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The Art of Editing RNA Structural Alignments

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RNA Sequence, Structure, and Function: Computational and Bioinformatic Methods

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1097))

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Abstract

Manual editing of RNA structural alignments may be considered more art than science, since it still requires an expert biologist to take multiple levels of information into account and be slightly creative when constructing high-quality alignments. Even though the task is rather tedious, it is rewarded by great insight into the evolution of structure and function of your favorite RNA molecule. In this chapter I will review the methods and considerations that go into constructing RNA structural alignments at the secondary and tertiary structure level; introduce software, databases, and algorithms that have proven useful in semiautomating the work process; and suggest future directions towards full automatization.

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Author information

Authors and Affiliations

  1. Department of Molecular Biology, Aarhus University, Aarhus, Denmark

    Ebbe Sloth Andersen

  2. Department of Molecular Biology and Genetics, Aarhus University, Aarhus, Denmark

    Ebbe Sloth Andersen

Authors
  1. Ebbe Sloth Andersen
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Editor information

Editors and Affiliations

  1. Center for non-coding RNA in Technology and Health, IKVH University of Copenhagen, Frederiksberg, Denmark

    Jan Gorodkin

  2. University of Washington Dept. Computer Science & Engineering, Seattle, Washington, USA

    Walter L. Ruzzo

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Andersen, E.S. (2014). The Art of Editing RNA Structural Alignments. In: Gorodkin, J., Ruzzo, W. (eds) RNA Sequence, Structure, and Function: Computational and Bioinformatic Methods. Methods in Molecular Biology, vol 1097. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-62703-709-9_17

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  • DOI: https://doi.org/10.1007/978-1-62703-709-9_17

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  • Publisher Name: Humana Press, Totowa, NJ

  • Print ISBN: 978-1-62703-708-2

  • Online ISBN: 978-1-62703-709-9

  • eBook Packages: Springer Protocols

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