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Table 4 Twenty genes with largest fold-change in expression that were also differentially methylated at one or more CpG site before versus after differentiation in obese

From: Abnormal epigenetic changes during differentiation of human skeletal muscle stem cells from obese subjects

Expression

DNA methylation (%)

IlluminaID

Gene symbol

Myoblasts

Myotubes

Ratio

q value

Probe ID

Gene region

Myoblasts

Myotubes

Difference

q value

Downregulated

6840609

CGB1

1937.2 ± 3035.4

29.6 ± 10.0

0.02

0.0018

cg19220091

TSS1500

62.2 ± 1.8

59.7 ± 2.5

−2.5

0.011

cg03671148

TSS1500

56.3 ± 2.2

54.5 ± 1.8

−1.8

0.032

cg02355049

5′UTR;1stExon

36.9 ± 5.3

38.5 ± 6.2

1.6

0.044

cg21042333

3′UTR

74.3 ± 5.4

71.5 ± 5.7

−2.8

0.0037

3710161

LHB

674.2 ± 1463.7

15.5 ± 6.1

0.02

0.0018

cg06452915

TSS1500

8.5 ± 1.4

11.3 ± 1.9

2.8

0.0029

cg20173259

TSS1500

10.7 ± 1.9

14.3 ± 3.0

3.6

0.0029

cg15504677

TSS1500

4.8 ± 0.4

4.4 ± 0.6

−0.4

0.023

130093

MT1H

1188.9 ± 1430.9

23.0 ± 9.7

0.02

0.0018

cg01507019

TSS1500

87.0 ± 4.3

85.5 ± 5.2

−1.5

0.037

cg10014293

Body

32.3 ± 6.2

35.2 ± 6.3

2.9

0.037

cg26937772

3′UTR

28.2 ± 14.2

34.9 ± 13.9

6.6

0.0029

1170300

MT1G

5699.4 ± 4458.8

183.9 ± 69.6

0.03

0.0018

cg01507019

TSS1500

87.0 ± 4.3

85.5 ± 5.2

−1.5

0.037

cg07602841

TSS200

15.6 ± 3.7

19.6 ± 3.6

3.9

0.0037

cg07791866

TSS200

9.2 ± 4.5

10.4 ± 5.1

1.1

0.0087

cg02803037

TSS200

10.3 ± 5.6

11.9 ± 7.1

1.6

0.037

cg16452857

TSS200

11.5 ± 2.7

10.5 ± 2.6

−1.1

0.037

4200372

CGB5

484.7 ± 969.2

17.6 ± 7.8

0.04

0.0018

cg04403474

TSS1500

14.6 ± 3.8

18.7 ± 5.8

4.1

0.0037

cg24908058

5′UTR;1stExon

47.4 ± 6.3

49.1 ± 6.2

1.7

0.0044

cg17497187

Body

68.6 ± 2.9

66.0 ± 2.9

−2.6

0.0070

670386

ID1

3065.6 ± 892.7

111.8 ± 80.4

0.04

0.0018

cg24056028

TSS1500

5.9 ± 0.7

7.1 ± 1.1

1.2

0.0087

cg11815991

5′UTR;1stExon

6.4 ± 0.9

8.7 ± 0.9

2.3

0.0029

cg27562717

5′UTR;1stExon

6.5 ± 0.8

8.3 ± 0.8

1.9

0.0029

cg03154513

1stExon

6.6 ± 0.7

7.6 ± 0.9

1.0

0.032

1400634

MT1M

1632.7 ± 1996.4

73.5 ± 35.3

0.05

0.0018

cg05581701

TSS1500

