The UniProt-GO Annotation database in 2011

被引：325

作者：

Dimmer, Emily C. ^{[1
]}

Huntley, Rachael P. ^{[1
]}

Alam-Faruque, Yasmin ^{[1
]}

Sawford, Tony ^{[1
]}

O'Donovan, Claire ^{[1
]}

Martin, Maria J. ^{[1
]}

Bely, Benoit ^{[1
]}

Browne, Paul ^{[1
]}

Chan, Wei Mun ^{[1
]}

Eberhardt, Ruth ^{[1
]}

Gardner, Michael ^{[1
]}

Laiho, Kati ^{[1
]}

Legge, Duncan ^{[1
]}

Magrane, Michele ^{[1
]}

Pichler, Klemens ^{[1
]}

Poggioli, Diego ^{[1
]}

Sehra, Harminder ^{[1
]}

Auchincloss, Andrea ^{[2
]}

Axelsen, Kristian ^{[2
]}

Blatter, Marie-Claude ^{[2
]}

Boutet, Emmanuel ^{[2
]}

Braconi-Quintaje, Silvia ^{[2
]}

Breuza, Lionel ^{[2
]}

Bridge, Alan ^{[2
]}

Coudert, Elizabeth ^{[2
]}

Estreicher, Anne ^{[2
]}

Famiglietti, Livia ^{[2
]}

Ferro-Rojas, Serenella ^{[2
]}

Feuermann, Marc ^{[2
]}

Gos, Arnaud ^{[2
]}

Gruaz-Gumowski, Nadine ^{[2
]}

Hinz, Ursula ^{[2
]}

Hulo, Chantal ^{[2
]}

James, Janet ^{[2
]}

Jimenez, Silvia ^{[2
]}

Jungo, Florence ^{[2
]}

Keller, Guillaume ^{[2
]}

Lemercier, Phillippe ^{[2
]}

Lieberherr, Damien ^{[2
]}

Masson, Patrick ^{[2
]}

Moinat, Madelaine ^{[2
]}

Pedruzzi, Ivo ^{[2
]}

Poux, Sylvain ^{[2
]}

Rivoire, Catherine ^{[2
]}

Roechert, Bernd ^{[2
]}

Schneider, Michael ^{[2
]}

Stutz, Andre ^{[2
]}

Sundaram, Shyamala ^{[2
]}

Tognolli, Michael ^{[2
]}

Bougueleret, Lydie ^{[2
]}

机构：

[1] European Bioinformat Inst, Cambridge CB10 1SD, England

[2] CMU, Swiss Inst Bioinformat, Swiss Prot Grp, CH-1211 Geneva 4, Switzerland

[3] CMU, Swiss Inst Bioinformat, CALIPHO Grp, CH-1211 Geneva 4, Switzerland

[4] Quartier Sorge, Vital IT Grp, CH-1015 Lausanne, Switzerland

来源：

NUCLEIC ACIDS RESEARCH | 2012年 / 40卷 / D1期

基金：

美国国家卫生研究院;

关键词：

D O I：

10.1093/nar/gkr1048

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The GO annotation dataset provided by the UniProt Consortium (GOA: http://www.ebi.ac.uk/GOA) is a comprehensive set of evidenced-based associations between terms from the Gene Ontology resource and UniProtKB proteins. Currently supplying over 100 million annotations to 11 million proteins in more than 360 000 taxa, this resource has increased 2-fold over the last 2 years and has benefited from a wealth of checks to improve annotation correctness and consistency as well as now supplying a greater information content enabled by GO Consortium annotation format developments. Detailed, manual GO annotations obtained from the curation of peer-reviewed papers are directly contributed by all UniProt curators and supplemented with manual and electronic annotations from 36 model organism and domain-focused scientific resources. The inclusion of high-quality, automatic annotation predictions ensures the UniProt GO annotation dataset supplies functional information to a wide range of proteins, including those from poorly characterized, non-model organism species. UniProt GO annotations are freely available in a range of formats accessible by both file downloads and web-based views. In addition, the introduction of a new, normalized file format in 2010 has made for easier handling of the complete UniProt-GOA data set.

