Supplementary Figure 7: Processing of scRNA-seq data to exclude CD45- cells and characteristic markers of each scRNA-seq cluster.
From: Multiplexed activation of endogenous genes by CRISPRa elicits potent antitumor immunity
a, t-SNE of all single cells passing the filtering criteria, colored by k-means clustering (AAV-p-MAEGI, n = 4381 cells; AAV-Vector, n = 3482). b-f, Pooled analysis of all CD45+ cells, grouped by cluster (k1, n = 124 cells; k2, n = 409; k3, n = 383; k4, n = 1056; k5, n = 317; k6, n = 734; k8, n = 1781; k9, n = 2060). b, Violin density plots of Ptprc (encoding CD45) expression, grouped by k-means cluster. Cluster 7 is largely negative for Ptprc expression. c, Violin density plots of Cd3e, Cd4, CD8a, Il7r, and Gzmb expression, defining different T cells. d, Violin density plots of Cd19, Cd20, Pax5, Jchain, and Ly6d expression, defining different B cells. e, Violin density plots of Ly75, Batf3, Clec10a, and CD209a expression, defining different dendritic cells. f, Violin density plots of Cd14, Fcgr1, and Adgre1 (encoding F4/80) expression, defining macrophages and monocytes.
