Table 1.

Meta-analyses in 30,000 samples identify seven novel loci for PR interval, QRS duration, and QT interval

SNP info					GoNL-imputed data							Previous HapMap-based meta-analysis				Replication in 13 CHARGE cohorts (1000 Genomes Phase 1 imputed)
Locus	Trait	Index SNP	Chr	Position (hg19)	Coded allele	Non-coded allele	Coded allele frequency	Beta	SE	P-value	Sample size	Proxy used	P-value	Sample size	Refs.	Beta	SE	P-value	Sample size
KCND3	PR	rs75013985	1	112530430	G	A	0.033	−4.090	0.554	1.5 × 10−13	31695	No proxies available with r2 > 0.4	N/A	92340	[3]	−5.967	0.985	1.4 × 10−9	19,302
NR3C1/ARHGAP26	PR	rs17287745	5	142655015	G	A	0.425	1.011	0.185	4.2 × 10−8	31695	No	1.9 × 10−6	92340	[3]	0.585	0.193	0.002	24,438
PLN/SLC35F1	PR	rs74640693	6	118684824	T	A	0.049	2.376	0.428	2.9 × 10−8	31695	rs10457327 (r2 = 0.89)	2.9 × 10−4	92340	[3]	0.457	0.419	0.276	27,106
SGIP1	QT	rs6588213	1	67107894	T	C	0.126	1.596	0.282	1.5 × 10−8	26794	No	0.001	76061	[10]	0.757	0.199	1.4 × 10−4	22,663
NFKB1	QT	rs11097788	4	103407428	G	A	0.561	1.048	0.186	1.8 × 10−8	26794	rs1598856 (r2 = 0.97)	1.3 × 10−4	76061	[10]	0.336	0.131	0.010	30,504
KCNE1	QT	rs1805128	21	35821680	T	C	0.018	7.409	0.939	2.9 × 10−15	26794	No	0.004	76061	[10]	4.874	0.671	3.7 × 10−13	15,896
ATP2A2/ANAPC7	QRS	rs28637922	12	110819139	T	G	0.259	0.565	0.102	3.0 × 10−8	25509	rs1502337 (r2 = 0.89)	4.1 × 10−4	73518	[6]	0.177	0.074	0.027	29,427

Using GoNL as reference panel in ~30,000 samples mostly of Dutch descent, we found seven loci not previously identified or (in the case of KCNE1 for QT interval) not consistently replicated in previous genome-wide association studies. We conducted look-ups of these SNPs (or proxy SNPs in strong LD if the SNPs were not present in HapMap) in their respective HapMap-based meta-analyses and replicated six out of seven in a combined analysis of 13 CHARGE cohorts imputed with 1000 Genomes Phase 1. All effect estimates and allele frequencies are with respect to the coded allele