Fig. 6

ATAC-seq and RNA-seq analysis of mouse M1 BMDM. A Separated heatmaps and average intensity profiles of promoter accessibility over all annotated TSSs in the mouse genome. B Combined average intensity profiles of promoter accessibility over all annotated TSSs. C The volcano-plot of differential accessible ATAC-seq peaks comparing LPS-stimulated BMDM (M1) and untreated BMDM. D The volcano-plot of differentially expressed genes comparing LPS-stimulated BMDM and untreated BMDM in RNA-seq results. E Expression of Vegfa in LPS-stimulated BMDM and untreated BMDM in RNA-seq results. F Localization of Vegfa gene in the chromatin to show its different accessibility of promoters between LPS-stimulated BMDM and untreated BMDM. G Venn diagram of the genes annotated from more accessible peaks in ATAC-seq and the up-regulated genes in RNA-seq comparing LPS-stimulated BMDM and untreated BMDM H Top 20 de novo motifs enriched in the more accessible peaks with up-regulated expression comparing LPS-stimulated BMDM and untreated BMDM. BMDM bone marrow-derived macrophages, TSS transcription start sites, Vegfa vascular endothelial growth factor A