[Bioperl-l] Re: grouping sequences by DNA-binding domains --
olenka.m at gmail.com
Tue Oct 18 14:26:58 EDT 2005
Thank you for your reply. It is the CDD (Conserved Domain Database) on
the NCBI web site.
On 10/18/05, Brian Osborne <brian_osborne at cognia.com> wrote:
> 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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