Literature DB >> 29769805

Genome-wide sequencing technologies: A primer for paediatricians.

Robin Z Hayeems1,2, Kym M Boycott3,4,5.   

Abstract

Genetic testing has been a routine part of paediatic medicine for decades. Over time, the number of genetic tests available for children presenting with features thought to be explained by an underlying genetic aetiology has expanded considerably. Genome-wide sequencing approaches (e.g., whole-exome sequencing, whole-genome sequencing) are now emerging as the most comprehensive approaches to genetic diagnosis that we have seen to date; multiple serial tests that were once required for a child under diagnostic investigation can now be accomplished in a single assay. Moreover, the performance of this single assay appears to be superior to the sum of its parts. Despite this promise, technical, ethical and access-related complexities require considerable attention prior to the implementation of these tools in mainstream paediatrics. To ready paediatricians for the eventual transition to genome-based diagnostics, herein we review both the elements and delivery considerations of this emerging technology.

Entities:  

Keywords:  Diagnostic testing; Genome-wide sequencing; Paediatrics; Rare disease

Year:  2017        PMID: 29769805      PMCID: PMC5951083          DOI: 10.1093/pch/pxx152

Source DB:  PubMed          Journal:  Paediatr Child Health        ISSN: 1205-7088            Impact factor:   2.253


  34 in total

Review 1.  Axons to Exons: the Molecular Diagnosis of Rare Neurological Diseases by Next-Generation Sequencing.

Authors:  Jodi Warman Chardon; Chandree Beaulieu; Taila Hartley; Kym M Boycott; David A Dyment
Journal:  Curr Neurol Neurosci Rep       Date:  2015-09       Impact factor: 5.081

2.  It does matter: the importance of making the diagnosis of a genetic syndrome.

Authors:  Nathaniel H Robin
Journal:  Curr Opin Pediatr       Date:  2006-12       Impact factor: 2.856

3.  Matchmaking facilitates the diagnosis of an autosomal-recessive mitochondrial disease caused by biallelic mutation of the tRNA isopentenyltransferase (TRIT1) gene.

Authors:  Kristin D Kernohan; David A Dyment; Mihaela Pupavac; Zvi Cramer; Arran McBride; Genevieve Bernard; Isabella Straub; Martine Tetreault; Taila Hartley; Lijia Huang; Erick Sell; Jacek Majewski; David S Rosenblatt; Eric Shoubridge; Aziz Mhanni; Tara Myers; Virginia Proud; Samanta Vergano; Brooke Spangler; Emily Farrow; Jennifer Kussman; Nicole Safina; Carol Saunders; Kym M Boycott; Isabelle Thiffault
Journal:  Hum Mutat       Date:  2017-03-06       Impact factor: 4.878

4.  Management of genetic epilepsies: From empirical treatment to precision medicine.

Authors:  Pasquale Striano; Maria Stella Vari; Chiara Mazzocchetti; Alberto Verrotti; Federico Zara
Journal:  Pharmacol Res       Date:  2016-04-11       Impact factor: 7.658

Review 5.  Consensus statement: chromosomal microarray is a first-tier clinical diagnostic test for individuals with developmental disabilities or congenital anomalies.

Authors:  David T Miller; Margaret P Adam; Swaroop Aradhya; Leslie G Biesecker; Arthur R Brothman; Nigel P Carter; Deanna M Church; John A Crolla; Evan E Eichler; Charles J Epstein; W Andrew Faucett; Lars Feuk; Jan M Friedman; Ada Hamosh; Laird Jackson; Erin B Kaminsky; Klaas Kok; Ian D Krantz; Robert M Kuhn; Charles Lee; James M Ostell; Carla Rosenberg; Stephen W Scherer; Nancy B Spinner; Dimitri J Stavropoulos; James H Tepperberg; Erik C Thorland; Joris R Vermeesch; Darrel J Waggoner; Michael S Watson; Christa Lese Martin; David H Ledbetter
Journal:  Am J Hum Genet       Date:  2010-05-14       Impact factor: 11.025

