Table 2.

Association fine mapping of the B3GALTL eQTL on vervet chromosome 3 (human chromosome 13) in a vervet Caribbean population sample

Position in hg19 (bp)	SNP ID	BETA	SE	R2	T	P-value*
31 676 914	B3GALTL_0	−0.1438	0.0592	0.02086	−2.429	0.01576
31 689 187	B3GALTL_2	0.2865	0.06264	0.07092	4.573	7.28E − 06
31 758 316	B3GALTL_3	−0.1159	0.05773	0.01445	−2.008	0.04565
31 758 727	B3GALTL_4	0.2773	0.0629	0.06558	4.409	1.49E − 05
31 761 667	B3GALTL_5	−0.09483	0.1279	0.001988	−0.7415	0.459
31 834 058	B3GALTL_11	0.1201	0.07922	0.008235	1.517	0.1305
31 836 303	B3GALTL_12	0.2623	0.0602	0.06416	4.358	1.85E − 05
31 837 552	B3GALTL_13	−0.03341	0.08569	0.000551	−0.3899	0.6969
31 855 094	B3GALTL_15	0.1059	0.06451	0.009813	1.642	0.1018
31 860 398	B3GALTL_16	0.2342	0.05671	0.05918	4.129	4.86E − 05
31 906 160	B3GALTL_19	−0.0279	0.1278	0.000172	−0.2184	0.8273
31 932 565	B3GALTL_20.1	−0.0279	0.1278	0.000172	−0.2184	0.8273
31 948 748	B3GALTL_21	−0.02533	0.13	0.000138	−0.1949	0.8456
31 953 645	B3GALTL_22	−0.04565	0.06007	0.00208	−0.7599	0.448
32 005 195	B3GALTL_24	−0.1161	0.06103	0.01293	−1.902	0.05827

*Association P-values shown here were calculated for regression of expression on SNP genotype, assuming an additive model. Beta is the regression coefficient, SE the standard error of beta, R² the coefficient of determination from the regression model and T is the t-statistic testing the null hypothesis that Beta = 0. Significant association P-values based on Bonferroni correction (P < 0.003) are shown in boldface. Three of the four significantly associated SNPs are in very tight LD (r²> 0.80), and clearly represent the same signal. The fourth SNP (SNP _16) has r² of ∼0.65 with the other three SNPs; however, modeling the expression phenotype versus a linear combination of the four SNPs suggests that the signals are not independent.