Evidence map›Paper›PMID 31692161›Full record

ArticleHuman mutation2020

A diagnostic ceiling for exome sequencing in cerebellar ataxia and related neurological disorders.

Kathie J Ngo, Jessica E Rexach, Hane Lee, Lauren E Petty, Susan Perlman, Juliana M Valera, Joshua L Deignan, Yuanming Mao, Mamdouh Aker, Jennifer E Posey and 16 more

Abstract read
In one paragraph

Article in Human mutation, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 56 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
56citing papers in PubMed, 2 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

56 citing papers in PubMed, 2 syntheses or guidelines pooled it.

  1. Pooled it
  2. Pooled it
  3. Frequency of ZFHX3-Mediated Spinocerebellar Ataxia 4 in a US Undiagnosed Ataxia Cohort.Movement disorders : official journal of the Movement Disorder Society · 2026
    Article
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  7. Novel homozygousTherapeutic advances in neurological disorders · 2026
    Article
  8. Identification of a novelFrontiers in genetics · 2026
    Article
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  10. Review
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  18. Review
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  20. Genetic aspects of ataxias in a cohort of Turkish patients.Neurological sciences : official journal of the Italian Neurological Society and of the Italian Society of Clinical Neurophysiology · 2024
    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

26 authors.

Kathie J NgoDepartment of Neurology, Program in Neurogenetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
Jessica E RexachDepartment of Neurology, Program in Neurogenetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
Hane LeeDepartment of Pathology and Laboratory Medicine, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
Lauren E PettyDepartment of Medical Genetics, Vanderbilt University Medical Center, Nashville, Tennessee.
Susan PerlmanDepartment of Neurology, Program in Neurogenetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
Juliana M ValeraDepartment of Neurology, Program in Neurogenetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
Joshua L DeignanDepartment of Pathology and Laboratory Medicine, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
Yuanming MaoDepartment of Neurology, Program in Neurogenetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
Mamdouh AkerDepartment of Neurology, Program in Neurogenetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
Jennifer E PoseyDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas.ORCID 0000-0003-4814-6765
Shalini N JhangianiThe Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas.
Zeynep H Coban-AkdemirDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas.
Eric BoerwinkleThe Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas.
Donna MuznyThe Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas.
Alexandra B NelsonDepartment of Neurology, UCSF Memory and Aging Center, University of California, San Francisco, California.
Sharon Hassin-BaerDepartment of Neurology, Chaim Sheba Medical Center, Movement Disorders Institute, Tel-Hashomer, Israel.
Gemma PokeGenetic Health Service NZ, Central Hub, Wellington Hospital, Wellington, New Zealand.
Katherine NeasGenetic Health Service NZ, Central Hub, Wellington Hospital, Wellington, New Zealand.
Michael D GeschwindDepartment of Neurology, UCSF Memory and Aging Center, University of California, San Francisco, California.
Wayne W GrodyDepartment of Pathology and Laboratory Medicine, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
Richard GibbsDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas.
Daniel H GeschwindDepartment of Neurology, Program in Neurogenetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
James R LupskiDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas.ORCID 0000-0001-9907-9246
Jennifer E BelowDepartment of Medical Genetics, Vanderbilt University Medical Center, Nashville, Tennessee.
Stanley F NelsonDepartment of Neurology, Program in Neurogenetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.
Brent L FogelDepartment of Neurology, Program in Neurogenetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California.ORCID 0000-0001-9831-1576

