Fig. 5

Expression differences in primary DCIS related to outcome. Volcano plots comparing DCIS with no or DCIS recurrence compared to invasive recurrence within A) the DCIS epithelium, and B) adjacent stroma. Horizontal dashed lines indicate unadjusted P-values of 0.1. Antigens above the horizontal line are titled but were not significant after adjusting for FDR. C) Spaghetti plots comparing selected antigen levels in the co-existing benign epithelium ROIs to DCIS epithelium ROIs for DCIS with no or DCIS recurrence and invasive recurrence patients. Lines in the plot are colored based on their slope. D) Box plots of the ratio of expression levels between DCIS epithelium and benign epithelium for DCIS with no or DCIS recurrence and invasive recurrence patients for selected antigens. In C and D, antigen levels were averaged across all of the ROIs of that category within each patient.