Table 3.
SNPs with potential cross-phenotype effect on AD and two cancer types (overall breast and overall lung cancers) detected by Cross Phenotype Meta-Analysis (CPMA)
| SNP | CHR | Position | Eff allele |
Ref allele |
AD | Breast cancer (overall) |
Lung cancer (overall) |
CPMA stat |
CPMA p-value |
FDR | Gene | Nearest gene |
|||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| z-score | p-value | z-score | p-value | z-score | p-value | ||||||||||
| rs56117933 | 15 | 78832349 | C | T | −3.34 | 8.3E-04 | −0.59 | 5.6E-01 | 9.19 | 4.1E-20 | 73.98 | <2.2E-16 | <1.0E-15 | - | PSMA4 |
| rs11249708 | 5 | 179821728 | A | G | −3.43 | 6.0E-04 | 1.53 | 1.3E-01 | 4.33 | 1.5E-05 | 14.79 | 1.2E-04 | 0.087 | - | GFPT2 |
| rs59776273 | 4 | 47792297 | T | C | −3.52 | 4.4E-04 | −3.89 | 9.9E-05 | −2.14 | 3.2E-02 | 13.92 | 1.9E-04 | 0.093 | CORIN (intron) | |
| rs17466060 | 8 | 27422740 | A | G | 4.60 | 4.3E-06 | −2.39 | 1.7E-02 | −3.45 | 5.7E-04 | 12.12 | 5.0E-04 | 0.182 | - | EPHX2 |
| rs3843702 | 15 | 80639403 | A | G | −3.33 | 8.7E-04 | −0.78 | 4.4E-01 | 3.82 | 1.3E-04 | 9.16 | 2.5E-03 | 0.575 | - | LINC00927 |
| rs3204635 | 12 | 57637593 | A | G | −3.33 | 8.6E-04 | −3.80 | 1.5E-04 | −0.82 | 4.1E-01 | 9.10 | 2.5E-03 | 0.575 | STAC3 (exon) | |
| rs7725218 | 5 | 1282414 | A | G | −3.35 | 8.1E-04 | −0.10 | 9.2E-01 | 3.97 | 7.2E-05 | 8.96 | 2.8E-03 | 0.575 | TERT (intron) | |
| rs10896445 | 11 | 68967641 | T | C | 3.61 | 3.1E-04 | −2.69 | 7.1E-03 | 2.55 | 1.1E-02 | 8.71 | 3.2E-03 | 0.577 | - | MYEOV |
| rs77597338 | 2 | 53267773 | G | A | 4.39 | 1.1E-05 | 2.24 | 2.5E-02 | 2.84 | 4.5E-03 | 8.13 | 4.4E-03 | 0.705 | - | ASB3 |
| rs74766959 | 11 | 72065209 | G | A | 3.60 | 3.2E-04 | 1.39 | 1.7E-01 | 3.35 | 8.0E-04 | 7.88 | 5.0E-03 | 0.729 | CLPB (intron) | |
| rs1568485 | 1 | 151736876 | C | T | −3.30 | 9.7E-04 | −3.53 | 4.2E-04 | 0.89 | 3.7E-01 | 7.63 | 5.7E-03 | 0.762 | OAZ3 (intron) | |