Search Mailing List Archives

Limit search to: Subject & Body Subject Author
Sort by: Reverse Sort
Limit to: All This Week Last Week This Month Last Month
Select Date Range     through    

genome ontology searching

Murad Nayal mn216 at
Tue Dec 17 08:50:04 PST 2002

> The (kludgy) way we do it is by the simple mapping: SwissProt id ->
> SwissProt keyword -> GO term -> GOid
> We parse the SwissProt ids from the definition lines of the blast hits
> and use them to get to the keywords. There is a SwissProt keyword to GO
> term mapping available on
> This is all done in Perl and was pretty straightforward to write. I'd
> share the code, but it's actually tied in to a database backend and
> would be of little use (easier to start from scratch).

was this the method used to create the gene_association.goa_sptr table
(a mapping of swissprot/embl accessions to go terms and ids, as well as
other xdbs) was generated at the GOA project in EBI?

BTW: I suppose you can use this table to map swissprot ids -> GO Ids
directly without having to go through SP keywords.


Murad Nayal M.D. Ph.D.
Department of Biochemistry and Molecular Biophysics
College of Physicians and Surgeons of Columbia University
630 West 168th Street. New York, NY 10032
Tel: 212-305-6884	Fax: 212-305-6926

This message is from the GOFriends moderated mailing list.  A list of public
announcements and discussion of the Gene Ontology (GO) project.
Problems with the list?           E-mail: owner-gofriends at
Subscribing   send   "subscribe"   to   gofriends-request at
Unsubscribing send   "unsubscribe"  to  gofriends-request at

More information about the go-friends mailing list