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ATAL
2003
Springer
15 years 5 months ago
A multi-agent system for the quantitative simulation of biological networks
We apply the multi-agent system (MAS) platform to the task of biological network simulation. In this paper, we describe the simulation of signal transduction (ST) networks using t...
Salim Khan, Ravi Makkena, Foster McGeary, Keith S....
BMCBI
2008
115views more  BMCBI 2008»
14 years 12 months ago
Systems biology driven software design for the research enterprise
Background: In systems biology, and many other areas of research, there is a need for the interoperability of tools and data sources that were not originally designed to be integr...
John Boyle, Christopher C. Cavnor, Sarah A. Killco...
BMCBI
2004
123views more  BMCBI 2004»
14 years 11 months ago
A two-way interface between limited Systems Biology Markup Language and R
Background: Systems Biology Markup Language (SBML) is gaining broad usage as a standard for representing dynamical systems as data structures. The open source statistical programm...
Tomas Radivoyevitch
CMSB
2004
Springer
15 years 5 months ago
Developing SBML Beyond Level 2: Proposals for Development
Abstract. The Systems Biology Markup Language (SBML) is an XMLbased exchange format for computational models of biochemical networks. SBML Level 2, whose definition was establishe...
Andrew Finney
DIS
2004
Springer
15 years 5 months ago
A Methodology for Biologically Relevant Pattern Discovery from Gene Expression Data
Abstract. One of the most exciting scientific challenges in functional genomics concerns the discovery of biologically relevant patterns from gene expression data. For instance, i...
Ruggero G. Pensa, Jérémy Besson, Jea...