6.  Contribution of birth defects and genetic diseases to pediatric hospitalizations. A population-based study.

Authors:  P W Yoon; R S Olney; M J Khoury; W M Sappenfield; G F Chavez; D Taylor
Journal:  Arch Pediatr Adolesc Med       Date:  1997-11

7.  Recommendations for reporting of secondary findings in clinical exome and genome sequencing, 2016 update (ACMG SF v2.0): a policy statement of the American College of Medical Genetics and Genomics.

Authors:  Sarah S Kalia; Kathy Adelman; Sherri J Bale; Wendy K Chung; Christine Eng; James P Evans; Gail E Herman; Sophia B Hufnagel; Teri E Klein; Bruce R Korf; Kent D McKelvey; Kelly E Ormond; C Sue Richards; Christopher N Vlangos; Michael Watson; Christa L Martin; David T Miller
Journal:  Genet Med       Date:  2016-11-17       Impact factor: 8.822

Review 8.  Recommendations for the integration of genomics into clinical practice.

Authors:  Sarah Bowdin; Adel Gilbert; Emma Bedoukian; Christopher Carew; Margaret P Adam; John Belmont; Barbara Bernhardt; Leslie Biesecker; Hans T Bjornsson; Miriam Blitzer; Lisa C A D'Alessandro; Matthew A Deardorff; Laurie Demmer; Alison Elliott; Gerald L Feldman; Ian A Glass; Gail Herman; Lucia Hindorff; Fuki Hisama; Louanne Hudgins; A Micheil Innes; Laird Jackson; Gail Jarvik; Raymond Kim; Bruce Korf; David H Ledbetter; Mindy Li; Eriskay Liston; Christian Marshall; Livija Medne; M Stephen Meyn; Nasim Monfared; Cynthia Morton; John J Mulvihill; Sharon E Plon; Heidi Rehm; Amy Roberts; Cheryl Shuman; Nancy B Spinner; D James Stavropoulos; Kathleen Valverde; Darrel J Waggoner; Alisha Wilkens; Ronald D Cohn; Ian D Krantz
Journal:  Genet Med       Date:  2016-05-12       Impact factor: 8.822

9.  Improved diagnostic yield compared with targeted gene sequencing panels suggests a role for whole-genome sequencing as a first-tier genetic test.

Authors:  Anath C Lionel; Gregory Costain; Nasim Monfared; Susan Walker; Miriam S Reuter; S Mohsen Hosseini; Bhooma Thiruvahindrapuram; Daniele Merico; Rebekah Jobling; Thomas Nalpathamkalam; Giovanna Pellecchia; Wilson W L Sung; Zhuozhi Wang; Peter Bikangaga; Cyrus Boelman; Melissa T Carter; Dawn Cordeiro; Cheryl Cytrynbaum; Sharon D Dell; Priya Dhir; James J Dowling; Elise Heon; Stacy Hewson; Linda Hiraki; Michal Inbar-Feigenberg; Regan Klatt; Jonathan Kronick; Ronald M Laxer; Christoph Licht; Heather MacDonald; Saadet Mercimek-Andrews; Roberto Mendoza-Londono; Tino Piscione; Rayfel Schneider; Andreas Schulze; Earl Silverman; Komudi Siriwardena; O Carter Snead; Neal Sondheimer; Joanne Sutherland; Ajoy Vincent; Jonathan D Wasserman; Rosanna Weksberg; Cheryl Shuman; Chris Carew; Michael J Szego; Robin Z Hayeems; Raveen Basran; Dimitri J Stavropoulos; Peter N Ray; Sarah Bowdin; M Stephen Meyn; Ronald D Cohn; Stephen W Scherer; Christian R Marshall
Journal:  Genet Med       Date:  2017-08-03       Impact factor: 8.822

Review 10.  Processes and preliminary outputs for identification of actionable genes as incidental findings in genomic sequence data in the Clinical Sequencing Exploratory Research Consortium.

