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The ViennaRNA Web Services

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RNA Bioinformatics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1269))

Abstract

The ViennaRNA package is a widely used collection of programs for thermodynamic RNA secondary structure prediction. Over the years, many additional tools have been developed building on the core programs of the package to also address issues related to noncoding RNA detection, RNA folding kinetics, or efficient sequence design considering RNA-RNA hybridizations. The ViennaRNA web services provide easy and user-friendly web access to these tools. This chapter describes how to use this online platform to perform tasks such as prediction of minimum free energy structures, prediction of RNA-RNA hybrids, or noncoding RNA detection. The ViennaRNA web services can be used free of charge and can be accessed via http://rna.tbi.univie.ac.at.

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Acknowledgments

This work was supported in part by the University of Basel, the Austrian FWF project “SFB F43 RNA regulation of the transcriptome,” and the University of Leipzig.

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Authors and Affiliations

  1. Biozentrum, University of Basel, Klingelbergstrasse 50-70, 4056, Basel, Switzerland

    Andreas R. Gruber

  2. Swiss Institute of Bioinformatics, Basel, Switzerland

    Andreas R. Gruber

  3. Department of Bioinformatics, University of Leipzig, Leipzig, Germany

    Stephan H. Bernhart

  4. Institute for Theoretical Chemistry, University of Vienna, Vienna, Austria

    Ronny Lorenz

Authors
  1. Andreas R. Gruber
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  2. Stephan H. Bernhart
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  3. Ronny Lorenz
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Corresponding author

Correspondence to Andreas R. Gruber .

Editor information

Editors and Affiliations

  1. Department of Biosciences, Biotechnology and Biopharmaceutics, and National Research Council, University of Bari; Institute of Biomembranes and Bioenergetics, Bari, Italy, and National Institute of Biostructures and Biosystems (INBB), Rome, Italy

    Ernesto Picardi

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Gruber, A.R., Bernhart, S.H., Lorenz, R. (2015). The ViennaRNA Web Services. In: Picardi, E. (eds) RNA Bioinformatics. Methods in Molecular Biology, vol 1269. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-2291-8_19

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  • DOI: https://doi.org/10.1007/978-1-4939-2291-8_19

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-2290-1

  • Online ISBN: 978-1-4939-2291-8

  • eBook Packages: Springer Protocols

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