14.6 ± 3.5

15.7 ± 3.6

1.2

0.032

cg10638827

TSS1500

21.1 ± 2.8

24.7 ± 4.5

3.6

0.037

cg02160530

TSS200

8.2 ± 0.9

10.4 ± 1.8

2.2

0.0044

cg04994964

5′UTR;1stExon

12.8 ± 1.4

14.4 ± 2.2

1.7

0.032

cg04523867

Body

57.5 ± 7.1

60.3 ± 6.0

2.7

0.044

4880609

DKK1

645.4 ± 526.5

61.6 ± 55.1

0.1

0.0018

cg25158147

TSS1500

13.9 ± 3.8

15.7 ± 3.2

1.8

0.032

cg02162906

TSS1500

12.5 ± 1.8

14.1 ± 1.5

1.7

0.037

cg02493604

TSS1500

11.3 ± 2.7

13.7 ± 3.7

2.4

0.037

cg12621514

TSS1500

25.9 ± 7.7

32.1 ± 8.0

6.2

0.0029

cg02302582

TSS1500

14.5 ± 2.1

17.4 ± 2.0

2.9

0.0044

cg11988964

TSS1500

13.4 ± 2.5

16.6 ± 2.1

3.1

0.013

cg25454948

TSS1500

11.7 ± 1.3

13.7 ± 1.3

2.0

0.013

cg11931116

5′UTR;1stExon

12.8 ± 1.0

14.1 ± 0.9

1.3

0.016

cg07684796

1stExon

7.0 ± 0.7

8.4 ± 1.4

1.4

0.023

cg25751172

Body

16.4 ± 8.9

20.3 ± 9.9

3.9

0.0037

cg01160882

Body

14.5 ± 4.5

17.3 ± 5.8

2.8

0.0058

cg18956393

Body

8.2 ± 1.5

10.4 ± 3.3

2.2

0.0058

2140682

MT1E

263.1 ± 228.6

21.1 ± 6.6

0.1

0.0018

cg15134649

TSS1500

5.7 ± 0.9

6.5 ± 0.8

0.8

0.044

cg07912888

TSS1500

26.4 ± 9.1

29.6 ± 10.3

3.2

0.011

cg00178359

TSS200

22.6 ± 3.6

24.4 ± 3.4

1.8

0.027

cg05743734

5′UTR;1stExon

5.9 ± 0.6

7.0 ± 0.9

1.1

0.0070

cg20083730

5′UTR;1stExon

5.4 ± 0.7

6.3 ± 0.6

0.9

0.0087

cg06463589

5′UTR;1stExon

5.0 ± 0.4

5.7 ± 1.0

0.7

0.016

cg04793813

Body

6.7 ± 0.5

7.5 ± 0.8

0.8

0.032

2480452

MYF5

2049.5 ± 1210.7

213.3 ± 113.5

0.1

0.0018

cg04524478

TSS1500

31.2 ± 12.8

42.7 ± 11.6

11.5

0.0029

cg10513852

TSS1500

19.0 ± 5.2

26.8 ± 10.9

7.8

0.0029

cg14952949

TSS1500

16.4 ± 6.9

24.8 ± 10.2

8.4

0.0037

cg14067873

TSS200

24.4 ± 5.2

30.3 ± 7.5

6.0

0.011

cg26207503

5′UTR;1stExon

20.5 ± 7.0

27.5 ± 7.2

7.0

0.0029

cg06376520

5′UTR;1stExon

22.4 ± 3.8

26.8 ± 6.0

4.4

0.013

cg26998717

1stExon

12.5 ± 3.6

17.2 ± 3.5

4.8

0.0029

cg21126707

1stExon

21.2 ± 8.9

28.7 ± 9.9

7.4

0.0044

cg10868277

Body

21.4 ± 14.8

28.8 ± 15.3

7.5

0.0037

Upregulated

1030431

ACSL1

204.5 ± 50.9

604.5 ± 165.3

3.0

0.0018

cg21390575

TSS1500

10.2 ± 2.3

12.3 ± 3.2

2.0

0.0029

cg24170415

TSS1500

9.3 ± 1.1

