Evidence map›Paper›PMID 26833085›Full record

ArticleNature communications2016

Joint mouse-human phenome-wide association to test gene function and disease risk.

Xusheng Wang, Ashutosh K Pandey, Megan K Mulligan, Evan G Williams, Khyobeni Mozhui, Zhengsheng Li, Virginija Jovaisaite, L Darryl Quarles, Zhousheng Xiao, Jinsong Huang and 16 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 104 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
104citing papers in PubMed, 1 pooled it
11.1field-weighted citation impact, top 1% of its field
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

104 citing papers in PubMed, 1 synthesis or guideline pooled it, 149 citations in OpenAlex.

  1. Pooled it
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  12. Adaptations in glutathione-based redox protein signaling pathways and alcohol drinking across species.Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie · 2024
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44 more citing papers are in PubMed but not listed here.

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

26 authors at 8 institutions in 3 countries.

Xusheng WangDepartment of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
Ashutosh K PandeyDepartment of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
Megan K MulliganDepartment of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
Evan G WilliamsLaboratory of Integrative and Systems Physiology, School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne 1015, Switzerland.
Khyobeni MozhuiDepartment of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
Zhengsheng LiDepartment of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
Virginija JovaisaiteLaboratory of Integrative and Systems Physiology, School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne 1015, Switzerland.
L Darryl QuarlesDepartment of Medicine, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
Zhousheng XiaoDepartment of Medicine, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
Jinsong HuangDepartment of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
John A CapraDepartment of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, Tennessee 37232, USA.
Zugen ChenDepartment of Human Genetics, University of California, Los Angeles, California 90095, USA.
William L TaylorMolecular Resource Center, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
Lisa BastaracheDepartment of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, Tennessee 37232, USA.
Xinnan NiuDepartment of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, Tennessee 37232, USA.
Katherine S PollardGladstone Institutes, San Francisco, California 94158, USA.
Daniel C CiobanuDepartment of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
Alexander O ReznikJoint Institute for Computational Sciences, University of Tennessee-Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA.
Artem V TishkovJoint Institute for Computational Sciences, University of Tennessee-Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA.
Igor B ZhulinJoint Institute for Computational Sciences, University of Tennessee-Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, USA.ORCID http://orcid.org/0000-0002-6708-5323
Junmin PengSt Jude Proteomics Facility, St Jude Children's Research Hospital, Memphis, Tennessee 38105, USA.
Stanley F NelsonDepartment of Human Genetics, University of California, Los Angeles, California 90095, USA.
Joshua C DennyDepartment of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, Tennessee 37232, USA.
Johan AuwerxLaboratory of Integrative and Systems Physiology, School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne 1015, Switzerland.
Lu LuDepartment of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
Robert W WilliamsDepartment of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA.
University of Tennessee Health Science Center · USVanderbilt University · USÉcole Polytechnique Fédérale de Lausanne · CHOak Ridge National Laboratory · USSt. Jude Children's Research Hospital · USUniversity of California, Los Angeles · USGladstone Institutes · USUniversity of Nebraska–Lincoln · US

Funding

VANDERBILT UNIVERSITY CTSA FOR PEDIATRIC RESEARCHUL1RR024975 · NCRR · VANDERBILT UNIVERSITY · PI BERNARD, GORDON RAPHAEL · 2007 to 2011
$45.7M
The Vanderbilt Institute for Clinical and Translational Research (VICTR)UL1TR000445 · NCATS · VANDERBILT UNIVERSITY MEDICAL CENTER · PI BERNARD, GORDON RAPHAEL · 2012 to 2016
$41.4M
From GWAS to PheWAS: Scanning the EMR Phenome for Gene-disease AssociationsR01LM010685 · NLM · VANDERBILT UNIVERSITY MEDICAL CENTER · PI BASTARACHE, LISA · 2011 to 2022
$6.3M
Regulation and Function of FGF23R01AR045955 · NIAMS · UNIVERSITY OF TENNESSEE HEALTH SCI CTR · PI QUARLES, L DARRYL · 1999 to 2016
$4.8M
Systems Genetics of Alcohol Response and Stress Effects in CNSU01AA013499 · NIAAA · UNIVERSITY OF TENNESSEE HEALTH SCI CTR · PI WILLIAMS, ROBERT W. · 2002 to 2016
$4.8M
Computational Genomics of Signal TransductionR01GM072285 · NIGMS · UNIVERSITY OF TENNESSEE KNOXVILLE · PI JOULINE, IGOR B. · 2004 to 2018
$3.2M
INIA-STRESS: Informatics and Analysis CoreU01AA016662 · NIAAA · VIRGINIA COMMONWEALTH UNIVERSITY · PI WILLIAMS, ROBERT W. · 2007 to 2016
$2.9M
Translational Systems Genetics of Mitochondria, Metabolism, and AgingR01AG043930 · NIA · UNIVERSITY OF TENNESSEE HEALTH SCI CTR · PI WILLIAMS, ROBERT W. · 2013 to 2017
$2.5M
GPU-Accelerated Parallel Computer for Drug Discovery ApplicationsS10OD020154 · OD · VANDERBILT UNIVERSITY · PI SMITH, JARROD ANSON · 2015 to 2015
$225k
NCATS NIH HHS UL1 TR000445NCRR NIH HHS UL1 RR024975NIAAA NIH HHS U01 AA013499NIAAA NIH HHS U01 AA016662NIAMS NIH HHS R01 AR045955NIA NIH HHS R01 AG043930NIA NIH HHS R01AG043930NIGMS NIH HHS R01 GM072285NLM NIH HHS R01 LM010685NLM NIH HHS R01-LM010685
6 · The paper itself

Abstract

Phenome-wide association is a novel reverse genetic strategy to analyze genome-to-phenome relations in human clinical cohorts. Here we test this approach using a large murine population segregating for ∼5 million sequence variants, and we compare our results to those extracted from a matched analysis of gene variants in a large human cohort. For the mouse cohort, we amassed a deep and broad open-access phenome consisting of ∼4,500 metabolic, physiological, pharmacological and behavioural traits, and more than 90 independent expression quantitative trait locus (QTL), transcriptome, proteome, metagenome and metabolome data sets--by far the largest coherent phenome for any experimental cohort (www.genenetwork.org). We tested downstream effects of subsets of variants and discovered several novel associations, including a missense mutation in fumarate hydratase that controls variation in the mitochondrial unfolded protein response in both mouse and Caenorhabditis elegans, and missense mutations in Col6a5 that underlies variation in bone mineral density in both mouse and human.

Indexed as

Genetic Predisposition to DiseaseGenetic VariationAnimalsBone DensityCaenorhabditis elegansFumarate HydrataseGene Expression RegulationGene LibraryGenome-Wide Association StudyGenomicsHumansMiceMice, Inbred DBAQuantitative Trait LociFumarate Hydratase

Identifiers

PMID26833085
PMCPMC4740880
OpenAlexW2296912573

What OpenQuestion holds

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Read underepoch 390

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.