Dataset Open Access
CryoEM Maps and Associated Data Submitted to the 2015/2016 EMDataBank Map Challenge
Lawson, Catherine;
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
Files and metadata associated with the EMDataBank/Unified Data Resource for 3DEM 2015/2016 Map Challenge hosted at challenges.emdatabank.org are deposited.
All members of the Scientific Community--at all levels of experience--were invited to participate as Challengers, and/or as Assessors.
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.
27 Challengers created 66 single particle reconstructions from the targets, and then uploaded their results with associated details. 15 of the reconstructions were calculated using the SDSC Gordon supercomputer.
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.
| Name | Size | |
|---|---|---|
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BetaGal_benchmark.zip
md5:4b4db43292b158776f93b30f9d5a3174 |
6.0 GB | Download |
|
BMV_benchmark.zip
md5:00b094bd17e426997b9e3cd6252c4a38 |
5.9 GB | Download |
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Ferritin_benchmark.zip
md5:423d90fa5a063cc6ded975df59fd4027 |
706.1 MB | Download |
|
GroEL_benchmark.zip
md5:6a426054a1c07e4b1a3d407ad09f3ea6 |
1.1 GB | Download |
|
Images_for_all_benchmarks.zip
md5:41285fd0792235e5dd30c65c0ee34cfe |
707.2 MB | Download |
|
Map Challenge Web Contents Archive.pdf
md5:f9099f2959fadfdb7be3587766d31ce2 |
1.5 MB | Download |
|
map-challenge-metadata.xls
md5:c3addaa28698174757c5fa137d3e7cfe |
286.7 kB | Download |
|
Proteasome_benchmark.zip
md5:de1d58f7854c6bdbbf2533f42700ec03 |
2.7 GB | Download |
|
README.txt
md5:f34353e9b357b878481d133349077808 |
1.5 kB | Download |
|
Ribosome_benchmark.zip
md5:1f51ea2a89defca85e64402a5bc4d04f |
8.4 GB | Download |
|
TRPVI_benchmark.zip
md5:23ce888932ad212625b5df7c18bbf335 |
3.3 GB | Download |
- 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
| All versions | This version | |
|---|---|---|
| Views | 70 | 20 |
| Downloads | 36 | 18 |
| Data volume | 71.1 GB | 28.9 GB |
| Unique views | 68 | 20 |
| Unique downloads | 7 | 5 |
- Publication date:
- December 21, 2017
- DOI:
-
- Keyword(s):
- cryo electron microscopy cryoEM validation challenge benchmark
- Subject(s):
- Related identifiers:
- Cites:
10.1093/nar/gkv1126, 10.1016/j.str.2011.12.014, 10.1016/j.jsb.2016.02.008 - Documents:
http://challenges.emdatabank.org - References:
10.6019/EMPIAR-10010, 10.6019/EMPIAR-10012, 10.6019/EMPIAR-10013, 10.6019/EMPIAR-10026, 10.6019/EMPIAR-10029, 10.6019/EMPIAR-10025, 10.6019/EMPIAR-10028, 10.6019/EMPIAR-10005, 10.6019/EMPIAR-10011 - Communities:
- License (for files):
- Creative Commons Attribution 4.0