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Table 3 Gene expression probes associated with cardio-metabolic traits

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

Probe ID

Gene IDa

Chr. a

Trait

Model 1

Model 2

Replication

Effect

P value

Effect

P value

Effect

P value

ILMN_1700306

OCIAD2

4

HDL

− 0.4114

8.39E−07

− 0.3573

5.15E−05

− 0.0040

9.20E−05

ILMN_1761463

EFHD2

1

HDL

0.4668

1.60E−07

0.3576

0.00013

0.0022

1.38E−03

ILMN_2261416

CD3D

11

TG

0.9089

2.22E−15

0.8328

3.84E−12

0.3233

2.58E−15

ILMN_2079655

KLRB1

12

TG

1.1666

6.48E−14

1.0518

1.01E−10

0.3946

4.09E−15

ILMN_1779324

GZMA

5

TG

1.0562

1.99E−09

1.0033

6.01E−08

0.2734

2.06E−13

ILMN_1761463

EFHD2

1

TG

− 0.4238

2.59E−09

− 0.3434

3.54E−06

− 0.1298

9.99E−13

ILMN_1700306

OCIAD2

4

TG

0.3413

3.32E−07

0.2998

1.93E−05

0.1691

7.64E−10

ILMN_1808939

RPS6

9

TG

0.6145

5.58E−11

0.5687

7.54E− 09

0.3001

1.17E−09

ILMN_1812191

C12orf57

12

TG

0.4392

1.37E−05

0.3897

0.00023

0.1772

1.07E−07

ILMN_1776181

BIRC3

11

TG

0.6940

2.86E−10

0.6176

8.34E−08

0.1473

4.89E−07

ILMN_1813836

DARS

2

TG

0.2657

9.37E−07

0.2878

4.67E−07

0.0894

3.18E-06

ILMN_1669927

ICOS

2

TG

0.2859

6.88E-06

0.2692

5.75E-05

0.0925

2.95E−04

ILMN_2198878

INPP4B

4

TG

0.2950

2.99E−07

0.2853

2.53E−06

0.0668

5.93E−04

ILMN_2366041

ITM2C

2

TG

− 0.5648

6.81E−09

− 0.4159

3.35E−05

− 0.0818

6.33E−03

ILMN_1680453

ITM2C

2

TG

− 0.5880

5.50E−08

− 0.4295

0.000124

− 0.0818

7.05E−03

ILMN_2352563

CLDND1

3

TG

0.3877

4.61E−05

0.4003

6.52E−05

0.0656

3.53E−02

ILMN_2079655

KLRB1

12

Insulin

0.7694

7.01E−09

0.6393

5.21E−05

0.2120

5.59E−05

ILMN_1766657

STOM

9

BMI

0.0549

3.85E−07

NA

NA

0.0196

2.56E−08

ILMN_1671891

PID1

2

BMI

− 0.0425

7.23E−09

NA

NA

− 0.0137

3.27E−06

ILMN_2366041

ITM2C

2

BMI

− 0.0577

1.86E−09

NA

NA

− 0.0123

9.53E−05

ILMN_1773650

LRRN3

7

BMI

− 0.0669

3.77E−05

NA

NA

− 0.0162

1.70E−03

ILMN_1661599

DDIT4

10

BMI

− 0.0658

2.75E−07

NA

NA

− 0.0096

4.06E−03

ILMN_2048591

LRRN3

7

BMI

− 0.0604

1.46E−05

NA

NA

− 0.0086

6.95E−03

ILMN_2377669

CD247

1

BMI

− 0.0370

5.95E−05

NA

NA

− 0.0058

8.01E−03

ILMN_2109197

EPB41L3

18

BMI

− 0.0322

0.000112

NA

NA

− 0.0072

1.12E−02

ILMN_2261416

CD3D

11

BMI

0.0458

6.47E−05

NA

NA

0.0107

1.37E−02

ILMN_2079655

KLRB1

12

BMI

0.0669

1.63E−05

NA

NA

0.0122

2.29E–−02

ILMN_1761463

EFHD2

1

BMI

− 0.0339

1.46E−06

NA

NA

− 0.0038

4.68E−02

  1. The table shows 21 probes annotated to 19 genes that are significantly associated with cardio-metabolic traits and in eQTM with at least one smoking-related CpG
  2. Only probes 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, BMI body mass index, NA not applicable (because of adjusting for BMI)
  4. Model 1: Adjusted for age, sex, cell count, RNA quality score, 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 P < 2.25 × 10–4 (0.05/200)
  7. P value threshold for replication: HDL, P < 0.01, (0.05/5); TG, P < 3.33 × 10–3 (0.05/15); Insulin, P < 0.03 (0.05/2); BMI, P < 3.13 × 10–3 (0.05/16)
  8. Genes that are presented underlined passed the replication p value threshold in 687 participants of the KORA study
  9. aAccording to the by Illumina provided annotation file
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Clinical Epigenetics

ISSN: 1868-7083

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