GWAS results

    We collected GWAS data from two large scale studies: PGC2 GWAS and CLOZUK + PGC GWAS. In 2014, the Psychiatric Genomics Consortium (PGC) reported a schizophrenia genome-wide association study (PGC2 GWAS) of up to 35,476 cases and 46,839 controls and then merged these samples with previous GWAS for a total of 36,989 cases and 113,075 controls. They identified 128 independent associations spanning 108 conservatively defined loci that meet genome-wide significance. We downloaded the summary statistics data from the PGC website http://www.med.unc.edu.
    In 2018, Pardiñas et al. collected genome-wide genotype information for 11,260 schizophrenia cases and 24,542 controls. They combined these samples with 29,415 cases and 40,101 controls from independent PGC datasets and performed meta-analysis. In total, 179 independent genome-wide significant SNPs mapping to 145 independent loci were identified to be associated with schizophrenia. We downloaded the summary statistics of this meta-analysis from http://walters.psycm.cf.ac.uk/.
    Data from SIFT, PolyPhen, CADD, EIGEN, GWAVA and LINSIGHT were used to annotate the GWAS SNPs.

Differential expression genes

    In 2016, the CommonMind Consortium reported the largest scale case-control brain prefrontal cortex (PFC) gene expression data with 258 schizophrenia cases and 279 healthy controls by RNA sequencing. We downloaded the differential expression statics summary data and detailed gene expression data from CMC website http://www.synapse.org/CMC.

Integrative analysis data

    Previously, we used the Sherlock and Summary data-based Mendelian randomization (SMR) integrative method to integrate the schizophrenia GWAS and eQTL data. All the results can be downloaded here.

GWAS genes

    We merged the genes identified by PGC2 GWAS and CLOZUK + PGC GWAS. All the results can be downloaded here.

CNV genes

    We got the genes affected by CNVs from the study of Marshall et al (PMID: 27869829). All the results can be downloaded here.

Exome sequencing genes

    We got the genes identified by exome sequencing from 16 studies (all the 16 studies can be found here). All the results can be downloaded here.

Differential methylation genes

    We got differential methylation genes from 6 studies (detailed information can be found here). All the results can be downloaded here.

Expression imputation genes

    We got the genes identified by expression imputation from the study of Huckins et al (PMID: 30911161). All the results can be downloaded here.

CNV

    We got the CNV information of schizophrenia from 77 studies (all the 77 studies can be found here). All the results can be downloaded here.

PPI

    We got the protein-protein interaction information from the study the Liu et al (PMID: 29789256). All the results can be downloaded here.

Other download information can be found in the related pages in this website.