Extended Data Fig. 7: DNA methylation profiling in phase 2 cohort.
From: Mechanisms of action and resistance in histone methylation-targeted therapy
a, Boxplots summarize normalized log2 fold changes of scATAC-seq promoter activities at H3K27me3 target genes (n = 630) in Pt5 and Pt7. b–d, Whole genome DNA methylation profiling (28.3 M CpG sites/sample on average) detected PD-associated mCpG acquisition clusters in Pt5 (upper) and Pt7 (lower). Plots show average DNA methylation (%) in tumor baseline (Pre) and at PD centered by mCpG gain clusters (b). Heatmaps depict DNA methylation and H3K27me3 ChIP-seq peaks (20-kb windows) at PD-associated mCpG gain clusters (c). Representative tracks show H3K27me3 and methylated CpG tracks around the TSS of tumor suppressor genes (d). The middle lines within box plots correspond to the medians; lower and upper hinges correspond to the first and third quartiles. The upper whisker extends from the hinge to the largest value no further than 1.5 * IQR. The lower whisker extends from the hinge to the smallest value at most 1.5 * IQR. Statistics and reproducibility are described in Methods.
