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  • chipseq for mitochondrial genes

    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.

    Thanks

  • #2
    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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