We propose 2 methods to decipher the reaction changes during a metabolic transient state, using measurements of metabolic concentrations.
TOTORO: TOpological analysis of Transient metabOlic RespOnse
Totoro uses qualitative measurement of concentrations in two steady-states to infer the reaction changes that lead to differences in metabolite pools in both conditions. The software uses an ASP formulation to perform hyperarc selection in the directed hypergraph representation of a metabolic network. In the release are included the pre-processing and post-processing steps. After the post-processing step, the solutions can be visualized using href="http://dinghy.gforge.inria.fr/"> DINGHY
Release BetaTotoro Release Beta (2016-12-04)
Louis Duchemin, Alice Julien-Laferrière, Arnaud Mary
KOTOURA: Kantitative analysis Of Transient metabOlic and regUlatory Response And control
Kotoura infers quantitative changes of the reactions using information on measurement of the metabolite concentrations in two steady-states. Kotoura is developed in C++ and uses an IBM solver CPLEX.
Release BetaKotoura Release Beta (2016-12-04)
Ricardo De Andrade, Alice Julien-Laferrière, Laurent Bulteau