Table 2.
Eight GWAS SNPs Showing Evidence for Association with BD In Six Independent Samples of BD
|
Association Data (BD) |
||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
|
GWAS |
Replication I |
Combined |
||||||||
|
SNP Data |
TREND |
MAF |
CMH (K = 6) |
MAF |
CMH (K = 6) |
Gene Data |
||||
| Band | SNP, MA | p Value | OR | Pat / Con (682 / 1300) | p Value | OR | Pat / Con (1729 / 2313) | p Value | OR | Nearest Gene or Transcript |
| 19p13.11 | rs1064395, A | 3.42 × 10−6 | 1.53 | 0.19 / 0.14 | 4.61 × 10−4 | 1.23 | 0.20 / 0.16 | 3.02 × 10−8 | 1.31 | NCAN, 3′ UTR |
| 7p22.3 | rs11764590, T | 1.30 × 10−6 | 1.47 | 0.27 / 0.20 | 2.01 × 10−3 | 1.18 | 0.26 / 0.22 | 1.28 × 10−7 | 1.26 | MAD1L1, intron |
| 7p22.3 | rs10278591, T | 6.05 × 10−6 | 1.43 | 0.27 / 0.21 | 0.0348 | 1.12 | 0.26 / 0.23 | 1.81 × 10−5 | 1.21 | MAD1L1, intron |
| 2p23.2 | rs6547829, T | 7.21 × 10−5 | 1.59 | 0.11 / 0.07 | 0.0134 | 1.22 | 0.09 / 0.08 | 2.50 × 10−5 | 1.32 | BRE, intron |
| 7q22.1 | rs985409, G | 6.52 × 10−5 | 1.31 | 0.45 / 0.38 | 0.0206 | 1.11 | 0.47 / 0.44 | 3.89 × 10−5 | 1.17 | LHFPL3, intron |
| 9q21.31 | rs2209263, A | 3.44 × 10−5 | 0.73 | 0.24 / 0.30 | 0.0436 | 0.90 | 0.26 / 0.28 | 5.58 × 10−5 | 0.84 | TLE4; TLE1 |
| 3q28 | rs779279, A | 4.25 × 10−5 | 0.76 | 0.41 / 0.48 | 0.0402 | 0.91 | 0.46 / 0.48 | 6.39 × 10−5 | 0.86 | FGF12; PYDC2 |
| 14q21.1 | rs9322993, T | 7.56 × 10−5 | 1.75 | 0.07 / 0.04 | 0.0382 | 1.23 | 0.06 / 0.05 | 7.54 × 10−5 | 1.37 | SIP1, intron |
In the six different clusters (countries), all SNPs were in HWE in patients and controls (p > 0.05).
The following abbreviations are used: MA, minor allele, refers to dbSNP build 130; TREND, Cochran-Armitage test; OR, odds ratio referring to the minor allele; MAF, minor allele frequency; Pat, patients; Con, controls; CMH, Cochran-Mantel-Haenszel test; K, CMH's cluster variable; UTR, untranslated region.