Table 3. Results from replication testing of SNPs in significant admixture association regions in 2,347 Pima Indians.

Genomic positions are in human build 37. A1 is the effect (tested) allele, A2 is the other allele. For each of HCHS/SOL and the replication study, we provide allele frequencies, estimated effect sizes, and p-values. For the replication study, p-values are one-sided as determined by the direction of association observed in the HCHS/SOL. For the HCHS/SOL frequencies we report “Amer freq”: the estimated allele frequency in the Amerindian ancestry in the HCHS/SOL, as estimated using ASAFE [30].

Trait	Chr	rsID	position	A1	A2	HCHS/SOL			Pima Indians
						Amer freq	Effect	p-value	freq	Effect	p-value (one-sided)
MAP	6	rs75432840	34110808	C	G	0.28	0.82	4.39E-05	0.43	−0.26	0.77
MAP	6	rs138977532	36349802	C	T	0.59	1	4.62E-05	0.63	0.74	0.02
SBP	6	rs75432840	34110808	C	G	0.28	1.13	6.16E-05	0.43	−0.75	0.92
SBP	6	rs138977532	36349802	C	T	0.59	1.46	2.98E-05	0.63	0.89	0.04
MAP	11	rs139139046	71163354	G	C	0.87	0.93	7.68E-03	0.71	0.15	0.35
PP	17	rs72849841	78272294	C	T	0.996	0.71	3.37E-03	0.94	−1.43	0.95