Dataset Open Access

CryoEM Maps and Associated Data Submitted to the 2015/2016 EMDataBank Map Challenge

Lawson, Catherine L.; Chiu, Wah; Carragher, Bridget; Carazo, Jose-Maria; Jiang, Wen; Patwardhan, Ardan; Rubinstein, John; Rosenthal, Peter; Sun, Fei; Vonck, Janet; Bai, Xiaochen; Bell, James; Caputo, Nick; Chakraborty, Arka; Chen, Dong-Hua; Chen, James; Diaz-Avalos, Ruben; Donati, Laurene; Estrozi, Leandro; Galaz Montoya, Jesus; Gati, Cornelius; Gomez-Blanco, Josue; Grigorieff, Nikolaus; Gros, Piet; Heymann, Bernard; Leith, ArDean; Li, Fei; Ludtke, Steven; Nans, Andrea; Nilchian, Masih; Punjabi, Ali; Sixma, Titia; Tegunov, Dimitry; Yang, Kailu; Yu, Guimei; Zhang, Junjie; Sala, Raul


DCAT Export

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    <dct:description>&lt;p&gt;Files and metadata associated with the EMDataBank/Unified Data Resource for 3DEM 2015/2016 Map Challenge hosted at challenges.emdatabank.org are deposited.&lt;/p&gt; &lt;p&gt;All members of the Scientific Community--at all levels of experience--were invited to participate as Challengers, and/or as Assessors.&lt;/p&gt; &lt;p&gt;Seven benchmark raw image datasets were selected for the challenge. Six are selected from recently described single particle structure determinations with image data collected as multi-frame movies; one is based on simulated (in silico) images. All of the raw image datasets are archived at pdbe.org/empiar.&lt;/p&gt; &lt;p&gt;27 Challengers created 66 single particle reconstructions from the targets, and then uploaded their results with associated details.&amp;nbsp; 15 of the reconstructions were calculated using the SDSC Gordon supercomputer.&lt;/p&gt; &lt;p&gt;This map challenge was one of two community-wide challenges sponsored by EMDataBank in 2015/2016 to critically evaluate 3DEM methods that are coming into use, with the ultimate goal of developing validation criteria associated with every 3DEM map and map-derived model.&lt;/p&gt; &lt;p&gt;&amp;nbsp;&lt;/p&gt;</dct:description>
    <dct:description xml:lang="">The 2015/2016 Map Challenge was supported by the US National Institutes of Health / National Institute for General Medical Sciences (NIH/NIGMS) Under Grant Number R01 GM079429 to Wah Chiu (PI). A Directors Award from the UCSD Supercomputer Center provided supercomputer access that was used in 15 of the 66 submitted entries.</dct:description>
    <dct:description xml:lang="">{"references": ["Henderson et al (2012) Outcome of the first electron microscopy validation task force meeting. doi:10.1016/j.str.2011.12.014", "Lawson et al (2016) EMDataBank unified data resource for 3DEM. doi:10.1093/nar/gkv1126", "Marabini et al (2016) The Electron Microscopy Exchange (EMX) Iniitiative doi:10.1016/j.jsb.2016.02.008", "Lawson and Chiu (2018) Comparing Cryo-EM Structures doi:10.1016/j.jsb.2018.10.004", "Stagg and Mendez (2018) Processing apoferritin with the Appion pipeline doi:10.1016/j.jsb.2018.06.009", "Heymann (2018) Single Particle reconstruction and validation using Bsoft for the map challenge doi:10.1016/j.jsb.2018.07.003", "Sorzano et al (2018) A new algorithm for high-resolution reconstruction of single particles by electron microscopy doi:10.1016/j.jsb.2018.08.002", "Bell et al (2018) New software tools in EMAN2 inspired by EMDatabank map challenge doi:10.1016/j.jsb.2018.09.002", "Donati et al (2018) Fast multiscale reconstruction for Cryo-EM doi:10.1016/j.jsb.2018.09.008", "Heymann (2018) Map Challenge assessment: Fair comparison of single particle cryoEM reconstructions doi:10.1016/j.jsb.2018.07.012", "Jonic (2018) A methodology using Gaussian-based density map approximation to assess sets of cryo-electron microscopy density maps doi:10.1016/j.jsb.2018.07.014", "Pintilie and Chiu (2018) Assessment of structural features in Cryo-EM density maps using SSE and side chain Z-scores doi:10.1016/j.jsb.2018.08.015", "Marabini et al (2018) Map challenge: Analysis using a pair comparison method based on Fourier shell correlation doi:10.1016/j.jsb.2018.09.009", "Mendez and Stagg (2018) Assessing the quality of single particle reconstructions by atomic model building doi:10.1016/j.jsb.2018.09.004", "Heymann et al (2018) The first single particle analysis Map Challenge: A summary of the assessments doi:10.1016/j.jsb.2018.08.010"]}</dct:description>
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