Modeling in vivo dynamics of RNA polymerase II meeting Nucleosomes

  • Authors

    • Roozbeh Abedini-Nassab Department of Mechanical Engineering and Materials Science
    • Xu Zhang Department of Mechanical Engineering and Materials Science
    https://doi.org/10.14419/ijet.v5i2.6098

    Received date: April 10, 2016

    Accepted date: April 11, 2016

    Published date: April 20, 2016

  • Modeling, Nucleosome, Radial Basis Function Network, Random Walk, RNA polymerase.

  • Abstract

    Nucleosomes are shown to be barriers for RNA Polymerase II elongation along DNA, and their entry site behaves as the major obstacle. In this work, based on recent available in vivo data, we introduce a mathematical model for RNA Polymerase II reads. Moreover, as an alternative way, we use Radial Basis Function Network to predict RNA Polymerase II reads. Results of our models are in good agreement with experimental data. Furthermore, we introduce a random walk model which includes stalling, backtracking, and elongation phenomena. This model can predict and simulate the RNA Polymerase II trajectory on DNA, when it meets various nucleosomes.

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  • How to Cite

    Abedini-Nassab, R., & Zhang, X. (2016). Modeling in vivo dynamics of RNA polymerase II meeting Nucleosomes. International Journal of Engineering and Technology, 5(2), 33-37. https://doi.org/10.14419/ijet.v5i2.6098