Fig. 4

Genome-wide alterations in chromosome accessibility. a Volcano plots illustrating the differentially accessible regions (DAs) detected by ATAC-seq. DAs were filtered by a P value < 0.05 and an absolute fold change > 2. b Heatmap showing the ATAC-seq signals in hypo- or hyper regions. c Genomic distribution of hypo- and hyper-ATAC-seq peaks. d, e UpSet plot showing the association of downregulated DEGs (d) or upregulated DEGs (e) with DAs in different regions. Proximal: 2 kb region around the Transcript Start Site (TSS). Distal: region beyond 2 kb around the TSS. f Hallmark gene set enrichment of DAs associated with upregulated DEGs (upregulated) and downregulated DEGs (downregulated). g, h ATAC-seq signals at the loci of SNAI2 (g) and TGF-β1 (h)