Table 3.
Top SNPs from childhood asthma GWAS in COPDGenee
| Locus | SNP | Effect Allele | OR | Rsq | Freq (%) | P-value b,d | Gene Symbol | Gene Name | ||
| NHW a | 9q32 | rs59289606 | A | 2.06 | 0.38 | 20% | 4.82E-08 | KIAA1958 | ||
| (8,900,203 SNPs) | 5p13.3 | rs439399 | C | 1.52 | 0.99 | 22% | 3.90E-07 | PDZD2 | PDZ domain containing 2 | |
| AA a | 12q13.13 | rs7315121 | T | 2.90 | 0.45 | 7% | 1.75E-07 | FLJ12825 | uncharacterized LOC440101 | |
| (15,374,350 SNPs) | 7p21.3 | rs56317450 | A | 2.11 | 0.79 | 8% | 4.94E-07 | PHF14 | PHD finger protein 14 | |
| Locus | SNP | Effect Allele | OR |
Rsq
NHW, AA |
Freq (%)
NHW, AA |
I 2 | P-value c,d | Gene Symbol | Gene Name | |
|
Meta-analysis
(7,658,992 SNPs) |
3q25.32-q25.33 | rs4679858 | G | 1.48 | 0.99, 0.98 | 14%, 12% | 0 | 2.39E-07 |
SCHIP1
IQCJ-SCHIP1 |
schwannomin interacting protein 1 & the readthrough |
Abbreviations: GWAS genome-wide association study; NHW Non-Hispanic Whites; AA African American; SNP single nucleotide polymorphism; OR odds ratio of effect allele; Rsq estimation of imputation quality; Freq frequency of effect allele; I2 heterogeneity index; a Each population was run as an independent analysis, and then combined in the meta-analysis: b Logistic regression based on case control status; c Fixed effect meta-analysis weighted by inverse variance. d Adjusted for sex, genetic ancestry. e Includes the top SNP from each region with GWAS P-value ≤1 × 10–6