Literature DB >> 19377476

A systematic, large-scale resequencing screen of X-chromosome coding exons in mental retardation.

Patrick S Tarpey1, Raffaella Smith, Erin Pleasance, Annabel Whibley, Sarah Edkins, Claire Hardy, Sarah O'Meara, Calli Latimer, Ed Dicks, Andrew Menzies, Phil Stephens, Matt Blow, Chris Greenman, Yali Xue, Chris Tyler-Smith, Deborah Thompson, Kristian Gray, Jenny Andrews, Syd Barthorpe, Gemma Buck, Jennifer Cole, Rebecca Dunmore, David Jones, Mark Maddison, Tatiana Mironenko, Rachel Turner, Kelly Turrell, Jennifer Varian, Sofie West, Sara Widaa, Paul Wray, Jon Teague, Adam Butler, Andrew Jenkinson, Mingming Jia, David Richardson, Rebecca Shepherd, Richard Wooster, M Isabel Tejada, Francisco Martinez, Gemma Carvill, Rene Goliath, Arjan P M de Brouwer, Hans van Bokhoven, Hilde Van Esch, Jamel Chelly, Martine Raynaud, Hans-Hilger Ropers, Fatima E Abidi, Anand K Srivastava, James Cox, Ying Luo, Uma Mallya, Jenny Moon, Josef Parnau, Shehla Mohammed, John L Tolmie, Cheryl Shoubridge, Mark Corbett, Alison Gardner, Eric Haan, Sinitdhorn Rujirabanjerd, Marie Shaw, Lucianne Vandeleur, Tod Fullston, Douglas F Easton, Jackie Boyle, Michael Partington, Anna Hackett, Michael Field, Cindy Skinner, Roger E Stevenson, Martin Bobrow, Gillian Turner, Charles E Schwartz, Jozef Gecz, F Lucy Raymond, P Andrew Futreal, Michael R Stratton.   

Abstract

Large-scale systematic resequencing has been proposed as the key future strategy for the discovery of rare, disease-causing sequence variants across the spectrum of human complex disease. We have sequenced the coding exons of the X chromosome in 208 families with X-linked mental retardation (XLMR), the largest direct screen for constitutional disease-causing mutations thus far reported. The screen has discovered nine genes implicated in XLMR, including SYP, ZNF711 and CASK reported here, confirming the power of this strategy. The study has, however, also highlighted issues confronting whole-genome sequencing screens, including the observation that loss of function of 1% or more of X-chromosome genes is compatible with apparently normal existence.

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Year:  2009        PMID: 19377476      PMCID: PMC2872007          DOI: 10.1038/ng.367

Source DB:  PubMed          Journal:  Nat Genet        ISSN: 1061-4036            Impact factor:   38.330


  40 in total

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2.  Mutations in ZDHHC9, which encodes a palmitoyltransferase of NRAS and HRAS, cause X-linked mental retardation associated with a Marfanoid habitus.

Authors:  F Lucy Raymond; Patrick S Tarpey; Sarah Edkins; Calli Tofts; Sarah O'Meara; Jon Teague; Adam Butler; Claire Stevens; Syd Barthorpe; Gemma Buck; Jennifer Cole; Ed Dicks; Kristian Gray; Kelly Halliday; Katy Hills; Jonathon Hinton; David Jones; Andrew Menzies; Janet Perry; Keiran Raine; Rebecca Shepherd; Alexandra Small; Jennifer Varian; Sara Widaa; Uma Mallya; Jenny Moon; Ying Luo; Marie Shaw; Jackie Boyle; Bronwyn Kerr; Gillian Turner; Oliver Quarrell; Trevor Cole; Douglas F Easton; Richard Wooster; Martin Bobrow; Charles E Schwartz; Jozef Gecz; Michael R Stratton; P Andrew Futreal
Journal:  Am J Hum Genet       Date:  2007-03-20       Impact factor: 11.025

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Authors:  J J Polder; W J Meerding; L Bonneux; P J van der Maas
Journal:  J Intellect Disabil Res       Date:  2002-02

Review 4.  X-linked mental retardation.