11.5 ± 1.4

2.2

0.0029

cg19487718

TSS1500

9.3 ± 2.3

11.0 ± 2.9

1.7

0.0070

cg23684603

TSS200

9.5 ± 1.4

11.0 ± 1.9

1.5

0.044

cg07619799

TSS200

6.7 ± 1.3

8.6 ± 1.2

1.9

0.0070

cg07730946

5′UTR

73.8 ± 2.5

71.5 ± 3.2

−2.3

0.019

cg11168687

5′UTR

39.2 ± 9.9

44.8 ± 8.9

5.7

0.019

cg20823481

5′UTR

10.7 ± 1.9

13.1 ± 3.5

2.3

0.019

cg20410192

5′UTR

7.1 ± 0.9

8.5 ± 1.0

1.5

0.032

cg24721647

5′UTR

23.0 ± 16.2

28.7 ± 14.2

5.7

0.032

cg00287477

Body

17.4 ± 5.4

22.7 ± 7.8

5.3

0.013

cg03498175

Body

93.8 ± 1.3

92.6 ± 1.2

−1.2

0.019

cg03422749

3′UTR

18.5 ± 3.7

23.1 ± 5.2

4.6

0.0044

7550301

SLC8A3

59.3 ± 23.1

250.8 ± 177.0

4.2

0.0018

cg13550670

TSS1500;Body

24.2 ± 8.1

28.4 ± 9.5

4.2

0.0058

cg26033932

TSS1500;Body

40.7 ± 6.1

45.0 ± 8.2

4.3

0.0058

cg21512124

TSS200

14.7 ± 1.6

16.6 ± 1.9

1.9

0.0087

cg14174099

TSS200

5.5 ± 0.6

6.1 ± 0.7

0.5

0.037

cg22823236

5′UTR

75.1 ± 6.1

68.9 ± 7.3

−6.3

0.0087

cg00890485

5′UTR

12.6 ± 2.1

13.7 ± 1.8

1.1

0.044

cg18296189

Body

10.1 ± 2.1

12.8 ± 2.9

2.7

0.011

cg15823642

Body

33.0 ± 10.3

36.0 ± 9.7

3.0

0.0058

6840056

MYL6B

2410.8 ± 764.6

10375.0 ± 3226.6

4.3

0.0018

cg25012219

TSS1500

8.3 ± 1.1

9.9 ± 1.4

1.6

0.0070

cg16017677

TSS1500;3′UTR

7.2 ± 1.0

8.9 ± 1.4

1.7

0.0029

cg06400595

TSS1500;3′UTR

5.0 ± 0.7

5.7 ± 0.8

0.6

0.019

cg27207452

TSS1500;3′UTR

6.9 ± 0.8

7.8 ± 1.0

0.9

0.023

cg18176406

TSS200

7.5 ± 0.9

9.3 ± 1.0

1.8

0.0029

cg20376421

TSS200

9.3 ± 2.5

11.4 ± 2.6

2.1

0.0029

cg23309825

5′UTR

6.9 ± 0.7

8.4 ± 1.5

1.5

0.011

cg25954162

5′UTR

10.9 ± 2.5

12.6 ± 3.9

1.7

0.027

1500349

MYH6

32.5 ± 18.7

467.9 ± 424.2

14.4

0.0018

cg26270038

TSS1500

55.4 ± 7.7

49.8 ± 6.3

−5.6

0.0044

cg26083141

TSS1500

78.2 ± 5.5

75.6 ± 4.2

−2.6

0.013

cg16803085

Body

83.6 ± 9.3

81.4 ± 8.8

−2.2

0.032

cg21051473

Body

63.6 ± 8.2

61.0 ± 8.7

−2.6

0.037

cg10949499

Body

64.1 ± 6.4

59.9 ± 5.9

−4.3

0.0044

cg01593969

3′UTR

19.0 ± 10.2

22.2 ± 10.5

3.2

0.011

1010093

SMPX

26.6 ± 13.8

433.5 ± 274.3

16.3

0.0018

cg04489366

TSS1500

44.3 ± 16.3

49.5 ± 15.8

5.2

0.0087

cg13118590

TSS1500

