references/60c8a4167723bebd866aa51c","_rev":"_cfFmQpi---","tei":"\n\t\n\t\tStructure validation by Calpha geometry: phi, psi and Cbeta deviation\n\t\t\n\t\t\tSCLovell\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tWBArendall 3rd\n\t\t\n\t\t\n\t\t\tPIDe Bakker\n\t\t\n\t\t\n\t\t\tJMWord\n\t\t\n\t\t\n\t\t\tMGPrisant\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\n\t\n\t\tProteins\n\t\t\n\t\t\t50\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a4167723bebd866aa518"},"refKey":28},
{"_key":"60c8a4167723bebd866aa51d","_id":"references/60c8a4167723bebd866aa51d","_rev":"_cfFmQpu---","tei":"\n\t\n\t\tPhaser crystallographic software\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\n\t\n\t\tJ. Appl. Crystallogr\n\t\t\n\t\t\t40\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a4167723bebd866aa518"},"refKey":24},
{"_key":"60c8a4167723bebd866aa51e","_id":"references/60c8a4167723bebd866aa51e","_rev":"_cfFmQp6---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a4167723bebd866aa518"},"refKey":27},
{"_key":"60c8a4167723bebd866aa51f","_id":"references/60c8a4167723bebd866aa51f","_rev":"_cfFmQqC---","tei":"\n\t\n\t\tESPript: analysis of multiple sequence alignments in postscript\n\t\t\n\t\t\tPGouet\n\t\t\n\t\t\n\t\t\tECourcelle\n\t\t\n\t\t\n\t\t\tDIStuart\n\t\t\n\t\t\n\t\t\tFMetoz\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a4167723bebd866aa518"},"refKey":30},
{"_key":"60c8a4277723bebd866aa53c","_id":"references/60c8a4277723bebd866aa53c","_rev":"_cfFmQqO---","tei":"\n\t\n\t\tA Hybrid Intelligent System Framework for the Prediction of Heart Disease Using Machine Learning Algorithms\n\t\t\n\t\t\tAminUlHaq\n\t\t\t0000-0002-7774-5604\n\t\t\n\t\t\n\t\t\tJianPingLi\n\t\t\t0000-0003-2192-1450\n\t\t\n\t\t\n\t\t\tMuhammadHammadMemon\n\t\t\t0000-0002-8680-1831\n\t\t\n\t\t\n\t\t\tShahNazir\n\t\t\t0000-0003-0126-9944\n\t\t\n\t\t\n\t\t\tRuinanSun\n\t\t\t0000-0002-6181-9816\n\t\t\n\t\t10.1155/2018/3860146\n\t\t\n\t\t\n\t\n\t\n\t\tMobile Information Systems\n\t\tMobile Information Systems\n\t\t1574-017X\n\t\t1875-905X\n\t\t\n\t\t\t2018\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c8a4277723bebd866aa53b"},"refKey":13},
{"_key":"60c8a43c7723bebd866aa551","_id":"references/60c8a43c7723bebd866aa551","_rev":"_cfFmQqa---","tei":"\n\t\n\t\tDownloaded from motions in proteins from conformational change: DynDom version 1.50\n\t\t\n\t\t\tSHayward\n\t\t\n\t\t\n\t\t\tRALee\n\t\t\n\t\t\n\t\n\t\n\t\tJ. Mol. Graph. Model\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tJ. VIROL. on April\n\n","document":{"$oid":"60c8a43c7723bebd866aa550"},"refKey":12},
{"_key":"60c8a43c7723bebd866aa552","_id":"references/60c8a43c7723bebd866aa552","_rev":"_cfFmQqm---","tei":"\n\t\n\t\tSURFNET: A program for visualizing molecular surfaces, cavities, and intermolecular interactions\n\t\t\n\t\t\tRomanALaskowski\n\t\t\n\t\t10.1016/0263-7855(95)00073-9\n\t\t8603061\n\t\t0263-7855(95)00073-9\n\t\tark:/67375/6H6-6PVPHZRP-H\n\t\tE96EAE60B39E0A89A905E08CBEB11AACF110A03A\n\t\n\t\n\t\tJournal of Molecular Graphics\n\t\tJournal of Molecular Graphics\n\t\t0263-7855\n\t\t\n\t\t\t13\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8a43c7723bebd866aa550"},"refKey":17},
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{"_key":"60c8a43c7723bebd866aa554","_id":"references/60c8a43c7723bebd866aa554","_rev":"_cfFmQq6---","tei":"\n\t\n\t\tSize-distribution analysis of macromolecules by sedimentation velocity ultracentrifugation and lamm equation modeling\n\t\t\n\t\t\tPSchuck\n\t\t\n\t\n\t\n\t\tBiophys. J\n\t\t\n\t\t\t78\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a43c7723bebd866aa550"},"refKey":24},
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{"_key":"60c8a43c7723bebd866aa556","_id":"references/60c8a43c7723bebd866aa556","_rev":"_cfFmQrO---","tei":"\n\t\n\t\tLikelihood-enhanced fast translation functions\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tLCStoroni\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D\n\t\t\n\t\t\t61\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a43c7723bebd866aa550"},"refKey":21},
{"_key":"60c8a43c7723bebd866aa557","_id":"references/60c8a43c7723bebd866aa557","_rev":"_cfFmQra---","tei":"\n\t\n\t\tPROCHECK: a program to check the stereochemical quality of protein structures\n\t\t\n\t\t\tRALaskowski\n\t\t\n\t\t\n\t\t\tMWMacarthur\n\t\t\n\t\t\n\t\t\tDSMoss\n\t\t\n\t\t\n\t\t\tJMThornton\n\t\t\n\t\n\t\n\t\tJ. Appl. Cryst\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a43c7723bebd866aa550"},"refKey":18},
{"_key":"60c8a4637723bebd866aa589","_id":"references/60c8a4637723bebd866aa589","_rev":"_cfFmQrm---","tei":"\n\t\n\t\tAssessing interactions in the brain with exact low-resolution electromagnetic tomography\n\t\t\n\t\t\tRDPascual-Marqui\n\t\t\n\t\t\n\t\t\tDLehmann\n\t\t\n\t\t\n\t\t\tMKoukkou\n\t\t\n\t\t\n\t\t\tKKochi\n\t\t\n\t\t\n\t\t\tPAnderer\n\t\t\n\t\t\n\t\t\tBSaletu\n\t\t\n\t\n\t\n\t\tPhilos Trans A Math Phys Eng Sci\n\t\t\n\t\t\t369\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed: 21893527\n\n","document":{"$oid":"60c8a4637723bebd866aa588"},"refKey":32},
{"_key":"60c8a47c7723bebd866aa58e","_id":"references/60c8a47c7723bebd866aa58e","_rev":"_cfFmQru---","tei":"\n\t\n\t\n\t\n\t\tMATLAB. Statistics and Machine Learning Toolbox Version\n\t\t\t\tNatick, MA, USA\n\t\t\n\t\t\t\n\t\t\t11\n\t\t\n\t\n\tMATLAB Release\n\n","document":{"$oid":"60c8a47c7723bebd866aa58d"},"refKey":66},
{"_key":"60c8a4a27723bebd866aa5a0","_id":"references/60c8a4a27723bebd866aa5a0","_rev":"_cfFmQr6---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a4a27723bebd866aa59f"},"refKey":18},
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{"_key":"60c8a50c7723bebd866aa5c5","_id":"references/60c8a50c7723bebd866aa5c5","_rev":"_cfFmQsO---","tei":"\n\t\n\t\tPrimer3 on the WWW for general users and for biologist programmers\n\t\t\n\t\t\tSRozen\n\t\t\n\t\t\n\t\t\tHSkaletsky\n\t\t\n\t\n\t\n\t\tMethods Mol Biol\n\t\t\n\t\t\t132\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a50c7723bebd866aa5c3"},"refKey":15},
{"_key":"60c8a50c7723bebd866aa5c6","_id":"references/60c8a50c7723bebd866aa5c6","_rev":"_cfFmQsa---","tei":"\n\t\n\t\tNIH image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a50c7723bebd866aa5c3"},"refKey":17},
{"_key":"60c8a5907723bebd866aa609","_id":"references/60c8a5907723bebd866aa609","_rev":"_cfFmQsm---","tei":"\n\t\n\t\tSoftware for the analysis and visualization of deep mutational scanning data\n\t\t\n\t\t\tJesseDBloom\n\t\t\n\t\t10.1186/s12859-015-0590-4\n\t\t25990960\n\t\tPMC4491876\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8a5907723bebd866aa608"},"refKey":4},
{"_key":"60c8a5907723bebd866aa60a","_id":"references/60c8a5907723bebd866aa60a","_rev":"_cfFmQsy---","tei":"\n\t\n\t\tUCSF Chimera?A visualization system for exploratory research and analysis\n\t\t\n\t\t\tEricFPettersen\n\t\t\n\t\t\n\t\t\tThomasDGoddard\n\t\t\n\t\t\n\t\t\tConradCHuang\n\t\t\n\t\t\n\t\t\tGregorySCouch\n\t\t\n\t\t\n\t\t\tDanielMGreenblatt\n\t\t\n\t\t\n\t\t\tElaineCMeng\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1002/jcc.20084\n\t\t15264254\n\t\tark:/67375/WNG-CPNGNQ2F-M\n\t\t7F5E235169445BEA0F69F7B51E9520DB4ED272F3\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8a5907723bebd866aa608"},"refKey":46},
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{"_key":"60c8a5ad7723bebd866aa627","_id":"references/60c8a5ad7723bebd866aa627","_rev":"_cfFmQtG---","tei":"\n\t\n\t\tGraph-based genome alignment and genotyping with HISAT2 and HISAT-genotype\n\t\t\n\t\t\tDKim\n\t\t\n\t\t\n\t\t\tJMPaggi\n\t\t\n\t\t\n\t\t\tCPark\n\t\t\n\t\t\n\t\t\tCBennett\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a5ad7723bebd866aa626"},"refKey":4},
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{"_key":"60c8a76d7723bebd866aa813","_id":"references/60c8a76d7723bebd866aa813","_rev":"_cfFmQzu---","tei":"\n\t\n\t\tCAIcal: A combined set of tools to assess codon usage adaptation\n\t\t\n\t\t\tPPuigbo\n\t\t\n\t\t\n\t\t\tIGBravo\n\t\t\n\t\t\n\t\t\tSGarcia-Vallve\n\t\t\n\t\n\t\n\t\tBiol Direct\n\t\t\n\t\t\t3\n\t\t\t38\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a76d7723bebd866aa812"},"refKey":24},
{"_key":"60c8a76d7723bebd866aa814","_id":"references/60c8a76d7723bebd866aa814","_rev":"_cfFmQz2---","tei":"\n\t\n\t\tBayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t10.1017/cbo9780511819049.020\n\t\n\t\n\t\tThe Phylogenetic Handbook\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2007\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a76d7723bebd866aa812"},"refKey":7},
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{"_key":"60c8a78f7723bebd866aa839","_id":"references/60c8a78f7723bebd866aa839","_rev":"_cfFmQ0i---","tei":"\n\t\n\t\tBioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp\n\t\t\n\t\t\tTAHall\n\t\t\n\t\t\n\t\t\t\n\t\t\t41\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a78f7723bebd866aa837"},"refKey":20},
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{"_key":"60c8a7ee7723bebd866aa8d7","_id":"references/60c8a7ee7723bebd866aa8d7","_rev":"_cfFmQ2G---","tei":"\n\t\n\t\tGene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles\n\t\t\n\t\t\tASubramanian\n\t\t\n\t\t\n\t\t\tPTamayo\n\t\t\n\t\t\n\t\t\tVKMootha\n\t\t\n\t\n\t\n\t\tProc Natl Acad Sci U S A\n\t\t\n\t\t\t102\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8a7ee7723bebd866aa8d6"},"refKey":8},
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{"_key":"60c8a8277723bebd866aa933","_id":"references/60c8a8277723bebd866aa933","_rev":"_cfFmQ42---","tei":"\n\t\n\t\tSocial media and flu: Media Twitter accounts as agenda setters\n\t\t\n\t\t\tGiWoongYun\n\t\t\n\t\t\n\t\t\tDavidMorin\n\t\t\n\t\t\n\t\t\tSangheePark\n\t\t\n\t\t\n\t\t\tClaireYoungnyoJoa\n\t\t\n\t\t\n\t\t\tBrettLabbe\n\t\t\n\t\t\n\t\t\tJongsooLim\n\t\t\n\t\t\n\t\t\tSooyoungLee\n\t\t\n\t\t\n\t\t\tDaewonHyun\n\t\t\n\t\t10.1016/j.ijmedinf.2016.04.009\n\t\t27185510\n\t\n\t\n\t\tInternational Journal of Medical Informatics\n\t\tInternational Journal of Medical Informatics\n\t\t1386-5056\n\t\t\n\t\t\t91\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8a8277723bebd866aa92b"},"refKey":37},
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{"_key":"60c8aa077723bebd866aaaba","_id":"references/60c8aa077723bebd866aaaba","_rev":"_cfFmR_S---","tei":"\n\t\n\t\tNew algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0\n\t\t\n\t\t\tSGuindon\n\t\t\n\t\t\n\t\t\tJFDufayard\n\t\t\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tMAnisimova\n\t\t\n\t\t\n\t\t\tWHordijk\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tSyst. Biol\n\t\t\n\t\t\t59\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aa077723bebd866aaab9"},"refKey":11},
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{"_key":"60c8aa077723bebd866aaabc","_id":"references/60c8aa077723bebd866aaabc","_rev":"_cfFmR_m---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t772\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aa077723bebd866aaab9"},"refKey":4},
{"_key":"60c8aa077723bebd866aaabd","_id":"references/60c8aa077723bebd866aaabd","_rev":"_cfFmR_y---","tei":"\n\t\n\t\tHHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tABiegert\n\t\t\n\t\t\n\t\t\tAHauser\n\t\t\n\t\t\n\t\t\tJSöding\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aa077723bebd866aaab9"},"refKey":23},
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{"_key":"60c8aa2b7723bebd866aaad3","_id":"references/60c8aa2b7723bebd866aaad3","_rev":"_cfFmRAS---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tSAnders\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aa2b7723bebd866aaad0"},"refKey":24},
{"_key":"60c8aa2b7723bebd866aaad4","_id":"references/60c8aa2b7723bebd866aaad4","_rev":"_cfFmRAe---","tei":"\n\t\n\t\tSTAR: ultrafast universal RNA-seq aligner\n\t\t\n\t\t\tADobin\n\t\t\n\t\t\n\t\t\tCADavis\n\t\t\n\t\t\n\t\t\tFSchlesinger\n\t\t\n\t\t\n\t\t\tJDrenkow\n\t\t\n\t\t\n\t\t\tCZaleski\n\t\t\n\t\t\n\t\t\tSJha\n\t\t\n\t\t\n\t\t\tPBatut\n\t\t\n\t\t\n\t\t\tMChaisson\n\t\t\n\t\t\n\t\t\tTRGingeras\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aa2b7723bebd866aaad0"},"refKey":23},
{"_key":"60c8aa2d7723bebd866aaae8","_id":"references/60c8aa2d7723bebd866aaae8","_rev":"_cfFmRAq---","tei":"\n\t\n\t\tBayesian evolutionary analysis by sampling trees\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tRemcoRBouckaert\n\t\t\n\t\t10.1017/cbo9781139095112.007\n\t\n\t\n\t\tBayesian Evolutionary Analysis with BEAST\n\t\t\t\t\n\t\t\tCambridge University Press\n\t\t\t2007\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aa2d7723bebd866aaae7"},"refKey":156},
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{"_key":"60c8aa8e7723bebd866aab2c","_id":"references/60c8aa8e7723bebd866aab2c","_rev":"_cfFmRB6---","tei":"\n\t\n\t\tVEGA: a versatile program to convert, handle and visualize molecular structure on Windows-based PCs\n\t\t\n\t\t\tAlessandroPedretti\n\t\t\n\t\t\n\t\t\tLuigiVilla\n\t\t\n\t\t\n\t\t\tGiulioVistoli\n\t\t\n\t\t10.1016/s1093-3263(02)00123-7\n\t\t12413030\n\t\n\t\n\t\tJournal of Molecular Graphics and Modelling\n\t\tJournal of Molecular Graphics and Modelling\n\t\t1093-3263\n\t\t\n\t\t\t21\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8aa8e7723bebd866aab29"},"refKey":24},
{"_key":"60c8aa8e7723bebd866aab2d","_id":"references/60c8aa8e7723bebd866aab2d","_rev":"_cfFmRCC---","tei":"\n\t\n\t\tVEGA – An open platform to develop chemo-bio-informatics applications, using plug-in architecture and script programming\n\t\t\n\t\t\tAlessandroPedretti\n\t\t\n\t\t\n\t\t\tLuigiVilla\n\t\t\n\t\t\n\t\t\tGiulioVistoli\n\t\t\n\t\t10.1023/b:jcam.0000035186.90683.f2\n\t\t15368917\n\t\tark:/67375/VQC-5HV7H16W-6\n\t\t0F71F6FF8B07404A28C44415FDA5746587F4700F\n\t\n\t\n\t\tJournal of Computer-Aided Molecular Design\n\t\tJ Comput Aided Mol Des\n\t\t0920-654X\n\t\t\n\t\t\t18\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8aa8e7723bebd866aab29"},"refKey":25},
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{"_key":"60c8aac77723bebd866aab6c","_id":"references/60c8aac77723bebd866aab6c","_rev":"_cfFmRCu---","tei":"\n\t\n\t\tInvestigation of the freely available easy-to-use software "EZR" for medical statistics\n\t\t\n\t\t\tYKanda\n\t\t\n\t\n\t\n\t\tBone Marrow Transplant\n\t\t\n\t\t\t48\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aac77723bebd866aab6b"},"refKey":18},
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Hippel\n\t\t\n\t\t\n\t\t\tWilliamWalters\n\t\t\n\t\t\n\t\t\tYunhuWan\n\t\t\n\t\t\n\t\t\tMingxunWang\n\t\t\n\t\t\n\t\t\tJonathanWarren\n\t\t\n\t\t\n\t\t\tKyleCWeber\n\t\t\n\t\t\n\t\t\tChaseHdWilliamson\n\t\t\n\t\t\n\t\t\tAmyDWillis\n\t\t\n\t\t\n\t\t\tZhenjiangZechXu\n\t\t\n\t\t\n\t\t\tJesseRZaneveld\n\t\t\n\t\t\n\t\t\tYilongZhang\n\t\t\n\t\t\n\t\t\tQiyunZhu\n\t\t\n\t\t\n\t\t\tRobKnight\n\t\t\n\t\t\n\t\t\tJGregoryCaporaso\n\t\t\t0000-0002-8865-1670\n\t\t\n\t\t10.7287/peerj.preprints.27295v2\n\t\t\n\t\n\t\n\t\tPeerJ Preprints\n\t\tEditor (ed)^(\n\t\t\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\tQIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science\n\n","document":{"$oid":"60c8ab407723bebd866aabc6"},"refKey":17},
{"_key":"60c8ab407723bebd866aabc8","_id":"references/60c8ab407723bebd866aabc8","_rev":"_cfFmRDe---","tei":"\n\t\n\t\tVSEARCH: a versatile open source tool for metagenomics\n\t\t\n\t\t\tTorbjørnRognes\n\t\t\n\t\t\n\t\t\tTomášFlouri\n\t\t\n\t\t\n\t\t\tBenNichols\n\t\t\n\t\t\n\t\t\tChristopherQuince\n\t\t\n\t\t\n\t\t\tFrédéricMahé\n\t\t\n\t\t10.7287/peerj.preprints.2409\n\t\t\n\t\n\t\n\t\tPeerJ\n\t\t\n\t\t\t4\n\t\t\te2584\n\t\t\t\n\t\t\tPeerJ\n\t\t\n\t\n\n","document":{"$oid":"60c8ab407723bebd866aabc6"},"refKey":18},
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{"_key":"60c8aca67723bebd866aad2b","_id":"references/60c8aca67723bebd866aad2b","_rev":"_cfFmRJO---","tei":"\n\t\n\t\tImproved pairwise alignment of genomic DNA\n\t\t\n\t\t\tRSHarris\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tPennsylvania State University\n\t\t\n\t\n\tPh.D. Thesis.\n\n","document":{"$oid":"60c8aca67723bebd866aad2a"},"refKey":32},
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{"_key":"60c8aca67723bebd866aad30","_id":"references/60c8aca67723bebd866aad30","_rev":"_cfFmRKG---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t5\n\t\t\t113\n\t\t\n\t\n\n","document":{"$oid":"60c8aca67723bebd866aad2a"},"refKey":33},
{"_key":"60c8aca67723bebd866aad31","_id":"references/60c8aca67723bebd866aad31","_rev":"_cfFmRKO---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aca67723bebd866aad2a"},"refKey":34},
{"_key":"60c8aca67723bebd866aad32","_id":"references/60c8aca67723bebd866aad32","_rev":"_cfFmRKa---","tei":"\n\t\n\t\tSweepFinder2: increased sensitivity, robustness and flexibility\n\t\t\n\t\t\tMDegiorgio\n\t\t\n\t\t\n\t\t\tCDHuber\n\t\t\n\t\t\n\t\t\tMJHubisz\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aca67723bebd866aad2a"},"refKey":38},
{"_key":"60c8aca67723bebd866aad33","_id":"references/60c8aca67723bebd866aad33","_rev":"_cfFmRKm---","tei":"\n\t\n\t\tphylotree.js - a JavaScript library for application development and interactive data visualization in phylogenetics\n\t\t\n\t\t\tStephenDShank\n\t\t\t0000-0003-0734-9953\n\t\t\n\t\t\n\t\t\tStevenWeaver\n\t\t\n\t\t\n\t\t\tSergeiLKosakovsky Pond\n\t\t\n\t\t10.1186/s12859-018-2283-2\n\t\t30045713\n\t\tPMC6060545\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t19\n\t\t\t1\n\t\t\t276\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c8aca67723bebd866aad2a"},"refKey":45},
{"_key":"60c8aca67723bebd866aad34","_id":"references/60c8aca67723bebd866aad34","_rev":"_cfFmRKy---","tei":"\n\t\n\t\tMSLVP: prediction of multiple subcellular localization of viral proteins using a support vector machine\n\t\t\n\t\t\tAnamikaThakur\n\t\t\n\t\t\n\t\t\tAkankshaRajput\n\t\t\n\t\t\n\t\t\tManojKumar\n\t\t\t0000-0003-3769-052X\n\t\t\n\t\t10.1039/c6mb00241b\n\t\t27272007\n\t\n\t\n\t\tMolecular BioSystems\n\t\tMol. BioSyst.\n\t\t1742-206X\n\t\t1742-2051\n\t\t\n\t\t\t12\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tRoyal Society of Chemistry (RSC)\n\t\t\n\t\n\n","document":{"$oid":"60c8aca67723bebd866aad2a"},"refKey":29},
{"_key":"60c8aca67723bebd866aad35","_id":"references/60c8aca67723bebd866aad35","_rev":"_cfFmRK6---","tei":"\n\t\n\t\tSWAV: a web-based visualization browser for sliding window analysis\n\t\t\n\t\t\tZZhu\n\t\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tXZhou\n\t\t\n\t\n\t\n\t\tSci. Rep\n\t\t\n\t\t\t10\n\t\t\t149\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aca67723bebd866aad2a"},"refKey":43},
{"_key":"60c8aca67723bebd866aad36","_id":"references/60c8aca67723bebd866aad36","_rev":"_cfFmRLG---","tei":"\n\t\n\t\tFastTree 2-approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aca67723bebd866aad2a"},"refKey":35},
{"_key":"60c8acba7723bebd866aad62","_id":"references/60c8acba7723bebd866aad62","_rev":"_cfFmRLS---","tei":"\n\t\n\t\tMaximum entropy modeling of species geographic distributions\n\t\t\n\t\t\tSJPhillips\n\t\t\n\t\t\n\t\t\tRPAnderson\n\t\t\n\t\t\n\t\t\tRESchapire\n\t\t\n\t\n\t\n\t\tEcol. Model\n\t\t\n\t\t\t190\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8acba7723bebd866aad61"},"refKey":26},
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{"_key":"60c8ad357723bebd866aada0","_id":"references/60c8ad357723bebd866aada0","_rev":"_cfFmRMG---","tei":"\n\t\n\t\tClustal W and Clustal X version 2.0\n\t\t\n\t\t\tMALarkin\n\t\t\n\t\t\n\t\t\tGBlackshields\n\t\t\n\t\t\n\t\t\tNPBrown\n\t\t\n\t\t\n\t\t\tRChenna\n\t\t\n\t\t\n\t\t\tPAMcgettigan\n\t\t\n\t\t17846036\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad357723bebd866aad9d"},"refKey":25},
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{"_key":"60c8ad397723bebd866aadae","_id":"references/60c8ad397723bebd866aadae","_rev":"_cfFmRMm---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSöding\n\t\t\n\t\n\t\n\t\tMol. Syst. Biol\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad397723bebd866aadac"},"refKey":13},
{"_key":"60c8ad397723bebd866aadaf","_id":"references/60c8ad397723bebd866aadaf","_rev":"_cfFmRMy---","tei":"\n\t\n\t\tREFMAC5 for the refinement of macromolecular crystal structures\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tPSkubák\n\t\t\n\t\t\n\t\t\tAALebedev\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tRASteiner\n\t\t\n\t\t\n\t\t\tRANicholls\n\t\t\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tFLong\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad397723bebd866aadac"},"refKey":11},
{"_key":"60c8ad597723bebd866aadc7","_id":"references/60c8ad597723bebd866aadc7","_rev":"_cfFmRM6---","tei":"\n\t\n\t\tThe PeptideAtlas project\n\t\t\n\t\t\tFDesiere\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":28},
{"_key":"60c8ad597723bebd866aadc8","_id":"references/60c8ad597723bebd866aadc8","_rev":"_cfFmRNG---","tei":"\n\t\n\t\tProteinQuant Suite: a bundle of automated software tools for label-free quantitative proteomics\n\t\t\n\t\t\tBenjaminMann\n\t\t\n\t\t\n\t\t\tMilanMadera\n\t\t\n\t\t\n\t\t\tQuanhuSheng\n\t\t\n\t\t\n\t\t\tHaixuTang\n\t\t\n\t\t\n\t\t\tYehiaMechref\n\t\t\n\t\t\n\t\t\tMilosVNovotny\n\t\t\n\t\t10.1002/rcm.3781\n\t\t18985620\n\t\tark:/67375/WNG-53HXVFTV-F\n\t\tF89C4DDB22ECCB6D74E066A765AD1E8D055F868C\n\t\n\t\n\t\tRapid Communications in Mass Spectrometry\n\t\tRapid Commun. Mass Spectrom.\n\t\t0951-4198\n\t\t1097-0231\n\t\t\n\t\t\t22\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":59},
{"_key":"60c8ad597723bebd866aadc9","_id":"references/60c8ad597723bebd866aadc9","_rev":"_cfFmRNS---","tei":"\n\t\n\t\tMSQuant, an Open Source Platform for Mass Spectrometry-Based Quantitative Proteomics\n\t\t\n\t\t\tPeterMortensen\n\t\t\n\t\t\n\t\t\tJoostWGouw\n\t\t\n\t\t\n\t\t\tJesperVOlsen\n\t\t\n\t\t\n\t\t\tShao-EnOng\n\t\t\n\t\t\n\t\t\tKristofferT GRigbolt\n\t\t\n\t\t\n\t\t\tJakobBunkenborg\n\t\t\n\t\t\n\t\t\tJürgenCox\n\t\t\n\t\t\n\t\t\tLeonardJFoster\n\t\t\n\t\t\n\t\t\tAlbertJ RHeck\n\t\t\n\t\t\n\t\t\tBlagoyBlagoev\n\t\t\n\t\t\n\t\t\tJensSAndersen\n\t\t\n\t\t\n\t\t\tMatthiasMann\n\t\t\n\t\t10.1021/pr900721e\n\t\t19888749\n\t\n\t\n\t\tJournal of Proteome Research\n\t\tJ. Proteome Res.\n\t\t1535-3893\n\t\t1535-3907\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":67},
{"_key":"60c8ad597723bebd866aadca","_id":"references/60c8ad597723bebd866aadca","_rev":"_cfFmRNe---","tei":"\n\t\n\t\tThe APEX Quantitative Proteomics Tool: Generating protein quantitation estimates from LC-MS/MS proteomics results\n\t\t\n\t\t\tJohnCBraisted\n\t\t\n\t\t\n\t\t\tSrilathaKuntumalla\n\t\t\n\t\t\n\t\t\tChristineVogel\n\t\t\n\t\t\n\t\t\tEdwardMMarcotte\n\t\t\n\t\t\n\t\t\tAlanRRodrigues\n\t\t\n\t\t\n\t\t\tRongWang\n\t\t\n\t\t\n\t\t\tShih-TingHuang\n\t\t\n\t\t\n\t\t\tErikSFerlanti\n\t\t\n\t\t\n\t\t\tAlexanderISaeed\n\t\t\n\t\t\n\t\t\tRobertDFleischmann\n\t\t\n\t\t\n\t\t\tScottNPeterson\n\t\t\n\t\t\n\t\t\tRembertPieper\n\t\t\n\t\t10.1186/1471-2105-9-529\n\t\t19068132\n\t\tPMC2639435\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t529\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":14},
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{"_key":"60c8ad597723bebd866aadcc","_id":"references/60c8ad597723bebd866aadcc","_rev":"_cfFmRNy---","tei":"\n\t\n\t\tPatternLab for proteomics: a tool for differential shotgun proteomics\n\t\t\n\t\t\tPauloCCarvalho\n\t\t\n\t\t\n\t\t\tJulianaSgFischer\n\t\t\n\t\t\n\t\t\tEmilyIChen\n\t\t\n\t\t\n\t\t\tJohnRYates\n\t\t\n\t\t\n\t\t\tValmirCBarbosa\n\t\t\n\t\t10.1186/1471-2105-9-316\n\t\t18644148\n\t\tPMC2488363\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t316\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":20},
{"_key":"60c8ad597723bebd866aadcd","_id":"references/60c8ad597723bebd866aadcd","_rev":"_cfFmRO----","tei":"\n\t\n\t\tSTRING 7--recent developments in the integration and prediction of protein interactions\n\t\t\n\t\t\tCVon Mering\n\t\t\n\t\t\n\t\t\tLJJensen\n\t\t\n\t\t\n\t\t\tMKuhn\n\t\t\n\t\t\n\t\t\tSChaffron\n\t\t\n\t\t\n\t\t\tTDoerks\n\t\t\n\t\t\n\t\t\tBKruger\n\t\t\n\t\t\n\t\t\tBSnel\n\t\t\n\t\t\n\t\t\tPBork\n\t\t\n\t\t10.1093/nar/gkl825\n\t\t17098935\n\t\tPMC1669762\n\t\tark:/67375/HXZ-4S8WD9J6-J\n\t\t86E509FDF0A5194B842E38B57B97BA2456A4184A\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t35\n\t\t\tDatabase\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":95},
{"_key":"60c8ad597723bebd866aadce","_id":"references/60c8ad597723bebd866aadce","_rev":"_cfFmROG---","tei":"\n\t\n\t\tAnalyzing biological network parameters with CentiScaPe\n\t\t\n\t\t\tGScardoni\n\t\t\n\t\t\n\t\t\tMPetterlini\n\t\t\n\t\t\n\t\t\tCLaudanna\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":84},
{"_key":"60c8ad597723bebd866aadcf","_id":"references/60c8ad597723bebd866aadcf","_rev":"_cfFmROS---","tei":"\n\t\n\t\tSBEAMS-Microarray: database software supporting genomic expression analyses for systems biology\n\t\t\n\t\t\tBruzMarzolf\n\t\t\n\t\t\n\t\t\tEricWDeutsch\n\t\t\n\t\t\n\t\t\tPatrickMoss\n\t\t\n\t\t\n\t\t\tDavidCampbell\n\t\t\n\t\t\n\t\t\tMichaelHJohnson\n\t\t\n\t\t\n\t\t\tTimothyGalitski\n\t\t\n\t\t10.1186/1471-2105-7-286\n\t\t16756676\n\t\tPMC1524999\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t286\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":61},
{"_key":"60c8ad597723bebd866aadd0","_id":"references/60c8ad597723bebd866aadd0","_rev":"_cfFmROe---","tei":"\n\t\n\t\tVisANT: data-integrating visual framework for biological networks and modules\n\t\t\n\t\t\tZHu\n\t\t\n\t\t\n\t\t\tJMellor\n\t\t\n\t\t\n\t\t\tJWu\n\t\t\n\t\t\n\t\t\tTYamada\n\t\t\n\t\t\n\t\t\tDHolloway\n\t\t\n\t\t\n\t\t\tCDelisi\n\t\t\n\t\t10.1093/nar/gki431\n\t\t15980487\n\t\tPMC1160192\n\t\tark:/67375/HXZ-0MF5NQPF-G\n\t\t17FE1B502ED3448031F3F117951EB3174E10DE27\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t33\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":41},
{"_key":"60c8ad597723bebd866aadd1","_id":"references/60c8ad597723bebd866aadd1","_rev":"_cfFmROm---","tei":"\n\t\n\t\tPathway studio--the analysis and navigation of molecular networks\n\t\t\n\t\t\tANikitin\n\t\t\n\t\t\n\t\t\tSEgorov\n\t\t\n\t\t\n\t\t\tNDaraselia\n\t\t\n\t\t\n\t\t\tIMazo\n\t\t\n\t\t10.1093/bioinformatics/btg290\n\t\t14594725\n\t\tark:/67375/HXZ-1L3K2SS6-G\n\t\t90FD6A4013A9AC99041FE957A4C6F29DE07CBC1D\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":69},
{"_key":"60c8ad597723bebd866aadd2","_id":"references/60c8ad597723bebd866aadd2","_rev":"_cfFmROy---","tei":"\n\t\n\t\tPATIKA: an integrated visual environment for collaborative construction and analysis of cellular pathways\n\t\t\n\t\t\tEDemir\n\t\t\n\t\t\n\t\t\tOBabur\n\t\t\n\t\t\n\t\t\tUDogrusoz\n\t\t\n\t\t\n\t\t\tAGursoy\n\t\t\n\t\t\n\t\t\tGNisanci\n\t\t\n\t\t\n\t\t\tRCetin-Atalay\n\t\t\n\t\t\n\t\t\tMOzturk\n\t\t\n\t\t10.1093/bioinformatics/18.7.996\n\t\t12117798\n\t\t1460-2059\n\t\tark:/67375/HXZ-9Q9L834M-J\n\t\t55D7F9B4BE86EA9C7AF55D7223036AE04E0FD899\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t18\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":27},
{"_key":"60c8ad597723bebd866aadd3","_id":"references/60c8ad597723bebd866aadd3","_rev":"_cfFmRP----","tei":"\n\t\n\t\tOsprey: a network visualization system\n\t\t\n\t\t\tB-JBreitkreutz\n\t\t\n\t\t\n\t\t\tCStark\n\t\t\n\t\t\n\t\t\tMTyers\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t4\n\t\t\tR22\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":17},
{"_key":"60c8ad597723bebd866aadd4","_id":"references/60c8ad597723bebd866aadd4","_rev":"_cfFmRPK---","tei":"\n\t\n\t\tProViz: protein interaction visualization and exploration\n\t\t\n\t\t\tFIragne\n\t\t\n\t\t\n\t\t\tMNikolski\n\t\t\n\t\t\n\t\t\tBMathieu\n\t\t\n\t\t\n\t\t\tDAuber\n\t\t\n\t\t\n\t\t\tDSherman\n\t\t\n\t\t10.1093/bioinformatics/bth494\n\t\t15347570\n\t\tark:/67375/HXZ-79STLKWN-S\n\t\t257085ACB5854B9C31FB994C9279F577BE14EC7A\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":42},
{"_key":"60c8ad597723bebd866aadd5","_id":"references/60c8ad597723bebd866aadd5","_rev":"_cfFmRPS---","tei":"\n\t\n\t\tBioNetBuilder: automatic integration of biological networks\n\t\t\n\t\t\tIAvila-Campillo\n\t\t\n\t\t\n\t\t\tKDrew\n\t\t\n\t\t\n\t\t\tJLin\n\t\t\n\t\t\n\t\t\tDJReiss\n\t\t\n\t\t\n\t\t\tRBonneau\n\t\t\n\t\t10.1093/bioinformatics/btl604\n\t\t17138585\n\t\tark:/67375/HXZ-581B8L8Q-4\n\t\t064A31BFC9BDD446036DF442542AE9C8528A9914\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t23\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":5},
