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Table 3 Twenty genes with largest fold-change in expression that were also differentially methylated at one or more CpG site before versus after differentiation in non-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

1170300

MT1G

8314.1 ± 5678.0

167.0 ± 63.3

0.02

0.0017

cg03566142

5′UTR;1stExon

13.8 ± 2.5

17.2 ± 2.6

3.4

0.033

3710161

LHB

547.1 ± 606.8

18.3 ± 9.7

0.03

0.0017

cg06452915

TSS1500

8.8 ± 0.4

12.2 ± 1.1

3.5

0.029

1400634

MT1M

2099.9 ± 1709.1

70.5 ± 33.9

0.03

0.0017

cg04994964

5′UTR;1stExon

12.7 ± 0.7

15.2 ± 1.1

2.5

0.026

4880609

DKK1

767.1 ± 567.5

73.6 ± 57.5

0.1

0.0025

cg11988964

TSS1500

13.4 ± 1.1

19.3 ± 1.7

5.9

0.026

cg02302582

TSS1500

15.8 ± 1.6

20.0 ± 1.5

4.2

0.031

cg27411220

TSS1500

11.0 ± 2.1

14.5 ± 2.8

3.5

0.033

cg02493604

TSS1500

12.6 ± 1.6

17.0 ± 2.3

4.4

0.041

cg07684796

1stExon

7.6 ± 0.4

10.3 ± 1.4

2.6

0.049

6660601

HMOX1

3277.5 ± 1728.4

209.7 ± 104.1

0.1

0.0017

cg05718255

3′UTR

17.9 ± 2.3

22.4 ± 1.9

4.5

0.049

6620528

MT1X

7739.1 ± 4215.6

624.4 ± 155.5

0.1

0.0017

cg03551406

TSS1500

32.2 ± 2.0

36.1 ± 2.3

3.9

0.026

cg03368362

TSS1500

8.0 ± 0.4

11.5 ± 1.1

3.5

0.033

cg05596720

TSS200

6.8 ± 0.3

8.6 ± 0.4

1.7

0.026

2480452

MYF5

1631.4 ± 1200.0

130.9 ± 77.6

0.1

0.0017

cg14952949

TSS1500

25.1 ± 3.2

32.8 ± 2.6

7.7

0.029

cg04524478

TSS1500

39.6 ± 4.1

50.7 ± 3.0

11.1

0.033

cg14067873

TSS200

25.7 ± 2.0

32.2 ± 2.1

6.5

0.026

cg06376520

5′UTR;1stExon

25.5 ± 2.0

29.2 ± 1.8

3.6

0.044

cg26207503

5′UTR;1stExon

25.9 ± 3.0

33.9 ± 2.5

8.0

0.049

cg21126707

1stExon

28.7 ± 4.1

36.3 ± 3.8

7.6

0.033

cg10868277

Body

29.7 ± 5.9

38.5 ± 5.6

8.8

0.035

3440095

PSG3

588.6 ± 427.3

67.6 ± 97.4

0.1

0.0017

cg07745725

TSS1500

48.9 ± 1.1

51.9 ± 1.6

2.9

0.038

cg24313473

Body

14.0 ± 0.9

17.2 ± 1.5

3.3

0.044

4480292

PSG5

429.1 ± 283.6

60.7 ± 97.9

0.1

0.0017

cg01011943

5′UTR;1stExon

37.5 ± 1.8

41.3 ± 2.0

3.8

0.026

cg01011943

5′UTR;1stExon

37.5 ± 1.8

41.3 ± 2.0

3.8

0.026

580711

SMAD6

725.9 ± 245.0

73.0 ± 39.3

0.1

0.0017

cg12216518

TSS1500;Body

20.4 ± 1.6

24.8 ± 2.0

4.4

0.035

cg17860201

5′UTR;1stExon;Body

73.1 ± 1.5

78.1 ± 1.4

5.0

0.031

cg27514333

Body

13.6 ± 1.8

17.5 ± 2.2

3.9

0.026

Upregulated

5080132

ACTA1

391.8 ± 893.0

11408.8 ± 4221.9

29.1

0.0025

cg20025656

TSS1500

16.4 ± 1.1

20.8 ± 1.7

4.5

0.028

cg02970384

Body

8.8 ± 0.8

12.0 ± 1.5

3.2

0.038

1230451

TPM2

147.9 ± 118.3

5491.1 ± 3076.8

37.1

0.0017

cg13969788

Body

25.0 ± 3.9

30.3 ± 4.1

5.3

0.031

cg26607748

TSS200

8.7 ± 0.5

11.2 ± 0.9

2.5

0.044

4150379

TNNT3

32.5 ± 42.8

1258.1 ± 750.4

38.7

0.0017

cg26355894

TSS200

12.9 ± 1.8

16.5 ± 2.7

3.7

0.028

cg15849872

5′UTR

11.3 ± 0.4

14.3 ± 0.9

3.0

0.028

cg16911576

Body

73.3 ± 1.9

69.7 ± 2.2

−3.7

0.044

4760040

NEB

30.3 ± 33.5

1195.0 ± 957.8

39.4

0.0017

cg17254273

TSS1500

81.2 ± 1.2

77.9 ± 1.2

−3.3

0.041

3890743

APOBEC2

21.0 ± 23.0

989.5 ± 1067.7

47.0

0.0017

cg17548735

5′UTR;1stExon

24.9 ± 2.5

28.9 ± 2.7

4.0

0.033

cg22375610

1stExon

12.8 ± 1.4

16.6 ± 1.7

3.9

0.026

6840092

MYLPF

213.4 ± 492.6

11507.5 ± 4592.8

53.9

0.0017

cg08130222

TSS200

54.8 ± 3.3

50.3 ± 3.3

−4.5

0.044

cg09762897

Body

10.3 ± 0.4

12.9 ± 1.0

2.6

0.049

1070541

MYH3

200.9 ± 412.0

11286.7 ± 4171.6

56.2

0.0017

cg06891639

TSS1500

63.1 ± 2.8

55.6 ± 3.0

−7.5

0.049

6900360

MYH7

43.8 ± 63.2

4070.3 ± 2705.0

93.0

0.0017

cg22963791

Body

10.8 ± 0.5

13.3 ± 1.0

2.5

0.049

6620035

CASQ2

43.8 ± 60.1

4288.1 ± 2746.6

97.8

0.0017

cg17903306

TSS200

70.0 ± 3.3

58.8 ± 3.3

−11.2

0.049

3610402

SLN

24.4 ± 8.9

2969.5 ± 3289.5

121.6

0.0025

cg09773458

TSS1500

28.8 ± 2.7

35.0 ± 1.8

6.3

0.035

  1. Data are presented as mean ± SD