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» Stochastic Model of Protease-Ligand Reactions
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SIAMSC
2008
149views more  SIAMSC 2008»
13 years 7 months ago
Adaptive Discrete Galerkin Methods Applied to the Chemical Master Equation
In systems biology, the stochastic description of biochemical reaction kinetics is increasingly being employed to model gene regulatory networks and signalling pathways. Mathematic...
Peter Deuflhard, Wilhelm Huisinga, T. Jahnke, Mich...
ENTCS
2006
155views more  ENTCS 2006»
13 years 7 months ago
Biomolecular Agents as Multi-behavioural Concurrent Objects
In recent years, there has been increasing interest in computational models of biological systems based on various calculi of communicating processes, such as the stochastic pi-ca...
Denys Duchier, Céline Kuttler
JSAI
2005
Springer
14 years 1 months ago
Learning Stochastic Logical Automaton
Abstract. This paper is concerned with algorithms for the logical generalisation of probabilistic temporal models from examples. The algorithms combine logic and probabilistic mode...
Hiroaki Watanabe, Stephen Muggleton
FMSB
2008
129views Formal Methods» more  FMSB 2008»
13 years 9 months ago
Rule-Based Modelling, Symmetries, Refinements
Rule-based modelling is particularly effective for handling the highly combinatorial aspects of cellular signalling. The dynamics is described in terms of interactions between part...
Vincent Danos, Jérôme Feret, Walter F...
FPGA
2004
ACM
174views FPGA» more  FPGA 2004»
14 years 1 months ago
A compiled accelerator for biological cell signaling simulations
The simulation of large systems of biochemical reactions is a key part of research into molecular signaling and information processing in biological cells. However, it can be impr...
John F. Keane, Christopher Bradley, Carl Ebeling