{"_key":"60c8ad597723bebd866aadd6","_id":"references/60c8ad597723bebd866aadd6","_rev":"_cfFmRPe---","tei":"\n\t\n\t\tMINT: a Molecular INTeraction database\n\t\t\n\t\t\tAndreasZanzoni\n\t\t\n\t\t\n\t\t\tLuisaMontecchi-Palazzi\n\t\t\n\t\t\n\t\t\tMicheleQuondam\n\t\t\n\t\t\n\t\t\tGabrieleAusiello\n\t\t\n\t\t\n\t\t\tManuelaHelmer-Citterich\n\t\t\n\t\t\n\t\t\tGianniCesareni\n\t\t\n\t\t10.1016/s0014-5793(01)03293-8\n\t\t11911893\n\t\t\n\t\n\t\n\t\tFEBS Letters\n\t\t0014-5793\n\t\t\n\t\t\t513\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":103},
{"_key":"60c8ad597723bebd866aadd7","_id":"references/60c8ad597723bebd866aadd7","_rev":"_cfFmRPq---","tei":"\n\t\n\t\tThe MIPS mammalian protein-protein interaction database\n\t\t\n\t\t\tPPagel\n\t\t\n\t\t\n\t\t\tSKovac\n\t\t\n\t\t\n\t\t\tMOesterheld\n\t\t\n\t\t\n\t\t\tBBrauner\n\t\t\n\t\t\n\t\t\tIDunger-Kaltenbach\n\t\t\n\t\t\n\t\t\tGFrishman\n\t\t\n\t\t\n\t\t\tCMontrone\n\t\t\n\t\t\n\t\t\tPMark\n\t\t\n\t\t\n\t\t\tVStümp Fl En\n\t\t\n\t\t\n\t\t\tH-WMewes\n\t\t\n\t\t\n\t\t\tARuepp\n\t\t\n\t\t\n\t\t\tDFrishman\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":72},
{"_key":"60c8ad597723bebd866aadd8","_id":"references/60c8ad597723bebd866aadd8","_rev":"_cfFmRPy---","tei":"\n\t\n\t\tProlinks: a database of protein functional linkages derived from coevolution\n\t\t\n\t\t\tPMBowers\n\t\t\n\t\t\n\t\t\tMPellegrini\n\t\t\n\t\t\n\t\t\tMJThompson\n\t\t\n\t\t\n\t\t\tJFierro\n\t\t\n\t\t\n\t\t\tTOYeates\n\t\t\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t5\n\t\t\tR35\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad597723bebd866aadc6"},"refKey":13},
{"_key":"60c8ad867723bebd866aae31","_id":"references/60c8ad867723bebd866aae31","_rev":"_cfFmRQ----","tei":"\n\t\n\t\tStatistical methods for detecting differentially abundant features in clinical metagenomic samples\n\t\t\n\t\t\tJRWhite\n\t\t\n\t\t\n\t\t\tNNagarajan\n\t\t\n\t\t\n\t\t\tMPop\n\t\t\n\t\n\t\n\t\tPLoS Comput Biol\n\t\t\n\t\t\t5\n\t\t\te1000352\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad867723bebd866aae30"},"refKey":57},
{"_key":"60c8ad8b7723bebd866aae38","_id":"references/60c8ad8b7723bebd866aae38","_rev":"_cfFmRQK---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad8b7723bebd866aae37"},"refKey":140},
{"_key":"60c8ad8b7723bebd866aae39","_id":"references/60c8ad8b7723bebd866aae39","_rev":"_cfFmRQW---","tei":"\n\t\n\t\tRecent developments in the MAFFT multiple sequence alignment program\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tHToh\n\t\t\n\t\t10.1093/bib/bbn013\n\t\t18372315\n\t\t\n\t\n\t\n\t\tBriefings in Bioinformatics\n\t\tBriefings in Bioinformatics\n\t\t1467-5463\n\t\t1477-4054\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ad8b7723bebd866aae37"},"refKey":139},
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{"_key":"60c8ad8b7723bebd866aae3b","_id":"references/60c8ad8b7723bebd866aae3b","_rev":"_cfFmRQq---","tei":"\n\t\n\t\tSPAdes: a new genome assembly algorithm and its applications to single-cell sequencing\n\t\t\n\t\t\tABankevich\n\t\t\n\t\t\n\t\t\tSNurk\n\t\t\n\t\t\n\t\t\tDAntipov\n\t\t\n\t\n\t\n\t\tJ Comput Biol\n\t\t\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad8b7723bebd866aae37"},"refKey":137},
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{"_key":"60c8ad9f7723bebd866aae68","_id":"references/60c8ad9f7723bebd866aae68","_rev":"_cfFmRRe---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\t772\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ad9f7723bebd866aae66"},"refKey":45},
{"_key":"60c8adcd7723bebd866aae84","_id":"references/60c8adcd7723bebd866aae84","_rev":"_cfFmRRq---","tei":"\n\t\n\t\tMEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t10.1093/molbev/msm092\n\t\t17488738\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t24\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8adcd7723bebd866aae83"},"refKey":40},
{"_key":"60c8adcd7723bebd866aae85","_id":"references/60c8adcd7723bebd866aae85","_rev":"_cfFmRR2---","tei":"\n\t\n\t\tBLAST: at the core of a powerful and diverse set of sequence analysis tools\n\t\t\n\t\t\tSMcginnis\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t10.1093/nar/gkh435\n\t\t15215342\n\t\tPMC441573\n\t\tark:/67375/HXZ-DNQRBT4D-X\n\t\t85C52E7BD297069F378D827F9C4501FB5D43BAD6\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8adcd7723bebd866aae83"},"refKey":34},
{"_key":"60c8adcd7723bebd866aae86","_id":"references/60c8adcd7723bebd866aae86","_rev":"_cfFmRS----","tei":"\n\t\n\t\tSOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler\n\t\t\n\t\t\tRuibangLuo\n\t\t\n\t\t\n\t\t\tBinghangLiu\n\t\t\n\t\t\n\t\t\tYinlongXie\n\t\t\n\t\t\n\t\t\tZhenyuLi\n\t\t\n\t\t\n\t\t\tWeihuaHuang\n\t\t\n\t\t\n\t\t\tJianyingYuan\n\t\t\n\t\t\n\t\t\tGuangzhuHe\n\t\t\n\t\t\n\t\t\tYanxiangChen\n\t\t\n\t\t\n\t\t\tQiPan\n\t\t\n\t\t\n\t\t\tYunjieLiu\n\t\t\n\t\t\n\t\t\tJingboTang\n\t\t\n\t\t\n\t\t\tGengxiongWu\n\t\t\n\t\t\n\t\t\tHaoZhang\n\t\t\n\t\t\n\t\t\tYujianShi\n\t\t\n\t\t\n\t\t\tYongLiu\n\t\t\n\t\t\n\t\t\tChangYu\n\t\t\n\t\t\n\t\t\tBoWang\n\t\t\n\t\t\n\t\t\tYaoLu\n\t\t\n\t\t\n\t\t\tChangleiHan\n\t\t\n\t\t\n\t\t\tDavidWCheung\n\t\t\n\t\t\n\t\t\tSiu-MingYiu\n\t\t\n\t\t\n\t\t\tShaoliangPeng\n\t\t\n\t\t\n\t\t\tZhuXiaoqian\n\t\t\n\t\t\n\t\t\tGuangmingLiu\n\t\t\n\t\t\n\t\t\tXiangkeLiao\n\t\t\n\t\t\n\t\t\tYingruiLi\n\t\t\n\t\t\n\t\t\tHuanmingYang\n\t\t\n\t\t\n\t\t\tJianWang\n\t\t\n\t\t\n\t\t\tTak-WahLam\n\t\t\n\t\t\n\t\t\tJunWang\n\t\t\n\t\t10.1186/2047-217x-1-18\n\t\t23587118\n\t\tPMC3626529\n\t\t\n\t\t\n\t\n\t\n\t\tGigaScience\n\t\tGigaSci\n\t\t2047-217X\n\t\t\n\t\t\t1\n\t\t\t1\n\t\t\t18\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8adcd7723bebd866aae83"},"refKey":35},
{"_key":"60c8adcd7723bebd866aae87","_id":"references/60c8adcd7723bebd866aae87","_rev":"_cfFmRSK---","tei":"\n\t\n\t\tMetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads\n\t\t\n\t\t\tToshiakiNamiki\n\t\t\n\t\t\n\t\t\tTsuyoshiHachiya\n\t\t\n\t\t\n\t\t\tHideakiTanaka\n\t\t\n\t\t\n\t\t\tYasubumiSakakibara\n\t\t\n\t\t10.1093/nar/gks678\n\t\t22821567\n\t\tPMC3488206\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8adcd7723bebd866aae83"},"refKey":37},
{"_key":"60c8adcd7723bebd866aae88","_id":"references/60c8adcd7723bebd866aae88","_rev":"_cfFmRSW---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8adcd7723bebd866aae83"},"refKey":33},
{"_key":"60c8add57723bebd866aae94","_id":"references/60c8add57723bebd866aae94","_rev":"_cfFmRSi---","tei":"\n\t\n\t\tHemI: a toolkit for illustrating heatmaps\n\t\t\n\t\t\tWDeng\n\t\t\n\t\t\n\t\t\tYWang\n\t\t\n\t\t\n\t\t\tZLiu\n\t\t\n\t\t\n\t\t\tHCheng\n\t\t\n\t\t\n\t\t\tYXue\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t9\n\t\t\te111988\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8add57723bebd866aae93"},"refKey":29},
{"_key":"60c8add57723bebd866aae95","_id":"references/60c8add57723bebd866aae95","_rev":"_cfFmRSq---","tei":"\n\t\n\t\tVMD: visual molecular dynamics\n\t\t\n\t\t\tWHumphrey\n\t\t\n\t\t\n\t\t\tADalke\n\t\t\n\t\t\n\t\t\tKSchulten\n\t\t\n\t\n\t\n\t\tJ Mol Graph\n\t\t\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8add57723bebd866aae93"},"refKey":32},
{"_key":"60c8add57723bebd866aae96","_id":"references/60c8add57723bebd866aae96","_rev":"_cfFmRS2---","tei":"\n\t\n\t\tjModelTest 2: more models, new heuristics and parallel computing\n\t\t\n\t\t\tDDarriba\n\t\t\n\t\t\n\t\t\tGLTaboada\n\t\t\n\t\t\n\t\t\tRDoallo\n\t\t\n\t\t\n\t\t\tDPosada\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t772\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8add57723bebd866aae93"},"refKey":21},
{"_key":"60c8add57723bebd866aae97","_id":"references/60c8add57723bebd866aae97","_rev":"_cfFmRTC---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8add57723bebd866aae93"},"refKey":28},
{"_key":"60c8aee97723bebd866aaee0","_id":"references/60c8aee97723bebd866aaee0","_rev":"_cfFmRTK---","tei":"\n\t\n\t\tCOVID-Net: a tailored deep convolutional neural network design for detection of COVID-19 cases from chest X-ray images\n\t\t\n\t\t\tLWang\n\t\t\n\t\t\n\t\t\tZQLin\n\t\t\n\t\t\n\t\t\tAWong\n\t\t\n\t\t10.1038/s41598-020-76550-z\n\t\t\n\t\n\t\n\t\tSci Rep\n\t\t\n\t\t\t10\n\t\t\t19549\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aee97723bebd866aaedf"},"refKey":15},
{"_key":"60c8aef97723bebd866aaf20","_id":"references/60c8aef97723bebd866aaf20","_rev":"_cfFmRTW---","tei":"\n\t\n\t\tXGBoost: a scalable tree boosting system\n\t\t\n\t\t\tTChen\n\t\t\n\t\t\n\t\t\tCGuestrin\n\t\t\n\t\n\t\n\t\tProceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining\n\t\t\t\tthe 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data MiningNew York\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8aef97723bebd866aaf1f"},"refKey":1},
{"_key":"60c8af117723bebd866aaf40","_id":"references/60c8af117723bebd866aaf40","_rev":"_cfFmRTi---","tei":"\n\t\n\t\tJitk: a trustworthy inkernel interpreter infrastructure\n\t\t\n\t\t\tXWang\n\t\t\n\t\t\n\t\t\tDLazar\n\t\t\n\t\t\n\t\t\tNZeldovich\n\t\t\n\t\t\n\t\t\tAChlipala\n\t\t\n\t\t\n\t\t\tZTatlock\n\t\t\n\t\n\t\n\t\tProceedings of the 11th USENIX Symposium on Operating Systems Design and Implementation (OSDI)\n\t\t\t\tthe 11th USENIX Symposium on Operating Systems Design and Implementation (OSDI)Broomfield, CO\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8af117723bebd866aaf3f"},"refKey":39},
{"_key":"60c8af117723bebd866aaf41","_id":"references/60c8af117723bebd866aaf41","_rev":"_cfFmRTq---","tei":"\n\t\n\t\tAliveInLean: A Verified LLVM Peephole Optimization Verifier\n\t\t\n\t\t\tJuneyoungLee\n\t\t\n\t\t\n\t\t\tChung-KilHur\n\t\t\n\t\t\n\t\t\tNunoPLopes\n\t\t\n\t\t10.1007/978-3-030-25543-5_25\n\t\t\n\t\n\t\n\t\tComputer Aided Verification\n\t\t\t\tNew York, NY\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8af117723bebd866aaf3f"},"refKey":18},
{"_key":"60c8af117723bebd866aaf42","_id":"references/60c8af117723bebd866aaf42","_rev":"_cfFmRT2---","tei":"\n\t\n\t\tProvably correct peephole optimizations with alive\n\t\t\n\t\t\tNunoPLopes\n\t\t\n\t\t\n\t\t\tDavidMenendez\n\t\t\n\t\t\n\t\t\tSantoshNagarakatte\n\t\t\n\t\t\n\t\t\tJohnRegehr\n\t\t\n\t\t10.1145/2813885.2737965\n\t\n\t\n\t\tACM SIGPLAN Notices\n\t\tSIGPLAN Not.\n\t\t0362-1340\n\t\t\n\t\t\t50\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c8af117723bebd866aaf3f"},"refKey":20},
{"_key":"60c8af117723bebd866aaf43","_id":"references/60c8af117723bebd866aaf43","_rev":"_cfFmRUC---","tei":"\n\t\n\t\tA library for seccomp filters\n\t\t\n\t\t\tJEdge\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8af117723bebd866aaf3f"},"refKey":9},
{"_key":"60c8af117723bebd866aaf44","_id":"references/60c8af117723bebd866aaf44","_rev":"_cfFmRUK---","tei":"\n\t\n\t\tCombinatorial sketching for finite programs\n\t\t\n\t\t\tArmandoSolar-Lezama\n\t\t\n\t\t\n\t\t\tLiviuTancau\n\t\t\n\t\t\n\t\t\tRastislavBodik\n\t\t\n\t\t\n\t\t\tSanjitSeshia\n\t\t\n\t\t\n\t\t\tVijaySaraswat\n\t\t\n\t\t10.1145/1168919.1168907\n\t\n\t\n\t\tACM SIGARCH Computer Architecture News\n\t\tSIGARCH Comput. Archit. News\n\t\t0163-5964\n\t\t\n\t\t\t34\n\t\t\t5\n\t\t\t404\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c8af117723bebd866aaf3f"},"refKey":36},
{"_key":"60c8af567723bebd866aafe0","_id":"references/60c8af567723bebd866aafe0","_rev":"_cfFmRUW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tCMendez\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tSpatial autocorrelation analysis in R [online\n\n","document":{"$oid":"60c8af567723bebd866aafdf"},"refKey":29},
{"_key":"60c8af567723bebd866aafe1","_id":"references/60c8af567723bebd866aafe1","_rev":"_cfFmRUi---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8af567723bebd866aafdf"},"refKey":36},
{"_key":"60c8af947723bebd866ab020","_id":"references/60c8af947723bebd866ab020","_rev":"_cfFmRUq---","tei":"\n\t\n\t\tUsing GOstats to test gene lists for GO term association\n\t\t\n\t\t\tSFalcon\n\t\t\n\t\t\n\t\t\tRGentleman\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8af947723bebd866ab01f"},"refKey":51},
{"_key":"60c8af947723bebd866ab021","_id":"references/60c8af947723bebd866ab021","_rev":"_cfFmRU2---","tei":"\n\t\n\t\tGgplot2: elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer\n\t\t\n\t\n\n","document":{"$oid":"60c8af947723bebd866ab01f"},"refKey":52},
{"_key":"60c8afbf7723bebd866ab044","_id":"references/60c8afbf7723bebd866ab044","_rev":"_cfFmRVC---","tei":"\n\t\n\t\tProtein intrinsic disorder and influenza virulence: The 1918 H1N1 and H5N1 viruses\n\t\t\n\t\t\tACampen\n\t\t\n\t\t\n\t\t\tRMWilliams\n\t\t\n\t\t\n\t\t\tCJBrown\n\t\t\n\t\t\n\t\t\tJWMeng\n\t\t\n\t\t\n\t\t\tVNUversky\n\t\t\n\t\t\n\t\t\tAKDunker\n\t\t\n\t\t10.2174/092986608785849164\n\t\n\t\n\t\tProtein Peptide Lett\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8afbf7723bebd866ab043"},"refKey":84},
{"_key":"60c8afbf7723bebd866ab045","_id":"references/60c8afbf7723bebd866ab045","_rev":"_cfFmRVK---","tei":"\n\t\n\t\tGlobPlot: exploring protein sequences for globularity and disorder\n\t\t\n\t\t\tRLinding\n\t\t\n\t\t\n\t\t\tRBRussell\n\t\t\n\t\t\n\t\t\tVNeduva\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tGlobplot\n\t\t\n\t\t10.1093/nar/gkg519\n\t\t12824398\n\t\tPMC169197\n\t\tark:/67375/HXZ-2V9RW1K3-1\n\t\tAFD50AF248E3207B91BF74985CE63F1775E3EF8D\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8afbf7723bebd866ab043"},"refKey":83},
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{"_key":"60c8afc77723bebd866ab051","_id":"references/60c8afc77723bebd866ab051","_rev":"_cfFmRVi---","tei":"\n\t\n\t\tStatistical parametric maps in functional imaging: a general linear approach\n\t\t\n\t\t\tKJFriston\n\t\t\n\t\t\n\t\t\tAPHolmes\n\t\t\n\t\t\n\t\t\tKJWorsley\n\t\t\n\t\t\n\t\t\tJ-PPoline\n\t\t\n\t\t\n\t\t\tCDFrith\n\t\t\n\t\t\n\t\t\tRSFrackowiak\n\t\t\n\t\n\t\n\t\tHuman brain mapping\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8afc77723bebd866ab050"},"refKey":10},
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{"_key":"60c8b2757723bebd866ab303","_id":"references/60c8b2757723bebd866ab303","_rev":"_cfFmRdy---","tei":"\n\t\n\t\tModelling Binary Data\n\t\t\n\t\t\tDCollett\n\t\t\n\t\t10.1007/978-1-4899-4475-7\n\t\t\n\t\t\t\n\t\t\tSpringer US\n\t\t\tBoca Raton\n\t\t\n\t\n\n","document":{"$oid":"60c8b2757723bebd866ab301"},"refKey":14},
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{"_key":"60c8b2f17723bebd866ab3a3","_id":"references/60c8b2f17723bebd866ab3a3","_rev":"_cfFmRhG---","tei":"\n\t\n\t\tLoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasets\n\t\t\n\t\t\tAndreasWilm\n\t\t\n\t\t\n\t\t\tPaulinePoh KimAw\n\t\t\n\t\t\n\t\t\tDenisBertrand\n\t\t\n\t\t\n\t\t\tGraceHui TingYeo\n\t\t\n\t\t\n\t\t\tSweeHoeOng\n\t\t\n\t\t\n\t\t\tChangHuaWong\n\t\t\n\t\t\n\t\t\tChieaChuenKhor\n\t\t\n\t\t\n\t\t\tRosemaryPetric\n\t\t\n\t\t\n\t\t\tMartinLloydHibberd\n\t\t\n\t\t\n\t\t\tNiranjanNagarajan\n\t\t\n\t\t10.1093/nar/gks918\n\t\t23066108\n\t\tPMC3526318\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t22\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8b2f17723bebd866ab3a2"},"refKey":34},
{"_key":"60c8b2f17723bebd866ab3a4","_id":"references/60c8b2f17723bebd866ab3a4","_rev":"_cfFmRhS---","tei":"\n\t\n\t\tA program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff\n\t\t\n\t\t\tPabloCingolani\n\t\t\n\t\t\n\t\t\tAdrianPlatts\n\t\t\n\t\t\n\t\t\tLeLilyWang\n\t\t\n\t\t\n\t\t\tMelissaCoon\n\t\t\n\t\t\n\t\t\tTungNguyen\n\t\t\n\t\t\n\t\t\tLuanWang\n\t\t\n\t\t\n\t\t\tSusanJLand\n\t\t\n\t\t\n\t\t\tXiangyiLu\n\t\t\n\t\t\n\t\t\tDouglasMRuden\n\t\t\n\t\t10.4161/fly.19695\n\t\t22728672\n\t\tPMC3679285\n\t\t\n\t\n\t\n\t\tFly\n\t\tFly\n\t\t1933-6934\n\t\t1933-6942\n\t\t\n\t\t\t6\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInforma UK Limited\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8b2f17723bebd866ab3a2"},"refKey":35},
{"_key":"60c8b3027723bebd866ab3be","_id":"references/60c8b3027723bebd866ab3be","_rev":"_cfFmRha---","tei":"\n\t\n\t\tNetMHCpan 4.0: Improved peptide-MHC class I interaction predictions integrating eluted ligand and peptide binding affinity data\n\t\t\n\t\t\tVanessaJurtz\n\t\t\t0000-0003-4452-6605\n\t\t\n\t\t\n\t\t\tSinuPaul\n\t\t\n\t\t\n\t\t\tMassimoAndreatta\n\t\t\n\t\t\n\t\t\tPaoloMarcatili\n\t\t\n\t\t\n\t\t\tBjoernPeters\n\t\t\n\t\t\n\t\t\tMortenNielsen\n\t\t\n\t\t10.1101/149518\n\t\t\n\t\n\t\n\t\tJ Immunol\n\t\t\n\t\t\t199\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8b3027723bebd866ab3bd"},"refKey":8},
{"_key":"60c8b32f7723bebd866ab3cb","_id":"references/60c8b32f7723bebd866ab3cb","_rev":"_cfFmRhm---","tei":"\n\t\n\t\t\n\t\t\tHPagès\n\t\t\n\t\t\n\t\t\tMCarlson\n\t\t\n\t\t\n\t\t\tSFalcon\n\t\t\n\t\t\n\t\t\tNLMaintainer\n\t\t\n\t\t\n\t\t\tPackage 'annotationdbi\n\t\t\n\t\tBioconductor Packag Maint\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b32f7723bebd866ab3ca"},"refKey":25},
{"_key":"60c8b3367723bebd866ab3d7","_id":"references/60c8b3367723bebd866ab3d7","_rev":"_cfFmRhy---","tei":"\n\t\n\t\tPathway studio--the analysis and navigation of molecular networks\n\t\t\n\t\t\tANikitin\n\t\t\n\t\t\n\t\t\tSEgorov\n\t\t\n\t\t\n\t\t\tNDaraselia\n\t\t\n\t\t\n\t\t\tIMazo\n\t\t\n\t\t10.1093/bioinformatics/btg290\n\t\t14594725\n\t\tark:/67375/HXZ-1L3K2SS6-G\n\t\t90FD6A4013A9AC99041FE957A4C6F29DE07CBC1D\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t19\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b3367723bebd866ab3d6"},"refKey":22},
{"_key":"60c8b3367723bebd866ab3d8","_id":"references/60c8b3367723bebd866ab3d8","_rev":"_cfFmRi----","tei":"\n\t\n\t\tMetaboliteDetector: Comprehensive Analysis Tool for Targeted and Nontargeted GC/MS Based Metabolome Analysis\n\t\t\n\t\t\tKarstenHiller\n\t\t\n\t\t\n\t\t\tJasperHangebrauk\n\t\t\n\t\t\n\t\t\tChristianJäger\n\t\t\n\t\t\n\t\t\tJanaSpura\n\t\t\n\t\t\n\t\t\tKerstinSchreiber\n\t\t\n\t\t\n\t\t\tDietmarSchomburg\n\t\t\n\t\t10.1021/ac802689c\n\t\t19358599\n\t\t\n\t\n\t\n\t\tAnalytical Chemistry\n\t\tAnal. Chem.\n\t\t0003-2700\n\t\t1520-6882\n\t\t\n\t\t\t81\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\tInternet. cited 2014 Oct 5\n\n","document":{"$oid":"60c8b3367723bebd866ab3d6"},"refKey":30},
{"_key":"60c8b3367723bebd866ab3d9","_id":"references/60c8b3367723bebd866ab3d9","_rev":"_cfFmRiG---","tei":"\n\t\n\t\tMATCHTM: a tool for searching transcription factor binding sites in DNA sequences\n\t\t\n\t\t\tAEKel\n\t\t\n\t\t10.1093/nar/gkg585\n\t\t12824369\n\t\tPMC169193\n\t\tark:/67375/HXZ-TR81M11T-1\n\t\tAF1D80B055E7E63E3E472E9DE3DC58CB8D278E31\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t31\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tInternet\n\n","document":{"$oid":"60c8b3367723bebd866ab3d6"},"refKey":27},
{"_key":"60c8b33a7723bebd866ab3ec","_id":"references/60c8b33a7723bebd866ab3ec","_rev":"_cfFmRiS---","tei":"\n\t\n\t\tChEMBL: towards direct deposition of bioassay data\n\t\t\n\t\t\tDavidMendez\n\t\t\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tAPatríciaBento\n\t\t\n\t\t\n\t\t\tJonChambers\n\t\t\n\t\t\n\t\t\tMarleenDe veij\n\t\t\n\t\t\n\t\t\tEloyFélix\n\t\t\n\t\t\n\t\t\tMaríaPaulaMagariños\n\t\t\n\t\t\n\t\t\tJuanFMosquera\n\t\t\n\t\t\n\t\t\tPrudenceMutowo\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tMaríaGordillo-Marañón\n\t\t\n\t\t\n\t\t\tFionaHunter\n\t\t\n\t\t\n\t\t\tLauraJunco\n\t\t\n\t\t\n\t\t\tGraceMugumbate\n\t\t\n\t\t\n\t\t\tMilagrosRodriguez-Lopez\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tNicolasBosc\n\t\t\n\t\t\n\t\t\tChrisJRadoux\n\t\t\n\t\t\n\t\t\tAldoSegura-Cabrera\n\t\t\n\t\t\n\t\t\tAnneHersey\n\t\t\n\t\t\n\t\t\tAndrewRLeach\n\t\t\n\t\t10.1093/nar/gky1075\n\t\t30398643\n\t\tPMC6323927\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t47\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b33a7723bebd866ab3eb"},"refKey":25},
{"_key":"60c8b33a7723bebd866ab3ed","_id":"references/60c8b33a7723bebd866ab3ed","_rev":"_cfFmRie---","tei":"\n\t\n\t\tChEMBL web services: streamlining access to drug discovery data and utilities\n\t\t\n\t\t\tMarkDavies\n\t\t\n\t\t\n\t\t\tMichałNowotka\n\t\t\n\t\t\n\t\t\tGeorgePapadatos\n\t\t\n\t\t\n\t\t\tNathanDedman\n\t\t\n\t\t\n\t\t\tAnnaGaulton\n\t\t\n\t\t\n\t\t\tFrancisAtkinson\n\t\t\n\t\t\n\t\t\tLouisaBellis\n\t\t\n\t\t\n\t\t\tJohnPOverington\n\t\t\n\t\t10.1093/nar/gkv352\n\t\t25883136\n\t\tPMC4489243\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b33a7723bebd866ab3eb"},"refKey":26},
{"_key":"60c8b33a7723bebd866ab3ee","_id":"references/60c8b33a7723bebd866ab3ee","_rev":"_cfFmRim---","tei":"\n\t\n\t\tSchrödinger Release 2020-2: Maestro\n\t\t\n\t\t\tSchrödinger\n\t\t\n\t\t\n\t\t\t\n\t\t\tSchrödinger, LLC, New York, NY\n\t\t\n\t\n\n","document":{"$oid":"60c8b33a7723bebd866ab3eb"},"refKey":29},
{"_key":"60c8b33a7723bebd866ab3ef","_id":"references/60c8b33a7723bebd866ab3ef","_rev":"_cfFmRiy---","tei":"\n\t\n\t\tSwissParam: a fast force field generation tool for small organic molecules\n\t\t\n\t\t\tVZoete\n\t\t\n\t\t\n\t\t\tMACuendet\n\t\t\n\t\t\n\t\t\tAGrosdidier\n\t\t\n\t\t\n\t\t\tOMichielin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t32\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b33a7723bebd866ab3eb"},"refKey":41},
{"_key":"60c8b33a7723bebd866ab3f0","_id":"references/60c8b33a7723bebd866ab3f0","_rev":"_cfFmRj----","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b33a7723bebd866ab3eb"},"refKey":39},
{"_key":"60c8b3667723bebd866ab412","_id":"references/60c8b3667723bebd866ab412","_rev":"_cfFmRjG---","tei":"\n\t\n\t\tMEGAN analysis of metagenomic data\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b3667723bebd866ab411"},"refKey":13},
{"_key":"60c8b3667723bebd866ab413","_id":"references/60c8b3667723bebd866ab413","_rev":"_cfFmRjS---","tei":"\n\t\n\t\tAccurate Genome Relative Abundance Estimation Based on Shotgun Metagenomic Reads\n\t\t\n\t\t\tLiCXia\n\t\t\n\t\t\n\t\t\tJacobACram\n\t\t\n\t\t\n\t\t\tTingChen\n\t\t\n\t\t\n\t\t\tJedAFuhrman\n\t\t\n\t\t\n\t\t\tFengzhuSun\n\t\t\n\t\t10.1371/journal.pone.0027992\n\t\t22162995\n\t\tPMC3232206\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\tPLoS ONE\n\t\t1932-6203\n\t\t\n\t\t\t6\n\t\t\t12\n\t\t\te27992\n\t\t\t\n\t\t\tPublic Library of Science (PLoS)\n\t\t\n\t\n\n","document":{"$oid":"60c8b3667723bebd866ab411"},"refKey":28},
{"_key":"60c8b3667723bebd866ab414","_id":"references/60c8b3667723bebd866ab414","_rev":"_cfFmRje---","tei":"\n\t\n\t\tPathoscope: species identification and strain attribution with unassembled sequencing data\n\t\t\n\t\t\tOEFrancis\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\t\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b3667723bebd866ab411"},"refKey":10},
{"_key":"60c8b3667723bebd866ab415","_id":"references/60c8b3667723bebd866ab415","_rev":"_cfFmRjm---","tei":"\n\t\n\t\tQuality control and preprocessing of metagenomic datasets\n\t\t\n\t\t\tRSchmieder\n\t\t\n\t\t\n\t\t\tREdwards\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b3667723bebd866ab411"},"refKey":26},
{"_key":"60c8b3667723bebd866ab416","_id":"references/60c8b3667723bebd866ab416","_rev":"_cfFmRjy---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b3667723bebd866ab411"},"refKey":0},
{"_key":"60c8b3667723bebd866ab417","_id":"references/60c8b3667723bebd866ab417","_rev":"_cfFmRk----","tei":"\n\t\n\t\tPhymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models\n\t\t\n\t\t\tArthurBrady\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1358\n\t\t19648916\n\t\tPMC2762791\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t6\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8b3667723bebd866ab411"},"refKey":2},
{"_key":"60c8b3667723bebd866ab418","_id":"references/60c8b3667723bebd866ab418","_rev":"_cfFmRkG---","tei":"\n\t\n\t\tRapid identification of high-confidence taxonomic assignments for metagenomic data\n\t\t\n\t\t\tNormanJMacdonald\n\t\t\n\t\t\n\t\t\tDonovanHParks\n\t\t\n\t\t\n\t\t\tRobertGBeiko\n\t\t\n\t\t10.1093/nar/gks335\n\t\t22532608\n\t\tPMC3413139\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t40\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b3667723bebd866ab411"},"refKey":16},
{"_key":"60c8b3927723bebd866ab46a","_id":"references/60c8b3927723bebd866ab46a","_rev":"_cfFmRkS---","tei":"\n\t\n\t\tStructural Equation Modeling with the Smartpls\n\t\t\n\t\t\tChristianMRingle\n\t\t\n\t\t\n\t\t\tDirceuDa Silva\n\t\t\n\t\t\n\t\t\tDiógenesDe SouzaBido\n\t\t\n\t\t10.5585/remark.v13i2.2717\n\t\t\n\t\n\t\n\t\tRevista Brasileira de Marketing\n\t\tREMark\n\t\t2177-5184\n\t\t\n\t\t\t13\n\t\t\t02\n\t\t\t\n\t\t\t\n\t\t\tUniversity Nove de Julho\n\t\t\n\t\n\n","document":{"$oid":"60c8b3927723bebd866ab469"},"refKey":72},
{"_key":"60c8b39f7723bebd866ab470","_id":"references/60c8b39f7723bebd866ab470","_rev":"_cfFmRke---","tei":"\n\t\n\t\tantiSMASH 2.0—a versatile platform for genome mining of secondary metabolite producers\n\t\t\n\t\t\tKaiBlin\n\t\t\n\t\t\n\t\t\tMarnixHMedema\n\t\t\n\t\t\n\t\t\tDaniyalKazempour\n\t\t\n\t\t\n\t\t\tMichaelAFischbach\n\t\t\n\t\t\n\t\t\tRainerBreitling\n\t\t\n\t\t\n\t\t\tErikoTakano\n\t\t\n\t\t\n\t\t\tTilmannWeber\n\t\t\n\t\t10.1093/nar/gkt449\n\t\t23737449\n\t\tPMC3692088\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b39f7723bebd866ab46f"},"refKey":2},
{"_key":"60c8b39f7723bebd866ab471","_id":"references/60c8b39f7723bebd866ab471","_rev":"_cfFmRkm---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBLangmead\n\t\t\n\t\t\n\t\t\tSLSalzberg\n\t\t\n\t\n\t\n\t\tNat. Methods\n\t\t\n\t\t\t9\n\t\t\t357\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b39f7723bebd866ab46f"},"refKey":26},
{"_key":"60c8b3aa7723bebd866ab481","_id":"references/60c8b3aa7723bebd866ab481","_rev":"_cfFmRky---","tei":"\n\t\n\t\t\n\t\tMedCalc Software bvba\n\t\t\t\tOstend (Belgium\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b3aa7723bebd866ab480"},"refKey":12},
{"_key":"60c8b3bf7723bebd866ab487","_id":"references/60c8b3bf7723bebd866ab487","_rev":"_cfFmRl----","tei":"\n\t\n\t\tDistributed programming using role parametric session types in Go\n\t\t\n\t\t\tDCastro\n\t\t\n\t\t\n\t\t\tRHu\n\t\t\n\t\t\n\t\t\tSSJongmans\n\t\t\n\t\t\n\t\t\tNNg\n\t\t\n\t\t\n\t\t\tNYoshida\n\t\t\n\t\n\t\n\t\t46th ACM SIGPLAN Symposium on Principles of Programming Languages\n\t\t\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b3bf7723bebd866ab486"},"refKey":0},
{"_key":"60c8b3bf7723bebd866ab488","_id":"references/60c8b3bf7723bebd866ab488","_rev":"_cfFmRlG---","tei":"\n\t\n\t\tA linear decomposition of multiparty sessions for safe distributed programming\n\t\t\n\t\t\tAScalas\n\t\t\n\t\t\n\t\t\tODardha\n\t\t\n\t\t\n\t\t\tRHu\n\t\t\n\t\t\n\t\t\tNYoshida\n\t\t\n\t\n\t\n\t\t31st European Conference on Object-Oriented Programming. LIPIcs\n\t\t31. Schloss Dagstuhl\n\t\t\n\t\t\t\n\t\t\t74\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b3bf7723bebd866ab486"},"refKey":13},
{"_key":"60c8b3d97723bebd866ab4aa","_id":"references/60c8b3d97723bebd866ab4aa","_rev":"_cfFmRlS---","tei":"\n\t\n\t\tA hidden Markov model for predicting transmembrane helices in protein sequences\n\t\t\n\t\t\tELSonnhammer\n\t\t\n\t\t\n\t\t\tGVon Heijne\n\t\t\n\t\t\n\t\t\tAKrogh\n\t\t\n\t\n\t\n\t\tProc. Int. Conf. Intell. Syst. Mol. Biol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b3d97723bebd866ab4a9"},"refKey":38},
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{"_key":"60c8b40e7723bebd866ab4f4","_id":"references/60c8b40e7723bebd866ab4f4","_rev":"_cfFmRmW---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tTLMadden\n\t\t\n\t\t\n\t\t\tAASchäffer\n\t\t\n\t\t\n\t\t\tJZhang\n\t\t\n\t\t\n\t\t\tZZhang\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b40e7723bebd866ab4f3"},"refKey":0},
{"_key":"60c8b4217723bebd866ab4fc","_id":"references/60c8b4217723bebd866ab4fc","_rev":"_cfFmRme---","tei":"\n\t\n\t\tBioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b4217723bebd866ab4fb"},"refKey":26},
{"_key":"60c8b4217723bebd866ab4fd","_id":"references/60c8b4217723bebd866ab4fd","_rev":"_cfFmRmq---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDHuang\n\t\t\n\t\t\n\t\t\tBSherman\n\t\t\n\t\t\n\t\t\tRLempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b4217723bebd866ab4fb"},"refKey":27},
{"_key":"60c8b4357723bebd866ab521","_id":"references/60c8b4357723bebd866ab521","_rev":"_cfFmRm2---","tei":"\n\t\n\t\tInception-v4, inception-ResNet and the impact of residual connections on learning\n\t\t\n\t\t\tCSzegedy\n\t\t\n\t\t\n\t\t\tSIoffe\n\t\t\n\t\t\n\t\t\tVVanhoucke\n\t\t\n\t\t\n\t\t\tAAAlemi\n\t\t\n\t\n\t\n\t\t31st AAAI Conference on Artificial Intelligence\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b4357723bebd866ab520"},"refKey":11},
