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Systematic Identification of Non-coding RNAs

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Non-coding RNAs in Complex Diseases

Part of the book series: Advances in Experimental Medicine and Biology ((AEMB,volume 1094))

Abstract

Non-coding RNAs (ncRNAs) are biologically significant in variable ways. They modulate gene expression at the levels of transcription and post-transcription. MiRNAs and lncRNAs are two major classes of non-coding RNAs and have been extensively characterized. They are implicated in various biological processes and diseases. Thus, identification of miRNAs and lncRNAs are fundamental to further understand their roles and dissect their mechanisms. Here, we overviewed pipelines of identifying miRNAs and lncRNAs based on next-generation sequencing technologies. We applied the pipelines to identify miRNAs in multiple cell lines and perform expression quantification of mature, precursor and primary miRNAs. In addition, we provided an alternative way to re-annotate lncRNAs from microarray data. We summarized multiple resources and databases for lncRNA annotation and compared their annotation processes and specific parameters. Finally, we utilized RNA-seq and miRNA-seq data to construct a comprehensive transcriptome containing miRNAs, lncRNAs and protein-coding genes in heart failure.

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Authors and Affiliations

  1. College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China

    Yun Xiao, Jing Hu & Wenkang Yin

Authors
  1. Yun Xiao
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  2. Jing Hu
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  3. Wenkang Yin
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Corresponding author

Correspondence to Yun Xiao .

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Editors and Affiliations

  1. College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, Heilongjiang, China

    Xia Li

  2. College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China

    Juan Xu

  3. College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China

    Yun Xiao

  4. College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China

    Shangwei Ning

  5. College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China

    Yunpeng Zhang

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© 2018 Springer Nature Singapore Pte Ltd.

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Xiao, Y., Hu, J., Yin, W. (2018). Systematic Identification of Non-coding RNAs. In: Li, X., Xu, J., Xiao, Y., Ning, S., Zhang, Y. (eds) Non-coding RNAs in Complex Diseases. Advances in Experimental Medicine and Biology, vol 1094. Springer, Singapore. https://doi.org/10.1007/978-981-13-0719-5_2

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