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Protein Ontology (PRO): enhancing and scaling up the representation of protein entities.
Natale DA, Arighi CN, Blake JA, Bona J, Chen C, Chen SC, Christie KR, Cowart J, D'Eustachio P, Diehl AD, Drabkin HJ, Duncan WD, Huang H, Ren J, Ross K, Ruttenberg A, Shamovsky V, Smith B, Wang Q, Zhang J, El-Sayed A, Wu CH. Natale DA, et al. Among authors: blake ja. Nucleic Acids Res. 2017 Jan 4;45(D1):D339-D346. doi: 10.1093/nar/gkw1075. Epub 2016 Nov 28. Nucleic Acids Res. 2017. PMID: 27899649 Free PMC article.
The Gene Ontology (GO) database and informatics resource.
Harris MA, Clark J, Ireland A, Lomax J, Ashburner M, Foulger R, Eilbeck K, Lewis S, Marshall B, Mungall C, Richter J, Rubin GM, Blake JA, Bult C, Dolan M, Drabkin H, Eppig JT, Hill DP, Ni L, Ringwald M, Balakrishnan R, Cherry JM, Christie KR, Costanzo MC, Dwight SS, Engel S, Fisk DG, Hirschman JE, Hong EL, Nash RS, Sethuraman A, Theesfeld CL, Botstein D, Dolinski K, Feierbach B, Berardini T, Mundodi S, Rhee SY, Apweiler R, Barrell D, Camon E, Dimmer E, Lee V, Chisholm R, Gaudet P, Kibbe W, Kishore R, Schwarz EM, Sternberg P, Gwinn M, Hannick L, Wortman J, Berriman M, Wood V, de la Cruz N, Tonellato P, Jaiswal P, Seigfried T, White R; Gene Ontology Consortium. Harris MA, et al. Among authors: blake ja. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D258-61. doi: 10.1093/nar/gkh036. Nucleic Acids Res. 2004. PMID: 14681407 Free PMC article.
The Mouse Genome Database (MGD): integrating biology with the genome.
Bult CJ, Blake JA, Richardson JE, Kadin JA, Eppig JT, Baldarelli RM, Barsanti K, Baya M, Beal JS, Boddy WJ, Bradt DW, Burkart DL, Butler NE, Campbell J, Corey R, Corbani LE, Cousins S, Dene H, Drabkin HJ, Frazer K, Garippa DM, Glass LH, Goldsmith CW, Grant PL, King BL, Lennon-Pierce M, Lewis J, Lu I, Lutz CM, Maltais LJ, McKenzie LM, Miers D, Modrusan D, Ni L, Ormsby JE, Qi D, Ramachandran S, Reddy TB, Reed DJ, Sinclair R, Shaw DR, Smith CL, Szauter P, Taylor B, Vanden Borre P, Walker M, Washburn L, Witham I, Winslow J, Zhu Y; Mouse Genome Database Group. Bult CJ, et al. Among authors: blake ja. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D476-81. doi: 10.1093/nar/gkh125. Nucleic Acids Res. 2004. PMID: 14681461 Free PMC article.
The Mouse Genome Database (MGD): from genes to mice--a community resource for mouse biology.
Eppig JT, Bult CJ, Kadin JA, Richardson JE, Blake JA, Anagnostopoulos A, Baldarelli RM, Baya M, Beal JS, Bello SM, Boddy WJ, Bradt DW, Burkart DL, Butler NE, Campbell J, Cassell MA, Corbani LE, Cousins SL, Dahmen DJ, Dene H, Diehl AD, Drabkin HJ, Frazer KS, Frost P, Glass LH, Goldsmith CW, Grant PL, Lennon-Pierce M, Lewis J, Lu I, Maltais LJ, McAndrews-Hill M, McClellan L, Miers DB, Miller LA, Ni L, Ormsby JE, Qi D, Reddy TB, Reed DJ, Richards-Smith B, Shaw DR, Sinclair R, Smith CL, Szauter P, Walker MB, Walton DO, Washburn LL, Witham IT, Zhu Y; Mouse Genome Database Group. Eppig JT, et al. Among authors: blake ja. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D471-5. doi: 10.1093/nar/gki113. Nucleic Acids Res. 2005. PMID: 15608240 Free PMC article.
Ontological visualization of protein-protein interactions.
Drabkin HJ, Hollenbeck C, Hill DP, Blake JA. Drabkin HJ, et al. Among authors: blake ja. BMC Bioinformatics. 2005 Feb 11;6:29. doi: 10.1186/1471-2105-6-29. BMC Bioinformatics. 2005. PMID: 15707487 Free PMC article.
Ontology development for biological systems: immunology.
Diehl AD, Lee JA, Scheuermann RH, Blake JA. Diehl AD, et al. Among authors: blake ja. Bioinformatics. 2007 Apr 1;23(7):913-5. doi: 10.1093/bioinformatics/btm029. Epub 2007 Jan 31. Bioinformatics. 2007. PMID: 17267433
Gene Ontology annotations: what they mean and where they come from.
Hill DP, Smith B, McAndrews-Hill MS, Blake JA. Hill DP, et al. Among authors: blake ja. BMC Bioinformatics. 2008 Apr 29;9 Suppl 5(Suppl 5):S2. doi: 10.1186/1471-2105-9-S5-S2. BMC Bioinformatics. 2008. PMID: 18460184 Free PMC article.
Access to immunology through the Gene Ontology.
Lovering RC, Camon EB, Blake JA, Diehl AD. Lovering RC, et al. Among authors: blake ja. Immunology. 2008 Oct;125(2):154-60. doi: 10.1111/j.1365-2567.2008.02940.x. Immunology. 2008. PMID: 18798919 Free PMC article. Review.
TGF-beta signaling proteins and the Protein Ontology.
Arighi CN, Liu H, Natale DA, Barker WC, Drabkin H, Blake JA, Smith B, Wu CH. Arighi CN, et al. Among authors: blake ja. BMC Bioinformatics. 2009 May 6;10 Suppl 5(Suppl 5):S3. doi: 10.1186/1471-2105-10-S5-S3. BMC Bioinformatics. 2009. PMID: 19426460 Free PMC article.
215 results