Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Multi-Step Reactions

Multi-Step Reactions

Chemical reactions often occur in a stepwise fashion involving two or more distinct reactions taking place in a sequence. A balanced equation indicates the reacting species and the product species, but it reveals no details about how the reaction occurs at the molecular level. The reaction mechanism (or reaction path) provides details regarding the precise, step-by-step process by which a reaction occurs. Each of the steps in a reaction mechanism is called an elementary reaction. These...

Measuring Reaction Rates

Measuring Reaction Rates

Polarimetry finds application in chemical kinetics to measure the concentration and reaction kinetics of optically active substances during a chemical reaction. Optically active substances have the capability of rotating the plane of polarization of linearly polarized light passing through them—a feature called optical rotation. Optical activity is attributed to the molecular structure of substances. Normal monochromatic light is unpolarized and possesses oscillations of the electrical field in...

Reaction Mechanisms: Rate-limiting Step Approximation

Reaction Mechanisms: Rate-limiting Step Approximation

The rate-determining step, or RDS, in a chemical reaction is the slowest step that determines the overall reaction rate. It is identified by using the observed rate law and typically involves approximation methods like the RDS approximation or the steady-state approximation.In the RDS approximation, also known as the rate-limiting-step or equilibrium approximation, the reaction mechanism consists of one or more reversible reactions near equilibrium, followed by a slower RDS, and then one or...

Determining Order of Reaction

Determining Order of Reaction

Rate laws describe the relationship between the rate of a chemical reaction and the concentration of its reactants. In a rate law, the rate constant k and the reaction orders are determined experimentally by observing how the rate of reaction changes as the concentrations of the reactants are changed. A common experimental approach to the determination of rate laws is the method of initial rates. This method involves measuring reaction rates for multiple experimental trials carried out using...

Coupled Reactions

Coupled Reactions

Cellular processes such as building and breaking down complex molecules occur through stepwise chemical reactions. Some of these chemical reactions are spontaneous and release energy, whereas others require energy to proceed. Cells often couple the energy-releasing reaction with the energy-requiring one to carry out important cell functions.
Energy in adenosine triphosphate or ATP molecules is easily accessible to do work. ATP powers the majority of energy-requiring cellular reactions. Cells...

Reaction Mechanisms: The Steady-State Approximation

Reaction Mechanisms: The Steady-State Approximation

The steady-state approximation, also referred to as the quasi-steady-state approximation to differentiate it from a true steady state, is a widely used method for simplifying calculations in complex reaction mechanisms. This approach is particularly useful when dealing with multi-step reactions that involve reverse reactions or several steps, which can significantly increase mathematical complexity and make the reactions nearly unsolvable analytically.The steady-state approximation operates on...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

Introduction to special issue ECCS'10 in Theory in Biosciences.

Theory in biosciences = Theorie in den Biowissenschaften·2012

Same author

Multi-scale genetic dynamic modelling II: application to synthetic biology: an algorithmic Markov chain based approach.

Theory in biosciences = Theorie in den Biowissenschaften·2011

Same author

Multi-scale genetic dynamic modelling I : an algorithm to compute generators.

Theory in biosciences = Theorie in den Biowissenschaften·2011

Same author

Introduction to special issue ECCS'09 in Theory in Biosciences.

Theory in biosciences = Theorie in den Biowissenschaften·2011

Same author

Exploration of cellular reaction systems.

Briefings in bioinformatics·2010

Same author

Diffusion of a membrane protein, Tat subunit Hcf106, is highly restricted within the chloroplast thylakoid network.

FEBS letters·2009

Search research articles

Related Experiment Video

Updated: Jul 5, 2026

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

Published on: October 19, 2021

Multiscale analysis of reaction networks.

Luca Sbano¹, Markus Kirkilionis

¹Mathematics Institute, University of Warwick, Coventry, UK. sbano@maths.warwick.ac.uk

Theory in Biosciences = Theorie in Den Biowissenschaften

|May 1, 2008

Summary

Bridging scales in chemical reactions is crucial. This study introduces a stochastic formulation for biochemical reaction networks, enabling the derivation of effective macroscopic dynamics.

Area of Science:

Biochemistry
Chemical Kinetics
Statistical Mechanics

Background:

Bridging scale gaps in natural sciences is essential, particularly in chemical reactions influencing biological activity.
Biochemical reaction networks involve molecular interactions and conformational changes, with the latter not always fitting mass-action kinetics.

Purpose of the Study:

Demonstrate the necessity of a stochastic formulation for studying reaction networks.
Develop a coherent approximation for biochemical reaction networks across different scales and particle numbers.

Main Methods:

Employing a stochastic formulation for reaction networks.
Utilizing a continuum limit procedure to derive Fokker-Planck type equations.
Applying asymptotic theory to derive effective macroscopic dynamics.

More Related Videos

Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation

Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation

Published on: August 21, 2019

Related Experiment Videos

Last Updated: Jul 5, 2026

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

Published on: October 19, 2021

Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation

Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation

Published on: August 21, 2019

Main Results:

The continuum limit yields Fokker-Planck equations where concentration evolution is slower than conformational changes.
Derived effective macroscopic dynamics for general biochemical reaction systems.
The theory is applicable to systems with finitely many internal states and birth-death processes.

Conclusions:

A stochastic approach is necessary for accurately modeling biochemical reaction networks, especially concerning molecular conformational changes.
The developed theory provides a method to derive macroscopic dynamics from microscopic stochastic processes.
The framework is extensible to other systems involving state changes driven by external entities.