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Table 2 The significance levels suggested by BH, repfdr and repLIS

From: Replicability analysis in genome-wide association studies via Cartesian hidden Markov models

Sequence

States

Maximum

repfdr

repLIS

BH

repfdr

repLIS

  

p-values

values

values

procedure

procedure

procedure

1027

1.94e-1

5.48e-1

1.67e-1

1028

4.19e-3

4.59e-2

8.78e-3

1029

3.95e-2

2.28e-1

5.80e-2

1030

1.13e-1

3.79e-1

8.89e-2

1031

3.51e-3

2.88e-2

1.89e-2

7305

1.47e-3

2.21e-2

3.48e-3

7306

1.85e-2

2.16e-1

4.34e-2

7307

4.56e-2

2.07e-1

5.88e-2

7308

1.10e-1

3.73e-1

9.81e-2

7309

3.01e-2

3.35e-1

6.96e-2

7310

3.04e-4

8.18e-3

1.04e-2

  1. ’ denotes a null hypothesis or an acceptance and ’ ∙’ denotes a non-null hypothesis or a rejection. By exploiting the dependence information among adjacent SNPs, repLIS procedure tends to select disease-associated SNPs in clusters