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[Gofriends] January 2009 GOA release

Daniel Barrell dbarrell at ebi.ac.uk
Fri Jan 23 01:04:05 PST 2009


GOA releases: January 2009
==========================

GOA (GO Annotation at EBI) is a project run by the European Bioinformatics
Institute that aims to provide 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.

Important News about the next release of GOA:
==============================================

Please note that the gene_association.goa_human file provided in the 
next GOA release will no longer be made using the IPI non-redundant 
human protein set. (http://www.ebi.ac.uk/IPI). Instead, the next version 
of this file will now use the complete human proteome now available in 
UniProtKB/Swiss-Prot (http://www.uniprot.org/news/2008/09/02/release). 
This change will enable us to provide a  non-redundant set of 
annotations for the human proteome, therefore please expect a sharp drop 
in both the number of distinct sequence identifiers and in the total 
number of electronic annotations in the new file.

The name and format of this human file will remain the same, however 
annotations will be assigned to proteins only from the 'UniProtKB' 
(column 1) database source. Human IPI identifiers will continue to be 
included in column 11 of annotations.

In addition, the cross-references file for human IPI set 
(human.xrefs.gz), will no longer be provided. Instead, identifier 
mapping will be possible using the UniProt ID mapping file, available 
from: 
ftp://ftp.ebi.ac.uk/pub/databases/uniprot/current_release/knowledgebase/idmapping/idmapping.dat.gz

idmapping.dat.gz is a tab-delimited table, which includes mappings for 
20 different sequence identifier types (and will be expanded in time for 
the next file release to include IPI identifiers).

A readme for this file is available from: 
ftp://ftp.ebi.ac.uk/pub/databases/uniprot/current_release/knowledgebase/idmapping/README

Regards

The UniProt GOA Team




















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