predicting protein binding regions within LncRNA
1
1
Entering edit mode
9.3 years ago
mahi_a ▴ 10

Dear members,

I am new to LncRNA resarch.

I aim to identify predicting protein binding regions within LncRNA promoters. I came to know that ENCODE can do this. Does anybody can kindly provide me a tutorial with an example.

Thank you in advance.

Best Regards

Shiva

RNA-Seq • 2.6k views
ADD COMMENT
0
Entering edit mode

As you are looking for binding regions maybe it could help RSAT or http://floresta.eead.csic.es/footprintdb/

Not sure if do you need something special being LncRNAs, though.

ADD REPLY
0
Entering edit mode
9.3 years ago
Manvendra Singh ★ 2.2k

UCSC has ChIP-seq data for encode TFs, you can enter the co-ordinates of your lncRNA promoter in UCSC browser, and enable All ChIP-seq display options and then see that in which cell line, which TFs binding to your promoter.

ADD COMMENT
0
Entering edit mode

Thank you very much Manvendra :-)

ADD REPLY
0
Entering edit mode

You are welcome, :) :)

We are here to help anyways :)

ADD REPLY

Login before adding your answer.

Traffic: 2984 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6