Fig. 4: T-bet and Tcf-1 have differentially accessible binding motifs and are differentially expressed between CD57⁺ and PD-1⁺ Tex populations.

A Significance (-log10 FDR-adjusted p value) and log2 fold change of differentially expressed genes between the PD-1⁺ Tex population cluster (cluster 7) and all CD57⁺ Tex population clusters (clusters 5, 6, 8) (n = 12, 6 R, 6 NR, sampled at 104 wk post-treatment). B Significance of transcription factor binding motif enrichment among differentially accessible peaks (y-axis) (n = 4 R, sampled at baseline and 104 wk post-treatment) versus the normalized log2 fold change of these TFs when their single-cell gene expression was compared between CD57⁺ and PD-1⁺ Tex scRNA-seq clusters (x-axis) (n = 12, 6 R, 6 NR, 104 wk post-treatment). C Enriched protein–protein interaction networks of differentially expressed genes in the CD57⁺ Tex population (left) that contained TBX21 motifs, or differentially expressed genes in the PD-1⁺ Tex population (right) that contained significant TCF7 motifs. Edges were weighted by the combined score of the protein–protein interaction and only DEGs with TF motif enrichment p value ≤ 0.001 were plotted. The PPI enrichment p values were calculated using STRING.