Model
|
Sample size
|
Number of SNPs
|
Number of Interactions
|
MAF
|
K
p
|
h
2
|
---|
Set 1A: Comparison of KWII to MDRa
|
---|
1-GH
| | |
2
|
0.5
|
0.05
|
0.013
|
2-GH
| | | | |
0.025
| |
3-GH
|
400
|
10
|
2
|
0.25
|
0.06
|
0.007
|
3
| | |
1
| | |
0.03
|
4-GH
| | |
2
|
0.1
|
0.025
|
0.003
|
4
| | |
1
| | |
0.012
|
Set 1B: Comparison of KWII to RPM
b
|
5A
| | | | |
0.3
|
0.62
|
5B
| | | | | |
0.3
|
5C
| | | | | |
0.15
|
6A
| | | | |
0.1
|
0.22
|
6B
|
200
|
7
|
1
|
0.5
| |
0.11
|
6C
| | | | | |
0.056
|
7A
| | | | |
0.01
|
0.02
|
7B
| | | | | |
0.01
|
7C
| | | | | |
0.005
|
Set 2: Comparison of KWII to MDR, RPM, and Logistic Regression Approaches
c
|
1-GH and 7C
|
600, 1200 & 2400
|
10
|
3
|
0.5
|
0.037
|
0.013
|
Set 3: GAW15 Problem 2
d
|
1-GH
|
2400
|
865
|
2
|
0.5
|
0.05
|
0.013
|
2-GH
| | | | |
0.025
| |
3-GH
| |
865
|
2
|
0.25
|
0.06
|
0.007
|
3
| | |
1
| | |
0.03
|
4-GH
| |
865
|
2
|
0.1
|
0.025
|
0.003
|
4
| | |
1
| | |
0.012
|
- GH: Genetic Heterogenity; K
p
= population prevalence; h2 = Broad sense heritability;
- a Penetrance is modeled as in Table 2 [16]
- b Penetrance is modeled as in Table 3 [2]
- c Kp values for Interactions 1 and 2 are each 0.05 (penetrance table from Model 1-GH from [16]) and for interaction 3 Kp is 0.01 (penetrance table from Model 7C from [2])
- d[27]