Gene expression analysis of inflammatory macrophage populations. (A) Hierarchical clustering of steady-state and inflammatory macrophage populations (3 replicates for each populations) based on the 15% of genes with the greatest variability. (B) Volcano plot (P value vs fold change, with each dot representing 1 probe set), highlighting the 76 genes upregulated in MHC-II⁻ inflammatory macrophages (green) and the 93 genes upregulated in MHC-II⁺ inflammatory macrophages (purple). Some differentially expressed probe sets were tagged with the gene name they correspond to. (C) Heat map depicting genes differentially expressed (P < .05; fold > 2) between MHC-II⁻ and MHC-II⁺ inflammatory macrophages. (D) Pathways associated with differentially expressed genes between MHC-II⁻ and MHC-II⁺ inflammatory macrophages.