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....
Background: We consider the problem of parameter estimation (model calibration) in nonlinear dynamic models of biological systems. Due to the frequent ill-conditioning and multi-m...
Maria Rodriguez-Fernandez, Jose A. Egea, Julio R. ...
The creation of quantitative, simulatable, Systems Biology Markup Language (SBML) models that accurately simulate the system under study is a time-intensive manual process that re...
Abstract. Biological systems involving genetic reactions are large discrete event systems, and often contain certain species that occur in small quantities, and others that occur i...
Recent advances in both the testing and verification of software based on formal specifications of the system to be built have reached a point where the ideas can be applied in a p...
George Eleftherakis, Petros Kefalas, Anna Sotiriad...