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Table 4 DMPs associated with padj < 10–5 in the paired sub-analysis after stringent filtering

From: Epigenetic adaptations of the masticatory mucosa to periodontal inflammation

Probe ID

Chr:Position (hg19)

Distance to nearest significant DMP (bp)

Sup-porting DMPs (n)

Gene Symbol

Median TPM*

p (full analysis)

q (full analysis)

padj (paired analysis)

∆β (full analysis)

Raw beta values (mean)

Uninflamed (n = 48)

Inflamed (n = 48)

pGECs (n = 5)

Blood* (n = 69)

cg00320534

chr10:22,216,647

201

1

DNAJC1

391

1.3 × 10–15

1.0 × 10–9

9.1 × 10–6

− 0.20

0.88

0.75

0.24

0.92

cg12891342

chr11:58,344,244

90

5

LPXN

64

4.3 × 10–8

3.4 × 10–2

1.4 × 10–5

− 0.20

0.79

0.6

0.83

0.88

cg07215395

chr5:115,148,221

1251

1

CDO1

12

1.3 × 10–14

9.9 × 10–9

2.9 × 10–5

− 0.20

0.83

0.62

0.80

0.90

cg11470748

chr15:92,378,414

102

1

SLCO3A1

482

2.1 × 10–8

1.6 × 10–2

4.1 × 10–5

− 0.18

0.64

0.55

0.67

0.90

cg07994786

chr16:48,389,355

409

1

LONP2

1010

3.5 × 10–10

2.7 × 10–4

4.7 × 10–5

− 0.15

0.86

0.78

0.88

0.95

cg02099194

chr13:43,149,689

34

1

TNFSF11

1

4.8 × 10–12

3.8 × 10–6

6.3 × 10–5

− 0.19

0.36

0.18

0.46

0.27

cg25157850

chr20:62,401,287

78

2

ZBTB46

29

8.4 × 10–10

6.5 × 10–4

6.5 × 10–5

− 0.23

0.77

0.62

0.68

0.91

cg08446539

chr12:25,541,565

201

1

KRAS/LMNTD1

730 / 0

9.1 × 10–12

7.1 × 10–6

6.5 × 10–5

− 0.24

0.79

0.5

0.81

0.75

cg06142324

chr11:124,805,538

425

1

HEPACAM

0

1.8 × 10–11

1.4 × 10–5

7.8 × 10–5

− 0.13

0.85

0.77

0.82

0.93

cg18038139

chr17:10,560,748

72

2

MYH3

24

1.3 × 10–8

9.8 × 10–3

8.0 × 10–5

− 0.20

0.7

0.55

0.75

0.90

cg19705197

chr10:6,264,090

606

1

PFKFB3

408

3.6 × 10–12

2.8 × 10–6

8.2 × 10–5

− 0.20

0.74

0.69

0.68

0.93

cg10254357

chr1:95,592,493

162

1

TMEM56

22

4.4 × 10–12

3.4 × 10–6

8.4 × 10–5

− 0.20

0.8

0.64

0.76

0.89

cg09083279

chr6:29,454,873

15

2

MAS1L

0

4.9 × 10–12

3.8 × 10–6

8.9 × 10–5

− 0.27

0.56

0.34

0.37

0.63

  1. DMPs meeting the following filter criteria: q < 0.05, effect sizes ≥ 0.1, distance to nearest significant (q < 0.05) DMP \(\le\) 2 kb (= supporting DMP), padj < 10–5 in paired analysis (n = 39), ranked according to their padj in the paired analysis. p Values from paired analysis are Bonferroni-corrected for 15,507 tests. ∆β-values are adjusted according to our intercept method [16]. *mRNA-sequencing in healthy keratinized oral mucosa with 16mio reads/sample [12]. **downloaded from GSE123914 [54]. DMP = differentially methylated position, bp = basepairs, TPM = transcripts per million pGECs = primary gingival epithelial cells
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Clinical Epigenetics

ISSN: 1868-7083

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