Figure 6.

Integrative coexpression analysis. The datasets from Aire wild-type cells, Aire-deficient medullary thymic epithelial cells, and wild-type CD4⁺ thymocytes were integrated to determine how their transcriptional modulation could distinguish between Aire wild-type and Aire-deficient TECs (A) or between TECs, mTECs and wild-type CD4⁺ thymocytes (B). A proportion plot of cells in each cluster (C) of the UMAP (B) was generated. The identification of cell clusters was performed according to the expression of specific mRNA markers (Epcam, Ccna2, and Birc5 for TECs or mTECs) or (Ilr7 and Ccr7 for CD4⁺ thymocytes) (B, C). The expression profiles of enriched mRNAs that encode cell adhesion molecules or transcriptional regulators are shown in the dot-plot graph (D1-2).