Fig. 4

Identification of six cell states by nonnegative matrix factorization (NMF). A Epithelial cells had more significant copy number variations (CNVs) of chromosomes than nonepithelial cells. B The CNV score was higher in high-grade samples. C Six epithelial (tumor) cell state scores calculated by the AUCell R package based on NMF dimension reduction. D UMAP visualization of the six tumor cell states (left panel) and significantly enriched pathways (right panel). E The CNV scores were different among cells of the six tumor cell states