Reference : An approach for dividing models of biological reaction networks into functional units
Scientific journals : Article
Engineering, computing & technology : Multidisciplinary, general & others
http://hdl.handle.net/2268/15072
An approach for dividing models of biological reaction networks into functional units
English
Ederer, Michael [ > > ]
Sauter, Thomas [ > > ]
Bullinger, Eric mailto [Université de Liège - ULg > Dép. d'électric., électron. et informat. (Inst.Montefiore) > Méthodes computationnelles pour la biologie systémique >]
Gilles, E. D. [ > > ]
Allgöwer, Frank [ > > ]
2003
Simulation: Trans. Society for Modeling and Simulation International
79
12
703-716
Yes (verified by ORBi)
International
0037-5497
1741-3133
[en] Biological reaction networks consist of many substances and reactions between them. Like many other biological systems, they have a modular structure. Therefore, a division of a biological reaction network into smaller units highly facilitates its investigation. The authors propose an algorithm to divide an ordinary differential equation (ODE) model of a biological reaction network hierarchically into functional units. For every compound, an activity function dependent on concentration or concentration change rate is defined. After performing suitable simulations, distances between the compounds are computed by comparing the activities along the trajectories of the simulation. The distance information is used to generate a dendrogram revealing the internal structure of the reaction network. The algorithm identifies functional units in two models of different networks: catabolite repression in Escherichia coli and epidermal growth factor (EGF) signal transduction in mammalian cells.
Researchers
http://hdl.handle.net/2268/15072
10.1177/0037549703040940

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