Rare variants in the genetic background modulate cognitive and developmental phenotypes in individuals carrying disease-associated variants.
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Pizzo L
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA.
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Jensen M
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA.
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Polyak A
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA.
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Rosenfeld JA
Department of Molecular & Human Genetics, Baylor College of Medicine, Houston, TX, USA.
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Mannik K
Center for Integrative Genomics, University of Lausanne, Lausanne, Switzerland.
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Krishnan A
Department of Computational Mathematics, Science and Engineering, Michigan State University, East Lansing, MI, USA.
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McCready E
Department of Pathology and Molecular Medicine, McMaster University, Hamilton, Ontario, Canada.
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Pichon O
CHU Nantes, Medical genetics department, Nantes, France.
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Le Caignec C
CHU Nantes, Medical genetics department, Nantes, France.
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Van Dijck A
Department of Medical Genetics, University and University Hospital Antwerp, Antwerp, Belgium.
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Pope K
Department of Paediatrics, Royal Children's Hospital, Murdoch Children's Research Institute and University of Melbourne, Melbourne, Australia.
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Voorhoeve E
Department of Clinical Genetics, Amsterdam UMC, Amsterdam, The Netherlands.
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Yoon J
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA.
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Stankiewicz P
Department of Molecular & Human Genetics, Baylor College of Medicine, Houston, TX, USA.
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Cheung SW
Department of Molecular & Human Genetics, Baylor College of Medicine, Houston, TX, USA.
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Pazuchanics D
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA.
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Huber E
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA.
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Kumar V
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA.
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Kember RL
Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
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Mari F
Medical Genetics, University of Siena, Siena, Italy.
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Curró A
Medical Genetics, University of Siena, Siena, Italy.
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Castiglia L
Oasi Research Institute-IRCCS, Troina, Italy.
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Galesi O
Oasi Research Institute-IRCCS, Troina, Italy.
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Avola E
Oasi Research Institute-IRCCS, Troina, Italy.
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Mattina T
Medical Genetics, University of Catania School of Medicine, Catania, Italy.
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Fichera M
Oasi Research Institute-IRCCS, Troina, Italy.
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Mandarà L
Medical Genetics, ASP Ragusa, Ragusa, Italy.
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Vincent M
CHU Nantes, Medical genetics department, Nantes, France.
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Nizon M
CHU Nantes, Medical genetics department, Nantes, France.
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Mercier S
CHU Nantes, Medical genetics department, Nantes, France.
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Bénéteau C
CHU Nantes, Medical genetics department, Nantes, France.
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Blesson S
Department of genetics, Bretonneau university hospital, Tours, France.
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Martin-Coignard D
Service de Cytogenetique, CHU de Le Mans, Le Mans, France.
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Mosca-Boidron AL
Laboratoire de Genetique Chromosomique et Moleculaire, CHU Dijon, France.
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Caberg JH
Centre Hospitalier Universitaire de Liège. Domaine Universitaire du Sart Tilman, Liège, Belgium.
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Bucan M
Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
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Zeesman S
McMaster University, Hamilton, Ontario, Canada.
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Nowaczyk MJM
McMaster University, Hamilton, Ontario, Canada.
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Lefebvre M
Centre de Genetique. Hopital d'Enfants Dijon, Dijon, France.
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Faivre L
Center for Rare Diseases and Reference Developmental Anomalies and Malformation Syndromes, CHU Dijon, Dijon, France.
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Callier P
Laboratoire de Genetique Chromosomique et Moleculaire, CHU Dijon, France.
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Skinner C
Greenwood Genetic Center, Greenwood, SC, USA.
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Keren B
Hopital La Pitie Salpetriere, Paris, France.
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Perrine C
Hopital La Pitie Salpetriere, Paris, France.
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Prontera P
Medical Genetics Unit, Hospital "Santa Maria della Misericordia", Perugia, Italy.
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Marle N
Laboratoire de Genetique Chromosomique et Moleculaire, CHU Dijon, France.
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Renieri A
Medical Genetics, University of Siena, Siena, Italy.
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Reymond A
Center for Integrative Genomics, University of Lausanne, Lausanne, Switzerland.
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Kooy RF
Department of Medical Genetics, University and University Hospital Antwerp, Antwerp, Belgium.
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Isidor B
CHU Nantes, Medical genetics department, Nantes, France.
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Schwartz C
Greenwood Genetic Center, Greenwood, SC, USA.
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Romano C
Oasi Research Institute-IRCCS, Troina, Italy.
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Sistermans E
Department of Clinical Genetics, Amsterdam UMC, Amsterdam, The Netherlands.
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Amor DJ
Department of Paediatrics, Royal Children's Hospital, Murdoch Children's Research Institute and University of Melbourne, Melbourne, Australia.
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Andrieux J
Institut de Genetique Medicale, Hopital Jeanne de Flandre, CHRU de Lille, Lille, France.
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Girirajan S
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA. sxg47@psu.edu.
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Published in:
- Genetics in medicine : official journal of the American College of Medical Genetics. - 2019
English
PURPOSE
To assess the contribution of rare variants in the genetic background toward variability of neurodevelopmental phenotypes in individuals with rare copy-number variants (CNVs) and gene-disruptive variants.
METHODS
We analyzed quantitative clinical information, exome sequencing, and microarray data from 757 probands and 233 parents and siblings who carry disease-associated variants.
RESULTS
The number of rare likely deleterious variants in functionally intolerant genes ("other hits") correlated with expression of neurodevelopmental phenotypes in probands with 16p12.1 deletion (n=23, p=0.004) and in autism probands carrying gene-disruptive variants (n=184, p=0.03) compared with their carrier family members. Probands with 16p12.1 deletion and a strong family history presented more severe clinical features (p=0.04) and higher burden of other hits compared with those with mild/no family history (p=0.001). The number of other hits also correlated with severity of cognitive impairment in probands carrying pathogenic CNVs (n=53) or de novo pathogenic variants in disease genes (n=290), and negatively correlated with head size among 80 probands with 16p11.2 deletion. These co-occurring hits involved known disease-associated genes such as SETD5, AUTS2, and NRXN1, and were enriched for cellular and developmental processes.
CONCLUSION
Accurate genetic diagnosis of complex disorders will require complete evaluation of the genetic background even after a candidate disease-associated variant is identified.
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Language
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Open access status
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hybrid
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Identifiers
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Persistent URL
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https://folia.unifr.ch/global/documents/213090
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