[Bioperl-l] Re: grouping sequences by DNA-binding domains -- elaboration

Brian Osborne brian_osborne at cognia.com
Tue Oct 18 09:45:48 EDT 2005


What database contains the information you're looking for?

Brian O.

On 10/16/05 8:17 PM, "Olena Morozova" <olenka.m at gmail.com> wrote:

> Hi agian,
> I just figured out how to obtain a list of conserved domains for a
> given sequence using the SeqHound.pm module available at
> http://www.blueprint.org/seqhound/apifunctslist.html
> Now I have a list of conserved domains for a given sequence and I need
> to extract information as to what these domains are and which ones are
> DNA-binding. Any help on this will be greatly appreciated
> Thanks again,
> Olena
> On 10/16/05, Olena Morozova <olenka.m at gmail.com> wrote:
>> I have a list of transcription factor sequences, and I need to group
>> them according to the DNA-binding domains based on the classification
>> by TRANSFAC or any other database. Basically, I just need to extract
>> the DNA-binding domain information for a particular TF from a database
>> like TRANSFAC (I don't know what other databases would have this
>> information, but any will do) Anyone has any idea how to do this?
>> Thank you very much for your help and time
>> Olena
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