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Table 2 Unadjusted (raw) and corrected p -values for the 25 top-ranking SNPs from the genome-wide Cochran-Mantel-Haenszel (CMH) association analysis

From: A genome-wide association study demonstrates significant genetic variation for fracture risk in Thoroughbred racehorses

CHR

SNP

BP POSN

RISK ALLELE

FREQ CASES

FREQ CONTROLS

χ2

Punadjusted

OR

SE

Pcorrected

1

BIEC2-6883

14167279

G

0.389

0.274

21.44

3.66 × 10 -6

1.99

0.153

0.044

1

BIEC2-21406

50074740

G

0.878

0.821

14.60

1.33 × 10-4

2.13

0.197

0.868

1

BIEC2-85595

176967404

T

0.781

0.696

15.75

7.24 × 10-5

1.82

0.156

0.694

3

BIEC2-792745

73658246

T

0.955

0.911

16.16

5.82 × 10-5

3.20

0.298

0.608

3

BIEC2-793836

76584425

G

0.671

0.522

17.45

2.95 × 10-5

1.82

0.145

0.389

8

BIEC2-1062740

73825113

G

0.732

0.650

15.78

7.11 × 10-5

1.84

0.154

0.689

9

BIEC2-1094991

53231490

G

0.934

0.874

19.94

7.99 × 10-6

2.88

0.250

0.126

15

BIEC2-316813

68450494

A

0.937

0.864

20.15

7.17 × 10-6

2.99

0.256

0.111

18

BIEC2-438205

62035484

C

0.257

0.157

16.88

3.98 × 10-5

2.13

0.186

0.484

18

BIEC2-416680

62049912

G

0.263

0.144

22.79

1.81 × 10 -6

2.33

0.179

0.027

18

BIEC2-416681

62054146

A

0.265

0.144

23.74

1.10 × 10 -6

2.38

0.180

0.018

18

BIEC2-438210

62054710

C

0.255

0.157

17.02

3.70 × 10-5

2.13

0.186

0.462

18

BIEC2-416683

62115222

A

0.257

0.142

20.81

5.08 × 10-6

2.26

0.181

0.074

18

BIEC2-438214

62115702

T

0.259

0.153

17.49

2.88 × 10-5

2.17

0.187

0.382

18

BIEC2-438222

62118622

T

0.249

0.151

16.02

6.25 × 10-5

2.11

0.188

0.634

18

BIEC2-438227

62120598

C

0.255

0.153

17.53

2.83 × 10-5

2.17

0.188

0.372

18

BIEC2-416704

62148769

G

0.255

0.139

21.81

3.00 × 10 -6

2.32

0.182

0.042

18

BIEC2-416766

62757935

A

0.466

0.322

15.66

7.60 × 10-5

1.77

0.144

0.710

18

BIEC2-417495

67186093

G

0.314

0.184

16.24

5.59 × 10-5

1.91

0.163

0.589

21

BIEC2-574084

57039393

G

0.865

0.778

16.19

5.72 × 10-5

2.10

0.187

0.599

22

BIEC2-595969

38591767

C

0.790

0.674

15.51

8.21 × 10-5

1.90

0.162

0.724

22

BIEC2-596079

38680459

G

0.799

0.673

18.78

1.47 × 10-5

2.04

0.165

0.213

22

BIEC2-596530

39157841

C

0.706

0.575

17.53

2.82 × 10-5

1.84

0.147

0.371

22

BIEC2-596542

39169750

C

0.710

0.575

18.10

2.10 × 10-5

1.86

0.147

0.293

22

BIEC2-596546

39170079

A

0.671

0.547

15.48

8.35 × 10-5

1.76

0.143

0.728

  1. Genome-wide significant SNPs are shown in bold text. Corrected p-values were derived using 1000 permutations.
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BMC Genomics

ISSN: 1471-2164

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