The Gene Ontology: Enhancements for 2011

J. A. Blake; M. Dolan; H. Drabkin; D. P. Hill; L. Ni; D. Sitnikov; S. Burgess; T. Buza; C. Gresham; F. McCarthy; L. Pillai; H. Wang; S. Carbon; S. E. Lewis; C. J. Mungall; P. Gaudet; R. L. Chisholm; P. Fey; W. A. Kibbe; S. Basu; D. A. Siegele; B. K. McIntosh; D. P. Renfro; A. E. Zweifel; J. C. Hu; N. H. Brown; S. Tweedie; Y. Alam-Faruque; R. Apweiler; A. Auchinchloss; K. Axelsen; G. Argoud-Puy; B. Bely; M. C. Blatter; L. Bougueleret; E. Boutet; S. Branconi-Quintaje; L. Breuza; A. Bridge; P. Browne; W. M. Chan; E. Coudert; I. Cusin; E. Dimmer; P. Duek-Roggli; R. Eberhardt; A. Estreicher; L. Famiglietti; S. Ferro-Rojas; M. Feuermann; M. Gardner; A. Gos; N. Gruaz-Gumowski; U. Hinz; C. Hulo; R. Huntley; J. James; S. Jimenez; F. Jungo; G. Keller; K. Laiho; D. Legge; P. Lemercier; D. Lieberherr; M. Magrane; M. J. Martin; P. Masson; M. Moinat; C. O'Donovan; I. Pedruzzi; K. Pichler; D. Poggioli; P. Porras Millán; S. Poux; C. Rivoire; B. Roechert; T. Sawford; M. Schneider; H. Sehra; E. Stanley; A. Stutz; S. Sundaram; M. Tognolli; I. Xenarios; R. Foulger; J. Lomax; P. Roncaglia; E. Camon; V. K. Khodiyar; R. C. Lovering; P. J. Talmud; M. Chibucos; M. Gwinn Giglio; K. Dolinski; S. Heinicke; M. S. Livstone; R. Stephan; M. A. Harris; S. G. Oliver; K. Rutherford; V. Wood; J. Bahler; A. Lock; P. J. Kersey; M. D. McDowall; D. M. Staines; M. Dwinell; M. Shimoyama; S. Laulederkind; T. Hayman; S. J. Wang; V. Petri; T. Lowry; P. D'Eustachio; L. Matthews; C. D. Amundsen; R. Balakrishnan; G. Binkley; J. M. Cherry; K. R. Christie; M. C. Costanzo; S. S. Dwight; S. R. Engel; D. G. Fisk; J. E. Hirschman; B. C. Hitz; E. L. Hong; K. Karra; C. J. Krieger; S. R. Miyasato; R. S. Nash; J. Park; M. S. Skrzypek; S. Weng; E. D. Wong; T. Z. Berardini; D. Li; E. Huala; D. Slonim; H. Wick; P. Thomas; J. Chan; R. Kishore; P. Sternberg; K. Van Auken; D. Howe; M. Westerfield

