The schizophrenia genetics knowledgebase: a comprehensive update of findings from candidate gene studies

Chenxing Liu, Tetsufumi Kanazawa, Ye Tian, Suriati Mohamed Saini, Serafino Mancuso, Md Shaki Mostaid, Atsushi Takahashi, Dai Zhang, Fuquan Zhang, Hao Yu, Hyoung Doo Shin, Hyun Sub Cheong, Masashi Ikeda, Michiaki Kubo, Nakao Iwata, Sung Il Woo, Weihua Yue, Yoichiro Kamatani, Yongyong Shi, Zhiqiang LiIan Everall, Christos Pantelis, Chad Bousman

Research output: Contribution to journalArticle

Abstract

Over 3000 candidate gene association studies have been performed to elucidate the genetic underpinnings of schizophrenia. However, a comprehensive evaluation of these studies’ findings has not been undertaken since the decommissioning of the schizophrenia gene (SzGene) database in 2011. As such, we systematically identified and carried out random-effects meta-analyses for all polymorphisms with four or more independent studies in schizophrenia along with a series of expanded meta-analyses incorporating published and unpublished genome-wide association (GWA) study data. Based on 550 meta-analyses, 11 SNPs in eight linkage disequilibrium (LD) independent loci showed Bonferroni-significant associations with schizophrenia. Expanded meta-analyses identified an additional 10 SNPs, for a total of 21 Bonferroni-significant SNPs in 14 LD-independent loci. Three of these loci (MTHFR, DAOA, ARVCF) had never been implicated by a schizophrenia GWA study. In sum, the present study has provided a comprehensive summary of the current schizophrenia genetics knowledgebase and has made available all the collected data as a resource for the research community.

Original languageEnglish
Article number205
JournalTranslational psychiatry
Volume9
Issue number1
DOIs
Publication statusPublished - 01-12-2019

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Knowledge Bases
Schizophrenia
Meta-Analysis
Genes
Single Nucleotide Polymorphism
Genome-Wide Association Study
Linkage Disequilibrium
Genetic Association Studies
Databases
Research

All Science Journal Classification (ASJC) codes

  • Psychiatry and Mental health
  • Cellular and Molecular Neuroscience
  • Biological Psychiatry

Cite this

Liu, C., Kanazawa, T., Tian, Y., Mohamed Saini, S., Mancuso, S., Mostaid, M. S., ... Bousman, C. (2019). The schizophrenia genetics knowledgebase: a comprehensive update of findings from candidate gene studies. Translational psychiatry, 9(1), [205]. https://doi.org/10.1038/s41398-019-0532-4
Liu, Chenxing ; Kanazawa, Tetsufumi ; Tian, Ye ; Mohamed Saini, Suriati ; Mancuso, Serafino ; Mostaid, Md Shaki ; Takahashi, Atsushi ; Zhang, Dai ; Zhang, Fuquan ; Yu, Hao ; Doo Shin, Hyoung ; Sub Cheong, Hyun ; Ikeda, Masashi ; Kubo, Michiaki ; Iwata, Nakao ; Woo, Sung Il ; Yue, Weihua ; Kamatani, Yoichiro ; Shi, Yongyong ; Li, Zhiqiang ; Everall, Ian ; Pantelis, Christos ; Bousman, Chad. / The schizophrenia genetics knowledgebase : a comprehensive update of findings from candidate gene studies. In: Translational psychiatry. 2019 ; Vol. 9, No. 1.
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abstract = "Over 3000 candidate gene association studies have been performed to elucidate the genetic underpinnings of schizophrenia. However, a comprehensive evaluation of these studies’ findings has not been undertaken since the decommissioning of the schizophrenia gene (SzGene) database in 2011. As such, we systematically identified and carried out random-effects meta-analyses for all polymorphisms with four or more independent studies in schizophrenia along with a series of expanded meta-analyses incorporating published and unpublished genome-wide association (GWA) study data. Based on 550 meta-analyses, 11 SNPs in eight linkage disequilibrium (LD) independent loci showed Bonferroni-significant associations with schizophrenia. Expanded meta-analyses identified an additional 10 SNPs, for a total of 21 Bonferroni-significant SNPs in 14 LD-independent loci. Three of these loci (MTHFR, DAOA, ARVCF) had never been implicated by a schizophrenia GWA study. In sum, the present study has provided a comprehensive summary of the current schizophrenia genetics knowledgebase and has made available all the collected data as a resource for the research community.",
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Liu, C, Kanazawa, T, Tian, Y, Mohamed Saini, S, Mancuso, S, Mostaid, MS, Takahashi, A, Zhang, D, Zhang, F, Yu, H, Doo Shin, H, Sub Cheong, H, Ikeda, M, Kubo, M, Iwata, N, Woo, SI, Yue, W, Kamatani, Y, Shi, Y, Li, Z, Everall, I, Pantelis, C & Bousman, C 2019, 'The schizophrenia genetics knowledgebase: a comprehensive update of findings from candidate gene studies', Translational psychiatry, vol. 9, no. 1, 205. https://doi.org/10.1038/s41398-019-0532-4

