Publications
The Gene Ontology in 2010: extensions and refinements
Berardini TZ, Li D, Huala E, Bridges S, Burgess S, McCarthy F, Carbon S, Lewis SE, Mungall CJ, Abdulla A, Wood V, Feltrin E, Valle G, Chisholm RL, Fey P, Gaudet P, Kibbe W, Basu S, Bushmanova Y, Eilbeck K, Siegele DA, McIntosh B, Renfro D, Zweifel A, Hu JC, Ashburner M, Tweedie S, Alam-Faruque Y, Apweiler R, Auchinchloss A, Bairoch A, Barrell D, Binns D, Blatter MC, Bougueleret L, Boutet E, Breuza L, Bridge A, Browne P, Chan WM, Coudert E, Daugherty L, Dimmer E, Eberhardt R, Estreicher A, Famiglietti L, Ferro-Rojas S, Feuermann M, Foulger R, Gruaz-Gumowski N, Hinz U, Huntley R, Jimenez S, Jungo F, Keller G, Laiho K, Legge D, Lemercier P, Lieberherr D, Magrane M, O'Donovan C, Pedruzzi I, Poux S, Rivoire C, Roechert B, Sawford T, Schneider M, Stanley E, Stutz A, Sundaram S, Tognolli M, Xenarios I, Harris MA, Deegan JI, Ireland A, Lomax J, Jaiswal P, Chibucos M, Giglio MG, Wortman J, Hannick L, Madupu R, Botstein D, Dolinski K, Livstone MS, Oughtred R, Blake JA, Bult C, Diehl AD, Dolan M, Drabkin H, Eppig JT, Hill DP, Ni L, Ringwald M, Sitnikov D, Collmer C, Torto-Alalibo T, Laulederkind S, Shimoyama M, Twigger S, D'Eustachio P, Matthews L, Balakrishnan R, Binkley G, Cherry JM, Christie KR, Costanzo MC, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Hong EL, Krieger CJ, Miyasato SR, Nash RS, Park J, Skrzypek MS, Weng S, Wong ED, Aslett M, Chan J, Kishore R, Sternberg P, Van Auke K, Khodiyar VK, Lovering RC, Talmud PJ, Howe D, Westerfield M
PMID: 19920128
Abstract
The Gene Ontology (GO) Consortium (http://www.geneontology.org) (GOC) continues to develop, maintain and use a set of structured, controlled vocabularies for the annotation of genes, gene products and sequences. The GO ontologies are expanding both in content and in structure. Several new relationship types have been introduced and used, along with existing relationships, to create links between and within the GO domains. These improve the representation of biology, facilitate querying, and allow GO developers to systematically check for and correct inconsistencies within the GO. Gene product annotation using GO continues to increase both in the number of total annotations and in species coverage. GO tools, such as OBO-Edit, an ontology-editing tool, and AmiGO, the GOC ontology browser, have seen major improvements in functionality, speed and ease of use.