GWAS, replication and meta-analysis summary statistics for lead SNPs from selected regions
| Association signals | Discovery | Replication | Meta-analysis | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chr | Suggestive signal (kBP)† | SNP | A1A2 | Frequency (A1) CTRL* | Frequency (A1) IBS* | p Value | OR (95% CI) | p Value | OR (95% CI) | p Value | OR (95% CI) | Nearest gene |
| 2 | 101 959–102 207 | rs12712124 | TC | 0.68 | 0.63 | 8.91×10−05 | 0.76 (0.62–0.90) | 0.098 | 0.91 (0.81–1.01) | 0.00024 | 0.85 (0.75–0.95) | IL1R1 |
| 2 | 20 673–20 896 | rs1921778 | AG | 0.75 | 0.8 | 5.60×10−05 | 1.39 (1.23–1.55) | 0.13 | 1.09 (0.97–1.21) | 0.00028 | 1.19 (1.09–1.29) | PARD3B |
| 2 | 238 711–238 967 | rs4663866 | AC | 0.9 | 0.86 | 7.42×10−06 | 0.66 (0.48–0.84) | 0.23 | 0.87 (0.54–1.20) | 5.48×10−06 | 0.69 (0.53–0.85) | HES6 |
| 3 | 29 771–29 971 | rs13078067 | TC | 0.25 | 0.29 | 2.59×10−05 | 1.47 (1.29–1.65) | 0.27 | 0.94 (0.80–1.10) | 0.16 | 1.07 (0.93–1.21) | RBMS3 |
| 4 | 45 764–45 958 | rs11937409 | TC | 0.98 | 0.96 | 3.01×10−05 | 0.42 (0.0–0.83) | 0.16 | 0.79 (0.40–1.18) | 0.00017 | 0.63 (0.36–0.90) | GABRG1 |
| 5 | 9581–9815 | rs41500 | TC | 0.54 | 0.6 | 4.44×10−05 | 1.31 (1.17–1.45) | 0.23 | 0.99 (0.87–1.11) | 0.0015 | 1.15 (1.05–1.25) | TAS2R1 |
| 6 | 134 444–134 651 | rs1763528 | AC | 0.3 | 0.36 | 1.57×10−05 | 1.34 (1.20–1.48) | 0.42 | 0.96 (0.82–1.10) | 0.035 | 1.09 (0.99–1.19) | SGK1 |
| 6 | 152 405–152 616 | rs2747660 | AC | 0.23 | 0.17 | 2.33×10−05 | 0.70 (0.52–0.88) | 0.16 | 0.92 (0.78–1.06) | 0.0025 | 0.87 (0.77–0.97) | SYNE1 |
| 7 | 169 233–169 433 | rs1467584 | TC | 0.64 | 0.57 | 3.36×10−05 | 0.76 (0.62–0.90) | 0.96 | 1.05 (0.95–1.15) | 0.028 | 0.91 (0.81–1.01) | THBS2 |
| 7 | 6372–6604 | rs12702514 | TC | 0.41 | 0.48 | 1.42×10−05 | 1.32 (1.20–1.44) | 0.027 | 1.12 (1.02–1.21) | 5.46×10−06 | 1.21 (1.13–1.30) | KDELR2 |
| 8 | 122 655–122 856 | rs17299925 | TC | 0.16 | 0.11 | 3.38×10−05 | 0.66 (0.86–1.44) | 0.62 | 0.97 (0.79–1.15) | 0.0026 | 0.86 (0.74–0.98) | HAS2 |
| 9 | 420–624 | rs9407298 | TC | 0.06 | 0.09 | 2.85×10−05 | 1.64 (1.40–1.88) | 0.052 | 0.82 (0.62–1.02) | 0.21 | 1.10 (0.86–1.34) | KANK1 |
| 11 | 95 007–95 225 | rs10831417 | AG | 0.43 | 0.36 | 5.98×10−05 | 0.76 (0.62–0.90) | 0.12 | 0.92 (0.80–1.04) | 0.00026 | 0.86 (0.78–0.94) | FAM76B |
| 15 | 59 703–59 971 | rs8043433 | TC | 0.26 | 0.32 | 1.22×10−05 | 1.36 (1.22–1.50) | 0.54 | 0.97 (0.83–1.11) | 0.023 | 1.11 (1.01–1.21) | VPS13C |
Boldface indicates significant replication and stronger evidence of association in the meta-analysis.
*Frequency of tested allele. All positions are relative to UCSC hg19.
†Genomic regions around index SNPs were defined by extending in both directions a distance of 100 Kb. If another SNP within this region had p<10−4, the addition of 100 Kb was repeated from this SNP.
A1A2, the two alleles at each SNP site; Chr, chromosome; GWAS, genome-wide association study; SNP, single nucleotide polymorphism.