OpenMed/pgc-schizophrenia

PGC Schizophrenia — GWAS Summary Statistics

Dataset Description

Genome-wide association study (GWAS) summary statistics for Schizophrenia phenotypes from the Psychiatric Genomics Consortium (PGC).

This dataset contains multiple GWAS publications as separate subsets (configs). Each can be loaded independently.

Usage

from datasets import load_dataset

# Load a specific GWAS (e.g., scz2011)
ds = load_dataset("OpenMed/pgc-schizophrenia", "scz2011")
print(ds)

Available Configs

from datasets import get_dataset_config_names
configs = get_dataset_config_names("OpenMed/pgc-schizophrenia")
print(configs)

Subsets (Publications)

Config	Phenotype	Journal	Year	PubMed	Rows	License
scz2011	Schizophrenia	Nature Genetics	2011	21926974	—	CC BY 4.0
scz2013sweden	Schizophrenia (Swedish)	Nature Genetics	2013	23974872	—	CC BY 4.0
scz2014	Schizophrenia	Nature	2014	25056061	10,172,956	CC BY 4.0
scz2018clozuk	Schizophrenia (CLOZUK+PGC2)	Nature Genetics	2018	29483656	—	CC BY 4.0
scz2019asi	Schizophrenia (East Asian + European)	Nature Genetics	2019	31740837	24,253,547	CC BY 4.0
scz2022	Schizophrenia	Nature	2022	35396580	52,560,584	CC BY 4.0

Data Format

All data has been converted to Apache Parquet format with shards of 10,000 rows. Common columns include:

Column	Description
SNP / ID	SNP rsID or variant identifier
CHR	Chromosome
BP / POS	Base-pair position (typically GRCh37/hg19)
A1 / ALT	Effect allele
A2 / REF	Non-effect (reference) allele
OR / BETA	Odds ratio or effect size
SE	Standard error
P	P-value
INFO	Imputation quality score
FRQ / MAF	Allele frequency
_source_file	Original source filename

Note: Column names vary between publications. The _source_file column tracks the original file each row came from.

Citation

When using any subset, please cite:

1. The original publication (see PubMed links above)
2. The data DOI from Figshare (see supplementary metadata)
3. Acknowledge the PGC:

   "Data were obtained from the Psychiatric Genomics Consortium — https://pgc.unc.edu/"

Terms of Use

This dataset is released under the CC BY 4.0 license.

By using PGC summary statistics you agree to:

1. Cite the original publication(s)
2. Not attempt to re-identify individual participants
3. Comply with the PGC's data use policies

Source

• Consortium: Psychiatric Genomics Consortium (PGC)
• PGC Downloads: pgc.unc.edu/for-researchers/download-results/

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Last updated: April 2026