Annotation Details and Downloads

The gene association files submitted by GO Consortium members are shown in the tables below. Files are in the GO annotation file format and are compressed using the UNIX gzip utility. Please see the appropriate README file for further details on the annotation set. Any errors or omissions in annotations should be reported by writing to the GO helpdesk.

Ontology and annotation data is integrated in the mySQL and XML files. See the GO database guide for more information.

These files can also be downloaded via FTP; we recommend this method for the larger files, such as the UniProt dataset, as the web-based download may not work correctly.

Filtered Files

These files are taxon-specific and reflect the work of specific projects, primarily the model organisms database groups, to provide comprehensive, non-redundant annotation files for their organism. All the files in this table have been filtered using the annotation file QC checks script. A major component to the filtering is the requirement that particular taxon IDs can only be included within the association files provided by specific projects; please see the list of the authoritative groups for the major model organisms.

Statistics as of March 10, 2010

Filtered Annotation File Downloads

Species, Database	Gene Products Annotated	Annotations	Submission date MM/DD/YYYY	Download filtered files
Species, Database	Gene Products Annotated	Annotations	Submission date MM/DD/YYYY	Download filtered files
Anaplasma phagocytophilum HZ JCVI	1289	3473 (3473 non-IEA)	2/8/2010	annotations [39.7 kb] README
Agrobacterium tumefaciensstr. C58 PAMGO	83	250 (250 non-IEA)	9/12/2008	annotations [3.4 kb] README
Arabidopsis thaliana TAIR/JCVI	52785	151796 (112531 non-IEA)	3/9/2010	annotations [3.7 mb] README
Aspergillus nidulans AspGD	3453	15893 (5544 non-IEA)	3/8/2010	annotations [172.7 kb] README
Bacillus anthracis Ames JCVI	5280	13088 (13088 non-IEA)	2/8/2010	annotations [152.9 kb] README
Bos taurus GO Annotations @ EBI	23879	106813 (5223 non-IEA)	3/4/2010	annotations [1.3 mb] README
Carboxydothermus hydrogenoformans Z-2901 JCVI	2611	6391 (6391 non-IEA)	2/8/2010	annotations [82.0 kb] README
Caenorhabditis elegans WormBase	17530	119679 (65039 non-IEA)	2/26/2010	annotations [1.1 mb] README
Campylobacter jejuni RM1221 JCVI	1829	4625 (4625 non-IEA)	2/8/2010	annotations [61.2 kb] README
Candida albicans CGD	4068	20580 (7398 non-IEA)	3/8/2010	annotations [370.5 kb] README
Clostridium perfringens ATCC13124 JCVI	2892	7446 (7446 non-IEA)	2/8/2010	annotations [94.7 kb] README
Colwellia psychrerythraea 34H JCVI	4752	12088 (12088 non-IEA)	2/8/2010	annotations [144.6 kb] README
Coxiella burnetii RSA 493 JCVI	2033	5162 (5162 non-IEA)	2/8/2010	annotations [59.6 kb] README
Danio rerio ZFIN	15371	132808 (23045 non-IEA)	2/22/2010	annotations [2.2 mb] README
Dehalococcoides ethenogenes 195 JCVI	1584	3945 (3945 non-IEA)	2/8/2010	annotations [48.6 kb] README
Dickeya dadantii PAMGO	126	313 (313 non-IEA)	3/3/2010	annotations [6.5 kb] README
Dictyostelium discoideum dictyBase	7519	31399 (20699 non-IEA)	3/7/2010	annotations [418.3 kb] README
Drosophila melanogaster FlyBase	12613	73444 (58298 non-IEA)	3/1/2010	annotations [1.1 mb] README
Escherichia coli EcoCyc & EcoliHub	3799	42709 (8906 non-IEA)	3/4/2010	annotations [480.7 kb] README
Ehrlichia chaffeensis Arkansas JCVI	1091	2845 (2845 non-IEA)	2/8/2010	annotations [35.7 kb] README
Gallus gallus GO Annotations @ EBI	16343	70824 (2956 non-IEA)	3/4/2010	annotations [827.7 kb] README
Geobacter sulfurreducens PCA JCVI	3410	8185 (8185 non-IEA)	2/8/2010	annotations [102.6 kb] README
Homo sapiens GO Annotations @ EBI	18596	186092 (88384 non-IEA)	3/4/2010	annotations [8.1 mb] README
Hyphomonas neptunium ATCC 15444 JCVI	3116	8036 (7976 non-IEA)	12/19/2009	annotations [111.9 kb] README
Leishmania major Sanger GeneDB	10	28 (28 non-IEA)	2/8/2010	annotations [1.3 kb] README
Listeria monocytogenes 4b F2365 JCVI	2822	7215 (7215 non-IEA)	1/30/2010	annotations [91.3 kb] README
Magnaporthe grisea PAMGO	11274	27649 (27649 non-IEA)	11/7/2009	annotations [338.2 kb] README
Methylococcus capsulatus Bath JCVI	2928	7322 (7305 non-IEA)	12/19/2009	annotations [97.4 kb] README
Mus musculus MGI	35163	251666 (149826 non-IEA)	3/5/2010	annotations [2.6 mb] README
Neorickettsia sennetsu Miyayama JCVI	929	2421 (2421 non-IEA)	2/8/2010	annotations [31.0 kb] README
Oomycetes PAMGO	30	126 (126 non-IEA)	2/13/2008	annotations [2.3 kb] README
Oryza sativa Gramene	41146	50047 (50042 non-IEA)	2/13/2010	annotations [822.9 kb] README
Protein Data Bank [multispecies] GO Annotations @ EBI	21836	191654 (0 non-IEA)	3/4/2010	annotations [1.1 mb] README
Plasmodium falciparum Sanger GeneDB	2205	4631 (4631 non-IEA)	1/30/2010	annotations [78.8 kb] README
Pseudomonas aeruginosa PAO1 PseudoCAP	1519	7316 (7316 non-IEA)	2/8/2010	annotations [132.5 kb] README
Pseudomonas fluorescens Pf-5 JCVI	4822	12582 (12241 non-IEA)	2/8/2010	annotations [162.5 kb] README
Pseudomonas syringae DC3000 JCVI	4012	10332 (10332 non-IEA)	2/8/2010	annotations [119.8 kb] README
Pseudomonas syringae pv. phaseolicola 1448A JCVI	3571	9290 (9272 non-IEA)	12/19/2009	annotations [121.7 kb] README
Rattus norvegicus RGD	20077	197071 (111891 non-IEA)	3/6/2010	annotations [4.2 mb] README
Reactome [multispecies] CSHL & EBI	276	7942 (7942 non-IEA)	2/8/2010	annotations [43.5 kb] README
Saccharomyces cerevisiae SGD	6355	90056 (47858 non-IEA)	3/6/2010	annotations [1.2 mb] README
Schizosaccharomyces pombe Sanger GeneDB	5230	36086 (32235 non-IEA)	2/13/2010	annotations [630.9 kb] README
Shewanella oneidensis MR-1 JCVI	4843	12178 (12178 non-IEA)	2/8/2010	annotations [141.2 kb] README
Silicibacter pomeroyi DSS-3 JCVI	4252	10785 (10785 non-IEA)	2/8/2010	annotations [139.1 kb] README
Solanaceae SGN	155	305 (305 non-IEA)	10/30/2009	annotations [7.5 kb] README
Trypanosoma brucei Sanger GeneDB	2977	10459 (10459 non-IEA)	2/8/2010	annotations [176.1 kb] README
UniProt [multispecies] IEA annotations removed GO Annotations @ EBI	8837	36030 (36030 non-IEA)	3/4/2010	annotations [573.5 kb] README
Vibrio cholerae JCVI	3858	9421 (9421 non-IEA)	2/8/2010	annotations [98.9 kb] README