{"_key":"60c8b4867723bebd866ab54a","_id":"references/60c8b4867723bebd866ab54a","_rev":"_cfFmRn----","tei":"\n\t\n\t\tPredicting population coverage of T-cell epitope-based diagnostics and vaccines\n\t\t\n\t\t\tHHBui\n\t\t\n\t\t10.1186/1471-2105-7-153\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t7\n\t\t\t153\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b4867723bebd866ab549"},"refKey":53},
{"_key":"60c8b4867723bebd866ab54b","_id":"references/60c8b4867723bebd866ab54b","_rev":"_cfFmRnK---","tei":"\n\t\n\t\tGalaxyPepDock: a protein–peptide docking tool based on interaction similarity and energy optimization\n\t\t\n\t\t\tHasupLee\n\t\t\n\t\t\n\t\t\tLimHeo\n\t\t\n\t\t\n\t\t\tMyeongSupLee\n\t\t\n\t\t\n\t\t\tChaokSeok\n\t\t\n\t\t10.1093/nar/gkv495\n\t\t25969449\n\t\tPMC4489314\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b4867723bebd866ab549"},"refKey":58},
{"_key":"60c8b4867723bebd866ab54c","_id":"references/60c8b4867723bebd866ab54c","_rev":"_cfFmRnW---","tei":"\n\t\n\t\tCABS-dock web server for the flexible docking of peptides to proteins without prior knowledge of the binding site\n\t\t\n\t\t\tMateuszKurcinski\n\t\t\n\t\t\n\t\t\tMichalJamroz\n\t\t\n\t\t\n\t\t\tMaciejBlaszczyk\n\t\t\n\t\t\n\t\t\tAndrzejKolinski\n\t\t\n\t\t\n\t\t\tSebastianKmiecik\n\t\t\n\t\t10.1093/nar/gkv456\n\t\t25943545\n\t\tPMC4489223\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Res\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b4867723bebd866ab549"},"refKey":59},
{"_key":"60c8b4977723bebd866ab567","_id":"references/60c8b4977723bebd866ab567","_rev":"_cfFmRni---","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b4977723bebd866ab566"},"refKey":38},
{"_key":"60c8b4d17723bebd866ab591","_id":"references/60c8b4d17723bebd866ab591","_rev":"_cfFmRnu---","tei":"\n\t\n\t\tPhilentropy: Information Theory and Distance Quantification with R\n\t\t\n\t\t\tH.-GDrost\n\t\t\n\t\t10.21105/joss.00765\n\t\t\n\t\n\t\n\t\tJournal of Open Source Software\n\t\tJOSS\n\t\t2475-9066\n\t\t\n\t\t\t3\n\t\t\t26\n\t\t\t765\n\t\t\t\n\t\t\tThe Open Journal\n\t\t\n\t\n\n","document":{"$oid":"60c8b4d17723bebd866ab590"},"refKey":20},
{"_key":"60c8b4d17723bebd866ab592","_id":"references/60c8b4d17723bebd866ab592","_rev":"_cfFmRo----","tei":"\n\t\n\t\tAnalyzing the Mycobacterium tuberculosis immune response by T-cell receptor clustering with GLIPH2 and genomewide antigen screening\n\t\t\n\t\t\tHHuang\n\t\t\n\t\t\n\t\t\tCWang\n\t\t\n\t\t\n\t\t\tFRubelt\n\t\t\n\t\t\n\t\t\tTJScriba\n\t\t\n\t\t\n\t\t\tMMDavis\n\t\t\n\t\t10.1038/s41587-020-0505-4\n\t\n\t\n\t\tNat Biotechnol\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b4d17723bebd866ab590"},"refKey":22},
{"_key":"60c8b4d17723bebd866ab593","_id":"references/60c8b4d17723bebd866ab593","_rev":"_cfFmRoS---","tei":"\n\t\n\t\tKeBABS: an R package for kernel-based analysis of biological sequences: Fig. 1.\n\t\t\n\t\t\tJohannesPalme\n\t\t\n\t\t\n\t\t\tSeppHochreiter\n\t\t\n\t\t\n\t\t\tUlrichBodenhofer\n\t\t\n\t\t10.1093/bioinformatics/btv176\n\t\t25812745\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t31\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b4d17723bebd866ab590"},"refKey":21},
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{"_key":"60c8b5487723bebd866ab638","_id":"references/60c8b5487723bebd866ab638","_rev":"_cfFmRsq---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\t\n\t\t\tNealeBTodd-Brown\n\t\t\n\t\t\n\t\t\tKThomas\n\t\t\n\t\t\n\t\t\tLFerreira\n\t\t\n\t\t\n\t\t\tMarBender\n\t\t\n\t\t\n\t\t\tD\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5487723bebd866ab634"},"refKey":40},
{"_key":"60c8b5487723bebd866ab639","_id":"references/60c8b5487723bebd866ab639","_rev":"_cfFmRsy---","tei":"\n\t\n\t\tMETA-R (Multi Environment Trail Analysis with R for Windows) Version 6.01\n\t\t\n\t\t\tGAlvarado\n\t\t\n\t\t\n\t\t\tLMarco\n\t\t\n\t\t\n\t\t\tVMateo\n\t\t\n\t\t\n\t\t\tAngelaPFrancisco\n\t\t\n\t\t\n\t\t\tRJuan\n\t\t\n\t\t\n\t\t\tB\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5487723bebd866ab634"},"refKey":35},
{"_key":"60c8b5487723bebd866ab63a","_id":"references/60c8b5487723bebd866ab63a","_rev":"_cfFmRt----","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5487723bebd866ab634"},"refKey":42},
{"_key":"60c8b5487723bebd866ab63b","_id":"references/60c8b5487723bebd866ab63b","_rev":"_cfFmRtK---","tei":"\n\t\n\t\tA Systematic Gene-Centric Approach to Define Haplotypes and Identify Alleles on the Basis of Dense Single Nucleotide Polymorphism Datasets\n\t\t\n\t\t\tAurélieTardivel\n\t\t\n\t\t\n\t\t\tDavoudTorkamaneh\n\t\t\n\t\t\n\t\t\tMarc-AndréLemay\n\t\t\n\t\t\n\t\t\tFrançoisBelzile\n\t\t\n\t\t\n\t\t\tLouiseSO’donoughue\n\t\t\n\t\t10.3835/plantgenome2018.08.0061\n\t\t\n\t\n\t\n\t\tThe Plant Genome\n\t\t1940-3372\n\t\t\n\t\t\t0\n\t\t\t0\n\t\t\t0\n\t\t\t\n\t\t\tCrop Science Society of America\n\t\t\n\t\n\n","document":{"$oid":"60c8b5487723bebd866ab634"},"refKey":49},
{"_key":"60c8b5487723bebd866ab63c","_id":"references/60c8b5487723bebd866ab63c","_rev":"_cfFmRtS---","tei":"\n\t\n\t\tGAPIT: genome association and prediction integrated tool\n\t\t\n\t\t\tAELipka\n\t\t\n\t\t\n\t\t\tFTian\n\t\t\n\t\t\n\t\t\tQWang\n\t\t\n\t\t\n\t\t\tJPeiffer\n\t\t\n\t\t\n\t\t\tMLi\n\t\t\n\t\t\n\t\t\tPJBradbury\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5487723bebd866ab634"},"refKey":43},
{"_key":"60c8b5847723bebd866ab667","_id":"references/60c8b5847723bebd866ab667","_rev":"_cfFmRte---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c8b5847723bebd866ab666"},"refKey":3},
{"_key":"60c8b5857723bebd866ab66b","_id":"references/60c8b5857723bebd866ab66b","_rev":"_cfFmRtq---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5857723bebd866ab66a"},"refKey":11},
{"_key":"60c8b5887723bebd866ab670","_id":"references/60c8b5887723bebd866ab670","_rev":"_cfFmRty---","tei":"\n\t\n\t\tError filtering, pair assembly and error correction for next-generation sequencing reads\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t\n\t\t\tHFlyvbjerg\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5887723bebd866ab66f"},"refKey":34},
{"_key":"60c8b5887723bebd866ab671","_id":"references/60c8b5887723bebd866ab671","_rev":"_cfFmRu----","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5887723bebd866ab66f"},"refKey":47},
{"_key":"60c8b5887723bebd866ab672","_id":"references/60c8b5887723bebd866ab672","_rev":"_cfFmRuK---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5887723bebd866ab66f"},"refKey":50},
{"_key":"60c8b5887723bebd866ab673","_id":"references/60c8b5887723bebd866ab673","_rev":"_cfFmRuS---","tei":"\n\t\n\t\tUCSF ChimeraX: meeting modern challenges in visualization and analysis\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5887723bebd866ab66f"},"refKey":51},
{"_key":"60c8b5887723bebd866ab674","_id":"references/60c8b5887723bebd866ab674","_rev":"_cfFmRue---","tei":"\n\t\n\t\tLong-read amplicon denoising\n\t\t\n\t\t\tVenkateshKumar\n\t\t\n\t\t\n\t\t\tThomasVollbrecht\n\t\t\n\t\t\n\t\t\tMarkChernyshev\n\t\t\n\t\t\n\t\t\tSanjayMohan\n\t\t\n\t\t\n\t\t\tBrianHanst\n\t\t\n\t\t\n\t\t\tNicholasBavafa\n\t\t\n\t\t\n\t\t\tAntoniaLorenzo\n\t\t\n\t\t\n\t\t\tRobertKetteringham\n\t\t\n\t\t\n\t\t\tKemalEren\n\t\t\n\t\t\n\t\t\tMichaelGolden\n\t\t\n\t\t\n\t\t\tMichelliFariaOliveira\n\t\t\n\t\t\n\t\t\tBenMurrell\n\t\t\n\t\t10.1101/383794\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t47\n\t\t\te104\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8b5887723bebd866ab66f"},"refKey":35},
{"_key":"60c8b5887723bebd866ab675","_id":"references/60c8b5887723bebd866ab675","_rev":"_cfFmRuq---","tei":"\n\t\n\t\tBayesian Analysis of Heterogeneity in the Distribution of Binding Properties of Immobilized Surface Sites\n\t\t\n\t\t\tInnaIGorshkova\n\t\t\n\t\t\n\t\t\tJurajSvitel\n\t\t\n\t\t\n\t\t\tFaezehRazjouyan\n\t\t\n\t\t\n\t\t\tPeterSchuck\n\t\t\n\t\t10.1021/la801186w\n\t\t18816013\n\t\tPMC2574969\n\t\t\n\t\n\t\n\t\tLangmuir\n\t\tLangmuir\n\t\t0743-7463\n\t\t1520-5827\n\t\t\n\t\t\t24\n\t\t\t20\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c8b5887723bebd866ab66f"},"refKey":11},
{"_key":"60c8b5887723bebd866ab676","_id":"references/60c8b5887723bebd866ab676","_rev":"_cfFmRuy---","tei":"\n\t\n\t\tThe Role of Mass Transport Limitation and Surface Heterogeneity in the Biophysical Characterization of Macromolecular Binding Processes by SPR Biosensing\n\t\t\n\t\t\tPeterSchuck\n\t\t\n\t\t\n\t\t\tHuayingZhao\n\t\t\n\t\t10.1007/978-1-60761-670-2_2\n\t\t20217612\n\t\tPMC4134667\n\t\t\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t\n\t\t\t627\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5887723bebd866ab66f"},"refKey":12},
{"_key":"60c8b5887723bebd866ab677","_id":"references/60c8b5887723bebd866ab677","_rev":"_cfFmRv----","tei":"\n\t\n\t\tCombined Affinity and Rate Constant Distributions of Ligand Populations from Experimental Surface Binding Kinetics and Equilibria\n\t\t\n\t\t\tJurajSvitel\n\t\t\n\t\t\n\t\t\tAndreaBalbo\n\t\t\n\t\t\n\t\t\tRoyAMariuzza\n\t\t\n\t\t\n\t\t\tNoreenRGonzales\n\t\t\n\t\t\n\t\t\tPeterSchuck\n\t\t\n\t\t10.1016/s0006-3495(03)75132-7\n\t\t12770910\n\t\tPMC1302986\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t84\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8b5887723bebd866ab66f"},"refKey":13},
{"_key":"60c8b58f7723bebd866ab68a","_id":"references/60c8b58f7723bebd866ab68a","_rev":"_cfFmRvK---","tei":"\n\t\n\t\tAMIDE: A Free Software Tool for Multimodality Medical Image Analysis\n\t\t\n\t\t\tAndreasMarkusLoening\n\t\t\n\t\t\n\t\t\tSanjivSamGambhir\n\t\t\n\t\t10.1162/15353500200303133\n\t\t\n\t\n\t\n\t\tMolecular Imaging\n\t\tMol Imaging\n\t\t1536-0121\n\t\t\n\t\t\t2\n\t\t\t3\n\t\t\t153535002003031\n\t\t\t\n\t\t\tSAGE Publications\n\t\t\n\t\n\n","document":{"$oid":"60c8b58f7723bebd866ab689"},"refKey":20},
{"_key":"60c8b59d7723bebd866ab693","_id":"references/60c8b59d7723bebd866ab693","_rev":"_cfFmRvW---","tei":"\n\t\n\t\tCytoscape: a software environment for integrated models of biomolecular interaction networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\n\t\n\t\tGenome research\n\t\t\n\t\t\t13\n\t\t\t11\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b59d7723bebd866ab692"},"refKey":78},
{"_key":"60c8b59d7723bebd866ab694","_id":"references/60c8b59d7723bebd866ab694","_rev":"_cfFmRve---","tei":"\n\t\n\t\tClustal Omega for making accurate alignments of many protein sequences\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tDGHiggins\n\t\t\n\t\n\t\n\t\tProtein Science\n\t\t\n\t\t\t27\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b59d7723bebd866ab692"},"refKey":70},
{"_key":"60c8b5bb7723bebd866ab6a6","_id":"references/60c8b5bb7723bebd866ab6a6","_rev":"_cfFmRvq---","tei":"\n\t\n\t\tThe tree-width of C\n\t\t\n\t\t\tPhilippKlausKrause\n\t\t\n\t\t\n\t\t\tLukasLarisch\n\t\t\n\t\t\n\t\t\tFelixSalfelder\n\t\t\n\t\t10.1016/j.dam.2019.01.027\n\t\n\t\n\t\tDiscrete Applied Mathematics\n\t\tDiscrete Applied Mathematics\n\t\t0166-218X\n\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8b5bb7723bebd866ab6a5"},"refKey":37},
{"_key":"60c8b5bb7723bebd866ab6a7","_id":"references/60c8b5bb7723bebd866ab6a7","_rev":"_cfFmRv2---","tei":"\n\t\n\t\tOn the Tree Width of Ada Programs\n\t\t\n\t\t\tBerndBurgstaller\n\t\t\n\t\t\n\t\t\tJohannBlieberger\n\t\t\n\t\t\n\t\t\tBernhardScholz\n\t\t\n\t\t10.1007/978-3-540-24841-5_6\n\t\tark:/67375/HCB-8K272N7L-V\n\t\t70A20A2F3B59E74FA3AB700C26209483B1C163C4\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5bb7723bebd866ab6a5"},"refKey":11},
{"_key":"60c8b5bb7723bebd866ab6a8","_id":"references/60c8b5bb7723bebd866ab6a8","_rev":"_cfFmRw----","tei":"\n\t\n\t\tAnatomy of a compiler\n\t\t\n\t\t\tSDutta\n\t\t\n\t\n\t\n\t\tCircuit Cellar\n\t\t\n\t\t\t121\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5bb7723bebd866ab6a5"},"refKey":27},
{"_key":"60c8b5bb7723bebd866ab6a9","_id":"references/60c8b5bb7723bebd866ab6a9","_rev":"_cfFmRwK---","tei":"\n\t\n\t\tWatson libraries for analysis (WALA)\n\t\t\n\t\t\tTJ\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5bb7723bebd866ab6a5"},"refKey":0},
{"_key":"60c8b5c17723bebd866ab6b4","_id":"references/60c8b5c17723bebd866ab6b4","_rev":"_cfFmRwW---","tei":"\n\t\n\t\tg_mmpbsa—A GROMACS Tool for High-Throughput MM-PBSA Calculations\n\t\t\n\t\t\tRashmiKumari\n\t\t\n\t\t\n\t\t\tRajendraKumar\n\t\t\n\t\t\n\t\t\tAndrewLynn\n\t\t\n\t\t10.1021/ci500020m\n\t\t24850022\n\t\t\n\t\n\t\n\t\tJournal of Chemical Information and Modeling\n\t\tJ. Chem. Inf. Model.\n\t\t1549-9596\n\t\t1549-960X\n\t\t\n\t\t\t54\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\t& Open Source Drug Discovery Consortium\n\n","document":{"$oid":"60c8b5c17723bebd866ab6b3"},"refKey":22},
{"_key":"60c8b5c17723bebd866ab6b5","_id":"references/60c8b5c17723bebd866ab6b5","_rev":"_cfFmRwe---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSSmith\n\t\t\n\t\t\n\t\t\tJCHess\n\t\t\n\t\t\n\t\t\tBLindahl\n\t\t\n\t\t\n\t\t\tE\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b5c17723bebd866ab6b3"},"refKey":0},
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{"_key":"60c8b71a7723bebd866ab7a2","_id":"references/60c8b71a7723bebd866ab7a2","_rev":"_cfFmR1y---","tei":"\n\t\n\t\tExploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tTommyTLam\n\t\t\n\t\t\n\t\t\tLuizMax Carvalho\n\t\t\n\t\t\n\t\t\tOliverGPybus\n\t\t\n\t\t10.1093/ve/vew007\n\t\t27774300\n\t\tPMC4989882\n\t\t\n\t\n\t\n\t\tVirus Evolution\n\t\tVirus Evol\n\t\t2057-1577\n\t\t\n\t\t\t2\n\t\t\t1\n\t\t\tvew007\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b71a7723bebd866ab79a"},"refKey":20},
{"_key":"60c8b71a7723bebd866ab7a3","_id":"references/60c8b71a7723bebd866ab7a3","_rev":"_cfFmR2----","tei":"\n\t\n\t\tEstimating Phylogenetic Trees and Networks Using SplitsTree4\n\t\t\n\t\t\tDHHuson\n\t\t\n\t\t\n\t\t\tDBryant\n\t\t\n\t\tWww.Splitstree.Org\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b71a7723bebd866ab79a"},"refKey":16},
{"_key":"60c8b7457723bebd866ab7c9","_id":"references/60c8b7457723bebd866ab7c9","_rev":"_cfFmR2K---","tei":"\n\t\n\t\tFieldTrip: Open Source Software for Advanced Analysis of MEG, EEG, and Invasive Electrophysiological Data\n\t\t\n\t\t\tRobertOostenveld\n\t\t\t0000-0002-1974-1293\n\t\t\n\t\t\n\t\t\tPascalFries\n\t\t\n\t\t\n\t\t\tEricMaris\n\t\t\n\t\t\n\t\t\tJan-MathijsSchoffelen\n\t\t\n\t\t10.1155/2011/156869\n\t\t21253357\n\t\tPMC3021840\n\t\t\n\t\n\t\n\t\tComputational Intelligence and Neuroscience\n\t\tComputational Intelligence and Neuroscience\n\t\t1687-5265\n\t\t1687-5273\n\t\t\n\t\t\t2011\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c8b7457723bebd866ab7c8"},"refKey":82},
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{"_key":"60c8b76f7723bebd866ab7e2","_id":"references/60c8b76f7723bebd866ab7e2","_rev":"_cfFmR2u---","tei":"\n\t\n\t\tSeedb: Efficient data-driven visualization recommendations to support visual analytics\n\t\t\n\t\t\tMVartak\n\t\t\n\t\t\n\t\t\tSRahman\n\t\t\n\t\t\n\t\t\tSMadden\n\t\t\n\t\t\n\t\t\tAParameswaran\n\t\t\n\t\t\n\t\t\tNPolyzotis\n\t\t\n\t\n\t\n\t\tProceedings of the VLDB Endowment\n\t\t\t\tthe VLDB Endowment\n\t\t\n\t\t\t\n\t\t\t8\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b76f7723bebd866ab7e1"},"refKey":49},
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{"_key":"60c8b76f7723bebd866ab7e5","_id":"references/60c8b76f7723bebd866ab7e5","_rev":"_cfFmR3O---","tei":"\n\t\n\t\tD 3 : Data-driven documents\n\t\t\n\t\t\tMBostock\n\t\t\n\t\t\n\t\t\tVOgievetsky\n\t\t\n\t\t\n\t\t\tJHeer\n\t\t\n\t\n\t\n\t\tIEEE Transactions on Visualization and Computer Graphics\n\t\t\n\t\t\t17\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b76f7723bebd866ab7e1"},"refKey":7},
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{"_key":"60c8b76f7723bebd866ab7eb","_id":"references/60c8b76f7723bebd866ab7eb","_rev":"_cfFmR4S---","tei":"\n\t\n\t\tComVis: A Coordinated Multiple Views System for Prototyping New Visualization Technology\n\t\t\n\t\t\tKresimirMatkovic\n\t\t\n\t\t\n\t\t\tWolfgangFreiler\n\t\t\n\t\t\n\t\t\tDenisGracanin\n\t\t\n\t\t\n\t\t\tHelwigHauser\n\t\t\n\t\t10.1109/iv.2008.87\n\t\n\t\n\t\t2008 12th International Conference Information Visualisation\n\t\t\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b76f7723bebd866ab7e1"},"refKey":32},
{"_key":"60c8b7737723bebd866ab802","_id":"references/60c8b7737723bebd866ab802","_rev":"_cfFmR4a---","tei":"\n\t\n\t\tEEG and MEG Data Analysis in SPM8\n\t\t\n\t\t\tVladimirLitvak\n\t\t\n\t\t\n\t\t\tJérémieMattout\n\t\t\n\t\t\n\t\t\tStefanKiebel\n\t\t\n\t\t\n\t\t\tChristophePhillips\n\t\t\n\t\t\n\t\t\tRichardHenson\n\t\t\n\t\t\n\t\t\tJamesKilner\n\t\t\n\t\t\n\t\t\tGarethBarnes\n\t\t\n\t\t\n\t\t\tRobertOostenveld\n\t\t\n\t\t\n\t\t\tJeanDaunizeau\n\t\t\n\t\t\n\t\t\tGuillaumeFlandin\n\t\t\n\t\t\n\t\t\tWillPenny\n\t\t\n\t\t\n\t\t\tKarlFriston\n\t\t\n\t\t10.1155/2011/852961\n\t\t21437221\n\t\tPMC3061292\n\t\t\n\t\n\t\n\t\tComputational Intelligence and Neuroscience\n\t\tComputational Intelligence and Neuroscience\n\t\t1687-5265\n\t\t1687-5273\n\t\t\n\t\t\t2011\n\t\t\t\n\t\t\t\n\t\t\tHindawi Limited\n\t\t\n\t\n\n","document":{"$oid":"60c8b7737723bebd866ab801"},"refKey":44},
{"_key":"60c8b7777723bebd866ab807","_id":"references/60c8b7777723bebd866ab807","_rev":"_cfFmR4m---","tei":"\n\t\n\t\tSynergyFinder: a web application for analyzing drug combination dose–response matrix data\n\t\t\n\t\t\tAleksandrIanevski\n\t\t\n\t\t\n\t\t\tLiyeHe\n\t\t\n\t\t\n\t\t\tTeroAittokallio\n\t\t\n\t\t\n\t\t\tJingTang\n\t\t\n\t\t10.1093/bioinformatics/btx162\n\t\t28379339\n\t\tPMC5554616\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t15\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b7777723bebd866ab806"},"refKey":14},
{"_key":"60c8b79d7723bebd866ab818","_id":"references/60c8b79d7723bebd866ab818","_rev":"_cfFmR4y---","tei":"\n\t\n\t\tSoftware-Enabled Distributed Network Governance: The PopMedNet Experience\n\t\t\n\t\t\tMelanieDavies\n\t\t\n\t\t\n\t\t\tKyleErickson\n\t\t\n\t\t\n\t\t\tZacharyWyner\n\t\t\n\t\t\n\t\t\tJessicaMMalenfant\n\t\t\n\t\t\n\t\t\tRobRosen\n\t\t\n\t\t\n\t\t\tJeffBrown\n\t\t\n\t\t10.13063/2327-9214.1213\n\t\t27141522\n\t\tPMC4827783\n\t\t\n\t\n\t\n\t\teGEMs (Generating Evidence & Methods to improve patient outcomes)\n\t\teGEMs\n\t\t2327-9214\n\t\t\n\t\t\t4\n\t\t\t2\n\t\t\t5\n\t\t\t\n\t\t\tUbiquity Press, Ltd.\n\t\t\n\t\n\n","document":{"$oid":"60c8b79d7723bebd866ab817"},"refKey":32},
{"_key":"60c8b7b27723bebd866ab826","_id":"references/60c8b7b27723bebd866ab826","_rev":"_cfFmR5----","tei":"\n\t\n\t\tHPEPDOCK: a web server for blind peptide–protein docking based on a hierarchical algorithm\n\t\t\n\t\t\tPeiZhou\n\t\t\n\t\t\n\t\t\tBowenJin\n\t\t\n\t\t\n\t\t\tHaoLi\n\t\t\n\t\t\n\t\t\tSheng-YouHuang\n\t\t\n\t\t10.1093/nar/gky357\n\t\t29746661\n\t\tPMC6030929\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t46\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8b7b27723bebd866ab825"},"refKey":34},
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{"_key":"60c8b83c7723bebd866ab8a0","_id":"references/60c8b83c7723bebd866ab8a0","_rev":"_cfFmR8K---","tei":"\n\t\n\t\tPrediction of disordered regions in proteins with recurrent neural networks and protein dynamics\n\t\t\n\t\t\tGOrlando\n\t\t\n\t\t\n\t\t\tDRaimondi\n\t\t\n\t\t\n\t\t\tFCodice\n\t\t\n\t\t10.1101/2020.05.25.115253\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b83c7723bebd866ab896"},"refKey":89},
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{"_key":"60c8b9aa7723bebd866aba15","_id":"references/60c8b9aa7723bebd866aba15","_rev":"_cfFmSB2---","tei":"\n\t\n\t\tThe open computing cluster for advanced data manipulation (OCCAM)\n\t\t\n\t\t\tMAldinucci\n\t\t\n\t\t\n\t\t\tSBagnasco\n\t\t\n\t\t\n\t\t\tSLusso\n\t\t\n\t\t\n\t\t\tPPasteris\n\t\t\n\t\t\n\t\t\tSVallero\n\t\t\n\t\t\n\t\t\tSRabellino\n\t\t\n\t\n\t\n\t\tThe 22nd International Conference on Computing in High Energy and Nuclear Physics (CHEP)\n\t\t\t\tSan Francisco, USA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8b9aa7723bebd866aba13"},"refKey":0},
{"_key":"60c8b9aa7723bebd866aba16","_id":"references/60c8b9aa7723bebd866aba16","_rev":"_cfFmSCC---","tei":"\n\t\n\t\tEngineering Resilient Collective Adaptive Systems by Self-Stabilisation\n\t\t\n\t\t\tMirkoViroli\n\t\t\n\t\t\n\t\t\tGiorgioAudrito\n\t\t\n\t\t\n\t\t\tJacobBeal\n\t\t\n\t\t\n\t\t\tFerruccioDamiani\n\t\t\n\t\t\n\t\t\tDaniloPianini\n\t\t\n\t\t10.1145/3177774\n\t\t\n\t\t\n\t\n\t\n\t\tACM Transactions on Modeling and Computer Simulation\n\t\tACM Trans. Model. Comput. Simul.\n\t\t1049-3301\n\t\t\n\t\t\t28\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tAssociation for Computing Machinery (ACM)\n\t\t\n\t\n\n","document":{"$oid":"60c8b9aa7723bebd866aba13"},"refKey":29},
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{"_key":"60c8bb197723bebd866abb47","_id":"references/60c8bb197723bebd866abb47","_rev":"_cfFmSFy---","tei":"\n\t\n\t\tPosterior Summarization in Bayesian Phylogenetics Using Tracer 1.7\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syy032\n\t\t29718447\n\t\tPMC6101584\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t67\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8bb197723bebd866abb46"},"refKey":36},
{"_key":"60c8bb197723bebd866abb48","_id":"references/60c8bb197723bebd866abb48","_rev":"_cfFmSG----","tei":"\n\t\n\t\tMEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tGlenStecher\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t10.1093/molbev/msw054\n\t\t27004904\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMol Biol Evol\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t33\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8bb197723bebd866abb46"},"refKey":24},
{"_key":"60c8bb197723bebd866abb49","_id":"references/60c8bb197723bebd866abb49","_rev":"_cfFmSGK---","tei":"\n\t\n\t\tDatamonkey 2.0: A Modern Web Application for Characterizing Selective and Other Evolutionary Processes\n\t\t\n\t\t\tStevenWeaver\n\t\t\n\t\t\n\t\t\tStephenDShank\n\t\t\n\t\t\n\t\t\tStephanieJSpielman\n\t\t\n\t\t\n\t\t\tMichaelLi\n\t\t\n\t\t\n\t\t\tSpencerVMuse\n\t\t\n\t\t\n\t\t\tSergeiLKosakovsky Pond\n\t\t\n\t\t10.1093/molbev/msx335\n\t\t29301006\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t35\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8bb197723bebd866abb46"},"refKey":51},
{"_key":"60c8bb2e7723bebd866abb62","_id":"references/60c8bb2e7723bebd866abb62","_rev":"_cfFmSGS---","tei":"\n\t\n\t\tAn ensemble strategy that significantly improves de novo assembly of microbial genomes from metagenomic next-generation sequencing data\n\t\t\n\t\t\tXutaoDeng\n\t\t\n\t\t\n\t\t\tSamiaNNaccache\n\t\t\n\t\t\n\t\t\tTerryNg\n\t\t\n\t\t\n\t\t\tScotFederman\n\t\t\n\t\t\n\t\t\tLinlinLi\n\t\t\n\t\t\n\t\t\tCharlesYChiu\n\t\t\n\t\t\n\t\t\tEricLDelwart\n\t\t\n\t\t10.1093/nar/gkv002\n\t\t25586223\n\t\tPMC4402509\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t43\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8bb2e7723bebd866abb61"},"refKey":12},
{"_key":"60c8bb3d7723bebd866abb75","_id":"references/60c8bb3d7723bebd866abb75","_rev":"_cfFmSGe---","tei":"\n\t\n\t\tClassification and regression by randomforest\n\t\t\n\t\t\tALiaw\n\t\t\n\t\t\n\t\t\tMWiener\n\t\t\n\t\t\n\t\n\t\n\t\tR News\n\t\t\n\t\t\t2\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bb3d7723bebd866abb74"},"refKey":5},
{"_key":"60c8bb507723bebd866abb83","_id":"references/60c8bb507723bebd866abb83","_rev":"_cfFmSGq---","tei":"\n\t\n\t\tphyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data\n\t\t\n\t\t\tPJMcmurdie\n\t\t\n\t\t\n\t\t\tSHolmes\n\t\t\n\t\n\t\n\t\tPLoS ONE\n\t\t\n\t\t\t8\n\t\t\te61217\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bb507723bebd866abb82"},"refKey":59},
{"_key":"60c8bb997723bebd866abba9","_id":"references/60c8bb997723bebd866abba9","_rev":"_cfFmSG2---","tei":"\n\t\n\t\t\n\t\t\tNDownie\n\t\t\n\t\t\n\t\twhere she is currently pursuing the M.S. degree. Her research interests involve Web, data privacy\n\t\t\t\tSeoul, South Korea\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tDepartment of Computer Science, Sangmyung University\n\t\t\n\t\n\tChart.js: Open Source HTML5 Charts for Your Website. Internet of Things, and computer networks\n\n","document":{"$oid":"60c8bb997723bebd866abba8"},"refKey":51},
{"_key":"60c8bb997723bebd866abbaa","_id":"references/60c8bb997723bebd866abbaa","_rev":"_cfFmSHC---","tei":"\n\t\n\t\tScanning the emerging infectious diseases horizon-Visualizing ProMED emails using EpiSPIDER\n\t\t\n\t\t\tHTolentino\n\t\t\n\t\n\t\n\t\tAdv. Disease Surveill\n\t\t\n\t\t\t2\n\t\t\t169\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bb997723bebd866abba8"},"refKey":19},
{"_key":"60c8bb997723bebd866abbab","_id":"references/60c8bb997723bebd866abbab","_rev":"_cfFmSHK---","tei":"\n\t\n\t\t\n\t\t\tBMomjian\n\t\t\n\t\tPostgreSQL: Introduction and Concepts\n\t\t\t\tNew York, NY, USA\n\t\t\n\t\t\tAddison-Wesley\n\t\t\t\n\t\t\t192\n\t\t\n\t\n\n","document":{"$oid":"60c8bb997723bebd866abba8"},"refKey":42},
{"_key":"60c8bb997723bebd866abbac","_id":"references/60c8bb997723bebd866abbac","_rev":"_cfFmSHW---","tei":"\n\t\n\t\tPostgreSQL: A Comprehensive Guide to Building, Programming, and Administering PostgresSQL Databases\n\t\t\n\t\t\tKDouglas\n\t\t\n\t\t\n\t\t\tSDouglas\n\t\t\n\t\t\n\t\t\t\n\t\t\tSAMS\n\t\t\tIndianapolis, IN, USA\n\t\t\n\t\n\n","document":{"$oid":"60c8bb997723bebd866abba8"},"refKey":43},
{"_key":"60c8bb997723bebd866abbad","_id":"references/60c8bb997723bebd866abbad","_rev":"_cfFmSHi---","tei":"\n\t\n\t\tProMED-mail: An Early Warning System for Emerging Diseases\n\t\t\n\t\t\tVLYu\n\t\t\n\t\t\n\t\t\tLCMadoff\n\t\t\n\t\t10.1086/422003\n\t\t15307032\n\t\tark:/67375/HXZ-DWWGGL7P-8\n\t\tE117FFE8CB8926780BF2141CDDCE785B4A0D3FA6\n\t\t\n\t\n\t\n\t\tClinical Infectious Diseases\n\t\tClinical Infectious Diseases\n\t\t1058-4838\n\t\t1537-6591\n\t\t\n\t\t\t39\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8bb997723bebd866abba8"},"refKey":13},
{"_key":"60c8bb997723bebd866abbae","_id":"references/60c8bb997723bebd866abbae","_rev":"_cfFmSHq---","tei":"\n\t\n\t\tThe Internet and the Global Monitoring of Emerging Diseases: Lessons from the First 10 Years of ProMED-mail\n\t\t\n\t\t\tLawrenceCMadoff\n\t\t\n\t\t\n\t\t\tJohnPWoodall\n\t\t\n\t\t10.1016/j.arcmed.2005.06.005\n\t\t16216654\n\t\t\n\t\n\t\n\t\tArchives of Medical Research\n\t\tArchives of Medical Research\n\t\t0188-4409\n\t\t\n\t\t\t36\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8bb997723bebd866abba8"},"refKey":14},
{"_key":"60c8bb997723bebd866abbaf","_id":"references/60c8bb997723bebd866abbaf","_rev":"_cfFmSH2---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tBBibeault\n\t\t\n\t\t\n\t\t\tYKats\n\t\t\n\t\n\t\n\t\tjQuery in Action\n\t\t\n\t\t\t\n\t\t\tDreamtech Press\n\t\t\n\t\n\n","document":{"$oid":"60c8bb997723bebd866abba8"},"refKey":39},
{"_key":"60c8bb9a7723bebd866abbe2","_id":"references/60c8bb9a7723bebd866abbe2","_rev":"_cfFmSIC---","tei":"\n\t\n\t\tIterative-build OMIT maps: map improvement by iterative model building and refinement without model bias\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t10.1107/s0907444908004319\n\t\t18453687\n\t\tPMC2424225\n\t\tark:/67375/WNG-T78B87TL-4\n\t\t0E3B95688607E17559BC65A406553BA33C3C3D47\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t64\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c8bb9a7723bebd866abbe1"},"refKey":41},
{"_key":"60c8bb9a7723bebd866abbe3","_id":"references/60c8bb9a7723bebd866abbe3","_rev":"_cfFmSIO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tMMustyakimov\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tAUrzhumtsev\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\n\t\n\t\tActa Crystallogr. D Biol. Crystallogr\n\t\t\n\t\t\t68\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bb9a7723bebd866abbe1"},"refKey":0},
{"_key":"60c8bbb37723bebd866abbf1","_id":"references/60c8bbb37723bebd866abbf1","_rev":"_cfFmSIW---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tJOksanen\n\t\t\n\t\t\n\t\t\tFGBlanchet\n\t\t\n\t\t\n\t\t\tMFriendly\n\t\t\n\t\t\n\t\t\tRKindt\n\t\t\n\t\t\n\t\t\tPLegendre\n\t\t\n\t\t\n\t\t\tDMcglinn\n\t\t\n\t\t\n\t\t\tHWagner\n\t\t\n\t\t\n\t\n\t\n\t\tCommunity Ecology Package\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bbb37723bebd866abbf0"},"refKey":44},
