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Table 4 Parameter settings of simulated data for Case 1

From: Large-scale multiple testing in genome-wide association studies via region-specific hidden Markov models

Chromosome

Region

Transition matrix

z-value distribution

z-value distribution

(c)

(r)

 

(Null)

(Non-null)

1

1

0.98 0.02 0.03 0.97

N(0,1)

N( μ 11 ( 1 ) ,1)

 

2

0.98 0.02 0.03 + Ï… 1 0.97 - Ï… 1

N(0,1)

N( μ 21 ( 1 ) = μ 11 ( 1 ) +1.5,1)

2

1

0.98 0.02 0.05 0.95

N(0,1)

N( μ 11 ( 2 ) = μ 11 ( 1 ) +0.5,1)

 

2

0.98 0.02 0.05 + Ï… 1 0.95 - Ï… 1

N(0,1)

N( μ 21 ( 2 ) = μ 11 ( 2 ) +2.0,1)