Extended Data Fig. 5: Additional analyses of the scRNA-seq data for T cell populations (related to main Figure 2).
From: Extricating human tumour immune alterations from tissue inflammation
(a) UMAP plot of the T cell populations after subsetting and reclustering, colored by cluster. (b) Relative cluster abundance across donors and tissue origin (color code is the same as in panel a) (c) Number of DE genes between HNSCC and OM-derived cells per T cell cluster as determined by MAST. (d) Heatmaps showing the top 30 transcripts that were shared between OM and HNSCC, but differentially expressed from matched peripheral blood, for each of the indicated T cell clusters. (e) Heatmaps showing the top 30 transcripts that were differentially expressed in HNSCC for the T cell clusters 4–6, which were the two clusters showing the largest number of DE genes between OM and HNSCC. (f) Heatmap overlays showing the indicated lineage transcripts and T cell scores (see material and methods) on the UMAP plot. (g) Violin plots depicting the relative T cell score in the indicated HNSCC (red) vs OM-derived (orange) T cell clusters.
