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Computational Biology of Non-Coding RNA pp 133–174Cite as

ncRNA Editing: Functional Characterization and Computational Resources

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 1912))

Abstract

Noncoding RNAs (ncRNAs) have received much attention due to their central role in gene expression and translational regulation as well as due to their involvement in several biological processes and disease development. Small noncoding RNAs (sncRNAs), such as microRNAs and piwiRNAs, have been thoroughly investigated and functionally characterized. Long noncoding RNAs (lncRNAs), known to play an important role in chromatin-interacting transcription regulation, posttranscriptional regulation, cell-to-cell signaling, and protein regulation, are also being investigated to further elucidate their functional roles.

Next-generation sequencing (NGS) technologies have greatly aided in characterizing the ncRNAome. Moreover, the coupling of NGS technology together with bioinformatics tools has been essential to the genome-wide detection of RNA modifications in ncRNAs. RNA editing, a common human co-transcriptional and posttranscriptional modification, is a dynamic biological phenomenon able to alter the sequence and the structure of primary transcripts (both coding and noncoding RNAs) during the maturation process, consequently influencing the biogenesis, as well as the function, of ncRNAs. In particular, the dysregulation of the RNA editing machineries have been associated with the onset of human diseases.

In this chapter we discuss the potential functions of ncRNA editing and describe the knowledge base and bioinformatics resources available to investigate such phenomenon.

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Authors and Affiliations

  1. Department of Cancer Biology and Genetics, Comprehensive Cancer Center, The Ohio State University, Columbus, OH, USA

    Giovanni Nigita, Gioacchino P. Marceca, Luisa Tomasello, Rosario Distefano, Federica Calore, Dario Veneziano & Carlo M. Croce

  2. Department of Clinical and Experimental Medicine, University of Catania, Catania, CT, Italy

    Gioacchino P. Marceca

  3. Division of Pulmonary Diseases and Critical Care Medicine, Virginia Commonwealth University, Richmond, VA, USA

    Giulia Romano, Serge Patrick Nana-Sinkam & Mario Acunzo

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  1. Giovanni Nigita
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  2. Gioacchino P. Marceca
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  3. Luisa Tomasello
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  5. Federica Calore
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  10. Carlo M. Croce
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Correspondence to Giovanni Nigita .

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Editors and Affiliations

  1. Department of Dermatology, Erlangen University Hospital, Erlangen, Germany

    Xin Lai

  2. Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany

    Shailendra K. Gupta

  3. Department of Dermatology, Erlangen University Hospital, Erlangen, Germany

    Julio Vera

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Nigita, G. et al. (2019). ncRNA Editing: Functional Characterization and Computational Resources. In: Lai, X., Gupta, S., Vera, J. (eds) Computational Biology of Non-Coding RNA. Methods in Molecular Biology, vol 1912. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-8982-9_6

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  • DOI: https://doi.org/10.1007/978-1-4939-8982-9_6

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