Project description:Kinetic model of extended MEP pathway in wild-type Arabidopsis thaliana.
This model was used for the Parameter Estimation task in COPASI. Reactions for isoprene and cis-abienol synthesis are included but made inactive by setting their k=0. A new Parameter Estimation task can be performed by accesing COPASI/Tasks/Parameter Estimation. Notes about the parameters used in the model can be found in SupplModPar.
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Total optimization potential (TOP) approach based constrained design of isoprene and cis-abienol production in A. thaliana,
Authors: Katrina D. Neiburga, Reinis Muiznieks, Darta M. Zake, Agris Pentjuss, Vitalijs Komasilovs, Johann Rohwer, Alain Tissier, Egils Stalidzans
Project description:Kinetic model of extended MEP pathway in Arabidopsis thaliana for cis-abienol production.
This model was used for determining total optimization potential (TOP) of cis-abienol production in Arabidopsis thaliana using Spacescanner (https://github.com/atiselsts/spacescanner). This model was used to make designs A, B and C. An optimization task in COPASI can be perfomed using this model by accesing COPASI/Tasks/Optimization. Parameters which will be changed during the optimization and the optimization constraints can be selected.
More description in
Total optimization potential (TOP) approach based constrained design of isoprene and cis-abienol production in A. thaliana,
Authors: Katrina D. Neiburga, Reinis Muiznieks, Darta M. Zake, Agris Pentjuss, Vitalijs Komasilovs, Johann Rohwer, Alain Tissier, Egils Stalidzans