Figure 2 from Functionally Characterizing the Renal Cell Carcinoma Tumor-Immune Microenvironment via Patient-Derived Ex Vivo Models

Characterization of CD8+ T cells in control. A, UMAP of 5,177 CD8+ T cells in untreated control condition, captured across eight patient samples (RCC_1–RCC_8), colored by characterized cell subtypes. B, Bar plot showing distribution of characterized CD8+ cell subtypes across all eight patients, ordered by the proportion of exhausted CD8+ cells in each patient. C, Dot plot showing average expression of selected genes across identified cell clusters. Each dot represents a specific gene–cluster combination, in which the size of the dot indicates the percentage of cells within the cluster expressing the gene and the color intensity reflects the average expression level of the gene in those cells. D, CyTOF analysis of CD8+ T cells in control condition from nine patients (RCC_9–RCC_17). Marker expression patterns are visualized using t-distributed stochastic neighbor embedding (t-SNE) plots. E, Signature score for naïve, activation/effector, cytotoxicity, exhaustion, progenitor exhaustion, and terminal exhaustion CD8+ T cell signatures plotted on CD8+ T cell UMAP. F, UMAP depicting the pseudotime inference of CD8+ T cells, showing three distinct paths. Heatmaps on the right show the top 20 genes that change their expression over the course of path progression.