Fig. 2
From: Acquired cancer resistance to combination immunotherapy from transcriptional loss of class I HLA
scRNAseq of PBMC identifies an activated CD8+ T cell population at response. Four peripheral blood time points are shown, all from the discovery patient (2586-4): pre-treatment, early post-treatment (day + 27), treatment response (day + 376), and late/acquired resistance (day + 614). a t-Stochastic Neighbor Embedding (tSNE) visualization of clustering of peripheral blood. Peripheral blood mononuclear cells (PBMC; n = 11,021) clustered into populations as indicated. Representative marker genes shown in Supplementary Fig. 7. b, c Enrichment of cluster of activated CD8+ lymphocytes (red cluster, arrow) at response to immunotherapy. Clustering biostatistical analysis described in detail in the Methods, and proportion of CD8+s in each cluster at the various time points compared with Fisher’s exact test. d Heat map of selected significantly differentially expressed genes comparing CD8+ T cells in the red activated cluster (n = 170) to those in the blue effector/EM cluster (n = 429) at response (day + 376). For full list of all 45 differentially expressed genes, see Supplementary Table 3
