Pathway activation differences between SSP subtypes ERpos LumB-LumA LumB-Norm LumB-Basal LumB-Her2 LumA-Norm LumA-Basal LumA-Her2 Norm-Basal Norm-Her2 Basal-Her2 MYC - TT (Set1) 1 1 -1 -1 1 -1 -1 -1 -1 1 MYC - Pval (Set1) 0 2e-16 0.95 0.97 2e-04 6e-06 1e-15 2e-07 7e-13 0.8 MYC - TT (Set2) 1 1 -1 -1 1 -1 -1 -1 -1 1 MYC - Pval (Set2) 7e-16 0 0.79 0.49 0.002 3e-10 3e-13 1e-13 2e-16 0.76 E2F3 - TT (Set1) 1 1 1 1 1 -1 -1 -1 -1 1 E2F3 - Pval (Set1) 0 0 0.21 2e-04 5e-12 1e-09 5e-18 4e-14 2e-20 0.4 E2F3 - TT (Set2) 1 1 1 1 1 -1 -1 -1 -1 1 E2F3 - Pval (Set2) 0 0 0.1 0.08 2e-11 2e-16 2e-20 0 0 0.87 RAS - TT (Set1) 1 1 1 1 1 1 -1 -1 -1 -1 RAS - Pval (Set1) 0 0 8e-11 1e-14 1e-12 0.09 0.22 0.01 9e-11 0.03 RAS - TT (Set2) 1 1 1 1 1 1 -1 -1 -1 -1 RAS - Pval (Set2) 0 0 7e-14 2e-09 0 0.02 0.48 7e-08 2e-16 0.01 ERBB2 - TT (Set1) 1 1 1 1 1 1 -1 -1 -1 -1 ERBB2 - Pval (Set1) 1e-05 6e-10 2e-04 0.13 9e-06 0.1 0.13 0.1 2e-05 0.01 ERBB2 - TT (Set2) 1 1 1 -1 1 1 -1 -1 -1 -1 ERBB2 - Pval (Set2) 3e-04 2e-16 3e-08 0.71 8e-10 5e-04 0.001 0.21 2e-12 3e-07 EGFR - TT (Set1) 1 -1 -1 -1 -1 -1 -1 -1 1 1 EGFR - Pval (Set1) 0.21 3e-08 4e-06 0.002 1e-14 1e-09 1e-06 0.66 0.06 0.05 EGFR - TT (Set2) 1 -1 -1 -1 -1 -1 -1 -1 1 1 EGFR - Pval (Set2) 0.14 3e-09 2e-12 0.01 5e-16 5e-17 1e-04 8e-05 0.01 6e-07 AKT - TT (Set1) 1 1 1 1 1 1 -1 -1 -1 -1 AKT - Pval (Set1) 2e-09 0 8e-09 0.36 5e-12 7e-04 0.001 0.04 1e-12 2e-06 AKT - TT (Set2) 1 1 1 -1 1 1 -1 -1 -1 -1 AKT - Pval (Set2) 3e-07 0 5e-11 0.94 0 2e-05 6e-05 0.07 7e-17 2e-08 IL12 - TT (Set1) -1 -1 -1 -1 -1 -1 -1 -1 -1 1 IL12 - Pval (Set1) 0.27 2e-06 9e-08 7e-08 3e-06 3e-08 6e-08 0.04 0.29 0.42 IL12 - TT (Set2) 1 -1 -1 -1 -1 -1 -1 -1 1 1 IL12 - Pval (Set2) 0.48 8e-07 4e-09 0.007 1e-11 6e-12 2e-04 3e-05 0.3 1e-04 IL4 - TT (Set1) 1 -1 -1 1 -1 -1 1 -1 1 1 IL4 - Pval (Set1) 0.62 0.03 0.05 0.5 0.003 0.01 0.7 0.59 0.01 0.02 IL4 - TT (Set2) -1 -1 -1 1 -1 -1 1 -1 1 1 IL4 - Pval (Set2) 