Fig. 4

Across-species comparison of cellular diversity and gene expression profiles of ileum. a t-SNE plots showing the datasets alignment of ileum cells from the humans (n = 11,042), pigs (n = 18,754), and mice (n = 8,984) based on gene expression profiles. The cell population marked by three colors according to the species. b t-SNE visualization of 38,780 cells grouped by expression similarity and colored by cluster. c Histogram showing the percentage of all cell types in ileum tissue from mice, pig and human. d Heatmap showing the differential expression of marker genes in epithelial, stromal, and immune cell subsets from human, pig and mice data. e Representative conserved signature genes in each cell subset from mice, pig, and human ileum. The darkness of red color corresponds to average expression level of genes. Dot size indicates the percentage of cells expressing the corresponding genes. f Quantity of epithelial, stromal, and immune cell subsets at different cell cycle from ileum of mice, pig, and human. g Pearson correlations between each pair of single cells from mice, pig, and human datasets based on their gene expression profiles. Black-dotted boxes showing the correlations of single-cell pairs between human and mice were relatively low and unstable