引用

页码：D565 / D570

页数：6

共 25 条

[1] The Renal Gene Ontology Annotation Initiative
Alam-Faruque, Yasmin
Dimmer, Emily C.
Huntley, Rachael P.
O'Donovan, Claire
Scambler, Peter
Apweiler, Rolf
[J]. ORGANOGENESIS, 2010, 6 (02) : 71 - 75
[2] Reorganizing the protein space at the Universal Protein Resource (UniProt)
Apweiler, Rolf
Martin, Maria Jesus
O'Donovan, Claire
Magrane, Michele
Alam-Faruque, Yasmin
Antunes, Ricardo
Casanova, Elisabet Barrera
Bely, Benoit
Bingley, Mark
Bower, Lawrence
Bursteinas, Borisas
Chan, Wei Mun
Chavali, Gayatri
Da Silva, Alan
Dimmer, Emily
Eberhardt, Ruth
Fazzini, Francesco
Fedotov, Alexander
Garavelli, John
Castro, Leyla Garcia
Gardner, Michael
Hieta, Reija
Huntley, Rachael
Jacobsen, Julius
Legge, Duncan
Liu, Wudong
Luo, Jie
Orchard, Sandra
Patient, Samuel
Pichler, Klemens
Poggioli, Diego
Pontikos, Nikolas
Pundir, Sangya
Rosanoff, Steven
Sawford, Tony
Sehra, Harminder
Turner, Edward
Wardell, Tony
Watkins, Xavier
Corbett, Matt
Donnelly, Mike
van Rensburg, Pieter
Goujon, Mickael
McWilliam, Hamish
Lopez, Rodrigo
Xenarios, Ioannis
Bougueleret, Lydie
Bridge, Alan
Poux, Sylvain
Redaschi, Nicole
[J]. NUCLEIC ACIDS RESEARCH, 2012, 40 (D1) : D71 - D75
[3] Ongoing and future developments at the Universal Protein Resource
Apweiler, Rolf
Martin, Maria Jesus
O'Donovan, Claire
Magrane, Michele
Alam-Faruque, Yasmin
Antunes, Ricardo
Barrell, Daniel
Bely, Benoit
Bingley, Mark
Binns, David
Bower, Lawrence
Browne, Paul
Chan, Wei Mun
Dimmer, Emily
Eberhardt, Ruth
Fazzini, Francesco
Fedotov, Alexander
Foulger, Rebecca
Garavelli, John
Castro, Leyla Garcia
Huntley, Rachael
Jacobsen, Julius
Kleen, Michael
Laiho, Kati
Legge, Duncan
Lin, Quan
Liu, Wudong
Luo, Jie
Orchard, Sandra
Patient, Samuel
Pichler, Klemens
Poggioli, Diego
Pontikos, Nikolas
Pruess, Manuela
Rosanoff, Steven
Sawford, Tony
Sehra, Harminder
Turner, Edward
Corbett, Matt
Donnelly, Mike
van Rensburg, Pieter
Xenarios, Ioannis
Bougueleret, Lydie
Auchincloss, Andrea
Argoud-Puy, Ghislaine
Axelsen, Kristian
Bairoch, Amos
Baratin, Delphine
Blatter, Marie-Claude
Boeckmann, Brigitte
[J]. NUCLEIC ACIDS RESEARCH, 2011, 39 : D214 - D219
[4] The IntAct molecular interaction database in 2010
Aranda, B.
Achuthan, P.
Alam-Faruque, Y.
Armean, I.
Bridge, A.
Derow, C.
Feuermann, M.
Ghanbarian, A. T.
Kerrien, S.
Khadake, J.
Kerssemakers, J.
Leroy, C.
Menden, M.
Michaut, M.
Montecchi-Palazzi, L.
Neuhauser, S. N.
Orchard, S.
Perreau, V.
Roechert, B.
van Eijk, K.
Hermjakob, H.
[J]. NUCLEIC ACIDS RESEARCH, 2010, 38 : D525 - D531
