[BioC] TF database

[Sole Acha, Xavi]

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 at r-project.org [mailto:bioconductor-bounces at r-project.org] En nombre de Ed
Enviado el: viernes, 10 de junio de 2011 1:22
Para: Michael Gormley
CC: bioconductor at 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 at drexel.edu> wrote:

> Try the Molecular Signatures Database maintained by the Broad Institute.
>
> On Thu, Jun 9, 2011 at 5:24 PM, Ed <edforum at 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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