MeDUSA: a sage-based tool for computing the stoichiometric capacitance of a metabolic network

Marko Budinich (1) , Damien Eveillard (2) , Jérémie Bourdon (2) , Abdelhalim Larhlimi (3)

1 combi
2 LINA - Laboratoire d'Informatique de Nantes Atlantique
3 Combi

Optimization-based analysis of metabolic networks have been used to design metabolic engineering strategies aiming at enhancing the production of a target of interest. Here, we present MeDUSA, a comprehensive tool for the calculation of a stoichiometric capacitance allowing for increasing the maximum production of a given product. MeDUSA provides an extensive sage-based package which, given a metabolic network and an objective function, (i) computes a stoichiometric capacitance and (ii) investigates the effect of adding the calculated stoichiometric capacitance.

Mots clés: metabolic modeling; optimization

Domaines: Bio-Informatique, Biologie Systémique [q-bio.QM]; Bio-informatique [q-bio.QM]

Marko Budinich, Damien Eveillard, Jérémie Bourdon, Abdelhalim Larhlimi. MeDUSA: a sage-based tool for computing the stoichiometric capacitance of a metabolic network. 2013. ⟨hal-00839321⟩