Extended Data Fig. 4: Effects of p53 hyperactivity on thymic compartments.

a, Representative flow cytometry plots of the frequencies of AIRE⁺ mTECs from 3-4 week-old p53-WT or p53-cHyper sex-matched littermates. b, Comparison of frequencies or mean fluorescence intensity (MFI) of indicated thymus compartments between p53-WT and p53-cHyper sex-matched littermates (n = 6). P-values from two-sided paired t-tests. c, Aire expression overlayed on scATAC-seq UMAP from Fig. 3b. d, Rank-sorted differences in transcription factor motif prevalence within accessible genomes (chromVAR deviation scores) of p53-cHyper versus p53-WT Early Mature mTECs as defined in Fig. 3b. e, Transcription factor footprinting at p53-target motifs within p53-cHyper and p53-WT Early Mature mTECs. f, Differences in fraction of scATAC-seq fragments within scATAC-seq peaks (WIP) between neighboring p53-cHyper and p53-WT mTECs overlayed on scATAC-seq UMAP from Fig. 3b. g, Paired violin plots comparing distributions of the ratio of the normalized sum of mononucleosomal vs. subnucleosomal scATAC-seq fragments from indicated genotypes across annotated clusters defined in Fig. 3b. P-values from one-sided Mann-Whitney U-tests. h,i, Heatmap of Z-scores of differentially expressed genes (h) or differentially enriched transcription factor motifs (i) across mimetic mTEC clusters defined in Fig. 3f. j–l, Gene expression levels of Aire (j), H2-Ab1 (k) or module of S-phase genes (l) overlayed on scRNA-seq UMAP from Fig. 3f. m, Expression levels of genes encoding mimetic-defining transcription factors for indicated subtypes overlayed on scRNA-seq UMAP from Fig. 3f. n–s, Representative flow cytometry plots for the definition of mimetic mTEC compartments.

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