Just wondering, has anyone come up with a good way to map NCBI protein sequence gi numbers to SwissProt accession codes. It has proven to be harder than I would have thought...
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Re: NCBI -> SwissProt mappings
Thu, January 13, 2005 - 12:48 PM???
Not as trivial as it sounds...
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Re: NCBI -> SwissProt mappings
Fri, January 14, 2005 - 5:30 PMi can't think of a way right now, i just had a proteomics class and i'm not sure we covered that. i would think there would be a concentrator website/interface somewhere that would represent both though....you should probably just email ncbi and ask them:
gb-admin@ncbi.nlm.nih.gov
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Re: NCBI -> SwissProt mappings
Tue, January 18, 2005 - 12:38 PMThere is a file on NCBI's website 'gene2accession', that has mappings for some genes/proteins. Also, the 'nr' protein file, used to have both gis and swissprot accessions in the header lines. This doesn't seem to be the case any longer.
One could always just blast nr to swissprot, but it seems a trivial enough thing to want that someone might have put it all in a file for all to download.
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Re: NCBI -> SwissProt mappings
Thu, November 10, 2005 - 4:16 PMi just spoke to someone else who had this same problem.
apparently this problem is too trival for anyone to actually devote time or research funds to do. utterly unpublishable. but too difficult to knock off with a quick perl script. thus no one's done it.
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