(
A) Expression levels (TPMs) based on RNA-seq for the genes shown in
Figure 4A. (
B) Heatmap depicting the percent of <100 bp ATAC-seq peaks (APs) that overlap between EC subtypes. Many of the regions of accessible chromatin overlap more than one EC subtype. ‘All APs’ refers to all ATAC-seq peaks identified in the indicated sample. ‘All differential APs’ refers to differential ATAC-seq peaks identified in the indicated sample versus any of the other three EC subtypes. ‘ECTSAPs’ refers to ATAC-seq peaks present in the indicated EC subtype but absent from the other three EC subtypes. (
C) Heatmap depicting the percentage of each epigenetic feature (rows) that is found within 100 kb of ECTSGs. Tissue-specific EC candidate CREs are significantly enriched within 100 kb of ECTSGs from the same EC subtype relative to the other EC subtypes. Black stars indicate statistical significance at q < 1×10
−5. ‘All hypo-DMRs’ refers to hypomethylated DMRs identified in the indicated sample versus any of the other three EC subtypes. ‘ECTS-hypo-DMRs’ refers to hypomethylated DMRs identified in the indicated samples versus all of the other three EC subtypes. (
D) Heatmap depicting the percentage of either promoter-proximal or promoter-distal ATAC-seq peaks (APs) that overlap between EC subtypes. EC subtypes share more regions of accessible chromatin associated with promoters than regions of accessible chromatin that are distal to TSSs. (
E) Pairwise Pearson correlation heatmaps for ATAC-seq read density at UMRs and LMRs (left pair) and percent CG methylation in promoter-proximal (<2 kb from TSS; right pair, left panel) or promoter-distal (>2 kb from TSS; right pair, right panel) ATAC-seq peaks.