Table 1 The main replicated risk variants identified for schizophrenia with their locations and effect sizes

1p21.3

rs1625579

1.5 × 10^-11

1.12

1.09-1.16

MIR 137

[8]

2p15.1

rs2312147

1.9 × 10^-9

1.09

VRK2

[13]

2q32.1

rs1344706

2.5 × 10^-11

1.1

1.07-1.14

ZNF804A

[9]

2q32.3

rs17662626

4.65 × 10^-8

1.2

1.13-1.26

[8]

6p21.3-p22.1*

rs2021722

2.18 × 10^-12

1.15

1.11-1.19

HLA region

[8, 10–12]

8p23.2

rs10503253

1.45 × 10^-8

1.16

1.11-1.21

CSMD1

[8]

8q21.3

rs7004633

2.75 × 10^-8

1.1

1.07-1.14

[8]

10q24.32*

rs7914558

2.23 × 10^-8

1.22

1.15-1.29

CNNM2

[8]

11q24.2

rs12807809

2.8 × 10^-9

1.16

1.09-1.24

NRGN

[8, 11]

18q21.2*

rs12966547

2.35 × 10^-8

1.4

1.28-1.52

TCF4

[8, 10–12]

Confirmed rare variant risks for schizophrenia

Chomosome CNV type

Position (Mb)

P-value

Odds Ratio

95% CI

Gene

Reference

1q21.1 del

143.8-146.6

2.2 × 10^-8

8.3

3.7-19.9

[21–23]

1q21.1 dup

143.8-146.6

2 × 10^-3

3.7

1.5-8.7

[23]

2p16.3 del

50.7-51.3

5.5 × 10^-9

8.2

3.8-19.4

NRXN1

[23, 25]

3q29 del

197.2-198.83

4 × 10^-4

2.9

[23, 24]

7q36.3 dup

158.7-158.81

8.3 × 10^-5

16.4

3.11, infinity

VIPR2

[23, 24]

15q11.2 del

20.3-20.8

6 × 10^-4

2.73

1.5-4.89

[22]

15q13.3 del

28.2-30.6

2 × 10^-9

9.9

4.3-24.4

[21–23]

16 dup

9.09-9.12

1 × 10^-4

12.9

2.8-121.4

C16orf72

[23]

16p11.2 dup

15.0-18.0

1.5 × 10^-12

11.6

5.6-29.3

[23]

16p13.1 dup

29.5-30.2

7 × 10^-3

3.27

1.29-7.94

[26]

17p12 del

14.0-15.4

5 × 10^-5

10

not presented

[27]

22q11 del

17.1-19.9

< 1.0 × 10^-16

44

35.9-infinity

[23]