Extended Data Fig. 6: FACS plots and cell-type composition of individual scRNA-seq samples.

(a) FACS plots for each sample used for single-cell RNA sequencing, using thymuses from age-matched wildtype mice as controls. The boxed area shows the gating strategy and the percentage of p53mCherry⁺ cells. (b) Dot plot showing expression of marker genes (rows) among different cell types (columns), n = 10 samples. The size of each dot represents the percentage of cells expressing a given marker. The red intensity of each dot represents scaled average gene expression. (c) Cells from individual samples (n = 10) are shown in UMAP scatter plots based on integrated clustering in Fig. 4b. Colors distinguish cell types. Cell#, the total number of high-quality cells in each sample used for subsequent analysis. N, p53mCherry⁻ cells. P, p53mCherry⁺ cells. (d) The cell-type composition among different samples (n = 10). ISP G2M and G1/S cells were grouped together as cycling ISP. CD4 or CD8 single-positive T cells were grouped together as SP. Cells not belonging to the T-cell lineage were grouped as Non-T.