doi:10.1093/nar/gkr1028

The Gene Ontology: Enhancements for 2011

J. A. Blake, M. Dolan, H. Drabkin, D. P. Hill^*, L. Ni, D. Sitnikov, S. Burgess, T. Buza, C. Gresham, F. McCarthy, L. Pillai, H. Wang, S. Carbon, S. E. Lewis, C. J. Mungall, P. Gaudet, R. L. Chisholm, P. Fey, W. A. Kibbe, S. BasuD. A. Siegele, B. K. McIntosh, D. P. Renfro, A. E. Zweifel, J. C. Hu, N. H. Brown, S. Tweedie, Y. Alam-Faruque, R. Apweiler, A. Auchinchloss, K. Axelsen, G. Argoud-Puy, B. Bely, M. C. Blatter, L. Bougueleret, E. Boutet, S. Branconi-Quintaje, L. Breuza, A. Bridge, P. Browne, W. M. Chan, E. Coudert, I. Cusin, E. Dimmer, P. Duek-Roggli, R. Eberhardt, A. Estreicher, L. Famiglietti, S. Ferro-Rojas, M. Feuermann, M. Gardner, A. Gos, N. Gruaz-Gumowski, U. Hinz, C. Hulo, R. Huntley, J. James, S. Jimenez, F. Jungo, G. Keller, K. Laiho, D. Legge, P. Lemercier, D. Lieberherr, M. Magrane, M. J. Martin, P. Masson, M. Moinat, C. O'Donovan, I. Pedruzzi, K. Pichler, D. Poggioli, P. Porras Millán, S. Poux, C. Rivoire, B. Roechert, T. Sawford, M. Schneider, H. Sehra, E. Stanley, A. Stutz, S. Sundaram, M. Tognolli, I. Xenarios, R. Foulger, J. Lomax, P. Roncaglia, E. Camon, V. K. Khodiyar, R. C. Lovering, P. J. Talmud, M. Chibucos, M. Gwinn Giglio, K. Dolinski, S. Heinicke, M. S. Livstone, R. Stephan, M. A. Harris, S. G. Oliver, K. Rutherford, V. Wood, J. Bahler, A. Lock, P. J. Kersey, M. D. McDowall, D. M. Staines, M. Dwinell, M. Shimoyama, S. Laulederkind, T. Hayman, S. J. Wang, V. Petri, T. Lowry, P. D'Eustachio, L. Matthews, C. D. Amundsen, R. Balakrishnan, G. Binkley, J. M. Cherry, K. R. Christie, M. C. Costanzo, S. S. Dwight, S. R. Engel, D. G. Fisk, J. E. Hirschman, B. C. Hitz, E. L. Hong, K. Karra, C. J. Krieger, S. R. Miyasato, R. S. Nash, J. Park, M. S. Skrzypek, S. Weng, E. D. Wong, T. Z. Berardini, D. Li, E. Huala, D. Slonim, H. Wick, P. Thomas, J. Chan, R. Kishore, P. Sternberg, K. Van Auken, D. Howe, M. Westerfield

^*Corresponding author for this work

FSM Office for Research

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191 Scopus citations

Abstract

The Gene Ontology (GO) (http://www.geneontology .org) is a community bioinformatics resource that represents gene product function through the use of structured, controlled vocabularies. The number of GO annotations of gene products has increased due to curation efforts among GO Consortium (GOC) groups, including focused literature-based annotation and ortholog-based functional inference. The GO ontologies continue to expand and improve as a result of targeted ontology development, including the introduction of computable logical definitions and development of new tools for the streamlined addition of terms to the ontology. The GOC continues to support its user community through the use of e-mail lists, social media and web-based resources.

Original language	English (US)
Pages (from-to)	D559-D564
Journal	Nucleic acids research
Volume	40
Issue number	D1
DOIs	https://doi.org/10.1093/nar/gkr1028
State	Published - Jan 2012

Funding

National Human Genome Research Institute (NHGRI) (P41 grant 5P41HG002273-09 to Gene Ontology Consortium) and European Union RTD Programme ‘Quality of Life and Management of Living Resources’ (QLRI-CT-2001-00981 and QLRI-CT-2001-00015 to GO and UniProtKB-GOA groups at EMBL-EBI). Funding for open access charge: National Human Genome Research Institute (NHGRI) (P41 grant 5P41HG002273-09).

ASJC Scopus subject areas

Genetics

Access to Document

10.1093/nar/gkr1028

Cite this

Blake, J. A., Dolan, M., Drabkin, H., Hill, D. P., Ni, L., Sitnikov, D., Burgess, S., Buza, T., Gresham, C., McCarthy, F., Pillai, L., Wang, H., Carbon, S., Lewis, S. E., Mungall, C. J., Gaudet, P., Chisholm, R. L., Fey, P., Kibbe, W. A., ... Westerfield, M. (2012). The Gene Ontology: Enhancements for 2011. Nucleic acids research, 40(D1), D559-D564. https://doi.org/10.1093/nar/gkr1028

@article{bb132e02bef64498873ef91352f82b5f,

title = "The Gene Ontology: Enhancements for 2011",

abstract = "The Gene Ontology (GO) (http://www.geneontology .org) is a community bioinformatics resource that represents gene product function through the use of structured, controlled vocabularies. The number of GO annotations of gene products has increased due to curation efforts among GO Consortium (GOC) groups, including focused literature-based annotation and ortholog-based functional inference. The GO ontologies continue to expand and improve as a result of targeted ontology development, including the introduction of computable logical definitions and development of new tools for the streamlined addition of terms to the ontology. The GOC continues to support its user community through the use of e-mail lists, social media and web-based resources.",

