Fig. 2: The epithelial compartment reveals heterogeneous malignant subtype composition. | Nature Communications

Fig. 2: The epithelial compartment reveals heterogeneous malignant subtype composition.

From: Single-cell RNA sequencing reveals the effects of chemotherapy on human pancreatic adenocarcinoma and its tumor microenvironment

Fig. 2

A Non-batch corrected UMAP of all epithelial cells, showing clustering by patient sample of most epithelial cells and clustering of some epithelial cells across samples. UMAP uniform manifold approximation and projection. B Non-batch corrected UMAP of malignant and normal epithelial cells as determined by InferCNV. C UMAP embedding of malignant epithelial cells labeled with Moffitt subtypes. Exemplary samples high in basal (P18) and classical (P08) cells are annotated. D Proportion of cells of each Moffitt subtype by sample. EUS endoscopic ultrasound. E Representative (n = 27) images of multiplex immunofluorescence across the subtype spectrum: higher in basal (upper panel, P03), mixed (middle panel, P24), and higher in classical (lower panel, P07) subtype tumors. Basal-to-classical ratio for each sample by scRNA-seq transcriptional analysis is shown on the right as a colored bar (dark = basal, light = classical). Channels (always including DAPI (blue)): GATA6 (green), CK19 (cytokeratin 19) (violet), CK17 (cytokeratin 17) (yellow), and merged. Scale bar = 100 μm.

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