Correlate Gi Identifiers With Go Identifiers

Question

[rpwang]

Hi there,

I am looking for a tool that correlates a list of GI identifiers with known GO identifers.

[samsara]

http://bioinfo.utu.fi/GeneFuncsterTool/

[Sebastian Kurscheid]

post it as an answer - the question does not ask for a programmatic solution...

[Hayssam]

By "correlate" I assume you mean mapping GI identifiers to GO identifiers. Can you give more specific requirements? (Language, species, run once or multiple times)

[rpwang]

Yes, I want to map the GI identifiers to GO identifiers . The list of GI identifiers is from BLAST against the NR/NT database. As output I prefer a list of GI identifiers linking to the GO identifiers.

Answer 1

[SES]

The answer is no, and you should not try to do that. Making a functional inference based on nucleotide similarity is shaky even if you know the evolutionary distance between the matches because you don't usually know the orthology relationships between those genes. This whole subject involves a lot of assumptions, but regardless, I would start with using the protein databases. What can you gain from getting a GO term that you don't already know from the blast result?

[rpwang]

Thanks for answering, I discovered as well that it was not logical to do a correlation between the IDS from the NR/NT database information. I might try using the protein database to find some likely hits.