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Comparative RNA Genomics

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Comparative Genomics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1704))

Abstract

Over the last two decades it has become clear that RNA is much more than just a boring intermediate in protein expression. Ancient RNAs still appear in the core information metabolism and comprise a surprisingly large component in bacterial gene regulation. A common theme with these types of mostly small RNAs is their reliance of conserved secondary structures. Large scale sequencing projects, on the other hand, have profoundly changed our understanding of eukaryotic genomes. Pervasively transcribed, they give rise to a plethora of large and evolutionarily extremely flexible noncoding RNAs that exert a vastly diverse array of molecule functions. In this chapter we provide a—necessarily incomplete—overview of the current state of comparative analysis of noncoding RNAs, emphasizing computational approaches as a means to gain a global picture of the modern RNA world.

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Acknowledgements

This work was funded in part by the German Federal Ministry of Education and Research (BMBF; 031A538B) within the German Network for Bioinformatics Infrastructure (de.NBI), the Deutsche Forschungsgemeinschaft (DFG; BA 2168/11-2, BA2168/3-3, and STA 850/19) within the Priority Programme SPP 1738, the Innovation Fund Denmark (0603-00320B, 5163-00010B), The Danish Council for Independent Research (DFF-4005-00443).

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Authors and Affiliations

  1. Bioinformatics Group, Department of Computer Science, University of Freiburg, Georges-Köhler-Allee 106, D-79110 Freiburg, Germany

    Rolf Backofen

  2. Center for non-coding RNA in Technology and Health, Department of Veterinary and Animal Sciences, University of Copenhagen, Grønnegårdsvej 3, DK-1870 Frederiksberg C, Denmark

    Rolf Backofen, Jan Gorodkin, Ivo L. Hofacker & Peter F. Stadler

  3. Institute for Theoretical Chemistry, University of Vienna, Währingerstraße 17, A-1090 Wien, Austria

    Ivo L. Hofacker & Peter F. Stadler

  4. Bioinformatics and Computational Biology Research Group, University of Vienna, Währingerstraße 17, A-1090 Vienna, Austria

    Ivo L. Hofacker

  5. Bioinformatics Group, Department of Computer Science, Interdisciplinary Center for Bioinformatics, University of Leipzig, Härtelstraße 16-18, D-04107 Leipzig, Germany

    Peter F. Stadler

  6. Max Planck Institute for Mathematics in the Sciences, Inselstraße 22, D-04103 Leipzig, Germany

    Peter F. Stadler

  7. Fraunhofer Institute for Cell Therapy and Immunology, Perlickstraße 1, D-04103 Leipzig, Germany

    Peter F. Stadler

  8. Santa Fe Institute, 1399 Hyde Park Rd, Santa Fe, NM 87501, USA

    Peter F. Stadler

Authors
  1. Rolf Backofen
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  2. Jan Gorodkin
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  3. Ivo L. Hofacker
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  4. Peter F. Stadler
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Corresponding author

Correspondence to Peter F. Stadler .

Editor information

Editors and Affiliations

  1. Department of Biochemistry, Institute of Chemistry, University of São Paulo, São Paulo, São Paulo, Brazil

    João C. Setubal

  2. Faculty of Technology and Center for Biotechnology (CeBiTec), Bielefeld University, Bielefeld, Germany

    Jens Stoye

  3. Bioinformatics Group, Department of Computer Science, Interdisciplinary Center for Bioinformatics, University of Leipzig, Leipzig, Germany

    Peter F. Stadler

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Backofen, R., Gorodkin, J., Hofacker, I.L., Stadler, P.F. (2018). Comparative RNA Genomics. In: Setubal, J., Stoye, J., Stadler, P. (eds) Comparative Genomics. Methods in Molecular Biology, vol 1704. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7463-4_14

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  • DOI: https://doi.org/10.1007/978-1-4939-7463-4_14

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7461-0

  • Online ISBN: 978-1-4939-7463-4

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