How to find transcription factor downstream binding

0

Entering edit mode

5.6 years ago

Alex Gibbs ▴ 90

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 • 840 views

ADD COMMENT • link updated 5.5 years ago by Biostar 20 • written 5.6 years ago by Alex Gibbs ▴ 90

2

Entering edit mode

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 REPLY • link 5.6 years ago by ATpoint 85k

2

Entering edit mode

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 REPLY • link 5.6 years ago by Prakash ★ 2.2k

Login before adding your answer.