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Computer Science - Theoretical Computer Science | Transactions on Computational Systems Biology VII

Transactions on Computational Systems Biology VII

Editor-in-chief: Priami, Corrado
Ingolfsdottir, Anna, Mishra, Bud, Nielson, Hanne Riis (Eds.)

2006, VII, 187 p.

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This volume, the 7th in the Transactions on Computational Systems Biology series, contains a fully refereed and carefully selected set of papers from two workshops: BioConcur 2004 held in London, UK in August 2004 and BioConcur 2005 held in San Francisco, CA, USA in August 2005.

The 8 papers chosen for this special issue are devoted to various aspects of computational methods, algorithms, and techniques in bioinformatics such as modeling of signaling pathways, gene regulation in pi-calculus, relations between regulator graphs and Petri nets, translation of SBML models to stochastic pi-calculus, use of graph theory to model biological networks, distributed model checking with biochemical Kripke structures, graphical notation for stochastic pi-calculus, as well as differentiation and homeostatic behavior of boolean dynamic systems.

The Transactions on Computational Systems Biology series is devoted to inter- and multidisciplinary research in computer science and life sciences and supports a paradigmatic shift in the techniques from computer and information science to cope with the new challenges arising from the systems oriented point of view of biological phenomen

Content Level » Research

Keywords » Algorithms - algorithm - bioinformatics - biology - life sciences - model checking - modeling - petri net

Related subjects » Systems Biology and Bioinformatics - Theoretical Computer Science

Table of contents 

Modelling the Influence of RKIP on the ERK Signalling Pathway Using the Stochastic Process Algebra PEPA.- Gene Regulation in the Pi Calculus: Simulating Cooperativity at the Lambda Switch.- From Logical Regulatory Graphs to Standard Petri Nets: Dynamical Roles and Functionality of Feedback Circuits.- Translating SBML Models into the Stochastic ?-Calculus for Stochastic Simulation.- Graph Theory for Rule-Based Modeling of Biochemical Networks.- Adapting Biochemical Kripke Structures for Distributed Model Checking.- A Graphical Representation for Biological Processes in the Stochastic pi-Calculus.- On Differentiation and Homeostatic Behaviours of Boolean Dynamical Systems.- A Specification Language and a Framework for the Execution of Composite Models in Systems Biology.- A Specification Language and a Framework for the Execution of Composite Models in Systems Biology.

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