Fig. 2

Single-cell RNA sequencing analyses reveals strain-dependent differences in innate immune cells after MI. A Single-cell transcriptomic analysis was performed on these sorted cells as mentioned in Figure S1.B using the 10 × Genomics platform. UMAP dimensionality reduction analysis identified 15 major cell clusters as indicated. B The top 30 cluster-defining genes were used to generate a similarity score to the different immune cell populations found in the ImmGen repository. C Pathway enrichment analysis of the differentially expressed genes between C57BL/6 J and Rag2^del using WikiPathways along with D violin plots of CCR2 and MHC-II expression levels in the various macrophage clusters. E UMAP visualization of the distribution of CCR2 and MHC-II expressing cells in the macrophage clusters. F Visualization of CD68 + (green) and CCR2 + (red) cells in the heart 4 weeks after MI. Scale bar represents 20 μm