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Table 3 Empirical type I error rates and powers for each method from 1000 replicates at significance level 0.05 when the sample sizes are 1000 for cases and controls and HWE holds for controls with major allele is the disease allele and MAF equals 0.3

From: A new association test based on disease allele selection for case–control genome-wide association studies

Λ 1 Λ 2

(1,1)

(1, 1.4) RM*

(1.1, 1.4)

(1.2, 1.4) AM*

(1.3, 1.4)

(1.4, 1.4) DM*

(1.5,1.4) ODM*

(0.9, 1.4) UDM*

ChiSQ

0.046

0.538

0.496

0.615

0.805

0.933

0.988

0.752

MAX3

0.048

0.552

0.547

0.662

0.831

0.948

0.987

0.676

GMS

0.05

0.547

0.536

0.648

0.827

0.933

0.986

0.681

CATT

0.048

0.375

0.555

0.716

0.854

0.926

0.963

0.195

MERT

0.042

0.45

0.587

0.685

0.811

0.853

0.911

0.324

GGM

0.052

0.523

0.55

0.682

0.839

0.944

0.987

0.614

New

0.050

0.526

0.551

0.678

0.839

0.942

0.971

0.602

  1. *RM: Recessive Model; AM: Additive Model; DM: Dominant Model; ODM: Over-dominant Model; UDM: Under-dominant Model.