[Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl

Wijaya Edward ewijaya at i2r.a-star.edu.sg
Mon Apr 16 11:14:09 EDT 2007


Hi Spiros,
 
Thanks for your reply. I am interested to apply it for 
all the kind of organisms related to that particular GO ID.
 
Do you have a CPAN module for that?
--
Edward WIJAYA
SINGAPORE

________________________________

From: s.denaxas at gmail.com on behalf of Spiros Denaxas
Sent: Mon 4/16/2007 11:10 PM
To: Wijaya Edward
Cc: bioperl-l at lists.open-bio.org
Subject: Re: [Bioperl-l] Extracting Gene Names Genome Ontology (GO) with Perl



Hi Edward,

What organism are you interested in? I have some code from my PhD
based on the Saccharomyces cerevisiae genome. Basically uses the SGD
flat files and a local MySQL instance of GO. Might be worth turning
into modules if people are interested in it, although it is pretty
organism oriented and the lack of abstraction might introduce a number
of problems.

Spiros

On 4/16/07, Wijaya Edward <ewijaya at i2r.a-star.edu.sg> wrote:
>
> Dear all,
>
> Given a GO id, is there a way to extract all
> the related gene names from that id with Perl?
>
> Anybody has experience with that?
> I've looked through GO module in CPAN, but can't seem
> to find any tool that facilitated that searc
>
> Look forward very much for your advice.
>
> --
> Edward WIJAYA
> SINGAPORE
>
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