Additional file 4: of Changes in H3K27ac following lipopolysaccharide stimulation of nasopharyngeal epithelial cells

Summary of the changes observed. A: H3K27ac changes after LPS treatment. Peaks were ranked according to the ratio LPS/Control of the H3K27ac ChIP-seq normalized read counts and top (Increased), middle (Unchanged) and bottom (Decreased) 300 peaks were extracted. Log2 Fold change (Log2FC) of the H3K27ac change is represented with the histogram (see Additional file 12 for the peaks information). B: Annotation of the peaks. The peaks in A were annotated and represented on the graph by color-code as follow: enhancers if they were intergenic, in introns, 3’ UTR or TTS (yellow), promoters if identified in promoters or 5’ UTR of a gene (orange) or others (green). C: NFkB-RELA signal. Normalized RELA ChIP-seq read counts inside each peak were used as a measure of RELA binding. The peaks in A were binned into groups of 25 and average of read count for each group was plotted on the graph. D: Gene expression. Each of the peaks in A were assigned to the closest gene and the log2 fold change of gene expression for this was plotted. Genes for which FPKM in one condition (LPS or Control) was 0 were removed and are shown as gaps. See Additional file 11 for more details on the integration analysis. (PDF 423 kb