Fig. 1

Switching compartments are hotspots of epigenetic and transcriptional changes. a Pie charts showing distribution of switching and stable compartments at 50 kb resolution. b Boxplots showing average log2FoldChange in RNA-Seq expression for genes overlapping different compartments. Boxes represent first and third quartiles with line in the box showing median and whiskers showing data within 1.5 × interquartile range. p-values based on two-tailed, two-sample Wilcoxon-rank sum test. c Heatmap showing Pearson residuals and p-value based on Pearson’s chi-squared test with Yates’ continuity correction. DEG, differentially expressed genes (absolute log2FC > 2 and padj <  = 0.05), NDE, non-differentially expressed genes. d Volcano plots showing expression, accessibility and compartment of all genes overlapping switching (A to B or B to A) regions. p-values based on two-tailed Wald test corrected for multiple testing using Benjamini–Hochberg procedure. e Bar plots showing percentage of differentially expressed genes up (log2FC > 2 and padj <  = 0.05) or downregulated (log2FC < -2 and padj <  = 0.05) in A to B and B to A switching compartments. f Bar plots showing percentage of differentially expressed genes showing increased (log2FC > 0) or decreased (log2FC < 0) average accessibility in A to B and B to A switching compartments