Table 1 Penetrance Tables for 2-way interactions. Penetrance tables of nine different models with 2-way interactions. SNP1 has three genotypes AA, Aa, aa and SNP2 has three different genotypes BB, Bb, bb. Each cell of a penetrance table represents the probability of being affected given the cell genotype.

aa

0

0

0

aa

0

0

.4

aa

0

0

.5

Aa

0

0

.6

Aa

0

0

.4

Aa

0

0

.5

AA

0

.6

.6

AA

.4

.4

0

AA

.5

.5

1

Model 4

Model 5

Model 6

bb

Bb

BB

bb

Bb

BB

bb

Bb

BB

aa

.1

.1

.2

aa

.1

.1

.2

aa

.1

.1

.2

Aa

.1

.1

.2

Aa

.1

.1

.2

Aa

.1

.1

.2

AA

.2

.2

.36

AA

.2

.2

.8

AA

.2

.2

.1

Model 7

Model 8

Model 9

bb

Bb

BB

bb

Bb

BB

bb

Bb

BB

aa

.12

.12

.27

aa

.12

.27

.12

aa

.36

.36

.36

Aa

.12

.12

.27

Aa

.27

.12

.27

Aa

.36

.60

.60

AA

.27

.27

.12

AA

.12

.27

.12

AA

.36

.60

.36