Extended Data Fig. 1: Cell type and inferred CNA composition across PDAC tumors. | Nature Genetics

Extended Data Fig. 1: Cell type and inferred CNA composition across PDAC tumors.

From: Single-nucleus and spatial transcriptome profiling of pancreatic cancer identifies multicellular dynamics associated with neoadjuvant treatment

Extended Data Fig. 1

a, UMAP embeddings of single-nucleus profiles (dots) from individual tumors (panels) from untreated (left) and treated (right) patients colored by post hoc cell-type annotations (color legend). b, Example inferCNV analysis of the epithelial subset from a study specimen. Inferred amplifications (red) and deletions (blue) based on expression (color bar) of sliding 100-gene window in each chromosomal locus (columns) from each cell (rows) labeled by its annotated cell type (color code). c, Inferred CNA frequencies in the snRNA-seq cohort have similar distribution as those derived from TCGA genomic study1. Frequency (y axis) of CNAs on each chromosome arm (x axis) as inferred across the patients in the snRNA-seq cohort (light green bars) and from genome analysis of PDAC (dark green bars) from the TCGA cohort. d, Proportion of cells (y axis) in each of the four major compartments (color legend, top) or immune cell subsets (color legend, bottom) as estimated by snRNA-seq or MIBI (x axis) in each matched untreated (left; n = 5) or treated (right; n = 2) tumor.

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