Authors:  H-Hilger Ropers; Ben C J Hamel
Journal:  Nat Rev Genet       Date:  2005-01       Impact factor: 53.242

5.  Adaptive protein evolution at the Adh locus in Drosophila.

Authors:  J H McDonald; M Kreitman
Journal:  Nature       Date:  1991-06-20       Impact factor: 49.962

Review 6.  Mobile elements and mammalian genome evolution.

Authors:  Prescott L Deininger; John V Moran; Mark A Batzer; Haig H Kazazian
Journal:  Curr Opin Genet Dev       Date:  2003-12       Impact factor: 5.578

7.  An etiological survey of the severely retarded Hertfordshire children who were born between January 1, 1965 and December 31, 1967.

Authors:  R Laxova; M A Ridler; M Bowen-Bravery
Journal:  Am J Med Genet       Date:  1977

8.  Mutations in UPF3B, a member of the nonsense-mediated mRNA decay complex, cause syndromic and nonsyndromic mental retardation.

Authors:  Patrick S Tarpey; F Lucy Raymond; Lam S Nguyen; Jayson Rodriguez; Anna Hackett; Lucianne Vandeleur; Raffaella Smith; Cheryl Shoubridge; Sarah Edkins; Claire Stevens; Sarah O'Meara; Calli Tofts; Syd Barthorpe; Gemma Buck; Jennifer Cole; Kelly Halliday; Katy Hills; David Jones; Tatiana Mironenko; Janet Perry; Jennifer Varian; Sofie West; Sara Widaa; John Teague; Ed Dicks; Adam Butler; Andrew Menzies; David Richardson; Andrew Jenkinson; Rebecca Shepherd; Keiran Raine; Jenny Moon; Yin Luo; Josep Parnau; Shambhu S Bhat; Alison Gardner; Mark Corbett; Doug Brooks; Paul Thomas; Emma Parkinson-Lawrence; Mary E Porteous; John P Warner; Tracy Sanderson; Pauline Pearson; Richard J Simensen; Cindy Skinner; George Hoganson; Duane Superneau; Richard Wooster; Martin Bobrow; Gillian Turner; Roger E Stevenson; Charles E Schwartz; P Andrew Futreal; Anand K Srivastava; Michael R Stratton; Jozef Gécz
Journal:  Nat Genet       Date:  2007-08-19       Impact factor: 38.330

9.  Patterns of somatic mutation in human cancer genomes.

Authors:  Christopher Greenman; Philip Stephens; Raffaella Smith; Gillian L Dalgliesh; Christopher Hunter; Graham Bignell; Helen Davies; Jon Teague; Adam Butler; Claire Stevens; Sarah Edkins; Sarah O'Meara; Imre Vastrik; Esther E Schmidt; Tim Avis; Syd Barthorpe; Gurpreet Bhamra; Gemma Buck; Bhudipa Choudhury; Jody Clements; Jennifer Cole; Ed Dicks; Simon Forbes; Kris Gray; Kelly Halliday; Rachel Harrison; Katy Hills; Jon Hinton; Andy Jenkinson; David Jones; Andy Menzies; Tatiana Mironenko; Janet Perry; Keiran Raine; Dave Richardson; Rebecca Shepherd; Alexandra Small; Calli Tofts; Jennifer Varian; Tony Webb; Sofie West; Sara Widaa; Andy Yates; Daniel P Cahill; David N Louis; Peter Goldstraw; Andrew G Nicholson; Francis Brasseur; Leendert Looijenga; Barbara L Weber; Yoke-Eng Chiew; Anna DeFazio; Mel F Greaves; Anthony R Green; Peter Campbell; Ewan Birney; Douglas F Easton; Georgia Chenevix-Trench; Min-Han Tan; Sok Kean Khoo; Bin Tean Teh; Siu Tsan Yuen; Suet Yi Leung; Richard Wooster; P Andrew Futreal; Michael R Stratton
Journal:  Nature       Date:  2007-03-08       Impact factor: 49.962

Review 10.  XLMR genes: update 2007.

