Nucleic Acids Research, 2004, Vol. 32, Database issue D258-D261
© 2004 Oxford University Press
The Gene Ontology (GO) database and informatics resource
GO-EBI, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
*Correspondence should be addressed to GO-EBI, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK. Tel. +44 1223 494667; Fax: +44 1223 494468; Email: midori{at}ebi.ac.uk
*Current members of the GO Consortium are: M. A. Harris, J. Clark, A. Ireland, J. Lomax (GO-EBI, Hinxton, UK); M. Ashburner, R. Foulger (FlyBase, Department of Genetics, University of Cambridge, Cambridge, UK); K. Eilbeck, S. Lewis, B. Marshall, C. Mungall, J. Richter, G. M. Rubin (BDGP, UC-Berkeley, Berkeley, CA, USA), J. A. Blake, C. Bult, M. Dolan, H. Drabkin, J. T. Eppig, D. P. Hill, L. Ni, M. Ringwald (MGI, Jackson Laboratory, Bar Harbor, ME, USA); R. Balakrishnan, J. M. Cherry, K. R. Christie, M. C. Costanzo, S. S. Dwight, S. Engel, D. G. Fisk, J. E. Hirschman, E. L. Hong, R. S. Nash, A. Sethuraman, C. L. Theesfeld (SGD, Department of Genetics, Stanford University, Stanford, CA, USA); D. Botstein, K. Dolinski, B. Feierbach (Genomics Institute, Princeton University, Princeton, NJ, USA); T. Berardini, S. Mundodi, S. Y. Rhee (TAIR, Carnegie Institution, Department of Plant Biology, Stanford, CA, USA); R. Apweiler, D. Barrell, E. Camon, E. Dimmer, V. Lee (GOA database, UniProt, EBI, Hinxton, UK); R. Chisholm, P. Gaudet, W. Kibbe (DictyBase, Northwestern University, Chicago, IL, USA); R. Kishore, E. M. Schwarz, P. Sternberg (WormBase, California Institute of Technology, Pasadena, CA, USA); M. Gwinn, L. Hannick, J. Wortman (Institute for Genome Research, Rockville, MD, USA); M. Berriman, V. Wood (Wellcome Trust Sanger Institute, Hinxton, UK); N. de la Cruz, P. Tonellato (RGD, Medical College of Wisconsin, Milwaukee, WI, USA); P. Jaiswal (Gramene, Department of Plant Breeding, Cornell University, Ithaca, NY, USA); T. Seigfried (Maize DB, Iowa State University, Ames, IA, USA); R. White (Incyte Genomics, Palo Alto, CA, USA).
The Gene Ontology (GO) project (http://www. geneontology.org/) provides structured, controlled vocabularies and classifications that cover several domains of molecular and cellular biology and are freely available for community use in the annotation of genes, gene products and sequences. Many model organism databases and genome annotation groups use the GO and contribute their annotation sets to the GO resource. The GO database integrates the vocabularies and contributed annotations and provides full access to this information in several formats. Members of the GO Consortium continually work collectively, involving outside experts as needed, to expand and update the GO vocabularies. The GO Web resource also provides access to extensive documentation about the GO project and links to applications that use GO data for functional analyses.
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  W.-C. Lo, C.-C. Lee, C.-Y. Lee, and P.-C. Lyu CPDB: a database of circular permutation in proteins Nucleic Acids Res., October 8, 2008; (2008) gkn679v1. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. Zerlotini, M. Heiges, H. Wang, R. L. V. Moraes, A. J. Dominitini, J. C. Ruiz, J. C. Kissinger, and G. Oliveira SchistoDB: a Schistosoma mansoni genome resource Nucleic Acids Res., October 8, 2008; (2008) gkn681v1. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Li, P. Hao, S. Zheng, K. Tu, H. Fan, R. Zhu, G. Ding, C. Dong, C. Wang, X. Li, et al. Gene expression module-based chemical function similarity search Nucleic Acids Res., October 8, 2008; (2008) gkn610v1. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 W. Rodenburg, A. G. Heidema, J. M. A. Boer, I. M. J. Bovee-Oudenhoven, E. J. M. Feskens, E. C. M. Mariman, and J. Keijer A framework to identify physiological responses in microarray-based gene expression studies: selection and interpretation of biologically relevant genes Physiol Genomics, October 8, 2008; 33(1): 78 - 90. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. C. Berchtold, D. H. Cribbs, P. D. Coleman, J. Rogers, E. Head, R. Kim, T. Beach, C. Miller, J. Troncoso, J. Q. Trojanowski, et al. Gene expression changes in the course of normal brain aging are sexually dimorphic PNAS, October 7, 2008; 105(40): 15605 - 15610. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 T. Baas, A. Roberts, T. H. Teal, L. Vogel, J. Chen, T. M. Tumpey, M. G. Katze, and K. Subbarao Genomic Analysis Reveals Age-Dependent Innate Immune Responses to Severe Acute Respiratory Syndrome Coronavirus J. Virol., October 1, 2008; 82(19): 9465 - 9476. