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Titlebook: Computational Methods in Systems Biology; First International Corrado Priami Conference proceedings 2003 Springer-Verlag Berlin Heidelberg

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978-3-540-00605-3Springer-Verlag Berlin Heidelberg 2003
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Mathematical Modeling of the Influence of RKIP on the ERK Signaling Pathwayllows the simulation the sensi- tivity of the ERK pathway to variations of initial RKIP and ERK-PP (phosphorylated ERK) concentrations along with time. Throughout the simulation study, we can qualitatively validate the proposed mathemati- cal model compared with experimental results.
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Representing and Simulating Protein Functional Domains in Signal Transduction Using Mauden signaling networks, and that PFDs are responsible for at least part of this capability. In our approach, the state of a system consisting of proteins and PFDs is represented as a term in an equational theory and rewrite rules.
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Problem Verification and Analysis (a General Pathway Simulator). It was found that only 9% of all the parameters of the specification file produced by GEPASI could be successfully translated into the variables described by the SBML Level 1 specification. Further development of SBML Level 1 is suggested in order to produce a more complete representation of biochemical information.
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