The Gene Ontology resource: enriching a GOld mine

作者：S. Carbon, Eric Douglass, Benjamin M. Good, D. Unni, N. Harris, Christopher J. Mungall, S. Basu, R. Chisholm, R. Dodson, Eric C. Hartline, P. Fey, P. Thomas, Laurent-Philippe Albou, Dustin Ebert, M. Kesling, H. Mi, A. Muruganujan, Xiaosong Huang, Tremayne Mushayahama, Sandra LaBonte, D. Siegele, Giulia Antonazzo, H. Attrill, N. Brown, Phani V. Garapati, Steven J. Marygold, V. Trovisco, Gilberto dos Santos, K. Falls, C. Tabone, P. Zhou, J. Goodman, V. Strelets, Jim Thurmond, Penelope Garmiri, Rizwan Ishtiaq, M. Rodríguez-López, M. Acencio, Martin Kuiper, A. Lægreid, C. Logie, R. Lovering, B. Kramarz, Shirin C. C. Saverimuttu, S. M. Pinheiro, Heather Gunn, Renzhi Su, Kate E. Thurlow, M. Chibucos, M. Giglio, Suvarna Nadendla, James Munro, Rebecca C. Jackson, M. Duesbury, N. del-Toro, B. Meldal, K. Paneerselvam, L. Perfetto, P. Porras, S. Orchard, A. Shrivastava, Hsin-Yu Chang, R. Finn, A. Mitchell, N. Rawlings, Lorna J. Richardson, A. Sangrador-Vegas, J. Blake, K. Christie, M. Dolan, H. Drabkin, D. Hill, L. Ni, D. Sitnikov, M. Harris, S. Oliver, Kim M Rutherford, V. Wood, Jaqueline Hayles, J. Bähler, E. R. Bolton, Jeff de Pons, M. Dwinell, G. Hayman, M. Kaldunski, A. Kwitek, S. Laulederkind, Cody Plasterer, Marek A. Tutaj, M. Vedi, Shur-Jen Wang, P. D’Eustachio, L. Matthews, J. Balhoff, Suzi A Aleksander, Michael J. Alexander, J. Cherry, S. Engel, Felix Gondwe, K. Karra, S. Miyasato, R. Nash, Matt Simison, M. Skrzypek, S. Weng, E. Wong, M. Feuermann, P. Gaudet, A. Morgat, Erica A. H. Bakker, T. Berardini, Leonore Reiser, Shabari Subramaniam, E. Huala, C. Arighi, A. Auchincloss, K. Axelsen, Ghislaine Argoud-Puy, A. Bateman, M. Blatter, E. Boutet, Emily Bowler, L. Breuza, A. Bridge, R. Britto, Hema Bye-A-Jee, C. Casas, E. Coudert, P. Denny, A. Estreicher, M. Famiglietti, G. Georghiou, A. Gos, N. Gruaz-Gumowski, E. Hatton-Ellis, C. Hulo, A. Ignatchenko, F. Jungo, K. Laiho, P. Le Mercier, D. Lieberherr, A. Lock, Yvonne Lussi, Alistair MacDougall, M. Magrane, M. Martin, P. Masson, D. Natale, Nevila Hyka-Nouspikel, I. Pedruzzi, L. Pourcel, S. Poux, Sangya Pundir, C. Rivoire, E. Speretta, S. Sundaram, Nidhi Tyagi, Kate Warner, Rossana Zaru, Cathy H. Wu, A. Diehl, J. Chan, Christian A. Grove, Raymond Y. N. Lee, Hans-Michael Muller, Daniela Raciti, K. V. Van Auken, P. Sternberg, M. Berriman, M. Paulini, K. Howe, Sibyl Gao, Adam J. Wright, L. Stein, D. Howe, S. Toro, M. Westerfield, P. Jaiswal, L. Cooper, J. Elser · 发表于：Nucleic Acids Res. · 年份：2020 · DOI：10.1093/nar/gkaa1113 · 被引用次数：3110 · 研究领域：Computer Science、Biology、Medicine

Abstract The Gene Ontology Consortium (GOC) provides the most comprehensive resource currently available for computable knowledge regarding the functions of genes and gene products. Here, we report the advances of the consortium over the past two years. The new GO-CAM annotation framework was notably improved, and we formalized the model with a computational schema to check and validate the rapidly increasing repository of 2838 GO-CAMs. In addition, we describe the impacts of several collaborations to refine GO and report a 10% increase in the number of GO annotations, a 25% increase in annotated gene products, and over 9,400 new scientific articles annotated. As the project matures, we continue our efforts to review older annotations in light of newer findings, and, to maintain consistency with other ontologies. As a result, 20 000 annotations derived from experimental data were reviewed, corresponding to 2.5% of experimental GO annotations. The website (http://geneontology.org) was redesigned for quick access to documentation, downloads and tools. To maintain an accurate resource and support traceability and reproducibility, we have made available a historical archive covering the past 15 years of GO data with a consistent format and file structure for both the ontology and annotations.