Constraint-Based Simulation of Biological Systems Described by Molecular Interaction Maps

We present a method to simulate biochemical networks described by the graphical notation of Molecular Interaction Maps within stochastic Concurrent Constraint Programming. Such maps are compact, as they represent implicitly a wide set of reactions, and therefore not easy to simulate with standard to...

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Veröffentlicht in:2007 IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2007) S. 288 - 293
Hauptverfasser: Bortolussi, L., Fonda, S., Policriti, A.
Format: Tagungsbericht
Sprache:Englisch
Veröffentlicht: IEEE 01.01.2007
Schlagworte:
Analytical models
Biological information theory
Biological system modeling
Biological systems
Computational modeling
Computer science
Computer simulation
Encoding
Stochastic processes
Stochastic systems
ISBN:0769530311, 9780769530314
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Zusammenfassung:We present a method to simulate biochemical networks described by the graphical notation of Molecular Interaction Maps within stochastic Concurrent Constraint Programming. Such maps are compact, as they represent implicitly a wide set of reactions, and therefore not easy to simulate with standard tools. The encoding we propose is capable to stochastically simulate these maps implicitly, without generating the full list of reactions.
ISBN:0769530311
9780769530314
DOI:10.1109/BIBM.2007.31