Fig. 4

ScRNA-seq profiling of cell types in U-iKOs. A UMAP projection of 10,125 single cells from 2D U-iKOs into 13 distinct clusters. Four main cell types are circled on the diagram with different colors. B UMAP projection of 10,739 single cells from 3D U-iKOs into 11 distinct clusters. Four main cell types are identified in A. C Heatmap of well-known markers and signature genes in A. D Heatmap of well-known markers and signature genes in B. E Barplot of the tubule, podocyte, neuron, and mesenchyme between 3 and 2D U-iKOs. F UMAP projection of tubule and podocyte from 3 and 2D U-iKOs into 9 clusters. G Signature genes in distal tubule1, distal tubule2, tubule_GDF15 + , and collecting duct (CD). H Barplot of 3D and 2D cells in each cluster in F. I Heatmap of differentially expressed genes between 4 clusters in F, selected signature genes, and GO term with p values in the right