Table 5

Power for all tests in simulated data of scenario E, weak common SNPs effect, effects of RVs are in the different directions.

OR

1.3

1.6

1.9

2.2

2.5

2.8

3.1


Rind

0.045

0.077

0.068

0.103

0.115

0.12

0.157


Rsum

0.054

0.074

0.062

0.091

0.109

0.126

0.154


Cbon

0.156

0.131

0.155

0.139

0.186

0.149

0.146


Clogit

0.211

0.185

0.214

0.192

0.221

0.211

0.19


Bind

0.2

0.184

0.2

0.198

0.244

0.225

0.233


Bsum

0.19

0.182

0.2

0.197

0.243

0.226

0.229


<a onClick="popup('http://www.biomedcentral.com/1471-2156/13/7/mathml/M81','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/7/mathml/M81">View MathML</a>

0.068

0.122

0.176

0.241

0.27

0.359

0.387


<a onClick="popup('http://www.biomedcentral.com/1471-2156/13/7/mathml/M82','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/7/mathml/M82">View MathML</a>

0.094

0.119

0.193

0.254

0.273

0.371

0.39


BwSum

0.1

0.114

0.164

0.172

0.193

0.236

0.272


BwOR

0.201

0.245

0.26

0.311

0.334

0.398

0.405


BKML

0.169

0.167

0.186

0.159

0.197

0.173

0.171


BSSU

0.166

0.161

0.175

0.153

0.189

0.167

0.163


BSSUw

0.146

0.169

0.241

0.306

0.395

0.445

0.521


BaSSU

0.139

0.148

0.196

0.185

0.212

0.256

0.255


BaSSUw

0.183

0.196

0.233

0.302

0.354

0.459

0.476


BaSSUOrd

0.127

0.164

0.213

0.276

0.334

0.45

0.5


BaSSUwOrd

0.224

0.206

0.293

0.386

0.449

0.571

0.593


BwSC

0.133

0.182

0.256

0.332

0.357

0.479

0.48


BwSCd

0.19

0.217

0.308

0.386

0.468

0.568

0.548


There is a customized LD structure among common variants and among rare variants. The OR for underlying common SNP is 1.5. Randomly selected eight rare variants are causal variants. Others are non-causal variants. Genetic effect parameters OR for eight rare variants are listed in the table. Odds Ratios for half of rare variants are in different directions. If OR is 2, <a onClick="popup('http://www.biomedcentral.com/1471-2156/13/7/mathml/M83','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/7/mathml/M83">View MathML</a> for eight casual rare variants. Notations of tests are defined similarly as those in Table 1.

Dai et al. BMC Genetics 2012 13:7   doi:10.1186/1471-2156-13-7

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