Question: Download Transcription Factor Targeting Genes Data
gravatar for I am
6.7 years ago by
I am70
United States
I am70 wrote:

Hello all,

I want to create human transcriptional regulatory network. Can someone tell me an updated database, which can tell me transcription factors targeting genes?

Thanks in advance.

transcription • 4.1k views
ADD COMMENTlink modified 2.7 years ago by Kamil1.9k • written 6.7 years ago by I am70

See highly related post on same topic here:

ADD REPLYlink written 6.7 years ago by Khader Shameer18k
gravatar for Alex Reynolds
6.7 years ago by
Alex Reynolds28k
Seattle, WA USA
Alex Reynolds28k wrote:

We very recently published a paper in *Cell* which looks at TF regulatory networks in human. In addition to procedural and reference material that might help you out, data downloads are available through Cell's site, and I put together a web application that allows exploring interactions in a variety of cell types.

We also have PWMs available for discovered motifs. You could run these through a tool like TOMTOM to find TF matches across other databases (TRANSFAC, JASPAR, etc.).

ADD COMMENTlink modified 6.7 years ago • written 6.7 years ago by Alex Reynolds28k

Dear Sir, it is very informative article regarding TF regulatory network, I tried to download complete network but due to inaccessibility of journal I am unable to get the complete Network. It is my kind request to provide me complete Tf regulatory network

ADD REPLYlink written 5.9 years ago by Raghav100
gravatar for Kamil
2.7 years ago by
Kamil1.9k wrote:

You might be interested in this R package:

It summarizes 6 datasets:

See make_rdata.R for the script that converts the raw data into lists of gene sets.

Usage Example

  • Show the names of the lists.
  • Show the names of the first 5 transcription factors in TRRUST.
  • Show the gene targets for the AIP transcription factor.


ADD COMMENTlink written 2.7 years ago by Kamil1.9k
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