Table 2.

SNPs with the most significant association with gene methylation based on a 12-gene panel in the LSC ^*

Genes	SNPs	Discovery (n=713)		Replication (n=721)		Combined analysis (n=1434)
		FR (95% CI)	P values	FR (95%CI)	P values	FR (95%CI)	P values
TP53	rs1641511	1.09 (1.01–1.18)	2.8×10−2	1.17 (1.08–1.27)	1.3×10−4	1.13 (1.07–1.19)	1.8×10−5
LIG1	rs3730859	1.10 (1.02–1.18)	1.2×10−2	1.14 (1.06–1.22)	4.9×10−4	1.11 (1.06–1.17)	3.0×10−5
BIK	rs1883264	0.91 (0.82–1.00)	5.7×10−2	0.82 (0.74–0.91)	1.3×10−4	0.86 (0.80–0.93)	5.4×10−5
LIG1	rs7246512	0.92 (0.85–1.01)	7.1×10−2	0.86 (0.78–0.94)	1.3×10−3	0.89 (0.84–0.95)	5.6×10−4
LIG1	rs436943	0.88 (0.80–0.97)	6.9×10−3	0.90 (0.81–0.99)	2.6×10−2	0.89 (0.83–0.95)	6.4×10−4
LIG1	rs156641 †	1.09 (1.02–1.17)	1.0×10−2	1.08 (1.01–1.15)	3.5×10−2	1.08 (1.03–1.14)	1.3×10−3
BMF	rs3923235	1.09 (1.01–1.17)	2.7×10−2	1.08 (1.01–1.17)	3.2×10−2	1.09 (1.03–1.14)	2.2×10−3
LIG1	rs156640	1.06 (0.99–1.14)	9.9×10−2	1.11 (1.03–1.20)	6.2×10−3	1.08 (1.03–1.14)	3.5×10−3
LIG1	rs156645	1.08 (1.01–1.16)	3.0×10−2	1.08 (1.01–1.16)	3.1×10−2	1.08 (1.02–1.13)	3.8×10−3
BAK1	rs210134	1.065 (0.99–1.15)	9.7×10−2	1.09 (1.02–1.17)	1.6×10−2	1.08 (1.02–1.13)	5.8×10−3
LIG1	rs4802436	0.93 (0.85–1.01)	9.2×10−2	0.91 (0.83–0.99)	3.3×10−2	0.92 (0.86–0.98)	8.9×10−3

^*From Poisson regression models with adjustment for age, gender, ethnicity, current smoking status, and pack years.

^†Rs156641 is a redundant tag SNP for rs156645 (r²=1).