Extended Data Fig. 3: Characteristics of lymphocyte cells.
Related to Fig. 2. (a) Scatter plot showing the average cytotoxic score and exhausted score per cell type in cytotoxic lymphocytes cell types, with colors representing cell type. (b) Heatmap showing the proportion of different cytotoxic lymphocytes cell types in various cancer types or healthy tissues. The rows include a bar plot representing the number of MetaCells (in log10 scale), and the origination of cancer cells labeled by the different colors (c) UMAP visualization depicting the distribution of MetaCells of conventional and regulatory lymphocytes, with cell types represented by different colors. (d) Box plot showing the proportions of distinct CD4+ T cells subgroups across different sources, including blood (red), normal tissue (green), precancerous (orange), tumor (purple), and metastatic (blue), derived from 605 treatment-naïve samples. Significance labels in the figure was assessed via Kruskal-Wallis tests to compare each subgroup distributions among five tissue types. Significance for pairwise source proportions within each cell type, assessed via two-tailed unpaired Wilcoxon tests, is reported in Supplementary Table 6. The open rectangle annotates the comparative scope, with BH correction for multiple testing. The bottom of the box represents the Q1, and the top of the box represents the Q3. The height of the box represents the IQR, while the horizontal line inside the box indicates the median. The whiskers extend to the positions of Q1 - 1.5 * IQR and Q3 + 1.5 * IQR. (e) Heatmap showing the proportion of different conventional and regulatory lymphocyte cell types in various cancer types or healthy tissues. The rows include a bar plot representing the number of MetaCells (in log10 scale), and the origination of cancer cells labeled by the different colors. (f) UMAP plot showing the distribution of B and plasma MetaCells, with cell types distinguished by colors. (g) Box plot showing the proportions of distinct B and plasma cells subgroups across different sources, including blood (red), normal tissue (green), precancerous (orange), tumor (purple), and metastatic (blue), derived from 462 treatment-naïve samples. Significance labels in the figure was assessed via Kruskal-Wallis tests to compare each subgroup distributions among five tissue types. Significance for pairwise source proportions within each cell type, assessed via two-tailed unpaired Wilcoxon tests, is reported in Supplementary Table 6. The open rectangle annotates the comparative scope, with BH correction for multiple testing. The bottom of the box represents the Q1, and the top of the box represents the Q3. The height of the box represents the IQR, while the horizontal line inside the box indicates the median. The whiskers extend to the positions of Q1 - 1.5 * IQR and Q3 + 1.5 * IQR. (h) Heatmap showing the proportion of different B and plasma cell types in various cancer types or healthy tissues. The rows include a bar plot representing the number of MetaCells (in log10 scale), and the origin of cancer cells labeled by the different colors.