[5] The GOA database in 2009-an integrated Gene Ontology Annotation resource
Barrell, Daniel
Dimmer, Emily
Huntley, Rachael P.
Binns, David
O'Donovan, Claire
Apweiler, Rolf
[J]. NUCLEIC ACIDS RESEARCH, 2009, 37 : D396 - D403
[6] The Gene Ontology in 2010: extensions and refinements The Gene Ontology Consortium
Berardini, Tanya Z.
Li, Donghui
Huala, Eva
Bridges, Susan
Burgess, Shane
McCarthy, Fiona
Carbon, Seth
Lewis, Suzanna E.
Mungall, Christopher J.
Abdulla, Amina
Wood, Valerie
Feltrin, Erika
Valle, Giorgio
Chisholm, Rex L.
Fey, Petra
Gaudet, Pascale
Kibbe, Warren
Basu, Siddhartha
Bushmanova, Yulia
Eilbeck, Karen
Siegele, Deborah A.
McIntosh, Brenley
Renfro, Daniel
Zweifel, Adrienne
Hu, James C.
Ashburner, Michael
Tweedie, Susan
Alam-Faruque, Yasmin
Apweiler, Rolf
Auchinchloss, Andrea
Bairoch, Amos
Barrell, Daniel
Binns, David
Blatter, Marie-Claude
Bougueleret, Lydie
Boutet, Emmanuel
Breuza, Lionel
Bridge, Alan
Browne, Paul
Chan, Wei Mun
Coudert, Elizabeth
Daugherty, Louise
Dimmer, Emily
Eberhardt, Ruth
Estreicher, Anne
Famiglietti, Livia
Ferro-Rojas, Serenella
Feuermann, Marc
Foulger, Rebecca
Gruaz-Gumowski, Nadine
[J]. NUCLEIC ACIDS RESEARCH, 2010, 38 : D331 - D335
[7] QuickGO: a web-based tool for Gene Ontology searching
Binns, David
Dimmer, Emily
Huntley, Rachael
Barrell, Daniel
O'Donovan, Claire
Apweiler, Rolf
[J]. BIOINFORMATICS, 2009, 25 (22) : 3045 - 3046
[8] The Gene Ontology: enhancements for 2011
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.
Basu, S.
Siegele, D. A.
McIntosh, B. K.
Renfro, D. P.
Zweifel, A. E.
Hu, J. C.
Brown, N. H.
Tweedie, S.
Alam-Faruque, Y.
Apweiler, R.
Auchinchloss, A.
Axelsen, K.
Argoud-Puy, G.
Bely, B.
Blatter, M. -C.
Bougueleret, L.
Boutet, E.
Branconi-Quintaje, S.
Breuza, L.
Bridge, A.
Browne, P.
Chan, W. M.
Coudert, E.
Cusin, I.
Dimmer, E.
Duek-Roggli, P.
Eberhardt, R.
Estreicher, A.
Famiglietti, L.
Ferro-Rojas, S.
Feuermann, M.
[J]. NUCLEIC ACIDS RESEARCH, 2012, 40 (D1) : D559 - D564
[9] The comprehensive microbial resource
Davidsen, Tanja
Beck, Erin
Ganapathy, Anuradha
Montgomery, Robert
Zafar, Nikhat
Yang, Qi
Madupu, Ramana
Goetz, Phil
Galinsky, Kevin
White, Owen
Sutton, Granger
[J]. NUCLEIC ACIDS RESEARCH, 2010, 38 : D340 - D345
[10] Chemical Entities of Biological Interest: an update
de Matos, Paula
Alcantara, Rafael
Dekker, Adriano
Ennis, Marcus
Hastings, Janna
Haug, Kenneth
Spiteri, Inmaculada
Turner, Steve
Steinbeck, Christoph
[J]. NUCLEIC ACIDS RESEARCH, 2010, 38 : D249 - D254

← 1 2 3 →