author = "Blake, {J. A.} and M. Dolan and H. Drabkin and Hill, {D. P.} and L. Ni and D. Sitnikov and S. Burgess and T. Buza and C. Gresham and F. McCarthy and L. Pillai and H. Wang and S. Carbon and Lewis, {S. E.} and Mungall, {C. J.} and P. Gaudet and Chisholm, {R. L.} and P. Fey and Kibbe, {W. A.} and S. Basu and Siegele, {D. A.} and McIntosh, {B. K.} and Renfro, {D. P.} and Zweifel, {A. E.} and Hu, {J. C.} and Brown, {N. H.} and S. Tweedie and Y. Alam-Faruque and R. Apweiler and A. Auchinchloss and K. Axelsen and G. Argoud-Puy and B. Bely and Blatter, {M. C.} and L. Bougueleret and E. Boutet and S. Branconi-Quintaje and L. Breuza and A. Bridge and P. Browne and Chan, {W. M.} and E. Coudert and I. Cusin and E. Dimmer and P. Duek-Roggli and R. Eberhardt and A. Estreicher and L. Famiglietti and S. Ferro-Rojas and M. Feuermann and M. Gardner and A. Gos and N. Gruaz-Gumowski and U. Hinz and C. Hulo and R. Huntley and J. James and S. Jimenez and F. Jungo and G. Keller and K. Laiho and D. Legge and P. Lemercier and D. Lieberherr and M. Magrane and Martin, {M. J.} and P. Masson and M. Moinat and C. O'Donovan and I. Pedruzzi and K. Pichler and D. Poggioli and {Porras Mill{\'a}n}, P. and S. Poux and C. Rivoire and B. Roechert and T. Sawford and M. Schneider and H. Sehra and E. Stanley and A. Stutz and S. Sundaram and M. Tognolli and I. Xenarios and R. Foulger and J. Lomax and P. Roncaglia and E. Camon and Khodiyar, {V. K.} and Lovering, {R. C.} and Talmud, {P. J.} and M. Chibucos and {Gwinn Giglio}, M. and K. Dolinski and S. Heinicke and Livstone, {M. S.} and R. Stephan and Harris, {M. A.} and Oliver, {S. G.} and K. Rutherford and V. Wood and J. Bahler and A. Lock and Kersey, {P. J.} and McDowall, {M. D.} and Staines, {D. M.} and M. Dwinell and M. Shimoyama and S. Laulederkind and T. Hayman and Wang, {S. J.} and V. Petri and T. Lowry and P. D'Eustachio and L. Matthews and Amundsen, {C. D.} and R. Balakrishnan and G. Binkley and Cherry, {J. M.} and Christie, {K. R.} and Costanzo, {M. C.} and Dwight, {S. S.} and Engel, {S. R.} and Fisk, {D. G.} and Hirschman, {J. E.} and Hitz, {B. C.} and Hong, {E. L.} and K. Karra and Krieger, {C. J.} and Miyasato, {S. R.} and Nash, {R. S.} and J. Park and Skrzypek, {M. S.} and S. Weng and Wong, {E. D.} and Berardini, {T. Z.} and D. Li and E. Huala and D. Slonim and H. Wick and P. Thomas and J. Chan and R. Kishore and P. Sternberg and {Van Auken}, K. and D. Howe and M. Westerfield",

note = "Funding Information: National Human Genome Research Institute (NHGRI) (P41 grant 5P41HG002273-09 to Gene Ontology Consortium) and European Union RTD Programme {\textquoteleft}Quality of Life and Management of Living Resources{\textquoteright} (QLRI-CT-2001-00981 and QLRI-CT-2001-00015 to GO and UniProtKB-GOA groups at EMBL-EBI). Funding for open access charge: National Human Genome Research Institute (NHGRI) (P41 grant 5P41HG002273-09).",

