Question: Genome Music for Enhancers and binding sites
gravatar for anshupa.vssut
2.6 years ago by
anshupa.vssut50 wrote:

I am analyzing the relevance of DNA mutations at insulated neighborhood boundaries (i.e CTCF binding sites involved in chromatin looping). Can I use MUSiC for enhancers regions and CTCF binding sites ?

binding sites music enhancer • 743 views
ADD COMMENTlink modified 2.5 years ago by Chris Miller20k • written 2.6 years ago by anshupa.vssut50
gravatar for Chris Miller
2.5 years ago by
Chris Miller20k
Washington University in St. Louis, MO
Chris Miller20k wrote:

MuSiC's SMG test is just, at it's heart, a test of enrichment of mutations over specific genomic intervals. If you prepare your inputs appropriately, yes, it could be used for any such test.

ADD COMMENTlink written 2.5 years ago by Chris Miller20k

In that case what is the format for my ROI file?how should I supply the co-ordinates of non-coding regions?

ADD REPLYlink written 2.4 years ago by anshupa.vssut50

That is entirely up to you. It might be as simple as windows tiled across the genome, or more complex by pulling in information from sources like ENCODE.

ADD REPLYlink written 2.4 years ago by Chris Miller20k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1733 users visited in the last hour