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. Author manuscript; available in PMC: 2009 Nov 17.
Published in final edited form as: Nat Genet. 2008 Mar 30;40(5):631–637. doi: 10.1038/ng.133

Table 2. SNPs genotyped in phase 3 and summary description from the meta-analysis of all available data.

All samples
Replication samples
Replication samples of European ancestry
SNP Rank Chr. Position Variant Number of sets Pheta l2 (%) Effects model P OR
(95% CI)
Number of sets Pheta l2 (%) Effects model P OR
(95% CI)
Number of sets Pheta l2 (%) Effects model P OR
(95% CI)
rs6533603b 3 4 113440251 T 9 0.001 68 Random 0.81 1.01
(0.95-1.07)
8 0.36 9 Fixed 0.21 0.98
(0.94-1.01)
7 0.44 0 Fixed 0.48 0.99
(0.95-1.03)

rs7014346b 1 8 128493974 A 9 0.343 11 Fixed 8.60 × 10-26 1.19
(1.15-1.23)
8 0.26 21 Fixed 1.85 × 10-20 1.19
(1.14-1.23)
7 0.18 32 Fixed 4.44 × 10-16 1.19
(1.14-1.24)
rs7842552 8 128500876 G 8 0.026 56 Random 1.20 × 10-5 1.15
(1.08-1.23)
7 0.02 59 Random 4.48 × 10-4 1.14
(1.06-1.23)
6 0.01 65 Random 1.85 × 10-3 1.15
(1.05-1.25)

rs11213809 4 11 110640955 A 8 0.086 43 Fixed 7.93 × 10-8 1.11
(1.07-1.16)
7 0.29 18 Fixed 6.79 × 10-4 1.08
(1.03-1.13)
6 0.34 11 Fixed 2.98 × 10-4 1.09
(1.04-1.14)
rs3802842b 11 110676919 C 9 0.050 48 Fixed 5.82 × 10-10 1.11
(1.08-1.15)
8 0.18 32 Fixed 5.54 × 10-6 1.09
(1.05-1.13)
7 0.43 0 Fixed 7.82 × 10-7 1.12
(1.07-1.17)
rs7947952 11 110686330 T 3 0.081 60 Fixed 0.04 1.06
(1.00-1.11)
2 0.12 58 Fixed 0.81 1.01
(0.94-1.09)
1 - - - 0.19 1.08
(0.96-1.21)
rs10749971 11 110694368 G 8 0.818 0 Fixed 6.71 × 10-6 1.09
(1.05-1.13)
7 0.86 0 Fixed 9.46 × 10-4 1.08
(1.03-1.13)
6 0.83 0 Fixed 7.67 × 10-4 1.08
(1.03-1.13)
rs4514461 11 110732153 A 8 0.072 46 Fixed 7.90 × 10-3 1.05
(1.01-1.09)
7 0.20 30 Fixed 0.19 1.03
(0.99-1.07)
6 0.21 30 Fixed 0.096 1.04
(0.99-1.09)
rs12799202 11 110749966 G 8 0.533 0 Fixed 4.98 × 10-4 1.07
(1.03-1.12)
7 0.55 0 Fixed 0.01 1.06
(1.01-1.11)
6 0.73 0 Fixed 0.003 1.08
(1.03-1.14)

rs4939827b 2 18 44707461 T 9 0.336 12 Fixed 7.77 × 10-28 1.20
(1.16-1.24)
8 0.25 22 Fixed 4.38 × 10-23 1.20
(1.16-1.24)
7 0.17 33 Fixed 8.70 × 10-19 1.20
(1.15-1.25)
rs12953717 18 44707927 T 4 0.964 0 Fixed 3.10 × 10-11 1.18
(1.12-1.23)
3 0.93 0 Fixed 2.07 × 10-7 1.18
(1.11-1.26)
2 0.71 0 Fixed 0.002 1.18
(1.06-1.30)

rs9951602b 5 18 74758767 T 9 0.059 47 Fixed 0.44 1.02
(0.97-1.07)
8 0.04 53 Random 0.64 1.02
(0.94-1.10)
7 0.03 56 Random 0.51 1.03
(0.94-1.13)

The Mantel-Haenzsel method was used.

a

When there was no significant heterogeneity (Phet > 0.05), the Mantel-Haenszel method was used to estimate pooled allelic effects under a fixed effect model, A random effects model, the DerSimonian-Laird method, was used if there was significant heterogeneity.

b

SNPs identified through the GWAS.

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