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Table 4 Total number of genes with SNPs (after QC) and number of genes with SNPs at p < α

From: Exome localization of complex disease association signals

   

observed

95% confidence interval

  

Total

p < 0.1

p < 0.01

p < 0.001

p < 0.1

p < 0.01

p < 0.001

 

CD

16,381

6,941

1,306

222

6,712-7007

1192-1367

131-188

 

T1D

16,387

7,108

1,547

389

6,709-7004

1191-1366

131-188

 

T1D-MHC

16,206

6,945

1,400

254

6658-6952

1184-1358

130-187

Gene

T2D

16,375

7,002

1,289

172

6702-6999

1189-1364

130-188

± 100 kb

RA

16,381

7,064

1,493

281

6708-7003

1190-1366

131-188

 

RA-MHC

16,203

6,933

1,400

203

6658-6952

1184-1359

130-187

 

HT

16,382

7,057

1,328

191

6707-7003

1191-1366

130-188

 

CAD

16,377

6,993

1,267

173

6704-7002

1191-1365

130-188

 

BD

16,377

7,019

1,352

187

6699-6995

1188-1363

130-188

 

CD

2,264

291

33

11

234-296

17-38

0-6

 

T1D

2,263

316

61

24

234-296

17-38

0-6

 

T1D-MHC

2,236

295

41

8

232-293

17-38

0-6

 

T2D

2,259

263

30

1

234-294

17-38

0-6

Exon

RA

2,265

293

38

12

235-296

17-38

0-6

 

RA-MHC

2,238

278

28

4

232-293

17-38

0-6

 

HT

2,265

300

31

3

234-295

17-38

0-6

 

CAD

2,260

296

34

5

234-294

17-38

0-6

 

BD

2,258

281

46

2

233-294

17-38

0-6

  1. Numbers are derived for all seven diseases and for T1D and RA after removal of the MHC region (T1D-MHC and RA-MHC). We consider SNPs that are located within less then 100 kb of a gene and SNPs that are only located within an exon. We derived 95% confidence intervals for the number of genes with p < α based on 100,000 permutations of the disease status.
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BMC Genomics

ISSN: 1471-2164

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