Evidence map›Paper›PMID 29038595›Full record

ArticleNature genetics2017

Covariate selection for association screening in multiphenotype genetic studies.

Hugues Aschard, Vincent Guillemot, Bjarni Vilhjalmsson, Chirag J Patel, David Skurnik, Chun J Ye, Brian Wolpin, Peter Kraft, Noah Zaitlen

Abstract read
In one paragraph

Article in Nature genetics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
18citing papers in PubMed, 1 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

18 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Article
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  6. An epidemiological introduction to human metabolomic investigations.Trends in endocrinology and metabolism: TEM · 2023
    Review
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  13. Genetically Predicted Circulating C-Reactive Protein Concentration and Colorectal Cancer Survival: A Mendelian Randomization Consortium Study.Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology · 2021
    Article
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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

9 authors.

Hugues AschardCentre de Bioinformatique, Biostatistique et Biologie Intégrative (C3BI), Institut Pasteur, Paris, France.ORCID http://orcid.org/0000-0002-7554-6783
Vincent GuillemotCentre de Bioinformatique, Biostatistique et Biologie Intégrative (C3BI), Institut Pasteur, Paris, France.
Bjarni VilhjalmssonBioinformatics Research Centre, Aarhus University, Aarhus, Denmark.
Chirag J PatelDepartment of Biomedical Informatics, Harvard Medical School, Boston, Massachusetts, USA.ORCID http://orcid.org/0000-0002-8756-8525
David SkurnikDivision of Infectious Diseases, Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, Massachusetts, USA.
Chun J YeDepartment of Epidemiology and Biostatistics, Institute of Human Genetics, San Francisco, California, USA.
Brian WolpinCenter for Gastrointestinal Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, Massachusetts, USA.
Peter KraftDepartment of Epidemiology, Harvard TH Chan School of Public Health, Boston, Massachusetts, USA.
Noah ZaitlenDepartment of Medicine, University of California, San Francisco, San Francisco, California, USA.

Funding

Statistical Methods for Analysis of Massive Genetic and Genomic Data in Cancer ResearchR35CA197449 · NCI · HARVARD UNIVERSITY D/B/A HARVARD SCHOOL OF PUBLIC HEALTH · PI XIHONG LIN · 2015 to 2026
$10.9M
Statistical methods for studies of rare variantsR01MH101244 · NIMH · HARVARD MEDICAL SCHOOL · PI Benjamin Michael Neale, ALKES L PRICE · 2013 to 2026
$9.4M
Circulating Biomarker Consortium for Pancreatic Cancer Early DetectionU01CA210171 · NCI · DANA-FARBER CANCER INST · PI Michael H. Rosenthal, Brian Matthew Wolpin · 2016 to 2026
$8.7M
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
Optimizing imputation for diverse populations in a distributed frameworkU01HG009080 · NHGRI · STANFORD UNIVERSITY · PI KENNY, EIMEAR ELIZABETH · 2016 to 2020
$5.2M
Powering whole genome sequence-based genetic discovery for common human diseases- Extended 2021-2022.U01HG009088 · NHGRI · HARVARD SCHOOL OF PUBLIC HEALTH · PI LIN, XIHONG, NEALE, BENJAMIN MICHAEL · 2016 to 2021
$5.1M
Big Data Analysis of HIV Risk and Epidemiology in Sub-Saharan AfricaR01AI127250 · NIAID · STANFORD UNIVERSITY · PI BENDAVID, ERAN, PATEL, CHIRAG J. · 2017 to 2020
$2.7M
Richer Models of Asthma Risk: Bridging the Environment-Genetics DivideK25HL121295 · NHLBI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI ZAITLEN, NOAH A · 2014 to 2018
$784k
Data-driven identification of environmental factors in cardiovascular diseaseR00ES023504 · NIEHS · HARVARD MEDICAL SCHOOL · PI PATEL, CHIRAG J. · 2016 to 2018
$728k
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 R35 CA197449NCI NIH HHS U01 CA210171NHGRI NIH HHS R01 HG006399NHGRI NIH HHS R21 HG007687NHGRI NIH HHS U01 HG009080NHGRI NIH HHS U01 HG009088NHLBI NIH HHS K25 HL121295NIAID NIH HHS R01 AI127250NIDCR NIH HHS R03 DE025665NIEHS NIH HHS R00 ES023504NIMH NIH HHS R01 MH101244
6 · The paper itself

Abstract

Testing for associations in big data faces the problem of multiple comparisons, wherein true signals are difficult to detect on the background of all associations queried. This difficulty is particularly salient in human genetic association studies, in which phenotypic variation is often driven by numerous variants of small effect. The current strategy to improve power to identify these weak associations consists of applying standard marginal statistical approaches and increasing study sample sizes. Although successful, this approach does not leverage the environmental and genetic factors shared among the multiple phenotypes collected in contemporary cohorts. Here we developed covariates for multiphenotype studies (CMS), an approach that improves power when correlated phenotypes are measured on the same samples. Our analyses of real and simulated data provide direct evidence that correlated phenotypes can be used to achieve increases in power to levels often surpassing the power gained by a twofold increase in sample size.

Indexed as

Genetic VariationMultivariate AnalysisAlgorithmsGenetic Association StudiesGenome-Wide Association StudyGenotypeHumansModels, GeneticPhenotypeReproducibility of ResultsSample Size

Identifiers

PMID29038595
PMCPMC5797835

What OpenQuestion holds

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Registered trials

None linked

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.