Table 2.

Number of SNPs included in each prediction analysis

	SNPs overlapping with NTR/NESDA			SNPs overlapping between all three samples
P-value threshold	RADIANT	ATM (all)	ATM (exMDD)	RADIANT	ATM (all)	ATM (exMDD)
0.01	4,657	2,564	2,585	2,615	2,345	2,354
0.05	21,747	12,673	12,596	12,069	11,629	11,575
0.1	43,046	25,444	25,253	23,819	23,385	23,218
0.2	85,330	50,453	50,185	47,374	46,324	46,112
0.3	126,854	75,441	75,397	70,273	69,334	69,219
0.4	168,637	100,402	100,348	93,272	92,303	92,223
0.5	210,168	125,291	125,199	115,982	115,221	115,103
0.6	251,509	150,347	150,034	138,720	138,303	137,932
0.7	292,601	175,040	174,868	161,419	161,029	160,820
0.8	333,739	199,809	199,747	184,041	183,776	183,676
0.9	374,973	225,035	224,827	207,025	206,942	206,739
1.0	416,030	249,917	249,917	229,778	229,778	229,778

The number of SNPs used in the prediction analyses, for each P-value threshold. On the left the numbers for the set of SNPs in each sample that overlapped with the NTR-NESDA target sample (as used in the analyses presented in Figure 1), on the right the numbers for the set of SNPs that overlapped between all three samples (as used in the analyses presented in Figure 4).