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Table 1 Imprinted genes differentially methylated in HCC tumors compared to surrounding tissues

From: Aberrant DNA methylation of imprinted loci in hepatocellular carcinoma and after in vitro exposure to common risk factors

Unique ID (CpG site)

P value

FDR

Fold change

Symbol

Expressed allele

USP29_E274_F

<1e-07

<1e-07

0.29

USP29

Unknown

MKRN3_P108_F

2E-07

5E-05

0.25

MKRN3

Paternal

ZIM3_E203_F

2E-07

5E-05

0.24

ZIM3

Unknown

GABRA5_E44_R

4E-07

7E-05

0.28

GABRA5

Paternal

ZIM3_P718_R

4E-07

7E-05

0.20

ZIM3

Unknown

MKRN3_E144_F

8E-07

0.0001

0.22

MKRN3

Paternal

PWCR1_E81_R

1E-06

0.0001

0.45

PWCR1

Paternal

GABRA5_P862_R

1E-06

0.0001

0.19

GABRA5

Paternal

GABRG3_E123_R

2E-06

0.0002

0.21

GABRG3

Paternal

TRPM5_E87_F

5E-06

0.0003

0.29

TRPM5

Paternal

TRPM5_P979_F

7E-06

0.0004

0.36

TRPM5

Paternal

GABRA5_P1016_F

1E-05

0.0006

0.34

GABRA5

Paternal

MEST_P62_R

2E-05

0.0009

0.32

MEST

Paternal

ZIM3_P451_R

4E-05

0.0014

0.51

ZIM3

Unknown

TRPM5_P721_F

1E-04

0.0023

0.23

TRPM5

Paternal

SNRPN_P230_R

1E-04

0.0024

0.50

SNRPN

Paternal

INS_P804_R

1E-04

0.0027

0.31

INS

Paternal

GLI3_E148_R

3E-04

0.0043

0.55

GLI3

Maternal

CPA4_P1265_R

3E-04

0.0048

0.41

CPA4

Maternal

GFI1_E136_F

4E-04

0.0059

4.35

GFI1

Paternal

PWCR1_P811_F

6E-04

0.008

0.50

PWCR1

Paternal

CDKN1C_P626_F

0.001

0.0109

2.17

CDKN1C

Maternal

ASCL2_P360_F

0.001

0.0111

4.35

ASCL2

Maternal

HOXA11_P698_F

0.001

0.0111

3.70

HOXA11

Maternal

DCN_P1320_R

0.001

0.0115

0.33

DCN

Unknown

NDN_P1110_F

0.001

0.0126

0.39

NDN

Paternal

FASTK_P598_R

0.001

0.0127

0.54

FASTK

Maternal

MAGEL2_P170_R

0.002

0.0141

0.40

MAGEL2

Paternal

GNAS_P86_F

0.002

0.0148

0.53

GNAS

Isoform dependent

HOXA5_E187_F

0.002

0.0157

2.44

HOXA5

Maternal

MEST_P4_F

0.002

0.016

0.33

MEST

Paternal

DIO3_P674_F

0.002

0.0167

3.23

DIO3

Unknown

GNAS_E58_F

0.002

0.0167

0.40

GNAS

Isoform dependent

ASB4_P52_R

0.002

0.017

0.37

ASB4

Unknown

NNAT_P544_R

0.002

0.0175

1.41

NNAT

Paternal

MAGEL2_E166_R

0.003

0.0187

0.41

MAGEL2

Paternal

SNRPN_E14_F

0.003

0.0188

0.49

SNRPN

Paternal

KCNQ1_P546_R

0.003

0.0198

1.85

KCNQ1

Maternal

USP29_P205_R

0.004

0.0252

0.53

USP29

Unknown

SNRPN_seq_18_S99_F

0.004

0.0261

0.50

SNRPN

Paternal

GFI1_P208_R

0.004

0.0274

2.44

GFI1

Paternal

H19_P541_F

0.005

0.0289

0.46

H19

Maternal

ASB4_E89_F

0.005

0.029

0.53

ASB4

Unknown

  1. FDR, false discovery rate.
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Clinical Epigenetics

ISSN: 1868-7083

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