Supplementary Figure 6: Virus-specific CD8⁺ T cells from mice lacking CD4⁺ T_reg cell–derived IL-10 display a robust inflammatory and effector gene signature.

mRNA was isolated from pooled GP₃₃⁺ and NP₃₉₆⁺ CD8⁺ T cells at 15 days post acute LCMV infection from Il10^f/f and Il10^f/f Foxp3-Cre mice and compared by RNA-seq. (a) Gene set plots showing individual log₂ fold-changes of with corresponding standard error based on published effector vs memory gene set. Gene Set Enrichment Analysis (GSEA) was performed using gene sets from the Broad MSigDB collection; select significantly enriched gene sets (FDR < 1e-5) are shown with their running Enrichment Score (ES) (line), where members of the gene set appear in the ranked list of genes (barcode), and the signal to noise ranking metric (bar). A positive ES signifies enrichment in the Il10^f/f Foxp3-Cre sample relative to the WT condition of a given gene set; i.e., more highly expressed. (b) GSEA results of CpG (c) and poly:IC stimulated genes (bottom) were visualized. (d) Normalized enrichment scores for Gene Set Enrichment Analysis. Normalized enrichment scores (NES) was calculated for select significantly enriched gene sets (FDR < 1e-5). Gene set name, figure GSEA plots shown in, and NES are shown in table.