Authors:  Pietro Chiurazzi; Charles E Schwartz; Jozef Gecz; Giovanni Neri
Journal:  Eur J Hum Genet       Date:  2008-01-16       Impact factor: 4.246

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  259 in total

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Journal:  Am J Hum Genet       Date:  2010-05-06       Impact factor: 11.025

Review 2.  Malformation syndromes caused by disorders of cholesterol synthesis.

Authors:  Forbes D Porter; Gail E Herman
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3.  A missense mutation in CLIC2 associated with intellectual disability is predicted by in silico modeling to affect protein stability and dynamics.

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4.  Deep sequencing reveals 50 novel genes for recessive cognitive disorders.

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Journal:  Nature       Date:  2011-09-21       Impact factor: 49.962

5.  Haploinsufficiency of ARID1B, a member of the SWI/SNF-a chromatin-remodeling complex, is a frequent cause of intellectual disability.

Authors:  Juliane Hoyer; Arif B Ekici; Sabine Endele; Bernt Popp; Christiane Zweier; Antje Wiesener; Eva Wohlleber; Andreas Dufke; Eva Rossier; Corinna Petsch; Markus Zweier; Ina Göhring; Alexander M Zink; Gudrun Rappold; Evelin Schröck; Dagmar Wieczorek; Olaf Riess; Hartmut Engels; Anita Rauch; André Reis
Journal:  Am J Hum Genet       Date:  2012-03-09       Impact factor: 11.025

Review 6.  Genetic variation in the epigenetic machinery and mental health.

Authors:  Chris Murgatroyd; Dietmar Spengler
Journal:  Curr Psychiatry Rep       Date:  2012-04       Impact factor: 5.285

Review 7.  Next generation sequencing for clinical diagnostics-principles and application to targeted resequencing for hypertrophic cardiomyopathy: a paper from the 2009 William Beaumont Hospital Symposium on Molecular Pathology.

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Journal:  J Mol Diagn       Date:  2010-09       Impact factor: 5.568

8.  Detection of clinically relevant exonic copy-number changes by array CGH.

Authors:  Philip M Boone; Carlos A Bacino; Chad A Shaw; Patricia A Eng; Patricia M Hixson; Amber N Pursley; Sung-Hae L Kang; Yaping Yang; Joanna Wiszniewska; Beata A Nowakowska; Daniela del Gaudio; Zhilian Xia; Gayle Simpson-Patel; LaDonna L Immken; James B Gibson; Anne C-H Tsai; Jennifer A Bowers; Tyler E Reimschisel; Christian P Schaaf; Lorraine Potocki; Fernando Scaglia; Tomasz Gambin; Maciej Sykulski; Magdalena Bartnik; Katarzyna Derwinska; Barbara Wisniowiecka-Kowalnik; Seema R Lalani; Frank J Probst; Weimin Bi; Arthur L Beaudet; Ankita Patel; James R Lupski; Sau Wai Cheung; Pawel Stankiewicz
Journal:  Hum Mutat       Date:  2010-11-02       Impact factor: 4.878

9.  Complexity and diversity of F8 genetic variations in the 1000 genomes.

Authors:  J N Li; I G Carrero; J F Dong; F L Yu
Journal:  J Thromb Haemost       Date:  2015-10-20       Impact factor: 5.824

10.  Tracking brain palmitoylation change: predominance of glial change in a mouse model of Huntington's disease.

Authors:  Junmei Wan; Jeffrey N Savas; Amy F Roth; Shaun S Sanders; Roshni R Singaraja; Michael R Hayden; John R Yates; Nicholas G Davis
Journal:  Chem Biol       Date:  2013-11-07
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