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Identification and Expression Analysis of Long Intergenic Noncoding RNAs

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Transcriptome Data Analysis

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1751))

Abstract

Long intergenic noncoding RNAs (lincRNAs) have caught increasing attention in recent years. The advance of RNA-Seq has greatly facilitated the discovery of novel lincRNAs. However, the computational analysis of lincRNAs is still challenging. In this protocol, we presented a step-by-step protocol for computational analyses of lincRNAs, including read processing and alignment, transcript assembly, lincRNA identification and annotation, and differential expression analysis.

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Acknowledgments

This work was supported by a Natural Science Funding of Shenzhen (JCYJ201607115221141) and a Shenzhen Peacock Plan fund (827-000116) to Y.W. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

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Authors and Affiliations

  1. Epigenomics and Computational Biology Lab, Biocomplexity Institute of Virginia Tech, Blacksburg, VA, USA

    Ming-an Sun

  2. School of Public Health, Shenzhen University Health Science Center, Shenzhen, China

    Rihong Zhai

  3. Integrative Biology and Physiology, The University of California, Los Angeles (UCLA), Los Angeles, CA, USA

    Qing Zhang

  4. Department of Cell Biology and Genetics, School of Basic Medical Sciences, Shenzhen University Health Science Center, Shenzhen, China

    Yejun Wang

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  1. Ming-an Sun
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  2. Rihong Zhai
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  3. Qing Zhang
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  4. Yejun Wang
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Editors and Affiliations

  1. Department of Cell Biology and Genetics, School of Basic Medicine, Shenzhen University Health, Science Center, Shenzhen, China

    Yejun Wang

  2. Epigenomics and Computational Biology Lab, Biocomplexity Institute of Virginia Tech, Blacksburg, Virginia, USA

    Ming-an Sun

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Sun, Ma., Zhai, R., Zhang, Q., Wang, Y. (2018). Identification and Expression Analysis of Long Intergenic Noncoding RNAs. In: Wang, Y., Sun, Ma. (eds) Transcriptome Data Analysis. Methods in Molecular Biology, vol 1751. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7710-9_10

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  • DOI: https://doi.org/10.1007/978-1-4939-7710-9_10

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7709-3

  • Online ISBN: 978-1-4939-7710-9

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