期刊
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
卷 17, 期 -, 页码 628-637出版社
ELSEVIER
DOI: 10.1016/j.csbj.2019.04.012
关键词
RNA-Seq; Transctipt; Genome; Transposable element; Long non-coding RNA
资金
- National Natural Science Foundation of China [31850410463, 31850410486]
- Shenzhen Peacock plan
- Shenzhen Science and Technology Innovation Committee general program [JCYJ20170307110638890]
The measurement of gene expression has long provided significant insight into biological functions. The development of high-throughput short-read sequencing technology has revealed transcriptional complexity at an unprecedented scale, and informed almost all areas of biology. However, as researchers have sought to gather more insights from the data, these new technologies have also increased the computational analysis burden. In this review, we describe typical computational pipelines for RNA-Seq analysis and discuss their strengths and weaknesses for the assembly, quantification and analysis of coding and non-coding RNAs. We also discuss the assembly of transposable elements into transcripts, and the difficulty these repetitive elements pose. In summary, RNA-Seq is a powerful technology that is likely to remain a key asset in the biologist's toolkit. (C) 2019 The Authors. Published by Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology.
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