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Fig. 5 | Genome Biology

Fig. 5

From: Epigenomic analysis reveals a dynamic and context-specific macrophage enhancer landscape associated with innate immune activation and tolerance

Fig. 5

Drug target prioritization (priority index, Pi) for immune disease risk genes in macrophages. a Heatmap showing the log2 fold change upon HD vs. UT or LDHD vs. HD of differentially expressed immune disease risk genes in MDMs (as highlighted in Fig.4c). b Violin plot showing the distribution of the Pi rating scores of all genes for which a Pi rating was computed. The number of genes analysed for each trait is indicated in a parenthesis. The Pi prioritized risk genes identified by macrophage chromatin states and with Pi rating scores more than the 95th percentile (the horizontal red line) are listed (DE gene in blue). c Bar plot showing the number of traits associated with each Pi prioritized risk gene. d Bar plot of the percentage of DE genes in each group as indicated on the x-axis. Numbers of genes (number of DE genes/total number of genes) in each group are indicated within the bars. p values were calculated by two-tailed Fisher test (***p < 0.001). ‘All genes’: all MDMs expressed genes; ‘with ATAC’: genes with proximal recurrent ATACs; ‘with diff.ATAC’: genes with proximal differential ATACs; ‘with diff.ATAC (risk SNPs)’: genes with risk-SNP-containing differential ATACs; ‘with diff.ATAC (risk SNPs)/Pi prioritized’: Pi highly rated genes with diff.ATAC (risk SNPs). See also Fig. S4

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