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The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens.
Zhou N, Jiang Y, Bergquist TR, Lee AJ, Kacsoh BZ, Crocker AW, Lewis KA, Georghiou G, Nguyen HN, Hamid MN, Davis L, Dogan T, Atalay V, Rifaioglu AS, Dalkıran A, Cetin Atalay R, Zhang C, Hurto RL, Freddolino PL, Zhang Y, Bhat P, Supek F, Fernández JM, Gemovic B, Perovic VR, Davidović RS, Sumonja N, Veljkovic N, Asgari E, Mofrad MRK, Profiti G, Savojardo C, Martelli PL, Casadio R, Boecker F, Schoof H, Kahanda I, Thurlby N, McHardy AC, Renaux A, Saidi R, Gough J, Freitas AA, Antczak M, Fabris F, Wass MN, Hou J, Cheng J, Wang Z, Romero AE, Paccanaro A, Yang H, Goldberg T, Zhao C, Holm L, Törönen P, Medlar AJ, Zosa E, Borukhov I, Novikov I, Wilkins A, Lichtarge O, Chi PH, Tseng WC, Linial M, Rose PW, Dessimoz C, Vidulin V, Dzeroski S, Sillitoe I, Das S, Lees JG, Jones DT, Wan C, Cozzetto D, Fa R, Torres M, Warwick Vesztrocy A, Rodriguez JM, Tress ML, Frasca M, Notaro M, Grossi G, Petrini A, Re M, Valentini G, Mesiti M, Roche DB, Reeb J, Ritchie DW, Aridhi S, Alborzi SZ, Devignes MD, Koo DCE, Bonneau R, Gligorijević V, Barot M, Fang H, Toppo S, Lavezzo E, Falda M, Berselli M, Tosatto SCE, Carraro M, Piovesan D, Ur Rehman H, Mao Q, Zhang S, Vucetic S, Black GS, Jo D, Suh E, Dayton JB, Lar… See abstract for full author list ➔ Zhou N, et al. Among authors: martin mj. Genome Biol. 2019 Nov 19;20(1):244. doi: 10.1186/s13059-019-1835-8. Genome Biol. 2019. PMID: 31744546 Free PMC article.
Removing redundancy in SWISS-PROT and TrEMBL.
O'Donovan C, Martin MJ, Glemet E, Codani JJ, Apweiler R. O'Donovan C, et al. Among authors: martin mj. Bioinformatics. 1999 Mar;15(3):258-9. doi: 10.1093/bioinformatics/15.3.258. Bioinformatics. 1999. PMID: 10222414
Managing core resources for genomics and proteomics.
Apweiler R, Martin MJ, O'Donovan C, Pruess M. Apweiler R, et al. Among authors: martin mj. Pharmacogenomics. 2003 May;4(3):343-50. doi: 10.1517/phgs.4.3.343.22689. Pharmacogenomics. 2003. PMID: 12718724 Review.
Protein sequence database methods.
Martin MJ, O'Donovan C, Apweiler R. Martin MJ, et al. Genet Eng (N Y). 2004;26:13-7. doi: 10.2478/v10050-008-0057-3. Genet Eng (N Y). 2004. PMID: 15387290 Review. No abstract available.
The impact of focused Gene Ontology curation of specific mammalian systems.
Alam-Faruque Y, Huntley RP, Khodiyar VK, Camon EB, Dimmer EC, Sawford T, Martin MJ, O'Donovan C, Talmud PJ, Scambler P, Apweiler R, Lovering RC. Alam-Faruque Y, et al. Among authors: martin mj. PLoS One. 2011;6(12):e27541. doi: 10.1371/journal.pone.0027541. Epub 2011 Dec 9. PLoS One. 2011. PMID: 22174742 Free PMC article.
The GOA database: gene Ontology annotation updates for 2015.
Huntley RP, Sawford T, Mutowo-Meullenet P, Shypitsyna A, Bonilla C, Martin MJ, O'Donovan C. Huntley RP, et al. Among authors: martin mj. Nucleic Acids Res. 2015 Jan;43(Database issue):D1057-63. doi: 10.1093/nar/gku1113. Epub 2014 Nov 6. Nucleic Acids Res. 2015. PMID: 25378336 Free PMC article.
Searching and Navigating UniProt Databases.
Pundir S, Magrane M, Martin MJ, O'Donovan C; UniProt Consortium. Pundir S, et al. Among authors: martin mj. Curr Protoc Bioinformatics. 2015 Jun 19;50:1.27.1-1.27.10. doi: 10.1002/0471250953.bi0127s50. Curr Protoc Bioinformatics. 2015. PMID: 26088053 Free PMC article.
UniProt Tools.
Pundir S, Martin MJ, O'Donovan C; UniProt Consortium. Pundir S, et al. Among authors: martin mj. Curr Protoc Bioinformatics. 2016 Mar 24;53:1.29.1-1.29.15. doi: 10.1002/0471250953.bi0129s53. Curr Protoc Bioinformatics. 2016. PMID: 27010333 Free PMC article.
983 results