Fig. 7.

Changes in gene expression occur as a function of changes in chromatin in TADs and CTCF loops. a Logistic regression model of gene expression changes as a function of CTCF and/or H3K27ac changes in TADs and CTCF loops (see the “Methods“ section for details). Diff. CTCF and H3K27ac: differential CTCF and H3K27ac peaks. DE gene: differentially expressed gene. P-values were calculated using Wald-test (***P < 2e−16 for differential CTCF in TADs; ***P = 2.6e−5 for Diff. H3K27ac in TADs; ^NSP = 0.29 for Diff. CTCF in loops; ***P = 1.38e−6 for Diff. H3K27ac in loops). b Intersection of differential CTCF and H3K27ac peaks within TADs and CTCF loops. c Proposed model: NSD2-mediated H3K36me2 increases chromatin accessibility to favor TF and CTCF binding, which in turn impacts 3D genome reorganization and gene expression changes