Question: Checking TF binding region proximity mutational signature
0
gravatar for morovatunc
2.1 years ago by
morovatunc400
Turkey
morovatunc400 wrote:

Hi,

I have subsetted SNVs based on if they are located within TF binding proximity and did a mutation signature analysis. But then I realised that since we are subsetting specific regions on the genome, we are introducing a bias towards genomic sequences. Therefore, we expect to see specific mutation type is getting enriched.

My questions are;

1) Is it valid to do mutation signature analysis for subsetted regions ?

2) How can I prove base composition is not changed within these regions as well so my signature is real. ( I have applied chi-square test of independence to see if they are independent or not. I got p-value < 2.2e-16, which say they are independent. )

Thank you for your help and time,

Its sunday here so have a great sunday!

T.

ADD COMMENTlink modified 2.1 years ago by Biostar ♦♦ 20 • written 2.1 years ago by morovatunc400
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: 1753 users visited in the last hour