Research Guides: Bioinformatics: Reviews

Reviews

DNA sequencing at 40: past, present and future (2017)
A review of the history of DNA sequencing, the technology that make bioinformatics possible.

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Shendure, J., Balasubramanian, S., Church, G. et al. DNA sequencing at 40: past, present and future. Nature 550, 345–353 (2017). https://doi.org/10.1038/nature24286
The expanding scope of DNA sequencing (2012)
This review is a bit old, but it still provides and excellent overview on how DNA sequencing relevant to bioinformatics.

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Shendure, J., Aiden, E. The expanding scope of DNA sequencing. Nat Biotechnol 30, 1084–1094 (2012). https://doi.org/10.1038/nbt.2421
Genes Special Issue on Next Generation Sequencing (2010)
The special issue contains eleven articles on next generation sequencing, a key technology for bioinformatics.
Library construction for next generation sequencing (2018)
An accessible overview of next generation sequencing, a key technology for bioinformatics.

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Library construction for next-generation sequencing: Overviews and challenges
Steven R. Head, H. Kiyomi Komori, Sarah A. LaMere, Thomas Whisenant, Filip Van Nieuwerburgh, Daniel R. Salomon, and Phillip Ordoukhanian
BioTechniques 2014 56:2, 61-77
Nature Methods Data Visualization Blog (2013)
A collection of short articles on data visualization methods relevant to bioinformatics.
Nature Points of Significance (2017)
A collection of short articles on statistical topics relevant to bioinformatics.
Nucleic Acids Research Database Issues (2022)
The Nucleic Acids Research journal publishes and annual issue on databases that are relevant to bioinformatics. This page lists over 1400 articles published in these issues.
Nucleic Acids Research Web Server Issues (2022)
The journal Nucleic Acids Research published issues dedicated to web servers relevant to bioinformatics. This page lists the articles published in those issues.
Prevention, diagnosis and treatment of high-throughput sequencing data pathologies (2014)
An overview of the possible problems of next generation sequecing data.

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Zhou, X. and Rokas, A. (2014), Prevention, diagnosis and treatment of high-throughput sequencing data pathologies. Mol Ecol, 23: 1679-1700. https://doi.org/10.1111/mec.12680
RNA-Seq differential expression analysis: An extended review and a software tool (2017)
A review that compare six methods to analyze RNA-sequencing data.

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Costa-Silva J, Domingues D, Lopes FM (2017) RNA-Seq differential expression analysis: An extended review and a software tool. PLOS ONE 12(12): e0190152. https://doi.org/10.1371/journal.pone.0190152
A survey of best practices for RNA-seq data analysis (2016)
An overview of the major steps and challenges in the analysis of next generation sequencing data.

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Conesa, A., Madrigal, P., Tarazona, S. et al. A survey of best practices for RNA-seq data analysis. Genome Biol 17, 13 (2016). https://doi.org/10.1186/s13059-016-0881-8
Systems Biology: A User's Guide (2006)
A collection of review articles on systems biology.
Visualization of Biomedical Data (2018)
A comprehensive review published in the Annual Review of Biomedical Data Science.

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Seán I. O'Donoghue, Benedetta Frida Baldi, Susan J. Clark, Aaron E. Darling, James M. Hogan, Sandeep Kaur, Lena Maier-Hein, Davis J. McCarthy, William J. Moore, Esther Stenau, Jason R. Swedlow, Jenny Vuong, James B. Procter
Annual Review of Biomedical Data Science 2018 1:1, 275-304