Converting Hgnc Gene Symbol To Gi Number

Question

[hallister01]

I am trying to process a large list of HGNC gene symbols and retrieve their respective GI numbers and put them into an excel table.

Can this be done with E utilities?

Does anyone have a script for perl?

[Pierre Lindenbaum]

and put them into an excel table.

... please, DON'T DO THAT. http://www.biomedcentral.com/1471-2105/5/80

[sarahhunter]

It always astounds me that people want to use GI numbers... Why??! Why not use an accession + version number?

Answer 1

[Pierre Lindenbaum]

Use http://www.genenames.org/cgi-bin/hgnc_downloads

select "Approved Symbol" and "Entrez Gene ID"

http://www.genenames.org/cgi-bin/hgnc_downloads?col=gd_app_sym&col=gd_pub_eg_id&status_opt=2&where=&order_by=gd_hgnc_id&format=text&limit=&submit=submit

[cdsouthan]

But EGIDs are not GIs, you need to EGID > RefSeq > GI

[hallister01]

Thanks for the reply but what I need to accomplish is to process my list of HGNC gene symbols and have their GI numbers assigned.

I need GI numbers for my mass spec program and NOT gene ID's

[cdsouthan]

Your ms program should be mapping to UniProt IDs, that simplifies things