[BioC] from RefSeq GI protein identifiers to GO terms

[Lina Hultin-Rosenberg]

I just tried to send this mail to the list but it seems as if it didn't 
go through - I will make another try.
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Dear list,

This might be a question that has been discussed previously but I could 
not find any good solution for it. I have lists of human proteins from 
various proteomics studies that I want to compare with regards to the GO 
terms associated to them. I have the RefSeq GI protein id for the 
proteins and my questions is how I best map those to other identifiers 
that I can use in subsequent GO analysis?

It might be that this problem is solved best outside R but maybe someone 
can give me a hint to a solution. For me this is a problem that comes up 
quite often - the need to map between different identifiers - and I have 
not yet found any really good solution to it. If I for example use IPI 
(International Protien Index) I always loose some proteins/genes since 
the coverage is rather bad, but maybe there is no solution that will 
give perfect mapping?!

Any input will be greatly appreciated!

Thank you!

Best regards,
Lina Hultin-Rosenberg
Karolinska Biomics Center
Karolinska Institute