MeDIP-Seq comparison

[Lien]

Dear all,

I have MeDIP-Seq data of tumoral and non-tumoral tissue of 9 different patients. I now would like to compare these samples. For example which regions are differentially methylated between tumor and non-tumor in all of the samples? Can these regions be annotated to a specific gene?

Could you point me to useful software I could use to tackle these questions?

Thanks,
Lien

[crazyhottommy]

I had some experience with diffreps https://code.google.com/p/diffreps/
other tools http://omictools.com/medip-seq-c350-p1.html

see my posts: http://crazyhottommy.blogspot.com/20...tion-chip.html

http://crazyhottommy.blogspot.com/2013/10/compare-chip-seq-data-for-different.html

other people using diffreps

http://ethanomics.wordpress.com/2014/02/19/medip-seq-data-analysis-diffreps/