Table 1.

Three SNPs associated with lung cancer risk above genome-wide significance level

Cytoband	SNP	Loc	Nearest gene(s)	Stage	Control	Case	Ref allele	Effect allele	EAF	OR	95% CI	P	Phet
6p21.1	rs7741164a	41493412	DQ141194	Discovery	6277	6877	G	A	0.306	1.18	(1.10–1.26)	2.05E−06
				Replication	7019	5842	G	A	0.316	1.17	(1.10–1.24)	5.88E−08
				Combined	13 296	12 719				1.17	(1.12–1.22)	5.80E−13	2.17E−01
9p21.3	rs72658409	22160087	NA	Discovery	6277	6877	C	T	0.070	0.75	(0.67–0.83)	1.37E−07
				Replication	6684	5494	C	T	0.065	0.80	(0.72–0.90)	1.69E−04
				Combined	12 961	12 371				0.77	(0.72–0.84)	1.41E−10	2.79E−01
12q13.13	rs11610143	52349071	ACVR1B	Discovery	6277	6877	C	G	0.320	0.88	(0.83–0.93)	2.21E−06
				Replication	6564	5006	C	G	0.340	0.90	(0.85–0.95)	4.78E−04
				Combined	12 841	11 883				0.89	(0.85–0.92)	4.96E−09	7.16E−01

LOC, location; Ref, reference; EAF, effect allele frequency in controls; OR, odds ratio; CI, confidence interval.

^ars7741164 was imputed with low quality.