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Evidence for 28 genetic disorders discovered by combining healthcare and research data

Author

Listed:
  • Joanna Kaplanis

    (Wellcome Sanger Institute)

  • Kaitlin E. Samocha

    (Wellcome Sanger Institute)

  • Laurens Wiel

    (Radboud University Medical Center
    Radboud University Medical Center)

  • Zhancheng Zhang

    (GeneDx)

  • Kevin J. Arvai

    (GeneDx)

  • Ruth Y. Eberhardt

    (Wellcome Sanger Institute)

  • Giuseppe Gallone

    (Wellcome Sanger Institute)

  • Stefan H. Lelieveld

    (Radboud University Medical Center)

  • Hilary C. Martin

    (Wellcome Sanger Institute)

  • Jeremy F. McRae

    (Wellcome Sanger Institute)

  • Patrick J. Short

    (Wellcome Sanger Institute)

  • Rebecca I. Torene

    (GeneDx)

  • Elke Boer

    (Radboud University Medical Center)

  • Petr Danecek

    (Wellcome Sanger Institute)

  • Eugene J. Gardner

    (Wellcome Sanger Institute)

  • Ni Huang

    (Wellcome Sanger Institute)

  • Jenny Lord

    (Wellcome Sanger Institute
    University of Southampton)

  • Iñigo Martincorena

    (Wellcome Sanger Institute)

  • Rolph Pfundt

    (Radboud University Medical Center)

  • Margot R. F. Reijnders

    (Radboud University Medical Center
    Maastricht University Medical Centre)

  • Alison Yeung

    (Victorian Clinical Genetics Services
    Murdoch Children’s Research Institute)

  • Helger G. Yntema

    (Radboud University Medical Center)

  • Lisenka E. L. M. Vissers

    (Radboud University Medical Center)

  • Jane Juusola

    (GeneDx)

  • Caroline F. Wright

    (University of Exeter Medical School, Royal Devon & Exeter Hospital)

  • Han G. Brunner

    (Radboud University Medical Center
    Maastricht University Medical Centre
    Maastricht University Medical Centre
    Maastricht University Medical Centre)

  • Helen V. Firth

    (Wellcome Sanger Institute
    Cambridge University Hospitals NHS Foundation Trust)

  • David R. FitzPatrick

    (University of Edinburgh, Western General Hospital)

  • Jeffrey C. Barrett

    (Wellcome Sanger Institute)

  • Matthew E. Hurles

    (Wellcome Sanger Institute)

  • Christian Gilissen

    (Radboud University Medical Center)

  • Kyle Retterer

    (GeneDx)

Abstract

De novo mutations in protein-coding genes are a well-established cause of developmental disorders1. However, genes known to be associated with developmental disorders account for only a minority of the observed excess of such de novo mutations1,2. Here, to identify previously undescribed genes associated with developmental disorders, we integrate healthcare and research exome-sequence data from 31,058 parent–offspring trios of individuals with developmental disorders, and develop a simulation-based statistical test to identify gene-specific enrichment of de novo mutations. We identified 285 genes that were significantly associated with developmental disorders, including 28 that had not previously been robustly associated with developmental disorders. Although we detected more genes associated with developmental disorders, much of the excess of de novo mutations in protein-coding genes remains unaccounted for. Modelling suggests that more than 1,000 genes associated with developmental disorders have not yet been described, many of which are likely to be less penetrant than the currently known genes. Research access to clinical diagnostic datasets will be critical for completing the map of genes associated with developmental disorders.

Suggested Citation

  • Joanna Kaplanis & Kaitlin E. Samocha & Laurens Wiel & Zhancheng Zhang & Kevin J. Arvai & Ruth Y. Eberhardt & Giuseppe Gallone & Stefan H. Lelieveld & Hilary C. Martin & Jeremy F. McRae & Patrick J. Sh, 2020. "Evidence for 28 genetic disorders discovered by combining healthcare and research data," Nature, Nature, vol. 586(7831), pages 757-762, October.
  • Handle: RePEc:nat:nature:v:586:y:2020:i:7831:d:10.1038_s41586-020-2832-5
    DOI: 10.1038/s41586-020-2832-5
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    Cited by:

    1. Elizabeth J. Radford & Hong-Kee Tan & Malin H. L. Andersson & James D. Stephenson & Eugene J. Gardner & Holly Ironfield & Andrew J. Waters & Daniel Gitterman & Sarah Lindsay & Federico Abascal & Iñigo, 2023. "Saturation genome editing of DDX3X clarifies pathogenicity of germline and somatic variation," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    2. Ada J. S. Chan & Worrawat Engchuan & Miriam S. Reuter & Zhuozhi Wang & Bhooma Thiruvahindrapuram & Brett Trost & Thomas Nalpathamkalam & Carol Negrijn & Sylvia Lamoureux & Giovanna Pellecchia & Rohan , 2022. "Genome-wide rare variant score associates with morphological subtypes of autism spectrum disorder," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
    3. Ruoyu Tian & Tian Ge & Hyeokmoon Kweon & Daniel B. Rocha & Max Lam & Jimmy Z. Liu & Kritika Singh & Daniel F. Levey & Joel Gelernter & Murray B. Stein & Ellen A. Tsai & Hailiang Huang & Christopher F., 2024. "Whole-exome sequencing in UK Biobank reveals rare genetic architecture for depression," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    4. Elsa Leitão & Christopher Schröder & Ilaria Parenti & Carine Dalle & Agnès Rastetter & Theresa Kühnel & Alma Kuechler & Sabine Kaya & Bénédicte Gérard & Elise Schaefer & Caroline Nava & Nathalie Drouo, 2022. "Systematic analysis and prediction of genes associated with monogenic disorders on human chromosome X," Nature Communications, Nature, vol. 13(1), pages 1-17, December.

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