{"_key":"60c8bbb77723bebd866abbfa","_id":"references/60c8bbb77723bebd866abbfa","_rev":"_cfFmSIi---","tei":"\n\t\n\t\tScalable algorithms for association mining\n\t\t\n\t\t\tMJZaki\n\t\t\n\t\n\t\n\t\tIEEE Trans. Knowl. Data Eng\n\t\t\n\t\t\t12\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bbb77723bebd866abbf9"},"refKey":204},
{"_key":"60c8bbb77723bebd866abbfb","_id":"references/60c8bbb77723bebd866abbfb","_rev":"_cfFmSIu---","tei":"\n\t\n\t\tEstimating the support of a highdimensional distribution\n\t\t\n\t\t\tBSchölkopf\n\t\t\n\t\t\n\t\t\tJCPlatt\n\t\t\n\t\t\n\t\t\tJCShawe-Taylor\n\t\t\n\t\t\n\t\t\tAJSmola\n\t\t\n\t\t\n\t\t\tRCWilliamson\n\t\t\n\t\n\t\n\t\tNeural Comput\n\t\t\n\t\t\t13\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bbb77723bebd866abbf9"},"refKey":169},
{"_key":"60c8bbb77723bebd866abbfc","_id":"references/60c8bbb77723bebd866abbfc","_rev":"_cfFmSI6---","tei":"\n\t\n\t\tCloset+: Searching for the best strategies for mining frequent closed itemsets\n\t\t\n\t\t\tJWang\n\t\t\n\t\t\n\t\t\tJHan\n\t\t\n\t\t\n\t\t\tJPei\n\t\t\n\t\t10.1145/956750.956779\n\t\t\n\t\n\t\n\t\tProceedings of the Ninth ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, KDD '03\n\t\t\t\tthe Ninth ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, KDD '03New York\n\t\t\n\t\t\tACM\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bbb77723bebd866abbf9"},"refKey":189},
{"_key":"60c8bbcf7723bebd866abc25","_id":"references/60c8bbcf7723bebd866abc25","_rev":"_cfFmSJC---","tei":"\n\t\n\t\tFrom pairs of most similar sequences to phylogenetic best matches\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t\n\t\t\tMGeiß\n\t\t\n\t\t\n\t\t\tDSchaller\n\t\t\n\t\t\n\t\t\tALópez\n\t\t\n\t\t\n\t\t\tMGonzalez Laffitte\n\t\t\n\t\t\n\t\t\tDValdivia\n\t\t\n\t\t\n\t\t\tMHellmuth\n\t\t\n\t\t\n\t\t\tHernandezRosales\n\t\t\n\t\t\n\t\t\tM\n\t\t\n\t\t10.1186/s13015-020-00165-2\n\t\t\n\t\n\t\n\t\tAlg Mol Biol\n\t\t\n\t\t\t15\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bbcf7723bebd866abc24"},"refKey":53},
{"_key":"60c8bbcf7723bebd866abc26","_id":"references/60c8bbcf7723bebd866abc26","_rev":"_cfFmSJO---","tei":"\n\t\n\t\tProteinortho: Detection of (Co-)orthologs in large-scale analysis\n\t\t\n\t\t\tMarcusLechner\n\t\t\n\t\t\n\t\t\tSvenFindeiß\n\t\t\n\t\t\n\t\t\tLydiaSteiner\n\t\t\n\t\t\n\t\t\tManjaMarz\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t\n\t\t\tSonjaJProhaska\n\t\t\n\t\t10.1186/1471-2105-12-124\n\t\t21526987\n\t\tPMC3114741\n\t\t\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t124\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8bbcf7723bebd866abc24"},"refKey":33},
{"_key":"60c8bbd17723bebd866abc2c","_id":"references/60c8bbd17723bebd866abc2c","_rev":"_cfFmSJa---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bbd17723bebd866abc2b"},"refKey":0},
{"_key":"60c8bc0a7723bebd866abc55","_id":"references/60c8bc0a7723bebd866abc55","_rev":"_cfFmSJm---","tei":"\n\t\n\t\tThe-MathWorks-Inc MATLAB R2019b\n\t\t\t\tNatick, MA\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bc0a7723bebd866abc54"},"refKey":58},
{"_key":"60c8bc497723bebd866abc86","_id":"references/60c8bc497723bebd866abc86","_rev":"_cfFmSJu---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\tRCTeam\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c8bc497723bebd866abc85"},"refKey":10},
{"_key":"60c8bc5a7723bebd866abc97","_id":"references/60c8bc5a7723bebd866abc97","_rev":"_cfFmSJ6---","tei":"\n\t\n\t\tMeta-regression in Stata\n\t\t\n\t\t\tRMHarbord\n\t\t\n\t\t\n\t\t\tJPHiggins\n\t\t\n\t\n\t\n\t\tStata J\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bc5a7723bebd866abc96"},"refKey":36},
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{"_key":"60c8bd417723bebd866abd6c","_id":"references/60c8bd417723bebd866abd6c","_rev":"_cfFmSO----","tei":"\n\t\n\t\tDeciphering key features in protein structures with the new ENDscript server\n\t\t\n\t\t\tXRobert\n\t\t\n\t\t\n\t\t\tPGouet\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t42\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bd407723bebd866abd6a"},"refKey":44},
{"_key":"60c8bd437723bebd866abd7f","_id":"references/60c8bd437723bebd866abd7f","_rev":"_cfFmSOK---","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tPVAfonine\n\t\t\n\t\t\n\t\t\tGBunkóczi\n\t\t\n\t\t\n\t\t\tVBChen\n\t\t\n\t\t\n\t\t\tIWDavis\n\t\t\n\t\t\n\t\t\tNEchols\n\t\t\n\t\t\n\t\t\tJJHeadd\n\t\t\n\t\t\n\t\t\tL-WHung\n\t\t\n\t\t\n\t\t\tGJKapral\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAJMccoy\n\t\t\n\t\t\n\t\t\tNWMoriarty\n\t\t\n\t\t\n\t\t\tROeffner\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tDCRichardson\n\t\t\n\t\t\n\t\t\tJSRichardson\n\t\t\n\t\t\n\t\t\tTCTerwilliger\n\t\t\n\t\t\n\t\t\tPHZwart\n\t\t\n\t\t10.1107/97809553602060000865\n\t\t\n\t\n\t\n\t\tInternational Tables for Crystallography\n\t\t\t\t\n\t\t\tInternational Union of Crystallography\n\t\t\t\n\t\t\t66\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bd437723bebd866abd7e"},"refKey":61},
{"_key":"60c8bd437723bebd866abd80","_id":"references/60c8bd437723bebd866abd80","_rev":"_cfFmSOW---","tei":"\n\t\n\t\tA new adaptive grid-size algorithm for the simulation of sedimentation velocity profiles in analytical ultracentrifugation\n\t\t\n\t\t\tPatrickHBrown\n\t\t\n\t\t\n\t\t\tPeterSchuck\n\t\t\n\t\t10.1016/j.cpc.2007.08.012\n\t\t18196178\n\t\tPMC2267755\n\t\t\n\t\n\t\n\t\tComputer Physics Communications\n\t\tComputer Physics Communications\n\t\t0010-4655\n\t\t\n\t\t\t178\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8bd437723bebd866abd7e"},"refKey":69},
{"_key":"60c8bd437723bebd866abd81","_id":"references/60c8bd437723bebd866abd81","_rev":"_cfFmSOi---","tei":"\n\t\n\t\tHigh-resolution comparative modeling with RosettaCM\n\t\t\n\t\t\tYSong\n\t\t\n\t\n\t\n\t\tStructure\n\t\t\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bd437723bebd866abd7e"},"refKey":57},
{"_key":"60c8bd437723bebd866abd82","_id":"references/60c8bd437723bebd866abd82","_rev":"_cfFmSOq---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bd437723bebd866abd7e"},"refKey":63},
{"_key":"60c8bd437723bebd866abd83","_id":"references/60c8bd437723bebd866abd83","_rev":"_cfFmSO2---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\t\n\t\t\t25\n\t\t\n\t\n\n","document":{"$oid":"60c8bd437723bebd866abd7e"},"refKey":64},
{"_key":"60c8bd437723bebd866abd84","_id":"references/60c8bd437723bebd866abd84","_rev":"_cfFmSPC---","tei":"\n\t\n\t\tGapped BLAST and PSI-BLAST: a new generation of protein database search programs\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bd437723bebd866abd7e"},"refKey":53},
{"_key":"60c8bd527723bebd866abd9d","_id":"references/60c8bd527723bebd866abd9d","_rev":"_cfFmSPK---","tei":"\n\t\n\t\tA Language and Environment for Statistical Computing. Vienna: R Foundation for Statistical Computing\n\t\t\n\t\t\tRR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tinternet]. 2020. cited\n\n","document":{"$oid":"60c8bd527723bebd866abd9c"},"refKey":20},
{"_key":"60c8bd827723bebd866abdae","_id":"references/60c8bd827723bebd866abdae","_rev":"_cfFmSPW---","tei":"\n\t\n\t\tAutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading\n\t\t\n\t\t\tOTrott\n\t\t\n\t\t\n\t\t\tAJOlson\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bd827723bebd866abdad"},"refKey":54},
{"_key":"60c8bd827723bebd866abdaf","_id":"references/60c8bd827723bebd866abdaf","_rev":"_cfFmSPi---","tei":"\n\t\n\t\tFireDock: Fast interaction refinement in molecular docking\n\t\t\n\t\t\tNellyAndrusier\n\t\t\n\t\t\n\t\t\tRuthNussinov\n\t\t\n\t\t\n\t\t\tHaimJWolfson\n\t\t\n\t\t10.1002/prot.21495\n\t\t17598144\n\t\tark:/67375/WNG-7DZTM4QJ-W\n\t\t1292F6CFB843022D8262EE758ED92B5BAA8A92C2\n\t\n\t\n\t\tProteins: Structure, Function, and Bioinformatics\n\t\tProteins\n\t\t0887-3585\n\t\t\n\t\t\t69\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8bd827723bebd866abdad"},"refKey":56},
{"_key":"60c8bd827723bebd866abdb0","_id":"references/60c8bd827723bebd866abdb0","_rev":"_cfFmSPu---","tei":"\n\t\n\t\t\n\t\t\tDACase\n\t\t\n\t\t\n\t\t\tVBabin\n\t\t\n\t\t\n\t\t\tJTBerryman\n\t\t\n\t\t\n\t\t\tRMBetz\n\t\t\n\t\t\n\t\t\tQCai\n\t\t\n\t\t\n\t\t\tDSCerutti\n\t\t\n\t\t\n\t\t\tTECheatham\n\t\t\n\t\t\n\t\t\tIii\n\t\t\n\t\t\n\t\t\tTADarden\n\t\t\n\t\t\n\t\t\tREDuke\n\t\t\n\t\t\n\t\t\tHGohlke\n\t\t\n\t\tThe FF14SB force field\n\t\t\t\tAmber\n\t\t\n\t\t\t\n\t\t\t14\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bd827723bebd866abdad"},"refKey":25},
{"_key":"60c8bd827723bebd866abdb1","_id":"references/60c8bd827723bebd866abdb1","_rev":"_cfFmSP2---","tei":"\n\t\n\t\tUCSF chimera-a visualization system for exploratory research and analysis\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tTDGoddard\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tDMGreenblatt\n\t\t\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tJ. Comput. Chem\n\t\t\n\t\t\t25\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bd827723bebd866abdad"},"refKey":24},
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{"_key":"60c8bd827723bebd866abdb5","_id":"references/60c8bd827723bebd866abdb5","_rev":"_cfFmSQi---","tei":"\n\t\n\t\tGalaxyRefine: protein structure refinement driven by side-chain repacking\n\t\t\n\t\t\tLimHeo\n\t\t\n\t\t\n\t\t\tHahnbeomPark\n\t\t\n\t\t\n\t\t\tChaokSeok\n\t\t\n\t\t10.1093/nar/gkt458\n\t\t23737448\n\t\tPMC3692086\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t41\n\t\t\tW1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8bd827723bebd866abdad"},"refKey":39},
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{"_key":"60c8bdc17723bebd866abdfb","_id":"references/60c8bdc17723bebd866abdfb","_rev":"_cfFmSRy---","tei":"\n\t\n\t\tThe igraph software package for complex network research\n\t\t\n\t\t\tGCsárdi\n\t\t\n\t\t\n\t\t\tTNepusz\n\t\t\n\t\n\t\n\t\tInterJournal Complex Syst\n\t\t\n\t\t\t1695\n\t\t\t9\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bdc17723bebd866abdfa"},"refKey":43},
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{"_key":"60c8bdc17723bebd866abdfd","_id":"references/60c8bdc17723bebd866abdfd","_rev":"_cfFmSSG---","tei":"\n\t\n\t\tAn Implementation of Grammar of Graphics for Graphs and Networks\n\t\t\n\t\t\tTLPedersen\n\t\t\n\t\t\n\t\t\tGgraph\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bdc17723bebd866abdfa"},"refKey":45},
{"_key":"60c8be117723bebd866abe21","_id":"references/60c8be117723bebd866abe21","_rev":"_cfFmSSS---","tei":"\n\t\n\t\tTopic segmentation with an aspect hidden Markov model\n\t\t\n\t\t\tDavidMBlei\n\t\t\n\t\t\n\t\t\tPedroJMoreno\n\t\t\n\t\t10.1145/383952.384021\n\t\n\t\n\t\tProceedings of the 24th annual international ACM SIGIR conference on Research and development in information retrieval - SIGIR '01\n\t\t\t\tthe 24th annual international ACM SIGIR conference on Research and development in information retrieval - SIGIR '01\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8be117723bebd866abe20"},"refKey":3},
{"_key":"60c8be117723bebd866abe22","_id":"references/60c8be117723bebd866abe22","_rev":"_cfFmSSe---","tei":"\n\t\n\t\tBayesian unsupervised topic segmentation\n\t\t\n\t\t\tJacobEisenstein\n\t\t\n\t\t\n\t\t\tReginaBarzilay\n\t\t\n\t\t10.3115/1613715.1613760\n\t\t\n\t\n\t\n\t\tProceedings of the Conference on Empirical Methods in Natural Language Processing - EMNLP '08\n\t\t\t\tthe Conference on Empirical Methods in Natural Language Processing - EMNLP '08\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8be117723bebd866abe20"},"refKey":8},
{"_key":"60c8be387723bebd866abe3c","_id":"references/60c8be387723bebd866abe3c","_rev":"_cfFmSSm---","tei":"\n\t\n\t\tPegasus: Mapping Scientific Workflows onto the Grid\n\t\t\n\t\t\tEwaDeelman\n\t\t\n\t\t\n\t\t\tJamesBlythe\n\t\t\n\t\t\n\t\t\tYolandaGil\n\t\t\n\t\t\n\t\t\tCarlKesselman\n\t\t\n\t\t\n\t\t\tGaurangMehta\n\t\t\n\t\t\n\t\t\tSonalPatil\n\t\t\n\t\t\n\t\t\tMei-HuiSu\n\t\t\n\t\t\n\t\t\tKaranVahi\n\t\t\n\t\t\n\t\t\tMironLivny\n\t\t\n\t\t10.1007/978-3-540-28642-4_2\n\t\tark:/67375/HCB-TB170X9V-D\n\t\t049966569C2C3D7DA721BD842E5C6B0D3986E9F4\n\t\t\n\t\n\t\n\t\tGrid Computing\n\t\t\t\t\n\t\t\tMDDikaiakos\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t3165\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8be387723bebd866abe3b"},"refKey":2},
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{"_key":"60c8be757723bebd866abe80","_id":"references/60c8be757723bebd866abe80","_rev":"_cfFmSUi---","tei":"\n\t\n\t\tHypercube Inc. Hyperchem software. Release 7.5 for windows, Molecular Modeling System\n\t\t\t\tGainesville, FL, USA\n\t\t\n\t\t\tHypercube Inc\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8be757723bebd866abe7e"},"refKey":157},
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{"_key":"60c8beba7723bebd866abeb5","_id":"references/60c8beba7723bebd866abeb5","_rev":"_cfFmSVG---","tei":"\n\t\n\t\tMEGA: Molecular Evolutionary Genetics Analysis software for microcomputers\n\t\t\n\t\t\tSudhirKumar\n\t\t\n\t\t\n\t\t\tKoichiroTamura\n\t\t\n\t\t\n\t\t\tMasatoshiNei\n\t\t\n\t\t10.1093/bioinformatics/10.2.189\n\t\tark:/67375/HXZ-5M4ZQ6XF-5\n\t\tEF205C801A8A153DE9F31B3606EEC398C772EF03\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8beba7723bebd866abeb4"},"refKey":18},
{"_key":"60c8beba7723bebd866abeb6","_id":"references/60c8beba7723bebd866abeb6","_rev":"_cfFmSVS---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with improved accuracy and speed\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1109/csb.2004.1332560\n\t\n\t\n\t\tProceedings. 2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004.\n\t\t\t\t2004 IEEE Computational Systems Bioinformatics Conference, 2004. CSB 2004\n\t\t\n\t\t\tIEEE\n\t\t\t2004\n\t\t\t32\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8beba7723bebd866abeb4"},"refKey":17},
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{"_key":"60c8bece7723bebd866abebc","_id":"references/60c8bece7723bebd866abebc","_rev":"_cfFmSVq---","tei":"\n\t\n\t\tMAFFT multiple sequence alignment software version 7: improvements in performance and usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bece7723bebd866abeba"},"refKey":21},
{"_key":"60c8bece7723bebd866abebd","_id":"references/60c8bece7723bebd866abebd","_rev":"_cfFmSVy---","tei":"\n\t\n\t\tDetecting and Analyzing Genetic Recombination Using RDP4\n\t\t\n\t\t\tDarrenPMartin\n\t\t\n\t\t\n\t\t\tBenMurrell\n\t\t\n\t\t\n\t\t\tArjunKhoosal\n\t\t\n\t\t\n\t\t\tBrejnevMuhire\n\t\t\n\t\t10.1007/978-1-4939-6622-6_17\n\t\t27896731\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t1525\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bece7723bebd866abeba"},"refKey":31},
{"_key":"60c8bece7723bebd866abebe","_id":"references/60c8bece7723bebd866abebe","_rev":"_cfFmSW----","tei":"\n\t\n\t\tStatistical tests for detecting gene conversion\n\t\t\n\t\t\tSSawyer\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bece7723bebd866abeba"},"refKey":44},
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{"_key":"60c8bece7723bebd866abec0","_id":"references/60c8bece7723bebd866abec0","_rev":"_cfFmSWW---","tei":"\n\t\n\t\tEvaluation of methods for detecting recombination from DNA sequences: Computer simulations\n\t\t\n\t\t\tDPosada\n\t\t\n\t\t\n\t\t\tKACrandall\n\t\t\n\t\t10.1073/pnas.241370698\n\t\t11717435\n\t\tPMC61114\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProceedings of the National Academy of Sciences\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t98\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c8bece7723bebd866abeba"},"refKey":41},
{"_key":"60c8bece7723bebd866abec1","_id":"references/60c8bece7723bebd866abec1","_rev":"_cfFmSWi---","tei":"\n\t\n\t\tAnalyzing the mosaic structure of genes\n\t\t\n\t\t\tJohnmaynardMSmith\n\t\t\n\t\t10.1007/bf00182389\n\t\tark:/67375/1BB-PF2DNF4W-7\n\t\t50F7696424BCDB18C0ED882500777A849443F2AC\n\t\n\t\n\t\tJournal of Molecular Evolution\n\t\tJ Mol Evol\n\t\t0022-2844\n\t\t1432-1432\n\t\t\n\t\t\t34\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8bece7723bebd866abeba"},"refKey":47},
{"_key":"60c8bece7723bebd866abec2","_id":"references/60c8bece7723bebd866abec2","_rev":"_cfFmSWu---","tei":"\n\t\n\t\tRNAalifold: improved consensus structure prediction for RNA alignments\n\t\t\n\t\t\tStephanHBernhart\n\t\t\n\t\t\n\t\t\tIvoLHofacker\n\t\t\n\t\t\n\t\t\tSebastianWill\n\t\t\n\t\t\n\t\t\tAndreasRGruber\n\t\t\n\t\t\n\t\t\tPeterFStadler\n\t\t\n\t\t10.1186/1471-2105-9-474\n\t\t19014431\n\t\tPMC2621365\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8bece7723bebd866abeba"},"refKey":2},
{"_key":"60c8bece7723bebd866abec3","_id":"references/60c8bece7723bebd866abec3","_rev":"_cfFmSW6---","tei":"\n\t\n\t\tA Combined Transmembrane Topology and Signal Peptide Prediction Method\n\t\t\n\t\t\tLukasKäll\n\t\t\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1016/j.jmb.2004.03.016\n\t\t15111065\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t338\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8bece7723bebd866abeba"},"refKey":20},
{"_key":"60c8bece7723bebd866abec4","_id":"references/60c8bece7723bebd866abec4","_rev":"_cfFmSXG---","tei":"\n\t\n\t\tPAML 4: phylogenetic analysis by maximum likelihood\n\t\t\n\t\t\tZYang\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bece7723bebd866abeba"},"refKey":57},
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{"_key":"60c8bef07723bebd866abef6","_id":"references/60c8bef07723bebd866abef6","_rev":"_cfFmSXm---","tei":"\n\t\n\t\tMAFFT: A novel method for rapid multiple sequence alignment based on fast fourier transform\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tKMisawa\n\t\t\n\t\t\n\t\t\tK.-IKuma\n\t\t\n\t\t\n\t\t\tTMiyata\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bef07723bebd866abef5"},"refKey":12},
{"_key":"60c8bef07723bebd866abef7","_id":"references/60c8bef07723bebd866abef7","_rev":"_cfFmSXy---","tei":"\n\t\n\t\tIQ-tree: A fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies\n\t\t\n\t\t\tL.-TNguyen\n\t\t\n\t\t\n\t\t\tHASchmidt\n\t\t\n\t\t\n\t\t\tAVon Haeseler\n\t\t\n\t\t\n\t\t\tBQMinh\n\t\t\n\t\n\t\n\t\tMolecular biology and evolution\n\t\t\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bef07723bebd866abef5"},"refKey":17},
{"_key":"60c8beff7723bebd866abf01","_id":"references/60c8beff7723bebd866abf01","_rev":"_cfFmSY----","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: automated docking with selective receptor flexibility\n\t\t\n\t\t\tGMMorris\n\t\t\n\t\t\n\t\t\tRHuey\n\t\t\n\t\t\n\t\t\tWLindstrom\n\t\t\n\t\t\n\t\t\tMFSanner\n\t\t\n\t\t\n\t\t\tRKBelew\n\t\t\n\t\t\n\t\t\tDSGoodsell\n\t\t\n\t\n\t\n\t\tJ Comput Chem\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8beff7723bebd866abf00"},"refKey":19},
{"_key":"60c8beff7723bebd866abf02","_id":"references/60c8beff7723bebd866abf02","_rev":"_cfFmSYK---","tei":"\n\t\n\t\tOpen Babel: an open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\t\n\t\t\tCMorley\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\n\t\n\t\tJ Cheminform\n\t\t\n\t\t\t3\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8beff7723bebd866abf00"},"refKey":18},
{"_key":"60c8beff7723bebd866abf03","_id":"references/60c8beff7723bebd866abf03","_rev":"_cfFmSYS---","tei":"\n\t\n\t\tSimBoost: a read-across approach for predicting drug–target binding affinities using gradient boosting machines\n\t\t\n\t\t\tTongHe\n\t\t\n\t\t\n\t\t\tMartenHeidemeyer\n\t\t\n\t\t\n\t\t\tFuqiangBan\n\t\t\n\t\t\n\t\t\tArtemCherkasov\n\t\t\n\t\t\n\t\t\tMartinEster\n\t\t\t0000-0001-7732-2815\n\t\t\n\t\t10.1186/s13321-017-0209-z\n\t\t29086119\n\t\tPMC5395521\n\t\n\t\n\t\tJournal of Cheminformatics\n\t\tJ Cheminform\n\t\t1758-2946\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t24\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c8beff7723bebd866abf00"},"refKey":22},
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{"_key":"60c8bf3f7723bebd866abf2e","_id":"references/60c8bf3f7723bebd866abf2e","_rev":"_cfFmSYq---","tei":"\n\t\n\t\tEstimating the population abundance of tissue-infiltrating immune and stromal cell populations using gene expression\n\t\t\n\t\t\tEtienneBecht\n\t\t\n\t\t\n\t\t\tNicolasAGiraldo\n\t\t\n\t\t\n\t\t\tLaetitiaLacroix\n\t\t\n\t\t\n\t\t\tBénédicteButtard\n\t\t\n\t\t\n\t\t\tNabilaElarouci\n\t\t\n\t\t\n\t\t\tFlorentPetitprez\n\t\t\n\t\t\n\t\t\tJanickSelves\n\t\t\n\t\t\n\t\t\tPierreLaurent-Puig\n\t\t\n\t\t\n\t\t\tCatherineSautès-Fridman\n\t\t\n\t\t\n\t\t\tWolfHFridman\n\t\t\n\t\t\n\t\t\tAurélienDe Reyniès\n\t\t\n\t\t10.1186/s13059-016-1070-5\n\t\t27765066\n\t\tPMC5073889\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1474-760X\n\t\t\n\t\t\t17\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8bf3f7723bebd866abf2d"},"refKey":23},
{"_key":"60c8bf3f7723bebd866abf2f","_id":"references/60c8bf3f7723bebd866abf2f","_rev":"_cfFmSY2---","tei":"\n\t\n\t\tComplex heatmaps reveal patterns and correlations in multidimensional genomic data\n\t\t\n\t\t\tZuguangGu\n\t\t\n\t\t\n\t\t\tRolandEils\n\t\t\n\t\t\n\t\t\tMatthiasSchlesner\n\t\t\n\t\t10.1093/bioinformatics/btw313\n\t\t27207943\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8bf3f7723bebd866abf2d"},"refKey":50},
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{"_key":"60c8bf597723bebd866abf45","_id":"references/60c8bf597723bebd866abf45","_rev":"_cfFmSZa---","tei":"\n\t\n\t\tIntroducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities\n\t\t\n\t\t\tPDSchloss\n\t\t\n\t\t\n\t\t\tSLWestcott\n\t\t\n\t\t\n\t\t\tTRyabin\n\t\t\n\t\t\n\t\t\tJRHall\n\t\t\n\t\t\n\t\t\tMHartmann\n\t\t\n\t\n\t\n\t\tAppl. Environ. Microbiol\n\t\t\n\t\t\t75\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bf597723bebd866abf43"},"refKey":16},
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{"_key":"60c8bfa87723bebd866abf80","_id":"references/60c8bfa87723bebd866abf80","_rev":"_cfFmSZy---","tei":"\n\t\n\t\tOn the treatment of negative intensity observations\n\t\t\n\t\t\tSFrench\n\t\t\n\t\t\n\t\t\tWilson\n\t\t\n\t\t\n\t\t\tK\n\t\t\n\t\n\t\n\t\tActa Crystallogr A\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bfa87723bebd866abf7e"},"refKey":26},
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{"_key":"60c8bfa87723bebd866abf82","_id":"references/60c8bfa87723bebd866abf82","_rev":"_cfFmSaG---","tei":"\n\t\n\t\tThe 'Buccaneer' software for automated protein chain tracing\n\t\t\n\t\t\tKCowtan\n\t\t\n\t\t10.1107/s0108767306098266\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t62\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c8bfa87723bebd866abf7e"},"refKey":14},
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{"_key":"60c8bfa87723bebd866abf84","_id":"references/60c8bfa87723bebd866abf84","_rev":"_cfFmSae---","tei":"\n\t\n\t\tOverview of the CCP4 suite and current developments\n\t\t\n\t\t\tMDWinn\n\t\t\n\t\t\n\t\t\tCCBallard\n\t\t\n\t\t\n\t\t\tKDCowtan\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\t\n\t\t\tPEmsley\n\t\t\n\t\t\n\t\t\tPREvans\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t67\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bfa87723bebd866abf7e"},"refKey":83},
{"_key":"60c8bfa87723bebd866abf85","_id":"references/60c8bfa87723bebd866abf85","_rev":"_cfFmSaq---","tei":"\n\t\n\t\tRefinement of macromolecular structures by the maximum-likelihood method\n\t\t\n\t\t\tGNMurshudov\n\t\t\n\t\t\n\t\t\tAAVagin\n\t\t\n\t\t\n\t\t\tEJDodson\n\t\t\n\t\n\t\n\t\tActa Crystallogr D Biol Crystallogr\n\t\t\n\t\t\t53\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8bfa87723bebd866abf7e"},"refKey":54},
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{"_key":"60c8c0607723bebd866ac052","_id":"references/60c8c0607723bebd866ac052","_rev":"_cfFmSe2---","tei":"\n\t\n\t\tPsychometric Developments Related to Tests and Selection\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t10.21236/ada280416\n\t\t\n\t\n\t\n\t\tLos Angeles: Muthén & Muthén\n\t\t\t\t\n\t\t\tDefense Technical Information Center\n\t\t\t\n\t\t\n\t\n\tMplus User's Guide\n\n","document":{"$oid":"60c8c0607723bebd866ac051"},"refKey":63},
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{"_key":"60c8c0797723bebd866ac070","_id":"references/60c8c0797723bebd866ac070","_rev":"_cfFmSfO---","tei":"\n\t\n\t\tExtraordinary neoteny of synaptic spines in the human prefrontal cortex\n\t\t\n\t\t\tZdravkoPetanjek\n\t\t\n\t\t\n\t\t\tMilošJudaš\n\t\t\n\t\t\n\t\t\tGoranŠimić\n\t\t\n\t\t\n\t\t\tMladenRokoRašin\n\t\t\n\t\t\n\t\t\tHarryB MUylings\n\t\t\n\t\t\n\t\t\tPaskoRakic\n\t\t\n\t\t\n\t\t\tIvicaKostović\n\t\t\n\t\t10.1073/pnas.1105108108\n\t\t21788513\n\t\tPMC3156171\n\t\t\n\t\n\t\n\t\tProceedings of the National Academy of Sciences\n\t\tProc Natl Acad Sci USA\n\t\t0027-8424\n\t\t1091-6490\n\t\t\n\t\t\t108\n\t\t\t32\n\t\t\t\n\t\t\t\n\t\t\tProceedings of the National Academy of Sciences\n\t\t\n\t\n\n","document":{"$oid":"60c8c0797723bebd866ac06e"},"refKey":4},
{"_key":"60c8c0797723bebd866ac071","_id":"references/60c8c0797723bebd866ac071","_rev":"_cfFmSfa---","tei":"\n\t\n\t\tInfant FreeSurfer: An automated segmentation and surface extraction pipeline for T1-weighted neuroimaging data of infants 0-2 years\n\t\t\n\t\t\tLZöllei\n\t\t\n\t\t\n\t\t\tJEIglesias\n\t\t\n\t\t\n\t\t\tYOu\n\t\t\n\t\t\n\t\t\tPEGrant\n\t\t\n\t\t\n\t\t\tBFischl\n\t\t\n\t\t10.1016/j.neuroimage.2020.116946\n\t\n\t\n\t\tNeuroImage\n\t\t\n\t\t\t218\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c0797723bebd866ac06e"},"refKey":35},
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{"_key":"60c8c0927723bebd866ac090","_id":"references/60c8c0927723bebd866ac090","_rev":"_cfFmSfy---","tei":"\n\t\n\t\tProliferating SPP1/MERTK-expressing macrophages in idiopathic pulmonary fibrosis\n\t\t\n\t\t\tChristinaMorse\n\t\t\n\t\t\n\t\t\tTracyTabib\n\t\t\n\t\t\n\t\t\tJohnSembrat\n\t\t\n\t\t\n\t\t\tKristinaLBuschur\n\t\t\n\t\t\n\t\t\tHumbertoTrejoBittar\n\t\t\n\t\t\n\t\t\tEleanorValenzi\n\t\t\n\t\t\n\t\t\tYaleJiang\n\t\t\n\t\t\n\t\t\tDanielJKass\n\t\t\t0000-0001-6597-7830\n\t\t\n\t\t\n\t\t\tKevinGibson\n\t\t\n\t\t\n\t\t\tWeiChen\n\t\t\t0000-0001-7196-8703\n\t\t\n\t\t\n\t\t\tAnaMora\n\t\t\n\t\t\n\t\t\tPanayiotisVBenos\n\t\t\n\t\t\n\t\t\tMauricioRojas\n\t\t\n\t\t\n\t\t\tRobertLafyatis\n\t\t\t0000-0002-9398-5034\n\t\t\n\t\t10.1183/13993003.02441-2018\n\t\n\t\n\t\tEuropean Respiratory Journal\n\t\tEur Respir J\n\t\t0903-1936\n\t\t1399-3003\n\t\t\n\t\t\t54\n\t\t\t2\n\t\t\t1802441\n\t\t\t\n\t\t\tEuropean Respiratory Society (ERS)\n\t\t\n\t\n\n","document":{"$oid":"60c8c0927723bebd866ac08e"},"refKey":31},
{"_key":"60c8c0977723bebd866ac0ae","_id":"references/60c8c0977723bebd866ac0ae","_rev":"_cfFmSg----","tei":"\n\t\n\t\tThe WEKA data mining software: an update\n\t\t\n\t\t\tMHall\n\t\t\n\t\t\n\t\t\tEFrank\n\t\t\n\t\t\n\t\t\tGHolmes\n\t\t\n\t\t\n\t\t\tBPfahringer\n\t\t\n\t\t\n\t\t\tPReutemann\n\t\t\n\t\t\n\t\t\tIHWitten\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tSIGKDD Explor\n\n","document":{"$oid":"60c8c0977723bebd866ac0ad"},"refKey":15},
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{"_key":"60c8c0a97723bebd866ac0b9","_id":"references/60c8c0a97723bebd866ac0b9","_rev":"_cfFmSgW---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWDa Huang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c0a97723bebd866ac0b7"},"refKey":21},
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{"_key":"60c8c16f7723bebd866ac144","_id":"references/60c8c16f7723bebd866ac144","_rev":"_cfFmSgq---","tei":"\n\t\n\t\tAutomated phylogenetic detection of recombination using a genetic algorithm\n\t\t\n\t\t\tKosakovskyPond\n\t\t\n\t\t\n\t\t\tSLPosada\n\t\t\n\t\t\n\t\t\tDGravenor\n\t\t\n\t\t\n\t\t\tMBWoelk\n\t\t\n\t\t\n\t\t\tCHFrost\n\t\t\n\t\t\n\t\t\tSD\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t23\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c16f7723bebd866ac143"},"refKey":20},
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{"_key":"60c8c1777723bebd866ac155","_id":"references/60c8c1777723bebd866ac155","_rev":"_cfFmShO---","tei":"\n\t\n\t\tExtracting biological meaning from large gene lists with DAVID\n\t\t\n\t\t\tDWHuang\n\t\t\n\t\t13.11\n\t\n\t\n\t\tCurrent Protocols in Bioinformatics\n\t\t\n\t\t\t27\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c1777723bebd866ac153"},"refKey":19},
