Fig. 3

The distributions of ER and HER2 levels reveal the two major categories of DCIS. A) Distribution of ER antigen levels across all primary DCIS ROIs by clinical/RNA-based ER status within tissue category. B) Distribution of HER2 antigen levels across all primary DCIS ROIs by RNA-based HER2 status within tissue category. C) Volcano plot showing differences in antigen levels in DCIS epithelium for samples from patients with ER+ versus ER- status. D) Volcano plot showing differences in antigen levels in adjacent stroma for samples from patients with ER+ versus ER- status. In C and D, points in red indicate antigens with FDR-adjusted P-values less than 0.05. The horizontal dashed lines indicate unadjusted P-values of 0.01. E) Distribution of ER and HER2 levels across all primary ROIs colored by clinical/IHC/RNA-based ER status. F) Distribution of ER levels in the DCIS epithelium and CD45 levels in the adjacent stroma. G) Distribution of ER levels in the DCIS epithelium and CD3 levels in the adjacent stroma. H) Distribution of ER levels in the DCIS epithelium and Fibronectin levels in the adjacent stroma. In F-H, plots are at the patient level, showing antigen levels averaged across all ROIs of that category for that patient.