Table 2.

SNPs Significantly Associated with Visceral Adipose Tissue Area (VAT), Subcutaneous Adipose Tissue Area (SAT), and Visceral to Subcutaneous Fat Ratio (VSR) in Hispanics in Both the GWAS Sample (Stage 1) (p < 1.0×10⁻³) and the Entire Cohort (Stage 2) (p< 1.0×10⁻²) of the IRAS Family Study. SNPs are ordered in decreasing level of significance in the Stage 2.

Marker	Chr	Position	MAF *	Gene Name	Stage 1 GWAS Sample	Stage 2 Entire Cohort	Genotypic Means in Entire Cohort Mean ± SD
					p-value† (n=229)	p-value‡ (n=1190)	1/1	1/2	2/2
Phenotype: Visceral Adipose Tissue Area (VAT)
rs4785644	16	87848739	0.45		7.9×10−5	6.9×10−4	119.1± 60.7	119.9± 63.2	98.2± 54.8
rs10063941	5	91257403	0.24		6.0×10−4	3.0×10−3	109.2± 58.1	121.5± 62.3	127.6± 75.7
rs1026228	8	102076877	0.34		3.2×10−4	3.7×10−3	111.9± 59.2	117.5± 62.5	116.1± 64.1
rs6436346	2	223382566	0.41		2.9×10−5	3.9×10−3	110.0± 57.7	116.5± 62.9	121.1± 63.9
rs870583	6	125097228	0.21	TCBA1	7.3×10−4	4.5×10−3	117.6±62.1	110.9±61.2	105.4± 47.7
rs12193017	6	79198412	0.22		1.4×10−4	5.2×10−3	118.5± 62.5	111.8± 59.9	99.9± 57.4
rs7543757	1	105029437	0.34		4.6×10−6	9.1×10−3	110.4± 59.9	116.8± 62.5	127.1± 61.9
Phenotype: Subcutaneous Adipose Tissue Area (SAT)
rs1509729	11	108432693	0.36		1.5×10−4	1.5×10−5	359.2± 162.0	335.6± 150.9	289.8± 141.9
rs4754373	11	108398056	0.27		9.5×10−7	2.7×10−5	358.4± 162.9	321.3± 143.4	301.3± 145.8
rs4973062#/ rs6745724	2	233566880/ 233562485	0.34	NGEF	1.3×10−4	2.0×10−4	356.9± 160.9	328.0± 146.8	297.2± 150.7
rs11212913	11	108452854	0.36		6.5×10−6	3.5×10−4	354.2± 163.1	340.5± 151.1	286.4± 135.2
rs399162	22	18426687	0.28	C22orf25	3.6×10−4	7.6×10−4	326.1± 146.8	353.7± 164.6	377.6± 159.5
rs11022428	11	12572786	0.19		8.2×10−4	3.4×10−3	333.0± 154.9	349.5± 154.6	394.0± 167.8
rs12193017	6	79198412	0.22		2.8×10−5	6.5×10−3	355.1± 162.5	323.0± 144.9	313.5± 142.4
Phenotype: Visceral to Subcutaneous Fat Ratio (VSR)
rs7086207	10	26227683	0.25		1.2×10−4	3.9×10−5	0.39± 0.22	0.36± 0.20	0.32± 0.13
rs4134351	13	82851694	0.11		1.6×10−6	1.9×10−4	0.38± 0.21	0.37± 0.20	0.28± 0.17
rs12707628	7	83655831	0.27	SEMA3A	8.3×10−4	6.7×10−4	0.40± 0.22	0.36± 0.20	0.33± 0.18
rs666432	11	119508743	0.12	TRIM29	2.5×10−5	8.8×10−4	0.39± 0.21	0.34± 0.20	0.29± 0.10
rs7258003	19	20691124	0.49		7.9×10−5	1.1×10−3	0.39± 0.21	0.38± 0.21	0.36± 0.21
rs2239227	14	71899732	0.11	RGS6	2.7×10−4	1.4×10−3	0.39± 0.21	0.35± 0.19	0.33± 0.27
rs2015983	2	236814905	0.20	ASB18	1.0×10−3	2.6×10−3	0.39± 0.23	0.35± 0.18	0.38± 0.21
rs669443	9	135631534	0.25	VAV2	4.0×10−5	3.1×10−3	0.40± 0.22	0.36± 0.20	0.36± 0.19
rs4541696	5	634053	0.37		6.1×10−6	3.6×10−3	0.38± 0.21	0.38± 0.22	0.36± 0.19
rs2239247	14	71871989	0.23	RGS6	1.2×10−4	4.0×10−3	0.39± 0.21	0.36± 0.21	0.35± 0.19
rs885883	14	106345097	0.50		1.5×10−5	5.6×10−3	0.34± 0.19	0.39± 0.22	0.38± 0.21
rs2240003	7	95003210	0.25	ASB4	4.9×10−5	6.2×10−3	0.36± 0.20	0.39± 0.21	0.43± 0.24

^*MAF are calculated from unrelateds in the entire Hispanic Cohort

^†P-values from additive model, adjusting for age and sex. SNPs

^‡P-values from additive model, adjusting for age, sex, site of recruitment and admixture.

^#The typing of rs4973062 failed on the 1536 platform for a number of individuals. For Stage 2, we report the genotyping results of rs6745724, which has a D’ of 1.0, and is perfectly correlated (r²), with rs4973062.

TCBA1, Na+/K+ transporting ATPase interacting 2; NGEF, neuronal guanine nucleotide exchange factor; C22orf25, chromosome 22 open reading frame 25; ASB18, ankyrin repeat and SOCS box-containing 18; ASB4, ankyrin repeat and SOCS box-containing 4; SEMA3A, sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A; VAV2, vav 2 guanine nucleotide exchange factor; TRIM29, tripartite motif-containing 29; RGS6, regulator of G-protein signaling 6