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{"_key":"60c8c37c7723bebd866ac36c","_id":"references/60c8c37c7723bebd866ac36c","_rev":"_cfFmSp6---","tei":"\n\t\n\t\tPyTMs: a useful PyMOL plugin for modeling common post-translational modifications\n\t\t\n\t\t\tAndreasWarnecke\n\t\t\n\t\t\n\t\t\tTatyanaSandalova\n\t\t\n\t\t\n\t\t\tAdnaneAchour\n\t\t\n\t\t\n\t\t\tRobertAHarris\n\t\t\n\t\t10.1186/preaccept-1977987350137477\n\t\t25431162\n\t\tPMC4256751\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t15\n\t\t\t1\n\t\t\t370\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8c37c7723bebd866ac369"},"refKey":85},
{"_key":"60c8c37c7723bebd866ac36d","_id":"references/60c8c37c7723bebd866ac36d","_rev":"_cfFmSqG---","tei":"\n\t\n\t\tinnatelab/maxquantUtils v0.1.0. (Zenodo, 2021)\n\t\t\n\t\t\tAlexeyStukalov\n\t\t\n\t\t10.5281/zenodo.4536603\n\t\t\n\t\n\n","document":{"$oid":"60c8c37c7723bebd866ac369"},"refKey":67},
{"_key":"60c8c37c7723bebd866ac36e","_id":"references/60c8c37c7723bebd866ac36e","_rev":"_cfFmSqO---","tei":"\n\t\n\t\tStan: A Probabilistic Programming Language\n\t\t\n\t\t\tBCarpenter\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\t\n\t\t\t76\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c37c7723bebd866ac369"},"refKey":69},
{"_key":"60c8c37c7723bebd866ac36f","_id":"references/60c8c37c7723bebd866ac36f","_rev":"_cfFmSqa---","tei":"\n\t\n\t\tCytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks\n\t\t\n\t\t\tPShannon\n\t\t\n\t\n\t\n\t\tGenome Res\n\t\t\n\t\t\t13\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c37c7723bebd866ac369"},"refKey":72},
{"_key":"60c8c37c7723bebd866ac370","_id":"references/60c8c37c7723bebd866ac370","_rev":"_cfFmSqm---","tei":"\n\t\n\t\tlimma powers differential expression analyses for RNA-sequencing and microarray studies\n\t\t\n\t\t\tMERitchie\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\te47\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c37c7723bebd866ac369"},"refKey":73},
{"_key":"60c8c37c7723bebd866ac371","_id":"references/60c8c37c7723bebd866ac371","_rev":"_cfFmSqy---","tei":"\n\t\n\t\tTools for integrated sequence-structure analysis with UCSF Chimera\n\t\t\n\t\t\tECMeng\n\t\t\n\t\t\n\t\t\tEFPettersen\n\t\t\n\t\t\n\t\t\tGSCouch\n\t\t\n\t\t\n\t\t\tCCHuang\n\t\t\n\t\t\n\t\t\tTEFerrin\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t7\n\t\t\t339\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c37c7723bebd866ac369"},"refKey":83},
{"_key":"60c8c37c7723bebd866ac372","_id":"references/60c8c37c7723bebd866ac372","_rev":"_cfFmSq6---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tAlexeyStukalov\n\t\t\n\t\t\n\t\t\tHierarchicalhotnet\n\t\t\n\t\t10.5281/zenodo.4536590\n\t\t\n\t\n\tjl v1.0.0. (Zenodo, 2021\n\n","document":{"$oid":"60c8c37c7723bebd866ac369"},"refKey":82},
{"_key":"60c8c3ae7723bebd866ac3ac","_id":"references/60c8c3ae7723bebd866ac3ac","_rev":"_cfFmSrG---","tei":"\n\t\n\t\tGoogle API for Exposure Notification (GAEN)\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tRetrieved 27\n\n","document":{"$oid":"60c8c3ae7723bebd866ac3ab"},"refKey":10},
{"_key":"60c8c3ae7723bebd866ac3ad","_id":"references/60c8c3ae7723bebd866ac3ad","_rev":"_cfFmSrS---","tei":"\n\t\n\t\tOpenABM-Covid19 -an agent-based model for non-pharmaceutical interventions against COVID-19 including contact tracing\n\t\t\n\t\t\tRobertHinch\n\t\t\n\t\t\n\t\t\tJ MWilliam\n\t\t\n\t\t\n\t\t\tAnelProbert\n\t\t\n\t\t\n\t\t\tMichelleNurtay\n\t\t\n\t\t\n\t\t\tChrisKendall\n\t\t\n\t\t\n\t\t\tMatthewWymatt\n\t\t\n\t\t\n\t\t\tKatrinaHall\n\t\t\n\t\t\n\t\t\tAnaBulasLythgoe\n\t\t\n\t\t\n\t\t\tLeleCruz\n\t\t\n\t\t\n\t\t\tAndreaZhao\n\t\t\n\t\t\n\t\t\tLucaStewart\n\t\t\n\t\t\n\t\t\tDanielFerritti\n\t\t\n\t\t\n\t\t\tJamesMontero\n\t\t\n\t\t\n\t\t\tNicoleWarren\n\t\t\n\t\t\n\t\t\tMatthewMather\n\t\t\n\t\t\n\t\t\tNeoAbueg\n\t\t\n\t\t\n\t\t\tAnthonyWu\n\t\t\n\t\t\n\t\t\tFinkelstein\n\t\t\n\t\t\n\t\t\tGDavid\n\t\t\n\t\t\n\t\t\tLucieBonsall\n\t\t\n\t\t\n\t\t\tChristopheAbeler-Dorner\n\t\t\n\t\t\n\t\t\tFraser\n\t\t\n\t\t10.1101/2020.09.16.20195925\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c3ae7723bebd866ac3ab"},"refKey":16},
{"_key":"60c8c3c67723bebd866ac3cc","_id":"references/60c8c3c67723bebd866ac3cc","_rev":"_cfFmSre---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8c3c67723bebd866ac3cb"},"refKey":16},
{"_key":"60c8c3c67723bebd866ac3cd","_id":"references/60c8c3c67723bebd866ac3cd","_rev":"_cfFmSrm---","tei":"\n\t\n\t\tPosterior Summarization in Bayesian Phylogenetics Using Tracer 1.7\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tAlexeiJDrummond\n\t\t\n\t\t\n\t\t\tDongXie\n\t\t\n\t\t\n\t\t\tGuyBaele\n\t\t\n\t\t\n\t\t\tMarcASuchard\n\t\t\n\t\t10.1093/sysbio/syy032\n\t\t29718447\n\t\tPMC6101584\n\t\t\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t67\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8c3c67723bebd866ac3cb"},"refKey":20},
{"_key":"60c8c3e17723bebd866ac3f2","_id":"references/60c8c3e17723bebd866ac3f2","_rev":"_cfFmSry---","tei":"\n\t\n\t\teds) Book A quality control tool for high throughput sequence data\n\t\t\n\t\t\tSAndrews\n\t\t\n\t\tFastQC. In: Editor (ed)^(\n\t\t\n\t\t\t\n\t\t\tFastQC. City\n\t\t\n\t\n\tA quality control tool for high throughput sequence data\n\n","document":{"$oid":"60c8c3e17723bebd866ac3f1"},"refKey":7},
{"_key":"60c8c3e17723bebd866ac3f3","_id":"references/60c8c3e17723bebd866ac3f3","_rev":"_cfFmSs----","tei":"\n\t\n\t\tMagic-BLAST, an accurate RNA-seq aligner for long and short reads\n\t\t\n\t\t\tGrzegorzMBoratyn\n\t\t\n\t\t\n\t\t\tJeanThierry-Mieg\n\t\t\n\t\t\n\t\t\tDanielleThierry-Mieg\n\t\t\n\t\t\n\t\t\tBenBusby\n\t\t\n\t\t\n\t\t\tThomasLMadden\n\t\t\t0000-0003-1641-7321\n\t\t\n\t\t10.1186/s12859-019-2996-x\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t20\n\t\t\t1\n\t\t\t405\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c8c3e17723bebd866ac3f1"},"refKey":9},
{"_key":"60c8c3fd7723bebd866ac3fa","_id":"references/60c8c3fd7723bebd866ac3fa","_rev":"_cfFmSsK---","tei":"\n\t\n\t\tMetagenomic microbial community profiling using unique clade-specific marker genes\n\t\t\n\t\t\tNicolaSegata\n\t\t\n\t\t\n\t\t\tLeviWaldron\n\t\t\n\t\t\n\t\t\tAnnalisaBallarini\n\t\t\n\t\t\n\t\t\tVagheeshNarasimhan\n\t\t\n\t\t\n\t\t\tOlivierJousson\n\t\t\n\t\t\n\t\t\tCurtisHuttenhower\n\t\t\n\t\t10.1038/nmeth.2066\n\t\t22688413\n\t\tPMC3443552\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8c3fd7723bebd866ac3f9"},"refKey":41},
{"_key":"60c8c3fd7723bebd866ac3fb","_id":"references/60c8c3fd7723bebd866ac3fb","_rev":"_cfFmSsS---","tei":"\n\t\n\t\tScalable metagenomic taxonomy classification using a reference genome database\n\t\t\n\t\t\tSKAmes\n\t\t\n\t\t\n\t\t\tDAHysom\n\t\t\n\t\t\n\t\t\tSNGardner\n\t\t\n\t\t\n\t\t\tGSLloyd\n\t\t\n\t\t\n\t\t\tMBGokhale\n\t\t\n\t\t\n\t\t\tJEAllen\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t29\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c3fd7723bebd866ac3f9"},"refKey":40},
{"_key":"60c8c3fd7723bebd866ac3fc","_id":"references/60c8c3fd7723bebd866ac3fc","_rev":"_cfFmSse---","tei":"\n\t\n\t\tTrimmomatic: a flexible trimmer for illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c3fd7723bebd866ac3f9"},"refKey":39},
{"_key":"60c8c4087723bebd866ac410","_id":"references/60c8c4087723bebd866ac410","_rev":"_cfFmSsq---","tei":"\n\t\n\t\tPrediction of amphipathic in-plane membrane anchors in monotopic proteins using a SVM classifier\n\t\t\n\t\t\tNSapay\n\t\t\n\t\t\n\t\t\tYGuermeur\n\t\t\n\t\t\n\t\t\tGDeleage\n\t\t\n\t\t10.1186/1471-2105-7-255\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\n\t\n\t255. [CrossRef\n\n","document":{"$oid":"60c8c4087723bebd866ac40f"},"refKey":28},
{"_key":"60c8c4087723bebd866ac411","_id":"references/60c8c4087723bebd866ac411","_rev":"_cfFmSsy---","tei":"\n\t\n\t\tJalview Version 2--a multiple sequence alignment editor and analysis workbench\n\t\t\n\t\t\tAMWaterhouse\n\t\t\n\t\t\n\t\t\tJBProcter\n\t\t\n\t\t\n\t\t\tDM AMartin\n\t\t\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btp033\n\t\t19151095\n\t\tPMC2672624\n\t\tark:/67375/HXZ-5L762ZQS-N\n\t\t984BAD740626CEADBD2E31F4094D8E18B07D49EA\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8c4087723bebd866ac40f"},"refKey":29},
{"_key":"60c8c41a7723bebd866ac41c","_id":"references/60c8c41a7723bebd866ac41c","_rev":"_cfFmSt----","tei":"\n\t\n\t\tPHENIX: a comprehensive Python-based system for macromolecular structure solution\n\t\t\n\t\t\tPaulDAdams\n\t\t\n\t\t\n\t\t\tPavelVAfonine\n\t\t\n\t\t\n\t\t\tGáborBunkóczi\n\t\t\n\t\t\n\t\t\tVincentBChen\n\t\t\n\t\t\n\t\t\tIanWDavis\n\t\t\n\t\t\n\t\t\tNathanielEchols\n\t\t\n\t\t\n\t\t\tJeffreyJHeadd\n\t\t\n\t\t\n\t\t\tLi-WeiHung\n\t\t\n\t\t\n\t\t\tGaryJKapral\n\t\t\n\t\t\n\t\t\tRalfWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tAirlieJMccoy\n\t\t\n\t\t\n\t\t\tNigelWMoriarty\n\t\t\n\t\t\n\t\t\tRobertOeffner\n\t\t\n\t\t\n\t\t\tRandyJRead\n\t\t\n\t\t\n\t\t\tDavidCRichardson\n\t\t\n\t\t\n\t\t\tJaneSRichardson\n\t\t\n\t\t\n\t\t\tThomasCTerwilliger\n\t\t\n\t\t\n\t\t\tPeterHZwart\n\t\t\n\t\t10.1107/s0907444909052925\n\t\t20124702\n\t\tPMC2815670\n\t\tark:/67375/WNG-B3BB9BL2-T\n\t\tAC9A0991CE9B77AF8B75EA94F7438CBD7B42503D\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t66\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c8c41a7723bebd866ac41b"},"refKey":41},
{"_key":"60c8c41a7723bebd866ac41d","_id":"references/60c8c41a7723bebd866ac41d","_rev":"_cfFmStK---","tei":"\n\t\n\t\tBUSTER version 2.10.3., (Global Phasing Ltd\n\t\t\n\t\t\tGBricogne\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c41a7723bebd866ac41b"},"refKey":42},
{"_key":"60c8c41a7723bebd866ac41e","_id":"references/60c8c41a7723bebd866ac41e","_rev":"_cfFmStW---","tei":"\n\t\n\t\tHow good are my data and what is the resolution?\n\t\t\n\t\t\tPhilipREvans\n\t\t\n\t\t\n\t\t\tGaribNMurshudov\n\t\t\n\t\t10.1107/s0907444913000061\n\t\t23793146\n\t\tPMC3689523\n\t\tark:/67375/WNG-5NGXND0Q-1\n\t\tBB88595D0B6EDD2B9D3A2D34A0E0E6807A0B5A6E\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section D Biological Crystallography\n\t\tActa Crystallogr D Biol Cryst\n\t\t0907-4449\n\t\t\n\t\t\t69\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c8c41a7723bebd866ac41b"},"refKey":38},
{"_key":"60c8c4227723bebd866ac428","_id":"references/60c8c4227723bebd866ac428","_rev":"_cfFmSti---","tei":"\n\t\n\t\tstm: R Package for Structural Topic Models\n\t\t\n\t\t\tMERoberts\n\t\t\n\t\t\n\t\t\tBMStewart\n\t\t\n\t\t\n\t\t\tDTingley\n\t\t\n\t\t10.18637/jss.v091.i02\n\t\n\t\n\t\tJ Stat Softw\n\t\t\n\t\t\t91\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c4227723bebd866ac427"},"refKey":10},
{"_key":"60c8c44d7723bebd866ac442","_id":"references/60c8c44d7723bebd866ac442","_rev":"_cfFmStq---","tei":"\n\t\n\t\tPLINK: a tool set for whole-genome association and population-based linkage analyses\n\t\t\n\t\t\tSPurcell\n\t\t\n\t\t\n\t\t\tNealeBTodd-Brown\n\t\t\n\t\t\n\t\t\tKThomas\n\t\t\n\t\t\n\t\t\tLFerreira\n\t\t\n\t\t\n\t\t\tMABender\n\t\t\n\t\t\n\t\t\tD\n\t\t\n\t\n\t\n\t\tAm J Hum Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c44d7723bebd866ac441"},"refKey":33},
{"_key":"60c8c44d7723bebd866ac443","_id":"references/60c8c44d7723bebd866ac443","_rev":"_cfFmSt2---","tei":"\n\t\n\t\tSNPinfo: integrating GWAS and candidate gene information into functional SNP selection for genetic association studies\n\t\t\n\t\t\tZXu\n\t\t\n\t\t\n\t\t\tJATaylor\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t37\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c44d7723bebd866ac441"},"refKey":37},
{"_key":"60c8c44d7723bebd866ac444","_id":"references/60c8c44d7723bebd866ac444","_rev":"_cfFmSuC---","tei":"\n\t\n\t\txCell: Digitally portraying the tissue cellular heterogeneity landscape\n\t\t\n\t\t\tDvirAran\n\t\t\t0000-0001-6334-5039\n\t\t\n\t\t\n\t\t\tZichengHu\n\t\t\n\t\t\n\t\t\tAtulJButte\n\t\t\t0000-0002-7433-2740\n\t\t\n\t\t10.1101/114165\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t18\n\t\t\t220\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8c44d7723bebd866ac441"},"refKey":31},
{"_key":"60c8c44d7723bebd866ac445","_id":"references/60c8c44d7723bebd866ac445","_rev":"_cfFmSuO---","tei":"\n\t\n\t\tThe sva package for removing batch effects and other unwanted variation in high-throughput experiments\n\t\t\n\t\t\tJTLeek\n\t\t\n\t\t\n\t\t\tWEJohnson\n\t\t\n\t\t\n\t\t\tHSParker\n\t\t\n\t\t\n\t\t\tAEJaffe\n\t\t\n\t\t\n\t\t\tJDStorey\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c44d7723bebd866ac441"},"refKey":30},
{"_key":"60c8c44d7723bebd866ac446","_id":"references/60c8c44d7723bebd866ac446","_rev":"_cfFmSuW---","tei":"\n\t\n\t\tMatrix eQTL: ultra fast eQTL analysis via large matrix operations\n\t\t\n\t\t\tAAShabalin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c44d7723bebd866ac441"},"refKey":35},
{"_key":"60c8c4bd7723bebd866ac4c3","_id":"references/60c8c4bd7723bebd866ac4c3","_rev":"_cfFmSui---","tei":"\n\t\n\t\tMEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tJDudley\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c4bd7723bebd866ac4c2"},"refKey":19},
{"_key":"60c8c4e77723bebd866ac4d3","_id":"references/60c8c4e77723bebd866ac4d3","_rev":"_cfFmSuu---","tei":"\n\t\n\t\tThe equilibrium partition function and base pair binding probabilities for RNA secondary structure\n\t\t\n\t\t\tJSMccaskill\n\t\t\n\t\t10.1002/bip.360290621\n\t\t1695107\n\t\tark:/67375/WNG-LV07WX3K-Q\n\t\tDE961259473794099D27C118104ECEEF97D2C203\n\t\t\n\t\n\t\n\t\tBiopolymers\n\t\tBiopolymers\n\t\t0006-3525\n\t\t1097-0282\n\t\t\n\t\t\t29\n\t\t\t6-7\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8c4e77723bebd866ac4d2"},"refKey":42},
{"_key":"60c8c4e77723bebd866ac4d4","_id":"references/60c8c4e77723bebd866ac4d4","_rev":"_cfFmSu6---","tei":"\n\t\n\t\tFast folding and comparison of RNA secondary structures\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\t\n\t\t\tWFontana\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t\n\t\t\tLSBonhoeffer\n\t\t\n\t\t\n\t\t\tMTacker\n\t\t\n\t\t\n\t\t\tPSchuster\n\t\t\n\t\t10.1007/bf00818163\n\t\tark:/67375/1BB-N6DHN825-D\n\t\tF149ECB8797ECA4546DA33D196F06F51CFB3E2DB\n\t\n\t\n\t\tMonatshefte f�r Chemie Chemical Monthly\n\t\tMonatsh Chem\n\t\t0026-9247\n\t\t1434-4475\n\t\t\n\t\t\t125\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c8c4e77723bebd866ac4d2"},"refKey":31},
{"_key":"60c8c4e77723bebd866ac4d5","_id":"references/60c8c4e77723bebd866ac4d5","_rev":"_cfFmSvG---","tei":"\n\t\n\t\tFlexStem: improving predictions of RNA secondary structures with pseudoknots by reducing the search space\n\t\t\n\t\t\tXiangChen\n\t\t\n\t\t\n\t\t\tSi-MinHe\n\t\t\n\t\t\n\t\t\tDongboBu\n\t\t\n\t\t\n\t\t\tFaZhang\n\t\t\n\t\t\n\t\t\tZhiyongWang\n\t\t\n\t\t\n\t\t\tRunshengChen\n\t\t\n\t\t\n\t\t\tWenGao\n\t\t\n\t\t10.1093/bioinformatics/btn327\n\t\t18586700\n\t\tark:/67375/HXZ-2D0HN2HB-1\n\t\tC7434F114E8EB89E38DF4ADFD78A62DACB36EB69\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t18\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8c4e77723bebd866ac4d2"},"refKey":12},
{"_key":"60c8c4e77723bebd866ac4d6","_id":"references/60c8c4e77723bebd866ac4d6","_rev":"_cfFmSvS---","tei":"\n\t\n\t\tDesign, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics\n\t\t\n\t\t\tJReeder\n\t\t\n\t\t\n\t\t\tRGiegerich\n\t\t\n\t\t10.1186/1471-2105-5-104\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t5\n\t\t\t104\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c4e77723bebd866ac4d2"},"refKey":49},
{"_key":"60c8c4e77723bebd866ac4d7","_id":"references/60c8c4e77723bebd866ac4d7","_rev":"_cfFmSva---","tei":"\n\t\n\t\tHotKnots: Heuristic prediction of RNA secondary structures including pseudoknots\n\t\t\n\t\t\tJRen\n\t\t\n\t\t\n\t\t\tBRastegari\n\t\t\n\t\t\n\t\t\tAECondon\n\t\t\n\t\t\n\t\t\tHHHoos\n\t\t\n\t\t10.1261/rna.7284905\n\t\t16199760\n\t\tPMC1370833\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t11\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8c4e77723bebd866ac4d2"},"refKey":51},
{"_key":"60c8c4e77723bebd866ac4d8","_id":"references/60c8c4e77723bebd866ac4d8","_rev":"_cfFmSvm---","tei":"\n\t\n\t\tImproved free energy parameters for RNA pseudoknotted secondary structure prediction\n\t\t\n\t\t\tMSAndronescu\n\t\t\n\t\t\n\t\t\tCPop\n\t\t\n\t\t\n\t\t\tAECondon\n\t\t\n\t\t10.1261/rna.1689910\n\t\t19933322\n\t\tPMC2802035\n\t\t\n\t\n\t\n\t\tRNA\n\t\tRNA\n\t\t1355-8382\n\t\t\n\t\t\t16\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8c4e77723bebd866ac4d2"},"refKey":1},
{"_key":"60c8c4f07723bebd866ac541","_id":"references/60c8c4f07723bebd866ac541","_rev":"_cfFmSvy---","tei":"\n\t\n\t\tDevelopment and testing of a general amber force field\n\t\t\n\t\t\tJunmeiWang\n\t\t\n\t\t\n\t\t\tRomainMWolf\n\t\t\n\t\t\n\t\t\tJamesWCaldwell\n\t\t\n\t\t\n\t\t\tPeterAKollman\n\t\t\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t10.1002/jcc.20035\n\t\t15116359\n\t\tark:/67375/WNG-PHJ3VSN7-3\n\t\t1B326E483F93B0E60CB6D84B46C9CA645B870279\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t25\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8c4f07723bebd866ac540"},"refKey":73},
{"_key":"60c8c4f87723bebd866ac555","_id":"references/60c8c4f87723bebd866ac555","_rev":"_cfFmSw----","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tLlcSchrodinger\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c4f87723bebd866ac554"},"refKey":6},
{"_key":"60c8c50a7723bebd866ac561","_id":"references/60c8c50a7723bebd866ac561","_rev":"_cfFmSwK---","tei":"\n\t\n\t\tSWISS-MODEL: homology modelling of protein structures and complexes\n\t\t\n\t\t\tAWaterhouse\n\t\t\n\t\t\n\t\t\tMBertoni\n\t\t\n\t\t\n\t\t\tSBienert\n\t\t\n\t\t\n\t\t\tGStuder\n\t\t\n\t\t\n\t\t\tGTauriello\n\t\t\n\t\t\n\t\t\tRGumienny\n\t\t\n\t\t\n\t\t\tFTHeer\n\t\t\n\t\t\n\t\t\tTDe Beer\n\t\t\n\t\t\n\t\t\tCRempfer\n\t\t\n\t\t\n\t\t\tLBordoli\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t427\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c50a7723bebd866ac560"},"refKey":52},
{"_key":"60c8c50a7723bebd866ac562","_id":"references/60c8c50a7723bebd866ac562","_rev":"_cfFmSwW---","tei":"\n\t\n\t\tSMS: Smart Model Selection in PhyML\n\t\t\n\t\t\tVLefort\n\t\t\n\t\t\n\t\t\tJ.-ELongueville\n\t\t\n\t\t\n\t\t\tOGascuel\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t34\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c50a7723bebd866ac560"},"refKey":18},
{"_key":"60c8c50a7723bebd866ac563","_id":"references/60c8c50a7723bebd866ac563","_rev":"_cfFmSwi---","tei":"\n\t\n\t\tPredicting effective microRNA target sites in mammalian mRNAs\n\t\t\n\t\t\tVAgarwal\n\t\t\n\t\t\n\t\t\tGWBell\n\t\t\n\t\t\n\t\t\tJ.-WNam\n\t\t\n\t\t\n\t\t\tDPBartel\n\t\t\n\t\t\n\t\t\t\n\t\t\t4\n\t\t\te05005\n\t\t\n\t\n\n","document":{"$oid":"60c8c50a7723bebd866ac560"},"refKey":0},
{"_key":"60c8c52a7723bebd866ac5a9","_id":"references/60c8c52a7723bebd866ac5a9","_rev":"_cfFmSwu---","tei":"\n\t\n\t\tggplot2: elegant graphics for data analysis\n\t\t\n\t\t\tHWickham\n\t\t\n\t\t\n\t\t\t\n\t\t\tSpringer-Verlag\n\t\t\tNew York\n\t\t\n\t\n\n","document":{"$oid":"60c8c52a7723bebd866ac5a8"},"refKey":43},
{"_key":"60c8c5317723bebd866ac5ad","_id":"references/60c8c5317723bebd866ac5ad","_rev":"_cfFmSw2---","tei":"\n\t\n\t\tAn approach to correlate tamdem mass spectral data of peptides with amino acid sequences in a protein database\n\t\t\n\t\t\tJkmalEng\n\t\t\n\t\t\n\t\t\tJRYates\n\t\t\n\t\t\n\t\t\tIii\n\t\t\n\t\n\t\n\t\tJ Am Soc Mass Spectrom\n\t\t\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c5317723bebd866ac5ac"},"refKey":18},
{"_key":"60c8c55e7723bebd866ac5bf","_id":"references/60c8c55e7723bebd866ac5bf","_rev":"_cfFmSxC---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tCYPeng\n\t\t\n\t\t\n\t\t\tLCHo\n\t\t\n\t\t\n\t\t\tCDImpey\n\t\t\n\t\t\n\t\t\tHRix\n\t\t\n\t\n\t\n\t\tAJ\n\t\t\n\t\t\t124\n\t\t\t266\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c55e7723bebd866ac5be"},"refKey":45},
{"_key":"60c8c55e7723bebd866ac5c0","_id":"references/60c8c55e7723bebd866ac5c0","_rev":"_cfFmSxO---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tCYPeng\n\t\t\n\t\t\n\t\t\tLCHo\n\t\t\n\t\t\n\t\t\tCDImpey\n\t\t\n\t\t\n\t\t\tH.-WRix\n\t\t\n\t\n\t\n\t\tAJ\n\t\t\n\t\t\t139\n\t\t\t2097\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c55e7723bebd866ac5be"},"refKey":46},
{"_key":"60c8c5717723bebd866ac5dd","_id":"references/60c8c5717723bebd866ac5dd","_rev":"_cfFmSxa---","tei":"\n\t\n\t\tMultiwfn: A multifunctional wavefunction analyzer\n\t\t\n\t\t\tTianLu\n\t\t\n\t\t\n\t\t\tFeiwuChen\n\t\t\n\t\t10.1002/jcc.22885\n\t\t22162017\n\t\tark:/67375/WNG-W9MQ0BBJ-L\n\t\t0308E384068C2C8CE27BB97A1948A20B1060D668\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t\n\t\t\t33\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8c5717723bebd866ac5dc"},"refKey":53},
{"_key":"60c8c5807723bebd866ac5f0","_id":"references/60c8c5807723bebd866ac5f0","_rev":"_cfFmSxm---","tei":"\n\t\n\t\tR: a language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna\n\t\t\n\t\n\n","document":{"$oid":"60c8c5807723bebd866ac5ef"},"refKey":29},
{"_key":"60c8c5927723bebd866ac5f7","_id":"references/60c8c5927723bebd866ac5f7","_rev":"_cfFmSxy---","tei":"\n\t\n\t\tSPECIES: AnRPackage for Species Richness Estimation\n\t\t\n\t\t\tJ-PWang\n\t\t\n\t\t10.18637/jss.v040.i09\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t40\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c8c5927723bebd866ac5f6"},"refKey":74},
{"_key":"60c8c5927723bebd866ac5f8","_id":"references/60c8c5927723bebd866ac5f8","_rev":"_cfFmSx6---","tei":"\n\t\n\t\tThe Sequence Alignment/Map format and SAMtools\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tBHandsaker\n\t\t\n\t\t\n\t\t\tAWysoker\n\t\t\n\t\t\n\t\t\tTFennell\n\t\t\n\t\t\n\t\t\tJRuan\n\t\t\n\t\t\n\t\t\tNHomer\n\t\t\n\t\t\n\t\t\tGMarth\n\t\t\n\t\t\n\t\t\tGAbecasis\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\t10.1093/bioinformatics/btp352\n\t\t19505943\n\t\tPMC2723002\n\t\t\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t25\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8c5927723bebd866ac5f6"},"refKey":77},
{"_key":"60c8c5927723bebd866ac5f9","_id":"references/60c8c5927723bebd866ac5f9","_rev":"_cfFmSyG---","tei":"\n\t\n\t\tVarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing\n\t\t\n\t\t\tDCKoboldt\n\t\t\n\t\t\n\t\t\tQZhang\n\t\t\n\t\t\n\t\t\tDELarson\n\t\t\n\t\t\n\t\t\tDShen\n\t\t\n\t\t\n\t\t\tMDMclellan\n\t\t\n\t\t\n\t\t\tLLin\n\t\t\n\t\t\n\t\t\tCAMiller\n\t\t\n\t\t\n\t\t\tERMardis\n\t\t\n\t\t\n\t\t\tLDing\n\t\t\n\t\t\n\t\t\tRKWilson\n\t\t\n\t\t10.1101/gr.129684.111\n\t\t22300766\n\t\tPMC3290792\n\t\t\n\t\t\n\t\n\t\n\t\tGenome Research\n\t\tGenome Research\n\t\t1088-9051\n\t\t\n\t\t\t22\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8c5927723bebd866ac5f6"},"refKey":79},
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{"_key":"60c8c7bd7723bebd866ac7d4","_id":"references/60c8c7bd7723bebd866ac7d4","_rev":"_cfFmS3a---","tei":"\n\t\n\t\tImputation with the R Package VIM\n\t\t\n\t\t\tAlexanderKowarik\n\t\t\n\t\t\n\t\t\tMatthiasTempl\n\t\t\n\t\t10.18637/jss.v074.i07\n\t\t\n\t\n\t\n\t\tJournal of Statistical Software\n\t\tJ. Stat. Soft.\n\t\t1548-7660\n\t\t\n\t\t\t74\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tFoundation for Open Access Statistic\n\t\t\n\t\n\n","document":{"$oid":"60c8c7bd7723bebd866ac7d2"},"refKey":121},
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{"_key":"60c8c87c7723bebd866ac877","_id":"references/60c8c87c7723bebd866ac877","_rev":"_cfFmS6----","tei":"\n\t\n\t\tPrediction of continuous B-cell epitopes in an antigen using recurrent neural network\n\t\t\n\t\t\tSSaha\n\t\t\n\t\t\n\t\t\tGpsRaghava\n\t\t\n\t\n\t\n\t\tProteins Struct Funct Bioinform\n\t\t\n\t\t\t65\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c87c7723bebd866ac86c"},"refKey":39},
{"_key":"60c8c87c7723bebd866ac878","_id":"references/60c8c87c7723bebd866ac878","_rev":"_cfFmS6K---","tei":"\n\t\n\t\tImproved methods for predicting peptide binding affinity to MHC class II molecules\n\t\t\n\t\t\tKKJensen\n\t\t\n\t\t\n\t\t\tMAndreatta\n\t\t\n\t\t\n\t\t\tPMarcatili\n\t\t\n\t\t\n\t\t\tSBuus\n\t\t\n\t\t\n\t\t\tJAGreenbaum\n\t\t\n\t\t\n\t\t\tZYan\n\t\t\n\t\t\n\t\t\tASette\n\t\t\n\t\t\n\t\t\tBPeters\n\t\t\n\t\t\n\t\t\tMNielsen\n\t\t\n\t\n\t\n\t\tImmunology\n\t\t\n\t\t\t154\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c87c7723bebd866ac86c"},"refKey":45},
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{"_key":"60c8c9627723bebd866ac933","_id":"references/60c8c9627723bebd866ac933","_rev":"_cfFmS7u---","tei":"\n\t\n\t\tNumerical bifurcation analysis of delay differential equations\n\t\t\n\t\t\tKoenEngelborghs\n\t\t\n\t\t\n\t\t\tTatyanaLuzyanina\n\t\t\n\t\t\n\t\t\tDirkRoose\n\t\t\n\t\t10.1016/s0377-0427(00)00472-6\n\t\tS0377-0427(00)00472-6\n\t\tark:/67375/6H6-LPBXKLJQ-S\n\t\t4E6F1D682DEF36AF7A00DE84FFC9B1037B4BA45E\n\t\t\n\t\t\n\t\n\t\n\t\tJournal of Computational and Applied Mathematics\n\t\tJournal of Computational and Applied Mathematics\n\t\t0377-0427\n\t\t\n\t\t\t125\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\t\n\t\t\tDepartment of Computer Science, Katholieke Universiteit Leuven\n\t\t\n\t\n\n","document":{"$oid":"60c8c9627723bebd866ac932"},"refKey":33},
{"_key":"60c8c9627723bebd866ac934","_id":"references/60c8c9627723bebd866ac934","_rev":"_cfFmS76---","tei":"\n\t\n\t\tNumerical bifurcation analysis of delay differential equations\n\t\t\n\t\t\tKoenEngelborghs\n\t\t\n\t\t\n\t\t\tTatyanaLuzyanina\n\t\t\n\t\t\n\t\t\tDirkRoose\n\t\t\n\t\t10.1016/s0377-0427(00)00472-6\n\t\tS0377-0427(00)00472-6\n\t\tark:/67375/6H6-LPBXKLJQ-S\n\t\t4E6F1D682DEF36AF7A00DE84FFC9B1037B4BA45E\n\t\t\n\t\n\t\n\t\tJournal of Computational and Applied Mathematics\n\t\tJournal of Computational and Applied Mathematics\n\t\t0377-0427\n\t\t\n\t\t\t125\n\t\t\t1-2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\t\n\t\t\tDepartment of Computer Science, Katholieke Universiteit Leuven\n\t\t\n\t\n\tPh.D. thesis\n\n","document":{"$oid":"60c8c9627723bebd866ac932"},"refKey":34},
{"_key":"60c8c9987723bebd866ac955","_id":"references/60c8c9987723bebd866ac955","_rev":"_cfFmS8C---","tei":"\n\t\n\t\tDevelopment of AMSTAR: a measurement tool to assess the methodological quality of systematic reviews\n\t\t\n\t\t\tBJShea\n\t\t\n\t\t\n\t\t\tJMGrimshaw\n\t\t\n\t\t\n\t\t\tGAWells\n\t\t\n\t\t\n\t\t\tMBoers\n\t\t\n\t\t\n\t\t\tNAndersson\n\t\t\n\t\t\n\t\t\tCHamel\n\t\t\n\t\n\t\n\t\tBMC Med Res Methodol\n\t\t\n\t\t\t7\n\t\t\t10\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c9987723bebd866ac954"},"refKey":10},
{"_key":"60c8c9aa7723bebd866ac968","_id":"references/60c8c9aa7723bebd866ac968","_rev":"_cfFmS8O---","tei":"\n\t\n\t\tHow good are predictions of protein secondary structure?\n\t\t\n\t\t\tWolfgangKabsch\n\t\t\n\t\t\n\t\t\tChristianSander\n\t\t\n\t\t10.1016/0014-5793(82)80597-8\n\t\t6852232\n\t\n\t\n\t\tFEBS Letters\n\t\t0014-5793\n\t\t\n\t\t\t155\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8c9aa7723bebd866ac967"},"refKey":41},
{"_key":"60c8c9c87723bebd866ac982","_id":"references/60c8c9c87723bebd866ac982","_rev":"_cfFmS8a---","tei":"\n\t\n\t\tCONSEL: for assessing the confidence of phylogenetic tree selection\n\t\t\n\t\t\tHShimodaira\n\t\t\n\t\t\n\t\t\tMHasegawa\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t17\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c9c87723bebd866ac981"},"refKey":79},
{"_key":"60c8c9e27723bebd866ac990","_id":"references/60c8c9e27723bebd866ac990","_rev":"_cfFmS8i---","tei":"\n\t\n\t\tConducting meta-analyses in R with the metafor package\n\t\t\n\t\t\tWViechtbauer\n\t\t\n\t\n\t\n\t\tJournal of statistical software\n\t\t\n\t\t\t36\n\t\t\t3\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8c9e27723bebd866ac98f"},"refKey":30},
{"_key":"60c8ca0f7723bebd866ac9e8","_id":"references/60c8ca0f7723bebd866ac9e8","_rev":"_cfFmS8u---","tei":"\n\t\n\t\t\n\t\t\tEJones\n\t\t\n\t\t\n\t\t\tTOliphant\n\t\t\n\t\t\n\t\t\tPPeterson\n\t\t\n\t\t\n\t\tSciPy: Open Source Scientific Tools for Python\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ca0f7723bebd866ac9e7"},"refKey":9},
{"_key":"60c8ca0f7723bebd866ac9e9","_id":"references/60c8ca0f7723bebd866ac9e9","_rev":"_cfFmS86---","tei":"\n\t\n\t\t\n\t\t\tWG RMoreira\n\t\t\n\t\t\n\t\t\tWarnes\n\t\t\n\t\t\n\t\tRPy Reference Manual\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ca0f7723bebd866ac9e7"},"refKey":18},
{"_key":"60c8ca487723bebd866aca09","_id":"references/60c8ca487723bebd866aca09","_rev":"_cfFmS9G---","tei":"\n\t\n\t\tTorsion angle dynamics for NMR structure calculation with the new program DYANA\n\t\t\n\t\t\tPGuntert\n\t\t\n\t\t\n\t\t\tCMumenthaler\n\t\t\n\t\t\n\t\t\tKWuthrich\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t273\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ca487723bebd866aca08"},"refKey":62},
