RNA-Seq methods for transcriptome analysis

Deep sequencing has been revolutionizing biology and medicine in recent years, providing single base-level precision for our understanding of nucleic acid sequences in high throughput fashion. Sequencing of RNA, or RNA-Seq, is now a common method to analyze gene expression and to uncover novel RNA s...

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Bibliographic Details
Published inWiley interdisciplinary reviews. RNA Vol. 8; no. 1
Main Authors Hrdlickova, Radmila, Toloue, Masoud, Tian, Bin
Format Journal Article
LanguageEnglish
Published United States 01.01.2017
Subjects
Animals
Gene Expression Profiling - methods
High-Throughput Nucleotide Sequencing - methods
Humans
RNA - genetics
Sequence Analysis, RNA - methods
Transcriptome
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Summary:Deep sequencing has been revolutionizing biology and medicine in recent years, providing single base-level precision for our understanding of nucleic acid sequences in high throughput fashion. Sequencing of RNA, or RNA-Seq, is now a common method to analyze gene expression and to uncover novel RNA species. Aspects of RNA biogenesis and metabolism can be interrogated with specialized methods for cDNA library preparation. In this study, we review current RNA-Seq methods for general analysis of gene expression and several specific applications, including isoform and gene fusion detection, digital gene expression profiling, targeted sequencing and single-cell analysis. In addition, we discuss approaches to examine aspects of RNA in the cell, technical challenges of existing RNA-Seq methods, and future directions. WIREs RNA 2017, 8:e1364. doi: 10.1002/wrna.1364 For further resources related to this article, please visit the WIREs website.
ISSN:1757-7012
DOI:10.1002/wrna.1364