Question: Finding transcriptional regulators of a gene
0
gravatar for Pappu
2.8 years ago by
Pappu1.9k
Pappu1.9k wrote:

I am trying to find out transactional regulators, transcription factor binding sites, epigenetic modifications, enhancers, miRNA binding etc. of a gene say TP53 highly expressed in cancer. I am wondering if there is any good resource for that.

rna-seq chip-seq • 2.8k views
ADD COMMENTlink modified 2.7 years ago by ZhouK.R.10 • written 2.8 years ago by Pappu1.9k
3
gravatar for Denise - Open Targets
2.8 years ago by
UK, Hinxton, EMBL-EBI
Denise - Open Targets5.0k wrote:

Have you tried Ensembl? You could get the TFBS and histone markers and the annotation of promoters and enhancers from the Ensembl Regulatory Build. Ensembl also has Other Regulatory Data including miRNA targets from Diana TarBase. Check the gene page of TP53 for an example on how to view this on the browser. There are other ways to access the data (programmatically for example).

ADD COMMENTlink written 2.8 years ago by Denise - Open Targets5.0k
1
gravatar for ZhouK.R.
2.7 years ago by
ZhouK.R.10
Sun Yat-sen University, China
ZhouK.R.10 wrote:

ChIPBase ( http://rna.sysu.edu.cn/chipbase ) is aimed to explore the transcriptional features of genes by integrating a large amount of ChIP-seq data.In their websever, the "Regulator" module can help you retrieve transcriptional regulators (transcription factors, transcription co-factors and histone modifications) that bound at upstream or downstream of the TSS of your interested gene.

ADD COMMENTlink written 2.7 years ago by ZhouK.R.10
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 589 users visited in the last hour