chipseq for mitochondrial genes

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mathew

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Join Date: Jan 2011

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#1

chipseq for mitochondrial genes

03-05-2013, 07:05 AM

I have a dataset where chipseq was performed and I am looking specifically for mitochondrial genes. Is there a special work flow which I may use or normal BWa aligners should be used and follow the regular approach of calling peaks with MACS or SICER.

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mziemann

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Join Date: Aug 2010

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#2

03-12-2015, 03:33 AM

Use a standard ChIP-seq pipeline which includes binning the genome or peakfinding followed by differential expression with edgeR or DESeq then search through those results located on chrM or MT.
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