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Table 3 Top 5mC-DMPs, 5hmC-DhMPs and BS-DMPs (adjusted P value < 0.05) associated with multiple sclerosis (cohort 2).

From: Neuronal methylome reveals CREB-associated neuro-axonal impairment in multiple sclerosis

probeID

Ch

Pos

mean_MS

mean_ctr

Δβ

P value

adj. P value

Gene namea

Featurea

Overlap DMP

Overlap DMR

5mC-DMP

 cg06077821

5

180048893

0.50

0.58

− 0.08

7.8E−08

6.6E−03

FLT4

Body

5hmC

5mC, 5hmC

 cg04313978

7

158271081

0.60

0.72

− 0.13

6.4E−08

6.6E−03

PTPRN2

Body

5hmC

5mC, 5hmC

 cg24172278

7

1526831

0.67

0.75

− 0.08

1.5E−07

8.4E−03

INTS1

Body

–

5mC

 cg09226185

7

157342801

0.73

0.81

− 0.08

4.1E−07

9.8E−03

PTPRN2

Body

5hmC

5mC, 5hmC

 cg10738865

11

2356706

0.64

0.75

− 0.11

7.2E−10

3.0E−04

–

–

5hmC

5mC, 5hmC

 cg12910900

12

13155162

0.62

0.70

− 0.08

2.3E−07

8.9E−03

HTR7P

Body

5hmC

5mC, 5hmC

 cg06703573

16

1364331

0.48

0.58

− 0.10

2.6E−08

5.4E−03

UBE2I

Body

5hmC

5mC, 5hmC

 cg20942310

17

73728061

0.69

0.78

− 0.08

1.6E−07

8.4E−03

ITGB4

Body

5hmC

5mC, 5hmC

 cg15659599

19

55098842

0.36

0.43

− 0.07

4.5E−07

9.8E−03

LILRA2

3′UTR

5hmC

–

 cg25934700

22

50644755

0.52

0.66

− 0.14

2.1E−07

8.7E−03

SELO

Body

5hmC

5mC, 5hmC

5hmC-DhMP

 cg18213443

1

4221388

0.21

0.10

0.11

4.7E−07

5.5E−03

–

–

5mC

5hmC

 cg27331828

1

196619631

0.27

0.08

0.19

2.9E−07

4.6E−03

CFH

TSS1500

–

5hmC

 cg04639610

2

74942001

0.18

0.03

0.15

1.4E−07

4.6E−03

–

–

–

5hmC

 cg23376467

5

121464241

0.16

0.05

0.11

2.8E−07

4.6E−03

ZNF474

TSS1500

–

–

 cg06996555

7

151542415

0.25

0.12

0.13

1.0E−06

8.3E−03

PRKAG2

Body

5mC

5hmC

 cg10738865

11

2356706

0.26

0.15

0.12

1.4E−08

1.5E−03

–

–

5mC

5mC, 5hmC

 cg15426626

12

132984261

0.21

0.10

0.11

1.7E−07

4.6E−03

–

–

5mC

5hmC

 cg01863290

14

96730669

0.25

0.11

0.13

5.0E−07

5.5E−03

BDKRB1

Body

5mC

5hmC

 cg25594736

15

67391147

0.19

0.09

0.10

9.1E−07

8.3E−03

SMAD3

Body

–

–

 cg06703573

16

1364331

0.38

0.28

0.11

1.9E−07

4.6E−03

UBE2I

Body

5mC

5mC, 5hmC

BS-DMP

 cg18327319

1

11795409

0.82

0.66

0.17

1.6E−05

2.8E−02

AGTRAP

TSS1500

5hmC

–

 cg16732616

1

50886782

0.09

0.21

− 0.12

4.3E−06

2.2E−02

DMRTA2

Body

5hmC

5hmC, BS

 cg11750112

1

64938742

0.73

0.83

− 0.10

1.4E−05

2.7E−02

CACHD1

Body

–

–

 cg18864124

2

227288863

0.71

0.56

0.14

8.9E−06

2.6E−02

–

–

5hmC

5hmC

 cg02379784

5

471326

0.62

0.74

− 0.11

1.0E−05

2.6E−02

LOC25845

Body

–

5hmC, BS

 cg08376583

6

32222492

0.33

0.54

− 0.21

8.6E−06

2.6E−02

–

–

–

–

 cg25670061

6

163612896

0.77

0.66

0.10

7.2E−06

2.6E−02

PACRG

Body

–

–

 cg00459997

12

130621721

0.75

0.63

0.12

2.8E−06

2.2E−02

–

–

5mC

–

 cg20165520

13

113637829

0.69

0.57

0.12

1.5E−05

2.7E−02

MCF2L

Body

–

BS

 cg05491587

18

77659695

0.59

0.69

− 0.10

6.6E−06

2.5E−02

KCNG2

Body

–

BS

  1. aFrom UCSC annotations. DMP differentially methylated position, DMR differentially methylated region, 5mC oxBS-generated “true” methylation, 5hmC hydroxymethylation, BS bisulfite-generated, Ch Chromosome, Pos position, MS Multiple Sclerosis, ctr non-neurological controls, Δβ delta β-value, adj. P value adjusted P-value, TSS transcription starting site
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Clinical Epigenetics

ISSN: 1868-7083

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