Skip to main content

Table 2 Baseline and 1-month methylation levels of 52 methylation sites with significant changes following treatment initiation

From: DNA methylation may partly explain psychotropic drug-induced metabolic side effects: results from a prospective 1-month observational study

CpG site

Baseline methylation level (β-value), median (IQR), %

1-month methylation level (β-value), median (IQR), %

p-valuea

CHR

CpG positionb

Reference genec

Location of CpG related to genec

Relation to CpG Islandd

cg10992198

67.7 (64.3–71.5)

70.7 (66.2–73.1)

0.00005

19

36,552,038

WDR62*

Body

 

cg12120973

68.3 (65.1–71.7)

70.0 (67.1–74.3)

0.00009

1

1,215,925

SCNN1D*

5'UTR

 

cg05034501

84.6 (82.9–86.4)

87.1 (85.1–89.5)

0.0001

3

148,985,369

   

cg05235884

81.3 (80.2–84.1)

82.8 (80.9–84.8)

0.0001

6

30,131,806

TRIM15

1stExon

 

cg11678481

75.6 (73.9–77.8)

77.8 (75.6–78.9)

0.0001

1

151,682,882

CELF3*

Body

 

cg13422535

61.9 (58.9–64.1)

62.2 (60.2–65.6)

0.0001

22

47,077,682

  

S_Shelf

cg22329201

76.1 (73.1–77.4)

77.1 (74.8–79.3)

0.0002

4

3,569,189

  

S_Shelf

cg20548564

89.4 (88.3–90.6)

90.5 (89.3–91.3)

0.0004

13

28,240,073

POLR1D

Body

 

cg20626144

74.0 (72.0–76.1)

75.1 (73.9–77.3)

0.0005

17

157,107

RPH3AL

Body

Island

cg24357026

9.8 (7.7–11.4)

8.3 (6.7–9.9)

0.0005

19

36,705,589

ZNF146*

5'UTR

Island

cg02644728

74.1 (71.8–76.7)

75.6 (73.7–77.9)

0.0005

11

83,324,374

DLG2*

Body

 

cg02692850

65.5 (63.0–67.3)

66.4 (64.3–67.9)

0.0006

21

44,607,862

   

cg05129295

56.4 (54.2–58.7)

58.4 (55.7–60.4)

0.0007

8

1,316,294

   

cg05696006

79.0 (76.5–79.9)

79.9 (77.9–81.4)

0.0007

19

7,622,906

PNPLA6*

Body

S_Shore

cg15223933

74.5 (72.9–76.1)

75.5 (74.1–77.0)

0.0008

17

39,916,203

JUP*

Body

S_Shelf

cg13691093

87.4 (84.9–89.2)

89.0 (86.9–91.0)

0.002

8

2,031,672

MYOM2

Body

 

cg27452651

7.1 (6.1–8.1)

6.2 (5.4–6.9)

0.002

22

50,312,357

ALG12*

TSS1500

Island

cg13982468

88.8 (87.3–89.6)

89.8 (88.9–90.6)

0.004

12

120,571,393

GCN1

Body

 

cg22800959

94.6 (93.6–95.3)

95.2 (94.4–95.9)

0.004

6

32,020,477

TNXB

Body

 

cg11702503

82.2 (80.3–84.0)

83.3 (81.6–85.0)

0.004

19

6,215,254

MLLT1

Body

Island

cg20710898

69.8 (68.5–71.4)

71.4 (69.7–73.2)

0.004

10

96,996,833

   

cg23628099

68.2 (64.7–72.0)

70.0 (67.3–73.6)

0.004

8

48,089,762

   

cg25226092

63.2 (61.4–64.6)

64.3 (62.4–66.3)

0.005

3

39,508,863

MOBP*

TSS1500

 

cg07769732

65.3 (61.9–67.7)

67.0 (62.9–70.3)

0.005

2

8,815,465

  

N_Shore

cg10825881

77.7 (75.7–79.0)

78.5 (77.4–80.0)

0.005

15

52,202,509

TMOD3

3'UTR

 

cg17866025

62.4 (59.7–64.5)

64.0 (61.6–65.5)

0.006

1

39,051,682

   

cg18930928

79.2 (77.7–81.2)

80.2 (78.6–82.1)

0.006

1

205,210,953

TMCC2

Body

S_Shore

cg02624558

5.2 (4.3–6.7)

4.9 (3.6–5.8)

0.008

1

202,777,611

KDM5B

TSS200

Island

cg05103574

80.3 (78.6–82.0)

81.4 (79.9–83.2)

