Table 2.

SECA-based genetic concordance between migraine and MDD

2016 IHGC migraine GWAS P value threshold	No. of SNP effects across migraine and MDDa			Proportion of SNPs with concordant effects	Concordance test P valueb
	Concordant	Discordant	Total
1	202	156	358	0.5642	1.73 × 10−2
0.9	192	150	342	0.5614	2.65 × 10−2
0.8	178	140	318	0.5597	3.78 × 10−2
0.7	166	124	290	0.5724	1.59 × 10−2
0.6	159	112	271	0.5867	5.11 × 10−3
0.5	146	100	246	0.5935	4.03 × 10−3
0.4	126	85	211	0.5972	5.76 × 10−3
0.3	109	69	178	0.6124	3.35 × 10−3
0.2	88	46	134	0.6567	3.60 × 10−4
0.1	66	22	88	0.7500	2.88 × 10−6
0.05	34	12	46	0.7391	1.64 × 10−3
0.01	14	3	17	0.8235	1.27 × 10−2

^aThere were a total of 358 independent SNPs (linkage disequilibrium r² < 0.1) with results in both the 2016 IHGC Migraine GWAS and the top 10,000 SNPs (P value ≤ 1 × 10⁻⁵) in the 2016 23andMe MDD GWAS

^bTwo-sided exact binomial test for concordance: where the number of successes, number of trials and probability of success is the number of concordant SNPs, total SNPs and 0.5, respectively