Table 5 Highest scoring SNP combinations associated with colon cancer using PIA v. 2.0a
From: Polymorphism Interaction Analysis (PIA): a method for investigating complex gene-gene interactions
Number of SNPs | Scoring Function | Total (Overall)b | ||||||
|---|---|---|---|---|---|---|---|---|
%Correct | Sensitivity +Specificity | PPV+NPV | Risk Ratio | Odds Ratio | Gini Index | Probability Difference | ||
1 | GSTT1_02 | GSTT1_02 | PTGS2_11 | PTGS2_11 | PTGS2_11 | IL4_01 | GSTT1_02 | PTGS2_11 |
2 | CASP8_03 | CASP8_03 | TGFB1_02 | TGFB1_02 | TGFB1_02 | IL1B_01 | CASP8_03 | IL1B_01 |
GSTT1_02 | GSTT1_02 | PTGS2_11 | PTGS2_11 | PTGS2_11 | IL1B_03 | GSTT1_02 | IL1B_03 | |
3 | MTRR_01 | ESR1_03 | TGFB1_02 | TGFB1_02 | TGFB1_02 | IL1B_01 | IL4_01 | IL4_01 |
IL1B_03 | GPX1_03 | CDC25A_02 | CDC25A_02 | CDC25A_02 | IL1B_03 | MTRR_01 | MTRR_01 | |
SOD2_01 | GSTT1_02 | PTGS2_11 | PTGS2_11 | PTGS2_11 | SOD2_01 | DIO1_04 | DIO1_04 | |
4 | race | race | CHEK1_02 | CHEK1_02 | CHEK1_02 | WRN_03 | IL4R_02 | ESR1_03 |
IL1B_01 | IL1B_01 | TGFB1_02 | TGFB1_02 | TGFB1_02 | IL5_02 | SOD2_01 | GPX1_06 | |
IL1B_03 | IL1B_03 | TNF_02 | TNF_02 | TNF_02 | IL10_02 | GSTT1_02 | CYP19A1_06 | |
MTHFR_02 | MTHFR_02 | CDC25A_02 | CDC25A_02 | CDC25A_02 | CYP19A1_06 | CYP19A1_09 | GSTT1_02 | |