Figure 1: Transcriptomic analyses of thymocyte subsets.

(A) Populations sorted for RNA-seq analyses. Unsignaled (grey) MHC I- (blue) and MHC II- (red) signaled subsets are shown on a schematic CD4-CD8 expression plot.

(B) PCA displays cell subsets according to PC1 and PC3. Each symbol represents an individual biological replicate.

(C) Heatmap shows row-standardized (Z-scores of reads per million [RPM] values) mRNA expression in populations identified as defined in (A).

(D) Definition of CD4⁺ and CD8⁺ signature genes shown in (E,F).

(E, F) Heatmaps (as in [C]) of CD8⁺- (E) and CD4⁺- (F) lineage signature gene expression. CD4⁺ signature genes differing by their kinetics of expression are boxed (F).

See also Figure S1