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Unsupervised Bayesian Prediction of RNA Translation from Ribosome Profiling Data

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Ribosome Profiling

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2252))

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Abstract

Ribosome profiling has been instrumental in leading to important discoveries in several fields of life sciences. Here we describe a computational approach that enables identification of translation events on a genome-wide scale from ribosome profiling data. Periodic fragment sizes indicative of active translation are selected without supervision for each library. Our workflow allows to map the whole translational landscape of a given cell, tissue, or organism, under varying conditions, and can be used to expand the search for novel, uncharacterized open reading frames, such as regulatory upstream translation events. Through a detailed workflow example, we show how to perform qualitative and quantitative analysis of translatomes.

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Acknowledgments

The authors acknowledge funding by the Klaus Tschira Foundation. The Rp-Bp package was developed by Brandon Malone. Computing infrastructures in the Dieterich Lab are maintained by Tobias Jakobi.

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Authors and Affiliations

  1. Section of Bioinformatics and Systems Cardiology, Klaus Tschira Institute for Integrative Computational Cardiology, Heidelberg, Germany

    Etienne Boileau & Christoph Dieterich

  2. Department of Internal Medicine III (Cardiology, Angiology, and Pneumology), University Hospital Heidelberg, Heidelberg, Germany

    Etienne Boileau & Christoph Dieterich

  3. DZHK (German Centre for Cardiovascular Research) Partner Site Heidelberg/Mannheim, Heidelberg, Germany

    Etienne Boileau & Christoph Dieterich

Authors
  1. Etienne Boileau
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  2. Christoph Dieterich
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Corresponding author

Correspondence to Christoph Dieterich .

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Editors and Affiliations

  1. Department of Dermatology, Boston University School of Medicine, Boston, MA, USA

    Vyacheslav M. Labunskyy

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Boileau, E., Dieterich, C. (2021). Unsupervised Bayesian Prediction of RNA Translation from Ribosome Profiling Data. In: Labunskyy, V.M. (eds) Ribosome Profiling. Methods in Molecular Biology, vol 2252. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1150-0_14

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  • DOI: https://doi.org/10.1007/978-1-0716-1150-0_14

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-1149-4

  • Online ISBN: 978-1-0716-1150-0

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