Fig. 3: The exhausted state of T cells in the tumor microenvironment of AEG.

A UMAP plot showing CD4⁺ T, CD8⁺ T, and NK cell clusters. B Expression of canonical marker genes for CD4⁺ T, CD8⁺ T, and NK cell. C Expression of marker genes to identify naïve, exhausted, regulatory, and effector T cells, as well as NK cells. D Comparison of the proportion for each CD4⁺ and CD8⁺ T cell cluster between AEG and GAC using Wilcoxon rank-sum test. E Expression of exhausted molecules in T cells derived from either AEG or GAC tumors. F Calculated cytotoxicity and exhaustion scores for each T cell cluster derived from either AEG or GAC tumors. G Pseudotime trajectories of the developmental paths for CD4⁺ (top panel) and CD8⁺ T cells (bottom panel) in AEG. H Increasing exhaustion scores along the developmental trajectories of CD4⁺ and CD8⁺ T cells. I The TCR index scores of expansion (expa), migration (migr), and transition (tran) for each CD4⁺ and CD8⁺ T cell cluster.