METSIM Lipoproteins GWAS (2017)

Results on this site correspond to GWAS of lipoprotein particles in the METSIM study.

Common, low-frequency, and rare genetic variants associated with lipoprotein subclasses
and triglyceride measures in Finnish men from the METSIM study

James P. Davis, Jeroen R. Huyghe, Adam E. Locke2, Anne U. Jackson2, Xueling Sim2,
Heather M. Stringham2, Tanya M. Teslovich2, Ryan P. Welch2, Christian Fuchsberger2,
Narisu Narisu3, Peter S. Chines3, Antti J. Kangas4, Pasi Soininen4,5, Mika Ala-Korpela4,5,6,
Johanna Kuusisto7, Francis S. Collins3, Markku Laakso, Michael Boehnke, Karen L. Mohlke1¶*

1) Department of Genetics, University of North Carolina, Chapel Hill, NC, 27599 USA
2) Department of Biostatistics and Center for Statistical Genetics, University of Michigan, Ann Arbor, MI, 48109 USA
3) National Human Genome Research Institute, National Institutes of Health, Bethesda, MD, 20892 USA
4) Computational Medicine, Faculty of Medicine, University of Oulu and Biocenter Oulu, Oulu, Finland
5) NMR Metabolomics Laboratory, School of Pharmacy, University of Eastern Finland, Kuopio, Finland
6) School of Social and Community Medicine, University of Bristol and
   Medical Research Council Integrative Epidemiology Unit at the University of Bristol, Bristol, United Kingdom
7) Institute of Clinical Medicine, Internal Medicine, University of Eastern Finland and Kuopio University Hospital, 70210 Kuopio, Finland

¶ These authors contributed equally to this work.

* Corresponding author


The result file includes the following columns:

Column Label Description
#CHROM Chromosome
END Position of the variant (GRCh37)
MARKER_ID ID of the variant in EPACTS format: {chr}:{pos}_{ref}/{alt}_{id}, where id may be an rsID if available.
NS Number of called samples
AC Alternate allele count
CALLRATE Proportion of called samples (NS/n)
GENOCNT Genotype counts
MAF Minor allele frequency
TRAIT.P P-value for TRAIT - see the table below for a file containing description of each trait

Files can be downloaded here:

File Size Date Description
metsim_lipoproteins_2017_v1_results.tsv.gz 4.6G 2017-10-10 First release of the results. This file contains all 72 traits.
metsim_lipoproteins_2017_v1_traits.tsv 3.5K 2017-10-10 List of traits and their descriptions.


Please contact Jim Davis, Karen Mohlke, and Michael Boehnke with comments or questions.

For technical problems with the website, email Ryan Welch.