Fig. 3
Subpopulations of PT cells and reconstructing the developmental trajectory of PT cells. (a) Violin plots representing the expression of marker genes in PT cells. Clusters 1, 2 and 3 refer to the proximal convoluted tubule, proximal tubule and proximal straight tubule, respectively. (b) Monocle2-generated pseudotemporal trajectory of three PT cell types (n = 20,308); imported Seurat data are coloured according to the cell name designation. (c) Pseudotime was coloured in a gradient from dark to light blue, and the start of pseudotime is dark. (d) The pseudotime trajectory was divided into three different states by Monocle2. (e) The trajectory showing the distribution of cells from three samples. (f) The top six genes influencing fate decisions are shown as line plots displayed as the expression level over pseudotime by Monocle2. (g) Heat map for clustering the top 50 genes that affected cell fate decisions. These 50 genes were divided into three clusters (cluster 1, cluster 2 and cluster 3), showing genes at the beginning stage, the transitory stage and the end stage of the developmental trajectory, respectively.
