Table 5 Detailed information on the nearest and most significant SNPs from previous GWAS to the 31 differentially expressed genes between the mammary gland of two cows with high milk protein and fat percentage and two cows with low protein and fat percentage

Chr29: 26668046–26671801

49.5 Kb

ARS-BFGL-NGS-24998

26721324

PP

2.96E-08

Cole et al., BMC Genomics, 2011 [8]

4.2 Mb

UA-IFASA-8605

30901735

FP, PP

4.90E-13, 1.50E-16

Chr20: 33455667–33528569

23.2 Kb

ARS-BFGL-BAC-2469

33433160

PP

1.21E-08

Jiang et al., Plos One, 2010 [6]

2.6 Mb

rs41640170

36097136

PP

1E-6.88

Schopen et al., J Dairy Sci, 2011 [9]

Chr13: 61176217–61187210

2.1 Mb

BFGL-NGS-119420

59101909

FP, PP

1.14E-21, 3.49E-18

Cole et al., BMC Genomics, 2011 [8]

9.3 Mb

rs29021058

70524323

PP

0.0018

Kolbehdari et al., J Anim Breed Genet, 2009 [5]

Chr2: 125698159–125714128

2.0 Mb

ARS-BFGL-NGS-69013

123717269

FP, PP

1.46E-11, 3.26E-09

Cole et al., BMC Genomics, 2011 [8]

2.7 Mb

BTA-31250-no-rs

128437731

FP, PP

3.75E-10, 1.26E-24

Chr10: 36598393–36600764

0.16 Mb

Hapmap53714-rs29017586

36758715

FP, PP

9.84E-07, 6.64E-12

Cole et al., BMC Genomics, 2011 [8]

Chr5: 27977006–27992869

0.99 Mb

ARS-BFGL-NGS-5790

26986116

FP, PP

3.26E-14, 9.43E-28

Cole et al., BMC Genomics, 2011 [8]

Chr29: 26693328–26696498

24.8 Kb

ARS-BFGL-NGS-24998

26721324

PP

2.96E-08

Cole et al., BMC Genomics, 2011 [8]

4.2 Mb

UA-IFASA-8605

30901735

FP, PP

4.90E-13, 1.50E-16

Chr16: 72820025–72832974

1.9 Mb

ARS-BFGL-NGS-70836

74741746

PP

3.58E-07

Cole et al., BMC Genomics, 2011 [8]

3.3 Mb

ARS-BFGL-NGS-85980

76091078

FP, PP

6.46E-07, 8.33E-09

Chr11: 21526905–21574655

0.5 Mb

ARS-BFGL-NGS-100459

22128569

PP

1.03E-24

Cole et al., BMC Genomics, 2011 [8]

4.0 Mb

BTB-01766447

17484533

FP, PP

4.51E-18, 8.90E-11

Chr18: 34733117–34743031

0.75 Mb

ARS-BFGL-NGS-107749

33986486

FP, PP

2.54E-13, 3.55E-18

Cole et al., BMC Genomics, 2011 [8]

Chr23: 17255946–17269998

2.9 Mb

ARS-BFGL-NGS-29490

20166517

FP, PP

4.05E-20, 2.32E-26

Cole et al., BMC Genomics, 2011 [8]

1.8 Mb

rs29016156

15422973

PP

0.00099

Kolbehdari et al., J Anim Breed Genet, 2009 [5]

0.19 Mb

rs41640789

17061460

FP

0.00012

Kolbehdari et al., J Anim Breed Genet, 2009 [5]

Chr23: 25375269–25388620

4.9 Mb

ARS-BFGL-NGS-72191

30279220

FP, PP

8.46E-17, 1.09E-28

Cole et al., BMC Genomics, 2011 [8]

Chr9: 94882343–95271883

0.37 Mb

ARS-BFGL-NGS-81082

94511747

FP, PP

3.00E-11, 2.37E-08

Cole et al., BMC Genomics, 2011 [8]

Chr5: 82246521–82258858

1.5 Mb

Hapmap51303-BTA-74377

83790390

FP

1.20E-06

Jiang et al., Plos One, 2010 [6]

0.63 Mb

ARS-BFGL-NGS-29557

81612132

FP, PP

2.97E-13, 5.97E-25

Cole et al., BMC Genomics, 2011 [8]

6.2 Mb

rs41590827

76049666

PP

0.00013

Kolbehdari et al., J Anim Breed Genet, 2009 [5]

9.9 Mb

rs41569048

92162494

PP

1E-4.72

Schopen et al., J Dairy Sci, 2011 [9]

Chr23: 31665561–31667068

1.4 Mb

ARS-BFGL-NGS-72191

30279220

FP, PP

8.46E-17, 1.09E-28

Cole et al., BMC Genomics, 2011 [8]

Chr16: 72811910–72814133

2.5 Mb

ARS-BFGL-NGS-85980

76091078

FP, PP

6.46E-07, 8.33E-09

Cole et al., BMC Genomics, 2011 [8]

Chr10: 10945424–10999244

0.90 Mb

BTB-00411816

11899342

FP, PP

2.71E-14, 3.45E-25

Cole et al., BMC Genomics, 2011 [8]

Chr5: 56285007–56307931

0.46 Mb

ARS-BFGL-NGS-14781

56766165

FP

5.54E-10

Cole et al., BMC Genomics, 2011 [8]

Chr29: 26755567–26759547

34.2 Kb

ARS-BFGL-NGS-24998

26721324

PP

2.96E-08

Cole et al., BMC Genomics, 2011 [8]

4.1 Mb

UA-IFASA-8605

30901735

FP, PP

7.90E-13, 1.50E-16

Chr23: 31579046–31589230

0.95 Mb

BTA-68781-no-rs

30711619

FP, PP

1.17E-17, 6.08E-27

Cole et al., BMC Genomics, 2011 [8]

Chr7: 23480314–23513315

1.1 Mb

Hapmap49309-BTA-78604

24655689

PP

4.34E-14

Cole et al., BMC Genomics, 2011 [8]