Extended Data Fig. 8: Single cell gene expression and T cell receptor (TCR) repertoire characteristics of post-treatment peripheral blood. | Nature Immunology

Extended Data Fig. 8: Single cell gene expression and T cell receptor (TCR) repertoire characteristics of post-treatment peripheral blood.

From: Immunotherapy response induces divergent tertiary lymphoid structure morphologies in hepatocellular carcinoma

Extended Data Fig. 8

a, UMAPs showing gene expression of CD3E, CD4, CD8A, CCR7, SELL, GZMK, PDCD1, CXCL13, TOX, and ZNF683 across all single cells sequenced from post-treatment peripheral blood of 7 HCC patients treated with neoadjuvant ICB. b, Heatmap showing gene expression of the top 3 differentially expressed genes per cluster. Rows represent single genes and columns represent individual cells. Annotation bar indicates cluster identity, whether each cell had a sequenced TCR, the clonality of the TCR, and whether the TCR was identified in microdissected TLS from the same patient. Clusters were downsampled to 75 cells per cluster for visualization. c-e, Volcano plots showing differentially expressed genes in the CD8 TEM_GZMK (c), CD8 TEM_GZMB (d), and CD4 Tph (e) clusters compared to all other cells. Vertical dotted lines indicate a fold change of greater or less than 1.4 and horizontal line indicates a P value of 0.05. Labeled genes in c and d indicate genes with the highest differential expression. Labeled genes in e indicate genes known to be highly expressed in CD4 Tph.

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