[Bioperl-l] BioPerl module to extract sequence from gene names

Brian Osborne bosborne11 at verizon.net
Fri Jan 25 08:53:36 EST 2008


Edward,

Various approaches are discussed here:

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

Since you have ENSEMBL ids I'd think that would be the way to go.


Brian O.

On Jan 25, 2008, at 4:26 AM, Edward Wijaya wrote:

> Dear Experts,
>
> Suppose I have the following list of gene names and Ensemble Ids.
>
> RBL1	ENSG00000080839
> RB1	ENSG00000139687
> CDC2	ENSG00000170312
> CDC25A	ENSG00000164045
> CCNA2	ENSG00000145386
> E2F3	ENSG00000112242
> E2F2	ENSG00000007968
> CDK2	ENSG00000123374
> ...etc...
>
> Is there a way to extract the gene sequence from those list?
> And then output them in FASTA format.
>
> - Edward
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioperl-l



More information about the Bioperl-l mailing list