Table 2.

Datasets investigated

Dataset	Model	# SNPs	#Patients$	Ratio Control/Case	FP [%]	FN [%]
1	A	500	300	2	5	5
2	A	1500	300	2	5	5
3	A	3000	300	2	5	5
4	A	500	600	2	5	5
5	A	1500	600	2	5	5
6	A	3000	600	2	5	5
7	A	500	300	2	10	10
8	A	1500	300	2	10	10
9	A	3000	300	2	10	10
10	A	500	600	2	10	10
11	A	1500	600	2	10	10
12	A	3000	600	2	10	10
13	A	500	300	2	20	20
14	A	1500	300	2	20	20
15	A	3000	300	2	20	20
16	A	500	600	2	20	20
17	A	1500	600	2	20	20
18	A	3000	600	2	20	20
19	B	500	150+150	2	5	5
20	B	1500	150+150	2	5	5
21	B	3000	150+150	2	5	5
22	B	500	300+300	2	5	5
23	B	1500	300+300	2	5	5
24	B	3000	300+300	2	5	5
25	B	500	150+150	2	10	10
26	B	1500	150+150	2	10	10
27	B	3000	150+150	2	10	10
28	B	500	300+300	2	10	10
29	B	1500	300+300	2	10	10
30	B	3000	300+300	2	10	10
31	B	500	150+150	2	20	20
32	B	1500	150+150	2	20	20
33	B	3000	150+150	2	20	20
34	B	500	300+300	2	20	20
35	B	1500	300+300	2	20	20
36	B	3000	300+300	2	20	20
37	C	500	300	2	n.a.	n.a.
38	C	1500	300	2	n.a.	n.a.
39	C	3000	300	2	n.a.	n.a.
40	C	500	600	2	n.a.	n.a.
41	C	1500	600	2	n.a.	n.a.
42	C	3000	600	2	n.a.	n.a.

^$ For case rule A patients are equally distributed for the 4 case rules; for case rule B the first number indicates the number for rule 1, the second number for rule 2; n.a: not applicable.