Optimization of cellular metabolism
Cellular metabolism is one of the most measured phenomena and can be modeled by many formalisms, approaches and their combinations. We use just some of them.
We are developing and optimising kinetic models of metabolism, pharmacokinetics and signalling. Other types of processes can be addressed depending on the amount of the available information.
Our particular strength is the experience in the use of global stochastic optimisation methods in parameter estimation and optimisation tasks. In both cases, we are implementing different types of constraints to improve the credibility of results.
Our main modelling tool is software COPASI. We have used COPASI alone and in combination with COPASI wrapper SpaceScanner to manage parallel optimisation runs of global stochastic optimisation methods.