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Table 1 Top 5 individual CpG sites and the top 5 genes identified by VC-score and PCEV approaches that are associated with HDL and TG changes, using unrelated and familial individuals

From: CpG-set association assessment of lipid concentration changes and DNA methylation

Unrelated individuals (sample size = 242)

Families (sample size = 714)

Univariate

VC-score

PCEV

Univariate

VC-score

CpG

Genes

Chr

p Value

Genes

Chr

p Value

Genes

Chr

p Value

CpG

Genes

Chr

p Value

Genes

Chr

p Value

HDL

 cg14258154

ZFYVE9

1

1.56E-06

ALDH1A2

15

2.85E-05

NUDCD3

7

1.87E-04

cg02273903

KIAA1199

15

3.30E-08*

RNMT

18

2.55E-06*

 cg26385523

CTU1

19

3.32E-06

CSF1R

5

5.18E-05

LIN28B

6

2.01E-04

cg21250577

ETFA

15

5.24E-08*

MIR130B

22

3.09E-06*

 cg00638075

RNF40†

16

4.04E-06

NUDCD3

7

5.57E-05

NID1

1

7.68E-04

cg00979026

LAMP1

13

8.52E-08*

C6orf141

6

5.38E-06

 cg27639620

TSPAN4

11

6.36E-06

ACD

16

1.17E-04

CSMD1

8

1.10E-03

cg21654314

CHMP6

17

1.40E-07*

TUBB3

16

7.03E-06

 cg26671183

PFKFB2

1

6.48E-06

C17orf57

17

1.51E-04

ECEL1P2

2

1.24E-03

cg17990398

JAKMIP3

10

1.60E-07*

TBX15

1

9.01E-06

TG

 cg18522239

LGALS9C

17

2.04E-06

LGALS9C

17

3.12E-06 *

PTPRN

7

1.58E-04

cg12110750

TSHZ3

19

3.09E-06

MIR941–1

20

3.07E-05

 cg05984096

CSK

15

7.63E-06

ZNF592

15

1.20E-05

RSPO2

8

3.73E-04

cg02565993

FIBIN

11

3.50E-06

TP53I11

11

4.07E-05

 cg06043820

ZNF592

15

9.86E-06

HIPK2

7

1.19E-04

FAM86A

16

5.66E-04

cg08552519

PCBP4

3

6.02E-06

GKN1

2

4.60E-05

 cg04902851

NSMAF

8

1.18E-05

SPAG8

9

1.83E-04

HOXD13

2

8.30E-04

cg04004830

SDPR

2

6.15E-06

PRR4

12

5.09E-05

 cg10243301

ZNF682

19

1.43E-05

CSK

15

3.03E-04

C14orf28

14

1.24E-03

cg09969806

KIF1A

2

6.43E-06

LOC100216545

7

6.61E-05

  1. *Significant at 10% family-wise error rate.
  2. RNMT:RNMT;C18orf19. MIR941–1: MIR941–1; DNAJC5. PRR4: PRR4; PRH1; TAS2R43. RNF40: RNF40;C16orf93.