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OBO-Edit--an ontology editor for biologists.
Day-Richter J, Harris MA, Haendel M; Gene Ontology OBO-Edit Working Group; Lewis S. Day-Richter J, et al. Among authors: harris ma. Bioinformatics. 2007 Aug 15;23(16):2198-200. doi: 10.1093/bioinformatics/btm112. Epub 2007 Jun 1. Bioinformatics. 2007. PMID: 17545183
The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species.
Shefchek KA, Harris NL, Gargano M, Matentzoglu N, Unni D, Brush M, Keith D, Conlin T, Vasilevsky N, Zhang XA, Balhoff JP, Babb L, Bello SM, Blau H, Bradford Y, Carbon S, Carmody L, Chan LE, Cipriani V, Cuzick A, Della Rocca M, Dunn N, Essaid S, Fey P, Grove C, Gourdine JP, Hamosh A, Harris M, Helbig I, Hoatlin M, Joachimiak M, Jupp S, Lett KB, Lewis SE, McNamara C, Pendlington ZM, Pilgrim C, Putman T, Ravanmehr V, Reese J, Riggs E, Robb S, Roncaglia P, Seager J, Segerdell E, Similuk M, Storm AL, Thaxon C, Thessen A, Jacobsen JOB, McMurry JA, Groza T, Köhler S, Smedley D, Robinson PN, Mungall CJ, Haendel MA, Munoz-Torres MC, Osumi-Sutherland D. Shefchek KA, et al. Among authors: harris nl, harris m. Nucleic Acids Res. 2020 Jan 8;48(D1):D704-D715. doi: 10.1093/nar/gkz997. Nucleic Acids Res. 2020. PMID: 31701156 Free PMC article.
The Gene Ontology in 2010: extensions and refinements.
Gene Ontology Consortium. Gene Ontology Consortium. Nucleic Acids Res. 2010 Jan;38(Database issue):D331-5. doi: 10.1093/nar/gkp1018. Epub 2009 Nov 17. Nucleic Acids Res. 2010. PMID: 19920128 Free PMC article.
A method for increasing expressivity of Gene Ontology annotations using a compositional approach.
Huntley RP, Harris MA, Alam-Faruque Y, Blake JA, Carbon S, Dietze H, Dimmer EC, Foulger RE, Hill DP, Khodiyar VK, Lock A, Lomax J, Lovering RC, Mutowo-Meullenet P, Sawford T, Van Auken K, Wood V, Mungall CJ. Huntley RP, et al. Among authors: harris ma. BMC Bioinformatics. 2014 May 21;15:155. doi: 10.1186/1471-2105-15-155. BMC Bioinformatics. 2014. PMID: 24885854 Free PMC article.
The Protein Feature Ontology: a tool for the unification of protein feature annotations.
Reeves GA, Eilbeck K, Magrane M, O'Donovan C, Montecchi-Palazzi L, Harris MA, Orchard S, Jimenez RC, Prlic A, Hubbard TJ, Hermjakob H, Thornton JM. Reeves GA, et al. Among authors: harris ma. Bioinformatics. 2008 Dec 1;24(23):2767-72. doi: 10.1093/bioinformatics/btn528. Epub 2008 Oct 20. Bioinformatics. 2008. PMID: 18936051 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. 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.
Developing an ontology.
Harris MA. Harris MA. Methods Mol Biol. 2008;452:111-24. doi: 10.1007/978-1-60327-159-2_5. Methods Mol Biol. 2008. PMID: 18563371 Review.
Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.
Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Issel-Tarver L, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G. Ashburner M, et al. Among authors: harris ma. Nat Genet. 2000 May;25(1):25-9. doi: 10.1038/75556. Nat Genet. 2000. PMID: 10802651 Free PMC article.
FYPO: the fission yeast phenotype ontology.
Harris MA, Lock A, Bähler J, Oliver SG, Wood V. Harris MA, et al. Bioinformatics. 2013 Jul 1;29(13):1671-8. doi: 10.1093/bioinformatics/btt266. Epub 2013 May 8. Bioinformatics. 2013. PMID: 23658422 Free PMC article.
576 results