Fig. 3

Gene expression and open chromatin regions in switching A/B compartments. a Correlation of principal component 1 (PC1) calculated on the Hi-C contact matrices from non-treated (NT) or TNFα-stimulated (4 h) teloHAEC. b B-to-A compartment switch at the E-selectin (SELE) locus on chromosome 1q24 following TNFα treatment in teloHAEC for 4 h. TNFα treatment strongly induces SELE expression (RNAseq NT vs. 4 h) and opens several elements at the locus (ATACseq NT vs. 4 h, differentially opened ATACseq peaks (ATACseq DO 4 h)). The 2 vertical dashed lines indicate the boundaries of a compartment that switch from the repressed B state in NT teloHAEC (red) to the active A state (blue) after 4 h of TNFα treatment. c Genes with down-regulated expression after 4 h of TNFα treatment are enriched in active-to-repressed (A-to-B) switching compartments, whereas up-regulated genes are enriched in B-to-A switching compartments. d ATACseq peaks that are more opened after TNFα treatment for 4 h are significantly enriched in B-to-A switching compartments