[Bioperl-l] help on getting annotations

Sean Davis sdavis2 at mail.nih.gov
Wed Mar 16 06:32:56 EST 2005

Try http://source.stanford.edu/cgi-bin/source/sourceSearch if you are 
using human, mouse, or rat.  If not, then this will be a multi-step 
process (there isn't a bioperl function to do this--you will have to 
write some code).


On Mar 16, 2005, at 1:49 AM, zhihua li wrote:

> Hi netter!
> I have a series of GenBank Accession Numbers(GB78091, GB90876,...) and 
> wanna get as much information as possible about each items. I want to 
> know their UniGene ID so that I can tell if there are redundancies 
> among them; I want to get their gene descriptions or GO annotations so 
> as to group them into functional groups; I want to know their KEGG 
> pathway IDs so that I can tell which of them are in the same 
> biological pathway, etc.....
> Of course I could submit the seris of accession numbers to each 
> different database (GenBank, GO, KEGG...) and get their annotations 
> respectively. But as the seris contains a large number of items, I 
> think it's better to write a perl script (or use an existing bioperl 
> function) to have it done automatically.
> Could anyone give me a hint about how i can write the script or use 
> the corresponding bioperl function?  I'm new to both perl and bioperl.
> Thanks a lot!
> _________________________________________________________________
> 与联机的朋友进行交流,请使用 MSN Messenger:  http://messenger.msn.com/cn
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at portal.open-bio.org
> http://portal.open-bio.org/mailman/listinfo/bioperl-l

More information about the Bioperl-l mailing list