TY - JOUR
T1 - RNA-Seq methods for transcriptome analysis
AU - Hrdlickova, Radmila
AU - Toloue, Masoud
AU - Tian, Bin
N1 - Funding Information:
We would like to thank Jonathon Kirkbride for designing the illustrations in this manuscript and members of BT laboratory and Michael B. Mathews for helpful discussions. This work was partially funded by grants from the NIH (GM084089) to BT and (GM105178) to MT.
Publisher Copyright:
© 2016 Wiley Periodicals, Inc.
PY - 2017/1/1
Y1 - 2017/1/1
N2 - 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.
AB - 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.
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U2 - 10.1002/wrna.1364
DO - 10.1002/wrna.1364
M3 - Review article
C2 - 27198714
AN - SCOPUS:84971489759
SN - 1757-7004
VL - 8
JO - Wiley interdisciplinary reviews. RNA
JF - Wiley interdisciplinary reviews. RNA
IS - 1
M1 - e1364
ER -