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Genome Sequencing of Autism-Affected Families Reveals Disruption of Putative Noncoding Regulatory DNA.
Turner, Tychele N; Hormozdiari, Fereydoun; Duyzend, Michael H; McClymont, Sarah A; Hook, Paul W; Iossifov, Ivan; Raja, Archana; Baker, Carl; Hoekzema, Kendra; Stessman, Holly A; Zody, Michael C; Nelson, Bradley J; Huddleston, John; Sandstrom, Richard; Smith, Joshua D; Hanna, David; Swanson, James M; Faustman, Elaine M; Bamshad, Michael J; Stamatoyannopoulos, John; Nickerson, Deborah A; McCallion, Andrew S; Darnell, Robert; Eichler, Evan E.
Afiliación
  • Turner TN; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Hormozdiari F; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Duyzend MH; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • McClymont SA; McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.
  • Hook PW; McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.
  • Iossifov I; Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA; New York Genome Center, New York, NY 10013, USA.
  • Raja A; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA; Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA.
  • Baker C; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Hoekzema K; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Stessman HA; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Zody MC; New York Genome Center, New York, NY 10013, USA.
  • Nelson BJ; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Huddleston J; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA; Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA.
  • Sandstrom R; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Smith JD; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Hanna D; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Swanson JM; Department of Pediatrics, University of California, Irvine, CA 92612, USA.
  • Faustman EM; Department of Environmental and Occupational Health Sciences, University of Washington, Seattle, WA 98105, USA.
  • Bamshad MJ; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA; Department of Pediatrics, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Stamatoyannopoulos J; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • Nickerson DA; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
  • McCallion AS; McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.
  • Darnell R; New York Genome Center, New York, NY 10013, USA; Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA; Rockefeller University, New York, NY 10065, USA.
  • Eichler EE; Department of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA; Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195, USA. Electronic address: eee@gs.washington.edu.
Am J Hum Genet ; 98(1): 58-74, 2016 Jan 07.
Article en En | MEDLINE | ID: mdl-26749308
We performed whole-genome sequencing (WGS) of 208 genomes from 53 families affected by simplex autism. For the majority of these families, no copy-number variant (CNV) or candidate de novo gene-disruptive single-nucleotide variant (SNV) had been detected by microarray or whole-exome sequencing (WES). We integrated multiple CNV and SNV analyses and extensive experimental validation to identify additional candidate mutations in eight families. We report that compared to control individuals, probands showed a significant (p = 0.03) enrichment of de novo and private disruptive mutations within fetal CNS DNase I hypersensitive sites (i.e., putative regulatory regions). This effect was only observed within 50 kb of genes that have been previously associated with autism risk, including genes where dosage sensitivity has already been established by recurrent disruptive de novo protein-coding mutations (ARID1B, SCN2A, NR3C2, PRKCA, and DSCAM). In addition, we provide evidence of gene-disruptive CNVs (in DISC1, WNT7A, RBFOX1, and MBD5), as well as smaller de novo CNVs and exon-specific SNVs missed by exome sequencing in neurodevelopmental genes (e.g., CANX, SAE1, and PIK3CA). Our results suggest that the detection of smaller, often multiple CNVs affecting putative regulatory elements might help explain additional risk of simplex autism.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Trastorno Autístico / ADN / Genoma Humano Límite: Female / Humans / Male Idioma: En Revista: Am J Hum Genet Año: 2016 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Estados Unidos
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Trastorno Autístico / ADN / Genoma Humano Límite: Female / Humans / Male Idioma: En Revista: Am J Hum Genet Año: 2016 Tipo del documento: Article País de afiliación: Estados Unidos Pais de publicación: Estados Unidos