Table 1.

Top marker summary statistics at the significant loci

rs number	Chr	Base pair	Locus	A1/A2	Discovery								Replication							Joint Analysis
					ImpScore (rsq)1,2	Minor allele frequency			PLINK				ImpScore (rsq)	Minor allele frequency		PLINK				METAL
						Controls	Cases	1000G EUR-	Beta	OR	SE	p value		Controls	Cases	Beta	OR	SE	p value	Beta	OR	SE	p value	I2	HetPVal
rs199443	17	44,819,565	MAPT	T/C∗	0.96, 0.96	0.224	0.187	0.223	0.229	1.257	0.037	1.03E-09	genotyped	0.220	0.210	0.267	1.306	0.077	5.34E-04	0.236	1.266	0.034	2.50E-12	0	6.53E-01
rs6857	19	45,392,254	APOE	T∗/C	0.96, 0.98	0.151	0.179	0.165	0.239	1.270	0.039	6.22E-10	0.99	0.161	0.181	0.249	1.283	0.072	5.01E-04	0.241	1.273	0.034	1.31E-12	0	9.00E-01
rs1009966	3	39,473,591	MOBP	G/A∗	0.93, 0.97	0.475	0.433	0.460	0.144	1.155	0.030	1.12E-06	0.77	0.469	0.413	0.157	1.17	0.057	6.18E-03	0.147	1.158	0.026	2.36E-08	0	8.47E-01

Discovery, replication, and joint analysis statistics are shown for the top markers (smallest p value) at the significant loci. A1, minor allele; ^∗, risk allele; ImpScore (rsq),^1,2 imputation scores in phases I and III combined in discovery; 1000G, 1000 Genomes.