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. J. Furney, B. Calvo, P. Larranaga, J. A. Lozano, and N. Lopez-Bigas Prioritization of candidate cancer genes--an aid to oncogenomic studies Nucleic Acids Res., October 1, 2008; 36(18): e115 - e115. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. Fernandez, M. Lindholm, M. Krogh, S. Lucas, S. Larsson, P. Osmark, K. Berger, J. Boren, B. Fielding, K. Frayn, et al. Disturbed cholesterol homeostasis in hormone-sensitive lipase-null mice Am J Physiol Endocrinol Metab, October 1, 2008; 295(4): E820 - E831. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 H. Frohlich, M. Fellmann, H. Sultmann, A. Poustka, and T. Beissbarth Predicting pathway membership via domain signatures Bioinformatics, October 1, 2008; 24(19): 2137 - 2142. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. Tiffin, I. Okpechi, C. Perez-Iratxeta, M. A. Andrade-Navarro, and R. Ramesar Prioritization of candidate disease genes for metabolic syndrome by computational analysis of its defining phenotypes Physiol Genomics, September 17, 2008; 35(1): 55 - 64. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 F. Bakhshi-Raiez, R. Cornet, and N. F. de Keizer Development and Application of a Framework for Maintenance of Medical Terminological Systems J. Am. Med. Inform. Assoc., September 1, 2008; 15(5): 687 - 700. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 F. Yasuhara, G. R. O. Gomes, E. R. Siu, C. I. Suenaga, E. Marostica, C. S. Porto, and M. F. M. Lazari Effects of the Antiestrogen Fulvestrant (ICI 182,780) on Gene Expression of the Rat Efferent Ductules Biol Reprod, September 1, 2008; 79(3): 432 - 441. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A.M. Willemsen, G.A. Jansen, J.C. Komen, S. van Hooff, H.R. Waterham, P.M.T. Brites, R.J.A. Wanders, and A.H.C. van Kampen Organization and integration of biomedical knowledge with concept maps for key peroxisomal pathways Bioinformatics, August 15, 2008; 24(16): i21 - i27. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
I. Steinfeld, R. Navon, D. Ardigo, I. Zavaroni, and Z. Yakhini Clinically driven semi-supervised class discovery in gene expression data Bioinformatics, August 15, 2008; 24(16): i90 - i97. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. F. Saccone, N. L. Saccone, G. E. Swan, P. A. F. Madden, A. M. Goate, J. P. Rice, and L. J. Bierut Systematic biological prioritization after a genome-wide association study: an application to nicotine dependence Bioinformatics, August 15, 2008; 24(16): 1805 - 1811. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 G. D. Stoner, A. A. Dombkowski, R. K. Reen, D. Cukovic, S. Salagrama, L.-S. Wang, and J. F. Lechner Carcinogen-Altered Genes in Rat Esophagus Positively Modulated to Normal Levels of Expression by Both Black Raspberries and Phenylethyl Isothiocyanate Cancer Res., August 1, 2008; 68(15): 6460 - 6467. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. Krishnan and A. Pereira Integrative approaches for mining transcriptional regulatory programs in Arabidopsis Brief Funct Genomic Proteomic, July 16, 2008; (2008) eln035v1. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 E. Wingender The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation Brief Bioinform, July 1, 2008; 9(4): 326 - 332. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 I. Iossifov, T. Zheng, M. Baron, T. C. Gilliam, and A. Rzhetsky Genetic-linkage mapping of complex hereditary disorders to a whole-genome molecular-interaction network Genome Res., July 1, 2008; 18(7): 1150 - 1162. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 H. P. van Esse, J. W. van't Klooster, M. D. Bolton, K. A. Yadeta, P. van Baarlen, S. Boeren, J. Vervoort, P. J.G.M. de Wit, and B. P.H.J. Thomma The Cladosporium fulvum Virulence Protein Avr2 Inhibits Host Proteases Required for Basal Defense PLANT CELL, July 1, 2008; 20(7): 1948 - 1963. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Klammer, S. Roopra, and E. L. L. Sonnhammer jSquid: a Java applet for graphical on-line network exploration Bioinformatics, June 15, 2008; 24(12): 1467 - 1468. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M.-P. Gustin, C. Z. Paultre, J. Randon, G. Bricca, and C. Cerutti Functional meta-analysis of double connectivity in gene coexpression networks in mammals Physiol Genomics, June 10, 2008; 34(1): 34 - 41. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. Dragin, Z. Shi, R. Madan, C. L. Karp, M. A. Sartor, C. Chen, F. J. Gonzalez, and D. W. Nebert Phenotype of the Cyp1a1/1a2/1b1(-/-) Triple-Knockout Mouse Mol. Pharmacol., June 1, 2008; 73(6): 1844 - 1856. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Smid, Y. Wang, Y. Zhang, A. M. Sieuwerts, J. Yu, J. G.M. Klijn, J. A. Foekens, and J. W.M. Martens Subtypes of Breast Cancer Show Preferential Site of Relapse Cancer Res., May 1, 2008; 68(9): 3108 - 3114. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 E. A. Glazov, S. McWilliam, W. C. Barris, and B. P. Dalrymple Origin, Evolution, and Biological Role of miRNA Cluster in DLK-DIO3 Genomic Region in Placental Mammals Mol. Biol. Evol., May 1, 2008; 25(5): 939 - 948. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
