Supplementary Figure 5: Extended analysis of the transcriptomic signatures of the incisor epithelium during recovery.

a, TUNEL (red) and EdU (green) staining revealed high levels of apoptotic cell death in the cycling regions of the incisor epithelium during 5FU treatment (day 2), while the non-cycling regions remained unaffected. Yellow (IEE) and orange (OEE) boxed area are enlarged on the bottom. Scale bars, 50 µm. b, c, SPRING plots combining control and recovering incisor epithelial cell dataset. Colors are the same as depicted in Fig. 4g, h. d, Top 20 enriched genes for each of the cell populations defined in the injury condition (top map) show similar expression patterns (annotated in doted green vertical lines) as their counterparts in control (bottom map). Cells are colored as in Fig. 1d for control (bottom right), and by classification results (see “Defining cell populations observed in single-cell RNAseq data” in methods) for injury (top right). e-g, SPRING plot shown in panel c with the two conditions displayed side-by-side and colored by gene expression of markers shown Fig. 4i-k: cycling cell markers Ccnb1 and Birc5, pre-ameloblasts markers Igfbpl1 and Ank2, and injury-enriched markers Sfrp5 and Cldn10. h, I, Equivalents of Supplementary Fig. 3e, f for Class 1 cells in injury.