Skip to main content

Table 3 Results for total number of born piglets using both single-marker and haplotype-based GWAS for pairs of SNPs that failed the four-gamete test

From: Failing the four-gamete test enables exact phasing: the Corners’ Algorithm

Marker

Chr

bp

p-value

Testing

Effect

SE

MARC0034119

1

96,037,981

5.589E−05

SM

0.4921

0.1137

H3GA0002409

1

99,193,570

1.763E−04

SM

0.4490

0.1142

ASGA0011539

2

118,870,830–118,954,474

7.739E−05

CA

− 0.4590

0.1121

ALGA0103532

2

119,740,603

1.333E−04

SM

− 0.4439

0.1135

ALGA0116789

2

120,068,983

1.032E−04

SM

− 0.4416

0.1110

M1GA0008168

5

101,433,702–101,553,227

9.458E−05

CA

− 0.4321

0.1163

ALGA0110616

6

118,743,309

2.494E−04

SM

− 0.7959

0.2151

MARC0015284

6

119,459,403

1.247E−04

SM

− 0.5651

0.1439

ALGA0115834

6

131,595,818

1.505E−04

SM

0.4338

0.1118

ASGA0084474

6

169,350,462

3.009E−05

SM

1.3460

0.3023

ASGA0103251

9

17,185,238

1.376E−04

SM

− 0.4464

0.1142

ALGA0056412

10

2,642,492–2,657,144

1.634E−04

CA

− 0.6948

0.1806

ALGA0056570

10

5,163,941–5,260,384

8.598E−05

CA

− 0.7179

0.1778

ALGA0057882

10

23,123,837–23,405,449

3.869E−05

CA

− 0.4405

0.1030

ALGA0057882

10

23,123,837

1.892E−04

SM

− 0.4450

0.1169

MARC0093994

10

30,260,928–30,266,906

4.729E−05

CA

− 0.5570

0.1317

ASGA0047467

10

30,266,906–30,272,819

5.159E−05

CA

− 0.5570

0.1317

H3GA0029862

10

31,578,551

4.299E−05

SM

1.0100

0.2372

ASGA0047534

10

32,325,187

8.598E−06

SM

0.6067

0.1311

ASGA0047532

10

32,344,042

1.290E−05

SM

0.6067

0.1311

ASGA0047525

10

32,388,874

1.720E−05

SM

0.6067

0.1311

ASGA0047536

10

32,412,425

2.150E−05

SM

0.6067

0.1311

ASGA0047539

10

32,555,752–32,773,702

2.580E−05

CA

0.4692

0.1051

ALGA0058366

10

33,529,890

3.439E−05

SM

1.1120

0.2505

H3GA0053630

12

12,159,636

2.537E−04

SM

− 0.4482

0.1213

ALGA0067033

12

53,995,960

6.879E−05

SM

0.7064

0.1717

ALGA0067501

13

3,303,385

2.451E−04

SM

0.4340

0.1171

H3GA0037751

13

183,709,477

1.591E−04

SM

0.5516

0.1427

DRGA0013310

13

184,605,970

9.888E−05

SM

0.4426

0.1112

MARC0074099

13

184,896,466

6.449E−05

SM

0.4555

0.1102

MARC0039126

13

185,040,748–185,091,416

1.118E−04

CA

0.4354

0.1101

DRGA0013313

13

185,091,416–185,104,190

1.161E−04

CA

0.4354

0.1101

H3GA0037767

13

185,117,846

1.075E−04

SM

0.4388

0.1104

ASGA0091260

13

186,691,208–186,881,141

7.309E−05

CA

0.4549

0.1109

ALGA0073854

13

201,283,008

1.548E−04

SM

− 0.4747

0.1226

ASGA0062133

14

23,611,137

1.849E−04

SM

− 0.4032

0.1055

DRGA0013731

14

23,697,212–23,832,386

1.935E−04

CA

0.4015

0.1057

ASGA0062259

14

24,043,070

1.978E−04

SM

− 0.4000

0.1060

ASGA0091187

15

128,346,116

1.806E−04

SM

− 0.4183

0.1091

ALGA0087783

15

128,700,470–128,729,028

8.169E−05

CA

− 0.4568

0.1121

MARC0005573

15

129,888,085–130,020,573

1.720E−04

CA

− 0.4458

0.1162

ASGA0091472

15

130,020,573

1.419E−04

SM

− 0.4647

0.1194

SIRI0001312

15

130,037,634

1.462E−04

SM

− 0.4647

0.1194

ASGA0071359

15

131,451,971

1.677E−04

SM

− 0.4215

0.1097

M1GA0020537

15

131,460,883

1.290E−04

SM

− 0.4166

0.1062

ASGA0071383

15

131,638,959

1.204E−04

SM

− 0.4192

0.1068

MARC0019451

18

4,851,570

9.028E−05

SM

− 0.4272

0.1062

ALGA0097920

18

34,356,507–34,392,294

6.019E−05

CA

0.4118

0.1613

  1. Marker: marker name for single marker GWAS or name of first SNP for haplotype-based GWAS; Chr: chromosome; bp: base pair positions; p-value: Benjamini–Hochberg adjusted p-values; Testing: type of testing of haplotype (SM for single-marker GWAS; CA for haplotype-based GWAS using the Corner’s Algorithm for the third haplotype); Effect: effect of haplotype; SE: standard error of the estimate of Effect
Back to article page

Genetics Selection Evolution

ISSN: 1297-9686