T. Ideker and R. Sharan Protein networks in disease Genome Res., April 1, 2008; 18(4): 644 - 652. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Martens, K. Vandepoele, and Y. Van de Peer Whole-genome analysis reveals molecular innovations and evolutionary transitions in chromalveolate species PNAS, March 4, 2008; 105(9): 3427 - 3432. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
G. Valentini and N. Cesa-Bianchi HCGene: a software tool to support the hierarchical classification of genes Bioinformatics, March 1, 2008; 24(5): 729 - 731. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Nam, B. Kim, S. Shin, and S. Lee miRGator: an integrated system for functional annotation of microRNAs Nucleic Acids Res., January 11, 2008; 36(suppl_1): D159 - D164. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Diella, C. M. Gould, C. Chica, A. Via, and T. J. Gibson Phospho.ELM: a database of phosphorylation sites update 2008 Nucleic Acids Res., January 11, 2008; 36(suppl_1): D240 - D244. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
The Gene Ontology Consortium The Gene Ontology project in 2008 Nucleic Acids Res., January 11, 2008; 36(suppl_1): D440 - D444. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B.-J. Breitkreutz, C. Stark, T. Reguly, L. Boucher, A. Breitkreutz, M. Livstone, R. Oughtred, D. H. Lackner, J. Bahler, V. Wood, et al. The BioGRID Interaction Database: 2008 update Nucleic Acids Res., January 11, 2008; 36(suppl_1): D637 - D640. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. D. Glasner, G. Plunkett III, B. D. Anderson, D. J. Baumler, B. S. Biehl, V. Burland, E. L. Cabot, A. E. Darling, B. Mau, E. C. Neeno-Eckwall, et al. Enteropathogen Resource Integration Center (ERIC): bioinformatics support for research on biodefense-relevant enterobacteria Nucleic Acids Res., January 11, 2008; 36(suppl_1): D519 - D523. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Duvick, A. Fu, U. Muppirala, M. Sabharwal, M. D. Wilkerson, C. J. Lawrence, C. Lushbough, and V. Brendel PlantGDB: a resource for comparative plant genomics Nucleic Acids Res., January 11, 2008; 36(suppl_1): D959 - D965. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Jung, M. Staton, T. Lee, A. Blenda, R. Svancara, A. Abbott, and D. Main GDR (Genome Database for Rosaceae): integrated web-database for Rosaceae genomics and genetics data Nucleic Acids Res., January 11, 2008; 36(suppl_1): D1034 - D1040. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. L. Rubin, N. H. Shah, and N. F. Noy Biomedical ontologies: a functional perspective Brief Bioinform, January 1, 2008; 9(1): 75 - 90. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. Dotan-Cohen, A. A. Melkman, and S. Kasif Hierarchical tree snipping: clustering guided by prior knowledge Bioinformatics, December 15, 2007; 23(24): 3335 - 3342. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. D. Karp, I. M. Keseler, A. Shearer, M. Latendresse, M. Krummenacker, S. M. Paley, I. Paulsen, J. Collado-Vides, S. Gama-Castro, M. Peralta-Gil, et al. Multidimensional annotation of the Escherichia coli K-12 genome Nucleic Acids Res., December 3, 2007; 35(22): 7577 - 7590. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
G. Spudich, X. M. Fernandez-Suarez, and E. Birney Genome browsing with Ensembl: a practical overview Brief Funct Genomic Proteomic, October 29, 2007; (2007) elm025v1. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. Huhne, F.-T. Koch, and J. Suhnel A comparative view at comprehensive information resources on three-dimensional structures of biological macro-molecules Brief Funct Genomic Proteomic, October 23, 2007; (2007) elm020v1. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Adjaye, R. Herwig, T. C. Brink, D. Herrmann, B. Greber, S. Sudheer, D. Groth, J. W. Carnwath, H. Lehrach, and H. Niemann Conserved molecular portraits of bovine and human blastocysts as a consequence of the transition from maternal to embryonic control of gene expression Physiol Genomics, October 19, 2007; 31(2): 315 - 327. