Fig. 3

LPS-induced H3K27ac and RELA binding. a: RELA activation. Detroit 562 cells were treated with LPS at 1μg/ml for 80 min or not (Control). Nuclear proteins were extracted and RELA activation was tested. The bars show the average of 3 independent experiments as the fold change in luminescence after LPS stimulation compared to the control and the error bars represent the standard deviation. b: Motif analysis. Proportion of H3K27ac peaks identified under Control (grey) or LPS condition (orange) containing the known motifs NFKB-p65-Rel (left) or NFKB-p65 (right). Comparison between the two sets of peaks was performed using a Chi-square test and the P-values are reported. c: De novo motif analysis. The most enriched motif identified by de novo motif analysis in LPS-increased H3K27ac peaks against all H3K27ac peaks as background is reported (top) together with the known matched motifs and the E-value quantifying their resemblance (bottom). d: Overlap between H3K27ac and RELA peaks. LPS-increased H3K27ac regions and RELA binding sites identified under LPS stimulation were compared, two peaks were considered overlapping when they had at least one bp in common. e: RELA binding at H3K27ac peaks. RELA ChIP-seq data was used to quantify RELA binding at LPS-increased (orange) and non LPS-increased (grey) H3K27ac peaks. Difference between the two groups was tested with a Wilcoxon test. f: RELA binding at Super-Enhancers. RELA ChIP-seq data was used to quantify its binding at super-enhancers (SE – in red) and other enhancers (other E – in grey). Difference between the two groups was tested with a Wilcoxon test