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Bioinformatics for Novel Long Intergenic Noncoding RNA (lincRNA) Identification in Skeletal Muscle Cells

Part of the Methods in Molecular Biology book series (MIMB,volume 1556)

Abstract

Long intergenic noncoding RNAs (lincRNAs) have emerged as critical participators in gene regulation in myriads of cell types. The development of the whole transcriptome sequencing technology, or RNA-seq , has enabled novel lincRNA detection, but the bioinformatics analysis toward distinguishing reliable ones remains a challenge. Here, we describe the bioinformatics workflow developed for identifying novel lincRNAs step by step, including read alignment, transcriptome assembly and transcript filtering.

Key words

  • lincRNA
  • RNA-seq
  • Bioinformatics
  • Skeletal muscle cells

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Acknowledgment

The work is substantially supported by seven General Research Funds (GRF) to H.W. and H.S. from the Research Grants Council (RGC) of the Hong Kong Special Administrative Region, China (Project Code: 14133016, 14100415, 14102315, 14116014, 14113514, 476113 and 473713).

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Correspondence to Huating Wang .

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Peng, X., Sun, K., Zhou, J., Sun, H., Wang, H. (2017). Bioinformatics for Novel Long Intergenic Noncoding RNA (lincRNA) Identification in Skeletal Muscle Cells. In: Perdiguero, E., Cornelison, D. (eds) Muscle Stem Cells. Methods in Molecular Biology, vol 1556. Humana, New York, NY. https://doi.org/10.1007/978-1-4939-6771-1_20

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  • DOI: https://doi.org/10.1007/978-1-4939-6771-1_20

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-4939-6769-8

  • Online ISBN: 978-1-4939-6771-1

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