scRNA-seq analysis of liver endothelial cells from Gimap5^sph/+ and Gimap5^sph/sph mice. (A) Clustering of endothelial cells from Gimap5^sph/+ and Gimap5^sph/sph livers using the Louvain method with a resolution parameter 0.4. Uniform Manifold Approximation and Projection (UMAP). Cell identities were inferred from marker genes. (B) Absolute number of cells in each endothelial subpopulation. (C) Overlay of endothelial cell cluster maps annotated by genotype: Gimap5^sph/+ and Gimap5^sph/sph. (D)Pecam1, Clec4g, Dnase3l1, Ly6a, Cd34, and Gata4 expression in combined subpopulations of LSECs and CECs isolated from Gimap5^sph/+ (blue) and Gimap5^sph/sph (red) mice. ECs, endothelial cells. (E) Enrichment plot from GSEA of preranked list of genes differentially expressed in GIMAP5-deficient and sufficient liver endothelial cells as compared with a background list of mouse Gata4-dependent liver endothelial cell regulated genes. NES, normalized enrichment score. (F) Cluster of LSECs, CECs, and macrovascular-like cells with trajectory analysis performed in Monocle.