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[Gofriends] UniProtKB-GOA release [2010-11-17]

Tony Sawford tonys at ebi.ac.uk
Wed Nov 17 06:26:48 PST 2010


UniProtKB-GOA release: 17 November 2010
=======================================

UniProtKB-GOA (UniProtKB GO Annotation at EBI) is a project run by the 
European Bioinformatics Institute that provides assignments of gene 
products to the Gene Ontology (GO) resource.

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 CVS: http://www.geneontology.org/GO.CVS.help.html

For further information read: http://www.ebi.ac.uk/GOA or contact
goa at ebi.ac.uk.

Latest News
===========

Important news about intended change to the GOA proteomes files

The current proteome sets provided by GOA are based on those defined by 
the Integr8 project. Integr8 is planning to close after the launch of 
Ensembl Genomes as the next-generation interface for genome-scale data 
from non-vertebrate species. UniProtKB is taking over responsibility for 
the maintenance of the complete proteome sets, which can be found here:
http://www.uniprot.org/taxonomy/complete-proteomes

There are two main consequences that should be noted:
1) The proteomes are available only for those species that have a 
complete genome, as defined by INSDC. For the complete genomes, please 
see http://www.ebi.ac.uk/genomes/ and the NCBI Project database, 
http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj

2) The entries within the proteome are the direct translation of the 
sequenced reference genome; this logic is applied to all species.  Any 
species-specific rules that Integr8 used have not been propagated to the 
new sets. The proteome sets will be subsets of the GOA-UniProt gene 
association file, and consequently if a protein accession is deemed not 
to be present in a particular proteome then any manual annotations made 
to this protein will not be visible in the proteome set; they will, 
however, still be available from the GOA-UniProt gene association file.

We plan to implement this change in the next UniProtKB-GOA release, 
which is due on or around 14 December 2010.

Regards,
UniProtKB-GOA Production



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