Table 2.

Association analysis results for independent index SNPs from loci with P < 5 × 10⁻⁸ in the meta-analysis

Chr	Basepair position (kb)	SNP	Correlation with index SNPa	Function/gene	Coded/non-coded allele	Allele frequency	Effective sample	Effect estimate	SE	Two-sided P	Two-sided Pmeta-gc
6q22	122 187	rs9398652	–	Intergenic, 400 kb from GJA1	A/C	0.10	37 050	−12.6	1.56	7.7 × 10−16	3.8 × 10−15
6q22	121 790	rs11154022	0.006	Intergenic, 8 kb from GJA1	A/G	0.33	31 676	5.8	1.05	3.5 × 10−8	7.2 × 10−8
14q12	22 935	rs452036	–	Intronic MYH6	A/G	0.36	34 640	−7.8	1.00	8.1 × 10−15	3.8 × 10−14
14q12	22 931	rs365990	0.96	Non-synonymous coding MYH6 (Ala-1101-Val)	G/A	0.37	32 627	−7.7	1.02	5.4 × 10−14	2.1 × 10−13
14q12	23 046	rs223116	0.08	Intergenic, nearest to MYH7, NDNG	A/G	0.24	26 899	−7.4	1.30	1.1 × 10−8	2.5 × 10−8
12p12	24 662	rs17287293	–	Intergenic	G/A	0.15	37 988	8.6	1.31	5.7 × 10−11	1.6 × 10−10
6q22	118 680	rs281868	–	Intronic SLC35F1	G/A	0.50	32 109	−6.3	0.99	1.5 × 10−10	4.3 × 10−10
7q22	100 291	rs314370	–	Intronic SLC12A9	C/T	0.19	35 170	−7.6	1.21	2.3 × 10−10	6.1 × 10−10
7q22	100 324	rs12666989	0.88	Non-synonymous coding UfSp1 (Leu-41-Val)	C/T	0.18	35 750	−7.0	1.21	9.4 × 10−9	2.1 × 10−8
11q12	61 327	rs174547	–	Intronic FADS1	C/T	0.33	34 907	−6.2	1.01	8.2 × 10−10	2.1 × 10−9
1q32	206 195	rs2745967	–	Intergenic near CD34	G/A	0.37	34 913	5.4	0.98	3.2 × 10−8	6.6 × 10−8

Chromosomal positions and coded alleles are given relative to the forward strand of NCBI build 36. Effect sizes (on the millisecond scale) are shown as beta estimates from linear regression models for each additional copy of the coded allele. The effective sample size reflects the imputation quality-adjusted sample size. Final column shows the P-value from inverse variance weighted meta-analyses. Chr, chromosome; SE, standard error. Bold values indicate P < 5 × 10⁻⁸

^aCEU HapMap population linkage disequilibrium r² values to the index SNP.