Evidence map›Paper›PMID 31636271›Full record

ArticleNature communications2019

A comprehensive study of metabolite genetics reveals strong pleiotropy and heterogeneity across time and context.

Apolline Gallois, Joel Mefford, Arthur Ko, Amaury Vaysse, Hanna Julienne, Mika Ala-Korpela, Markku Laakso, Noah Zaitlen, Päivi Pajukanta, Hugues Aschard

Abstract read
In one paragraph

Article in Nature communications, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers, 3 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
49citing papers in PubMed, 3 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

49 citing papers in PubMed, 3 syntheses or guidelines pooled it.

  1. Pooled it
  2. Pooled it
  3. Large-scale Integrated Analysis of Genetics and Metabolomic Data Reveals Potential Links Between Lipids and Colorectal Cancer Risk.Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology · 2022
    Pooled it
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  17. The Relationship between Changes inJournal of cardiovascular development and disease · 2023
    Review
  18. An epidemiological introduction to human metabolomic investigations.Trends in endocrinology and metabolism: TEM · 2023
    Review
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors.

Apolline GalloisDepartment of Computational Biology - USR 3756 CNRS, Institut Pasteur, Paris, France.
Joel MeffordDepartment of Medicine, University of California, San Francisco, CA, USA.
Arthur KoDepartment of Human Genetics, University of California, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0002-1523-7225
Amaury VaysseDepartment of Computational Biology - USR 3756 CNRS, Institut Pasteur, Paris, France.ORCID http://orcid.org/0000-0003-2397-4230
Hanna JulienneDepartment of Computational Biology - USR 3756 CNRS, Institut Pasteur, Paris, France.
Mika Ala-KorpelaSystems Epidemiology, Baker Heart and Diabetes Institute, Melbourne, VIC, Australia.
Markku LaaksoDepartment of Medicine, University of Eastern Finland and Kuopio University Hospital, Kuopio, Finland.ORCID http://orcid.org/0000-0002-3394-7749
Noah ZaitlenDepartment of Medicine, University of California, San Francisco, CA, USA. Noah.Zaitlen@ucsf.edu.
Päivi PajukantaDepartment of Human Genetics, University of California, Los Angeles, CA, USA. PPajukanta@mednet.ucla.edu.ORCID http://orcid.org/0000-0002-6423-8056
Hugues AschardDepartment of Computational Biology - USR 3756 CNRS, Institut Pasteur, Paris, France. hugues.aschard@pasteur.fr.ORCID http://orcid.org/0000-0003-0907-2548

Funding

Systems genomics of metabolic syndrome traitsP01HL028481 · NHLBI · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI DAVIS, RICHARD C · 1985 to 2019
$50.2M
Methods for Genome-wide Association Studies in Admixed PopulationsR01HG006399 · NHGRI · HARVARD UNIVERSITY D/B/A HARVARD SCHOOL OF PUBLIC HEALTH · PI PRICE, ALKES L · 2011 to 2024
$6.3M
Genomics of dyslipidemia in MexicansR01HL095056 · NHLBI · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI PAJUKANTA, PAIVI · 2009 to 2018
$5.9M
(PQ3) A functional genomic approach to identification and interpretation of germline-tumor genetic interactionsR01CA227237 · NCI · DANA-FARBER CANCER INST · PI GUSEV, ALEXANDER, ZAITLEN, NOAH A · 2018 to 2022
$3.5M
Functional genetic variants for type 2 diabetesU01DK105561 · NIDDK · UNIV OF NORTH CAROLINA CHAPEL HILL · PI MOHLKE, KAREN L. · 2015 to 2019
$2.3M
Richer Models of Asthma Risk: Bridging the Environment-Genetics DivideK25HL121295 · NHLBI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI ZAITLEN, NOAH A · 2014 to 2018
$784k
Leveraging Novel Multivariate Methods of Subphenotypes in Genetic Association Studies of Sjogren’s SyndromeR03DE025665 · NIDCR · HARVARD SCHOOL OF PUBLIC HEALTH · PI ASCHARD, HUGUES, ZAITLEN, NOAH A · 2016 to 2017
$494k
Identifying Genome-scale Interaction Effects in Human Traits and DiseasesR21HG007687 · NHGRI · HARVARD SCHOOL OF PUBLIC HEALTH · PI ASCHARD, HUGUES · 2015 to 2016
$444k
NCI NIH HHS R01 CA227237NHGRI NIH HHS R01 HG006399NHGRI NIH HHS R21 HG007687NHLBI NIH HHS K25 HL121295NHLBI NIH HHS P01 HL028481NHLBI NIH HHS R01 HL095056NIDCR NIH HHS R03 DE025665NIDDK NIH HHS U01 DK105561
6 · The paper itself

Abstract

Genetic studies of metabolites have identified thousands of variants, many of which are associated with downstream metabolic and obesogenic disorders. However, these studies have relied on univariate analyses, reducing power and limiting context-specific understanding. Here we aim to provide an integrated perspective of the genetic basis of metabolites by leveraging the Finnish Metabolic Syndrome In Men (METSIM) cohort, a unique genetic resource which contains metabolic measurements, mostly lipids, across distinct time points as well as information on statin usage. We increase effective sample size by an average of two-fold by applying the Covariates for Multi-phenotype Studies (CMS) approach, identifying 588 significant SNP-metabolite associations, including 228 new associations. Our analysis pinpoints a small number of master metabolic regulator genes, balancing the relative proportion of dozens of metabolite levels. We further identify associations to changes in metabolic levels across time as well as genetic interactions with statin at both the master metabolic regulator and genome-wide level.

Indexed as

Genetic PleiotropyAgedAmino AcidsCohort StudiesFatty AcidsGene Regulatory NetworksGenome-Wide Association StudyHumansLipoproteins, HDLLipoproteins, IDLLipoproteins, LDLLipoproteins, VLDLMagnetic Resonance SpectroscopyMaleMetabolic SyndromeMetabolomeAmino AcidsFatty AcidsLipoproteins, HDLLipoproteins, IDLLipoproteins, LDLLipoproteins, VLDL

Identifiers

PMID31636271
PMCPMC6803661

What OpenQuestion holds

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LicenceCC BY
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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.