Literature DB >> 22184335

Bioinformatics tools and databases for analysis of next-generation sequence data.

Hong C Lee, Kaitao Lai, Michal Tadeusz Lorenc, Michael Imelfort, Chris Duran, David Edwards.   

Abstract

Genome sequencing has been revolutionized by next-generation technologies, which can rapidly produce vast quantities of data at relatively low cost. With data production now no longer being limited, there is a huge challenge to analyse the data flood and interpret biological meaning. Bioinformatics scientists have risen to the challenge and a large number of software tools and databases have been produced and these continue to evolve with this rapidly advancing field. Here, we outline some of the tools and databases commonly used for the analysis of next-generation sequence data with comment on their utility.

Mesh:

Year:  2011        PMID: 22184335     DOI: 10.1093/bfgp/elr037

Source DB:  PubMed          Journal:  Brief Funct Genomics        ISSN: 2041-2649            Impact factor:   4.241


  16 in total

Review 1.  Accessing complex crop genomes with next-generation sequencing.

Authors:  David Edwards; Jacqueline Batley; Rod J Snowdon
Journal:  Theor Appl Genet       Date:  2012-09-05       Impact factor: 5.699

2.  Transcriptome analysis of the effect of GA3 in sugarcane culm.

Authors:  A Chandra; K Roopendra; I Verma
Journal:  3 Biotech       Date:  2019-09-28       Impact factor: 2.406

3.  Identifying genetic diversity of avirulence genes in Leptosphaeria maculans using whole genome sequencing.

Authors:  Manuel Zander; Dhwani A Patel; Angela Van de Wouw; Kaitao Lai; Michal T Lorenc; Emma Campbell; Alice Hayward; David Edwards; Harsh Raman; Jacqueline Batley
Journal:  Funct Integr Genomics       Date:  2013-06-21       Impact factor: 3.410

4.  The promises and pitfalls of leveraging mobile health technology for pain care.

Authors:  Joshua E Richardson; M Carrington Reid
Journal:  Pain Med       Date:  2013-07-18       Impact factor: 3.750

5.  Bioinformatics of Cancer ncRNA in High Throughput Sequencing: Present State and Challenges.

Authors:  Natasha Andressa Nogueira Jorge; Carlos Gil Ferreira; Fabio Passetti
Journal:  Front Genet       Date:  2012-12-17       Impact factor: 4.599

6.  TRUFA: A User-Friendly Web Server for de novo RNA-seq Analysis Using Cluster Computing.

Authors:  Etienne Kornobis; Luis Cabellos; Fernando Aguilar; Cristina Frías-López; Julio Rozas; Jesús Marco; Rafael Zardoya
Journal:  Evol Bioinform Online       Date:  2015-05-24       Impact factor: 1.625

7.  Bespoke microbiome therapy to manage plant diseases.

Authors:  Murali Gopal; Alka Gupta; George V Thomas
Journal:  Front Microbiol       Date:  2013-12-03       Impact factor: 5.640

8.  Next generation characterisation of cereal genomes for marker discovery.

Authors:  Paul Visendi; Jacqueline Batley; David Edwards
Journal:  Biology (Basel)       Date:  2013-11-25

Review 9.  Phage therapy: eco-physiological pharmacology.

Authors:  Stephen T Abedon
Journal:  Scientifica (Cairo)       Date:  2014-05-20

10.  Next-generation sequencing: from understanding biology to personalized medicine.

Authors:  Karen S Frese; Hugo A Katus; Benjamin Meder
Journal:  Biology (Basel)       Date:  2013-03-01
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