0.78 0.002 0.001 0.1 5e-04 3e-04 0.03 0.24 2e-06 7e-06 IL2 - TT (Set1) -1 1 -1 -1 1 1 -1 -1 -1 -1 IL2 - Pval (Set1) 9e-05 0.92 0.08 1e-04 0.02 0.73 0.05 0.18 0.003 0.43 IL2 - TT (Set2) -1 -1 -1 -1 -1 -1 -1 -1 1 1 IL2 - Pval (Set2) 2e-05 4e-11 2e-07 3e-05 4e-04 0.003 0.24 0.6 0.13 0.12 IL13 - TT (Set1) 1 1 1 1 1 -1 1 -1 1 1 IL13 - Pval (Set1) 1e-09 2e-05 0.29 3e-07 0.33 0.02 0.12 0.03 0.76 0.003 IL13 - TT (Set2) 1 1 1 1 1 1 1 -1 -1 -1 IL13 - Pval (Set2) 6e-04 3e-14 3e-06 3e-05 2e-10 0.001 0.02 0.24 0.008 0.27 IFNG - TT (Set1) 1 1 -1 -1 1 -1 -1 -1 -1 1 IFNG - Pval (Set1) 5e-04 9e-05 0.002 2e-06 0.04 3e-06 2e-15 1e-06 6e-13 0.89 IFNG - TT (Set2) 1 1 -1 -1 -1 -1 -1 -1 -1 1 IFNG - Pval (Set2) 0.02 0.33 4e-09 0.003 0.09 7e-16 4e-09 2e-12 2e-06 6e-04 TGFB - TT (Set1) -1 -1 1 -1 -1 1 1 1 1 -1 TGFB - Pval (Set1) 0 2e-12 0.63 5e-07 0.3 4e-05 0.3 4e-05 0.13 0.006 TGFB - TT (Set2) -1 -1 -1 -1 -1 1 1 1 1 -1 TGFB - Pval (Set2) 1e-10 5e-16 0.04 4e-06 5e-05 0.003 0.76 8e-07 0.001 0.03 ERneg LumB-LumA LumB-Norm LumB-Basal LumB-Her2 LumA-Norm LumA-Basal LumA-Her2 Norm-Basal Norm-Her2 Basal-Her2 MYC - TT (Set1) 1 -1 -1 1 -1 -1 1 -1 1 1 MYC - Pval (Set1) 0.3 0.03 6e-06 5e-04 4e-04 2e-09 0.002 0.04 3e-12 0 MYC - TT (Set2) 1 -1 -1 1 -1 -1 1 -1 1 1 MYC - Pval (Set2) 0.84 0.12 0.02 0.65 0.03 3e-04 0.54 0.09 3e-04 9e-10 E2F3 - TT (Set1) 1 1 -1 1 1 -1 -1 -1 -1 1 E2F3 - Pval (Set1) 3e-07 1e-07 0.01 0.04 0.92 8e-16 7e-07 0 3e-08 4e-13 E2F3 - TT (Set2) 1 1 -1 -1 1 -1 -1 -1 -1 1 E2F3 - Pval (Set2) 0.14 0.12 0.004 0.07 0.71 8e-07 3e-06 7e-10 1e-07 1e-04 RAS - TT (Set1) 1 1 1 -1 1 1 -1 1 -1 -1 RAS - Pval (Set1) 0.44 4e-04 7e-09 0.34 0.001 3e-09 0.003 0.005 1e-10 0 RAS - TT (Set2) 1 1 1 1 1 1 1 1 -1 -1 RAS - Pval (Set2) 0.64 0.006 0.004 0.35 3e-05 7e-06 0.76 0.38 8e-10 2e-13 ERBB2 - TT (Set1) -1 1 1 -1 1 1 -1 1 -1 -1 ERBB2 - Pval (Set1) 0.61 0.01 9e-10 0.006 0.002 3e-11 0.02 2e-08 5e-11 0 ERBB2 - TT (Set2) -1 1 