[Bioperl-l] Bioperl-l Digest, Vol 108, Issue 7

William Pearson wrp at virginia.edu
Sat Apr 7 16:56:16 EDT 2012


To get the UIDs (GIs) that you want, search for 

human[organism] AND srcdb_refseq[Properties]

This will get you the refseq proteins you want.

Bill Pearson

> Message: 1
> Date: Fri, 6 Apr 2012 14:27:29 -0400
> From: shalabh sharma <shalabh.sharma7 at gmail.com>
> Subject: Re: [Bioperl-l] Downloading refseq genomes in batch
> 
> Hi Chris,
>             I am using the method you suggested.
> But i have a question. The UIDs that i am searching using "esearch" are not
> same as the number of proteins in that genome.
> 
> For Example:
> for  'Homo sapiens" if i use esearch i get "3277310" UIDs but if i go to
> NCBI genome page i see there are only =~ 32,00 proteins.
> http://www.ncbi.nlm.nih.gov/genome?term=Homo%20sapiens
> 
> Thanks
> Shalabh
> 


More information about the Bioperl-l mailing list