Table 2.

SNP quality assessment statistics for the 22 markers assessed in the replication phase.

Chr	SNP	Ref/Alt Allele, Traitmodel	Discovery					Replication
			EAF	Genotype	O(HET)	E(HET)	p-value	EAF	Genotype	O(HET)	E(HET)	p-value
1	rs1002487	T/C, FPG, HbA1C#	0.0594	5/151/1196	0.1117	0.112	0.8088	0.05119	5/110/1057	0.09386	0.0972	0.2241
2	rs4143782	C/T, FPG@	0.1812	47/396/909	0.1117	0.112	0.8088	0.1702	35/330/811	0.2803	0.2824	0.7791
3	rs12488539&	G/T, FPG@	0.2914	110/565/672	0.2929	0.2967	0.6466	0.2047	0/481/695	0.4094	0.3256	1.26E-16&
3	rs6762914&	T/C, FPG@	0.3197	135/595/623	0.4195	0.413	0.5978	0.205	0/482/694	0.4101	0.326	5.5E-11&
3	rs487321	A/G, FPG#	0.0821	8/206/1138	0.1524	0.1507	0.8567	0.0564	7/118/1048	0.1004	0.1066	0.0414
5	rs17065898	T/C, FPG@	0.1949	55/413/874	0.4398	0.435	0.708	0.0959	14/201/961	0.1709	0.1756	0.292
6	rs707927	A/G, FPG@	0.1062	15/257/1079	0.3077	0.3138	0.4864	0.1014	22/193/958	0.1649	0.1823	0.0121
6	rs1145784	G/A, FPG#	0.0983	12/242/1099	0.1902	0.1899	1	0.09617	16/194/965	0.1651	0.1738	0.09178
7	rs2522219	A/G, FPG#	0.04922	4/125/1222	0.1789	0.1773	0.8781	0.03712	0/87/1085	0.07423	0.0715	0.4022
8	rs1199028&	A/C, FPG#	0.1478	28/342/976	0.09252	0.0936	0.5619	0.1943	58/238/615	0.2613	0.3131	2.3E-06&
8	rs2599723	G/A, FPG#	0.0518	4/132/1214	0.09778	0.09833	0.7794	0.0627	7/134/1032	0.1144	0.1176	0.262
10	rs3812689	G/A, FPG#	0.06135	10/146/1197	0.2541	0.252	0.8291	0.0664	6/144/1024	0.1227	0.1241	0.6371
11	rs918988	T/C, FPG@	0.4217	256/629/468	0.4649	0.4877	0.0842	0.3236	165/598/671	0.417	0.4377	0.0855
11	rs1151501	A/G, FPG@	0.1116	16/270/1067	0.1996	0.1983	0.8917	0.0889	15/179/979	0.1527	0.162	0.0339
12	rs11179003	C/T, FPG#	0.0565	9/135/1209	0.0997	0.1067	0.0342	0.03731	3/101/1330	0.0704	0.0718	0.4451
13	rs7329697&	T/C, FPG#	0.09904	13/242/1098	0.1789	0.1785	1	0.113	41/184/951	0.1565	0.2005	5.2E-09&
13	rs4646213	G/A, FPG#	0.09202	12/225/1116	0.1663	0.1671	0.8702	0.09327	11/197/966	0.1678	0.1691	0.7305
14	rs3784240	G/A, FPG#	0.06615	11/157/1185	0.116	0.1235	0.04233	0.05641	6/120/1044	0.1026	0.1065	0.2609
15	rs1256826	A/G, FPG@	0.1135	20/267/1066	0.1973	0.2012	0.498	0.1213	22/240/909	0.205	0.2131	0.2151
17	rs930514	A/G, FPG@	0.4933	331/671/349	0.4967	0.4999	0.8277	0.4801	271/581/321	0.4944	0.4992	0.7114
17	rs12600570	C/T, FPG@	0.1482	34/333/986	0.2461	0.2525	0.3341	0.1444	28/358/1048	0.2497	0.247	0.7491
18	rs9959376	C/T, FPG#	0.09726	20/223/1109	0.1649	0.1756	0.02979	0.0966	18/191/967	0.1625	0.1745	0.0142

^#Association with the trait was observed under the genetic model based on recessive mode of inheritance; ^@association with the trait was observed under the genetic model based on additive mode of inheritance.

^&The markers (rs12488539, rs6762914, rs1199028 and rs7329697) fail in HWE test in replication phase.