Question: Is GC-bias correction valid for MeDIP-seq data preprocessing?
gravatar for tofukaj
2.0 years ago by
tofukaj10 wrote:

Dear all great helpers,

Practically, I'm a biologist and I've just start learning MeDIP-seq analysis. Due to my lack of experience in both concept and data pre-procession, I'm wondering if the performance of GC-bias correction is valid with such data. As far as I understand MeDIP aim to enrich methylated DNAs, CpG regions were highly expected. However, I'm wondering if both low and high CpG regions are supposed to be included?

I must apologize you in advance if I've totally mistaken anything in my question.

Best regards Kaj

ADD COMMENTlink modified 2.0 years ago by biostart350 • written 2.0 years ago by tofukaj10
gravatar for biostart
2.0 years ago by
biostart350 wrote:

MeDIP enriches for high-CpG regions by the design of this method. So if you have in mind a GC correction as in ChIP-seq, then no, it would not be applicable to MeDIP.

ADD COMMENTlink written 2.0 years ago by biostart350
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: 2100 users visited in the last hour