Unfiltered Files

These files have not been filtered with the annotation file QC checks script. The most important difference between these files and the filtered files above is that gene products from certain taxa are not stripped out of the file; they may also contain annotations to obsolete terms or outdated IEA annotations. Please see the annotation file QC script documentation for full details of the checks performed.

Statistics as of March 10, 2010

Unfiltered Annotation File Downloads

Species, Database	Gene Products Annotated	Annotations	Submission date MM/DD/YYYY	Download unfiltered files
Species, Database	Gene Products Annotated	Annotations	Submission date MM/DD/YYYY	Download unfiltered files
Arabidopsis thaliana GO Annotations @ EBI	23011	110770 (35590 non-IEA)	3/4/2010	annotations [1.8 mb] README
Mus musculus GO Annotations @ EBI	35541	248028 (97880 non-IEA)	3/4/2010	annotations [3.4 mb] README
Rattus norvegicus GO Annotations @ EBI	27480	157460 (44175 non-IEA)	3/4/2010	annotations [1.9 mb] README
Danio rerio GO Annotations @ EBI	26937	95440 (7345 non-IEA)	3/4/2010	annotations [1.3 mb] README
Protein Data Bank [multispecies] GO Annotations @ EBI	36357	313530 (0 non-IEA)	3/4/2010	annotations [1.6 mb] README
Reactome [multispecies] CSHL & EBI	4351	36312 (36312 non-IEA)	12/16/2009	annotations [306.5 kb] README
UniProt [multispecies] GO Annotations @ EBI	7169403	58001747 (585091 non-IEA)	3/4/2010	annotations [481.2 mb] README

In the tables above gene association counts are provided for all evidence codes and separately for everything except IEA, Inferred from Electronic Annotation. The IEA code means there has been no human involvement in the assignment of the association; see the GO evidence code documentation for more details.

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gp2protein files

The gp2protein directory contains files that map between model organism database object IDs and UniProt accessions.

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