Literature DB >> 21204006

The next-generation sequencing technology and application.

Xiaoguang Zhou1, Lufeng Ren, Qingshu Meng, Yuntao Li, Yude Yu, Jun Yu.   

Abstract

As one of the key technologies in biomedical research, DNA sequencing has not only improved its productivity with an exponential growth rate but also been applied to new areas of application over the past few years. This is largely due to the advent of newer generations of sequencing platforms, offering ever-faster and cheaper ways to analyze sequences. In our previous review, we looked into technical characteristics of the next-generation sequencers and provided prospective insights into their future development. In this article, we present a brief overview of the advantages and shortcomings of key commercially available platforms with a focus on their suitability for a broad range of applications.

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Year:  2010        PMID: 21204006      PMCID: PMC4875313          DOI: 10.1007/s13238-010-0065-3

Source DB:  PubMed          Journal:  Protein Cell        ISSN: 1674-800X            Impact factor:   14.870


  101 in total

Review 1.  Steady progress and recent breakthroughs in the accuracy of automated genome annotation.

Authors:  Michael R Brent
Journal:  Nat Rev Genet       Date:  2008-01       Impact factor: 53.242

2.  Microbial population structures in the deep marine biosphere.

Authors:  Julie A Huber; David B Mark Welch; Hilary G Morrison; Susan M Huse; Phillip R Neal; David A Butterfield; Mitchell L Sogin
Journal:  Science       Date:  2007-10-05       Impact factor: 47.728

3.  A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome.

Authors:  Marc Sultan; Marcel H Schulz; Hugues Richard; Alon Magen; Andreas Klingenhoff; Matthias Scherf; Martin Seifert; Tatjana Borodina; Aleksey Soldatov; Dmitri Parkhomchuk; Dominic Schmidt; Sean O'Keeffe; Stefan Haas; Martin Vingron; Hans Lehrach; Marie-Laure Yaspo
Journal:  Science       Date:  2008-07-03       Impact factor: 47.728

Review 4.  Next-generation DNA sequencing methods.

Authors:  Elaine R Mardis
Journal:  Annu Rev Genomics Hum Genet       Date:  2008       Impact factor: 8.929

5.  A complex system of small RNAs in the unicellular green alga Chlamydomonas reinhardtii.

Authors:  Tao Zhao; Guanglin Li; Shijun Mi; Shan Li; Gregory J Hannon; Xiu-Jie Wang; Yijun Qi
Journal:  Genes Dev       Date:  2007-04-30       Impact factor: 11.361

6.  The sequence and de novo assembly of the giant panda genome.

Authors:  Ruiqiang Li; Wei Fan; Geng Tian; Hongmei Zhu; Lin He; Jing Cai; Quanfei Huang; Qingle Cai; Bo Li; Yinqi Bai; Zhihe Zhang; Yaping Zhang; Wen Wang; Jun Li; Fuwen Wei; Heng Li; Min Jian; Jianwen Li; Zhaolei Zhang; Rasmus Nielsen; Dawei Li; Wanjun Gu; Zhentao Yang; Zhaoling Xuan; Oliver A Ryder; Frederick Chi-Ching Leung; Yan Zhou; Jianjun Cao; Xiao Sun; Yonggui Fu; Xiaodong Fang; Xiaosen Guo; Bo Wang; Rong Hou; Fujun Shen; Bo Mu; Peixiang Ni; Runmao Lin; Wubin Qian; Guodong Wang; Chang Yu; Wenhui Nie; Jinhuan Wang; Zhigang Wu; Huiqing Liang; Jiumeng Min; Qi Wu; Shifeng Cheng; Jue Ruan; Mingwei Wang; Zhongbin Shi; Ming Wen; Binghang Liu; Xiaoli Ren; Huisong Zheng; Dong Dong; Kathleen Cook; Gao Shan; Hao Zhang; Carolin Kosiol; Xueying Xie; Zuhong Lu; Hancheng Zheng; Yingrui Li; Cynthia C Steiner; Tommy Tsan-Yuk Lam; Siyuan Lin; Qinghui Zhang; Guoqing Li; Jing Tian; Timing Gong; Hongde Liu; Dejin Zhang; Lin Fang; Chen Ye; Juanbin Zhang; Wenbo Hu; Anlong Xu; Yuanyuan Ren; Guojie Zhang; Michael W Bruford; Qibin Li; Lijia Ma; Yiran Guo; Na An; Yujie Hu; Yang Zheng; Yongyong Shi; Zhiqiang Li; Qing Liu; Yanling Chen; Jing Zhao; Ning Qu; Shancen Zhao; Feng Tian; Xiaoling Wang; Haiyin Wang; Lizhi Xu; Xiao Liu; Tomas Vinar; Yajun Wang; Tak-Wah Lam; Siu-Ming Yiu; Shiping Liu; Hemin Zhang; Desheng Li; Yan Huang; Xia Wang; Guohua Yang; Zhi Jiang; Junyi Wang; Nan Qin; Li Li; Jingxiang Li; Lars Bolund; Karsten Kristiansen; Gane Ka-Shu Wong; Maynard Olson; Xiuqing Zhang; Songgang Li; Huanming Yang; Jian Wang; Jun Wang
Journal:  Nature       Date:  2009-12-13       Impact factor: 49.962

Review 7.  RNA-Seq: a revolutionary tool for transcriptomics.

