Evidence map›Paper›PMID 33046855›Full record

ArticleNature genetics2020

Evidence for secondary-variant genetic burden and non-random distribution across biological modules in a recessive ciliopathy.

Maria Kousi, Onuralp Söylemez, Aysegül Ozanturk, Niki Mourtzi, Sebastian Akle, Irwin Jungreis, Jean Muller, Christopher A Cassa, Harrison Brand, Jill Anne Mokry and 10 more

Open access · bronzeAbstract read
In one paragraph

Article in Nature genetics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.

0numbers the graph read from it
0cells of the map it votes in
25citing papers in PubMed
4.3field-weighted citation impact, top 5% 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

25 citing papers in PubMed, 35 citations in OpenAlex.

  1. Article
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  16. PPA2-associated sudden cardiac death: extending the clinical and allelic spectrum in 20 new families.Genetics in medicine : official journal of the American College of Medical Genetics · 2021
    Article
  17. Article
  18. Article
  19. Gene therapy rescues olfactory perception in a clinically relevant ciliopathy model of Bardet-Biedl syndrome.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2021
    Article
  20. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

20 authors at 7 institutions in 2 countries.

Maria Kousi *Center for Human Disease Modeling, Duke University Medical Center, Durham, NC, USA.
Onuralp Söylemez *Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Aysegül OzanturkCenter for Human Disease Modeling, Duke University Medical Center, Durham, NC, USA.
Niki MourtziAdvanced Center for Translational and Genetic Medicine, Lurie Children's Hospital, Chicago, IL, USA.
Sebastian AkleDivision of Genetics, Brigham and Women's Hospital, Boston, MA, USA.
Irwin JungreisBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-3197-5367
Jean MullerLaboratoire de Génétique Médicale, Institut de Génétique Médicale d'Alsace, INSERM U1112, Fédération de Médecine Translationnelle de Strasbourg (FMTS), Université de Strasbourg, Strasbourg, France.ORCID http://orcid.org/0000-0002-7682-559X
Christopher A CassaDivision of Genetics, Brigham and Women's Hospital, Boston, MA, USA.
Harrison BrandMolecular Neurogenetics Unit and Psychiatric and Neurodevelopmental Genetics Unit, Center for Genomic Medicine and Department of Neurology, Massachusetts General Hospital, Boston, MA, USA.
Jill Anne MokryDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA.ORCID http://orcid.org/0000-0001-5664-7987
Maxim Y WolfBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Azita SadeghpourCenter for Human Disease Modeling, Duke University Medical Center, Durham, NC, USA.
Kelsey McFaddenCenter for Human Disease Modeling, Duke University Medical Center, Durham, NC, USA.
Richard A LewisDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA.
Michael E TalkowskiMolecular Neurogenetics Unit and Psychiatric and Neurodevelopmental Genetics Unit, Center for Genomic Medicine and Department of Neurology, Massachusetts General Hospital, Boston, MA, USA.ORCID http://orcid.org/0000-0003-2889-0992
Hélène DollfusLaboratoire de Génétique Médicale, Institut de Génétique Médicale d'Alsace, INSERM U1112, Fédération de Médecine Translationnelle de Strasbourg (FMTS), Université de Strasbourg, Strasbourg, France.
Manolis KellisBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0001-7113-9630
Erica E DavisCenter for Human Disease Modeling, Duke University Medical Center, Durham, NC, USA.ORCID http://orcid.org/0000-0002-2412-8397
Shamil R SunyaevBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0001-5715-5677
Nicholas KatsanisCenter for Human Disease Modeling, Duke University Medical Center, Durham, NC, USA. nkatsanis@luriechildrens.org.ORCID http://orcid.org/0000-0002-2480-0171
Broad Institute · USDuke Medical Center · USBaylor College of Medicine · USBrigham and Women's Hospital · USInserm · FRLurie Children's Hospital · USNorthwestern University · US

