Impact of p53 in the transcriptome of cTECs and mTECs. RNA-Seq analysis of FACS-sorted cTECs and mTECs purified from 2-week-old Ctr and p53cKO mice, including 3 biological replicates per subset. (A) Hierarchical clustering of all samples by gene expression correlation distance for the top 1000 most diverse genes. (B) Comparison of the transcriptome of cTECs from p53cKO versus Ctr mice (left) and mTECs from p53cKO versus Ctr mice (right). Minus-average plots showed the log2-fold change (y-axis) versus the mean expression (x-axis) of total genes obtained by comparison. Genes with a log2-fold change that present an adjusted P value that is <0.1 were called differentially expressed (DE). Upregulated and downregulated DE genes in p53cKO samples are highlighted in red and green, respectively, together with their numbers. Unaltered genes are depicted in gray. (C) Venn diagrams represent the number of upregulated (top) or downregulated (bottom) DE genes in cTECs (blue) and mTECs (salmon) of p53cKO versus Ctr mice. (D) Venn diagrams show the number and proportion of upregulated (red) and downregulated (green) genes of p53cKO mTECs within Aire-dependent or Aire-independent TRA genes, as defined by Sansom et al.²⁵  (E) Heat map of enriched biological processes (left) and molecular functions (right) in upregulated (red) or downregulated (green) DE genes of p53cKO mTECs. Represented are activated (red) or inhibited (green) categories with a marginal posterior probability estimate that is >0.65. In parentheses are indicated the number of DE genes per GO category. Adj p, adjusted P; Aire-dep, Aire-dependent; Aire-indep, Aire-independent; ATP, adenosine triphosphate; Struc. Const., structural constituent.