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 June 30, 2009

Filtered Annotation File Downloads

Species, Database	Gene Products Annotated	Annotations	Submission date MM/DD/YYYY	Download filtered files
Anaplasma phagocytophilum HZ TIGR	1289	3474 (3474 non-IEA)	3/14/2009	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/TIGR	52844	150860 (110166 non-IEA)	6/30/2009	annotations [3.0 mb] README
Aspergillus nidulans AspGD	3289	15492 (5576 non-IEA)	6/28/2009	annotations [162.4 kb] README
Bacillus anthracis Ames TIGR	5280	13115 (13115 non-IEA)	3/14/2009	annotations [152.9 kb] README
Bos taurus GO Annotations @ EBI	23776	99215 (3655 non-IEA)	5/30/2009	annotations [1.1 mb] README
Carboxydothermus hydrogenoformans Z-2901 TIGR	2611	6397 (6397 non-IEA)	3/14/2009	annotations [82.0 kb] README
Caenorhabditis elegans WormBase	18251	97320 (47742 non-IEA)	6/3/2009	annotations [907.0 kb] README
Campylobacter jejuni RM1221 TIGR	1829	4649 (4649 non-IEA)	3/14/2009	annotations [61.2 kb] README
Candida albicans CGD	1568	6712 (6712 non-IEA)	6/28/2009	annotations [144.8 kb] README
Clostridium perfringens ATCC13124 TIGR	2892	7457 (7457 non-IEA)	3/14/2009	annotations [94.7 kb] README
Colwellia psychrerythraea 34H TIGR	4752	12117 (12117 non-IEA)	3/14/2009	annotations [144.6 kb] README
Coxiella burnetii RSA 493 TIGR	2033	5172 (5172 non-IEA)	3/14/2009	annotations [59.6 kb] README
Danio rerio ZFIN	15007	100187 (22580 non-IEA)	6/30/2009	annotations [1.6 mb] README
Dehalococcoides ethenogenes 195 TIGR	1584	3952 (3952 non-IEA)	3/14/2009	annotations [48.6 kb] README
Dictyostelium discoideum dictyBase	7403	30941 (20158 non-IEA)	6/28/2009	annotations [412.5 kb] README
Drosophila melanogaster FlyBase	12507	71311 (55819 non-IEA)	6/5/2009	annotations [1.1 mb] README
Escherichia coli EcoCyc & EcoliHub	3721	42477 (6079 non-IEA)	6/8/2009	annotations [480.2 kb] README
Ehrlichia chaffeensis Arkansas TIGR	1091	2861 (2861 non-IEA)	3/14/2009	annotations [35.7 kb] README
Gallus gallus GO Annotations @ EBI	16359	64173 (1942 non-IEA)	5/30/2009	annotations [708.4 kb] README
Geobacter sulfurreducens PCA TIGR	3410	8852 (8852 non-IEA)	3/14/2009	annotations [103.2 kb] README
Homo sapiens GO Annotations @ EBI	20059	160498 (64568 non-IEA)	5/30/2009	annotations [6.0 mb] README
Hyphomonas neptunium ATCC 15444 TIGR	3108	7820 (7820 non-IEA)	3/14/2009	annotations [108.9 kb] README
Leishmania major Sanger GeneDB	3573	11440 (28 non-IEA)	5/20/2009	annotations [150.8 kb] README
Listeria monocytogenes 4b F2365 TIGR	2819	7022 (7022 non-IEA)	3/14/2009	annotations [88.4 kb] README
Magnaporthe grisea PAMGO	11533	29269 (29269 non-IEA)	5/16/2009	annotations [359.6 kb] README
Methylococcus capsulatus Bath TIGR	2920	7037 (7037 non-IEA)	3/14/2009	annotations [94.0 kb] README
Mus musculus MGI	18256	162799 (62728 non-IEA)	6/26/2009	annotations [1.9 mb] README
Neorickettsia sennetsu Miyayama TIGR	929	2434 (2434 non-IEA)	3/14/2009	annotations [31.0 kb] README
Oomycetes PAMGO	30	126 (126 non-IEA)	2/13/2008	annotations [2.3 kb] README
Oryza sativa Gramene	41581	51110 (50427 non-IEA)	4/18/2009	annotations [874.4 kb] README
Protein Data Bank [multispecies] GO Annotations @ EBI	20793	118225 (0 non-IEA)	5/28/2009	annotations [669.4 kb] README
Plasmodium falciparum Sanger GeneDB	2207	4653 (4653 non-IEA)	3/14/2009	annotations [79.1 kb] README
Pseudomonas aeruginosa PAO1 PseudoCAP	1519	7343 (7343 non-IEA)	3/14/2009	annotations [132.6 kb] README
Pseudomonas fluorescens Pf-5 TIGR	3691	9707 (9707 non-IEA)	3/14/2009	annotations [105.2 kb] README
Pseudomonas syringae DC3000 TIGR	4006	10259 (10259 non-IEA)	4/18/2009	annotations [118.2 kb] README
Pseudomonas syringae pv. phaseolicola 1448A TIGR	3506	9031 (9031 non-IEA)	3/14/2009	annotations [116.4 kb] README
Rattus norvegicus RGD	20285	184418 (101616 non-IEA)	6/27/2009	annotations [3.7 mb] README
Reactome [multispecies] CSHL & EBI	261	6499 (6499 non-IEA)	6/24/2009	annotations [35.3 kb] README
Saccharomyces cerevisiae SGD	6353	87950 (45545 non-IEA)	6/27/2009	annotations [1.2 mb] README
Schizosaccharomyces pombe Sanger GeneDB	5267	34128 (30005 non-IEA)	6/18/2009	annotations [597.6 kb] README
Shewanella oneidensis MR-1 TIGR	4843	13598 (13598 non-IEA)	3/14/2009	annotations [143.3 kb] README
Silicibacter pomeroyi DSS-3 TIGR	4252	10860 (10860 non-IEA)	3/14/2009	annotations [139.3 kb] README
Solanaceae SGN	38	68 (68 non-IEA)	4/26/2008	annotations [2.4 kb] README
Trypanosoma brucei Sanger GeneDB	2977	10516 (10516 non-IEA)	6/27/2009	annotations [176.4 kb] README
UniProt [multispecies] GO Annotations @ EBI	4644675	37255593 (23200 non-IEA)	6/23/2009	annotations [306.0 mb] README
UniProt [multispecies] IEA annotations removed GO Annotations @ EBI	5460	23200 (23200 non-IEA)	6/24/2009	annotations [333.6 kb] README
Vibrio cholerae TIGR	3858	9428 (9428 non-IEA)	3/14/2009	annotations [98.9 kb] README
Species, Database	Gene Products Annotated	Annotations	Submission date MM/DD/YYYY	Download filtered files

