In silico modelling and analysis of ribosome kinetics and aa-tRNA competition

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Abstract

We present a formal analysis of ribosome kinetics using probabilistic model checking and the tool Prism. We compute different parameters of the model, like probabilities of translation errors and average insertion times per codon. The model predicts strong correlation to the quotient of the concentrations of the so-called cognate and near-cognate tRNAs, in accord with experimental findings and other studies. Using piecewise analysis of the model, we are able to give an analytical explanation of this observation.
Original languageEnglish
Title of host publicationTransactions on Computational Systems Biology XI
EditorsC. Priami, R.J. Back, I. Petre
Place of PublicationBerlin
PublisherSpringer
Pages69-89
ISBN (Print)978-3-642-04185-3
DOIs
Publication statusPublished - 2009

Publication series

NameLecture notes in computer science
Volume5750

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    Bosnacki, D., Pronk, T. E., & Vink, de, E. P. (2009). In silico modelling and analysis of ribosome kinetics and aa-tRNA competition. In C. Priami, R. J. Back, & I. Petre (Eds.), Transactions on Computational Systems Biology XI (pp. 69-89). (Lecture notes in computer science; Vol. 5750). Springer. https://doi.org/10.1007/978-3-642-04186-0_4