year = "2012",

month = jan,

doi = "10.1093/nar/gkr1028",

language = "English (US)",

volume = "40",

pages = "D559--D564",

journal = "Nucleic acids research",

issn = "0305-1048",

publisher = "Oxford University Press",

number = "D1",

}

Blake, JA, Dolan, M, Drabkin, H, Hill, DP, Ni, L, Sitnikov, D, Burgess, S, Buza, T, Gresham, C, McCarthy, F, Pillai, L, Wang, H, Carbon, S, Lewis, SE, Mungall, CJ, Gaudet, P, Chisholm, RL, Fey, P, Kibbe, WA, Basu, S, Siegele, DA, McIntosh, BK, Renfro, DP, Zweifel, AE, Hu, JC, Brown, NH, Tweedie, S, Alam-Faruque, Y, Apweiler, R, Auchinchloss, A, Axelsen, K, Argoud-Puy, G, Bely, B, Blatter, MC, Bougueleret, L, Boutet, E, Branconi-Quintaje, S, Breuza, L, Bridge, A, Browne, P, Chan, WM, Coudert, E, Cusin, I, Dimmer, E, Duek-Roggli, P, Eberhardt, R, Estreicher, A, Famiglietti, L, Ferro-Rojas, S, Feuermann, M, Gardner, M, Gos, A, Gruaz-Gumowski, N, Hinz, U, Hulo, C, Huntley, R, James, J, Jimenez, S, Jungo, F, Keller, G, Laiho, K, Legge, D, Lemercier, P, Lieberherr, D, Magrane, M, Martin, MJ, Masson, P, Moinat, M, O'Donovan, C, Pedruzzi, I, Pichler, K, Poggioli, D, Porras Millán, P, Poux, S, Rivoire, C, Roechert, B, Sawford, T, Schneider, M, Sehra, H, Stanley, E, Stutz, A, Sundaram, S, Tognolli, M, Xenarios, I, Foulger, R, Lomax, J, Roncaglia, P, Camon, E, Khodiyar, VK, Lovering, RC, Talmud, PJ, Chibucos, M, Gwinn Giglio, M, Dolinski, K, Heinicke, S, Livstone, MS, Stephan, R, Harris, MA, Oliver, SG, Rutherford, K, Wood, V, Bahler, J, Lock, A, Kersey, PJ, McDowall, MD, Staines, DM, Dwinell, M, Shimoyama, M, Laulederkind, S, Hayman, T, Wang, SJ, Petri, V, Lowry, T, D'Eustachio, P, Matthews, L, Amundsen, CD, Balakrishnan, R, Binkley, G, Cherry, JM, Christie, KR, Costanzo, MC, Dwight, SS, Engel, SR, Fisk, DG, Hirschman, JE, Hitz, BC, Hong, EL, Karra, K, Krieger, CJ, Miyasato, SR, Nash, RS, Park, J, Skrzypek, MS, Weng, S, Wong, ED, Berardini, TZ, Li, D, Huala, E, Slonim, D, Wick, H, Thomas, P, Chan, J, Kishore, R, Sternberg, P, Van Auken, K, Howe, D & Westerfield, M 2012, 'The Gene Ontology: Enhancements for 2011', Nucleic acids research, vol. 40, no. D1, pp. D559-D564. https://doi.org/10.1093/nar/gkr1028

TY - JOUR

T1 - The Gene Ontology

T2 - Enhancements for 2011

AU - Blake, J. A.

AU - Dolan, M.

AU - Drabkin, H.

AU - Hill, D. P.

AU - Ni, L.

AU - Sitnikov, D.

AU - Burgess, S.

AU - Buza, T.

AU - Gresham, C.

AU - McCarthy, F.

AU - Pillai, L.

AU - Wang, H.

AU - Carbon, S.

AU - Lewis, S. E.

AU - Mungall, C. J.

AU - Gaudet, P.

AU - Chisholm, R. L.

AU - Fey, P.

AU - Kibbe, W. A.

AU - Basu, S.

AU - Siegele, D. A.

AU - McIntosh, B. K.

AU - Renfro, D. P.

AU - Zweifel, A. E.

AU - Hu, J. C.

AU - Brown, N. H.

AU - Tweedie, S.

AU - Alam-Faruque, Y.

AU - Apweiler, R.

AU - Auchinchloss, A.

AU - Axelsen, K.

AU - Argoud-Puy, G.

AU - Bely, B.

AU - Blatter, M. C.

AU - Bougueleret, L.

AU - Boutet, E.

AU - Branconi-Quintaje, S.

AU - Breuza, L.

AU - Bridge, A.

AU - Browne, P.

AU - Chan, W. M.

AU - Coudert, E.

AU - Cusin, I.

AU - Dimmer, E.

AU - Duek-Roggli, P.

AU - Eberhardt, R.

AU - Estreicher, A.

AU - Famiglietti, L.

AU - Ferro-Rojas, S.

AU - Feuermann, M.

AU - Gardner, M.

AU - Gos, A.

AU - Gruaz-Gumowski, N.

AU - Hinz, U.

AU - Hulo, C.

AU - Huntley, R.

AU - James, J.

AU - Jimenez, S.

AU - Jungo, F.

AU - Keller, G.

AU - Laiho, K.

AU - Legge, D.

AU - Lemercier, P.

AU - Lieberherr, D.

AU - Magrane, M.

AU - Martin, M. J.

AU - Masson, P.

