A B

Breast Case-Control Analysis CaseControl PC2< PC2> X-sq=10.7, df=1, p=0.001 OR=2.9 ( ), p= A B C D EF GO Terms - Survival PDGF signaling pathway (+) T cell activation (+) B cell activation (+) Angiogenesis (+) FDR p< FDR p = FDR p = FDR p = GO Terms - Risk immune response (-) response to stimulus (-) cell-cell adhesion (+) immune system process (-) macrophage activation (-) FDR p = FDR p = FDR p = (p<0.01)

Colon Case-Control Analysis A C CaseControl PC2< PC2> X-squared = 0.8, df = 1, p-value =0.38 OR=1.3 ( ), p=0.38 GO Terms - Survival Angiogenesis (+) p53 pathway by glucose deprivation PDGF signaling pathway Integrin signalling pathway N-acetylglucosamine metabolism FDR p< FDR p = FDR p = FDR p = FDR p > 0.05 (p<0.01) B D

P=0.007 P=0.040 P=0.265 P=0.149P=0.047 P=0.012 P=0.027 P=0.404 P=0.006 Breast Cancer EWASColon Cancer EWAS Pyrosequencing

P=0.002 P=0.018 P=5.66e-4 P=3.76e-5 P=0.009 P=1.97e-5 Colon Cancer EWAS Time Since Quitting Colon Cancer EWAS Length of Time Smoking

ABC NeverFormerCurrentNeverFormerCurrent DEF NeverFormerCurrentNeverFormerCurrentNeverFormerCurrent Breast Cancer EWASColon Cancer EWAS Pyrosequencing