Funding

The Human Genome Sequencing CenterU54HG003273 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI GIBBS, RICHARD A · 2004 to 2015
$341.3M
UCLA Clinical Translational Science InstituteUL1TR001881 · NCATS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI ARLEEN F. BROWN, ARASH NAEIM · 2016 to 2026
$118.1M
UCLA Clinical and Translational Science InstituteUL1TR000124 · NCATS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI DUBINETT, STEVEN M. · 2012 to 2015
$57.0M
Baylor-Johns Hopkins Center for Mendelian GeneticsU54HG006542 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI VALLE, DAVID · 2012 to 2015
$15.6M
Baylor-Johns Hopkins Center for Mendelian GeneticsUM1HG006542 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI VALLE, DAVID · 2016 to 2020
$14.5M
STRUCTURAL VARIATION IN NEUROLOGICAL DISEASER35NS105078 · NINDS · BAYLOR COLLEGE OF MEDICINE · PI LUPSKI, JAMES R. · 2018 to 2025
$6.0M
Nonrecurrent rearrangements, genome architecture and neurodegenerative disease.R01NS058529 · NINDS · BAYLOR COLLEGE OF MEDICINE · PI LUPSKI, JAMES R. · 2009 to 2017
$5.0M
Functional genetic analyses of existing data resources to expand AD gene discoveryRF1AG061351 · NIA · VANDERBILT UNIVERSITY MEDICAL CENTER · PI BELOW, JENNIFER, BUSH, WILLIAM S · 2019 to 2019
$3.0M
Translational Neuroscience Training GrantR25NS065723 · NINDS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI CARMICHAEL, STANLEY THOMAS · 2009 to 2023
$2.8M
Rare and Novel Genetic Variation in the Pathogenesis of Cerebellar AtaxiaR01NS082094 · NINDS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI FOGEL, BRENT LINDEN · 2013 to 2017
$1.7M
Single cell and tissue level functional genomic analysis of astrocyte-related mechanisms in tauopathyK08NS105916 · NINDS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI REXACH, JESSICA E · 2019 to 2023
$1.1M
Individual genomic analyses to discover the molecular basis and mechanisms contributing to adult-onset diseaseK08HG008986 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI POSEY, JENNIFER ELLEN · 2017 to 2021
$831k
NCATS NIH HHS UL1 TR000124NCATS NIH HHS UL1 TR001881NHGRI NIH HHS K08 HG008986NHGRI NIH HHS U54 HG003273NHGRI NIH HHS U54HG003273NHGRI NIH HHS U54 HG006542NHGRI NIH HHS UM1 HG006542NIA NIH HHS RF1 AG061351NINDS NIH HHS K08 NS105916NINDS NIH HHS R01 NS058529NINDS NIH HHS R01NS058529NINDS NIH HHS R01 NS082094NINDS NIH HHS R25 NS065723NINDS NIH HHS R25NS065723NINDS NIH HHS R35 NS105078Wellcome Trust
6 · The paper itself

Abstract

Genetic ataxias are associated with mutations in hundreds of genes with high phenotypic overlap complicating the clinical diagnosis. Whole-exome sequencing (WES) has increased the overall diagnostic rate considerably. However, the upper limit of this method remains ill-defined, hindering efforts to address the remaining diagnostic gap. To further assess the role of rare coding variation in ataxic disorders, we reanalyzed our previously published exome cohort of 76 predominantly adult and sporadic-onset patients, expanded the total number of cases to 260, and introduced analyses for copy number variation and repeat expansion in a representative subset. For new cases (n = 184), our resulting clinically relevant detection rate remained stable at 47% with 24% classified as pathogenic. Reanalysis of the previously sequenced 76 patients modestly improved the pathogenic rate by 7%. For the combined cohort (n = 260), the total observed clinical detection rate was 52% with 25% classified as pathogenic. Published studies of similar neurological phenotypes report comparable rates. This consistency across multiple cohorts suggests that, despite continued technical and analytical advancements, an approximately 50% diagnostic rate marks a relative ceiling for current WES-based methods and a more comprehensive genome-wide assessment is needed to identify the missing causative genetic etiologies for cerebellar ataxia and related neurodegenerative diseases.

Indexed as

ExomeExome SequencingCerebellar AtaxiaDNA Copy Number VariationsGenetic Association StudiesGenetic LinkageGenetic Predisposition to DiseaseHumansMicrosatellite RepeatsNervous System Diseasesataxiacerebellar ataxiacerebellumdiagnostic testingexomegait disordersgeneticsgenomicsneurogeneticsspastic paraparesisspastic paraplegiaspinocerebellar ataxia

Identifiers

PMID31692161
PMCPMC7182470

What OpenQuestion holds

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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.