Table 2 Comparison of random effects of schizophrenia-associated DNA methylation sites in sex-specific, sex-stratified, and sex-adjusted meta-analyses.

From: Sex effects on DNA methylation affect discovery in epigenome-wide association study of schizophrenia

CpG

CHR

Position (Human genome build 19)

Genea

Female sampleb

Male sampleb

Sex-adjusted meta-analysisb

Sex-stratified meta-analysisb

Effect size ± S.E.

P-value

Effect size ± S.E.

P-value

Effect size ± S.E.

P-value

Effect size ± S.E.

P-value

cg02488934

1

156422580

MEF2Dc

0.66 ± 0.16

3.18E-05

0.67 ± 0.14

1.95E-06

0.54 ± 0.10

1.33E-07

0.67 ± 0.11

2.61E-10

cg27541604d

1

159046451

AIM2

0.74 ± 0.18

2.51E-05

0.73 ± 0.25

3.33E-03

0.68 ± 0.17

8.83E-05

0.71 ± 0.12

7.72E-10

cg02934509

1

1669413

SLC35E2

0.92 ± 0.19

1.86E-06

0.54 ± 0.16

8.51E-04

0.66 ± 0.12

1.28E-07

0.70 ± 0.12

1.88E-08

cg07600998

1

147146108

ACP6c

0.56 ± 0.12

3.55E-06

0.40 ± 0.15

6.44E-03

0.45 ± 0.11

3.55E-05

0.47 ± 0.09

1.32E-07

cg24935896

1

201431492

PHLDA3c

0.46 ± 0.17

8.15E-03

0.59 ± 0.14

1.90E-05

0.47 ± 0.10

5.44E-06

0.54 ± 0.10

1.56E-07

cg20994118

1

209780966

CAMK1G

0.72 ± 0.21

7.92E-04

0.68 ± 0.23

2.76E-03

0.58 ± 0.18

1.01E-03

0.69 ± 0.13

2.40E-07

cg11269166

2

172203847

METTL8

0.40 ± 0.25

1.01E-01

0.97 ± 0.19

2.02E-07

0.72 ± 0.22

1.23E-03

0.77 ± 0.20

9.67E-05

cg18096987

3

11623873

VGLL4

-0.98 ± 0.18

7.91E-08

-0.50 ± 0.15

8.10E-04

-0.55 ± 0.11

8.90E-07

-0.69 ± 0.12

2.11E-09

cg11854073

3

112013357

SLC9A10

2.80 ± 0.53

1.33E-07

1.29 ± 0.47

5.91E-03

1.84 ± 0.36

2.85E-07

2.00 ± 0.46

1.21E-05

cg25432300

5

90508265

ADGRV1c

0.90 ± 0.22

5.93E-05

0.69 ± 0.18

1.13E-04

0.75 ± 0.14

5.98E-08

0.77 ± 0.14

3.33E-08

cg15852826

6

31528915

NFKBIL1c

0.54 ± 0.16

6.09E-04

0.58 ± 0.13

6.78E-06

0.46 ± 0.10

3.97E-06

0.57 ± 0.10

1.58E-08

cg13675015

6

43217925

TTBK1

0.62 ± 0.16

1.45E-04

0.51 ± 0.14

3.50E-04

0.51 ± 0.11

2.25E-06

0.55 ± 0.11

2.09E-07

cg12269535

6

43142014

SRF

-0.98 ± 0.24

5.75E-05

-0.60 ± 0.20

2.77E-03

-0.83 ± 0.15

5.02E-08

-0.75 ± 0.15

1.12E-06

cg01973676

7

101596404

CUX1

1.09 ± 0.29

1.75E-04

0.61 ± 0.19

1.38E-03

0.67 ± 0.16

1.92E-05

0.79 ± 0.15

7.38E-08

cg24107852e

7

127960508

RBM28

-0.70 ± 0.25

4.28E-03

-0.81 ± 0.19

2.14E-05

-0.76 ± 0.20

1.42E-04

-0.76 ± 0.14

1.05E-07

cg19507068

7

79764176

GNAI1

0.59 ± 0.14

2.57E-05

0.44 ± 0.14

1.10E-03

0.42 ± 0.09

9.92E-06

0.52 ± 0.10

1.36E-07

cg26547058d

8

142243143

SLC45A4f

1.36 ± 0.34

5.51E-05

1.22 ± 0.37

8.68E-04

1.13 ± 0.30

1.55E-04

1.25 ± 0.21

5.99E-09

cg01142735

8

103932076

MAILRf

0.59 ± 0.16

3.14E-04

0.46 ± 0.12

2.29E-04

0.41 ± 0.10

4.01E-05

0.51 ± 0.10

1.55E-07

cg18919106e

8

132918665

EFR3A

-0.88 ± 0.28

2.11E-03

-0.53 ± 0.14

1.60E-04

-0.55 ± 0.16

5.40E-04

-0.65 ± 0.12

1.64E-07

cg04780563

10

35748463

CCNY

-1.17 ± 0.41

4.27E-03

-1.05 ± 0.29

2.90E-04

-1.10 ± 0.18

6.96E-10

-1.10 ± 0.20

4.55E-08

cg27207470e

11

111848326

DIXDC1

1.68 ± 0.38

9.77E-06

1.07 ± 0.32

7.41E-04

1.21 ± 0.25

8.53E-07

1.32 ± 0.24

5.88E-08

cg02419321

12

54811762

ITGA5

-0.48 ± 0.34

1.55E-01

-0.63 ± 0.14

4.53E-06

-0.45 ± 0.11

3.35E-05

-0.58 ± 0.11

1.41E-07

cg14327296

14

101051064

BEGAINf

0.55 ± 0.20

7.31E-03

0.47 ± 0.14

6.63E-04

0.37 ± 0.09

1.67E-05

0.47 ± 0.09

1.06E-07

cg01678084e

15

67022087

SMAD6

0.68 ± 0.16

2.11E-05

0.45 ± 0.17

7.67E-03

0.45 ± 0.10

6.11E-06

0.53 ± 0.10

1.52E-07

cg06934654

16

89180742

ACSF3

0.49 ± 0.16

2.40E-03

0.39 ± 0.10

7.05E-05

0.38 ± 0.08

8.71E-07

0.42 ± 0.08

2.90E-08

cg06800849

16

89180587

ACSF3

0.70 ± 0.16

1.39E-05

0.46 ± 0.13

6.89E-04

0.50 ± 0.10

1.16E-06

0.56 ± 0.10

3.17E-08

cg04276536e

16

57567813

CCDC102A

-0.85 ± 0.15

1.96E-08

-0.45 ± 0.21

2.99E-02

-0.58 ± 0.18

1.24E-03

-0.64 ± 0.17

1.31E-04

cg24069602

17

62045522

SCN4A

0.47 ± 0.14

1.19E-03

0.57 ± 0.17

1.09E-03

0.46 ± 0.09

6.97E-07

0.51 ± 0.09

3.39E-08

  1. aAnnotated manually from the UCSC genome browser either nearest gene within 50 kb.
  2. bRandom effects and standard errors have been multiplied by 100 and therefore represent percentage differences in methylation between cases and controls.
  3. cor to alternative transcript of refseq gene.
  4. dCpG has known cis-mQTL with effects towards hypomethylation.
  5. eCpG has known cis-mQTL with effects towards hypermethylation.
  6. fCpG – cytosine-(phosphate)-guanine site; S.E – standard error; N.B. P-values less than 2.4 × 10e-07 are in bold and those less than 3.6 × 10e-08 are shaded.
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