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Re: [HCLSIG] homologs for yeast proteins?

From: Eric Jain <Eric.Jain@isb-sib.ch>
Date: Tue, 31 Jan 2006 21:36:46 +0100
Message-ID: <43DFCA5E.8050609@isb-sib.ch>
To: jluciano@predmed.com
CC: public-semweb-lifesci@w3.org, jluciano@gmail.com

Joanne Luciano wrote:
> An MD I met with last week mentioned briefly the desire to obtain homologs
> for yeast proteins with the GO ID 0031930.  With it was a request for other
> suggestions for querying proteins with this ontology assignment (looking for
> mammalian homologs).
> Can the semantic web help with this or is it already basic and solved, in
> which case, can someone point me or fill in the details?  Where should I go?
> What questions should I  ask?

Semantic web technologies can help make certain things simpler to implement 
-- and therefore allow things to be implemented that would not have been 
feasible otherwise. But tasks such as listing all proteins for an organism 
that have been tagged with a specific term are simple enough to be 
supported even without any semantic web magic, see http://pir.uniprot.org/, 
for example. This site also allows you to run similarity searches on the 
matching entries to find homologs.

Now in this particular case it looks like you are out of luck: No yeast 
proteins have been associated with GO:0031930. Often the main limiting 
factor are not the tools, but the available data...
Received on Tuesday, 31 January 2006 20:37:00 UTC

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