Table 1. P-values from association analysis of stage 1, stage 2 and German-Dutch samples and combined analysis of stage 1+stage 2 and stage 1+stage 2+German Dutch samples. The odds ratio (OR) is given and minor allele frequency (MAF) in cases and controls is also given.
|
Stage 1 (GWA sample) |
Stage 2 (follow-up sample) |
Meta-analysis stage 1+stage 2 |
German-Dutch replication sample |
Extended meta-analysis stage 1+stage 2+German-Dutch |
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MAF |
MAF |
MAF |
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| SNP | Chr | Nearest gene | SNP type | Allelea | Cases | Controls | OR | P | Cases | Controls | OR | P | OR | P | Cases | Controls | OR | P | OR | P |
| rs4757144 | 11 | ARNTL | Intron | G/A | 0.435 | 0.365 | 1.324 | 5.36 × 10−5 | 0.427 | 0.392 | 1.155 | 5.90 × 10−3 | 1.214 | 3.78 × 10−6 | 0.438 | 0.418 | 1.081 | 1.03 × 10−1 | 1.154 | 5.35 × 10−6 |
| rs8057927 | 16 | CDH13 | Intron | C/T | 0.086 | 0.054 | 1.651 | 2.73 × 10−4 | 0.074 | 0.057 | 1.324 | 7.13 × 10−3 | 1.435 | 1.39 × 10−5 | 0.084 | 0.069 | 1.244 | 1.38 × 10−2 | 1.342 | 1.20 × 10−6 |
| rs2121783 | 3 | FOXP1 | Intron | C/T | 0.431 | 0.366 | 1.269 | 3.93 × 10−4 | 0.429 | 0.402 | 1.122 | 2.81 × 10−2 | 1.175 | 8.86 × 10−5 | 0.397 | 0.411 | 0.951 | 3.04 × 10−1 | 1.077 | 1.93 × 10−2 |
| rs3123688 | 10 | ZEB1 | Upstream | A/C | 0.018 | 0.004 | 3.915 | 1.71 × 10−3 | 0.009 | 0.004 | 2.334 | 1.16 × 10−2 | 2.831 | 9.05 × 10−5 | NA | NA | NA | NA | NA | NA |
| rs12741964 | 1 | ST3GAL3 | Intron | A/G | 0.155 | 0.199 | 0.737 | 7.22 × 10−4 | 0.168 | 0.191 | 0.858 | 2.09 × 10−2 | 0.813 | 1.12 × 10−4 | 0.163 | 0.176 | 0.911 | 1.44 × 10−1 | 0.852 | 9.56 × 10−5 |
| rs10828623 | 10 | CACNB2 | Intron | T/C | 0.156 | 0.199 | 0.749 | 1.23 × 10−3 | 0.163 | 0.186 | 0.851 | 1.90 × 10−2 | 0.812 | 1.29 × 10−4 | 0.153 | 0.163 | 0.928 | 2.54 × 10−1 | 0.857 | 2.36 × 10−4 |
| rs12922317 | 16 | RUNDC2A | Intron | G/A | 0.364 | 0.313 | 1.244 | 2.52 × 10−3 | 0.366 | 0.336 | 1.144 | 1.37 × 10−2 | 1.179 | 1.53 × 10−4 | 0.374 | 0.339 | 1.167 | 1.71 × 10−3 | 1.174 | 9.04 × 10−7 |
| rs6878606 | 5 | STC2 | Upstream | G/A | 0.354 | 0.303 | 1.253 | 1.54 × 10−3 | 0.335 | 0.309 | 1.125 | 3.34 × 10−2 | 1.172 | 2.87 × 10−4 | 0.316 | 0.292 | 1.122 | 2.55 × 10−2 | 1.151 | 2.58 × 10−5 |
| rs10741058 | 10 | CACNB2 | Intron | T/C | 0.121 | 0.156 | 0.745 | 3.02 × 10−3 | 0.118 | 0.138 | 0.842 | 2.64 × 10−2 | 0.804 | 3.50 × 10−4 | 0.117 | 0.126 | 0.923 | 2.82 × 10−1 | 0.850 | 5.76 × 10−4 |
Chr, chromosome; GWA, genome-wide association; NA, not available due to missing or failed genotyping; SNP, single nucleotide polymorphism.
a
Minor/major.