A review of the deterministic and diffusion approximations for stochastic chemical reaction networks∗

نویسندگان

  • Pavel Mozgunov
  • Marco Beccuti
  • Andras Horvath
  • Thomas Jaki
  • Roberta Sirovich
  • Enrico Bibbona
چکیده

This work reviews deterministic and diffusion approximations of the stochastic chemical reaction networks and explains their applications. We discuss the added value the diffusion approximation provides for systems with different phenomena, such as a deficiency and a bistability. It is advocated that the diffusion approximation can be considered as an alternative theoretical approach to study the reaction networks rather than a simulation shortcut. We discuss two examples in which the diffusion approximation is able to catch qualitative properties of reaction networks that the deterministic model misses. We provide an explicit construction of the original process and the diffusion approximation such that the distance between their trajectories is controlled and demonstrate this construction for the examples. We also discuss the limitations and potential directions of the developments.

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

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

Approximation and inference methods for stochastic biochemical kinetics - a tutorial review

Stochastic fluctuations of molecule numbers are ubiquitous in biological systems. Important examples include gene expression and enzymatic processes in living cells. Such systems are typically modelled as chemical reaction networks whose dynamics are governed by the Chemical Master Equation. Despite its simple structure, no analytic solutions to the Chemical Master Equation are known for most s...

متن کامل

Stochastic dynamics and non-equilibrium thermodynamics of a bistable chemical system: the Schlögl model revisited.

Schlögl's model is the canonical example of a chemical reaction system that exhibits bistability. Because the biological examples of bistability and switching behaviour are increasingly numerous, this paper presents an integrated deterministic, stochastic and thermodynamic analysis of the model. After a brief review of the deterministic and stochastic modelling frameworks, the concepts of chemi...

متن کامل

Approximation of stochastic advection diffusion equations with finite difference scheme

In this paper, a high-order and conditionally stable stochastic difference scheme is proposed for the numerical solution of $rm Ithat{o}$ stochastic advection diffusion equation with one dimensional white noise process. We applied a finite difference approximation of fourth-order for discretizing space spatial derivative of this equation. The main properties of deterministic difference schemes,...

متن کامل

Numerical Study on the Reaction Cum Diffusion Process in a Spherical Biocatalyst

In chemical engineering, several processes are represented by singular boundary value problems. In general, classical numerical methods fail to produce good approximations for the singular boundary value problems. In this paper, Chebyshev finite difference (ChFD) method and DTM-Pad´e method, which is a combination of differential transform method (DTM) and Pad´e approximant, are applied for sol...

متن کامل

Accuracy of the Michaelis-Menten approximation when analysing effects of molecular noise.

Quantitative biology relies on the construction of accurate mathematical models, yet the effectiveness of these models is often predicated on making simplifying approximations that allow for direct comparisons with available experimental data. The Michaelis-Menten (MM) approximation is widely used in both deterministic and discrete stochastic models of intracellular reaction networks, owing to ...

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

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

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

عنوان ژورنال:

دوره   شماره 

صفحات  -

تاریخ انتشار 2018