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[go-friends] UniProt-GOA release [2013-12-11]
tonys at ebi.ac.uk
Wed Dec 11 02:58:32 PST 2013
UniProt-GOA release: 11 December 2013
UniProt-GOA (UniProt GO Annotation) is a project run by the UniProt
group that provides assignments of gene products to the Gene Ontology
The data can be obtained via:
EBI FTP: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/
EBI SRS: http://srs.ebi.ac.uk. Search GOA data library
GO FTP: ftp://ftp.geneontology.org/pub/go/gene-associations/
GO SVN: http://www.geneontology.org/GO.svn.help.shtml
For further information read: http://www.ebi.ac.uk/GOA or contact
goa at ebi.ac.uk.
Changes to the provision of UniProt GO annotation files to the GO
1. As of this release we are additionally supplying the GO Consortium
(GOC) with a set of species-specific annotation files for human, dog,
pig, cow and chicken that are based on UniProt reference proteomes and
provide one protein per gene. The protein accessions included in these
files are the protein sequences annotated in Swiss-Prot or the longest
TrEMBL transcript if there is no Swiss-Prot record.
The files will be available in both GAF2.0 and GPAD1.1 format and can be
identified by the inclusion of "ref" in the file name, e.g.
gp_association.goa_ref_human. The GAF2.0 files will be available from
the GOC annotation downloads page
(http://www.geneontology.org/GO.downloads.annotations.shtml) and the GOC
ftp site (ftp://ftp.geneontology.org/pub/go/gene-associations/); the
locations of the GPAD files will be announced at a later date.
These files are already available from the UniProt-GOA ftp site:
2. As of our January 2014 release, we will suspend submission to the GO
Consortium (GOC) of species-specific Gene Association Files if another
group is responsible for the provision of GO annotations to that
species. This affects the following files:
These files will no longer be available from the GOC annotation download
webpage (http://www.geneontology.org/GO.downloads.annotations.shtml) nor the
GOC ftp site
Users will still be able to get annotations for all of these species
from the UniProt multispecies file on the GOC website
The above species-specific files will continue to be made available from
the UniProt-GOA ftp site (ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/).
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