A

B

Breast Case-Control Analysis

Case ControlPC2<0.01 50 28PC2>0.01 36 59

X-sq=10.7, df=1, p=0.001 OR=2.9 (1.6-5.5), p=0.00076

A B

C D

E FGO Terms - Survival

PDGF signaling pathway (+)T cell activation (+)B cell activation (+)Angiogenesis (+)FDR p<0.0001FDR p = 0.0001 - 0.001FDR p = 0.001 - 0.01FDR p = 0.01 - 0.05

GO Terms - Riskimmune response (-)response to stimulus (-)cell-cell adhesion (+)immune system process (-)macrophage activation (-)FDR p = 0.001 - 0.01FDR p = 0.01 - 0.05FDR p = 0.05 - 0.20 (p<0.01)

Colon Case-Control AnalysisA

C

Case ControlPC2<0.01 57 50PC2>0.01 38 45 X-squared = 0.8, df = 1, p-value =0.38

OR=1.3 (0.75-2.4), p=0.38

GO Terms - SurvivalAngiogenesis (+)p53 pathway by glucose deprivationPDGF signaling pathwayIntegrin signalling pathwayN-acetylglucosamine metabolismFDR p<0.0001FDR p = 0.0001 - 0.001FDR p = 0.001 - 0.01FDR p = 0.01 - 0.05FDR 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 EWAS Colon 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 EWASTime Since Quitting

Colon Cancer EWASLength of Time Smoking

A B C

Never Former Current Never Former Current

D E F

Never Former Current Never Former Current Never Former Current

Breast Cancer EWAS Colon Cancer EWAS Pyrosequencing