Extended Data Fig. 4: Mac^AIR comparison to other published macrophage data sets.

a, Uniform manifold approximation and projection (UMAP) plot of monocytes and macrophages extracted from the Tabula muris atlas and merged with the aortic intima-macrophage (Mac^AIR) data set (‘Aorta’) from this work. b, UMAP plot identifying distinct cell clusters based on transcriptional signatures. c, Mac^AIR marker genes were used to calculate a module score, which was used to identify cells from the Tabula muris atlas that were similar to Mac^AIR. The Mac^AIR module score was applied and represented by heat map-style UMAP plot. d, Number (top graph) and percentage (bottom graph) of cells from each tissue that are in each cluster. e, UMAP heat map-style representation of MMP12 (Mac^AIR marker), Cx3cr1, and Csf1r (top row) with violin plot representation of each given gene below. f, Heat map comparing the top 50 MacAIR markers to all the clusters found in b. g, UMAP plotting only cluster 2 and showing tissue origin. h, UMAP heat map-style representation of top Mac^AIR markers: Mmp12, Mmp13, Cxcl16, Itgax (CD11c), i, Differential genes from the comparison among monocytes, adventitia macrophages, and Mac^AIR (our data – this study) were overlapped with genes extracted from the comparison between the Lyve^l°^wMHCII^high and Lyve^highMHCII^l°^w macrophages from the Chakarov et al. dataset. The jaccard index between each pair for cell types from the two datasets were calculated and plotted in the heatmap. j, Comparison of Mac^AIRs identified in the tunica intima-enriched young arch vs aged descending data sets.