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. Author manuscript; available in PMC: 2024 Oct 9.
Published in final edited form as: Cancer Cell. 2023 Sep 21;41(10):1803–1816.e8. doi: 10.1016/j.ccell.2023.08.013

Figure 3. Gene expression changes associated with PD-1 response.

Figure 3.

(A) Joint graph LargeVis sub-clustering embedding showing RS-R (purple) and RS-NR (light blue) cells as well as ZNF683-expressing cells (red).

(B) Cluster proportions for RS-R (purple) and RS-NR (blue) in bar graphs at top with heat maps showing representative cytotoxicity, exhaustion and expression changes within circled clusters for RS-R and RS-NR. Heat map values represent expression Z scores.

(C) Volcano plot showing gene expression differences comparing RS-R to RS-NR cells in Cluster 8 Exhausted.

(D) Top differentially expressed transcription factors in comparison of gene expression data in total CD8 T cells between RS-R and RS-NR.

(E) Kinetics of cluster 1 and 4 cell proportion at on-treatment, response and progression time points in RS-R3.

(F) Bubble plot showing percent expressing and average relative expression for patients with RS with progression on PD-1 blockade.