Table 4. Top 25 genotyped polymorphisms, adjusted for the first two PCs, ordered by chromosome and physical location, from the GWAS analysis for the subset of Raine Study participants for whom full covariate data (day care attendance, allergy and non-exclusive breast feeding) were available.
| SNP | Chr | Physical Location | Major/Minor | MAF | Risk Allele | Gene/Regiona | Padj-PCA | ORadj-PCA(95% CI) |
| rs2098787 | 2 | 31150148 | G/A | 0.470 | G | GALNT14 | 3.17×10−5 | 1.58 (1.28–1.97) |
| rs1862981 | 2 | 31151028 | C/A | 0.463 | C | GALNT14 | 2.20×10−5 | 1.60 (1.29–1.99) |
| rs2377445 | 2 | 106027133 | G/A | 0.303 | G | INTERGENIC | 5.20×10−5 | 1.57 (1.26–1.96) |
| rs17624623 | 3 | 61595506 | A/G | 0.410 | A | PTPRG | 2.02×10−5 | 1.60 (1.29–1.98) |
| rs10008015 | 4 | 106224696 | A/G | 0.113 | A | RP11-556I14.1 | 9.32×10−6 | 2.08 (1.50–2.87) |
| rs1859161 | 4 | 106262141 | A/G | 0.090 | A | RP11-556I14.1 | 2.57×10−6 | 2.32 (1.63–3.29) |
| rs6826919 | 4 | 113023321 | G/A | 0.428 | A | RP11-269F21.1 | 4.05×10−5 | 0.63 (0.51–0.79) |
| rs1457955 | 6 | 77468785 | C/A | 0.133 | C | INTERGENIC | 4.98×10−5 | 1.85 (1.37–2.49) |
| rs4709819 | 6 | 164383345 | G/A | 0.395 | A | INTERGENIC | 2.67×10−6 | 0.63 (0.50–0.78) |
| rs10242197 | 7 | 90097848 | G/A | 0.193 | A | CDK14 | 4.84×10−5 | 0.54 (0.41–0.73) |
| rs2882460 | 8 | 62688450 | C/A | 0.208 | C | ASPH | 4.96×10−5 | 1.66 (1.30–2.12) |
| rs6471969 | 8 | 62729386 | C/A | 0.184 | C | ASPH | 3.85×10−6 | 1.83 (1.42–2.37) |
| rs11990408 | 8 | 62747549 | A/G | 0.192 | A | ASPH | 1.10×10−5 | 1.76 (1.27–2.27) |
| rs11787089 | 8 | 62783393 | G/A | 0.150 | G | ASPH | 6.83×10−6 | 1.88 (1.43–2.47) |
| rs16919668 | 10 | 20319164 | A/G | 0.163 | G | PLXDC2b | 3.28×10−5 | 0.50 (0.36–0.70) |
| rs1336708 | 13 | 101763004 | A/G | 0.225 | G | FGF14 | 5.17×10−5 | 0.57 (0.44–0.75) |
| rs4512966 | 13 | 109880059 | G/A | 0.500 | G | COL4A2 | 5.01×10−5 | 1.55 (1.25–1.91) |
| rs6493973 | 15 | 56079928 | G/A | 0.029 | G | ALDH1A2 | 4.40×10−5 | 3.43 (1.90–6.20) |
| rs2218261 | 15 | 56081314 | G/A | 0.029 | G | ALDH1A2 | 4.40×10−5 | 3.43 (1.90–6.20) |
| rs2704219 | 15 | 56115740 | A/G | 0.031 | A | ALDH1A2 | 3.72×10−5 | 3.39 (1.90–6.05) |
| rs11658127 | 17 | 64225877 | A/G | 0.127 | A | INTERGENIC | 2.29×10−5 | 1.93 (1.42–2.61) |
| rs11658297 | 17 | 64240578 | G/A | 0.126 | G | INTERGENIC | 1.89×10−5 | 1.94 (1.43–2.63) |
| rs4627412 | 17 | 76138839 | A/G | 0.307 | A | RPTOR | 4.92×10−5 | 1.58 (1.27–1.96) |
| rs9911978 | 17 | 76139002 | A/G | 0.307 | A | RPTOR | 4.92×10−5 | 1.58 (1.27–1.96) |
| rs2839520 | 21 | 42742732 | A/G | 0.464 | G | UBASH3A | 1.63×10−5 | 0.63 (0.51–0.77) |
Where MAF = minor allele frequency, 95% CI = 95% confidence intervals. a - Gene/Region is based on annotation from Ensembl build 54; intergenic SNPs fall >20 kb from an annotated gene.
b
- Odds ratios are shown for the major allele.
Data for GWAS analyses adjusted for these clinical and environmental covariates are presented in Table S1.