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Table 2 Top 20 CpG sites which were differently methylated between obese patients and normal weight women and did not change after bariatric surgery

From: DNA methylation screening after roux-en Y gastric bypass reveals the epigenetic signature stems from genes related to the surgery per se

TargetID

Gene name

CHR

Gene region

Gene context

Methylation level normal weight

Methylation level Pre-surgery

Methylation level Post-surgery

Δ*

p*

Δ**

p**

Hypomethylated CpG sites in obese women

 cg01428687

C3orf10

3

TSS1500

N_Shore

0.59 ± 0.04

0.31 ± 0.23

0.32 ± 0.24

−0.27

<0.0001

−0.27

0.0003

 cg05926253

NDUFS6;MRPL36

5

TSS200;TSS1500

Island

0.58 ± 0.03

0.32 ± 0.27

0.31 ± 0.27

−0.26

0.0013

−0.27

0.0003

 cg07402800

FBXL6;GPR172A;FBXL6

8

1stExon;TSS1500;1stExon

Island

0.75 ± 0.02

0.54 ± 0.20

0.55 ± 0.22

−0.20

0.0005

−0.20

0.0045

 cg04118610

LPHN3

4

Body

 

0.59 ± 0.20

0.39 ± 0.27

0.38 ± 0.26

−0.20

0.0058

−0.21

0.0031

 cg06002203

TNXB;TNXA

6

Body;Body

 

0.82 ± 0.03

0.66 ± 0.27

0.67 ± 0.26

−0.16

0.0005

−0.15

0.0014

 cg04427462

PRKD2;PRKD2;PRKD2;PRKD2

19

TSS1500;Body;Body;Bod.

N_Shore

0.49 ± 0.02

0.34 ± 0.15

0.35 ± 0.16

−0.15

0.0006

−0.15

0.0026

 cg02688348

SSRP1

11

TS200

Island

0.41 ± 0.02

0.26 ± 0.15

0.26 ± 0.15

−0.15

0.0006

−0.15

0.0002

 cg02037503

ACIN1;ACIN1;ACIN1;ACIN1;ACIN1;ACIN1

14

1stExon;1stExon;Body;Body;Body;5’UTR

 

0.52 ± 0.01

0.37 ± 0.15

0.36 ± 0.15

− 0.14

0.0009

−0.15

0.0002

 cg00973947

C3orf58;C3orf58;C3orf58

3

5’UTR;Body;1stExon

Island

0.40 ± 0.03

0.25 ± 0.14

0.25 ± 0.14

−0.14

0.0003

−0.15

0.0004

 cg04707013

 

10

  

0.74 ± 0.05

0.60 ± 0.22

0.56 ± 0.26

−0.14

0.0007

−0.18

0.0012

Hypermethylated CpG sites in obese women

 cg00087746

 

12

  

0.49 ± 0.25

0.69 ± 0.14

0.69 ± 0.14

0.21

0.0049

0.20

0.0041

 cg03071500

 

11

  

0.54 ± 0.15

0.69 ± 0.17

0.75 ± 0.13

0.14

0.0027

0.20

0.0004

 cg03871140

 

5

 

N_Shore

0.19 ± 0.18

0.31 ± 0.22

0.30 ± 0.22

0.12

0.0031

0.10

0.0041

 cg00159523

TCF7L2;TCF7L2;TCF7L2;TCF7L2;TCF7L2;TCF7L2

10

Body;Body;Body;Body;Body;Body

S_Shore

0.45 ± 0.11

0.57 ± 0.13

0.60 ± 0.12

0.11

0.0054

0.15

0.0003

 cg05226335

CTTN;CTTN

11

Body;Body

N_Shelf

0.52 ± 0.12

0.63 ± 0.09

0.66 ± 0.10

0.11

0.0017

0.14

0.0002

 cg05164937

 

10

 

S_Shore

0.36 ± 0.08

0.47 ± 0.08

0.45 ± 0.09

0.11

<0.0001

0.09

0.0006

 cg01579765

HSF2BP

21

Body

N_Shore

0.19 ± 0.03

0.30 ± 0.09

0.30 ± 0.08

0.11

0.0004

0.11

0.0006

 cg08206623

CDKN1C;CDKN1C;CDKN1C

11

TSS1500;TSS1500;TSS1500

Island

0.35 ± 0.03

0.45 ± 0.09

0.43 ± 0.08

0.11

0.0010

0.08

0.0054

 cg04352272

 

17

 

Island

0.18 ± 0.07

0.28 ± 0.09

0.26 ± 0.09

0.10

0.0011

0.09

0.0026

 cg01357671

ITGAE;GSG2

17

Body;TSS1500

N_Shore

0.15 ± 0.02

0.25 ± 0.10

0.23 ± 0.10

0.10

0.0004

0.08

0.0018

  1. Values showed in mean ± standard deviation; CHR: chromosome; Δ*: variation between pre-surgery patients and normal weight women; Δ**: variation between post-surgery patients and normal weight women; p*: comparing pre-surgery patients and normal weight women; p**: comparing post-surgery patients and normal weight women; UTR: untranslated region; TSS: transcription start site; NDUFS6: NADH ubiquinone oxidoreductase subunit S6; MRPL36: mitochondrial ribosomal protein L36; FBXL6: F-box and leucine rich repeat protein 6; GPR172A: solute carrier family 52 member 2; LPHN3: adhesion G protein-coupled receptor L3; TNXB: tenascin XB; TNXA: tenascin XA; PRKD2: protein kinase D2; SSRP1: structure specific recognition protein 1; ACIN1: apoptotic chromatin condensation inducer 1; C3orf58: chromosome 3 open reading frame 58; TCF7L2: transcription factor 7 like 2; CTTN: cortactin; HSF2BP: heat shock transcription factor 2 binding protein; CDKN1C: cyclin dependent kinase inhibitor 1C; ITGAE: integrin subunit alpha E
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BMC Medical Genomics

ISSN: 1755-8794

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