Fig. 3

Histology and shared gene expression factors in three cancer tissue sections. a Annotated brightfield images of H&E-stained tissue sections. b Factor activity maps for selected factors corresponding to normal glands, stromal, PIN, cancerous, or inflamed regions based on a joint factor analysis of the three sections. Remaining factors’ activity maps in Supplementary Figure 6 and Supplementary Data 3. c Pathways enriched in normal, cancer and PIN epithelium clearly differentiate healthy from diseased tissue. Signficant pathways were calculated using the Komolgorov–Smirnov normality test at the 0.05 alpha level