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SZDB2.0: an updated comprehensive resource for schizophrenia research

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Abstract

During the past decade, genetic studies of schizophrenia have become one of the most exciting and fast-moving areas. Hundreds of genes implicated in schizophrenia have been identified by genetic, epigenetic, and gene expression studies. However, how to systematically and efficiently use these published data to pinpoint the causal genes becomes a major challenge in schizophrenia research. Here, we release an updated version of a comprehensive database for schizophrenia research, SZDB2.0 (www.szdb.org), which accompanies significant data expansion and feature improvements, as well as functionality optimization. Compared with the first version (SZDB), the current database has the following updates: (1) We added the newly published genome-wide association study (GWAS) of schizophrenia from CLOZUK + PGC, which is the largest GWAS for schizophrenia; (2) We included a polygenic risk score calculator; (3) In the refined “Gene” module of SZDB2.0, we collated genetic, gene expression, methylation, and integrative results of all available schizophrenia studies; (4) In the “CNV (copy number variation)” module, we collated the results of all 77 CNV publications about schizophrenia; (5) We also updated other data, including gene expression quantitative trait loci (eQTL), transcript QTL, methylation QTL, and protein–protein interaction data, based on the information from the latest literatures. We optimized the query interface of SZDB2.0 for a better visualization and data retrieval. The updated SZDB2.0 will advance the research of schizophrenia.

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Acknowledgements

We thank the participants in the CMC and GTEx. The CMC is supported by the funding from Takeda Pharmaceuticals Company Limited, F. Hoffman-La Roche Ltd. and NIH Grants R01MH085542, R01MH093725, P50MH066392, P50MH080405, R01MH097276, RO1-MH-075916, P50M096891, P50MH084053S1, R37MH057881 and R37MH057881S1, HHSN271201300031C, AG02219, AG05138, and MH06692. Brain tissue for the study was obtained from the following brain bank collections: the Mount Sinai NIH Brain and Tissue Repository, the University of Pennsylvania Alzheimer’s Disease Core Center, the University of Pittsburgh NeuroBioBank and Brain and Tissue Repositories, and the NIMH Human Brain Collection Core. CMC Leadership: Pamela Sklar, Joseph Buxbaum (Icahn School of Medicine at Mount Sinai), Bernie Devlin, David Lewis (University of Pittsburgh), Raquel Gur, Chang-Gyu Hahn (University of Pennsylvania), Keisuke Hirai, Hiroyoshi Toyoshiba (Takeda Pharmaceuticals Company Limited), Enrico Domenici, Laurent Essioux (F. Hoffman-La Roche Ltd), Lara Mangravite, Mette Peters (Sage Bionetworks), and Thomas Lehner, Barbara Lipska (NIMH). The Genotype-Tissue Expression (GTEx) Project was supported by the Common Fund of the Office of the Director of the National Institutes of Health, and by NCI, NHGRI, NHLBI, NIDA, NIMH, and NINDS.

Funding

This study was supported by the National Natural Science Foundation of China (Grant No. 31730037 to YGY and 31722029 to XJL), the Project for International Collaboration of the Bureau of International Collaboration, CAS (152453KYSB20170031/GJHZ1846 to Y-GY), the Bureau of Frontier Sciences and Education, CAS (Grant No. QYZDJ-SSW-SMC005 to YGY), and the Strategic Priority Research Program (B) of CAS (XDB32020200 to YGY).

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  1. Key Laboratory of Animal Models and Human Disease Mechanisms of the Chinese Academy of Sciences and Yunnan Province, Kunming Institute of Zoology, Kunming, 650223, Yunnan, China

    Yong Wu, Xiaoyan Li, Jiewei Liu, Xiong-Jian Luo & Yong-Gang Yao

  2. Kunming College of Life Science, University of Chinese Academy of Sciences, Kunming, 650204, Yunnan, China

    Yong Wu, Xiaoyan Li, Xiong-Jian Luo & Yong-Gang Yao

  3. Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China

    Xiong-Jian Luo

  4. CAS Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Sciences, Shanghai, 200031, China

    Yong-Gang Yao

  5. KIZ-CUHK Joint Laboratory of Bioresources and Molecular Research in Common Diseases, Chinese Academy of Sciences, Kunming Institute of Zoology, Kunming, 650223, Yunnan, China

    Xiong-Jian Luo & Yong-Gang Yao

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Wu, Y., Li, X., Liu, J. et al. SZDB2.0: an updated comprehensive resource for schizophrenia research. Hum Genet 139, 1285–1297 (2020). https://doi.org/10.1007/s00439-020-02171-1

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