Fig. 4: Single cell analysis of clonally expanded γδ T cells after pembrolizumab treatment. | Nature Communications

Fig. 4: Single cell analysis of clonally expanded γδ T cells after pembrolizumab treatment.

From: Tumor reactive γδ T cells contribute to a complete response to PD-1 blockade in a Merkel cell carcinoma patient

Fig. 4

A UMAP of sorted γδ T cells from week six peripheral blood from patients E-013 and E-035. 2541 and 1105 cells are from E-013 and E-035 respectively. B Clonotypes were classified by the CDR3 nucleotide sequence and colored according to absolute number of cells. The γδTCR3-4 was the only hyperexpanded clonotype and highlighted as cells having CDR3 for TRG: CATWDGSRSYYKKLF, or TRD: CALGDYVLSDKLIF, or both. C Composition of each cluster by clonotype size. D Heatmap of top five differentially expressed genes between each cluster. E Expression of select TRG and TRD chain usage within each cluster. F Volcano plot of differentially expressed genes between Vγ9Vδ2 cells found in cluster 5 and γδTCR3-4 cells. DEG were determined by two-sided Wilcoxon rank-sum test with log2 FC > 0.4 and Bonferroni-adjusted P < 0.01. G γδTCR3-4 cells were subsetted and then reclustered with trajectory inference projection on top. H Smoother plots of GZMK and GZMB between two lineages over pseudotime is shown.

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