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{"_key":"60c8ca5f7723bebd866aca20","_id":"references/60c8ca5f7723bebd866aca20","_rev":"_cfFmS9m---","tei":"\n\t\n\t\tClustVis: a web tool for visualizing clustering of multivariate data using Principal Component Analysis and heatmap\n\t\t\n\t\t\tTMetsalu\n\t\t\n\t\t\n\t\t\tJVilo\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t43\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ca5f7723bebd866aca1d"},"refKey":45},
{"_key":"60c8ca5f7723bebd866aca21","_id":"references/60c8ca5f7723bebd866aca21","_rev":"_cfFmS9y---","tei":"\n\t\n\t\tModerated estimation of fold change and dispersion for RNA-seq data with DESeq2\n\t\t\n\t\t\tMILove\n\t\t\n\t\t\n\t\t\tWHuber\n\t\t\n\t\t\n\t\t\tAnders\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\n\t\n\t\tGenome Biol\n\t\t\n\t\t\t15\n\t\t\t550\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ca5f7723bebd866aca1d"},"refKey":40},
{"_key":"60c8ca5f7723bebd866aca22","_id":"references/60c8ca5f7723bebd866aca22","_rev":"_cfFmT-----","tei":"\n\t\n\t\tFitting Linear Mixed-Effects Models Using lme4\n\t\t\n\t\t\tDBates\n\t\t\n\t\t\n\t\t\tMMa ¨chler\n\t\t\n\t\t\n\t\t\tBBolker\n\t\t\n\t\t\n\t\t\tSWalker\n\t\t\n\t\n\t\n\t\tJ. Stat. Softw\n\t\t\n\t\t\t67\n\t\t\t48\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ca5f7723bebd866aca1d"},"refKey":3},
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{"_key":"60c8ca837723bebd866aca7e","_id":"references/60c8ca837723bebd866aca7e","_rev":"_cfFmT-S---","tei":"\n\t\n\t\tA unified approach to mapping and clustering of bibliometric networks\n\t\t\n\t\t\tLudoWaltman\n\t\t\n\t\t\n\t\t\tNeesJanVan Eck\n\t\t\n\t\t\n\t\t\tEdC MNoyons\n\t\t\n\t\t10.1016/j.joi.2010.07.002\n\t\t\n\t\n\t\n\t\tJournal of Informetrics\n\t\tJournal of Informetrics\n\t\t1751-1577\n\t\t\n\t\t\t4\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8ca837723bebd866aca7d"},"refKey":7},
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{"_key":"60c8ca8c7723bebd866aca8b","_id":"references/60c8ca8c7723bebd866aca8b","_rev":"_cfFmT-2---","tei":"\n\t\n\t\tFast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega\n\t\t\n\t\t\tFSievers\n\t\t\n\t\t\n\t\t\tAWilm\n\t\t\n\t\t\n\t\t\tDDineen\n\t\t\n\t\t\n\t\t\tTJGibson\n\t\t\n\t\t\n\t\t\tKKarplus\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tMRemmert\n\t\t\n\t\t\n\t\t\tJSoding\n\t\t\n\t\n\t\n\t\tMol. Syst. Biol\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ca8c7723bebd866aca89"},"refKey":30},
{"_key":"60c8ca917723bebd866aca9a","_id":"references/60c8ca917723bebd866aca9a","_rev":"_cfFmT_C---","tei":"\n\t\n\t\tExtended data for: Inferring the number of COVID-19 cases from recently reported deaths\n\t\t\n\t\t\tTJombart\n\t\t\n\t\t10.5281/zenodo.3733289\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ca917723bebd866aca99"},"refKey":16},
{"_key":"60c8caa87723bebd866acaa8","_id":"references/60c8caa87723bebd866acaa8","_rev":"_cfFmT_O---","tei":"\n\t\n\t\tHIV-TRACE (TRAnsmission Cluster Engine): a tool for large scale molecular epidemiology of HIV-1 and other rapidly evolving pathogens\n\t\t\n\t\t\tKosakovskyPond\n\t\t\n\t\t\n\t\t\tSLWeaver\n\t\t\n\t\t\n\t\t\tS\n\t\t\n\t\t\n\t\t\tLeighBrown\n\t\t\n\t\t\n\t\t\tAJWertheim\n\t\t\n\t\t\n\t\t\tJO\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8caa87723bebd866acaa7"},"refKey":46},
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{"_key":"60c8caa87723bebd866acaaa","_id":"references/60c8caa87723bebd866acaaa","_rev":"_cfFmT_i---","tei":"\n\t\n\t\tA simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences\n\t\t\n\t\t\tMotooKimura\n\t\t\n\t\t10.1007/bf01731581\n\t\t7463489\n\t\tark:/67375/1BB-WKRSMGPT-B\n\t\t50A5E317B5AFB8FC15F94FDB53B4F80042191A38\n\t\t\n\t\n\t\n\t\tJournal of Molecular Evolution\n\t\tJ Mol Evol\n\t\t0022-2844\n\t\t1432-1432\n\t\t\n\t\t\t16\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8caa87723bebd866acaa7"},"refKey":31},
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{"_key":"60c8caa87723bebd866acaad","_id":"references/60c8caa87723bebd866acaad","_rev":"_cfFmTAG---","tei":"\n\t\n\t\tMAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability\n\t\t\n\t\t\tKKatoh\n\t\t\n\t\t\n\t\t\tDMStandley\n\t\t\n\t\t10.1093/molbev/mst010\n\t\t23329690\n\t\tPMC3603318\n\t\t\n\t\t\n\t\n\t\n\t\tMolecular Biology and Evolution\n\t\tMolecular Biology and Evolution\n\t\t0737-4038\n\t\t1537-1719\n\t\t\n\t\t\t30\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8caa87723bebd866acaa7"},"refKey":24},
{"_key":"60c8caa87723bebd866acaae","_id":"references/60c8caa87723bebd866acaae","_rev":"_cfFmTAS---","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\t\n\t\n\t\n\t\tNucleic Acids Symp Ser\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8caa87723bebd866acaa7"},"refKey":25},
{"_key":"60c8cab17723bebd866acabf","_id":"references/60c8cab17723bebd866acabf","_rev":"_cfFmTAa---","tei":"\n\t\n\t\tVerification of protein structures: patterns of nonbonded atomic interactions\n\t\t\n\t\t\tCColovos\n\t\t\n\t\t\n\t\t\tTYeates\n\t\t\n\t\n\t\n\t\tProtein Sci\n\t\t\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cab17723bebd866acabe"},"refKey":16},
{"_key":"60c8cab17723bebd866acac0","_id":"references/60c8cab17723bebd866acac0","_rev":"_cfFmTAm---","tei":"\n\t\n\t\tA method to identify protein sequences that fold into a known three-dimensional stucture\n\t\t\n\t\t\tJUBowie\n\t\t\n\t\t\n\t\t\tRLüthy\n\t\t\n\t\t\n\t\t\tDEisenberg\n\t\t\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t253\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cab17723bebd866acabe"},"refKey":17},
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{"_key":"60c8cab17723bebd866acac2","_id":"references/60c8cab17723bebd866acac2","_rev":"_cfFmTB----","tei":"\n\t\n\t\tProtein Structure Modeling with MODELLER\n\t\t\n\t\t\tBenjaminWebb\n\t\t\n\t\t\n\t\t\tAndrejSali\n\t\t\n\t\t10.1007/978-1-4939-0366-5_1\n\t\t24573470\n\t\n\t\n\t\tMethods in Molecular Biology\n\t\t\t\t\n\t\t\tSpringer New York\n\t\t\t\n\t\t\t54\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cab17723bebd866acabe"},"refKey":11},
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{"_key":"60c8cab17723bebd866acac4","_id":"references/60c8cab17723bebd866acac4","_rev":"_cfFmTBW---","tei":"\n\t\n\t\tBasic Local Alignment Search Tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ Mol Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cab17723bebd866acabe"},"refKey":10},
{"_key":"60c8cac87723bebd866acaeb","_id":"references/60c8cac87723bebd866acaeb","_rev":"_cfFmTBe---","tei":"\n\t\n\t\tIBM SPSS statistics for Macintosh, version 26.0. Armonk: IBM Corp\n\t\t\n\t\t\tIbm Corp\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cac87723bebd866acaea"},"refKey":4},
{"_key":"60c8cacf7723bebd866acaf0","_id":"references/60c8cacf7723bebd866acaf0","_rev":"_cfFmTBq---","tei":"\n\t\n\t\tTopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions\n\t\t\n\t\t\tDKim\n\t\t\n\t\n\t\n\t\tGenome biology\n\t\t\n\t\t\t14\n\t\t\tR36\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cacf7723bebd866acaef"},"refKey":11},
{"_key":"60c8cacf7723bebd866acaf1","_id":"references/60c8cacf7723bebd866acaf1","_rev":"_cfFmTB2---","tei":"\n\t\n\t\tQIIME allows analysis of high-throughput community sequencing data\n\t\t\n\t\t\tJGCaporaso\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cacf7723bebd866acaef"},"refKey":19},
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{"_key":"60c8caf97723bebd866acb16","_id":"references/60c8caf97723bebd866acb16","_rev":"_cfFmTC6---","tei":"\n\t\n\t\tMEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets\n\t\t\n\t\t\tSKumar\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tKTamura\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t33\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8caf97723bebd866acb14"},"refKey":19},
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{"_key":"60c8cbd67723bebd866acbad","_id":"references/60c8cbd67723bebd866acbad","_rev":"_cfFmTFC---","tei":"\n\t\n\t\tThe Proteome Discovery Pipeline -A Data Analysis Pipeline for Mass Spectrometry-Based Differential Proteomics Discovery\n\t\t\n\t\t\tCPRiley\n\t\t\n\t\t\n\t\t\tESGough\n\t\t\n\t\t\n\t\t\tJHe\n\t\t\n\t\t\n\t\t\tSSJandhyala\n\t\t\n\t\t\n\t\t\tBKennedy\n\t\t\n\t\n\t\n\t\tOpen Proteomics J\n\t\t\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cbd67723bebd866acbac"},"refKey":62},
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{"_key":"60c8cbd67723bebd866acbb0","_id":"references/60c8cbd67723bebd866acbb0","_rev":"_cfFmTFm---","tei":"\n\t\n\t\tDengue viruses binding proteins from Aedes aegypti and Aedes polynesiensis salivary glands\n\t\t\n\t\t\tVan-MaiMCao-Lormeau\n\t\t\n\t\t10.1186/1743-422x-6-35\n\t\t19320997\n\t\tPMC2670272\n\t\t\n\t\n\t\n\t\tVirology Journal\n\t\tVirology Journal\n\t\t1743-422X\n\t\t\n\t\t\t6\n\t\t\t1\n\t\t\t35\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8cbd67723bebd866acbac"},"refKey":15},
{"_key":"60c8cbd67723bebd866acbb1","_id":"references/60c8cbd67723bebd866acbb1","_rev":"_cfFmTFy---","tei":"\n\t\n\t\tDAnTE: a statistical tool for quantitative analysis of -omics data\n\t\t\n\t\t\tADPolpitiya\n\t\t\n\t\t\n\t\t\tWJQian\n\t\t\n\t\t\n\t\t\tNJaitly\n\t\t\n\t\n\t\n\t\tBioinform\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cbd67723bebd866acbac"},"refKey":59},
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{"_key":"60c8cc3b7723bebd866acc00","_id":"references/60c8cc3b7723bebd866acc00","_rev":"_cfFmTGS---","tei":"\n\t\n\t\tA fast method for large-scaleDe Novopeptide and miniprotein structure prediction\n\t\t\n\t\t\tJulienMaupetit\n\t\t\n\t\t\n\t\t\tPhilippeDerreumaux\n\t\t\n\t\t\n\t\t\tPierreTufféry\n\t\t\n\t\t10.1002/jcc.21365\n\t\t19569182\n\t\tark:/67375/WNG-N1SK571X-B\n\t\tEF9D14CBDAEF2B291756CEDCEF1F60C9BF9AB64A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t31\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8cc3b7723bebd866acbfe"},"refKey":20},
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{"_key":"60c8cc807723bebd866acc24","_id":"references/60c8cc807723bebd866acc24","_rev":"_cfFmTGq---","tei":"\n\t\n\t\tDipy, a library for the analysis of diffusion MRI data\n\t\t\n\t\t\tEleftheriosGaryfallidis\n\t\t\n\t\t\n\t\t\tMatthewBrett\n\t\t\n\t\t\n\t\t\tBagratAmirbekian\n\t\t\n\t\t\n\t\t\tArielRokem\n\t\t\n\t\t\n\t\t\tStefanVan Der Walt\n\t\t\n\t\t\n\t\t\tMaximeDescoteaux\n\t\t\n\t\t\n\t\t\tIanNimmo-Smith\n\t\t\n\t\t10.3389/fninf.2014.00008\n\t\t24600385\n\t\tPMC3931231\n\t\t\n\t\n\t\n\t\tFrontiers in Neuroinformatics\n\t\tFront. Neuroinform.\n\t\t1662-5196\n\t\t\n\t\t\t8\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\tFront. Neuroinform. 2014, 8, 8. [CrossRef\n\n","document":{"$oid":"60c8cc807723bebd866acc23"},"refKey":24},
{"_key":"60c8cc807723bebd866acc25","_id":"references/60c8cc807723bebd866acc25","_rev":"_cfFmTG2---","tei":"\n\t\n\t\tComputational Radiomics System to Decode the Radiographic Phenotype\n\t\t\n\t\t\tJoostJ MVan Griethuysen\n\t\t\n\t\t\n\t\t\tAndriyFedorov\n\t\t\n\t\t\n\t\t\tChintanParmar\n\t\t\n\t\t\n\t\t\tAhmedHosny\n\t\t\n\t\t\n\t\t\tNicoleAucoin\n\t\t\n\t\t\n\t\t\tVivekNarayan\n\t\t\n\t\t\n\t\t\tReginaG HBeets-Tan\n\t\t\n\t\t\n\t\t\tJean-ChristopheFillion-Robin\n\t\t\n\t\t\n\t\t\tStevePieper\n\t\t\n\t\t\n\t\t\tHugoJ W LAerts\n\t\t\n\t\t10.1158/0008-5472.can-17-0339\n\t\t29092951\n\t\tPMC5672828\n\t\t\n\t\n\t\n\t\tCancer Research\n\t\tCancer Res\n\t\t0008-5472\n\t\t1538-7445\n\t\t\n\t\t\t77\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tAmerican Association for Cancer Research (AACR)\n\t\t\n\t\n\n","document":{"$oid":"60c8cc807723bebd866acc23"},"refKey":28},
{"_key":"60c8cc807723bebd866acc26","_id":"references/60c8cc807723bebd866acc26","_rev":"_cfFmTHC---","tei":"\n\t\n\t\tA reproducible evaluation of ANTs similarity metric performance in brain image registration\n\t\t\n\t\t\tBrianBAvants\n\t\t\n\t\t\n\t\t\tNicholasJTustison\n\t\t\n\t\t\n\t\t\tGangSong\n\t\t\n\t\t\n\t\t\tPhilipACook\n\t\t\n\t\t\n\t\t\tArnoKlein\n\t\t\n\t\t\n\t\t\tJamesCGee\n\t\t\n\t\t10.1016/j.neuroimage.2010.09.025\n\t\t20851191\n\t\tPMC3065962\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t54\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8cc807723bebd866acc23"},"refKey":23},
{"_key":"60c8cc807723bebd866acc27","_id":"references/60c8cc807723bebd866acc27","_rev":"_cfFmTHK---","tei":"\n\t\n\t\tUser-guided 3D active contour segmentation of anatomical structures: Significantly improved efficiency and reliability\n\t\t\n\t\t\tPaulAYushkevich\n\t\t\n\t\t\n\t\t\tJosephPiven\n\t\t\n\t\t\n\t\t\tHeatherCodyHazlett\n\t\t\n\t\t\n\t\t\tRachelGimpelSmith\n\t\t\n\t\t\n\t\t\tSeanHo\n\t\t\n\t\t\n\t\t\tJamesCGee\n\t\t\n\t\t\n\t\t\tGuidoGerig\n\t\t\n\t\t10.1016/j.neuroimage.2006.01.015\n\t\t16545965\n\t\t\n\t\n\t\n\t\tNeuroImage\n\t\tNeuroImage\n\t\t1053-8119\n\t\t\n\t\t\t31\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8cc807723bebd866acc23"},"refKey":27},
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{"_key":"60c8cc8b7723bebd866acc3d","_id":"references/60c8cc8b7723bebd866acc3d","_rev":"_cfFmTHi---","tei":"\n\t\n\t\tFastq_clean: An optimized pipeline to clean the Illumina sequencing data with quality control\n\t\t\n\t\t\tMiZhang\n\t\t\n\t\t\n\t\t\tHongheSun\n\t\t\n\t\t\n\t\t\tZhangjunFei\n\t\t\n\t\t\n\t\t\tFengZhan\n\t\t\n\t\t\n\t\t\tXiujunGong\n\t\t\n\t\t\n\t\t\tShanGao\n\t\t\n\t\t10.1109/bibm.2014.6999309\n\t\n\t\n\t\t2014 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)\n\t\t\t\tPiscataway, NJ\n\t\t\n\t\t\tIEEE\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cc8b7723bebd866acc3b"},"refKey":28},
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{"_key":"60c8ccb97723bebd866acc47","_id":"references/60c8ccb97723bebd866acc47","_rev":"_cfFmTH6---","tei":"\n\t\n\t\tProPred: prediction of HLA-DR binding sites\n\t\t\n\t\t\tHSingh\n\t\t\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t10.1093/bioinformatics/17.12.1236\n\t\t11751237\n\t\t1460-2059\n\t\tark:/67375/HXZ-4F9R3SQV-D\n\t\tE1CF1364E42A19CD4095A071451E55F78C38C1D2\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t17\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ccb97723bebd866acc45"},"refKey":29},
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{"_key":"60c8ccb97723bebd866acc50","_id":"references/60c8ccb97723bebd866acc50","_rev":"_cfFmTIS---","tei":"\n\t\n\t\tBasic local alignment search tool\n\t\t\n\t\t\tSFAltschul\n\t\t\n\t\t\n\t\t\tWGish\n\t\t\n\t\t\n\t\t\tWMiller\n\t\t\n\t\t\n\t\t\tEWMyers\n\t\t\n\t\t\n\t\t\tDJLipman\n\t\t\n\t\n\t\n\t\tJ. Mol. Biol\n\t\t\n\t\t\t215\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ccb97723bebd866acc4f"},"refKey":0},
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{"_key":"60c8cde17723bebd866acd56","_id":"references/60c8cde17723bebd866acd56","_rev":"_cfFmTN6---","tei":"\n\t\n\t\tiscasMc: A Web-Based Probabilistic Model Checker\n\t\t\n\t\t\tErnstMoritzHahn\n\t\t\n\t\t\n\t\t\tYiLi\n\t\t\n\t\t\n\t\t\tSvenSchewe\n\t\t\n\t\t\n\t\t\tAndreaTurrini\n\t\t\n\t\t\n\t\t\tLijunZhang\n\t\t\n\t\t10.1007/978-3-319-06410-9_22\n\t\t\n\t\n\t\n\t\tLecture Notes in Computer Science\n\t\t\t\t\n\t\t\tCJones\n\t\t\tPPihlajasaari\n\t\t\tJSun\n\t\t\n\t\tCham\n\t\t\n\t\t\tSpringer International Publishing\n\t\t\t\n\t\t\t8442\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cde17723bebd866acd51"},"refKey":15},
{"_key":"60c8ce397723bebd866acd9f","_id":"references/60c8ce397723bebd866acd9f","_rev":"_cfFmTOK---","tei":"\n\t\n\t\tDirect RNA sequencing enables m 6 A detection in endogenous transcript isoforms at base specific resolution\n\t\t\n\t\t\tDALorenz\n\t\t\n\t\t\n\t\t\tSSathe\n\t\t\n\t\t\n\t\t\tJMEinstein\n\t\t\n\t\t\n\t\t\tGWYeo\n\t\t\n\t\t10.1261/rna.072785.119\n\t\n\t\n\t\tRNA\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ce397723bebd866acd9e"},"refKey":54},
{"_key":"60c8ce397723bebd866acda0","_id":"references/60c8ce397723bebd866acda0","_rev":"_cfFmTOW---","tei":"\n\t\n\t\tA novel algorithm for calling mRNA m6A peaks by modeling biological variances in MeRIP-seq data\n\t\t\n\t\t\tXiaodongCui\n\t\t\n\t\t\n\t\t\tJiaMeng\n\t\t\n\t\t\n\t\t\tShaowuZhang\n\t\t\n\t\t\n\t\t\tYidongChen\n\t\t\n\t\t\n\t\t\tYufeiHuang\n\t\t\n\t\t10.1093/bioinformatics/btw281\n\t\t27307641\n\t\tPMC4908365\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t32\n\t\t\t12\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ce397723bebd866acd9e"},"refKey":14},
{"_key":"60c8ce6d7723bebd866acdc1","_id":"references/60c8ce6d7723bebd866acdc1","_rev":"_cfFmTOi---","tei":"\n\t\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\tR: A Language and Environment for Statistical Computing; R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\t14\n\t\t\n\t\n\tAvailable online\n\n","document":{"$oid":"60c8ce6c7723bebd866acdc0"},"refKey":52},
{"_key":"60c8ce787723bebd866acdc5","_id":"references/60c8ce787723bebd866acdc5","_rev":"_cfFmTOu---","tei":"\n\t\n\t\tHELIQUEST: a web server to screen sequences with specific alpha-helical properties\n\t\t\n\t\t\tRGautier\n\t\t\n\t\t\n\t\t\tDDouguet\n\t\t\n\t\t\n\t\t\tBAntonny\n\t\t\n\t\t\n\t\t\tGDrin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ce787723bebd866acdc4"},"refKey":7},
{"_key":"60c8ce787723bebd866acdc6","_id":"references/60c8ce787723bebd866acdc6","_rev":"_cfFmTP----","tei":"\n\t\n\t\tTopPred II: an improved software for membrane protein structure predictions\n\t\t\n\t\t\tManuelGClaros\n\t\t\n\t\t\n\t\t\tGunnarVonHeijne\n\t\t\n\t\t10.1093/bioinformatics/10.6.685\n\t\tark:/67375/HXZ-DVM2MPMX-H\n\t\tCB5CADBDB88F5AFF2B11B54B2437D8D739C15EA8\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t10\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ce787723bebd866acdc4"},"refKey":1},
{"_key":"60c8ce787723bebd866acdc7","_id":"references/60c8ce787723bebd866acdc7","_rev":"_cfFmTPK---","tei":"\n\t\n\t\tCombinaison de classifieurs statistiques, application à la prédiction de la structure secondaire des protéines\n\t\t\n\t\t\tYGuermeur\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\t\n\t\t\tUniversité de Paris 6\n\t\t\n\t\n\n","document":{"$oid":"60c8ce787723bebd866acdc4"},"refKey":13},
{"_key":"60c8ce787723bebd866acdc8","_id":"references/60c8ce787723bebd866acdc8","_rev":"_cfFmTPW---","tei":"\n\t\n\t\tImproved performance in protein secondary structure prediction by inhomogeneous score combination\n\t\t\n\t\t\tYGuermeur\n\t\t\n\t\t\n\t\t\tCGeourjon\n\t\t\n\t\t\n\t\t\tPGallinari\n\t\t\n\t\t\n\t\t\tGDeleage\n\t\t\n\t\t10.1093/bioinformatics/15.5.413\n\t\t10366661\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t15\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ce787723bebd866acdc4"},"refKey":14},
{"_key":"60c8ce787723bebd866acdc9","_id":"references/60c8ce787723bebd866acdc9","_rev":"_cfFmTPi---","tei":"\n\t\n\t\t[31] PHD: Predicting one-dimensional protein structure by profile-based neural networks\n\t\t\n\t\t\tBurkhardRost\n\t\t\n\t\t10.1016/s0076-6879(96)66033-9\n\t\t8743704\n\t\n\t\n\t\tMethods in Enzymology\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t266\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ce787723bebd866acdc4"},"refKey":23},
{"_key":"60c8ce787723bebd866acdca","_id":"references/60c8ce787723bebd866acdca","_rev":"_cfFmTPu---","tei":"\n\t\n\t\tThe Jpred 3 secondary structure prediction server\n\t\t\n\t\t\tCCole\n\t\t\n\t\t\n\t\t\tJDBarber\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tNucleic acids research\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ce787723bebd866acdc4"},"refKey":2},
{"_key":"60c8ce787723bebd866acdcb","_id":"references/60c8ce787723bebd866acdcb","_rev":"_cfFmTP6---","tei":"\n\t\n\t\tPorter: a new, accurate server for protein secondary structure prediction\n\t\t\n\t\t\tGPollastri\n\t\t\n\t\t\n\t\t\tAMclysaght\n\t\t\n\t\t10.1093/bioinformatics/bti203\n\t\t15585524\n\t\tark:/67375/HXZ-NW6HM1JB-7\n\t\tF108BC0F97AA3D83DCF437B2F6C7B3D30533277C\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t21\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8ce787723bebd866acdc4"},"refKey":17},
{"_key":"60c8ce787723bebd866acdcc","_id":"references/60c8ce787723bebd866acdcc","_rev":"_cfFmTQC---","tei":"\n\t\n\t\tAPSSP2 : A combination method for protein secondary structure prediction based on neural network and example based learning. CASP5 A\n\t\t\n\t\t\tGP SRaghava\n\t\t\n\t\t\n\t\t\t\n\t\t\t132\n\t\t\n\t\n\n","document":{"$oid":"60c8ce787723bebd866acdc4"},"refKey":19},
{"_key":"60c8ce7f7723bebd866acdde","_id":"references/60c8ce7f7723bebd866acdde","_rev":"_cfFmTQO---","tei":"\n\t\n\t\tDNASTAR's Lasergene Sequence Analysis Software\n\t\t\n\t\t\tTimothyGBurland\n\t\t\n\t\t10.1385/1-59259-192-2:71\n\t\n\t\n\t\tBioinformatics Methods and Protocols\n\t\t\t\t\n\t\t\tHumana Press\n\t\t\t2000\n\t\t\t132\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ce7f7723bebd866acddd"},"refKey":16},
{"_key":"60c8ceb17723bebd866ace0d","_id":"references/60c8ceb17723bebd866ace0d","_rev":"_cfFmTQa---","tei":"\n\t\n\t\tThe Vienna RNA websuite\n\t\t\n\t\t\tARGruber\n\t\t\n\t\t\n\t\t\tRLorenz\n\t\t\n\t\t\n\t\t\tSHBernhart\n\t\t\n\t\t\n\t\t\tRNeubock\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ceb17723bebd866ace0c"},"refKey":31},
{"_key":"60c8ceb17723bebd866ace0e","_id":"references/60c8ceb17723bebd866ace0e","_rev":"_cfFmTQm---","tei":"\n\t\n\t\tViennaRNA Package 2.0\n\t\t\n\t\t\tRLorenz\n\t\t\n\t\t\n\t\t\tSHBernhart\n\t\t\n\t\t\n\t\t\tCHoner Zu Siederdissen\n\t\t\n\t\t\n\t\t\tHTafer\n\t\t\n\t\t\n\t\t\tCFlamm\n\t\t\n\t\t\n\t\t\tPFStadler\n\t\t\n\t\t\n\t\t\tILHofacker\n\t\t\n\t\n\t\n\t\tAlgorithms Mol. Biol\n\t\t\n\t\t\t6\n\t\t\t26\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ceb17723bebd866ace0c"},"refKey":32},
{"_key":"60c8ced17723bebd866ace1a","_id":"references/60c8ced17723bebd866ace1a","_rev":"_cfFmTQy---","tei":"\n\t\n\t\tppcor: An R Package for a Fast Calculation to Semi-partial Correlation Coefficients\n\t\t\n\t\t\tSeonghoKim\n\t\t\n\t\t10.5351/csam.2015.22.6.665\n\t\t26688802\n\t\tPMC4681537\n\t\t\n\t\n\t\n\t\tCommunications for Statistical Applications and Methods\n\t\tCSAM\n\t\t2383-4757\n\t\t\n\t\t\t22\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tThe Korean Statistical Society\n\t\t\n\t\n\n","document":{"$oid":"60c8ced17723bebd866ace19"},"refKey":18},
{"_key":"60c8cf0e7723bebd866ace40","_id":"references/60c8cf0e7723bebd866ace40","_rev":"_cfFmTR----","tei":"\n\t\n\t\tBioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT\n\t\t\n\t\t\tTAHall\n\t\t\n\t\n\t\n\t\tNucleic Acids Symposium Series\n\t\t\n\t\t\t41\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cf0e7723bebd866ace3f"},"refKey":13},
{"_key":"60c8cf1d7723bebd866ace57","_id":"references/60c8cf1d7723bebd866ace57","_rev":"_cfFmTRK---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tRDennington\n\t\t\n\t\t\n\t\t\tTKeith\n\t\t\n\t\t\n\t\t\tJGaussMillam\n\t\t\n\t\t\n\t\t\tView\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cf1d7723bebd866ace56"},"refKey":57},
{"_key":"60c8cf357723bebd866ace69","_id":"references/60c8cf357723bebd866ace69","_rev":"_cfFmTRW---","tei":"\n\t\n\t\tCNS (Crystallography and NMR System)\n\t\t\n\t\t\tAxelTBrunger\n\t\t\n\t\t10.1007/978-3-642-16712-6_318\n\t\n\t\n\t\tEncyclopedia of Biophysics\n\t\t\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t2\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cf357723bebd866ace68"},"refKey":67},
{"_key":"60c8cf357723bebd866ace6a","_id":"references/60c8cf357723bebd866ace6a","_rev":"_cfFmTRe---","tei":"\n\t\n\t\t\n\t\t\tATBru ¨nger\n\t\t\n\t\t\n\t\t\tPDAdams\n\t\t\n\t\t\n\t\t\tGMClore\n\t\t\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\tPGros\n\t\t\n\t\t\n\t\t\tRWGrosse-Kunstleve\n\t\t\n\t\t\n\t\t\tJSJiang\n\t\t\n\t\t\n\t\t\tJKuszewski\n\t\t\n\t\t\n\t\t\tMNilges\n\t\t\n\t\t\n\t\t\tNSPannu\n\t\t\n\t\t\n\t\t\tRJRead\n\t\t\n\t\t\n\t\t\tLMRice\n\t\t\n\t\t\n\t\t\tTSimonson\n\t\t\n\t\t\n\t\t\tGLWarren\n\t\t\n\t\n\t\n\t\tCrystallography & NMR system: a new software suite for macromolecular structure determination\n\t\t\t\t\n\t\t\t\n\t\t\t54\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cf357723bebd866ace68"},"refKey":68},
{"_key":"60c8cf487723bebd866ace76","_id":"references/60c8cf487723bebd866ace76","_rev":"_cfFmTRq---","tei":"\n\t\n\t\tEmmeans: Estimated Marginal Means, aka Least-Squares Means\n\t\t\n\t\t\tRLenth\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR Package version 1.5.1\n\n","document":{"$oid":"60c8cf487723bebd866ace75"},"refKey":42},
{"_key":"60c8cf487723bebd866ace77","_id":"references/60c8cf487723bebd866ace77","_rev":"_cfFmTR2---","tei":"\n\t\n\t\tSemTools: Useful Tools for Structural Equation Modeling. R Package Version 0\n\t\t\n\t\t\tTDJorgensen\n\t\t\n\t\t\n\t\t\tSPornprasertmanit\n\t\t\n\t\t\n\t\t\tAMSchoemann\n\t\t\n\t\t\n\t\t\tYRosseel\n\t\t\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cf487723bebd866ace75"},"refKey":34},
{"_key":"60c8cf487723bebd866ace78","_id":"references/60c8cf487723bebd866ace78","_rev":"_cfFmTSC---","tei":"\n\t\n\t\tCoronavirus, ageism, and twitter: an evaluation of tweets about older adults and COVID-19\n\t\t\n\t\t\tRM. ; M RHope\n\t\t\n\t\t\n\t\t\tCGomez-Moreno\n\t\t\n\t\t\n\t\t\tESoto-Perez-De-Celis\n\t\t\n\t\t10.1111/jgs.16508\n\t\n\t\n\t\tRmisc: Rmisc: Ryan Miscellaneous. R Package Version 1.5. Jimenez-Sotomayor\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tEpub ahead of print\n\n","document":{"$oid":"60c8cf487723bebd866ace75"},"refKey":33},
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{"_key":"60c8cf777723bebd866acea0","_id":"references/60c8cf777723bebd866acea0","_rev":"_cfFmTSa---","tei":"\n\t\n\t\tR: A language and environment for statistical computing. R Foundation for Statistical Computing\n\t\t\n\t\t\n\t\t\t\n\t\t\tVienna, Austria\n\t\t\n\t\n\n","document":{"$oid":"60c8cf777723bebd866ace9e"},"refKey":18},
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{"_key":"60c8cf837723bebd866aceb4","_id":"references/60c8cf837723bebd866aceb4","_rev":"_cfFmTSu---","tei":"\n\t\n\t\tDeepLoc: prediction of protein subcellular localization using deep learning\n\t\t\n\t\t\tJoseJuanAlmagro Armenteros\n\t\t\n\t\t\n\t\t\tCasperKaaeSønderby\n\t\t\n\t\t\n\t\t\tSørenKaaeSønderby\n\t\t\n\t\t\n\t\t\tHenrikNielsen\n\t\t\n\t\t\n\t\t\tOleWinther\n\t\t\n\t\t10.1093/bioinformatics/btx548\n\t\t29028934\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t24\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8cf837723bebd866aceb2"},"refKey":1},
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{"_key":"60c8cf837723bebd866aceb6","_id":"references/60c8cf837723bebd866aceb6","_rev":"_cfFmTTG---","tei":"\n\t\n\t\tEMBOSS: the European Molecular Biology Open Software Suite\n\t\t\n\t\t\tPRice\n\t\t\n\t\t\n\t\t\tILongden\n\t\t\n\t\t\n\t\t\tABleasby\n\t\t\n\t\n\t\n\t\tTrends Genet\n\t\t\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cf837723bebd866aceb2"},"refKey":51},
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{"_key":"60c8cfea7723bebd866acf00","_id":"references/60c8cfea7723bebd866acf00","_rev":"_cfFmTTy---","tei":"\n\t\n\t\t\n\t\tMathWorks: Simulink Design Verifier\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8cfea7723bebd866acefd"},"refKey":4},
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{"_key":"60c8d09b7723bebd866acfb9","_id":"references/60c8d09b7723bebd866acfb9","_rev":"_cfFmTVa---","tei":"\n\t\n\t\tcisTEM: User-friendly software for single-particle image processing\n\t\t\n\t\t\tTimGrant\n\t\t\n\t\t\n\t\t\tAlexisRohou\n\t\t\t0000-0002-3343-9621\n\t\t\n\t\t\n\t\t\tNikolausGrigorieff\n\t\t\t0000-0002-1506-909X\n\t\t\n\t\t10.1101/257618\n\t\t\n\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\t7\n\t\t\te35383\n\t\t\n\t\n\n","document":{"$oid":"60c8d09b7723bebd866acfb6"},"refKey":14},
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{"_key":"60c8d10f7723bebd866ad01a","_id":"references/60c8d10f7723bebd866ad01a","_rev":"_cfFmTW----","tei":"\n\t\n\t\tThe REDCap consortium: Building an international community of software platform partners\n\t\t\n\t\t\tPAHarris\n\t\t\n\t\t\n\t\t\tTaylor\n\t\t\n\t\t\n\t\t\tMinor\n\t\t\n\t\t10.1016/j.jbi.2019.103208\n\t\n\t\n\t\tREDCap Consortium\n\t\t\t\t\n\t\t\t\n\t\t\t95\n\t\t\n\t\n\n","document":{"$oid":"60c8d10f7723bebd866ad019"},"refKey":8},
