Dataset Open Access
N Pierre Charrier;
Marjorie Couton;
Maarten J Voordouw;
Olivier Rais;
Axelle Durand-Hermouet;
Caroline Hervet;
Olivier Plantard;
Claude Rispe
<?xml version='1.0' encoding='utf-8'?> <oai_dc:dc xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:oai_dc="http://www.openarchives.org/OAI/2.0/oai_dc/" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.openarchives.org/OAI/2.0/oai_dc/ http://www.openarchives.org/OAI/2.0/oai_dc.xsd"> <dc:creator>N Pierre Charrier</dc:creator> <dc:creator>Marjorie Couton</dc:creator> <dc:creator>Maarten J Voordouw</dc:creator> <dc:creator>Olivier Rais</dc:creator> <dc:creator>Axelle Durand-Hermouet</dc:creator> <dc:creator>Caroline Hervet</dc:creator> <dc:creator>Olivier Plantard</dc:creator> <dc:creator>Claude Rispe</dc:creator> <dc:date>2017-08-01</dc:date> <dc:description>Annotation table for a de novo assembled transcriptome of Ixodes ricinus in different stages and conditions. Description of the fields of each column (Trinotate results, and additionnal statistics): 1. Contig_name: name of the contig (Trinity assembly) 2. sprot_Top_BLASTX_hit: first hit of the blastx search against SwissProt (https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/) 3. TrEMBL_Top_BLASTX_hit: first hit of the blastx search against Uniref90 (https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/) 4. RNAMMER: identification of non-coding RNAs 5. prot_id: identifier of the predicted protein (TransDecoder) 6. prot_coords: coordinates (start, end and strand) of the predicted protein on the contig 7. sprot_Top_BLASTP_hit: first hit of the blastp search between the predicted protein and SwissProt (https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/) 8. TrEMBL_Top_BLASTP_hit: first hit of the blastp search between the predicted protein and Uniref90 (https://data.broadinstitute.org/Trinity/Trinotate v2.0 RESOURCES/) 9. Pfam: result of the search against PfamA database 10. SignalP: prediction of a signal peptide with SignalP 11. TmHMM: prediction of a transmembrane domain with THMM 12. eggnog: eggNOG database of orthologous genes (v3.0) assignation 13. gene_ontology_blast: GO assignation based on blast results 14. gene_ontology_pfam: GO assignation based on pfam results 15. Contig_length: length of the contig in bp 16. Busco_Id: name of the BUSCO (v1) 17. Busco_status: status of the BUSCO (complete/fragmented/duplicated) 18-32: Kallisto read counts for the 15 libraries A, B, C: unfed nymphs (replicates 1, 2, 3) D, E, F: partially fed nymphs (replicates 1, 2, 3) G, H, I: males (unfed) (replicates 1, 2, 3) J, K, L: unfed adult females (replicates 1, 2, 3) M, N, O: partially fed adult females (replicates 1, 2, 3) 33. log2FoldChange_UnfedVsPartiallyFed: log fold change in base 2 of expression (comparison between "unfed" -including males- and "fed" ticks) 34. pvalue_UnfedVsPartiallyFed: p-value of the comparison between "unfed" -including males- and "fed" ticks 35. log2FoldChange_MaleVsFemale: log fold change in base 2 of expression (comparison between "males" and "females") 36. pvalue_MaleVsFemale: p-value of the comparison between "males" and "females" 37. log2FoldChange_NymphsVsAdults: log fold change in base 2 of expression (comparison between "nymphs" and "adults" -males and females-) 38. pvalue_NymphsVsAdults: p-value of the comparison between "nymphs" and "adults" -males and females-) </dc:description> <dc:description>Fixed column 8 (blastp result on TrEMBL)</dc:description> <dc:identifier>https://zenodo.org/record/1137702</dc:identifier> <dc:identifier>10.5281/zenodo.1137702</dc:identifier> <dc:identifier>oai:zenodo.org:1137702</dc:identifier> <dc:relation>doi:10.5281/zenodo.832278</dc:relation> <dc:rights>info:eu-repo/semantics/openAccess</dc:rights> <dc:rights>https://creativecommons.org/licenses/by/4.0/legalcode</dc:rights> <dc:subject>Ixodes ricinus, RNA-Seq, De novo assembly, Expression profiling, Polymorphism</dc:subject> <dc:title>Annotation table - Whole body transcriptomes of the tick Ixodes ricinus at different stage and feeding conditions</dc:title> <dc:type>info:eu-repo/semantics/other</dc:type> <dc:type>dataset</dc:type> </oai_dc:dc>
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