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

From: Two patients walk into a clinic...a genomics perspective on the future of schizophrenia

Confirmed common risk variants for schizophrenia     
Chomosome Variant P-value Odds Ratio 95% CI Gene Reference
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, 1012]
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, 1012]
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   [2123]
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   [2123]
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]
  1. The Odds Ratio (OR) is a measure of effect size. It is the ratio of the odds of the variant occuring in the group of people with disease versus the ratio in the control group.
  2. The 95% confidence interval (CI) gives the range within which the true OR lies with a 95% probability.
  3. CNV denotes a copy number variant, which may either be a deletion (del) or duplication (dup).
  4. An asterisk indicates that more than one variant has been implicated at this locus. Details for rare variants are provided where only one gene is implicated; typically, the other CNVs implicate 10 to 20 or more genes.