Extended Data Fig. 5: Cell states across tumors.

a-c. Module score TSNE embedding of the cancer cells of all 19 tumors, colored by the most highly expressed module (a), by module score as in Fig. 1f(b) and by entropy of tumor of origin (c). d. Gene expression UMAP embedding of the cancer cells of OVCA NYU3 and BRCA NYU1, colored by module score for the ciliated and cycle module respectively. Unlike other modules, the cycle and cilium module were expressed by cells forming discrete clusters. These clusters are also identified when examining tumors individually in gene expression-based dimensionality reductions, and are therefore not artifacts of the module score dimensionality reduction (Extended Data Fig. 6d). e. Heatmap of the frequency of expression of each module in the malignant cells of each sample. f. Module expression frequencies in normal vs malignant epithelia. Points represent individual samples, bars indicate mean + /- standard error calculated across individual tumors of the same cancer type.