Fig. 5

Methylation induction leads to differential promoter usage. A Genome browser snapshot depicting PHACTR4 known isoforms, focusing on the primary transcriptional start site (TSS) in noDox cells and the secondary TSS site that appears upon Dox induction. Distribution of B mCG% gain and C ATAC-seq signal on primary and secondary TSS sites (spanning ±500 bp from TSS). One asterisk indicates a p-value < 0.01 in a two-sided Wilcoxon rank-sum test between two distributions, while n.s. depicts a higher value. Boxplot centre lines are medians, box limits are quartiles 1 (Q1) and 3 (Q3), whiskers are 1.5 × interquartile range (IQR), and points are outliers. Average D H3K4me3 and E H3K4me1 signal on the primary and secondary TSS. H3K4me1 MCF-7 ChIP-seq was obtained from the ENCODE database