The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Zhou, Naihui; Jiang, Yuxiang; Bergquist, Timothy; Lee, Alexandra; Z Kacsoh, Balint; W. Crocker, Alex; A. Lewis, Kimberley; P. Georghiou, George; Nguyen, Huy; Hamid, Md-Nafiz; Taylor Davis, L.; Doğan, Tunca; Atalay, Volkan; Süreyya Rifaioğlu, Ahmet; Dalkıran, Alperen; Çetin-Atalay, Rengül; Zhang, Chengxin; L. Hurto, Rebecca; L. Freddolino, Peter; Zhang, Yang; Bhat, Prajwal; Supek, Fran; M. Fernández, José; Gemović, Branislava; Perović, Vladimir; Davidović, Radoslav; Šumonja, Neven; Veljković, Nevena; Asgari, Ehsaneddin; R. K. Mofrad, Mohammad; Profiti, Giuseppe; Savojardo, Castrense; Luigi Martelli, Pier; Casadio, Rita; Boecker, Florian; Schoof, Heiko; Kahanda, Indika; Thurlby, Natalie; C. McHardy, Alice; Renaux, Alexandre; Saidi, Rabie; Gough, Julian; A. Freitas, Alex; Antczak, Magdalena; Fabris, Fábio; N. Wass, Mark; Hou, Jie; Cheng, Jianlin; Wang, Zheng; E. Romero, Alfonso; Paccanaro, Alberto; Yang, Haixuan; Goldberg, Tatyana; Zhao, Chenguang; Holm, Liisa; Törönen, Petri; Medlar, Alan; Zosa, Elaine; Borukhov, Itamar; B. Novikov, Ilya; D. Wilkins, Angela; Lichtarge, Olivier; Chi, Po-Han; Tseng, Wei-Cheng; Linial, Michal; W. Rose, Peter; Dessimoz, Christophe; Vidulin, Vedrana; Džeroski, Sašo; Sillitoe, Ian; Das, Sayoni; Lees, Jonathan; T. Jones, David; Wan, Cen; Cozzetto, Domenico; Fa, Rui; Torres, Mateo; Warwick Vesztrocy, Alex; Manuel Rodrı́guez, José; L. Tress, Michael; Frasca, Marco; Notaro, Marco; Grossi, Giuliano; Petrini, Alessandro; Ré, Matteo; Valentini, Giorgio; Mesiti, Marco; B. Roche, Daniel; Reeb, Jonas; W. Ritchie, David; Aridhi, Sabeur; Ziaeddin Alborzi, Seyed; Devignes, Marie‐Dominique; Chen Emily Koo, Da; Bonneau, Richard; Gligorijević, Vladimir; Barot, Meet; Fang, Hai; Toppo, Stefano; Lavezzo, Enrico; Falda, Marco; Berselli, Michele; C. E. Tosatto, Silvio; Carraro, Marco; Piovesan, Damiano; Ur Rehman, Hafeez; Mao, Qizhong; Zhang, Shanshan; Vučetić, Slobodan; S. Black, Gage; Jo, Dane; Suh, Erica; Dayton, Jonathan; J. Larsen, Dallas; Omdahl, Ashton; J. McGuffin, Liam; A Brackenridge, Danielle; C. Babbitt, Patricia; M. Yunes, Jeffrey; Fontana, Paolo; Zhang, Feng; Zhu, Shanfeng; You, Ronghui; Zhang, Zihan; Dai, Suyang; Yao, Shuwei; Tian, Weidong; Cao, Renzhi; Chandler, Caleb; Amezola, Miguel; Barrie Johnson, D.; Chang, Jia‐Ming; Liao, Wen‐Hung; Liu, Yiwei; Pascarelli, Stefano; Frank, Yotam; Hoehndorf, Robert; Kulmanov, Maxat; Boudellioua, Imane; Politano, Gianfranco; Di Carlo, Stefano; Benso, Alfredo; Hakala, Kai; Ginter, Filip; Mehryary, Farrokh; Kaewphan, Suwisa; Björne, Jari; Moen, Hans; Tolvanen, Martti; Salakoski, Tapio; Kihara, Daisuke; Jain, Aashish; Šmuc, Tomislav; Altenhoff, Adrian; Ben‐Hur, Asa; Rost, Burkhard; E. Brenner, Steven; Orengo, Christine; J. Jeffery, Constance; Bosco, Giovanni; A. Hogan, Deborah; Martin, María; O’Donovan, Claire; D. Mooney, Sean; S. Greene, Casey; Radivojac, Predrag; Friedberg, Iddo

doi:10.1186/s13059-019-1835-8

Public

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Published in Genome biology • Nov 19, 2019

Authors:

Naihui Zhou

Yuxiang Jiang

Timothy Bergquist

Abstract

BACKGROUND: The Critical Assessment of Functional Annotation (CAFA) is an ongoing, global, community-driven effort to evaluate and improve the computational annotation of protein function. RESULTS: Here, we report on the results of the third CAFA challenge, CAFA3, that featured an expanded analysis ...

Subject

Biology

Annotation

Computational biology

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