[Bioperl-l] Collecting genomic DNA sequences using Entrez IDs

Brian Osborne bosborne11 at verizon.net
Fri Nov 30 09:38:58 EST 2007


Paul,

Have you taken a look at this page?

http://www.bioperl.org/wiki/Getting_Genomic_Sequences

There's code there that looks similar to what you're proposing.


Brian O.


On 11/28/07 8:20 PM, "Paul N. Hengen" <paulhengen at coh.org> wrote:

> 
> Hi.
> 
> I have a number of gene IDs from Entrez and I want to find the
> start and end locations in the human genome. This seemed simple
> enough, so I started working through some of the examples for
> using the EntrezGene module at www.bioperl.org  Of course this
> did not work because the core installation does not include this
> module. So, I think I have two choices (1) install the module (how?),
> or (2) find an easier way to get the locations in the human genome.
> I want to use the locations to grab sequences out of the genome.
> Can anyone offer advice on this? Thanks.
> 
> -Paul.
> 
> --
> Paul N. Hengen, Ph.D.
> Hematopoietic Stem Cell and Leukemia Research
> City of Hope National Medical Center
> 1500 E. Duarte Road, Duarte, CA 91010 USA
> mailto:paulhengen at coh.org




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