Literature DB >> 21477781

The impact of next-generation sequencing on genomics.

Jun Zhang1, Rod Chiodini, Ahmed Badr, Genfa Zhang.   

Abstract

This article reviews basic concepts, general applications, and the potential impact of next-generation sequencing (NGS) technologies on genomics, with particular reference to currently available and possible future platforms and bioinformatics. NGS technologies have demonstrated the capacity to sequence DNA at unprecedented speed, thereby enabling previously unimaginable scientific achievements and novel biological applications. But, the massive data produced by NGS also presents a significant challenge for data storage, analyses, and management solutions. Advanced bioinformatic tools are essential for the successful application of NGS technology. As evidenced throughout this review, NGS technologies will have a striking impact on genomic research and the entire biological field. With its ability to tackle the unsolved challenges unconquered by previous genomic technologies, NGS is likely to unravel the complexity of the human genome in terms of genetic variations, some of which may be confined to susceptible loci for some common human conditions. The impact of NGS technologies on genomics will be far reaching and likely change the field for years to come.
Copyright © 2011. Published by Elsevier Ltd.

Entities:  

Mesh:

Year:  2011        PMID: 21477781      PMCID: PMC3076108          DOI: 10.1016/j.jgg.2011.02.003

Source DB:  PubMed          Journal:  J Genet Genomics        ISSN: 1673-8527            Impact factor:   4.275


  97 in total

Review 1.  Computational prediction of the effects of non-synonymous single nucleotide polymorphisms in human DNA repair genes.

Authors:  S Nakken; I Alseth; T Rognes
Journal:  Neuroscience       Date:  2006-10-19       Impact factor: 3.590

2.  Next-generation sequencing: the race is on.

Authors:  Andreas von Bubnoff
Journal:  Cell       Date:  2008-03-07       Impact factor: 41.582

3.  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 4.  Pathogenic or not? And if so, then how? Studying the effects of missense mutations using bioinformatics methods.

Authors:  Janita Thusberg; Mauno Vihinen
Journal:  Hum Mutat       Date:  2009-05       Impact factor: 4.878

5.  LookSeq: a browser-based viewer for deep sequencing data.

Authors:  Heinrich Magnus Manske; Dominic P Kwiatkowski
Journal:  Genome Res       Date:  2009-08-13       Impact factor: 9.043

Review 6.  Computational methods for discovering structural variation with next-generation sequencing.

Authors:  Paul Medvedev; Monica Stanciu; Michael Brudno
Journal:  Nat Methods       Date:  2009-11       Impact factor: 28.547

7.  Targeted enrichment of specific regions in the human genome by array hybridization.

Authors:  Catherine Igartua; Emily H Turner; Sarah B Ng; Emily Hodges; Gregory J Hannon; Arindam Bhattacharjee; Mark J Rieder; Deborah A Nickerson; Jay Shendure
Journal:  Curr Protoc Hum Genet       Date:  2010-07

8.  A highly annotated whole-genome sequence of a Korean individual.

Authors:  Jong-Il Kim; Young Seok Ju; Hansoo Park; Sheehyun Kim; Seonwook Lee; Jae-Hyuk Yi; Joann Mudge; Neil A Miller; Dongwan Hong; Callum J Bell; Hye-Sun Kim; In-Soon Chung; Woo-Chung Lee; Ji-Sun Lee; Seung-Hyun Seo; Ji-Young Yun; Hyun Nyun Woo; Heewook Lee; Dongwhan Suh; Seungbok Lee; Hyun-Jin Kim; Maryam Yavartanoo; Minhye Kwak; Ying Zheng; Mi Kyeong Lee; Hyunjun Park; Jeong Yeon Kim; Omer Gokcumen; Ryan E Mills; Alexander Wait Zaranek; Joseph Thakuria; Xiaodi Wu; Ryan W Kim; Jim J Huntley; Shujun Luo; Gary P Schroth; Thomas D Wu; HyeRan Kim; Kap-Seok Yang; Woong-Yang Park; Hyungtae Kim; George M Church; Charles Lee; Stephen F Kingsmore; Jeong-Sun Seo
Journal:  Nature       Date:  2009-07-08       Impact factor: 49.962

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.  Searching for SNPs with cloud computing.

