Evidence map›Paper›PMID 29691392›Full record

ArticleNature communications2018

Medical relevance of protein-truncating variants across 337,205 individuals in the UK Biobank study.

Christopher DeBoever, Yosuke Tanigawa, Malene E Lindholm, Greg McInnes, Adam Lavertu, Erik Ingelsson, Chris Chang, Euan A Ashley, Carlos D Bustamante, Mark J Daly and 1 more

Abstract read
In one paragraph

Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 79 papers, 6 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
79citing papers in PubMed, 6 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

79 citing papers in PubMed, 6 syntheses or guidelines pooled it.

  1. Pooled it
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  7. Article
  8. Review
  9. Leveraging Mendelian randomization to inform drug discovery and development for ischemic stroke.Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism · 2026
    Review
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19 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

11 authors.

Christopher DeBoeverDepartment of Biomedical Data Science, Stanford University, Stanford, CA, 94305, USA.
Yosuke TanigawaDepartment of Biomedical Data Science, Stanford University, Stanford, CA, 94305, USA.ORCID http://orcid.org/0000-0001-9759-157X
Malene E LindholmGrail, Inc., 1525 O'Brien Drive, Menlo Park, CA, 94025, USA.
Greg McInnesDepartment of Biomedical Data Science, Stanford University, Stanford, CA, 94305, USA.
Adam LavertuDepartment of Biomedical Data Science, Stanford University, Stanford, CA, 94305, USA.
Erik IngelssonDivision of Cardiovascular Medicine, Department of Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA.
Chris ChangGrail, Inc., 1525 O'Brien Drive, Menlo Park, CA, 94025, USA.
Euan A AshleyDepartment of Medicine, School of Medicine, Stanford University, Stanford, CA, 94305, USA.ORCID http://orcid.org/0000-0001-9418-9577
Carlos D BustamanteDepartment of Biomedical Data Science, Stanford University, Stanford, CA, 94305, USA.
Mark J DalyAnalytical and Translational Genetics Unit, Boston, MA, 02114, USA.ORCID http://orcid.org/0000-0002-0949-8752
Manuel A RivasDepartment of Biomedical Data Science, Stanford University, Stanford, CA, 94305, USA. mrivas@stanford.edu.

Funding

Pilot & Feasibility ProgramP30DK043351 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI RAYMOND T CHUNG · 1991 to 2026
$35.3M
Stanford Center for Undiagnosed DiseasesU01HG007708 · NHGRI · STANFORD UNIVERSITY · PI ASHLEY, EUAN A, BERNSTEIN, JONATHAN ADAM · 2014 to 2018
$8.0M
Optimizing imputation for diverse populations in a distributed frameworkU01HG009080 · NHGRI · STANFORD UNIVERSITY · PI KENNY, EIMEAR ELIZABETH · 2016 to 2020
$5.2M
NHGRI Genome Sequencing Program Coordinating CenterU24HG008956 · NHGRI · RUTGERS, THE STATE UNIV OF N.J. · PI BUYSKE, STEVEN G, MATISE, TARA C. · 2016 to 2020
$4.9M
Causal associations of circulating biomarkers with cardiovascular diseaseR01HL135313 · NHLBI · STANFORD UNIVERSITY · PI INGELSSON, ERIK · 2017 to 2019
$1.6M
Biomedical Data Science Graduate Training at StanfordT32LM012409 · NLM · STANFORD UNIVERSITY · PI PLEVRITIS, SYLVIA KATINA · 2016 to 2020
$1.5M
Stanford MoTrPAC Bioinformatics CenterU24EB023674 · NIBIB · STANFORD UNIVERSITY · PI ASHLEY, EUAN A · 2017 to 2017
$396k
Medical Research Council MC_PC_17228Medical Research Council MC_QA137853NHGRI NIH HHS U01 HG007708NHGRI NIH HHS U01 HG009080NHGRI NIH HHS U24 HG008956NHLBI NIH HHS R01 HL135313NIBIB NIH HHS U24 EB023674NIDDK NIH HHS P30 DK043351NLM NIH HHS T32 LM012409
6 · The paper itself

Abstract

Protein-truncating variants can have profound effects on gene function and are critical for clinical genome interpretation and generating therapeutic hypotheses, but their relevance to medical phenotypes has not been systematically assessed. Here, we characterize the effect of 18,228 protein-truncating variants across 135 phenotypes from the UK Biobank and find 27 associations between medical phenotypes and protein-truncating variants in genes outside the major histocompatibility complex. We perform phenome-wide analyses and directly measure the effect in homozygous carriers, commonly referred to as "human knockouts," across medical phenotypes for genes implicated as being protective against disease or associated with at least one phenotype in our study. We find several genes with strong pleiotropic or non-additive effects. Our results illustrate the importance of protein-truncating variants in a variety of diseases.

Indexed as

Databases, Nucleic AcidSequence DeletionGenome-Wide Association StudyHumansPhenotypeProteinsUnited KingdomProteins

Identifiers

PMID29691392
PMCPMC5915386

What OpenQuestion holds

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LicenceCC BY
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.