Histone 3 lysine 56 acetylation (H3K56ac) regulates extrachromosomal DNA (ecDNA) hub biogenesis

Extrachromosomal DNAs (ecDNAs) play an important role in tumor progression. ecDNA hubs have been shown to be anchored by BRD4, a chromatin reader. However, the epigenetic regulation of ecDNA hub biogenesis remains unknown. Here we show that histone 3 lysine 56 acetylation (H3K56ac) mark binds to BRD4 specifically. Analysis of ChIP-seq datasets showed that both H3K56ac and H3K27ac co-occupied with BRD4 binding at the ecDNA-chromosome interaction sites and ecDNA itself. Overall design: ChIP-seq of BRD4 and Histone Modification H3K56ac in two cancer cell lines with ecDNA, PC3 DM and COLO320 DM.