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» Evolving petri nets to represent metabolic pathways
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APN
2006
Springer
13 years 6 months ago
From Petri Nets to Differential Equations - An Integrative Approach for Biochemical Network Analysis
Abstract. We report on the results of an investigation into the integration of Petri nets and ordinary differential equations (ODEs) for the modelling and analysis of biochemical n...
David Gilbert, Monika Heiner
RECOMB
2005
Springer
14 years 5 months ago
The Pathalyzer: A Tool for Analysis of Signal Transduction Pathways
Abstract. The Pathalyzer is a program for analyzing large-scale signal transduction networks. Reactions and their substrates and products are represented as transitions and places ...
David L. Dill, Merrill Knapp, Pamela Gage, Carolyn...
CMSB
2008
Springer
13 years 6 months ago
A Language for Biochemical Systems
Abstract. CBS is a Calculus of Biochemical Systems intended to allow the modelling of metabolic, signalling and regulatory networks in a natural and modular manner. In this paper w...
Michael Pedersen, Gordon D. Plotkin
ICRA
2003
IEEE
111views Robotics» more  ICRA 2003»
13 years 10 months ago
Fuzzy Petri nets for monitoring and recovery
- In this paper, we propose a unitary tool for modeling and analysis of discrete event systems monitoring. Uncertain knowledge of such tasks asks specific reasoning and adapted fuz...
Daniel I. Racoceanu, Eugenia Minca, Noureddine Zer...
BMCBI
2010
223views more  BMCBI 2010»
12 years 12 months ago
MetNetGE: interactive views of biological networks and ontologies
Background: Linking high-throughput experimental data with biological networks is a key step for understanding complex biological systems. Currently, visualization tools for large...
Ming Jia, Suh-Yeon Choi, Dirk Reiners, Eve Syrkin ...