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reg the GO terms

Mike Cherry cherry at genome.Stanford.EDU
Sat Mar 12 22:18:54 PST 2005


V,

Not all protein sequences have GOIDs.  Of course many genes have no 
predicted function, or a particular protein sequence in one of the 
databases may not have been connected to a gene that has been 
annotated.  There are several methods to retrieve GO associations.  One 
simple method using Perl is provided by the SeqHound API from BIND 
(http://seqhound.blueprint.org).

SeqHound has a routine called SHoundGOIDFromGi that will retrieve the 
GOIDs for a particular GI.  As mentioned above many GIs do not have 
GOIDs assigned.  SeqHound has another routine called 
SHoundGOIDFromRedundantGi that will first check for GOID assigned to 
the GI, if none are assigned it will search all proteins with the same 
sequence for GOIDs.

I'm sending you a list of GOIDs for the GIs you listed in a separate 
email.

-Mike


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