Peter Kreyssig, Naoki Matsumaru, Florian Centler, Pietro Speroni di Fenizio, Peter Dittrich
Chemical Organisation Theory.
From Computational Biophysics to Systems Biology (CBSB11) – Celebrating Harold Scheraga’s 90th Birthday, pg 99-105, 20 july 2011
The theory of Chemical Organisations is employed as a novel method to analyse and understand biological network models. The method allows to decompose a chemical reaction network into sub-networks that are closed and self-maintaining. Although only stoichiometry is considered to compute organisations, the analysis allows to narrow down the potential dynamic behaviour of the network: organisations represent potential steady state of the compositions of the system. We review the application to a model of sugar metabolism in e-coli and to an HIV dynamics model as well as a theoretical results on fragments of rule based models.