Literature DB >> 23205160

Review of massively parallel DNA sequencing technologies.

Sowmiya Moorthie1, Christopher J Mattocks, Caroline F Wright.   

Abstract

Since the development of technologies that can determine the base-pair sequence of DNA, the ability to sequence genes has contributed much to science and medicine. However, it has remained a relatively costly and laborious process, hindering its use as a routine biomedical tool. Recent times are seeing rapid developments in this field, both in the availability of novel sequencing platforms, as well as supporting technologies involved in processes such as targeting and data analysis. This is leading to significant reductions in the cost of sequencing a human genome and the potential for its use as a routine biomedical tool. This review is a snapshot of this rapidly moving field examining the current state of the art, forthcoming developments and some of the issues still to be resolved prior to the use of new sequencing technologies in routine clinical diagnosis.

Entities:  

Keywords:  Massively parallel; Next generation sequencing; Targeting

Year:  2011        PMID: 23205160      PMCID: PMC3238019          DOI: 10.1007/s11568-011-9156-3

Source DB:  PubMed          Journal:  Hugo J        ISSN: 1877-6558


  82 in total

1.  Quality scores and SNP detection in sequencing-by-synthesis systems.

Authors:  William Brockman; Pablo Alvarez; Sarah Young; Manuel Garber; Georgia Giannoukos; William L Lee; Carsten Russ; Eric S Lander; Chad Nusbaum; David B Jaffe
Journal:  Genome Res       Date:  2008-01-22       Impact factor: 9.043

2.  Mapping short DNA sequencing reads and calling variants using mapping quality scores.

Authors:  Heng Li; Jue Ruan; Richard Durbin
Journal:  Genome Res       Date:  2008-08-19       Impact factor: 9.043

Review 3.  Novel genomic techniques open new avenues in the analysis of monogenic disorders.

Authors:  Gregor Kuhlenbäumer; Julia Hullmann; Silke Appenzeller
Journal:  Hum Mutat       Date:  2011-02       Impact factor: 4.878

Review 4.  What can exome sequencing do for you?

Authors:  Jacek Majewski; Jeremy Schwartzentruber; Emilie Lalonde; Alexandre Montpetit; Nada Jabado
Journal:  J Med Genet       Date:  2011-07-05       Impact factor: 6.318

5.  The patterns and dynamics of genomic instability in metastatic pancreatic cancer.

Authors:  Peter J Campbell; Shinichi Yachida; Laura J Mudie; Philip J Stephens; Erin D Pleasance; Lucy A Stebbings; Laura A Morsberger; Calli Latimer; Stuart McLaren; Meng-Lay Lin; David J McBride; Ignacio Varela; Serena A Nik-Zainal; Catherine Leroy; Mingming Jia; Andrew Menzies; Adam P Butler; Jon W Teague; Constance A Griffin; John Burton; Harold Swerdlow; Michael A Quail; Michael R Stratton; Christine Iacobuzio-Donahue; P Andrew Futreal
Journal:  Nature       Date:  2010-10-28       Impact factor: 49.962

Review 6.  The cancer genome.

Authors:  Michael R Stratton; Peter J Campbell; P Andrew Futreal
Journal:  Nature       Date:  2009-04-09       Impact factor: 49.962

7.  Multiplex padlock targeted sequencing reveals human hypermutable CpG variations.

Authors:  Jin Billy Li; Yuan Gao; John Aach; Kun Zhang; Gregory V Kryukov; Bin Xie; Annika Ahlford; Jung-Ki Yoon; Abraham M Rosenbaum; Alexander Wait Zaranek; Emily LeProust; Shamil R Sunyaev; George M Church
Journal:  Genome Res       Date:  2009-06-12       Impact factor: 9.043

8.  Ensembl 2011.

Authors:  Paul Flicek; M Ridwan Amode; Daniel Barrell; Kathryn Beal; Simon Brent; Yuan Chen; Peter Clapham; Guy Coates; Susan Fairley; Stephen Fitzgerald; Leo Gordon; Maurice Hendrix; Thibaut Hourlier; Nathan Johnson; Andreas Kähäri; Damian Keefe; Stephen Keenan; Rhoda Kinsella; Felix Kokocinski; Eugene Kulesha; Pontus Larsson; Ian Longden; William McLaren; Bert Overduin; Bethan Pritchard; Harpreet Singh Riat; Daniel Rios; Graham R S Ritchie; Magali Ruffier; Michael Schuster; Daniel Sobral; Giulietta Spudich; Y Amy Tang; Stephen Trevanion; Jana Vandrovcova; Albert J Vilella; Simon White; Steven P Wilder; Amonida Zadissa; Jorge Zamora; Bronwen L Aken; Ewan Birney; Fiona Cunningham; Ian Dunham; Richard Durbin; Xosé M Fernández-Suarez; Javier Herrero; Tim J P Hubbard; Anne Parker; Glenn Proctor; Jan Vogel; Stephen M J Searle
Journal:  Nucleic Acids Res       Date:  2010-11-02       Impact factor: 16.971

Review 9.  Exome sequencing: the sweet spot before whole genomes.

