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Table 2 CpG sites associated with cardio-metabolic traits in DNA methylation analysis

From: Smoking-related changes in DNA methylation and gene expression are associated with cardio-metabolic traits

CpG

Chr:positiona

Gene IDb

Trait

Model 1

Model 2

Replication

Effect

P value

Effect

P value

Effect

P value

cg04716530

16:30485684

ITGAL

HDL

0.01700

2.02E−07

0.01550

6.34E−06

0.00014

9.82E−04

cg07826859

7:45020086

MYO1G

HDL

0.01440

6.79E−06

0.01390

3.61E−05

0.00018

1.61E−03

cg26724967

16:3115223

IL32

HDL

0.01290

2.89E−06

0.01220

2.34E−05

0.00015

1.63E−03

cg16391678

16:30485597

ITGAL

HDL

0.01520

1.03E−06

0.01400

1.60E−05

0.00013

5.14E−03

cg16519923

16:30485810

ITGAL

HDL

0.01980

8.23E−08

0.01790

3.44E−06

0.00012

9.75E−03

cg10310310

7:157367150

PTPRN2;MIR153-2

HDL

0.01130

4.49E−06

0.01060

4.05E−05

0.00011

1.96E−02

cg24323726

3:111314186

ZBED2;CD96

HDL

0.01300

4.84E−07

0.01230

5.32E−06

0.00009

3.41E−02

cg07929642

16:89390685

ANKRD11

HDL

0.01650

1.87E−07

0.01550

3.13E−06

0.00009

4.25E−02

cg21566642

2:233284661

–

TG

− 0.01990

3.89E−05

− 0.02150

1.91E−05

− 0.01967

1.14E−05

cg04716530

16:30485684

ITGAL

TG

− 0.01370

1.23E−06

−0.01220

3.58E−05

−0.00380

5.34E−04

cg27409015

2:158114424

GALNT5

TG

0.01660

8.39E−07

0.01490

2.16E−05

0.00683

1.50E−03

cg06635952

2:70025869

ANXA4

TG

0.01300

9.06E−07

0.01280

3.36E−06

0.00502

5.95E−03

cg11095027

11:1297066

TOLLIP

TG

0.00996

2.72E−05

0.01040

2.64E−05

0.00375

7.82E−03

cg26219092

8:134388022

–

TG

0.01050

2.37E−06

0.00991

2.05E−05

0.00285

1.73E−02

cg10919522

14:74227441

C14orf43

TG

− 0.01410

7.90E−09

− 0.01260

7.97E−07

− 0.00491

1.91E−02

cg22635096

21:46550644

ADARB1

TG

0.01370

6.61E−08

0.01300

8.65E−07

0.00392

3.55E−02

cg00310412

15:74724918

SEMA7A

WHR

− 0.05000

3.96E−05

− 0.07150

1.95E−07

− 0.06952

4.54E−05

cg04424621

6:27101941

HIST1H2BJ

WHR

− 0.06490

1.06E−05

− 0.07360

1.03E−05

− 0.07191

5.73E−05

cg04583842

16:88103117

BANP

WHR

0.12600

5.29E−08

0.12500

1.56E−06

0.06802

3.71E−03

cg13755776

11:3602845

–

WHR

− 0.08530

1.03E−06

− 0.08200

3.33E−05

− 0.04521

3.71E−02

cg17287155

5:393347

AHRR

BMI

0.00117

8.69E−06

NA

NA

0.00053

3.11E−06

cg26361535

8:144576604

ZC3H3

BMI

0.00155

1.85E−07

NA

NA

0.00102

2.38E−05

cg06096336

2:231989800

PSMD1;HTR2B

BMI

0.00168

9.51E−07

NA

NA

0.00111

1.66E−04

cg13708645

12:121974305

KDM2B

BMI

0.00152

6.72E−07

NA

NA

0.00089

1.01E−03

cg25649826

17:20938740

USP22

BMI

0.00086

1.63E−05

NA

NA

0.00041

3.15E−03

cg24539517

10:121161258

GRK5

BMI

0.00149

2.95E−05

NA

NA

0.00078

4.33E-03

cg03636183

19:17000585

F2RL3

BMI

0.00160

3.04E−05

NA

NA

0.00063

3.40E−02

  1. The table shows 26 CpGs that are associated to at least one cardio-metabolic trait and in eQTM with at least one smoking-related gene-expression probe
  2. Only CpGs significantly associated in both models and nominally significant (P < 0.05) in the replication are presented in this table
  3. HDL high-density lipoprotein, TG triglycerides, WHR waist to hip ratio, BMI body mass index, NA not applicable (because of adjusting for BMI)
  4. Model 1: Adjusted for age, sex, cell count, and technical covariates. Model 2: Model 1 + BMI and relevant medication
  5. We did not correct for additional covariates when testing the association for BMI
  6. P value threshold for discovery P < 4.08 × 10–5 (0.05/1224)
  7. P value threshold for replication: HDL, P < 8.62 × 10–4 (0.05/58); TG, P < 1.43 × 10–3 (0.05/35); WHR, P < 8.33 × 10–3 (0.05/6); BMI, P < 3.13 × 10–3 (0.05/16)
  8. CpGs that are presented underlined passed the replication P value threshold in 1727 participants of the KORA study
  9. aGenome coordinates provided by Illumina (GRCh37/hg19)
  10. bAccording to the Illumina Infinium HumanMethylation450K annotation file
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Clinical Epigenetics

ISSN: 1868-7083

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