Fig. 9

A functional proteomic classification of breast cancer. a Unsupervised hierarchical clustering of 128 breast tumors with data derived from reverse phase protein array (RPPA) using 82 antibodies (Table 1). Six groups were identified as follows: groups 1 and 2—high expression of estrogen receptor alpha (ER) ± progesterone receptor (PR); groups 3 and 4—high expression of stromal markers, including collagen VI and caveolin; group 5—high expression of proliferation markers, including cyclin B1 (CCNB1), with very low expression of ER; and group 6—high HER2 expression and phosphorylation at tyrosine 1248 (HER2p1248). b A log2 scale for the data used to generate the heat maps in a and c. c Hierarchical clustering analysis using 12 markers to distinguish luminal A from luminal B breast cancers in Set A (see Table 2). Luminal A tumors are designated by a brown color to the right of the heat map. The 12 markers can be subdivided into three functional groups—a proliferation group (cleaved caspase 7, cleaved PARP, CCNB1, p70S6 Kinase, and phosphorylation of ribosomal S6 protein at serines 235–236 (S6p235–236) and 240–244 (S6p240_4)), a receptor tyrosine kinase (RTK) group (HER2/HER2p1248), and a functional ER alpha (“ERness”) group (ER, PR, and bcl2). The order of these 12 markers from left to right at the top of panel c are: cleaved caspase 7, cleaved PARP, p70S6 Kinase, CCNBI, S6p240_4, S6p235–236, HER2p1248, HER2, Collagen VI, PR, bcl 2, ER