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Table 2 Cross-population association results.

From: In search of causal variants: refining disease association signals using cross-population contrasts

  EA SAMPLE ONLY AA SAMPLE ONLY PRIMARY ANALYSIS OF THE COMBINED SAMPLE
SNP p-value1 Odds ratio
(95%
confidence
interval)
p-value1 Odds ratio
(95%
confidence
interval)
Primary2
p-value
EA
Population
-specific
odds
ratio3
AA
Population
-specific
odds
ratio3
P-value,
population-by
-genotype term
(heterogeneity)
rs17483548         
rs17405217         
rs17483721         
rs2656052 0.0147 0.71 (0.539, 0.935) 0.9737 1.004 (0.793, 1.272) 0.04656 0.7074 1.0008 0.06031
rs7181486         
rs17483929         
rs17484235         
rs9788721 0.0031 0.662 (0.505, 0.870) 0.4084 1.108 (0.868, 1.415) 0.008229 0.6619 1.1045 0.005783
rs8034191 0.0052 0.679 (0.518, 0.891) 0.7846 1.046 (0.756, 1.449) 0.01903 0.6797 1.0389 0.04839
rs10519203 0.0035 0.667 (0.509, 0.875) 0.8629 1.022 (0.795, 1.315) 0.01312 0.6679 1.0208 0.02396
rs8031948         
rs931794         
rs2036527 0.0062 0.683 (0.520, 0.897) 0.5081 0.906 (0.677, 1.213) 0.01797 0.6837 0.9048 0.1676
rs17486278 0.0032 0.663 (0.504, 0.871) 0.3669 0.884 (0.676, 1.155) 0.007876 0.6616 0.8848 0.1356
rs7180002         
rs951266 0.0051 0.677 (0.515, 0.890) 0.8252 0.952 (0.617, 1.469) 0.01777 0.6761 0.9512 0.1894
rs16969968 0.0033 0.664 (0.505, 0.873) 0.2397 0.729 (0.430, 1.235) 0.006299 0.6636 0.7313 0.7479
rs1051730 0.0036 0.666 (0.507, 0.876) 0.6663 0.913 (0.604, 1.380) 0.01135 0.6636 0.9149 0.2016
rs1317286 0.0044 0.675 (0.515, 0.884) 0.9011 0.982 (0.736, 1.311) 0.01586 0.6745 0.9830 0.06096
rs12914385         
rs17487223         
  1. The SNPs correlated with rs16969968 on chromosome 15 (r2 ≥ 0.8 in HapMap CEU) are sorted by genomic position. The heterogeneity test results are given in the rightmost column.
  2. 1One-degree of freedom test as described in methods.
  3. 2 Two-degree of freedom test as described in methods.
  4. 3 Population-specific odds ratio for the effect of one copy of the minor allele, from the combined analysis as defined in the methods.