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 June 30, 2009

Unfiltered Annotation File Downloads

Species, Database	Gene Products Annotated	Annotations	Submission date MM/DD/YYYY	Download unfiltered files
Arabidopsis thaliana GO Annotations @ EBI	22375	107856 (29760 non-IEA)	5/28/2009	annotations [1.5 mb] README
Mus musculus GO Annotations @ EBI	35166	210699 (81269 non-IEA)	5/28/2009	annotations [2.8 mb] README
Rattus norvegicus GO Annotations @ EBI	27868	139330 (26314 non-IEA)	5/28/2009	annotations [1.6 mb] README
Danio rerio GO Annotations @ EBI	30749	107191 (5879 non-IEA)	5/28/2009	annotations [1.2 mb] README
Protein Data Bank [multispecies] GO Annotations @ EBI	33323	190650 (0 non-IEA)	5/28/2009	annotations [1000.3 kb] README
Reactome [multispecies] CSHL & EBI	3746	22480 (22480 non-IEA)	6/24/2009	annotations [193.9 kb] README
UniProt [multispecies] GO Annotations @ EBI	5308250	42170586 (569306 non-IEA)	5/29/2009	annotations [336.2 mb] README
Species, Database	Gene Products Annotated	Annotations	Submission date MM/DD/YYYY	Download unfiltered files

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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