Table 3.

Results for novel, sequencing-discovered genetic variants in the CHRNA5-CHRNA3 intergenic region

Novel variant	rs number (if available)	Position (bp)	Minor allele	Major allele	COGEND EA original (N = 1591)
					MAF	p-value	Odds ratio (95% confidence interval)	Maximum r2 with previously genotyped SNPs
GSC3_2		76671157	TAAG	DEL	0.0100	0.6773	1.16 (0.57–2.36)	<0.2
GSC3_4		76671923	A	T	0.0028	0.351	0.51 (0.13–2.09)	0.46
GSC3_15	rs62010327	76679839	A	G	0.3666	0.8474	1.02 (0.87–1.18)	0.94
GSC3_16		76679938	DEL	TACTC	0.0493	0.03726	0.71 (0.51 –0.98)	0.95
GSC3_17	rs55958820	76681412	T	G	0.0098	0.1722	1.70 (0.79–3.61)	<0.2
GSC3_18	rs57708953	76683263	T	C	0.0039	0.6057	0.74 (0.23–2.36)	0.35
GSC3_20		76684921	T	DEL	0.3719	0.9045	1.01 (0.87–1.17)	0.97
GSC3_26		76693692	G	A	0.0648	0.006386	0.67 (0.50–0.89)	0.25
GSC3_27		76694121	T	G	0.0060	0.7098	1.19 (0.48–2.97)	<0.2
GSC3_28		76695823	T	C	0.0063	0.6532	0.81 (0.33– 2.00)	<0.2
GSC3_29		76696413	G	C	0.0028	0.3521	0.51 (0.13–2.09)	0.46

¹Logistic regression, additive model