Authors:  Zhong Wang; Mark Gerstein; Michael Snyder
Journal:  Nat Rev Genet       Date:  2009-01       Impact factor: 53.242

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

9.  Genome-wide mapping of in vivo protein-DNA interactions.

Authors:  David S Johnson; Ali Mortazavi; Richard M Myers; Barbara Wold
Journal:  Science       Date:  2007-05-31       Impact factor: 47.728

10.  Evaluation of next generation sequencing platforms for population targeted sequencing studies.

Authors:  Olivier Harismendy; Pauline C Ng; Robert L Strausberg; Xiaoyun Wang; Timothy B Stockwell; Karen Y Beeson; Nicholas J Schork; Sarah S Murray; Eric J Topol; Samuel Levy; Kelly A Frazer
Journal:  Genome Biol       Date:  2009-03-27       Impact factor: 13.583

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  56 in total

1.  Purification, crystallization and preliminary X-ray crystallographic analysis of Arabidopsis thaliana dynamin-related protein 1A GTPase-GED fusion protein.

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Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2011-12-24

2.  Mining genes involved in insecticide resistance of Liposcelis bostrychophila Badonnel by transcriptome and expression profile analysis.

Authors:  Wei Dou; Guang-Mao Shen; Jin-Zhi Niu; Tian-Bo Ding; Dan-Dan Wei; Jin-Jun Wang
Journal:  PLoS One       Date:  2013-11-20       Impact factor: 3.240

3.  Phenotypic and genomic characterization of the Antarctic bacterium Gillisia sp. CAL575, a producer of antimicrobial compounds.

Authors:  Isabel Maida; Marco Fondi; Maria Cristiana Papaleo; Elena Perrin; Valerio Orlandini; Giovanni Emiliani; Donatella de Pascale; Ermenegilda Parrilli; Maria Luisa Tutino; Luigi Michaud; Angelina Lo Giudice; Riccardo Romoli; Gianluca Bartolucci; Renato Fani
Journal:  Extremophiles       Date:  2013-10-23       Impact factor: 2.395

Review 4.  What can we learn from the transcriptome of the resurrection plant Craterostigma plantagineum?

Authors:  Valentino Giarola; Dorothea Bartels
Journal:  Planta       Date:  2015-05-22       Impact factor: 4.116

5.  Transcriptome analysis of eyestalk and hemocytes in the ridgetail white prawn Exopalaemon carinicauda: assembly, annotation and marker discovery.

Authors:  Jitao Li; Jian Li; Ping Chen; Ping Liu; Yuying He
Journal:  Mol Biol Rep       Date:  2014-09-30       Impact factor: 2.316

6.  Genotyping single-sperm cells by universal MARSALA enables the acquisition of linkage information for combined pre-implantation genetic diagnosis and genome screening.

Authors:  Haitao Wu; Xiaoting Shen; Lei Huang; Yanhong Zeng; Yumei Gao; Lin Shao; Baomin Lu; Yiping Zhong; Benyu Miao; Yanwen Xu; Yali Wang; Yubin Li; Luoxing Xiong; Sijia Lu; X Sunney Xie; Canquan Zhou
Journal:  J Assist Reprod Genet       Date:  2018-05-22       Impact factor: 3.412

7.  Diagnostic Screening Workflow for Mutations in the BRCA1 and BRCA2 Genes.

Authors:  Stella Lai; Clare Brookes; Debra O Prosser; Chuan-Ching Lan; Elaine Doherty; Donald R Love
Journal:  Sultan Qaboos Univ Med J       Date:  2015-01-21

8.  Dynamics of the Saccharomyces cerevisiae transcriptome during bread dough fermentation.

Authors:  Elham Aslankoohi; Bo Zhu; Mohammad Naser Rezaei; Karin Voordeckers; Dries De Maeyer; Kathleen Marchal; Emmie Dornez; Christophe M Courtin; Kevin J Verstrepen
Journal:  Appl Environ Microbiol       Date:  2013-09-20       Impact factor: 4.792

Review 9.  Progress and potential: training in genomic pathology.

Authors:  Richard L Haspel; Randall J Olsen; Anna Berry; Charles E Hill; John D Pfeifer; Iris Schrijver; Karen L Kaul
Journal:  Arch Pathol Lab Med       Date:  2014-04       Impact factor: 5.534

10.  Sugarcane genome sequencing by methylation filtration provides tools for genomic research in the genus Saccharum.

Authors:  Clícia Grativol; Michael Regulski; Marcelo Bertalan; W Richard McCombie; Felipe Rodrigues da Silva; Adhemar Zerlotini Neto; Renato Vicentini; Laurent Farinelli; Adriana Silva Hemerly; Robert A Martienssen; Paulo Cavalcanti Gomes Ferreira
Journal:  Plant J       Date:  2014-06-17       Impact factor: 6.417

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