Table 1 Lead variants within 28 novel independent loci associated with TSH identified in the meta-analysis of HUNT, MGI, and ThyroidOmics²³.

From: GWAS of thyroid stimulating hormone highlights pleiotropic effects and inverse association with thyroid cancer

Locus Index	Chromosome:Position (build 37)	rs ID	Ref.	Alt	Category	Nearest Gene(s)	HUNT + MGI + ThyroidOmics²³ meta-analysis
Locus Index	Chromosome:Position (build 37)	rs ID	Ref.	Alt	Category	Nearest Gene(s)	Freq^a	Effect^b	SE	P	N	Direction^c	Heterogeneity P-value
1	1:22513011	rs12743883	A	G	Intergenic	WNT4;MIR4418	0.592	0.031	0.005	1.00E − 10	116,445	+++	0.57
2	1:51451499	rs11583886	G	A	intergenic	CDKN2C;MIR4421	0.306	−0.035	0.005	3.83E − 12	116,445	---	0.97
3	1:68166425	rs12029562	G	A	Downstream	GNG12	0.525	−0.030	0.005	1.66E − 10	116,445	---	0.81
4	1:218685055	rs2993047	G	A	ncRNA_intronic	C1orf143;MIR548F3	0.592	−0.033	0.005	3.71E − 12	116,445	---	0.23
5	2:25994220	rs6721104	A	C	Intronic	ASXL2	0.036	0.087	0.012	4.45E − 12	117,474	+++	0.98
6	2:43644556	rs10186921	C	T	Intronic	THADA	0.542	0.040	0.005	3.13E − 18	117,474	+++	0.22
7	2:169554118	rs62174422	T	G	Intronic	CERS6	0.039	−0.083	0.012	2.09E − 11	117,474	---	0.56
8	2:242516105	rs6717283	A	G	Intergenic	BOK;THAP4	0.142	0.046	0.007	1.04E − 11	116,443	+++	0.82
9	3:188072513	rs9865818	A	G	Intronic	LPP	0.431	−0.026	0.005	3.42E − 08	119,715	---	0.45
10	4:177705862	rs4571283	G	A	Intronic	VEGFC	0.875	0.045	0.008	2.72E − 09	107,389	+?+	0.57
11	5:58373418	rs77994712	C	G	Intronic	PDE4D	0.052	−0.066	0.011	1.44E − 09	118,501	---	0.53
12	6:168819800	rs751171	T	C	Intergenic	DACT2;SMOC2	0.338	0.033	0.005	1.04E – 11	119,715	+++	0.66
13	7:2329497	rs4719486	G	A	Intronic	SNX8	0.419	−0.027	0.005	8.44E – 09	119,715	---	0.12
14	7:46753491	rs700750	C	A	Intergenic	LOC730338;TNS3	0.643	0.034	0.005	7.90E − 13	119,715	+++	0.84
15	8:8323088	rs2979181	A	T	Intergenic	PRAG1;CLDN23	0.496	−0.036	0.005	3.82E − 11	119,715	---	0.26
16	8:120112818	rs72682433	T	C	Intronic	COLEC10	0.097	0.042	0.008	4.22E − 08	119,715	+++	0.68
17	9:127032607	rs1045774	A	G	Intronic	NEK6	0.384	0.032	0.005	3.87E − 12	119,715	+++	0.37
18	12:549670	rs546738875	C	G	Intronic	CCDC77	0.003	0.390	0.061	1.95E − 10	65,427	+-?	0.11
18	12:570840	rs7966590	G	A	Intronic	B4GALNT3	0.550	0.039	0.005	5.93E − 14	117,977	+++	0.12
18	12:665822	rs145153320	C	T	Nonsynonymous	B4GALNT3	0.003	0.489	0.073	2.04E − 11	55,342	+??	1.00
19	12:69831694	rs10878986	T	C	Intergenic	YEATS4;FRS2	0.385	−0.027	0.005	2.40E − 08	119,715	---	0.77
20	12:111884608	rs3184504	T	C	Nonsynonymous	SH2B3	0.518	−0.030	0.005	7.37E − 11	119,715	---	0.88
21	13:111191813	rs4393429	T	C	Intronic	RAB20	0.256	−0.030	0.005	8.75E − 09	119,715	---	0.08
22	15:36001394	rs74888443	C	T	ncRNA_intronic	DPH6-AS1	0.054	0.060	0.011	2.70E − 08	119,715	+++	0.41
23	17:47418178	rs35587648	G	A	Intronic	ZNF652	0.383	0.032	0.005	4.53E − 12	119,715	+++	0.29
24	17:64208285	rs1801690	C	G	Nonsynonymous	APOH	0.059	−0.065	0.010	2.76E − 11	119,715	---	0.38
25	19:2634823	rs72978712	T	C	Intronic	GNG7	0.204	0.044	0.007	9.42E − 11	115,129	+++	0.97
26	19:55772412	rs10421676	A	G	Intergenic	PPP6R1;HSPBP1	0.598	0.027	0.005	1.05E − 08	117,475	+++	0.97
27	20:6685377	rs6085658	C	T	Intergenic	CASC20;LINC01713	0.400	−0.029	0.005	1.32E − 09	119,715	---	0.64
28	22:31790014	rs5997969	T	C	Intergenic	LINC01521;DRG1	0.665	−0.027	0.005	4.37E − 08	119,715	---	0.57

^aFrequencies are reported with respect to the alternate allele in the combined meta-analysis data set.
^bEffect sizes are reported with respect to the alternate allele in the unit of SD of TSH levels.
^cEffect direction on TSH of the alternate allele in individual data sets: HUNT, MGI, and ThyroidOmics, respectively. Noted as ? if the variant is missing in the corresponding data set.

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Table 1 Lead variants within 28 novel independent loci associated with TSH identified in the meta-analysis of HUNT, MGI, and ThyroidOmics²³.

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