Table 6.
CGEMS (650 aggressive/527 non-aggressive) | GASP2 (637 aggressive/863 non-aggressive) | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
SNP | Position | Minor allele |
F_A▲ | F_U▲ | Pa | ORa | Status | F_A▲ | F_U▲ | Pa | ORa | Status |
rs3781195 | 89 632 589 | G | 0.03 | 0.03 | 0.82 | 1.06 | Imputed | 0.02 | 0.02 | 0.84 | 0.95 | Imputed |
rs1234220 | 89 635 453 | G | 0.11 | 0.10 | 0.70 | 1.06 | Original | 0.11 | 0.09 | 0.15 | 1.19 | Imputed |
rs11202596 | 89 637 134 | A | 0.09 | 0.08 | 0.58 | 1.09 | Original | 0.04 | 0.05 | 0.44 | 0.85 | Imputed |
rs1234219 | 89 639 557 | G | 0.08 | 0.07 | 0.47 | 1.13 | Imputed | 0.07 | 0.06 | 0.26 | 1.20 | Imputed |
rs7069904 | 89 639 818 | A | 0.03 | 0.02 | 0.41 | 1.27 | Imputed | 0.01 | 0.00 | 0.21 | 1.91 | Imputed |
rs1234218 | 89 640 739 | T | 0.07 | 0.07 | 0.69 | 1.07 | Imputed | 0.07 | 0.06 | 0.30 | 1.17 | Imputed |
rs1903858 | 89 643 666 | G | 0.32 | 0.30 | 0.26 | 1.11 | Imputed | 0.27 | 0.28 | 0.66 | 0.96 | Imputed |
rs2299939 | 89 647 130 | A | 0.19 | 0.20 | 0.49 | 0.93 | Original | 0.08 | 0.09 | 0.19 | 0.80 | Imputed |
rs1234225 | 89 663 549 | T | 0.36 | 0.33 | 0.10 | 1.16 | Imputed | 0.33 | 0.33 | 0.72 | 1.03 | Imputed |
rs12569998 | 89 664 137 | G | 0.14 | 0.14 | 0.95 | 0.99 | Imputed | 0.13 | 0.13 | 0.56 | 0.94 | Original |
rs1234224 | 89 665 276 | G | 0.36 | 0.33 | 0.10 | 1.16 | Imputed | 0.33 | 0.33 | 0.72 | 1.03 | Imputed |
rs1234223 | 89 665 570 | C | 0.10 | 0.10 | 0.68 | 1.06 | Imputed | 0.11 | 0.09 | 0.15 | 1.19 | Imputed |
rs17106896 | 89 667 087 | T | 0.05 | 0.04 | 0.19 | 1.30 | Imputed | 0.01 | 0.01 | 0.32 | 1.58 | Imputed |
rs1676759 | 89 668 276 | G | 0.03 | 0.03 | 0.98 | 1.01 | Imputed | 0.01 | 0.01 | 0.96 | 1.02 | Imputed |
rs11202600 | 89 672 813 | C | 0.07 | 0.07 | 0.69 | 1.07 | Imputed | 0.09 | 0.07 | 0.06 | 1.29 | Original |
rs10490920 | 89 675 623 | C | 0.14 | 0.14 | 0.95 | 0.99 | Imputed | 0.12 | 0.13 | 0.48 | 0.93 | Imputed |
rs1234213 | 89 679 301 | A | 0.36 | 0.33 | 0.09 | 1.16 | Imputed | 0.33 | 0.33 | 0.75 | 1.03 | Imputed |
rs7078674 | 89 687 333 | 0 | 0.00 | 0.00 | NA | NA | Imputed | 0.00 | 0.00 | NA | NA | Imputed |
rs12357281 | 89 690 651 | C | 0.09 | 0.08 | 0.64 | 1.07 | Imputed | 0.04 | 0.05 | 0.38 | 0.84 | Imputed |
rs2299941 | 89 694 699 | G | 0.14 | 0.14 | 0.98 | 1.00 | Imputed | 0.12 | 0.13 | 0.41 | 0.91 | Imputed |
rs2735343 | 89 695 409 | C | 0.36 | 0.33 | 0.11 | 1.15 | Imputed | 0.33 | 0.33 | 0.79 | 1.02 | Imputed |
rs2248293 | 89 697 245 | C | 0.36 | 0.33 | 0.11 | 1.15 | Original | 0.30 | 0.30 | 0.75 | 0.97 | Imputed |
rs17562384 | 89 699 396 | C | 0.19 | 0.20 | 0.47 | 0.93 | Imputed | 0.08 | 0.09 | 0.17 | 0.79 | Imputed |
rs2673832 | 89 702 453 | G | 0.11 | 0.10 | 0.44 | 1.11 | Original | 0.02 | 0.02 | 0.38 | 0.76 | Imputed |
rs12572106 | 89 706 087 | C | 0.14 | 0.14 | 0.98 | 1.00 | Imputed | 0.12 | 0.13 | 0.48 | 0.93 | Imputed |
rs17431184 | 89 710 231 | C | 0.19 | 0.20 | 0.47 | 0.93 | Imputed | 0.08 | 0.10 | 0.15 | 0.78 | Imputed |
rs2736627 | 89 711 074 | C | 0.09 | 0.09 | 0.64 | 1.07 | Imputed | 0.02 | 0.02 | 0.38 | 0.76 | Imputed |
rs926091 | 89 711 392 | T | 0.14 | 0.14 | 0.98 | 1.00 | Imputed | 0.12 | 0.13 | 0.48 | 0.93 | Imputed |
rs532678 | 89 713 322 | T | 0.36 | 0.33 | 0.11 | 1.15 | Imputed | 0.33 | 0.33 | 0.80 | 1.02 | Imputed |
rs11202607 | 89 717 394 | T | 0.07 | 0.07 | 0.67 | 1.07 | Original | 0.07 | 0.06 | 0.31 | 1.17 | Imputed |
rs478839 | 89 721 850 | G | 0.39 | 0.42 | 0.25 | 0.91 | Original | 0.38 | 0.38 | 0.92 | 0.99 | Imputed |
rs17346680 | 89 727 081 | A | 0.04 | 0.04 | 0.98 | 1.00 | Imputed | 0.07 | 0.06 | 0.20 | 1.22 | Original |
rs10509532 | 89 727 534 | T | 0.14 | 0.14 | 0.91 | 0.99 | Original | 0.12 | 0.13 | 0.48 | 0.93 | Original |
Abbreviations: CGEMS, cancer genetic markers of susceptibility; GWAS, whole genome-wide association study; OR, odds ratio; SNPs, single nucleotide polymorphisms.
P and OR are calculated based on an unconditional logistic regression with adjustment for age and geographic region, assuming an additive model of inheritance.
F_A, frequency in aggressive cases; F_U, frequency in non-aggressive cases.