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[GO] Re: [MOBY] Re: GO Xref Abbs now served by MOBY

Mark Wilkinson markw at illuminae.com
Thu Feb 26 11:14:17 PST 2004


Yeah... I should have asked for a global debugging of the existing
Xref's file before I imported it into MOBY :-(

hindsight...

M

On Thu, 2004-02-26 at 10:46, Midori Harris wrote:
> I can take care of these (for now I'll do both the namespace db at MOBY
> and the old GO.xrf_abbs file; eventually we'll retire the latter).
> 
> Midori
> 
> On Thu, 26 Feb 2004, Eurie Hong wrote:
> 
> > Hi,
> > 
> > Can you update all the Saccharomyces Genome Database URLs?  All the  
> > current URLs are still functional but we'd prefer everyone to use the  
> > following:
> > 
> > For all Saccharomyces Genome Database entries:
> > generic_url: http://www.yeastgenome.org/
> > 
> > For SGD_REF:
> > url_syntax:  
> > http://db.yeastgenome.org/cgi-bin/SGD/reference/reference.pl?refNo=
> > url_example:  
> > http://db.yeastgenome.org/cgi-bin/SGD/reference/reference.pl?refNo=19239
> > 
> > For SGD_LOCUS:
> > url_syntax: http://db.yeastgenome.org/cgi-bin/SGD/locus.pl?locus=
> > url_example: http://db.yeastgenome.org/cgi-bin/SGD/locus.pl?locus=GAL4
> > 
> > For SGD:
> > url_syntax: http://db.yeastgenome.org/cgi-bin/SGD/locus.pl?sgdid=
> > url_example:  
> > http://db.yeastgenome.org/cgi-bin/SGD/locus.pl?sgdid=S0006169
> > 
> > And typos:
> > 
> > remove extra "c" in Saccharomyces in following entries:
> > 
> > abbreviation: SGD_ORF
> > database:  A namespace describing a Sacccharomyces Open Reading Frame  
> > Identifier
> > 
> > abbreviation: SGD_CHROMOSOME_ID
> > database:  A namespace describing a Sacccharomyces Chromosome  
> > Identifier (e.g. I, IX, MIT)
> > 
> > Thanks,
> > Eurie
> > 
> > On Thursday, February 26, 2004, at 08:18  AM, Mark Wilkinson wrote:
> > 
> > > http://mobycentral.cbr.nrc.ca/cgi-bin/XrefAbbs
> > >
> > > just click the link above to instantiate the cat... whether it is
> > > smiling or not will depend on the parse-test :-)
> > >
> > > Attached is a saved version of the output from the script above as of
> > > this AM.
> > >
> > > M
> > >
> > >
> > > On Thu, 2004-02-26 at 07:57, Michael Ashburner (Genetics) wrote:
> > >> Then can you instantiate the cat & send it (|her|him) to me.
> > >> Keep the smile on its (|hers|his) face please.
> > >> M
> > >>
> > >>
> > >> --
> > >> 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 geneontology.org
> > >> Subscribing   send   "subscribe"   to    
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> > >> Unsubscribing send   "unsubscribe"  to   
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> > >> Web:          http://www.geneontology.org/
> > > -- 
> > > Mark Wilkinson (mwilkinson at mrl.ubc.ca)
> > > University of British Columbia iCAPTURE Centre
> > > <XrefAbbs.txt>
> > 
> > *******************************************
> > Eurie L. Hong, Ph.D.
> > Scientific Curator
> > Saccharomyces Genome Database
> > Stanford University School of Medicine
> > Department of Genetics, Room L317
> > Stanford, CA 94305-5120
> > 
> > http://www.yeastgenome.org/
> > *******************************************
> > 
> > 
> > --
> > 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 geneontology.org
> > Subscribing   send   "subscribe"   to   gofriends-request at geneontology.org
> > Unsubscribing send   "unsubscribe"  to  gofriends-request at geneontology.org
> > Web:          http://www.geneontology.org/
> > 
-- 
Mark Wilkinson (mwilkinson at mrl.ubc.ca)
University of British Columbia iCAPTURE Centre

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