Fig. 4: IM cells represent a multi-lineage, stem-like state.
From: ERG-driven prostate cancer initiation is cell-context dependent and requires KMT2A and DOT1L
a, Experimental design including WT (1 mouse), PC (2 mice) and EPC (2 mice). Whole prostates from indicated mice at 3 months of age were collected for scRNA-seq analysis. b,c, UMAP of epithelial cell clusters with all genotypes together (b) or assigned to each genotype (c). Luminal and IM clusters specific to mutant samples (PC and EPC) are highlighted in circles and defined as Lum_Mut and IM cells, respectively. Cluster IDs are shown. A cluster with low expression of epithelial lineage markers is defined as lineage-negative. d, UMAP plotting the ERG transgene expression. e, Cell cycle scores (top) and GSEA (bottom) across all epithelial clusters. The clusters are numbered according to the UMAP in b. Pathway enrichment is calculated via GSEA using clusterProfiler and shown for those with an FDR-adjusted P < 0.05. f, Violin plots comparing canonical prostate lineage marker expression across all epithelial clusters. The clusters are numbered according to the UMAP in b. g,h, Transcriptional programs in indicated cell types from single-cell transcriptomes in mice (g) and human (h). LN, lineage-negative; C2, MSigDB Collection 2.
