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Sequence Dependent Properties of the Expression Dynamics of Genes and Gene Networks

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Computational Methods in Systems Biology (CMSB 2012)

Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 7605))

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Abstract

The sequence of a gene determines the protein sequence and structure, but to some extent also the kinetics of protein production. Namely, the DNA and the codon sequence affect the kinetics of transcription and translation elongation, respectively. Here, using a stochastic model of transcription and translation at the nucleotide and codon levels, we investigate the effects of the codon sequence on the dynamics of single gene expression and of a genetic switch. We find that the ribosome binding site region sequence affects mean expression rates. In the genetic toggle switch, the sequence is shown to affect the switching frequency.

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Author information

Authors and Affiliations

  1. Computational Systems Biology Research Group, Department of Signal Processing, Tampere University of Technology, P.O. Box 527, FIN-33101, Finland

    Ilya Potapov, Jarno Mäkelä, Olli Yli-Harja & Andre Ribeiro

  2. Institute for Systems Biology, 1441N 34th St, Seattle, WA, 98103-8904, USA

    Olli Yli-Harja

Authors
  1. Ilya Potapov
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  2. Jarno Mäkelä
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  3. Olli Yli-Harja
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  4. Andre Ribeiro
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Editor information

Editors and Affiliations

  1. School of Information Systems, Computing and Mathematics, Brunel University, UB8 3PH, Uxbridge, UK

    David Gilbert

  2. Computer Science Institute, University of Technology, 03013, Cottbus, Germany

    Monika Heiner

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Potapov, I., Mäkelä, J., Yli-Harja, O., Ribeiro, A. (2012). Sequence Dependent Properties of the Expression Dynamics of Genes and Gene Networks. In: Gilbert, D., Heiner, M. (eds) Computational Methods in Systems Biology. CMSB 2012. Lecture Notes in Computer Science(), vol 7605. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-33636-2_18

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  • DOI: https://doi.org/10.1007/978-3-642-33636-2_18

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-33635-5

  • Online ISBN: 978-3-642-33636-2

  • eBook Packages: Computer ScienceComputer Science (R0)

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