ChIP-seq analysis of genome-wide TFAM binding.

<p>(A) Overview of computational processing of data. Reads were trimmed to 36 bp and then either mapped against the mitochondrial genome (ChrM), or the complete hg19 version of the genome. After removing multireads and alignments to the mitochondrial genome, peaks in the nuclear genome were called using MACS2. (B) The proportion of sequencing reads mapping to chrM in ChIP and input datasets. All replicates of the ChIP-seq resulted in at least 30% of reads mapping to the mitochondrial genome, much greater than the 0.4-1.9% of reads mapping to mtDNA in the input datasets. Replicates 1-3 were performed using the 20G2C12 antibody, while Replicate 4 was performed using the 20F8A9 antibody.