Authors:  Jamie K Teer; James C Mullikin
Journal:  Hum Mol Genet       Date:  2010-08-12       Impact factor: 6.150

10.  Substantial biases in ultra-short read data sets from high-throughput DNA sequencing.

Authors:  Juliane C Dohm; Claudio Lottaz; Tatiana Borodina; Heinz Himmelbauer
Journal:  Nucleic Acids Res       Date:  2008-07-26       Impact factor: 16.971

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  18 in total

Review 1.  Suppression Subtractive Hybridization Versus Next-Generation Sequencing in Plant Genetic Engineering: Challenges and Perspectives.

Authors:  Mahbod Sahebi; Mohamed M Hanafi; Parisa Azizi; Abdul Hakim; Sadegh Ashkani; Rambod Abiri
Journal:  Mol Biotechnol       Date:  2015-10       Impact factor: 2.695

2.  Collaboration of colorado cancer genetic counselors to integrate next generation sequencing panels into clinical practice.

Authors:  K Wolfe Schneider; A Anguiano; L Axell; C Barth; K Crow; M Gilstrap; B A Hamlington; S Lesh; L Mullineaux; A Kulchak Rahm; E Strait; M Freivogel
Journal:  J Genet Couns       Date:  2014-05-01       Impact factor: 2.537

Review 3.  Paediatric genomics: diagnosing rare disease in children.

Authors:  Caroline F Wright; David R FitzPatrick; Helen V Firth
Journal:  Nat Rev Genet       Date:  2018-02-05       Impact factor: 53.242

4.  Next generation sequencing of fecal DNA reveals the dietary diversity of the widespread insectivorous predator Daubenton's Bat (Myotis daubentonii) in Southwestern Finland.

Authors:  Eero J Vesterinen; Thomas Lilley; Veronika N Laine; Niklas Wahlberg
Journal:  PLoS One       Date:  2013-11-27       Impact factor: 3.240

Review 5.  Recent Advances in Autism Spectrum Disorders: Applications of Whole Exome Sequencing Technology.

Authors:  Elif Funda Sener; Halit Canatan; Yusuf Ozkul
Journal:  Psychiatry Investig       Date:  2016-05-18       Impact factor: 2.505

6.  Challenging regulations: Managing risks in crop biotechnology.

Authors:  Huw D Jones
Journal:  Food Energy Secur       Date:  2015-06-22       Impact factor: 4.109

7.  Genome-wide SNP identification for the construction of a high-resolution genetic map of Japanese flounder (Paralichthys olivaceus): applications to QTL mapping of Vibrio anguillarum disease resistance and comparative genomic analysis.

Authors:  Changwei Shao; Yongchao Niu; Pasi Rastas; Yang Liu; Zhiyuan Xie; Hengde Li; Lei Wang; Yong Jiang; Shuaishuai Tai; Yongsheng Tian; Takashi Sakamoto; Songlin Chen
Journal:  DNA Res       Date:  2015-03-11       Impact factor: 4.458

8.  ROVER variant caller: read-pair overlap considerate variant-calling software applied to PCR-based massively parallel sequencing datasets.

Authors:  Bernard J Pope; Tú Nguyen-Dumont; Fleur Hammet; Daniel J Park
Journal:  Source Code Biol Med       Date:  2014-01-24

9.  Bacterial population succession and adaptation affected by insecticide application and soil spraying history.

Authors:  Hideomi Itoh; Ronald Navarro; Kazutaka Takeshita; Kanako Tago; Masahito Hayatsu; Tomoyuki Hori; Yoshitomo Kikuchi
Journal:  Front Microbiol       Date:  2014-08-29       Impact factor: 5.640

Review 10.  RAS testing in metastatic colorectal cancer: advances in Europe.

Authors:  J Han J M Van Krieken; Etienne Rouleau; Marjolijn J L Ligtenberg; Nicola Normanno; Scott D Patterson; Andreas Jung
Journal:  Virchows Arch       Date:  2015-11-16       Impact factor: 4.064

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