Table 1.

pGWAS results for the Norfolk pedigree and WGHS replication cohort

Chr	SNP ref. no.	P value	Betaa	Position (BP)	Function	Minor/major allele	MAF	Dist. to gene (BP)	Gene symbol	WGHS cohort
										Allelic P value	Beta (SE)
Top 10 GWAS SNPS
4	rs11930554	2.84E−6	1.068	131787382	Intergenic	C/T	0.138	−359452	AC092540.1	0.35	0.026 (0.03)
4	rs11936003	2.84E−06	1.068	131788092	Intergenic	G/A	0.138	−360162	AC092540.1	0.35	0.026 (0.03)
4	rs7690766	3.35E−06	1.064	131774208	Intergenic	G/A	0.135	−346278	AC092540.1	0.37	0.025 (0.03)
9	rs4977338	1.96E−06	−0.823	18718086	Intronic	T/G	0.140	0	ADAMTSL1	0.48	−0.022 (0.03)
9	rs10512405	1.21E−05	−0.542	113236797	Intronic	C/T	0.403	0	SVEP1	0.18	−0.032 (0.02)
10	rs883248	3.83E−06	0.666	1250184	Intronic	G/A	0.439	0	ADARB2	0.91	0.003 (0.02)
10	rs7079024	3.03E−06	0.630	3445668	Intergenic	C/T	0.470	83418	RP11−482E14.1	0.94	−0.002 (0.02)
10	rs10795033	1.72E−05	0.578	3447072	Intergenic	C/T	0.470	82014	RP11−482E14.1	0.95	−0.002 (0.02)
17	rs2525570	1.15E−05	0.603	29681245	Intronic	G/A	0.469	0	NF1	0.78	0.006 (0.02)
19	rs4807347	9.56E−06	0.941	2857287	3Prime UTR	A/C	0.144	0	ZNF555	0.019	−0.074 (0.03)
Biologically and statistically prioritised SNPs
1	rs6425412	0.0002	11.25	177073727	Intronic	G/A	0.034	0	ASTN	0.24	0.055 (0.05)
2	rs2600685	5.19E−05	0.52	175627048	Intronic	A/G	0.492	0	CHRNA1	0.32	−0.023 (0.02)
3	rs11714003	0.0003	−0.78	54234467	Intronic	G/A	0.089	0	CACNA2D3	0.34	0.039 (0.04)
3	rs1391950	2.70E−05	0.55	7058417	Intronic	G/A	0.490	0	GRM7	0.77	−0.007 (0.02)
3	rs11713183	7.26E−05	−0.51	7078179	Intronic	T/C	0.427	0	GRM7	0.23	0.027 (0.02)
5	rs1561836	0.0002	0.85	22794657	Intronic	C/T	0.128	0	CDH12	0.55	−0.023 (0.04)
5	rs210993	0.0002	0.50	161619504	Intergenic	A/G	0.344	36959	GABRG2	0.74	0.008 (0.02)
10	rs10903399	7.68E−05	0.64	1227868	Downstream	C/T	0.330	205	ADARB2	0.61	0.012 (0.02)
10	rs1046914	3.43E−05	0.67	1228206	3Prime utr	G/A	0.328	0	ADARB2	0.60	0.013 (0.02)
10	rs2271275	2.67E−05	0.65	1230968	Non-synon	G/A	0.368	0	ADARB2	0.62	0.012 (0.02)
10	rs883248	3.83E−06	0.67	1250184	Intronic	G/A	0.439	0	ADARB2	0.91	0.003 (0.02)
10	rs2800143	0.0002	−0.65	92463214	Intergenic	A/G	0.128	37366	HTR7	NA	NA
12	rs11615115	4.02E−05	3.79	100802452	Intronic	G/A	0.045	0	SLC17A8	0.14	0.068 (0.05)

A negative beta indicates the minor allele increases migraine risk, a positive beta indicates a decreased risk

BP base pairs, Chr chromosome, MAF minor allele frequency, NA not available, WGHS Women’s Genome Health Study

^aThe beta coefficient is a measure of risk