Table 1.
Independencea | Alleleb | Stage | Case | Ctrl | ORc | p Valuec | HWEd | Statuse | Qf | I2f | ORg | p Valueg | ORh | p Valueh |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Chromosome 6, rs498422 | ||||||||||||||
Yes |
G/T |
GWAS | 0.20 | 0.13 | 1.81 | 1.53 × 10−11 | 0.36 |
G/I |
0.006 |
80.12 |
1.42 |
2.43 × 10−12 |
1.44 |
1.8 × 10−3 |
replication 1 | 0.17 | 0.13 | 1.37 | 1.46 × 10−4 | ||||||||||
replication 2 | 0.16 | 0.14 | 1.21 | 0.068 | ||||||||||
Chromosome 6, rs2076531 | ||||||||||||||
No |
G/A |
GWAS | 0.11 | 0.06 | 2.03 | 1.49 × 10−9 | 0.67 |
I/G |
0.04 |
67.84 |
1.61 |
6.60 × 10−13 |
1.60 |
1.4 × 10−4 |
replication 1 | 0.10 | 0.07 | 1.42 | 9.75 × 10−4 | ||||||||||
replication 2 | 0.08 | 0.06 | 1.40 | 0.018 | ||||||||||
Chromosome 6, rs3129878 | ||||||||||||||
Yes |
C/A |
GWAS | 0.40 | 0.29 | 1.63 | 1.03 × 10−12 | 0.74 |
G/G |
0.005 |
81.07 |
1.37 |
3.70 × 10−16 |
1.36 |
9.0 × 10−4 |
replication 1 | 0.36 | 0.30 | 1.32 | 1.48 × 10−5 | ||||||||||
replication 2 | 0.32 | 0.28 | 1.17 | 0.051 | ||||||||||
Chromosome 6, rs7192 | ||||||||||||||
No | T/G | GWAS | 0.32 | 0.26 | 1.42 | 1.02 × 10−6 | 0.58 | G/I | 0.19 | 39.42 | 1.28 | 1.10 × 10−9 | 1.29 | 2.9 × 10−6 |
replication 1 | 0.32 | 0.27 | 1.26 | 3.70 × 10−4 | ||||||||||
replication 2 | 0.29 | 0.26 | 1.17 | 0.050 |
Ctrl, control; OR, odds ratio; HWE, Hardy-Weinberg equilibrium.
“Independence” indicates whether the SNPs remained independently associated with NOA risk when adjusted for the other SNPs in the model.
Minor allele/major allele.
OR is estimated on the basis of the minor allele; OR and p values are estimated on the basis of logistic regression analysis, adjusted for age and the first two eigen vectors, estimated on the basis of principal component analysis.
HWE tests were based on Fisher's exact tests in the combined control subjects.
G, genotyped; I, imputed. The letter before the forward slash indicates the imputation status for cases, and the letter after the forward slash indicates the imputation status for controls.
The p values of Q test and I2 values are based on tests for heterogeneity.
The combined analysis was based on logistic regression analysis, adjusted for age and stage information.
The combined analysis was based on metaanalysis, with the assumption of a random effect model.