Fig. 3: Elevated RelA binding to promoter regions is correlated with elevated gene expression. | Cell Discovery

Fig. 3: Elevated RelA binding to promoter regions is correlated with elevated gene expression.

From: NF-κB RelB suppresses the inflammatory gene expression programs of dendritic cells by competing with RelA for binding to target gene promoters

Fig. 3: Elevated RelA binding to promoter regions is correlated with elevated gene expression.

a Histogram of filtered highest FC RelA-ChIP peaks for all genes. Peaks were annotated to the nearest gene promoter region and filtered for the highest log2FC (RelB−/−/WT) in RelA binding (RPKM) for each individual gene; all peaks are RPKM > 10. Descriptive statistics: mean, log2FC = 0.24; 90th percentile, log2FC = 0.66; 10th percentile, log2FC = −0.22. b Scatter plot showing the log2FC (RelB−/−/WT) in RelA binding (RPKM) at 1 h LPS stimulation compared to all CpG-induced genes (Log2FC > 1) in WT or RelB−/− BMDCs, 8 h gene expression time point shown. Previously characterized IFN-independent hyper-expressed genes in RelB−/− are highlighted in red, and all other induced genes are colored gray. c Scatter plot comparing the log2FC (RelB−/−/WT) in RelA binding (RPKM) of IFN-independent hyper-expressed genes and genes with unchanged expression (−0.1 < log2FC < 0.1) in RelB−/− relative to WT at 8 h CpG stimulation time point. d Representative genome browser tracks for ChIP peaks near promoter regions of TSS for IFN-independent hyper-expressed genes in RelB−/−. IGV tracks from WT BMDCs are represented in blue, and IGV tracks from RelB−/− BMDCs are represented in red. RelB−/− (red) and WT (blue) RelA-ChIP tracks (top row) are overlayed to provide a visual comparison.

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