. Author manuscript; available in PMC: 2016 Nov 1.

Published in final edited form as: Mol Psychiatry. 2015 Aug 4;21(5):601–607. doi: 10.1038/mp.2015.105

Table 2.

The effect of common, low frequency, and rare CHRNA5 coding variants on nicotine dependence in primary sample

Variant Class	Variant	European Americans (n=1432)			African Americans (n=1388)

		MAF¹	OR (95% CI)	p- value	MAF	OR (95% CI)	p- value
*Multivariable Model Set 1*

Common	rs16969968	0.355	1.27 (1.08-1.49)	0.003	0.058	1.46 (1.02-2.07)	0.04

Low Frequency	Aggregate term²	0.016	1.81 (0.97-3.42)	0.06	0.071	1.35 (0.98-1.87)	0.07

Rare	Aggregate term	0.005	12.90 (1.66-100.54)	0.01	0.009	1.47 (0.60-3.59)	0.40

*Multivariable Model Set 2*

Common	rs16969968	0.355	1.28 (1.09-1.50)	0.003	0.058	1.42 (1.00-2.03)	0.05

Low Frequency	rs2229961	0.016	1.71 (0.91-3.23)	0.10	0.002	2.57 (0.28-23.91)	0.41

	rs80087508	0³	.	.	0.014	2.00 (0.94-4.27)	0.07

	rs79109919	0.0003⁴	.	.	0.057	1.22 (0.86-1.75)	0.26

Rare	Aggregate term	0.005	12.91 (1.66-100.66)	0.01	0.009	1.51 (0.62-3.68)	0.37

This table shows the genetic effect of CHRNA5 coding variants analyzed jointly in multivariate model sets 1 and 2.

Multivariable Model Set 1 includes rs16969968, the aggregate low frequency variant term, and the aggregate rare variant term:

Multivariable Model Set 2 includes rs16969968, rs2229961, rs800087508, rs79109919, and the aggregate rare variant term;

All models adjusted for sex, age, and first ancestry-specific PC as covariates;

MAF stands for minor allele frequency;

for aggregate terms, the MAF was estimated by the dividing the number of people with at least one low frequency/rare variant by 2 times the total number of people;

rs80087508 is non-polymorphic in European Americans;

⁴

Because the minor allele of rs79109919 occurred less than 5 times in European Americans, the OR and p-value are not presented.