Sure. Thanks.

A less related question again :)

If I would like to build a pathway between any two proteins, like from a
receptor to a TF or from a kinase to a TF, which is the best way to get it.
I do not need a graph but a n-step "noodle"?

If it is a bit off-topic for bioconductor, I apologize.

Thanks again,

Ed



On Fri, Jun 10, 2011 at 3:47 AM, Sole Acha, Xavi <x.sole@iconcologia.net>wrote:

> Hi Ed,
>
> You can use Gene Ontology database, and get the gene products under the
> terms "Regulation of transcription", "Transcription regulator activity" and
> "Nucleic acid binding transcription factor activity" (some other GO terms
> may apply for you).
>
> Besides, for a recent paper describing a list of curated TFs have a look
> at:
>
> http://www.ncbi.nlm.nih.gov/pubmed?term=19274049
>
> Best,
>
> Xavi.
>
> ------
> Xavier Solé Acha
> Unitat de Biomarcadors i Susceptibilitat
> Unit of Biomarkers and Susceptibility
> Institut Català d'Oncologia // Catalan Institute of Oncology
> Gran Via de L'Hospitalet 199-203
> 08908 L'Hospitalet de Llobregat, Barcelona, Spain.
> Phone: +34 93 260 71 22 / +34 93 260 71 86 (ext. 7122)
> Fax: +34 93 260 71 88
> E-mail: x.sole (at) iconcologia.net
>
>
> -----Mensaje original-----
> De: bioconductor-bounces@r-project.org [mailto:
> bioconductor-bounces@r-project.org] En nombre de Ed
> Enviado el: viernes, 10 de junio de 2011 1:22
> Para: Michael Gormley
> CC: bioconductor@r-project.org
> Asunto: Re: [BioC] TF database
>
> Thanks. I forgot C3 itself is.
>
> Any bigger or other options?
>
>
>
> On Thu, Jun 9, 2011 at 4:59 PM, Michael Gormley <mpg33@drexel.edu> wrote:
>
> > Try the Molecular Signatures Database maintained by the Broad Institute.
> >
> > On Thu, Jun 9, 2011 at 5:24 PM, Ed <edforum@gmail.com> wrote:
> >
> >> Hi there,
> >>
> >> Is there a good TF database or table that can be imported to
> bioconductor?
> >> Or direct downloading is ok too.
> >>
> >> I tried Transfac but it only provides a web-access search instead of a
> >> table? I need to know the TF id with its regulating genes.
> >>
> >> Thanks,
> >>
> >> Ed
> >>
> >>        [[alternative HTML version deleted]]
> >>
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> >>
> >
> >
>
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>
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