Data download

To download FinnGen summary statistics you will need to fill the online form at this link. You will then receive an email containing the detailed instructions for downloading the data.

Using FinnGen data for publications

Please remember to acknowledge the FinnGen study when using these results in publications.

You can use the following text:

We want to acknowledge the participants and investigators of FinnGen study.

Manifest

The Manifest file with the link to all the downloadable summary statistics is available at: https://storage.googleapis.com/finngen-public-data-r2/summary_stats/r2_manifest.tsv

Description

GWAS summary stats (tab-delimited, bgzipped, genome build 38, filtered to INFO > 0.6, tabix index files included) are named as {endpoint}.gz. For example, endpoint I9_CHD has I9_CHD.gz and I9_CHD.gz.tbi.

To learn more about the methods used, see section GWAS.

The {endpoint}.gz have the following structure:

Column name	Description
chrom	chromosome on build GRCh38 (1-22, X)
pos	position in base pairs on build GRCh38
ref	reference allele
alt	alternative allele (effect allele)
rsids	variant identifier
nearest_genes	nearest gene name from variant
pval	p-value from SAIGE
beta	effect size estimated with SAIGE for the alternative allele
sebeta	standard deviation of effect size estimated with SAIGE
maf	minor allele frequency
maf_cases	minor allele frequency among cases
maf_controls	minor allele frequency among controls