Table 2.

List of top-associated variants after meta-analysis. The list is obtained upon a clumping procedure (see Methods for details), filtered at p < 5 × 10^–5. The effect allele is the minor allele

Position	Minor allele	Major allele	MAF	P	OR	SE	I2	Gene	Genomic context	Distance to gene
187,410,850	T	C	0.268	1.328E−06	0.582	0.112	0	F11-AS1	ncRNA_intronic
68,071,570	T	C	0.421	1.678E−06	1.538	0.090	0	PIGH; ARG2	Intergenic	Dist = 4552; Dist = 15,067
111,037,829	T	A	0.251	2.793E−06	0.596	0.111	13	KLF4; ACTL7B	Intergenic	Dist = 785,779; Dist = 579,040
20,863,249	G	A	0.057	4.804E−06	2.122	0.165	0	GJB6; CRYL1	Intergenic	Dist = 56,715; Dist = 114,557
98,275,102	C	G	0.429	6.938E−06	0.650	0.096	34	LOC101927310; LINC00923	Intergenic	Dist = 171,174; Dist = 10,744
47,775,385	A	G	0.230	1.187E−05	1.561	0.102	0	SEMA6D	Intronic
21,728,917	A	G	0.142	1.191E−05	0.510	0.154	0	ZNF385D	Intronic
187,402,360	A	G	0.480	1.233E−05	1.496	0.092	0	F11-AS1	ncRNA_intronic
115,392,100	A	G	0.347	1.259E−05	1.476	0.089	0	GAP43	Intronic
12,783,519	T	C	0.075	1.325E−05	1.934	0.151	0	LINC00681; TRMT9B	Intergenic	Dist = 107,719; Dist = 19,663
43,181,587	T	C	0.080	1.362E−05	1.918	0.150	0	A4GALT; ARFGAP3	Intergenic	Dist = 64,280; Dist = 10,922
79,303,163	G	A	0.430	1.475E−05	1.469	0.089	0	WWOX; MAF	Intergenic	Dist = 56,599; Dist = 324,572
98,347,870	C	G	0.429	1.494E−05	0.676	0.091	57	LINC00923	ncRNA_intronic
27,204,531	C	T	0.095	2.087E−05	1.775	0.135	42	ABI1; FAM238C	Intergenic	Dist = 54,515; Dist = 15,604
47,746,678	C	G	0.075	2.692E−05	1.839	0.145	29	STIL	Exonic
113,293,608	G	A	0.411	2.744E−05	1.461	0.090	0	TUBGCP3; ATP11AUN	Intergenic	Dist = 51,109; Dist = 7750
606,173	C	A	0.143	2.862E−05	1.646	0.119	0	B4GALNT3	Intronic
83,766,280	A	C	0.114	2.909E−05	1.739	0.132	48	DLG2	Intronic
236,647,736	T	C	0.233	2.939E−05	1.495	0.096	0	EDARADD	UTR3	NM_145861:c.*1787C>T; NM_080738:c.*1787C>T
93,450,212	A	G	0.295	3.023E−05	1.471	0.093	0	RUNX1T1; LOC102724710	Intergenic	Dist = 334,599; Dist = 127,459
4,314,917	A	G	0.220	3.087E−05	1.523	0.101	0	CSMD1	Intronic
81,279,746	A	G	0.271	3.116E−05	1.479	0.094	6.4	SPRY2; LINC00377	Intergenic	Dist = 364,485; Dist = 312,780
111,023,899	T	C	0.404	3.369E−05	1.441	0.088	0	KLF4; ACTL7B	Intergenic	Dist = 771,849; Dist = 592,970
189,243,943	T	C	0.413	3.424E−05	1.433	0.087	0	TPRG1; TP63	Intergenic	Dist = 200,850; Dist = 70,592
114,813,313	C	T	0.267	3.459E−05	1.483	0.095	0	TBX5	Intronic
110,446,839	G	A	0.413	3.508E−05	1.433	0.087	0	IRS2; LINC00396	Intergenic	Dist = 7909; Dist = 258,793
177,987,660	G	A	0.137	3.639E−05	1.617	0.116	0	CRYZL2P	ncRNA_intronic
31,271,788	A	G	0.072	3.733E−05	1.845	0.148	60	OVOS2	ncRNA_intronic
206,468,850	T	G	0.419	4.007E−05	1.433	0.088	0	PARD3B	Intronic
54,692,961	G	A	0.116	4.025E−05	1.652	0.122	6.9	TINAG; FAM83B	Intergenic	Dist = 438,021; Dist = 18,608
141,938,633	C	T	0.069	4.217E−05	1.890	0.155	74	MGAM2; MOXD2P	Intergenic	Dist = 16,509; Dist = 1923
81,959,114	T	C	0.499	4.222E−05	0.697	0.088	5.8	ATP6AP1L; MIR3977	Intergenic	Dist = 343,363; Dist = 176,860
158,058,545	T	C	0.436	4.257E−05	1.455	0.092	0	ZDHHC14	Intronic
180,648,923	C	T	0.480	4.571E−05	0.699	0.088	0	LINC01098; LINC00290	Intergenic	Dist = 1,737,019; Dist = 1,336,320
83,182,354	A	G	0.299	4.605E−05	1.458	0.093	0	DLG2	Intronic
10,732,844	G	A	0.050	4.841E−05	2.053	0.177	53	TEKT5	Intronic
130,499,623	G	A	0.096	4.929E−05	1.749	0.138	42	LINC01163; LINC02667	Intergenic	Dist = 383,633; Dist = 211,474
156,675,608	A	C	0.135	4.934E−05	1.642	0.122	0	GUCY1A1; GUCY1B1	Intergenic	Dist = 17,399; Dist = 4565
50,679,081	T	G	0.372	4.966E−05	1.448	0.091	0	DEFB112; TFAP2D	Intergenic	Dist = 661,439; Dist = 2158

For each variant, the gene harboring it or nearest gene(s) are reported, together with its genomic context and distance in base-pairs from the nearest genes, as of ANNOVAR annotation

Abbreviations: MAF (Minor Allele Frequency), P (p value from fixed-effect meta-analysis), OR (odds ratio from fixed-effects meta-analysis), SE (standard error), I² (heterogeneity index)