[Bioperl-l] Converting EnSeMBL Probe names to Gene Symbol with Bioperl

Cook, Malcolm MEC at stowers-institute.org
Thu Sep 18 17:20:02 EDT 2008


Gundala,

Here is an option - if you want a script...

http://research.stowers-institute.org/mec/software/scripts/affyprobeset2ensg/

It is not bioperl.   It is perl.  It uses DBI to query the ensembl MySQL database using SQL.  It may be outdated due to changes in Ensembl schema.

Good luck,

Malcolm Cook
Stowers Institute for Medical Research - Kansas City, Missouri

-----Original Message-----
From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-bounces at lists.open-bio.org] On Behalf Of Gundala Viswanath
Sent: Thursday, September 18, 2008 3:52 AM
To: bioperl-l at lists.open-bio.org
Subject: [Bioperl-l] Converting EnSeMBL Probe names to Gene Symbol with Bioperl

Dear all,

Is there a way I can convert such EnSeMBL probe names into Gene Symbol with BioPerl?

ENSG00000000003_at
ENSG00000000005_at
ENSG00000000419_at
ENSG00000000457_at
ENSG00000000460_at
ENSG00000000938_at
ENSG00000000971_at
ENSG00000001036_at
ENSG00000001084_at
ENSG00000001167_at
ENSG00000001461_at
ENSG00000001497_at
ENSG00000001561_at
... etc ...

Or perhaps there is a flat file for conversion?



- Gundala Viswanath
Jakarta - Indonesia
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