Authors:  Jonathan S Berg; Laura M Amendola; Christine Eng; Eliezer Van Allen; Stacy W Gray; Nikhil Wagle; Heidi L Rehm; Elizabeth T DeChene; Matthew C Dulik; Fuki M Hisama; Wylie Burke; Nancy B Spinner; Levi Garraway; Robert C Green; Sharon Plon; James P Evans; Gail P Jarvik
Journal:  Genet Med       Date:  2013-10-24       Impact factor: 8.822

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  6 in total

1.  Recommendations for neonatologists and pediatricians working in first level birthing centers on the first communication of genetic disease and malformation syndrome diagnosis: consensus issued by 6 Italian scientific societies and 4 parents' associations.

Authors:  Gregorio Serra; Luigi Memo; Alessandra Coscia; Mario Giuffré; Ambra Iuculano; Mariano Lanna; Diletta Valentini; Anna Contardi; Sauro Filippeschi; Tiziana Frusca; Fabio Mosca; Luca A Ramenghi; Corrado Romano; Annalisa Scopinaro; Alberto Villani; Giuseppe Zampino; Giovanni Corsello
Journal:  Ital J Pediatr       Date:  2021-04-19       Impact factor: 2.638

2.  Please give me a copy of my child's raw genomic data.

Authors:  Lauren Chad; Michael J Szego
Journal:  NPJ Genom Med       Date:  2021-02-17       Impact factor: 8.617

Review 3.  The diagnostic rate of inherited metabolic disorders by exome sequencing in a cohort of 547 individuals with developmental disorders.

Authors:  Julian Delanne; Ange-Line Bruel; Frédéric Huet; Sébastien Moutton; Sophie Nambot; Margot Grisval; Nada Houcinat; Paul Kuentz; Arthur Sorlin; Patrick Callier; Nolwenn Jean-Marcais; Anne-Laure Mosca-Boidron; Frédéric Tran Mau-Them; Anne-Sophie Denommé-Pichon; Antonio Vitobello; Daphné Lehalle; Salima El Chehadeh; Christine Francannet; Marine Lebrun; Laetitia Lambert; Marie-Line Jacquemont; Marion Gerard-Blanluet; Jean-Luc Alessandri; Marjolaine Willems; Julien Thevenon; Mondher Chouchane; Véronique Darmency; Clémence Fatus-Fauconnier; Sébastien Gay; Marie Bournez; Alice Masurel; Vanessa Leguy; Yannis Duffourd; Christophe Philippe; François Feillet; Laurence Faivre; Christel Thauvin-Robinet
Journal:  Mol Genet Metab Rep       Date:  2021-10-18

Review 4.  Genetic Testing for Rare Diseases: A Systematic Review of Ethical Aspects.

Authors:  Judith Kruse; Regina Mueller; Ali A Aghdassi; Markus M Lerch; Sabine Salloch
Journal:  Front Genet       Date:  2022-01-26       Impact factor: 4.599

5.  Positioning whole exome sequencing in the diagnostic pathway for rare disease to optimise utility: a protocol for an observational cohort study and an economic evaluation.

Authors:  Robin Z Hayeems; Francois Bernier; Kym M Boycott; Taila Hartley; Christine Michaels-Igbokwe; Deborah A Marshall
Journal:  BMJ Open       Date:  2022-10-10       Impact factor: 3.006

Review 6.  Utility of Genetic Testing from the Perspective of Parents/Caregivers: A Scoping Review.

Authors:  Robin Z Hayeems; Stephanie Luca; Daniel Assamad; Ayushi Bhatt; Wendy J Ungar
Journal:  Children (Basel)       Date:  2021-03-27
  6 in total

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