Table 2.
Results for the SNPs that were nominally significant in the replication stage.
| Discovery (274:316)* | Replication (359:986)* |
Meta-analysis (633:1,302)* |
||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Variant | Chr | Position | Gene | A1/A2 | MAF | OR [95% CI] | p-value | MAF† | OR [95% CI] | p-value | OR [95% CI] | p-value |
| rs9508032 | 13 | 28995940 | FLT1 | T/C | 0·29 | 0·49 [0·38, 0·65] | 2·62×10−7 | 0·25 | 0·74 [0·60, 0·92] | 5·98×10−3 | 0·61 [0·41, 0·91] | 5·18×10−8 |
| rs11195238 | 10 | 112388857 | SMC3-RBM20 | T/C | 0·15 | 0·47 [0·33, 0·67] | 2·97×10−5 | 0·13 | 0·69 [0·52, 0·91] | 9·55×10−3 | 0·60 [0·48, 0·74] | 3·73·10−6 |
| rs2734600 | 9 | 33753355 | PRSS3 | T/C | 0·15 | 0·48 [0·33, 0·68] | 3·76×10−5 | 0·12 | 0·85 [0·36, 1·97] | 0·02 | 0·52 [0·37, 0·72] | 7·76×10−5 |
| rs8001184 | 13 | 90603540 | SLITRK5-GPC5 | A/C | 0·48 | 1·65 [1·30, 2·10] | 4·48×10−5 | 0·49 | 1·26 [1·04, 1·52] | 0·02 | 1·40 [1·20, 1·62] | 1·19×10−5 |
*
Cases:Controls;
†
For rs9508032, MAF was 0·27 in MESSI and 0·22 in SepNet; For rs11195238, MAF was 0·14 in MESSI and 0·12 in SepNet. Fort the other two SNPs, MAFs were identical in the two replication cohorts. A1, Effect allele; A2, Non-effect allele; CI, Confidence Interval; MAF, Minor Allele Frequency; OR, Odd Ratio. Top hit is indicated in bold. Alleles referred to the positive strand of hg19. The imputation quality (Rsq/INFO) for the four variants ranged from 0·93 to 1·00 in all studies.