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{"_key":"60c8d1ab7723bebd866ad0a6","_id":"references/60c8d1ab7723bebd866ad0a6","_rev":"_cfFmTWq---","tei":"\n\t\n\t\tBayesian approach to single-cell differential expression analysis\n\t\t\n\t\t\tLevPeter V Kharchenko\n\t\t\n\t\t\n\t\t\tDavidTSilberstein\n\t\t\n\t\t\n\t\t\tScadden\n\t\t\n\t\n\t\n\t\tNature methods\n\t\t\n\t\t\t11\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d1ab7723bebd866ad0a5"},"refKey":26},
{"_key":"60c8d1ab7723bebd866ad0a7","_id":"references/60c8d1ab7723bebd866ad0a7","_rev":"_cfFmTW2---","tei":"\n\t\n\t\t\n\t\t\tKarenSimonyan\n\t\t\n\t\t\n\t\t\tAndrewZisserman\n\t\t\n\t\tarXiv:1409.1556\n\t\tVery deep convolutional networks for large-scale image recognition\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tarXiv preprint\n\n","document":{"$oid":"60c8d1ab7723bebd866ad0a5"},"refKey":51},
{"_key":"60c8d1b07723bebd866ad0c9","_id":"references/60c8d1b07723bebd866ad0c9","_rev":"_cfFmTXC---","tei":"\n\t\n\t\tFast gapped-read alignment with Bowtie 2\n\t\t\n\t\t\tBenLangmead\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1038/nmeth.1923\n\t\t22388286\n\t\tPMC3322381\n\t\t\n\t\n\t\n\t\tNature Methods\n\t\tNat Methods\n\t\t1548-7091\n\t\t1548-7105\n\t\t\n\t\t\t9\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8d1b07723bebd866ad0c8"},"refKey":30},
{"_key":"60c8d1b07723bebd866ad0ca","_id":"references/60c8d1b07723bebd866ad0ca","_rev":"_cfFmTXO---","tei":"\n\t\n\t\tQuality control and preprocessing of metagenomic datasets\n\t\t\n\t\t\tRSchmieder\n\t\t\n\t\t\n\t\t\tREdwards\n\t\t\n\t\t10.1093/bioinformatics/btr026\n\t\t21278185\n\t\tPMC3051327\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8d1b07723bebd866ad0c8"},"refKey":27},
{"_key":"60c8d1b07723bebd866ad0cb","_id":"references/60c8d1b07723bebd866ad0cb","_rev":"_cfFmTXe---","tei":"\n\t\n\t\tKraken: ultrafast metagenomic sequence classification using exact alignments\n\t\t\n\t\t\tDerrickEWood\n\t\t\n\t\t\n\t\t\tStevenLSalzberg\n\t\t\n\t\t10.1186/gb-2014-15-3-r46\n\t\t24580807\n\t\tPMC4053813\n\t\t\n\t\n\t\n\t\tGenome Biology\n\t\tGenome Biol\n\t\t1465-6906\n\t\t\n\t\t\t15\n\t\t\t3\n\t\t\tR46\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8d1b07723bebd866ad0c8"},"refKey":31},
{"_key":"60c8d1e37723bebd866ad0fc","_id":"references/60c8d1e37723bebd866ad0fc","_rev":"_cfFmTXq---","tei":"\n\t\n\t\tTen frequently asked questions about latent class analysis\n\t\t\n\t\t\tLKMuthén\n\t\t\n\t\t\n\t\t\tBOMuthén\n\t\t\n\t\t\n\t\t\tMuthen & Muthen\n\t\t\n\t\t\n\t\t\tKNylund-Gibson\n\t\t\n\t\t\n\t\t\tAYChoi\n\t\t\n\t\n\t\n\t\tTranslational Issues in Psychological Science\n\t\t\n\t\t\t4\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tMplus user's guide (sixth)\n\n","document":{"$oid":"60c8d1e37723bebd866ad0fb"},"refKey":22},
{"_key":"60c8d22d7723bebd866ad12b","_id":"references/60c8d22d7723bebd866ad12b","_rev":"_cfFmTX2---","tei":"\n\t\n\t\tI˜naki Comas, Fernando Gonz´alez Candelas, SeqCOVID-SPAIN consortium, et al. Emergence and spread of a SARS-CoV-2 variant through\n\t\t\n\t\t\tEmmaBHodcroft\n\t\t\n\t\t\n\t\t\tMoiraZuber\n\t\t\n\t\t\n\t\t\tSarahNadeau\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d22d7723bebd866ad12a"},"refKey":2},
{"_key":"60c8d22d7723bebd866ad12c","_id":"references/60c8d22d7723bebd866ad12c","_rev":"_cfFmTYC---","tei":"\n\t\n\t\tTrimmomatic: A flexible trimmer for Illumina sequence data\n\t\t\n\t\t\tAMBolger\n\t\t\n\t\t\n\t\t\tMLohse\n\t\t\n\t\t\n\t\t\tBUsadel\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t30\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d22d7723bebd866ad12a"},"refKey":3},
{"_key":"60c8d22d7723bebd866ad12d","_id":"references/60c8d22d7723bebd866ad12d","_rev":"_cfFmTYO---","tei":"\n\t\n\t\tFast and accurate short read alignment with Burrows-Wheeler transform\n\t\t\n\t\t\tHLi\n\t\t\n\t\t\n\t\t\tRDurbin\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t25\n\t\t\t14\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d22d7723bebd866ad12a"},"refKey":4},
{"_key":"60c8d2337723bebd866ad137","_id":"references/60c8d2337723bebd866ad137","_rev":"_cfFmTYa---","tei":"\n\t\n\t\tGloVe: global vectors for word representation\n\t\t\n\t\t\tJPennington\n\t\t\n\t\t\n\t\t\tRSocher\n\t\t\n\t\t\n\t\t\tCDManning\n\t\t\n\t\n\t\n\t\tProceedings of the 2014 Conference on Empirical Methods in Natural Language Processing (EMNLP)\n\t\t\t\tthe 2014 Conference on Empirical Methods in Natural Language Processing (EMNLP)\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d2337723bebd866ad136"},"refKey":8},
{"_key":"60c8d2397723bebd866ad13a","_id":"references/60c8d2397723bebd866ad13a","_rev":"_cfFmTYm---","tei":"\n\t\n\t\tSeq-gen: an application for the monte carlo simulation of dna sequence evolution along phylogenetic trees\n\t\t\n\t\t\tAndrewRambaut\n\t\t\n\t\t\n\t\t\tCNicholas\n\t\t\n\t\t\n\t\t\tGrass\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t13\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d2397723bebd866ad139"},"refKey":16},
{"_key":"60c8d2397723bebd866ad13b","_id":"references/60c8d2397723bebd866ad13b","_rev":"_cfFmTYy---","tei":"\n\t\n\t\tPyvolve: a flexible python module for simulating sequences along phylogenies\n\t\t\n\t\t\tJStephanie\n\t\t\n\t\t\n\t\t\tClausOSpielman\n\t\t\n\t\t\n\t\t\tWilke\n\t\t\n\t\n\t\n\t\tPloS one\n\t\t\n\t\t\t10\n\t\t\t9\n\t\t\te0139047\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d2397723bebd866ad139"},"refKey":32},
{"_key":"60c8d23a7723bebd866ad162","_id":"references/60c8d23a7723bebd866ad162","_rev":"_cfFmTY6---","tei":"\n\t\n\t\tMUSCLE: multiple sequence alignment with high accuracy and high throughput\n\t\t\n\t\t\tRCEdgar\n\t\t\n\t\t10.1093/nar/gkh340\n\t\t15034147\n\t\tPMC390337\n\t\tark:/67375/HXZ-NZ7QWJ4K-8\n\t\t8A3E6A577750C7BEA83E2FBB646B8E9D2339A5AE\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8d23a7723bebd866ad161"},"refKey":55},
{"_key":"60c8d23a7723bebd866ad163","_id":"references/60c8d23a7723bebd866ad163","_rev":"_cfFmTZG---","tei":"\n\t\n\t\tPredicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. Cohen\n\t\t\n\t\t\tAndersKrogh\n\t\t\n\t\t\n\t\t\tBjörnLarsson\n\t\t\n\t\t\n\t\t\tGunnarVon Heijne\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t10.1006/jmbi.2000.4315\n\t\t11152613\n\t\tS0022-2836(00)94315-8\n\t\tark:/67375/6H6-ZB6KWVJ7-M\n\t\t172A90B8F942FA711EF8E2CF5DB2DE13B7F2D351\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t305\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8d23a7723bebd866ad161"},"refKey":61},
{"_key":"60c8d23a7723bebd866ad164","_id":"references/60c8d23a7723bebd866ad164","_rev":"_cfFmTZS---","tei":"\n\t\n\t\tPfam: the protein families database\n\t\t\n\t\t\tRobertDFinn\n\t\t\n\t\t\n\t\t\tAlexBateman\n\t\t\n\t\t\n\t\t\tJodyClements\n\t\t\n\t\t\n\t\t\tPenelopeCoggill\n\t\t\n\t\t\n\t\t\tRuthYEberhardt\n\t\t\n\t\t\n\t\t\tSeanREddy\n\t\t\n\t\t\n\t\t\tAndreasHeger\n\t\t\n\t\t\n\t\t\tKirstieHetherington\n\t\t\n\t\t\n\t\t\tLiisaHolm\n\t\t\n\t\t\n\t\t\tJainaMistry\n\t\t\n\t\t\n\t\t\tErikL LSonnhammer\n\t\t\n\t\t\n\t\t\tJohnTate\n\t\t\n\t\t\n\t\t\tMarcoPunta\n\t\t\n\t\t10.1093/nar/gkt1223\n\t\t24288371\n\t\tPMC3965110\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucl. Acids Res.\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t42\n\t\t\tD1\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8d23a7723bebd866ad161"},"refKey":59},
{"_key":"60c8d23a7723bebd866ad165","_id":"references/60c8d23a7723bebd866ad165","_rev":"_cfFmTZe---","tei":"\n\t\n\t\tInterProScan 5: genome-scale protein function classification\n\t\t\n\t\t\tPJones\n\t\t\n\t\t\n\t\t\tDBinns\n\t\t\n\t\t\n\t\t\tH-YChang\n\t\t\n\t\t\n\t\t\tMFraser\n\t\t\n\t\t\n\t\t\tWLi\n\t\t\n\t\t\n\t\t\tCMcanulla\n\t\t\n\t\t\n\t\t\tHMcwilliam\n\t\t\n\t\t\n\t\t\tJMaslen\n\t\t\n\t\t\n\t\t\tAMitchell\n\t\t\n\t\t\n\t\t\tGNuka\n\t\t\n\t\t\n\t\t\tSPesseat\n\t\t\n\t\t\n\t\t\tAFQuinn\n\t\t\n\t\t\n\t\t\tASangrador-Vegas\n\t\t\n\t\t\n\t\t\tMScheremetjew\n\t\t\n\t\t\n\t\t\tS-YYong\n\t\t\n\t\t\n\t\t\tRLopez\n\t\t\n\t\t\n\t\t\tSHunter\n\t\t\n\t\t10.1093/bioinformatics/btu031\n\t\t24451626\n\t\tPMC3998142\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t30\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8d23a7723bebd866ad161"},"refKey":60},
{"_key":"60c8d23a7723bebd866ad166","_id":"references/60c8d23a7723bebd866ad166","_rev":"_cfFmTZq---","tei":"\n\t\n\t\tThe PredictProtein server\n\t\t\n\t\t\tBRost\n\t\t\n\t\t\n\t\t\tGYachdav\n\t\t\n\t\t\n\t\t\tJLiu\n\t\t\n\t\t10.1093/nar/gkh377\n\t\t15215403\n\t\tPMC441515\n\t\tark:/67375/HXZ-21JVCWCL-N\n\t\t721BA0C3A097FACDC476F8FC04EC1DA5CC0598C5\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t32\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tWeb Server issue\n\n","document":{"$oid":"60c8d23a7723bebd866ad161"},"refKey":62},
{"_key":"60c8d23a7723bebd866ad167","_id":"references/60c8d23a7723bebd866ad167","_rev":"_cfFmTZ2---","tei":"\n\t\n\t\tImprovement of Phylogenies after Removing Divergent and Ambiguously Aligned Blocks from Protein Sequence Alignments\n\t\t\n\t\t\tGerardTalavera\n\t\t\n\t\t\n\t\t\tJoseCastresana\n\t\t\n\t\t10.1080/10635150701472164\n\t\t17654362\n\t\tark:/67375/HXZ-BPXFB4NP-V\n\t\t7F66247F6AFD2D644E2E779ED931A9CAA1AC8D80\n\t\t\n\t\n\t\n\t\tSystematic Biology\n\t\t1063-5157\n\t\t1076-836X\n\t\t\n\t\t\t56\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8d23a7723bebd866ad161"},"refKey":56},
{"_key":"60c8d23a7723bebd866ad168","_id":"references/60c8d23a7723bebd866ad168","_rev":"_cfFmTaC---","tei":"\n\t\n\t\tSOAP: short oligonucleotide alignment program\n\t\t\n\t\t\tRLi\n\t\t\n\t\t\n\t\t\tYLi\n\t\t\n\t\t\n\t\t\tKKristiansen\n\t\t\n\t\t\n\t\t\tJWang\n\t\t\n\t\t10.1093/bioinformatics/btn025\n\t\t18227114\n\t\tark:/67375/HXZ-Z86ZPPWB-W\n\t\t74588DDF26E839E33BC349DE7AFA69A37A14A4B3\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t24\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8d23a7723bebd866ad161"},"refKey":54},
{"_key":"60c8d2637723bebd866ad197","_id":"references/60c8d2637723bebd866ad197","_rev":"_cfFmTaO---","tei":"\n\t\n\t\tFastTree 2 -Approximately Maximum-Likelihood Trees for Large Alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\n\t\n\t\tPLoS One\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d2637723bebd866ad196"},"refKey":22},
{"_key":"60c8d2637723bebd866ad198","_id":"references/60c8d2637723bebd866ad198","_rev":"_cfFmTaa---","tei":"\n\t\n\t\tComputing large minimum evolution trees with profiles instead of a distance matrix\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\t\n\t\t\tFasttree\n\t\t\n\t\n\t\n\t\tMol. Biol. Evol\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d2637723bebd866ad196"},"refKey":23},
{"_key":"60c8d27b7723bebd866ad1a7","_id":"references/60c8d27b7723bebd866ad1a7","_rev":"_cfFmTai---","tei":"\n\t\n\t\tBetter evaluation for grammatical error correction\n\t\t\n\t\t\tDDahlmeier\n\t\t\n\t\t\n\t\t\tHTNg\n\t\t\n\t\n\t\n\t\tProceedings of the 2012 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies\n\t\t\t\tthe 2012 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d27b7723bebd866ad1a6"},"refKey":5},
{"_key":"60c8d27b7723bebd866ad1a8","_id":"references/60c8d27b7723bebd866ad1a8","_rev":"_cfFmTau---","tei":"\n\t\n\t\tManual and automatic evaluation of summaries\n\t\t\n\t\t\tChin-YewLin\n\t\t\n\t\t\n\t\t\tEduardHovy\n\t\t\n\t\t10.3115/1118162.1118168\n\t\t\n\t\n\t\n\t\tProceedings of the ACL-02 Workshop on Automatic Summarization -\n\t\t\t\tthe ACL-02 Workshop on Automatic Summarization\n\t\t\n\t\t\tAssociation for Computational Linguistics\n\t\t\t\n\t\t\t8\n\t\t\n\t\n\n","document":{"$oid":"60c8d27b7723bebd866ad1a6"},"refKey":20},
{"_key":"60c8d27b7723bebd866ad1a9","_id":"references/60c8d27b7723bebd866ad1a9","_rev":"_cfFmTa6---","tei":"\n\t\n\t\tKeras\n\t\t\n\t\t\tFChollet\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d27b7723bebd866ad1a6"},"refKey":3},
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{"_key":"60c8d2d67723bebd866ad227","_id":"references/60c8d2d67723bebd866ad227","_rev":"_cfFmTc2---","tei":"\n\t\n\t\tMEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods\n\t\t\n\t\t\tKTamura\n\t\t\n\t\t\n\t\t\tDPeterson\n\t\t\n\t\t\n\t\t\tNPeterson\n\t\t\n\t\t\n\t\t\tGStecher\n\t\t\n\t\t\n\t\t\tMNei\n\t\t\n\t\t\n\t\t\tSKumar\n\t\t\n\t\n\t\n\t\tMol Biol Evol\n\t\t\n\t\t\t28\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d2d67723bebd866ad226"},"refKey":17},
{"_key":"60c8d2ef7723bebd866ad235","_id":"references/60c8d2ef7723bebd866ad235","_rev":"_cfFmTdC---","tei":"\n\t\n\t\tNormalization of Real-Time Quantitative Reverse Transcription-PCR Data: A Model-Based Variance Estimation Approach to Identify Genes Suited for Normalization, Applied to Bladder and Colon Cancer Data Sets\n\t\t\n\t\t\tCLAndersen\n\t\t\n\t\t\n\t\t\tJLJensen\n\t\t\n\t\t\n\t\t\tTFOrntoft\n\t\t\n\t\n\t\n\t\tCancer Res\n\t\t\n\t\t\t64\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d2ef7723bebd866ad234"},"refKey":10},
{"_key":"60c8d2ef7723bebd866ad236","_id":"references/60c8d2ef7723bebd866ad236","_rev":"_cfFmTdO---","tei":"\n\t\n\t\tDetermination of stable housekeeping genes, differentially regulated target genes and sample integrity: BestKeeper--Excel-based tool using pair-wise correlations\n\t\t\n\t\t\tMWPfaffl\n\t\t\n\t\t\n\t\t\tATichopad\n\t\t\n\t\t\n\t\t\tCPrgomet\n\t\t\n\t\t\n\t\t\tTPNeuvians\n\t\t\n\t\n\t\n\t\tBiotechnology Letters\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d2ef7723bebd866ad234"},"refKey":8},
{"_key":"60c8d2ef7723bebd866ad237","_id":"references/60c8d2ef7723bebd866ad237","_rev":"_cfFmTda---","tei":"\n\t\n\t\tAccurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes\n\t\t\n\t\t\tJVandesompele\n\t\t\n\t\t\n\t\t\tDePreter\n\t\t\n\t\t\n\t\t\tKPattyn\n\t\t\n\t\t\n\t\t\tFPoppe\n\t\t\n\t\t\n\t\t\tBVan Roy\n\t\t\n\t\t\n\t\t\tN\n\t\t\n\t\t\n\t\t\tDePaepe\n\t\t\n\t\t\n\t\t\tASpeleman\n\t\t\n\t\t\n\t\t\tF\n\t\t\n\t\t3:0034.1- 0034.11\n\t\n\t\n\t\tGenome Biology\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d2ef7723bebd866ad234"},"refKey":5},
{"_key":"60c8d30f7723bebd866ad27f","_id":"references/60c8d30f7723bebd866ad27f","_rev":"_cfFmTdm---","tei":"\n\t\n\t\tDatabase resources of the national center for biotechnology information\n\t\t\n\t\t\tNcbi Resource Coordinators\n\t\t\n\t\n\t\n\t\tNucleic Acids Res\n\t\t\n\t\t\t46\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d30f7723bebd866ad27e"},"refKey":19},
{"_key":"60c8d31f7723bebd866ad286","_id":"references/60c8d31f7723bebd866ad286","_rev":"_cfFmTdy---","tei":"\n\t\n\t\tR: A language and environment for statistical computing\n\t\t\n\t\t\tR Core Team\n\t\t\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d31f7723bebd866ad285"},"refKey":8},
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{"_key":"60c8d3497723bebd866ad2b0","_id":"references/60c8d3497723bebd866ad2b0","_rev":"_cfFmTeK---","tei":"\n\t\n\t\tCrowdForge\n\t\t\n\t\t\tAniketKittur\n\t\t\n\t\t\n\t\t\tBorisSmus\n\t\t\n\t\t\n\t\t\tSusheelKhamkar\n\t\t\n\t\t\n\t\t\tRobertEKraut\n\t\t\n\t\t10.1145/2047196.2047202\n\t\n\t\n\t\tProceedings of the 24th annual ACM symposium on User interface software and technology - UIST '11\n\t\t\t\tthe 24th annual ACM symposium on User interface software and technology - UIST '11New York, New York, USA\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t43\n\t\t\n\t\n\n","document":{"$oid":"60c8d3497723bebd866ad2ae"},"refKey":29},
{"_key":"60c8d3497723bebd866ad2b1","_id":"references/60c8d3497723bebd866ad2b1","_rev":"_cfFmTeW---","tei":"\n\t\n\t\tCrowd Weaver: Visually managing complex crowd work\n\t\t\n\t\t\tAKittur\n\t\t\n\t\t\n\t\t\tSKhamkar\n\t\t\n\t\t\n\t\t\tPAndré\n\t\t\n\t\t\n\t\t\tRKraut\n\t\t\n\t\n\t\n\t\tProceedings of the ACM 2012 conference on Computer Supported Cooperative Work -CSCW' ' '12\n\t\t\t\tthe ACM 2012 conference on Computer Supported Cooperative Work -CSCW' ' '12New York, New York, USA\n\t\t\n\t\t\tACM Press\n\t\t\t\n\t\t\t1033\n\t\t\n\t\n\n","document":{"$oid":"60c8d3497723bebd866ad2ae"},"refKey":30},
{"_key":"60c8d3497723bebd866ad2b2","_id":"references/60c8d3497723bebd866ad2b2","_rev":"_cfFmTei---","tei":"\n\t\n\t\tCrowdbreaks: Tracking Health Trends Using Public Social Media Data and Crowdsourcing\n\t\t\n\t\t\tMartinMMüller\n\t\t\n\t\t\n\t\t\tMarcelSalathé\n\t\t\n\t\t10.3389/fpubh.2019.00081\n\t\t\n\t\n\t\n\t\tFrontiers in Public Health\n\t\tFront. Public Health\n\t\t2296-2565\n\t\t\n\t\t\t7\n\t\t\t\n\t\t\tFrontiers Media SA\n\t\t\n\t\n\n","document":{"$oid":"60c8d3497723bebd866ad2ae"},"refKey":32},
{"_key":"60c8d36d7723bebd866ad2d6","_id":"references/60c8d36d7723bebd866ad2d6","_rev":"_cfFmTeu---","tei":"\n\t\n\t\tCODA: Convergence diagnosis and output analysis for MCMC\n\t\t\n\t\t\tMPlummer\n\t\t\n\t\t\n\t\t\tNBest\n\t\t\n\t\t\n\t\t\tKCowles\n\t\t\n\t\t\n\t\t\tKVines\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2.2.8. Available at\n\n","document":{"$oid":"60c8d36d7723bebd866ad2d5"},"refKey":39},
{"_key":"60c8d36d7723bebd866ad2d7","_id":"references/60c8d36d7723bebd866ad2d7","_rev":"_cfFmTe6---","tei":"\n\t\n\t\tFunctional Data Analysis\n\t\t\n\t\t\tJamesORamsay\n\t\t\n\t\t\n\t\t\tBernardWSilverman\n\t\t\n\t\t10.1016/b978-0-08-097086-8.42046-5\n\t\t\n\t\n\t\n\t\tInternational Encyclopedia of the Social & Behavioral Sciences\n\t\t\t\t\n\t\t\tElsevier\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tR package version 2.2.8. Available at\n\n","document":{"$oid":"60c8d36d7723bebd866ad2d5"},"refKey":38},
{"_key":"60c8d39b7723bebd866ad2f8","_id":"references/60c8d39b7723bebd866ad2f8","_rev":"_cfFmTfG---","tei":"\n\t\n\t\tThe Jalview Java alignment editor\n\t\t\n\t\t\tMClamp\n\t\t\n\t\t\n\t\t\tJCuff\n\t\t\n\t\t\n\t\t\tSMSearle\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\t10.1093/bioinformatics/btg430\n\t\t14960472\n\t\tark:/67375/HXZ-XXQ2HPGZ-C\n\t\tF4062208D7316D1BFB52F0000C62A170D3E1B989\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\tThe Jalview Java\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t20\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8d39b7723bebd866ad2f7"},"refKey":32},
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{"_key":"60c8d3ca7723bebd866ad31f","_id":"references/60c8d3ca7723bebd866ad31f","_rev":"_cfFmTgO---","tei":"\n\t\n\t\tSingle-cell mass cytometry of differential immune and drug responses across a human hematopoietic continuum\n\t\t\n\t\t\tSCBendall\n\t\t\n\t\t\n\t\t\tEFSimonds\n\t\t\n\t\t\n\t\t\tPQiu\n\t\t\n\t\t\n\t\t\tEadAmir\n\t\t\n\t\t\n\t\t\tPOKrutzik\n\t\t\n\t\t\n\t\t\tRFinck\n\t\t\n\t\n\t\n\t\tScience\n\t\t\n\t\t\t332\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d3ca7723bebd866ad31e"},"refKey":6},
{"_key":"60c8d3d37723bebd866ad327","_id":"references/60c8d3d37723bebd866ad327","_rev":"_cfFmTga---","tei":"\n\t\n\t\tX!!Tandem, an Improved Method for Running X!Tandem in Parallel on Collections of Commodity Computers\n\t\t\n\t\t\tRobertDBjornson\n\t\t\n\t\t\n\t\t\tNicholasJCarriero\n\t\t\n\t\t\n\t\t\tChristopherColangelo\n\t\t\n\t\t\n\t\t\tMarkShifman\n\t\t\n\t\t\n\t\t\tKei-HoiCheung\n\t\t\n\t\t\n\t\t\tPerryLMiller\n\t\t\n\t\t\n\t\t\tKennethWilliams\n\t\t\n\t\t10.1021/pr0701198\n\t\t17902638\n\t\tPMC3863625\n\t\t\n\t\n\t\n\t\tJournal of Proteome Research\n\t\tJ. Proteome Res.\n\t\t1535-3893\n\t\t1535-3907\n\t\t\n\t\t\t7\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tAmerican Chemical Society (ACS)\n\t\t\n\t\n\n","document":{"$oid":"60c8d3d37723bebd866ad326"},"refKey":66},
{"_key":"60c8d3d37723bebd866ad328","_id":"references/60c8d3d37723bebd866ad328","_rev":"_cfFmTgm---","tei":"\n\t\n\t\tDevelopment and validation of a spectral library searching method for peptide identification from MS/MS\n\t\t\n\t\t\tHenryLam\n\t\t\n\t\t\n\t\t\tEricWDeutsch\n\t\t\n\t\t\n\t\t\tJamesSEddes\n\t\t\n\t\t\n\t\t\tJimmyKEng\n\t\t\n\t\t\n\t\t\tNicholeKing\n\t\t\n\t\t\n\t\t\tStephenEStein\n\t\t\n\t\t\n\t\t\tRuediAebersold\n\t\t\n\t\t10.1002/pmic.200600625\n\t\t17295354\n\t\tark:/67375/WNG-JJ3QTHCZ-C\n\t\t09DA57D57970D33645A86F41DE9A351F055B72DF\n\t\n\t\n\t\tPROTEOMICS\n\t\tProteomics\n\t\t1615-9853\n\t\t1615-9861\n\t\t\n\t\t\t7\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8d3d37723bebd866ad326"},"refKey":67},
{"_key":"60c8d3d37723bebd866ad329","_id":"references/60c8d3d37723bebd866ad329","_rev":"_cfFmTgy---","tei":"\n\t\n\t\tThe neXtProt peptide uniqueness checker: a tool for the proteomics community\n\t\t\n\t\t\tMathieuSchaeffer\n\t\t\n\t\t\n\t\t\tAlainGateau\n\t\t\n\t\t\n\t\t\tDanielTeixeira\n\t\t\n\t\t\n\t\t\tPierre-AndréMichel\n\t\t\n\t\t\n\t\t\tMoniqueZahn-Zabal\n\t\t\n\t\t\n\t\t\tLydieLane\n\t\t\n\t\t10.1093/bioinformatics/btx318\n\t\t28520855\n\t\tPMC5860159\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t33\n\t\t\t21\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8d3d37723bebd866ad326"},"refKey":11},
{"_key":"60c8d3d37723bebd866ad32a","_id":"references/60c8d3d37723bebd866ad32a","_rev":"_cfFmTh----","tei":"\n\t\n\t\tSoftware survey: VOSviewer, a computer program for bibliometric mapping\n\t\t\n\t\t\tNJVan Eck\n\t\t\n\t\t\n\t\t\tLWaltman\n\t\t\n\t\n\t\n\t\tScientometrics\n\t\t\n\t\t\t84\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d3d37723bebd866ad326"},"refKey":90},
{"_key":"60c8d40c7723bebd866ad363","_id":"references/60c8d40c7723bebd866ad363","_rev":"_cfFmThK---","tei":"\n\t\n\t\tEnsemble and Greedy Approach for the Reconstruction of Large Gene Co-Expression Networks\n\t\t\n\t\t\tFGómez-Vela\n\t\t\n\t\t\n\t\t\tFMDelgado-Chaves\n\t\t\n\t\t\n\t\t\tDSRodríguez-Baena\n\t\t\n\t\t\n\t\t\tMGarcía-Torres\n\t\t\n\t\t\n\t\t\tFDivina\n\t\t\n\t\t10.3390/e21121139\n\t\n\t\n\t\tEntropy\n\t\t\n\t\t\t21\n\t\t\t1139\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d40c7723bebd866ad362"},"refKey":32},
{"_key":"60c8d40c7723bebd866ad364","_id":"references/60c8d40c7723bebd866ad364","_rev":"_cfFmThW---","tei":"\n\t\n\t\tCytoscape 2.8: new features for data integration and network visualization\n\t\t\n\t\t\tMESmoot\n\t\t\n\t\t\n\t\t\tKOno\n\t\t\n\t\t\n\t\t\tJRuscheinski\n\t\t\n\t\t\n\t\t\tP-LWang\n\t\t\n\t\t\n\t\t\tTIdeker\n\t\t\n\t\t10.1093/bioinformatics/btq675\n\t\t21149340\n\t\tPMC3031041\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t27\n\t\t\t3\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8d40c7723bebd866ad362"},"refKey":67},
{"_key":"60c8d40c7723bebd866ad365","_id":"references/60c8d40c7723bebd866ad365","_rev":"_cfFmThe---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tDaWeiHuang\n\t\t\n\t\t\n\t\t\tBradTSherman\n\t\t\n\t\t\n\t\t\tRichardALempicki\n\t\t\n\t\t10.1038/nprot.2008.211\n\t\t19131956\n\t\n\t\n\t\tNature Protocols\n\t\tNat Protoc\n\t\t1754-2189\n\t\t1750-2799\n\t\t\n\t\t\t4\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8d40c7723bebd866ad362"},"refKey":78},
{"_key":"60c8d40c7723bebd866ad366","_id":"references/60c8d40c7723bebd866ad366","_rev":"_cfFmThq---","tei":"\n\t\n\t\tNetwork biology using Cytoscape from within R\n\t\t\n\t\t\tJAGustavsen\n\t\t\n\t\t\n\t\t\tSPai\n\t\t\n\t\t\n\t\t\tRIsserlin\n\t\t\n\t\t\n\t\t\tBDemchak\n\t\t\n\t\t\n\t\t\tARPico\n\t\t\n\t\t\n\t\t\tRcy3\n\t\t\n\t\t10.12688/f1000research.20887.2\n\t\t\n\t\t\t\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8d40c7723bebd866ad362"},"refKey":68},
{"_key":"60c8d40c7723bebd866ad367","_id":"references/60c8d40c7723bebd866ad367","_rev":"_cfFmTh2---","tei":"\n\t\n\t\tclusterMaker: a multi-algorithm clustering plugin for Cytoscape\n\t\t\n\t\t\tJohnHMorris\n\t\t\n\t\t\n\t\t\tLeonardApeltsin\n\t\t\n\t\t\n\t\t\tAaronMNewman\n\t\t\n\t\t\n\t\t\tJanBaumbach\n\t\t\n\t\t\n\t\t\tTobiasWittkop\n\t\t\n\t\t\n\t\t\tGangSu\n\t\t\n\t\t\n\t\t\tGaryDBader\n\t\t\n\t\t\n\t\t\tThomasEFerrin\n\t\t\n\t\t10.1186/1471-2105-12-436\n\t\t22070249\n\t\tPMC3262844\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t12\n\t\t\t1\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8d40c7723bebd866ad362"},"refKey":71},
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{"_key":"60c8d40c7723bebd866ad369","_id":"references/60c8d40c7723bebd866ad369","_rev":"_cfFmTiO---","tei":"\n\t\n\t\tWGCNA: an R package for weighted correlation network analysis\n\t\t\n\t\t\tPeterLangfelder\n\t\t\n\t\t\n\t\t\tSteveHorvath\n\t\t\n\t\t10.1186/1471-2105-9-559\n\t\t19114008\n\t\tPMC2631488\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t9\n\t\t\t1\n\t\t\t559\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8d40c7723bebd866ad362"},"refKey":93},
{"_key":"60c8d4517723bebd866ad3af","_id":"references/60c8d4517723bebd866ad3af","_rev":"_cfFmTia---","tei":"\n\t\n\t\tConjoint Community Resiliency Assessment Measure-28/10 Items (CCRAM28 and CCRAM10): A Self-report Tool for Assessing Community Resilience\n\t\t\n\t\t\tDmitryLeykin\n\t\t\n\t\t\n\t\t\tMooliLahad\n\t\t\n\t\t\n\t\t\tOdeyaCohen\n\t\t\n\t\t\n\t\t\tAvishayGoldberg\n\t\t\n\t\t\n\t\t\tLimorAharonson-Daniel\n\t\t\n\t\t10.1007/s10464-013-9596-0\n\t\t24091563\n\t\tark:/67375/VQC-38LZLRZ7-J\n\t\tFF72AE4A2E0DC0023BD01BE9A123C0C0E92260D9\n\t\n\t\n\t\tAmerican Journal of Community Psychology\n\t\t0091-0562\n\t\t\n\t\t\t52\n\t\t\t3-4\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8d4517723bebd866ad3ae"},"refKey":28},
{"_key":"60c8d4517723bebd866ad3b0","_id":"references/60c8d4517723bebd866ad3b0","_rev":"_cfFmTim---","tei":"\n\t\n\t\tAmos 20 User's Guide\n\t\t\n\t\t\tJLArbuckle\n\t\t\n\t\t\n\t\t\t\n\t\t\tSPSS Inc\n\t\t\tChicago, IL\n\t\t\n\t\n\n","document":{"$oid":"60c8d4517723bebd866ad3ae"},"refKey":4},
{"_key":"60c8d4ba7723bebd866ad3d8","_id":"references/60c8d4ba7723bebd866ad3d8","_rev":"_cfFmTiu---","tei":"\n\t\n\t\tComparative protein modeling by satisfaction of spatial restraints\n\t\t\n\t\t\tAŠali\n\t\t\n\t\t\n\t\t\tTLBlundell\n\t\t\n\t\t10.1107/s0108767396095578\n\t\t\n\t\n\t\n\t\tActa Crystallographica Section A Foundations of Crystallography\n\t\tActa Cryst Sect A\n\t\t0108-7673\n\t\t\n\t\t\t52\n\t\t\ta1\n\t\t\t\n\t\t\t\n\t\t\tInternational Union of Crystallography (IUCr)\n\t\t\n\t\n\n","document":{"$oid":"60c8d4ba7723bebd866ad3d7"},"refKey":86},
{"_key":"60c8d51b7723bebd866ad415","_id":"references/60c8d51b7723bebd866ad415","_rev":"_cfFmTi6---","tei":"\n\t\n\t\tNMRPipe-a multidimensional spectral processing system based on Unix pipes\n\t\t\n\t\t\tFDelaglio\n\t\t\n\t\t\n\t\t\tSGrzesiek\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d51b7723bebd866ad414"},"refKey":7},
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{"_key":"60c8d51b7723bebd866ad417","_id":"references/60c8d51b7723bebd866ad417","_rev":"_cfFmTjS---","tei":"\n\t\n\t\tNMRView-a computer-program for the visualization and analysis of NMR data\n\t\t\n\t\t\tBAJohnson\n\t\t\n\t\t\n\t\t\tRABlevins\n\t\t\n\t\n\t\n\t\tJ Biomol NMR\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d51b7723bebd866ad414"},"refKey":14},
{"_key":"60c8d53d7723bebd866ad426","_id":"references/60c8d53d7723bebd866ad426","_rev":"_cfFmTje---","tei":"\n\t\n\t\tRapid and accurate haplotype phasing and missing-data inference for wholegenome association studies by use of localized haplotype clustering\n\t\t\n\t\t\tSRBrowning\n\t\t\n\t\t\n\t\t\tBLBrowning\n\t\t\n\t\n\t\n\t\tAm. J. Hum. Genet\n\t\t\n\t\t\t81\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d53d7723bebd866ad425"},"refKey":40},
{"_key":"60c8d53d7723bebd866ad427","_id":"references/60c8d53d7723bebd866ad427","_rev":"_cfFmTjq---","tei":"\n\t\n\t\tA community-maintained standard library of population genetic models\n\t\t\n\t\t\tJRAdrion\n\t\t\n\t\t\n\t\t\tCBCole\n\t\t\n\t\t\n\t\t\tNDukler\n\t\t\n\t\t\n\t\t\tJGGalloway\n\t\t\n\t\t\n\t\t\tALGladstein\n\t\t\n\t\t\n\t\t\tGGower\n\t\t\n\t\t\n\t\t\tCCKyriazis\n\t\t\n\t\t\n\t\t\tAPRagsdale\n\t\t\n\t\t\n\t\t\tGTsambos\n\t\t\n\t\t\n\t\t\tFBaumdicker\n\t\t\n\t\t\n\t\t\t\n\t\t\t9\n\t\t\te54967\n\t\t\n\t\n\n","document":{"$oid":"60c8d53d7723bebd866ad425"},"refKey":48},
{"_key":"60c8d53d7723bebd866ad428","_id":"references/60c8d53d7723bebd866ad428","_rev":"_cfFmTjy---","tei":"\n\t\n\t\tA fast and simple method for detecting identity by descent segments in large-scale data\n\t\t\n\t\t\tYZhou\n\t\t\n\t\t\n\t\t\tSRBrowning\n\t\t\n\t\t\n\t\t\tBLBrowning\n\t\t\n\t\n\t\n\t\tAm. J. Hum. Genet\n\t\t\n\t\t\t106\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d53d7723bebd866ad425"},"refKey":35},
