Question: How to find transcription factor downstream binding
0
gravatar for Alex Gibbs
17 months ago by
Alex Gibbs40
Cardiff University
Alex Gibbs40 wrote:

Hi all,

I would like to find out what the mouse Stat3 transcription factor binds to and the full signalling pathway(s) that it is involved in.

So far, I have only managed to find a signalling pathway that ends in Stat3, and subsequently genes that bind to Stat3.

I have tried JASPAR, but the website is down. Does anyone have any suggestions?

Thanks in advance!

Alex

rna-seq gene • 269 views
ADD COMMENTlink modified 15 months ago by Biostar ♦♦ 20 • written 17 months ago by Alex Gibbs40
2

If you want actual binding data, search for Stat3 ChIP-seq on GEO/NCBI. JASPAR is just a database for motifs but a motif presence does not imply binding.

ADD REPLYlink written 17 months ago by ATpoint38k
2

Well I would say TF (for e.g stat3) binding and its target genes would be cell type specific. you may have in general stat3 binding motif and known putative targets, I am not sure about your objectives, however if you are interested in some type regulation in particular cell type, you may have to look for ChIPseq data for that particular TF.

ADD REPLYlink modified 17 months ago • written 17 months ago by Prakash1.9k
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