Figure S1.
Violin plots a show regulon activity of IRF family members across CD8 positive T cell subsets in two datasets, TILs and LCMV Cl.13. In the TILs dataset, Irf8 shows the widest and most prominent violin shapes with activity reaching up to 0.4 across CD8 Tex, CD8 Tpex, Eff Mem, Early Act, and Naive Like subsets, while Irf1 through Irf7 and Irf9 show considerably narrower distributions with lower activity values. In the LCMV Cl.13 dataset, Irf8 similarly shows broader violins up to 0.2 across Tex, Tpex, SLEC, Eff Interm, Mem Prec, Eff Early, and Eff Cycling subsets, while other family members remain narrower and flatter. Flow cytometry plots b show the sequential gating strategy for spleen cells from LCMV Cl.13 mice, progressing through living CD8 positive cells on LD Aqua Vivid versus CD8a axes, lymphocytes on SSC-A versus FSC-A, single cells on FSC-H versus FSC-A, P14 cells on CD45.1 versus CD45.2, CD44 high cells on CD44 versus PD-1, and finally PD-1 positive cells. Flow cytometry plots c show the same sequential gating strategy applied to tumor cells from B16-gp33 mice across identical axes, with the P14 population appearing more prominent and the CD44 high and PD-1 positive gates showing a larger proportion of cells compared to the spleen samples in panel b.
Comparison of virus- and tumor-specific CD8 + T cells. (a) Regulon signature of IRF family members in different cell states of CD8 TILs (left) and virus-specific CD8 T cells (right) based on publicly available datasets as described in the Materials and methods section. (b and c) Representative gating strategy used to assess IRF8 protein levels in P14 CD8+ T cells in spleen of LCMV Cl13-infected Vβ5 mice (b) and in B16-gp33 tumors (c) as described in Fig. 2 b.