{"_key":"60c8d54c7723bebd866ad43c","_id":"references/60c8d54c7723bebd866ad43c","_rev":"_cfFmTk----","tei":"\n\t\n\t\tAutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility\n\t\t\n\t\t\tGarrettMMorris\n\t\t\n\t\t\n\t\t\tRuthHuey\n\t\t\n\t\t\n\t\t\tWilliamLindstrom\n\t\t\n\t\t\n\t\t\tMichelFSanner\n\t\t\n\t\t\n\t\t\tRichardKBelew\n\t\t\n\t\t\n\t\t\tDavidSGoodsell\n\t\t\n\t\t\n\t\t\tArthurJOlson\n\t\t\n\t\t10.1002/jcc.21256\n\t\t19399780\n\t\tPMC2760638\n\t\tark:/67375/WNG-6ZSR67R7-3\n\t\t775A7298E971DC0C81CE8CD659D4D80B2457569A\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t30\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8d54c7723bebd866ad43b"},"refKey":45},
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{"_key":"60c8d5827723bebd866ad481","_id":"references/60c8d5827723bebd866ad481","_rev":"_cfFmTlO---","tei":"\n\t\n\t\tNIH image to ImageJ: 25 years of image analysis\n\t\t\n\t\t\tCASchneider\n\t\t\n\t\t\n\t\t\tWSRasband\n\t\t\n\t\t\n\t\t\tKWEliceiri\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d5827723bebd866ad480"},"refKey":32},
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{"_key":"60c8d5827723bebd866ad483","_id":"references/60c8d5827723bebd866ad483","_rev":"_cfFmTlm---","tei":"\n\t\n\t\tSystematic and integrative analysis of large gene lists using DAVID bioinformatics resources\n\t\t\n\t\t\tWHuang\n\t\t\n\t\t\n\t\t\tBTSherman\n\t\t\n\t\t\n\t\t\tRALempicki\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d5827723bebd866ad480"},"refKey":49},
{"_key":"60c8d5937723bebd866ad48a","_id":"references/60c8d5937723bebd866ad48a","_rev":"_cfFmTly---","tei":"\n\t\n\t\tRestoring Low Resolution Structure of Biological Macromolecules from Solution Scattering Using Simulated Annealing\n\t\t\n\t\t\tDISvergun\n\t\t\n\t\t10.1016/s0006-3495(99)77443-6\n\t\t10354416\n\t\tPMC1300260\n\t\tS0006-3495(99)77443-6\n\t\tark:/67375/6H6-RRXGT91N-N\n\t\t546AB47AC3E005C9E7AE83AB6F1D439C0CD34DFB\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t76\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8d5937723bebd866ad489"},"refKey":60},
{"_key":"60c8d5937723bebd866ad48b","_id":"references/60c8d5937723bebd866ad48b","_rev":"_cfFmTm----","tei":"\n\t\n\t\tDetermination of Domain Structure of Proteins from X-Ray Solution Scattering\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t\n\t\t\tMaximVPetoukhov\n\t\t\n\t\t\n\t\t\tMichelH JKoch\n\t\t\n\t\t10.1016/s0006-3495(01)76260-1\n\t\t11371467\n\t\tPMC1301478\n\t\tS0006-3495(01)76260-1\n\t\tark:/67375/6H6-JQGZ6SXR-Z\n\t\t99BFE1840BF24A9F6639CC29E8DC695D44987424\n\t\t\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t80\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8d5937723bebd866ad489"},"refKey":63},
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{"_key":"60c8d5937723bebd866ad48d","_id":"references/60c8d5937723bebd866ad48d","_rev":"_cfFmTmW---","tei":"\n\t\n\t\tAddition of Missing Loops and Domains to Protein Models by X-Ray Solution Scattering\n\t\t\n\t\t\tMaximVPetoukhov\n\t\t\n\t\t\n\t\t\tNigelA JEady\n\t\t\n\t\t\n\t\t\tKatherineABrown\n\t\t\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t10.1016/s0006-3495(02)75315-0\n\t\t12496082\n\t\tPMC1302390\n\t\n\t\n\t\tBiophysical Journal\n\t\tBiophysical Journal\n\t\t0006-3495\n\t\t\n\t\t\t83\n\t\t\t6\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8d5937723bebd866ad489"},"refKey":47},
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{"_key":"60c8d5b27723bebd866ad4bf","_id":"references/60c8d5b27723bebd866ad4bf","_rev":"_cfFmTny---","tei":"\n\t\n\t\tThe metagenomics RAST server-a public resource for the automatic phylogenetic and functional analysis of metagenomes\n\t\t\n\t\t\tFMeyer\n\t\t\n\t\t\n\t\t\tDPaarmann\n\t\t\n\t\t\n\t\t\tD'Souza\n\t\t\n\t\t\n\t\t\tM\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\t\n\t\t\t9\n\t\t\t386\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d5b27723bebd866ad4bb"},"refKey":76},
{"_key":"60c8d5b27723bebd866ad4c0","_id":"references/60c8d5b27723bebd866ad4c0","_rev":"_cfFmTo----","tei":"\n\t\n\t\tSpecies-level functional profiling of metagenomes and metatranscriptomes\n\t\t\n\t\t\tEAFranzosa\n\t\t\n\t\t\n\t\t\tLJMciver\n\t\t\n\t\t\n\t\t\tGRahnavard\n\t\t\n\t\n\t\n\t\tNat Methods\n\t\t\n\t\t\t15\n\t\t\t962\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d5b27723bebd866ad4bb"},"refKey":77},
{"_key":"60c8d5c47723bebd866ad4d7","_id":"references/60c8d5c47723bebd866ad4d7","_rev":"_cfFmToK---","tei":"\n\t\n\t\tPredictive functional profiling of microbial communities using 16S rRNA marker gene sequences\n\t\t\n\t\t\tMgiLangille\n\t\t\n\t\t\n\t\t\tJZaneveld\n\t\t\n\t\t\n\t\t\tJGCaporaso\n\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d5c47723bebd866ad4d6"},"refKey":43},
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{"_key":"60c8d5fd7723bebd866ad4f2","_id":"references/60c8d5fd7723bebd866ad4f2","_rev":"_cfFmToe---","tei":"\n\t\n\t\tThe PyMOL Molecular Graphics System\n\t\t\n\t\t\tWLDelano\n\t\t\n\t\t\n\t\t\t\n\t\t\tDeLano Scientific\n\t\t\tSan Carlos, CA, USA\n\t\t\n\t\n\n","document":{"$oid":"60c8d5fd7723bebd866ad4f1"},"refKey":61},
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{"_key":"60c8d6357723bebd866ad51b","_id":"references/60c8d6357723bebd866ad51b","_rev":"_cfFmTpC---","tei":"\n\t\n\t\tFull-length transcriptome assembly from RNA-Seq data without a reference genome\n\t\t\n\t\t\tManfredGGrabherr\n\t\t\n\t\t\n\t\t\tBrianJHaas\n\t\t\n\t\t\n\t\t\tMoranYassour\n\t\t\n\t\t\n\t\t\tJoshuaZLevin\n\t\t\n\t\t\n\t\t\tDawnAThompson\n\t\t\n\t\t\n\t\t\tIdoAmit\n\t\t\n\t\t\n\t\t\tXianAdiconis\n\t\t\n\t\t\n\t\t\tLinFan\n\t\t\n\t\t\n\t\t\tRaktimaRaychowdhury\n\t\t\n\t\t\n\t\t\tQiandongZeng\n\t\t\n\t\t\n\t\t\tZehuaChen\n\t\t\n\t\t\n\t\t\tEvanMauceli\n\t\t\n\t\t\n\t\t\tNirHacohen\n\t\t\n\t\t\n\t\t\tAndreasGnirke\n\t\t\n\t\t\n\t\t\tNicholasRhind\n\t\t\n\t\t\n\t\t\tFedericaDi Palma\n\t\t\n\t\t\n\t\t\tBruceWBirren\n\t\t\n\t\t\n\t\t\tChadNusbaum\n\t\t\n\t\t\n\t\t\tKerstinLindblad-Toh\n\t\t\n\t\t\n\t\t\tNirFriedman\n\t\t\n\t\t\n\t\t\tAvivRegev\n\t\t\n\t\t10.1038/nbt.1883\n\t\t21572440\n\t\tPMC3571712\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t29\n\t\t\t7\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8d6357723bebd866ad519"},"refKey":27},
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{"_key":"60c8d6357723bebd866ad51d","_id":"references/60c8d6357723bebd866ad51d","_rev":"_cfFmTpa---","tei":"\n\t\n\t\t\n\t\t\tRDevelopment Core\n\t\t\n\t\t\n\t\t\tTeam\n\t\t\n\t\tR: A Language and Environment for Statistical Computing; R Foundation for Statistical Computing\n\t\t\t\tVienna, Austria\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8d6357723bebd866ad519"},"refKey":34},
{"_key":"60c8d6717723bebd866ad55b","_id":"references/60c8d6717723bebd866ad55b","_rev":"_cfFmTpm---","tei":"\n\t\n\t\tThe Amber biomolecular simulation programs\n\t\t\n\t\t\tDavidACase\n\t\t\n\t\t\n\t\t\tThomasECheatham\n\t\t\n\t\t\n\t\t\tTomDarden\n\t\t\n\t\t\n\t\t\tHolgerGohlke\n\t\t\n\t\t\n\t\t\tRayLuo\n\t\t\n\t\t\n\t\t\tKennethMMerz\n\t\t\n\t\t\n\t\t\tAlexeyOnufriev\n\t\t\n\t\t\n\t\t\tCarlosSimmerling\n\t\t\n\t\t\n\t\t\tBingWang\n\t\t\n\t\t\n\t\t\tRobertJWoods\n\t\t\n\t\t10.1002/jcc.20290\n\t\t16200636\n\t\tPMC1989667\n\t\tark:/67375/WNG-SM7M10M5-T\n\t\t96193A43CE477101A1574AF2E58893F449F4F999\n\t\t\n\t\n\t\n\t\tJournal of Computational Chemistry\n\t\tJ. Comput. Chem.\n\t\t0192-8651\n\t\t1096-987X\n\t\t\n\t\t\t26\n\t\t\t16\n\t\t\t\n\t\t\t\n\t\t\tWiley\n\t\t\n\t\n\n","document":{"$oid":"60c8d6717723bebd866ad55a"},"refKey":49},
{"_key":"60c8d6a57723bebd866ad574","_id":"references/60c8d6a57723bebd866ad574","_rev":"_cfFmTpy---","tei":"\n\t\n\t\tRapid implementation of a SARS-CoV-2 diagnostic qRT-PCR test with emergency use authorization at a large academic safety-net hospital\n\t\t\n\t\t\tKVanuytsel\n\t\t\n\t\t\n\t\t\tAMithal\n\t\t\n\t\t\n\t\t\tRMGiadone\n\t\t\n\t\t\n\t\t\tAKYeung\n\t\t\n\t\t\n\t\t\tTMMatte\n\t\t\n\t\t\n\t\t\tTWDowrey\n\t\t\n\t\t\n\t\t\tRBWerder\n\t\t\n\t\t\n\t\t\tGJMiller\n\t\t\n\t\t\n\t\t\tNSMiller\n\t\t\n\t\t\n\t\t\tCDAndry\n\t\t\n\t\t\n\t\t\tGJMurphy\n\t\t\n\t\t\n\t\t\t\n\t\t\t3\n\t\t\n\t\n\n","document":{"$oid":"60c8d6a57723bebd866ad573"},"refKey":20},
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{"_key":"60c8dad47723bebd866ad939","_id":"references/60c8dad47723bebd866ad939","_rev":"_cfFmT2W---","tei":"\n\t\n\t\tAn improved dual-indexing approach for multiplexed 16S rRNA gene sequencing on the Illumina MiSeq platform\n\t\t\n\t\t\tRc ; DoEdgar\n\t\t\n\t\t\n\t\t\tDWFadrosh\n\t\t\n\t\t\n\t\t\tBMa\n\t\t\n\t\t\n\t\t\tPGajer\n\t\t\n\t\t\n\t\t\tNSengamalay\n\t\t\n\t\t\n\t\t\tSOtt\n\t\t\n\t\t\n\t\t\tRMBrotman\n\t\t\n\t\t\n\t\t\tJRavel\n\t\t\n\t\t10.1186/2049-2618-2-6\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t26\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tSearch and clustering orders of magnitude faster than BLAST\n\n","document":{"$oid":"60c8dad47723bebd866ad938"},"refKey":18},
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{"_key":"60c8db1a7723bebd866ad96c","_id":"references/60c8db1a7723bebd866ad96c","_rev":"_cfFmT3G---","tei":"\n\t\n\t\tclusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters\n\t\t\n\t\t\tGuangchuangYu\n\t\t\n\t\t\n\t\t\tLi-GenWang\n\t\t\n\t\t\n\t\t\tYanyanHan\n\t\t\n\t\t\n\t\t\tQing-YuHe\n\t\t\n\t\t10.1089/omi.2011.0118\n\t\t22455463\n\t\tPMC3339379\n\t\t\n\t\t\n\t\n\t\n\t\tOMICS: A Journal of Integrative Biology\n\t\tOMICS: A Journal of Integrative Biology\n\t\t1536-2310\n\t\t1557-8100\n\t\t\n\t\t\t16\n\t\t\t5\n\t\t\t\n\t\t\t\n\t\t\tMary Ann Liebert Inc\n\t\t\n\t\n\n","document":{"$oid":"60c8db1a7723bebd866ad96a"},"refKey":17},
{"_key":"60c8db2f7723bebd866ad983","_id":"references/60c8db2f7723bebd866ad983","_rev":"_cfFmT3S---","tei":"\n\t\n\t\tAssembly of 913 microbial genomes from metagenomic sequencing of the cow rumen\n\t\t\n\t\t\tRDStewart\n\t\t\n\t\t\n\t\t\tMDAuffret\n\t\t\n\t\t\n\t\t\tAWarr\n\t\t\n\t\t\n\t\t\tAHWiser\n\t\t\n\t\t\n\t\t\tMOPress\n\t\t\n\t\t\n\t\t\tKWLangford\n\t\t\n\t\t\n\t\t\tILiachko\n\t\t\n\t\t\n\t\t\tTJSnelling\n\t\t\n\t\t\n\t\t\tRJDewhurst\n\t\t\n\t\t\n\t\t\tAWWalker\n\t\t\n\t\n\t\n\t\tNature communications\n\t\t\n\t\t\t9\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8db2f7723bebd866ad982"},"refKey":49},
{"_key":"60c8db2f7723bebd866ad984","_id":"references/60c8db2f7723bebd866ad984","_rev":"_cfFmT3e---","tei":"\n\t\n\t\tUsing the Metagenomics RAST Server (MG-RAST) for Analyzing Shotgun Metagenomes\n\t\t\n\t\t\tEMGlass\n\t\t\n\t\t\n\t\t\tJWilkening\n\t\t\n\t\t\n\t\t\tAWilke\n\t\t\n\t\t\n\t\t\tDAntonopoulos\n\t\t\n\t\t\n\t\t\tFMeyer\n\t\t\n\t\t10.1101/pdb.prot5368\n\t\t20150127\n\t\t\n\t\n\t\n\t\tCold Spring Harbor Protocols\n\t\tCold Spring Harbor Protocols\n\t\t1559-6095\n\t\t\n\t\t\t2010\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tpdb. prot5368\n\n","document":{"$oid":"60c8db2f7723bebd866ad982"},"refKey":11},
{"_key":"60c8db307723bebd866ad98e","_id":"references/60c8db307723bebd866ad98e","_rev":"_cfFmT3q---","tei":"\n\t\n\t\tPyPPM: A proton precession magnetometer for all\n\t\t\n\t\t\tBWorley\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8db307723bebd866ad98d"},"refKey":20},
{"_key":"60c8db457723bebd866ad99a","_id":"references/60c8db457723bebd866ad99a","_rev":"_cfFmT32---","tei":"\n\t\n\t\tOpen Babel: An open chemical toolbox\n\t\t\n\t\t\tNMO'boyle\n\t\t\n\t\t\n\t\t\tMBanck\n\t\t\n\t\t\n\t\t\tCAJames\n\t\t\n\t\t\n\t\t\tCMorley\n\t\t\n\t\t\n\t\t\tTVandermeersch\n\t\t\n\t\t\n\t\t\tGRHutchison\n\t\t\n\t\n\t\n\t\tJ Cheminform\n\t\t\n\t\t\t3\n\t\t\t33\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8db457723bebd866ad999"},"refKey":27},
{"_key":"60c8db5b7723bebd866ad9b1","_id":"references/60c8db5b7723bebd866ad9b1","_rev":"_cfFmT4G---","tei":"\n\t\n\t\tGROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers\n\t\t\n\t\t\tMJAbraham\n\t\t\n\t\t\n\t\t\tTMurtola\n\t\t\n\t\t\n\t\t\tRSchulz\n\t\t\n\t\t\n\t\t\tSPáll\n\t\t\n\t\t\n\t\t\tJCSmith\n\t\t\n\t\t\n\t\t\tBHess\n\t\t\n\t\t\n\t\t\tELindahl\n\t\t\n\t\n\t\n\t\tSoftwareX\n\t\t\n\t\t\t1\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8db5b7723bebd866ad9b0"},"refKey":69},
{"_key":"60c8db5b7723bebd866ad9b2","_id":"references/60c8db5b7723bebd866ad9b2","_rev":"_cfFmT4S---","tei":"\n\t\n\t\tFast parallel algorithms for short-range molecular dynamics\n\t\t\n\t\t\tSPlimpton\n\t\t\n\t\t10.2172/10176421\n\t\t\n\t\n\t\n\t\tJ. Comput. Phys\n\t\t\n\t\t\t117\n\t\t\t1\n\t\t\t\n\t\t\t\n\t\t\tOffice of Scientific and Technical Information (OSTI)\n\t\t\n\t\n\n","document":{"$oid":"60c8db5b7723bebd866ad9b0"},"refKey":70},
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{"_key":"60c8db5e7723bebd866ad9c0","_id":"references/60c8db5e7723bebd866ad9c0","_rev":"_cfFmT4q---","tei":"\n\t\n\t\tNextstrain: real-time tracking of pathogen evolution\n\t\t\n\t\t\tJamesHadfield\n\t\t\n\t\t\n\t\t\tColinMegill\n\t\t\n\t\t\n\t\t\tSidneyMBell\n\t\t\n\t\t\n\t\t\tJohnHuddleston\n\t\t\n\t\t\n\t\t\tBarneyPotter\n\t\t\n\t\t\n\t\t\tCharltonCallender\n\t\t\n\t\t\n\t\t\tPavelSagulenko\n\t\t\n\t\t\n\t\t\tTrevorBedford\n\t\t\n\t\t\n\t\t\tRichardANeher\n\t\t\n\t\t10.1101/224048\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t34\n\t\t\t23\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8db5e7723bebd866ad9be"},"refKey":17},
{"_key":"60c8db5e7723bebd866ad9c1","_id":"references/60c8db5e7723bebd866ad9c1","_rev":"_cfFmT42---","tei":"\n\t\n\t\tGenoSurf: metadata driven semantic search system for integrated genomic datasets\n\t\t\n\t\t\tACanakoglu\n\t\t\n\t\t\n\t\t\tABernasconi\n\t\t\n\t\n\t\n\t\tDatabase\n\t\t\n\t\t\t2019\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8db5e7723bebd866ad9be"},"refKey":7},
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{"_key":"60c8db9f7723bebd866ad9fd","_id":"references/60c8db9f7723bebd866ad9fd","_rev":"_cfFmT5a---","tei":"\n\t\n\t\tThe HADDOCK2.2 Web Server: User-Friendly Integrative Modeling of Biomolecular Complexes\n\t\t\n\t\t\tGC PVan Zundert\n\t\t\n\t\t\n\t\t\tJP G L MRodrigues\n\t\t\n\t\t\n\t\t\tMTrellet\n\t\t\n\t\t\n\t\t\tCSchmitz\n\t\t\n\t\t\n\t\t\tPLKastritis\n\t\t\n\t\t\n\t\t\tEKaraca\n\t\t\n\t\t\n\t\t\tAS JMelquiond\n\t\t\n\t\t\n\t\t\tMVan Dijk\n\t\t\n\t\t\n\t\t\tSJDe Vries\n\t\t\n\t\t\n\t\t\tAM J JBonvin\n\t\t\n\t\t10.1016/j.jmb.2015.09.014\n\t\t26410586\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t428\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8db9f7723bebd866ad9fb"},"refKey":11},
{"_key":"60c8db9f7723bebd866ad9fe","_id":"references/60c8db9f7723bebd866ad9fe","_rev":"_cfFmT5m---","tei":"\n\t\n\t\tWeNMR: Structural Biology on the Grid\n\t\t\n\t\t\tTsjerkAWassenaar\n\t\t\n\t\t\n\t\t\tMarcVan Dijk\n\t\t\n\t\t\n\t\t\tNunoLoureiro-Ferreira\n\t\t\n\t\t\n\t\t\tGijsVan Der Schot\n\t\t\n\t\t\n\t\t\tSjoerdJDe Vries\n\t\t\n\t\t\n\t\t\tChristopheSchmitz\n\t\t\n\t\t\n\t\t\tJohanVan Der Zwan\n\t\t\n\t\t\n\t\t\tRolfBoelens\n\t\t\n\t\t\n\t\t\tAndreaGiachetti\n\t\t\n\t\t\n\t\t\tLucioFerella\n\t\t\n\t\t\n\t\t\tAntonioRosato\n\t\t\n\t\t\n\t\t\tIvanoBertini\n\t\t\n\t\t\n\t\t\tTorstenHerrmann\n\t\t\n\t\t\n\t\t\tHendrikR AJonker\n\t\t\n\t\t\n\t\t\tAnuragBagaria\n\t\t\n\t\t\n\t\t\tVictorJaravine\n\t\t\n\t\t\n\t\t\tPeterGüntert\n\t\t\n\t\t\n\t\t\tHaraldSchwalbe\n\t\t\n\t\t\n\t\t\tWimFVranken\n\t\t\n\t\t\n\t\t\tJurgenFDoreleijers\n\t\t\n\t\t\n\t\t\tGertVriend\n\t\t\n\t\t\n\t\t\tGeertenWVuister\n\t\t\n\t\t\n\t\t\tDanielFranke\n\t\t\n\t\t\n\t\t\tAlexeyKikhney\n\t\t\n\t\t\n\t\t\tDmitriISvergun\n\t\t\n\t\t\n\t\t\tRasmusHFogh\n\t\t\n\t\t\n\t\t\tJohnIonides\n\t\t\n\t\t\n\t\t\tErnestDLaue\n\t\t\n\t\t\n\t\t\tChrisSpronk\n\t\t\n\t\t\n\t\t\tSimonasJurkša\n\t\t\n\t\t\n\t\t\tMarcoVerlato\n\t\t\n\t\t\n\t\t\tSimoneBadoer\n\t\t\n\t\t\n\t\t\tStefanoDal Pra\n\t\t\n\t\t\n\t\t\tMircoMazzucato\n\t\t\n\t\t\n\t\t\tEricFrizziero\n\t\t\n\t\t\n\t\t\tAlexandreM J JBonvin\n\t\t\n\t\t10.1007/s10723-012-9246-z\n\t\tark:/67375/VQC-0VS1Z204-H\n\t\t12E5BE74FACC17A2DC2CE2FCB97970E3563B35C6\n\t\t\n\t\n\t\n\t\tJournal of Grid Computing\n\t\tJ Grid Computing\n\t\t1570-7873\n\t\t1572-9184\n\t\t\n\t\t\t10\n\t\t\t4\n\t\t\t\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8db9f7723bebd866ad9fb"},"refKey":12},
{"_key":"60c8dbb37723bebd866ada13","_id":"references/60c8dbb37723bebd866ada13","_rev":"_cfFmT5y---","tei":"\n\t\n\t\tSelective 2'-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) for direct, versatile and accurate RNA structure analysis\n\t\t\n\t\t\tMJSmola\n\t\t\n\t\t\n\t\t\tGMRice\n\t\t\n\t\t\n\t\t\tSBusan\n\t\t\n\t\t\n\t\t\tNASiegfried\n\t\t\n\t\t\n\t\t\tKMWeeks\n\t\t\n\t\n\t\n\t\tNat Protoc\n\t\t\n\t\t\t10\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8dbb37723bebd866ada12"},"refKey":40},
{"_key":"60c8dbb37723bebd866ada14","_id":"references/60c8dbb37723bebd866ada14","_rev":"_cfFmT6----","tei":"\n\t\n\t\tViennaRNA Package 2.0\n\t\t\n\t\t\tRLorenz\n\t\t\n\t\t\n\t\t\tSHBernhart\n\t\t\n\t\t\n\t\t\tHonerZu Siederdissen\n\t\t\n\t\t\n\t\t\tCTafer\n\t\t\n\t\t\n\t\t\tHFlamm\n\t\t\n\t\t\n\t\t\tCStadler\n\t\t\n\t\t\n\t\t\tPFHofacker\n\t\t\n\t\t\n\t\t\tIL\n\t\t\n\t\n\t\n\t\tAlgorithms Mol Biol\n\t\t\n\t\t\t6\n\t\t\t26\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8dbb37723bebd866ada12"},"refKey":21},
{"_key":"60c8dbb37723bebd866ada15","_id":"references/60c8dbb37723bebd866ada15","_rev":"_cfFmT6K---","tei":"\n\t\n\t\tMapping the RNA structural landscape of viral genomes\n\t\t\n\t\t\tRJAndrews\n\t\t\n\t\t\n\t\t\tLBaber\n\t\t\n\t\t\n\t\t\tWNMoss\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8dbb37723bebd866ada12"},"refKey":1},
{"_key":"60c8dbcd7723bebd866ada38","_id":"references/60c8dbcd7723bebd866ada38","_rev":"_cfFmT6W---","tei":"\n\t\n\t\tCrowdsourcing Linked Data Quality Assessment\n\t\t\n\t\t\tMaribelAcosta\n\t\t\n\t\t\n\t\t\tAmrapaliZaveri\n\t\t\n\t\t\n\t\t\tElenaSimperl\n\t\t\n\t\t\n\t\t\tDimitrisKontokostas\n\t\t\n\t\t\n\t\t\tSörenAuer\n\t\t\n\t\t\n\t\t\tJensLehmann\n\t\t\n\t\t10.1007/978-3-642-41338-4_17\n\t\tark:/67375/HCB-L7BV0HRH-8\n\t\t7E5F01ECD91834B49DCE280B1EDA70C504F90C5F\n\t\t\n\t\t\n\t\n\t\n\t\tAdvanced Information Systems Engineering\n\t\t\t\t\n\t\t\tHAlani\n\t\t\n\t\tHeidelberg\n\t\t\n\t\t\tSpringer Berlin Heidelberg\n\t\t\t\n\t\t\t8219\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8dbcd7723bebd866ada37"},"refKey":0},
{"_key":"60c8dbce7723bebd866ada47","_id":"references/60c8dbce7723bebd866ada47","_rev":"_cfFmT6i---","tei":"\n\t\n\t\tResolving single-cell heterogeneity from hundreds of thousands of cells through sequential hybrid clustering and NMF\n\t\t\n\t\t\tMeenakshiVenkatasubramanian\n\t\t\n\t\t\n\t\t\tKashishChetal\n\t\t\n\t\t\n\t\t\tGowthamAtluri\n\t\t\n\t\t\n\t\t\tNathanSalomonis\n\t\t\t0000-0001-9689-2469\n\t\t\n\t\t10.1101/608869\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t36\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\tPubMed\n\n","document":{"$oid":"60c8dbce7723bebd866ada46"},"refKey":30},
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{"_key":"60c8dd267723bebd866adb51","_id":"references/60c8dd267723bebd866adb51","_rev":"_cfFmU_a---","tei":"\n\t\n\t\tApproximate Bayesian inference for latent Gaussian models using integrated nested Laplace approximations\n\t\t\n\t\t\tHRue\n\t\t\n\t\t\n\t\t\tSMartino\n\t\t\n\t\t\n\t\t\tNChopin\n\t\t\n\t\n\t\n\t\tJ R Stat Soc B\n\t\t\n\t\t\t71\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8dd267723bebd866adb50"},"refKey":77},
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{"_key":"60c8dd337723bebd866adb55","_id":"references/60c8dd337723bebd866adb55","_rev":"_cfFmU_u---","tei":"\n\t\n\t\tInterhuman transmissibility of Middle East respiratory syndrome coronavirus: estimation of pandemic risk\n\t\t\n\t\t\tRR Core Team ; Breban\n\t\t\n\t\t\n\t\t\tJRiou\n\t\t\n\t\t\n\t\t\tAFontanet\n\t\t\n\t\t23831141\n\t\t\n\t\n\t\n\t\tLancet\n\t\t\n\t\t\t382\n\t\t\t9893\n\t\t\t\n\t\t\t\n\t\t\n\t\n\tR: A language and environment for statistical computing\n\n","document":{"$oid":"60c8dd337723bebd866adb54"},"refKey":10},
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{"_key":"60c8dd5f7723bebd866adb78","_id":"references/60c8dd5f7723bebd866adb78","_rev":"_cfFmUAG---","tei":"\n\t\n\t\tSearch and clustering orders of magnitude faster than BLAST\n\t\t\n\t\t\tRobertCEdgar\n\t\t\n\t\t10.1093/bioinformatics/btq461\n\t\t20709691\n\t\tark:/67375/HXZ-GJV3Q6N3-6\n\t\tE899EDEA476A0A93BC2365EEC6AA3B7EEEC99891\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t1367-4803\n\t\t1460-2059\n\t\t\n\t\t\t26\n\t\t\t19\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8dd5f7723bebd866adb76"},"refKey":12},
{"_key":"60c8dd5f7723bebd866adb79","_id":"references/60c8dd5f7723bebd866adb79","_rev":"_cfFmUAS---","tei":"\n\t\n\t\tVegan: Community Ecology Package. R Package Version 2.2-1\n\t\t\n\t\t\tJOksanen\n\t\t\n\t\t\n\t\t\tFGBlanchet\n\t\t\n\t\t\n\t\t\tRKindt\n\t\t\n\t\t\n\t\t\tPLegendre\n\t\t\n\t\t\n\t\t\tPRMinchin\n\t\t\n\t\t\n\t\t\tRBO'hara\n\t\t\n\t\t\n\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8dd5f7723bebd866adb76"},"refKey":32},
{"_key":"60c8dd5f7723bebd866adb7a","_id":"references/60c8dd5f7723bebd866adb7a","_rev":"_cfFmUAe---","tei":"\n\t\n\t\tFastTree 2 -approximately maximum-likelihood trees for large alignments\n\t\t\n\t\t\tMNPrice\n\t\t\n\t\t\n\t\t\tPSDehal\n\t\t\n\t\t\n\t\t\tAPArkin\n\t\t\n\t\t10.1371/journal.pone.0009490.s003\n\t\n\t\n\t\tPLoS ONE\n\t\t\n\t\t\t5\n\t\t\te9490\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8dd5f7723bebd866adb76"},"refKey":34},
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{"_key":"60c8ddb37723bebd866adbb8","_id":"references/60c8ddb37723bebd866adbb8","_rev":"_cfFmUAy---","tei":"\n\t\n\t\tR Foundation for Statistical Computing. R: A language and environment for statistical computing\n\t\t\t\t\n\t\n\n","document":{"$oid":"60c8ddb37723bebd866adbb7"},"refKey":7},
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{"_key":"60c8ddc37723bebd866adbc0","_id":"references/60c8ddc37723bebd866adbc0","_rev":"_cfFmUBK---","tei":"\n\t\n\t\tSemi-automated screening of biomedical citations for systematic reviews\n\t\t\n\t\t\tByronCWallace\n\t\t\n\t\t\n\t\t\tThomasATrikalinos\n\t\t\n\t\t\n\t\t\tJosephLau\n\t\t\n\t\t\n\t\t\tCarlaBrodley\n\t\t\n\t\t\n\t\t\tChristopherHSchmid\n\t\t\n\t\t10.1186/1471-2105-11-55\n\t\t20102628\n\t\tPMC2824679\n\t\t\n\t\n\t\n\t\tBMC Bioinformatics\n\t\tBMC Bioinformatics\n\t\t1471-2105\n\t\t\n\t\t\t11\n\t\t\t1\n\t\t\t55\n\t\t\t\n\t\t\tSpringer Nature\n\t\t\n\t\n\n","document":{"$oid":"60c8ddc37723bebd866adbbe"},"refKey":21},
{"_key":"60c8ddc37723bebd866adbc1","_id":"references/60c8ddc37723bebd866adbc1","_rev":"_cfFmUBW---","tei":"\n\t\n\t\tDeploying an interactive machine learning system in an evidencebased practice center: abstrackr\n\t\t\n\t\t\tBCWallace\n\t\t\n\t\t\n\t\t\tKSmall\n\t\t\n\t\t\n\t\t\tCEBrodley\n\t\t\n\t\t\n\t\t\tJLau\n\t\t\n\t\t\n\t\t\tTATrikalinos\n\t\t\n\t\n\t\n\t\tProceedings of the 2nd ACM SIGHIT international health informatics symposium\n\t\t\t\tthe 2nd ACM SIGHIT international health informatics symposiumMiami\n\t\t\n\t\t\tAssociation for Computing Machinery\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8ddc37723bebd866adbbe"},"refKey":22},
{"_key":"60c8de077723bebd866adbf6","_id":"references/60c8de077723bebd866adbf6","_rev":"_cfFmUBi---","tei":"\n\t\n\t\tSIMCOMP/SUBCOMP: chemical structure search servers for network analyses\n\t\t\n\t\t\tMHattori\n\t\t\n\t\t\n\t\t\tNTanaka\n\t\t\n\t\t\n\t\t\tMKanehisa\n\t\t\n\t\t\n\t\t\tSGoto\n\t\t\n\t\t10.1093/nar/gkq367\n\t\t20460463\n\t\tPMC2896122\n\t\t\n\t\n\t\n\t\tNucleic Acids Research\n\t\tNucleic Acids Research\n\t\t0305-1048\n\t\t1362-4962\n\t\t\n\t\t\t38\n\t\t\tWeb Server\n\t\t\t\n\t\t\t\n\t\t\tOxford University Press (OUP)\n\t\t\n\t\n\n","document":{"$oid":"60c8de077723bebd866adbf5"},"refKey":3},
{"_key":"60c8de1a7723bebd866adc05","_id":"references/60c8de1a7723bebd866adc05","_rev":"_cfFmUBu---","tei":"\n\t\n\t\tErratum: Near-optimal probabilistic RNA-seq quantification\n\t\t\n\t\t\tNicolasLBray\n\t\t\n\t\t\n\t\t\tHaroldPimentel\n\t\t\n\t\t\n\t\t\tPállMelsted\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\n\t\t10.1038/nbt0816-888d\n\t\t27504780\n\t\t\n\t\n\t\n\t\tNature Biotechnology\n\t\tNat Biotechnol\n\t\t1087-0156\n\t\t1546-1696\n\t\t\n\t\t\t34\n\t\t\t8\n\t\t\t\n\t\t\t\n\t\t\tSpringer Science and Business Media LLC\n\t\t\n\t\n\n","document":{"$oid":"60c8de1a7723bebd866adc04"},"refKey":10},
{"_key":"60c8de1a7723bebd866adc06","_id":"references/60c8de1a7723bebd866adc06","_rev":"_cfFmUB2---","tei":"\n\t\n\t\tThe Barcode, UMI, Set format and BUStools\n\t\t\n\t\t\tPállMelsted\n\t\t\t0000-0002-8418-6724\n\t\t\n\t\t\n\t\t\tVasilisNtranos\n\t\t\t0000-0002-2477-0670\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\t0000-0002-9164-6231\n\t\t\n\t\t10.1101/472571\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t35\n\t\t\t\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8de1a7723bebd866adc04"},"refKey":11},
{"_key":"60c8de1a7723bebd866adc07","_id":"references/60c8de1a7723bebd866adc07","_rev":"_cfFmUCC---","tei":"\n\t\n\t\tModular and efficient pre-processing of single-cell RNA-seq\n\t\t\n\t\t\tPállMelsted\n\t\t\t0000-0002-8418-6724\n\t\t\n\t\t\n\t\t\tASinaBooeshaghi\n\t\t\t0000-0002-6442-4502\n\t\t\n\t\t\n\t\t\tFanGao\n\t\t\n\t\t\n\t\t\tEduardoBeltrame\n\t\t\t0000-0002-1529-9207\n\t\t\n\t\t\n\t\t\tLambdaLu\n\t\t\t0000-0002-7092-9427\n\t\t\n\t\t\n\t\t\tKristjánEldjárnHjorleifsson\n\t\t\t0000-0002-7851-1818\n\t\t\n\t\t\n\t\t\tJaseGehring\n\t\t\t0000-0002-3894-9495\n\t\t\n\t\t\n\t\t\tLiorPachter\n\t\t\t0000-0002-9164-6231\n\t\t\n\t\t10.1101/673285\n\t\t\n\t\n\t\n\t\tbioRxiv\n\t\t\n\t\t\t673285\n\t\t\t\n\t\t\tCold Spring Harbor Laboratory\n\t\t\n\t\n\n","document":{"$oid":"60c8de1a7723bebd866adc04"},"refKey":12},
{"_key":"60c8de2f7723bebd866adc3f","_id":"references/60c8de2f7723bebd866adc3f","_rev":"_cfFmUCO---","tei":"\n\t\n\t\tNucleic Acids Res. 16, 10881±10890. Cuff\n\t\t\n\t\t\tF; J ACorpet\n\t\t\n\t\t\n\t\t\tMEClamp\n\t\t\n\t\t\n\t\t\tASSiddiqui\n\t\t\n\t\t\n\t\t\tMFinlay\n\t\t\n\t\t\n\t\t\tGJBarton\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8de2f7723bebd866adc3e"},"refKey":3},
{"_key":"60c8de2f7723bebd866adc40","_id":"references/60c8de2f7723bebd866adc40","_rev":"_cfFmUCa---","tei":"\n\t\n\t\t\n\t\t\tZOtwinowski\n\t\t\n\t\t\n\t\t\tWMinor\n\t\t\n\t\t\n\t\t\t307±326\n\t\t\n\t\t\n\t\t\tJSPeiris\n\t\t\n\t\t\n\t\t\tSTLai\n\t\t\n\t\t\n\t\t\tLLPoon\n\t\t\n\t\t\n\t\t\tYGuan\n\t\t\n\t\t\n\t\t\tLYYam\n\t\t\n\t\t\n\t\t\tWLim\n\t\t\n\t\t\n\t\t\tJNicholls\n\t\t\n\t\t\n\t\t\tWKYee\n\t\t\n\t\t\n\t\t\tWWYan\n\t\t\n\t\t\n\t\t\tMTCheung\n\t\t\n\t\t\n\t\t\tVCCheng\n\t\t\n\t\t\n\t\t\tKHChan\n\t\t\n\t\t\n\t\t\tDNTsang\n\t\t\n\t\t\n\t\t\tRWYung\n\t\t\n\t\t\n\t\t\tTKNg\n\t\t\n\t\t\n\t\t\tKYYuen\n\t\t\n\t\n\t\n\t\tMethods Enzymol. 276\n\t\t\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8de2f7723bebd866adc3e"},"refKey":14},
{"_key":"60c8de2f7723bebd866adc41","_id":"references/60c8de2f7723bebd866adc41","_rev":"_cfFmUCm---","tei":"\n\t\n\t\tEnhanced genome annotation using structural profiles in the program 3D-PSSM 1 1Edited by J. Thornton\n\t\t\n\t\t\tLawrenceAKelley\n\t\t\n\t\t\n\t\t\tRobertMMaccallum\n\t\t\n\t\t\n\t\t\tMichaelJ ESternberg\n\t\t\n\t\t10.1006/jmbi.2000.3741\n\t\t10860755\n\t\tS0022-2836(00)93741-0\n\t\tark:/67375/6H6-8C85NF0G-7\n\t\t863E87373652E5CCB981F3BC92DECFEE467C24A8\n\t\t\n\t\n\t\n\t\tJournal of Molecular Biology\n\t\tJournal of Molecular Biology\n\t\t0022-2836\n\t\t\n\t\t\t299\n\t\t\t2\n\t\t\t\n\t\t\t\n\t\t\tElsevier BV\n\t\t\n\t\n\n","document":{"$oid":"60c8de2f7723bebd866adc3e"},"refKey":7},
{"_key":"60c8de2f7723bebd866adc42","_id":"references/60c8de2f7723bebd866adc42","_rev":"_cfFmUCu---","tei":"\n\t\n\t\t\n\t\t\n\t\t\tLJMcguf®n\n\t\t\n\t\t\n\t\t\tKBryson\n\t\t\n\t\t\n\t\t\tDTJones\n\t\t\n\t\n\t\n\t\tBioinformatics\n\t\t\n\t\t\t\n\t\t\t\n\t\t\n\t\n\n","document":{"$oid":"60c8de2f7723bebd866adc3e"},"refKey":12},
{"_key":"60c8de2f7723bebd866adc43","_id":"references/60c8de2f7723bebd866adc43","_rev":"_cfFmUC6---","tei":"\n\t\n\t\t\n\t\t\tBRost\n\t\t\n\t\t\n\t\t\t525±539\n\t\t\n\t\t\n\t\t\tEJSnijder\n\t\t\n\t\t\n\t\t\tPJBredenbeek\n\t\t\n\t\t\n\t\t\tJCDobbe\n\t\t\n\t\t\n\t\t\tVThiel\n\t\t\n\t\t\n\t\t\tJZiebuhr\n\t\t\n\t\t\n\t\t\tLL MPoon\n\t\t\n\t\t\n\t\t\tYGuan\n\t\t\n\t\t\n\t\t\tMRozanov\n\t\t\n\t\t\n\t\t\tWJ MSpaan\n\t\t\n\t\t\n\t\t\tAEGorbalenya\n\t\t\n\t\tMethods Enzymol. 266\n\t\t\t\t\n\t\t\t\n\t\t\n\t\n\tIn the press\n\n","document":{"$oid":"60c8de2f7723bebd866adc3e"},"refKey":15},
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