1 -1 1 1 -1 1 -1 -1 ERBB2 - Pval (Set2) 0.84 0.24 0.004 0.65 0.06 7e-06 0.84 9e-04 9e-04 2e-13 EGFR - TT (Set1) -1 -1 -1 -1 -1 -1 1 1 1 1 EGFR - Pval (Set1) 0.38 1e-04 4e-04 0.99 2e-04 0.007 0.05 0.02 2e-09 1e-09 EGFR - TT (Set2) -1 -1 -1 -1 -1 -1 -1 1 1 1 EGFR - Pval (Set2) 0.05 3e-04 0.002 0.06 2e-04 0.004 0.54 0.007 7e-06 2e-04 AKT - TT (Set1) 1 1 1 -1 1 1 -1 -1 -1 -1 AKT - Pval (Set1) 0.03 7e-04 5e-05 0.09 0.17 0.07 8e-06 0.99 5e-10 1e-19 AKT - TT (Set2) -1 1 1 -1 1 1 -1 -1 -1 -1 AKT - Pval (Set2) 0.64 0.06 0.23 0.08 0.003 0.01 0.13 0.23 6e-07 2e-08 IL12 - TT (Set1) -1 -1 -1 -1 1 -1 -1 -1 -1 1 IL12 - Pval (Set1) 0.3 0.5 0.002 0.11 0.66 0.03 0.5 0.003 0.2 0.07 IL12 - TT (Set2) -1 -1 -1 -1 -1 -1 -1 1 -1 -1 IL12 - Pval (Set2) 0.95 0.12 0.12 0.07 0.005 0.04 0.01 1 0.7 0.69 IL4 - TT (Set1) 1 1 1 1 -1 1 -1 1 -1 -1 IL4 - Pval (Set1) 0.08 0.16 8e-04 0.51 0.55 0.12 0.17 0.007 0.4 5e-05 IL4 - TT (Set2) -1 1 1 1 1 1 1 1 1 -1 IL4 - Pval (Set2) 0.95 0.32 0.06 0.13 0.08 0.001 0.05 0.006 0.86 0.01 IL2 - TT (Set1) -1 -1 -1 -1 1 1 1 -1 1 1 IL2 - Pval (Set1) 0.002 0.001 6e-05 0.003 0.84 0.83 0.55 0.86 0.42 0.17 IL2 - TT (Set2) -1 -1 -1 -1 -1 -1 -1 1 1 1 IL2 - Pval (Set2) 0.54 0.08 0.17 0.18 0.09 0.61 0.94 0.14 0.09 0.56 IL13 - TT (Set1) 1 1 1 1 1 -1 -1 -1 -1 1 IL13 - Pval (Set1) 9e-06 5e-06 0.006 2e-05 0.46 0.02 0.53 0.001 0.12 0.02 IL13 - TT (Set2) 1 1 1 1 1 1 1 -1 -1 1 IL13 - Pval (Set2) 0.73 0.24 0.91 0.61 0.03 0.57 0.14 0.02 0.17 0.27 IFNG - TT (Set1) -1 1 -1 -1 1 -1 -1 -1 -1 1 IFNG - Pval (Set1) 0.54 0.6 6e-04 0.12 0.22 3e-04 0.26 2e-08 0.006 8e-04 IFNG - TT (Set2) -1 -1 -1 -1 1 -1 -1 -1 -1 1 IFNG - Pval (Set2) 0.14 0.06 0.007 0.03 0.54 0.008 0.06 3e-04 0.006 0.09 TGFB - TT (Set1) -1 -1 -1 -1 1 1 1 1 1 -1 TGFB - Pval (Set1) 0.004 0.004 0.64 0.002 0.83 4e-04 0.62 5e-05 0.83 2e-06 TGFB - TT (Set2) -1 -1 1 -1 -1 1 1 1 1 -1 TGFB - Pval (Set2) 0.73 0.64 0.56 0.94 0.33 0.01 0.72 1e-04 0.1 0.002