Fig. 5

The subtypes of T cells in HD and WM. A t-SNE projections of subclustered T cells, labeled in different colors. Cell type annotations are provided in the figure. B Violin plots showing the expression of marker genes in each subtype of T cells. C The t-SNE plots, showing T cell origins by color, individual origin (left), and HD or low/high-tumor infiltration WM patients’ origin (right). D Violin plots showing the proportion of CD4+ and CD8+ T cells (left), and the ratio of CD4+ vs CD8+ T cells (right) in HD and WM samples. Statistical analysis is an unpaired Wilcoxon test between HDs and WM patients. E Heatmap indicating the expression of selected gene sets in T subtypes, including naive, resident, inhibitory, cytokines, co-stimulatory, transcriptional factors (TF), regulatory T (Treg) cell, cell cycle, and cell type. F Boxplots illustrating the fraction of T subtypes in HD and WM (top, unpaired Wilcoxon tests between HDs and WM patients), and in low/high-tumor-infiltration WM patients (bottom, unpaired Wilcoxon tests between low/high-tumor-infiltration WM patients), respectively. G Bar charts showing the gene expression of immune checkpoint receptors in CD8+ T cells of HD and WM (left, unpaired Wilcoxon tests between HDs and WM patients), and of low/high-tumor-infiltration WM patients (right, unpaired Wilcoxon tests between HDs and WM patients, and between low/high-tumor-infiltration WM patients). *P < 0.05, **P < 0.01, ***P < 0.001