Funding

GENCODE Resource ProjectU41HG007234 · NHGRI · SANGER INSTITUTE · PI FLICEK, PAUL · 2013 to 2020
$20.3M
Statistical methods for studies of rare variantsR01MH101244 · NIMH · HARVARD MEDICAL SCHOOL · PI Benjamin Michael Neale, ALKES L PRICE · 2013 to 2026
$9.4M
Molecular Genetics of BBSR01HD042601 · NICHD · LURIE CHILDREN'S HOSPITAL OF CHICAGO · PI DAVIS, ERICA ELLEN · 2003 to 2023
$8.2M
The origin, the function and the phenotypic impact of human allelesR35GM127131 · NIGMS · HARVARD MEDICAL SCHOOL · PI SHAMIL SUNYAEV · 2018 to 2026
$8.1M
Genetic and Functional Studies of Human Ciliary SyndromesR01DK072301 · NIDDK · LURIE CHILDREN'S HOSPITAL OF CHICAGO · PI DAVIS, ERICA ELLEN · 2005 to 2022
$7.2M
Clinical Diagnostic Sequencing of Structural VariationR01HD081256 · NICHD · MASSACHUSETTS GENERAL HOSPITAL · PI TALKOWSKI, MICHAEL E · 2015 to 2025
$7.2M
Scalable tool and comprehensive maps to interpret structural variation across the neuropsychiatric spectrumR01MH115957 · NIMH · BROAD INSTITUTE, INC. · PI TALKOWSKI, MICHAEL E · 2019 to 2025
$5.4M
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
Graduate Training in Computational and Systems BiologyT32GM087237 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI BURGE, CHRISTOPHER B · 2009 to 2023
$4.6M
Regulatory Morif Discovery in the Human Genome Using Comparative GenomicsR01HG004037 · NHGRI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI KELLIS, MANOLIS · 2007 to 2015
$3.9M
Integrated pathogenicity assessment of clinically actionable genetic variantsR01HG010372 · NHGRI · BRIGHAM AND WOMEN'S HOSPITAL · PI CASSA, CHRISTOPHER · 2018 to 2022
$3.5M
NHGRI NIH HHS R01 HG004037NHGRI NIH HHS R01 HG010372NHGRI NIH HHS U01 HG009080NHGRI NIH HHS U01 HG009088NHGRI NIH HHS U41 HG007234NICHD NIH HHS R01 HD042601NICHD NIH HHS R01 HD081256NIDDK NIH HHS R01 DK072301NIDDK NIH HHS R01 DK075972NIGMS NIH HHS R01 GM121317NIGMS NIH HHS R35 GM127131NIGMS NIH HHS T32 GM087237NIMH NIH HHS P20 MH084018NIMH NIH HHS R01 MH101244NIMH NIH HHS R01 MH115957Wellcome Trust
6 · The paper itself

Abstract

The influence of genetic background on driver mutations is well established; however, the mechanisms by which the background interacts with Mendelian loci remain unclear. We performed a systematic secondary-variant burden analysis of two independent cohorts of patients with Bardet-Biedl syndrome (BBS) with known recessive biallelic pathogenic mutations in one of 17 BBS genes for each individual. We observed a significant enrichment of trans-acting rare nonsynonymous secondary variants in patients with BBS compared with either population controls or a cohort of individuals with a non-BBS diagnosis and recessive variants in the same gene set. Strikingly, we found a significant over-representation of secondary alleles in chaperonin-encoding genes-a finding corroborated by the observation of epistatic interactions involving this complex in vivo. These data indicate a complex genetic architecture for BBS that informs the biological properties of disease modules and presents a model for secondary-variant burden analysis in recessive disorders.

Indexed as

Genetic VariationAllelesBardet-Biedl SyndromeCohort StudiesExomeHumans

Identifiers

PMID33046855
PMCPMC8272915
OpenAlexW3092058903

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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.