Parameterization of cell-free systems with time-series data using KETCHUP.

ABSTRACT: Kinetic models mechanistically link enzyme levels, metabolite concentrations, and allosteric regulation to metabolic reaction fluxes. This coupling allows for the quantitative elucidation of the dynamics of the evolution of metabolite concentrations and metabolic fluxes as a function of time. So far, most large-scale kinetic model parameterizations are carried out using mostly steady-state flux measurements supplemented with metabolomics and/or proteomics data when available. Even though the parameterized kinetic model can trace a temporal evolution of the system, lack of anchoring to temporal data reduces confidence in the dynamics predictions. Notably, the simulation of enzymatic cascade reactions requires a full description of the dynamics of the system as a steady-state is not applicab

SUBMITTER: Hu M 

PROVIDER: S-EPMC12637948 | biostudies-literature | 2025 Nov

REPOSITORIES: biostudies-literature