Rule based modeling of gene regulation and biosynthesis of tryptophan in E. coli

Passini, Valerio and Lhoussaine, Cedric and Nebut, Mirabelle and Kuttler, Celine (2008) Rule based modeling of gene regulation and biosynthesis of tryptophan in E. coli. UNSPECIFIED. (Unpublished)

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    Abstract

    The genetic regulation of the Trp operon in the bacterium E. coli relies on a sophisticated control mechanism. It tightly couples the advance of transcribing RNA polymerase to the efficiency of the contemporaneous translation of the nascent transcript by a ribosome. The concurrent control of this process involves interdependencies between multiple molecular actors. Within process algebra based modeling languages focused on pairwise interaction, its representation required sophisticated coding tricks. In this work, we abstract the mechanism of transcriptional attenuation within a novel rule base modeling language. It allows non-trivial concurrent control by representing molecules as parametrized terms.

    Item Type: Departmental Technical Report
    Department or Research center: CoSBi (Center for Computational and Systems Biology)
    Subjects: Q Science > QA Mathematics > QA076 Computer software > QA076.7 Programming Languages - Semantics
    Report Number: TR-03-2008
    Repository staff approval on: 01 Dec 2009

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