Authors:  Ben Langmead; Michael C Schatz; Jimmy Lin; Mihai Pop; Steven L Salzberg
Journal:  Genome Biol       Date:  2009-11-20       Impact factor: 13.583

View more
  139 in total

1.  Next generation analytic tools for large scale genetic epidemiology studies of complex diseases.

Authors:  Leah E Mechanic; Huann-Sheng Chen; Christopher I Amos; Nilanjan Chatterjee; Nancy J Cox; Rao L Divi; Ruzong Fan; Emily L Harris; Kevin Jacobs; Peter Kraft; Suzanne M Leal; Kimberly McAllister; Jason H Moore; Dina N Paltoo; Michael A Province; Erin M Ramos; Marylyn D Ritchie; Kathryn Roeder; Daniel J Schaid; Matthew Stephens; Duncan C Thomas; Clarice R Weinberg; John S Witte; Shunpu Zhang; Sebastian Zöllner; Eric J Feuer; Elizabeth M Gillanders
Journal:  Genet Epidemiol       Date:  2011-12-06       Impact factor: 2.135

Review 2.  Genomics in mammalian cell culture bioprocessing.

Authors:  Diane M Wuest; Sarah W Harcum; Kelvin H Lee
Journal:  Biotechnol Adv       Date:  2011-11-04       Impact factor: 14.227

Review 3.  Applications of targeted gene capture and next-generation sequencing technologies in studies of human deafness and other genetic disabilities.

Authors:  Xi Lin; Wenxue Tang; Shoeb Ahmad; Jingqiao Lu; Candice C Colby; Jason Zhu; Qing Yu
Journal:  Hear Res       Date:  2012-01-14       Impact factor: 3.208

4.  Comparison of a high-resolution melting assay to next-generation sequencing for analysis of HIV diversity.

Authors:  Matthew M Cousins; San-San Ou; Maria J Wawer; Supriya Munshaw; David Swan; Craig A Magaret; Caroline E Mullis; David Serwadda; Stephen F Porcella; Ronald H Gray; Thomas C Quinn; Deborah Donnell; Susan H Eshleman; Andrew D Redd
Journal:  J Clin Microbiol       Date:  2012-07-11       Impact factor: 5.948

5.  eFindSite: improved prediction of ligand binding sites in protein models using meta-threading, machine learning and auxiliary ligands.

Authors:  Michal Brylinski; Wei P Feinstein
Journal:  J Comput Aided Mol Des       Date:  2013-07-10       Impact factor: 3.686

Review 6.  Emerging tools for synthetic genome design.

Authors:  Bo-Rahm Lee; Suhyung Cho; Yoseb Song; Sun Chang Kim; Byung-Kwan Cho
Journal:  Mol Cells       Date:  2013-05-02       Impact factor: 5.034

7.  Simultaneous digital quantification and fluorescence-based size characterization of massively parallel sequencing libraries.

Authors:  Matthew T Laurie; Jessica A Bertout; Sean D Taylor; Joshua N Burton; Jay A Shendure; Jason H Bielas
Journal:  Biotechniques       Date:  2013-08       Impact factor: 1.993

Review 8.  Dual RNA-seq of pathogen and host.

Authors:  Alexander J Westermann; Stanislaw A Gorski; Jörg Vogel
Journal:  Nat Rev Microbiol       Date:  2012-09       Impact factor: 60.633

Review 9.  Recent Trends in System-Scale Integrative Approaches for Discovering Protective Antigens Against Mycobacterial Pathogens.

Authors:  Aarti Rana; Shweta Thakur; Girish Kumar; Yusuf Akhter
Journal:  Front Genet       Date:  2018-11-27       Impact factor: 4.599

Review 10.  Advances in monitoring soil microbial community dynamic and function.

Authors:  K K Nkongolo; R Narendrula-Kotha
Journal:  J Appl Genet       Date:  2020-02-15       Impact factor: 3.240

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.