An energetic reformulation of kinetic rate laws enables scalable parameter estimation for biochemical networks

نویسندگان
چکیده

برای دانلود باید عضویت طلایی داشته باشید

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

Scalable Parameter Estimation for Genome-Scale Biochemical Reaction Networks

Mechanistic mathematical modeling of biochemical reaction networks using ordinary differential equation (ODE) models has improved our understanding of small- and medium-scale biological processes. While the same should in principle hold for large- and genome-scale processes, the computational methods for the analysis of ODE models which describe hundreds or thousands of biochemical species and ...

متن کامل

Kinetic Parameter Estimation in Oscillatory Biochemical Systems

NABAVI, SEYEDBEHZAD. Kinetic Parameter Estimation in Oscillatory Biochemical Systems. (Under the direction of Cranos M. Williams.) Oscillatory pathways are among the most important classes of biochemical systems with examples such as circadian rhythms and cell cycles. Mathematical modeling of these highly interconnected biochemical networks is needed to meet numerous objectives such as investig...

متن کامل

Proximate parameter tuning for biochemical networks with uncertain kinetic parameters.

It is commonly the case in biochemical modelling that we have knowledge of the qualitative 'structure' of a model and some measurements of the time series of the variables of interest (concentrations and fluxes), but little or no knowledge of the model's parameters. This is, then, a system identification problem, that is commonly addressed by running a model with estimated parameters and assess...

متن کامل

A comparison among stochastic optimization algorithms for parameter estimation of biochemical kinetic models

Mathematical models in biochemical engineering field are usually composed by nonlinear kinetic equations, where the number of parameters that must be estimated from a set of experimental measurements is usually very high. In these cases, the estimation of the model parameters comprises numerical iterative methods for minimization of the objective function. Classical methods for minimization of ...

متن کامل

Parameter Estimation for Biochemical Reactions in Phototransduction

Vision begins when photons are captured by rhodopsin molecules in photoreceptor cells in the back of the retina. Activation of rhodopsin instigates a cascade of biochemical reactions, which eventually results in reduction of the steady (dark) current across the photoreceptor plasma membrane. This is the photoreceptor response, the signal that propagates to the brain enabling vision. Employing a...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

ژورنال

عنوان ژورنال: Journal of Theoretical Biology

سال: 2019

ISSN: 0022-5193

DOI: 10.1016/j.jtbi.2018.10.041