Extended Data Fig. 7: Communication between proliferating CD8⁺ T cells and classical monocytes with enrichment of genes of antigen processing and presentation and IFN responses.

a, A chord diagram to visualize cell-cell communication between MKI67⁺ effector CD8⁺ T-cells and monocyte subclusters among long-term responders (LR; n = 15) and early progressors (EP; n = 13). b, Dot plots showing the associations of latent patterns with cell groups in the IFN-II signaling pathway network, between LR (n = 9) and EP (n = 10) on C1D15. c, GSEA plots of gene modules related to antigen processing and presentation and response to IFN-γ in classical monocytes, with DEGs (adjusted p value ≤ 0.05) from each clinical setting: LR between C1D1 and C1D15 (left column), EP between C1D1 and C1D15 (middle column) and classical monocytes at C1D15 between LR and EP (right column). Significance based on enrichment analysis with Benjamini-Hochberg-adjusted p values. d, Gating strategy of TNF-α⁺ CD86⁺ cells among CD14⁺ classical monocytes of healthy donors. e, Representative flow cytometry plots for TNF-α⁺ CD86⁺ cells among CD14⁺ classical monocytes after combination of IFN-γ (100 ng/ml), IL-4 (50 ng/ml), and regorafenib (1 μM) stimulation. f, Bar plots showing the proportion of TNF-α⁺ CD86⁺ cells among CD14⁺ classical monocytes of healthy donors (n = 7). *P < 0.05, **P < 0.01, ***P < 0.005, ****P < 0.001, according to a two-sided Wilcoxon signed-rank test for paired groups. Data are presented as mean ± standard deviation.