Anthracyclines induce global changes in chromatin accessibility in cardiomyocytes that overlap with cardiovascular disease loci

We performed chromatin immunoprecipitation followed by sequencing (ChIP-seq) in human iPSC-derived cardiomyocytes to map genome-wide binding sites of TOP2B. Libraries were prepared from ChIP and matched input DNA, sequenced using 40 bp paired-end reads. After quality control and alignment to the human reference genome (GRCh38), high-confidence reads were filtered and duplicate reads removed. Peak calling using MACS2 in broad mode identified 5,410 enriched genomic regions, enabling investigation of TOP2B-associated regulatory elements in human cardiomyocytes. Overall design: Chromatin immunoprecipitation was performed to map endogenous TOP2B binding sites in untreated human iPSC-derived cardiomyocytes. ChIP and matched input DNA were collected from 40 million cells each, derived from a single female donor line (UCSD143i-87-1). Libraries were prepared from immunoprecipitated chromatin and sequenced using 40 bp paired-end reads.