Fig. 4
From: Genome-wide profiling of transcribed enhancers during macrophage activation
Examples of macrophage activation marker genes and enhancers. a Expression of classically activated macrophage marker genes Cxcl9, Cxcl10, and Cxcl11. b eRNA expression of three potential marker enhancers that co-regulate Cxcl9, Cxcl10, and Cxcl11. c Genomic region of a TAD containing Cxcl9, Cxcl10, Cxcl11, and associated enhancers. Black links connect the marker genes with the three potential marker enhancers. Grey links denote other enhancer–gene interactions that we identified in macrophages. d Expression of alternatively activated macrophage marker gene Egr2 and two of M(IL-4/IL-13) marker enhancers associated with Egr2. e Genomic region of a TAD containing Egr2 and associated enhancers. Black links connect Egr2 with the nine M(IL-4/IL-13) marker enhancers. Grey links denote other enhancer–gene interactions that we identified in macrophages. In a, b, and d, data were averaged over replicates and log-transformed. Error bars are the SEM. In c and e, genes are split into two tracks based on the strand, and wide orange marks denote gene promoters; histone mark tracks show ChIP-seq peaks with the height of − 10 × log10(p value), data from [53]