Fig. 5: Reverse Phase Protein Array (RPPA) profiling by subtype clustering and pathway analysis of proteins and phosphoproteins in Study biopsy #2.

Protein expression values were normalized within the TCGA breast cancer cohort. a The heat map represents a rank sum ordering of the protein expression across TCGA (red), 31 SMMART-program samples (purple), and Study biopsy #2 (arrow). The red and blue colors represent higher and lower expression proteins, respectively. b Pathway profiling by RPPA. The data were z-scored and pathway activity was assessed using pathway scores calculated as described previously⁵⁶. The histogram represents the distribution of the pathway’s activity (Y-axis = density) of the TCGA basal breast cancer cohort (white) and SMMART-program cohort (gray) as well as the pathway activity of Study biopsy #2 (black line). See Supplementary Table 1 for proteins comprising each RPPA pathway.