Fig. 7
Modes of nucleosome remodeling have functionally distinct effects on enhancer activation and gene expression. Enhancer activation differs significantly between remodeling modes, as measured by proportion of sites gaining DHS (a) and degree of change in H3K27Ac (b). c Venn diagram of minimally remodeled GR binding sites and subsets which gain H3K4methylation, H3K27Ac, or DHS suggesting de novo enhancer development. d Box and whisker plot of log2 fold-change expression for genes induced following dexamethasone treatment. Asterisk symbol indicates that phased remodeling is associated with significantly greater induction of gene expression than other modes of remodeling. e Box and whisker plot of log2 fold-change expression for genes repressed following dexamethasone treatment. For d and e, p-values estimated by Mann–Whitney test. n.s. denotes p-value not significant. f GREAT (genomic regions enrichment of annotations tool) [30] analysis of GR sites having minimal remodeling. Gray text denotes gene ontologies not relevant to this cell type. Genes belonging to overlapping enrichment terms are listed on the right