Fig. 3: HIRA defines early replication initiation zones independently of their accessibility and H3 PTM enrichment.

a Schematic representation of early replication initiation zones defined by HIRA-dependent H3.3/H3.1 boundaries (adapted from Gatto et al., 2022¹⁹ with permission from Elsevier). b Enrichment of H3.3, EdU at 2 h in S and ATAC-seq signal from WT and HIRA KO cells at blurred (n = 3274, top) and buried sites (n = 574, bottom), sorted by size and centered at their middle ± 0.5 Mb. c Active (H3K4me1, H3K4me3, H3K27ac) and repressive (H3K9me3, H3K27me3) histone PTM enrichment profiles from WT and HIRA KO cells at blurred (n = 3274, top) and buried (n = 574, bottom) sites, centered at their middle ± 0.5 Mb and sorted by size. Enrichment of H3.3, H3 PTMs and EdU is shown as z-score of log₂ IP/input, ATAC-seq is shown as cpm at 10 kb bins.