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. Cakmak and G. Ozsoyoglu Mining biological networks for unknown pathways Bioinformatics, October 15, 2007; 23(20): 2775 - 2783. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Brouard, E. Mansfield, C. Braud, L. Li, M. Giral, S.-c. Hsieh, D. Baeten, M. Zhang, J. Ashton-Chess, C. Braudeau, et al. Identification of a peripheral blood transcriptional biomarker panel associated with operational renal allograft tolerance PNAS, September 25, 2007; 104(39): 15448 - 15453. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. S. Srinivasan, N. H. Shah, J. A. Flannick, E. Abeliuk, A. F. Novak, and S. Batzoglou Current progress in network research: toward reference networks for key model organisms Brief Bioinform, September 1, 2007; 8(5): 318 - 332. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Yu, R. Jansen, G. Stolovitzky, and M. Gerstein Total ancestry measure: quantifying the similarity in tree-like classification, with genomic applications Bioinformatics, August 15, 2007; 23(16): 2163 - 2173. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Z. Guo, Y. Li, X. Gong, C. Yao, W. Ma, D. Wang, Y. Li, J. Zhu, M. Zhang, D. Yang, et al. Edge-based scoring and searching method for identifying condition-responsive protein protein interaction sub-network Bioinformatics, August 15, 2007; 23(16): 2121 - 2128. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. R. Bush, J. M. Havens, B. M. Necela, W. Su, L. Chen, M. Yanagisawa, P. Z. Anastasiadis, R. Guerra, B. A. Luxon, and E. A. Thompson Functional Genomic Analysis Reveals Cross-talk between Peroxisome Proliferator-activated Receptor {gamma} and Calcium Signaling in Human Colorectal Cancer Cells J. Biol. Chem., August 10, 2007; 282(32): 23387 - 23401. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Sudheer and J. Adjaye Functional genomics of human pre-implantation development Brief Funct Genomic Proteomic, July 31, 2007; (2007) elm012v1. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y.-C. Chen, Y.-S. Lo, W.-C. Hsu, and J.-M. Yang 3D-partner: a web server to infer interacting partners and binding models Nucleic Acids Res., July 13, 2007; 35(suppl_2): W561 - W567. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Degenhardt, M. Haubrock, J. Donitz, E. Wingender, and T. Crass DEEP--A tool for differential expression effector prediction Nucleic Acids Res., July 13, 2007; 35(suppl_2): W619 - W624. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. K. Reen, A. A. Dombkowski, L. A. Kresty, D. Cukovic, J. M. Mele, S. Salagrama, R. Nines, and G. D. Stoner Effects of Phenylethyl Isothiocyanate on Early Molecular Events in N-Nitrosomethylbenzylamine-Induced Cytotoxicity in Rat Esophagus Cancer Res., July 1, 2007; 67(13): 6484 - 6492. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 L. Yin and B. A. Dale Activation of protective responses in oral epithelial cells by Fusobacterium nucleatum and human {beta}-defensin-2 J. Med. Microbiol., July 1, 2007; 56(7): 976 - 987. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. J. Mungall, D. B. Emmert, and The FlyBase Consortium A Chado case study: an ontology-based modular schema for representing genome-associated biological information Bioinformatics, July 1, 2007; 23(13): i337 - i346. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. S. Gesteira, F. Micheli, N. Carels, A. C. Da Silva, K. P. Gramacho, I. Schuster, J. N. Macedo, G. A. G. Pereira, and J. C. M. Cascardo Comparative Analysis of Expressed Genes from Cacao Meristems Infected by Moniliophthora perniciosa Ann. Bot., July 1, 2007; 100(1): 129 - 140. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C.-F. Chen and C.-H. Cheng Regulation of Cellular Metabolism and Cytokines by the Medicinal Herb Feverfew in the Human Monocytic THP-1 Cells Evid. Based Complement. Altern. Med., June 11, 2007; (2007) nem061v1. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. M. Lin, P. J. Collins, N. D. Trinklein, Y. Fu, H. Xi, R. M. Myers, and Z. Weng Transcription factor binding and modified histones in human bidirectional promoters Genome Res., June 1, 2007; 17(6): 818 - 827. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Chalmel, A. D. Rolland, C. Niederhauser-Wiederkehr, S. S. W. Chung, P. Demougin, A. Gattiker, J. Moore, J.-J. Patard, D. J. Wolgemuth, B. Jegou, et al. The conserved transcriptome in human and rodent male gametogenesis PNAS, May 15, 2007; 104(20): 8346 - 8351. [Abstract] [Full Text] [PDF]
|
|
|
|