AU - Moinat, M.

AU - O'Donovan, C.

AU - Pedruzzi, I.

AU - Pichler, K.

AU - Poggioli, D.

AU - Porras Millán, P.

AU - Poux, S.

AU - Rivoire, C.

AU - Roechert, B.

AU - Sawford, T.

AU - Schneider, M.

AU - Sehra, H.

AU - Stanley, E.

AU - Stutz, A.

AU - Sundaram, S.

AU - Tognolli, M.

AU - Xenarios, I.

AU - Foulger, R.

AU - Lomax, J.

AU - Roncaglia, P.

AU - Camon, E.

AU - Khodiyar, V. K.

AU - Lovering, R. C.

AU - Talmud, P. J.

AU - Chibucos, M.

AU - Gwinn Giglio, M.

AU - Dolinski, K.

AU - Heinicke, S.

AU - Livstone, M. S.

AU - Stephan, R.

AU - Harris, M. A.

AU - Oliver, S. G.

AU - Rutherford, K.

AU - Wood, V.

AU - Bahler, J.

AU - Lock, A.

AU - Kersey, P. J.

AU - McDowall, M. D.

AU - Staines, D. M.

AU - Dwinell, M.

AU - Shimoyama, M.

AU - Laulederkind, S.

AU - Hayman, T.

AU - Wang, S. J.

AU - Petri, V.

AU - Lowry, T.

AU - D'Eustachio, P.

AU - Matthews, L.

AU - Amundsen, C. D.

AU - Balakrishnan, R.

AU - Binkley, G.

AU - Cherry, J. M.

AU - Christie, K. R.

AU - Costanzo, M. C.

AU - Dwight, S. S.

AU - Engel, S. R.

AU - Fisk, D. G.

AU - Hirschman, J. E.

AU - Hitz, B. C.

AU - Hong, E. L.

AU - Karra, K.

AU - Krieger, C. J.

AU - Miyasato, S. R.

AU - Nash, R. S.

AU - Park, J.

AU - Skrzypek, M. S.

AU - Weng, S.

AU - Wong, E. D.

AU - Berardini, T. Z.

AU - Li, D.

AU - Huala, E.

AU - Slonim, D.

AU - Wick, H.

AU - Thomas, P.

AU - Chan, J.

AU - Kishore, R.

AU - Sternberg, P.

AU - Van Auken, K.

AU - Howe, D.

AU - Westerfield, M.

N1 - Funding Information: National Human Genome Research Institute (NHGRI) (P41 grant 5P41HG002273-09 to Gene Ontology Consortium) and European Union RTD Programme ‘Quality of Life and Management of Living Resources’ (QLRI-CT-2001-00981 and QLRI-CT-2001-00015 to GO and UniProtKB-GOA groups at EMBL-EBI). Funding for open access charge: National Human Genome Research Institute (NHGRI) (P41 grant 5P41HG002273-09).

PY - 2012/1

Y1 - 2012/1

N2 - The Gene Ontology (GO) (http://www.geneontology .org) is a community bioinformatics resource that represents gene product function through the use of structured, controlled vocabularies. The number of GO annotations of gene products has increased due to curation efforts among GO Consortium (GOC) groups, including focused literature-based annotation and ortholog-based functional inference. The GO ontologies continue to expand and improve as a result of targeted ontology development, including the introduction of computable logical definitions and development of new tools for the streamlined addition of terms to the ontology. The GOC continues to support its user community through the use of e-mail lists, social media and web-based resources.

AB - The Gene Ontology (GO) (http://www.geneontology .org) is a community bioinformatics resource that represents gene product function through the use of structured, controlled vocabularies. The number of GO annotations of gene products has increased due to curation efforts among GO Consortium (GOC) groups, including focused literature-based annotation and ortholog-based functional inference. The GO ontologies continue to expand and improve as a result of targeted ontology development, including the introduction of computable logical definitions and development of new tools for the streamlined addition of terms to the ontology. The GOC continues to support its user community through the use of e-mail lists, social media and web-based resources.

UR - http://www.scopus.com/inward/record.url?scp=84859699831&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84859699831&partnerID=8YFLogxK

U2 - 10.1093/nar/gkr1028

DO - 10.1093/nar/gkr1028

M3 - Article

C2 - 22102568

AN - SCOPUS:84859699831

SN - 0305-1048

VL - 40

SP - D559-D564

JO - Nucleic acids research

JF - Nucleic acids research

IS - D1

ER -

The Gene Ontology: Enhancements for 2011

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