0.008

1

29,527,219

MECR*

Body

 

cg08243790

64.1 (62.1–65.9)

65.4 (63.8–67.3)

0.008

8

127,485,353

   

cg14885690

78.4 (76.2–80.3)

79.9 (77.8–82.4)

0.009

1

43,195,659

   

cg27275821

75.5 (72.8–78.0)

78.6 (76.0–80.5)

0.009

1

89,144,331

PKN2-AS1

Body

 

cg00661205

75.6 (74.4–77.6)

77.0 (75.6–78.3)

0.01

13

42,400,902

KIAA0564*

Body

 

cg08581040

83.1 (80.4–85.0)

84.5 (82.5–86.6)

0.01

4

39,172,577

  

S_Shore

cg09518293

71.0 (68.6–73.1)

72.2 (70.8–74.9)

0.01

2

179,673,636

TTN*

TSS1500

 

cg10231096

85.8 (82.7–89.2)

87.5 (84.3–90.5)

0.01

15

31,451,780

TRPM1

Body

 

cg13003350

81.2 (78.4–83.7)

83.2 (80.0–85.2)

0.01

6

27,830,500

  

N_Shelf

cg13091133

67.4 (65.9–70.1)

69.4 (66.7–71.7)

0.01

4

42,190,340

   

cg16106297

75.2 (73.2–77.0)

76.3 (74.5–77.8)

0.01

19

58,556,609

ZSCAN1

Body

Island

cg24870895

76.0 (74.1–77.6)

77.6 (75.3–78.9)

0.01

15

40,768,542

   

cg26032412

52.5 (51.0–54.1)

53.8 (51.6–55.5)

0.01

10

130,300,419

  

S_Shore

cg01823005

79.0 (75.8–82.6)

82.0 (78.3–84.1)

0.02

10

90,691,868

ACTA2-AS1

TSS1500

 

cg03797660

89.6 (88.1–91.1)

90.6 (89.7–91.9)

0.02

16

89,035,228

CBFA2T3

Body

S_Shore

cg04043710

67.6 (64.0–70.4)

69.4 (65.9–71.0)

0.02

16

9,448,891

   

cg05864168

89.7 (88.8–91.0)

90.8 (89.6–91.8)

0.02

1

185,110,088

TRMT1L*

Body

 

cg11867718

70.7 (68.5–72.9)

72.1 (69.8–73.7)

0.02

11

61,647,697

FADS3

Body

 

cg19267144

76.5 (75.2–78.5)

77.8 (76.2–79.6)

0.02

17

40,956,947

CNTD1

Body

 

cg20073412

95.5 (94.9–96.3)

96.3 (95.6–97.0)

0.02

11

131,560,558

NTM

Body

Island

cg23313005

82.7 (81.6–84.2)

84.0 (82.7–85.4)

0.02

5

176,965,046

FAM193B*

Body

 

cg25470611

74.8 (71.4–78.0)

76.3 (72.9–79.7)

0.02

11

71,121,630

FLJ42102

Body

 

cg26856604

74.4 (71.0–76.7)

75.8 (73.6–77.8)

0.02

1

10,370,540

KIF1B

Body

 

cg05058976

86.1 (84.5–87.3)

87.1 (85.6–88.3)

0.03

16

3,637,956

BTBD12

Body

N_Shore

  1. CHR chromosome, IQR interquartile range
  2. aStatistical significance for differences between baseline and 1-month methylation was tested using paired Student’s t-test, without adjustment on additional factors. Bonferroni correction for epigenome-wide analyses was applied
  3. bCpG positions refer to Genome Research Consortium human genome build 37 (GRCh37)/UCSC human genome 19 (hg19)
  4. cReference genes for the methylation sites, and gene regions where the CpGs are located according to the UCSC database. Empty fields indicate an intergenic location
  5. *Specifies there exists > 1 gene or gene transcript at this location. TSS200 = 0–200 bases upstream of the transcriptional start site (TSS); TSS1500 = 200–1500 bases upstream of the TSS; 5′UTR = within the 5′ untranslated region, between the TSS and the ATG start site; Body = Between the ATG and stop codon, irrespective of the presence of introns, exons, TSS, or promoters; 3′UTR = between the stop codon and poly A signal
  6. dThe relation to a putative nearby CpG island, according to the UCSC database, is given. Shore = 0–2 kb from island; Shelf = 2–4 kb from island; N = upstream (5′) of CpG island; S = downstream (3′) of CpG island
Back to article page

Clinical Epigenetics

ISSN: 1868-7083

Contact us