The schizophrenia genetics knowledgebase : a comprehensive update of findings from candidate gene studies. / Liu, Chenxing; Kanazawa, Tetsufumi; Tian, Ye; Mohamed Saini, Suriati; Mancuso, Serafino; Mostaid, Md Shaki; Takahashi, Atsushi; Zhang, Dai; Zhang, Fuquan; Yu, Hao; Doo Shin, Hyoung; Sub Cheong, Hyun; Ikeda, Masashi; Kubo, Michiaki; Iwata, Nakao; Woo, Sung Il; Yue, Weihua; Kamatani, Yoichiro; Shi, Yongyong; Li, Zhiqiang; Everall, Ian; Pantelis, Christos; Bousman, Chad.

In: Translational psychiatry, Vol. 9, No. 1, 205, 01.12.2019.

Research output: Contribution to journalArticle

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T2 - a comprehensive update of findings from candidate gene studies

AU - Liu, Chenxing

AU - Kanazawa, Tetsufumi

AU - Tian, Ye

AU - Mohamed Saini, Suriati

AU - Mancuso, Serafino

AU - Mostaid, Md Shaki

AU - Takahashi, Atsushi

AU - Zhang, Dai

AU - Zhang, Fuquan

AU - Yu, Hao

AU - Doo Shin, Hyoung

AU - Sub Cheong, Hyun

AU - Ikeda, Masashi

AU - Kubo, Michiaki

AU - Iwata, Nakao

AU - Woo, Sung Il

AU - Yue, Weihua

AU - Kamatani, Yoichiro

AU - Shi, Yongyong

AU - Li, Zhiqiang

AU - Everall, Ian

AU - Pantelis, Christos

AU - Bousman, Chad

PY - 2019/12/1

Y1 - 2019/12/1

N2 - Over 3000 candidate gene association studies have been performed to elucidate the genetic underpinnings of schizophrenia. However, a comprehensive evaluation of these studies’ findings has not been undertaken since the decommissioning of the schizophrenia gene (SzGene) database in 2011. As such, we systematically identified and carried out random-effects meta-analyses for all polymorphisms with four or more independent studies in schizophrenia along with a series of expanded meta-analyses incorporating published and unpublished genome-wide association (GWA) study data. Based on 550 meta-analyses, 11 SNPs in eight linkage disequilibrium (LD) independent loci showed Bonferroni-significant associations with schizophrenia. Expanded meta-analyses identified an additional 10 SNPs, for a total of 21 Bonferroni-significant SNPs in 14 LD-independent loci. Three of these loci (MTHFR, DAOA, ARVCF) had never been implicated by a schizophrenia GWA study. In sum, the present study has provided a comprehensive summary of the current schizophrenia genetics knowledgebase and has made available all the collected data as a resource for the research community.

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