[Bioperl-l] BioPerl Module to Parse Transfac Flat File Database

[Sean Davis]

On Thu, Mar 6, 2008 at 8:07 AM, Sendu Bala <bix at sendu.me.uk> wrote:
> Edward Wijaya wrote:
>  > Dear experts,
>  >
>  > Is there any? The TRANSFAC text file which contain entry like this.
>  > Especially we wich to capture the PWM for each of the Transcription
>  > factor.
>
>  Yes; I've written a module to do this, I just haven't committed it yet
>  because certain things aren't quite right in terms of the API. But to
>  just grab the PWM it should work fine. If you want I can email you the
>  modules.

I believe there are a set of non-bioperl modules called TFBS.  See
here (although I'm not sure this is the most up-to-date site):

http://tfbs.genereg.net/

Sean