79.5 ± 6.7

75.9 ± 9.6

−3.5

0.027

cg16168153

TSS200

73.2 ± 7.3

70.4 ± 8.6

−2.8

0.013

cg00855923

TSS200

63.6 ± 12.5

58.6 ± 12.6

−5.0

0.019

7610451

MYH2

46.0 ± 39.8

1113.7 ± 1154.5

24.2

0.0018

cg18432105

TSS1500

75.6 ± 10.6

68.1 ± 11.9

−7.5

0.0029

cg27569752

TSS200;5′UTR;1stExon

20.9 ± 8.4

24.8 ± 8.6

3.9

0.0070

cg06220958

5′UTR

15.9 ± 4.5

19.5 ± 7.0

3.6

0.011

cg07416502

Body

81.4 ± 4.6

77.6 ± 5.3

−3.9

0.011

4730435

MYL1

208.3 ± 316.3

5624.2 ± 4526.8

27.0

0.0018

cg27305342

TSS1500;Body

76.8 ± 9.5

73.4 ± 9.1

−3.4

0.027

cg21468315

TSS200

74.8 ± 7.5

70.3 ± 8.0

−4.5

0.016

cg10727812

1stExon

86.5 ± 6.6

83.5 ± 4.2

−3.0

0.037

cg11059341

Body

72.4 ± 8.4

67.6 ± 6.5

−4.8

0.044

1070541

MYH3

373.1 ± 523.9

10804.2 ± 3658.5

29.0

0.0018

cg11887833

TSS1500

88.9 ± 7.5

85.7 ± 7.5

−3.1

0.0029

cg22108292

TSS1500

74.0 ± 9.4

67.2 ± 10.5

−6.8

0.0070

cg06891639

TSS1500

63.2 ± 9.6

57.7 ± 8.3

−5.5

0.016

cg17944891

TSS1500

69.8 ± 6.7

64.2 ± 8.1

−5.5

0.016

cg21430748

Body

76.3 ± 4.8

73.6 ± 5.2

−2.8

0.0070

6900360

MYH7

92.3 ± 128.0

4031.0 ± 2324.9

43.7

0.0018

cg26670875

TSS1500

27.7 ± 7.2

33.6 ± 5.8

5.9

0.0044

cg01203550

TSS200

19.6 ± 9.1

22.1 ± 9.3

2.5

0.011

cg08240074

5′UTR

73.3 ± 10.2

67.1 ± 10.0

−6.2

0.0037

cg14030388

Body

81.9 ± 3.6

78.9 ± 3.4

−2.9

0.0058

cg23123918

Body

77.0 ± 6.1

73.9 ± 6.0

−3.1

0.0087

cg22963791

Body

9.7 ± 1.2

11.4 ± 2.1

1.7

0.011

cg08209104

Body

45.6 ± 6.4

43.4 ± 6.9

−2.2

0.013

cg21176875

Body

74.0 ± 7.2

70.5 ± 6.3

−3.5

0.013

cg13785779

Body

53.8 ± 9.8

50.3 ± 9.8

−3.5

0.027

cg21242212

Body

60.1 ± 8.5

57.9 ± 7.4

−2.2

0.037

3610402

SLN

28.0 ± 13.3

2635.2 ± 3930.7

94.1

0.0018

cg09773458

TSS1500

26.4 ± 8.7

35.2 ± 11.1

8.7

0.0070

cg05929864

TSS1500

35.8 ± 8.0

42.8 ± 6.4

7.0

0.0087

cg17971003

TSS200

43.0 ± 12.1

49.1 ± 11.3

6.2

0.0087

cg16476427

TSS200

16.5 ± 7.2

22.6 ± 10.4

6.0

0.011

cg24307368

TSS200

9.7 ± 1.9

12.7 ± 5.0

3.0

0.016

cg11117131

TSS200

23.3 ± 6.5

27.7 ± 8.5

4.3

0.032

cg12237269

5′UTR;1stExon

82.9 ± 3.8

84.2 ± 4.0

1.3

0.037

  1. Data are presented as mean ± SD