Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data Supplementary material

Symbol Name N = (nil) stoichiometric matrix W = (wli) regulation matrix s = (si) vector of stationary metabolite concentrations j = (jl) vector of stationary fluxes vl(·) kinetic law of reaction l k i energy constant for metabolite i k l velocity constant for reaction l k li reactant constant for reaction l and metabolite i k li activation constant for reaction l and metabolite i k li inhibition constant for reaction l and metabolite i k ±l maximal turnover rates (forward and backward) for reaction l El enzyme concentration for reaction l v ±l maximal velocities (forward and backward) for reaction l θ vector of all model parameters (logarithmic) x vector of all measured kinetic parameters (logarithmic) y vector of all measured metabolic data (non-logarithmic) R θ sensitivity matrix between system parameters and kinetic data R θ sensitivity matrix between system parameters and metabolic data θ̄(0), C(0) mean vector and covariance matrix for prior of θ θ̄(1), C(1) mean vector and covariance matrix for first posterior of θ θ̄(2), C(2) mean vector and covariance matrix for second posterior of θ θ̂ expansion point for θ ŝ vector of initial concentrations for computing the steady state m