Fig. 4: Mitochondrial copper(ii) regulates the epigenetic states and transcriptional programmes of inflammatory macrophages.
From: A druggable copper-signalling pathway that drives inflammation
a, GO term analysis of upregulated genes in aMDMs (n = 10 donors). Adj. P, adjusted P value. b, RNA-seq analysis of MDMs. Macrophage inflammatory signature genes are highlighted. The dashed line indicates an adjusted P value of 0.05 (n = 10 donors). c, RNA-seq analysis of MDMs. Iron-dependent demethylase and acetyltransferase signature genes are highlighted. The dashed line indicates an adjusted P value of 0.05 (n = 10 donors). d, Correlation for a representative donor of ChIP–seq reads count of histone marks in genes against RNA-seq of gene transcripts in MDMs (n = 10 donors). e, GO term analysis of genes in aMDMs (n = 10 donors) whose expression levels are downregulated upon treatment with LCC-12 (n = 5 donors). f, RNA-seq analysis of aMDMs (n = 10 donors) and MDMs treated with LCC-12 during activation (n = 5 donors). Macrophage inflammatory signature genes are highlighted. The dashed line indicates an adjusted P value of 0.05. g, Correlation for a representative donor of ChIP–seq reads count of histone marks in genes against RNA-seq of gene transcripts in aMDMs (n = 10 donors) and MDMs treated with LCC-12 during activation (n = 5 donors). h, RNA-seq analysis of CD44-knockout (KO) and wild-type (WT) aMDMs. Representative of n = 4 donors. Gating strategy is shown in the Supplementary Information. Macrophage inflammatory signature genes are highlighted. The dashed line indicates an adjusted P value of 0.05. In a–c,e,f, Differential gene expression was assessed with the limma/voom framework. GO enrichment was assessed with the enrichGO method from clusterProfiler. P values were corrected for multiple testing with the Benjamini–Hochberg procedure.
