Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

Sampling rare switching events in biochemical networks.

Rosalind J Allen1, Patrick B Warren, Pieter Rein Ten Wolde

  • 1FOM Institute for Atomic and Molecular Physics, Kruislaan 407, 1098 SJ Amsterdam, The Netherlands.

Physical Review Letters
|February 9, 2005
PubMed
Summary

We developed a new simulation method to study rare switching events in biochemical systems like gene networks. This efficient method accurately predicts the rate and mechanism of these crucial biological switches.

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

State- versus Reaction-Based Information Processing in Biochemical Networks.

Physical review letters·2026
Same author

Bacterial degradation of a plant toxin and nutrient competition with commensals trade off to constrain pathogen growth.

mSystems·2026
Same author

Multiomics studies reveal how ambient temperature changes govern cellular responses of Chlamydomonas.

The Plant cell·2026
Same author

Wertheim association theory for ion pairing in electrolytes: The effect of neutral clusters.

The Journal of chemical physics·2026
Same author

Draft genome of an <i>Escherichia coli</i> gut isolate from a sertraline-treated patient suggests potential antibiotic resistance induction.

Microbiology resource announcements·2026
Same author

Simple models for the trapping of charged particles and macromolecules by diffusiophoresis in salt gradients.

Physical review. E·2026

Area of Science:

  • Biochemistry
  • Systems Biology
  • Computational Biology

Background:

  • Bistable biochemical switches are crucial components of gene regulatory networks and signal transduction pathways.
  • Studying the dynamics of these switches is challenging due to the rarity of switching events and the nonequilibrium nature of the systems.

Purpose of the Study:

  • To develop and present a novel simulation method for predicting the rate and mechanism of switching events in bistable biochemical systems.
  • To apply this method to a genetic switch and assess its efficiency and applicability.

Main Methods:

  • A simulation method was developed to predict the rate and mechanism of switching events.
  • The method was applied to analyze a specific genetic switch.
  • Path ensembles for forward and reverse processes were analyzed.

Related Experiment Videos

Main Results:

  • The simulation method proved to be highly efficient in predicting switch flipping.
  • Analysis of a genetic switch demonstrated the method's effectiveness.
  • It was observed that the path ensembles for forward and reverse processes do not coincide.

Conclusions:

  • The developed simulation method is effective for studying rare events in nonequilibrium biochemical systems.
  • This approach offers a valuable tool for understanding the dynamics of biological switches.
  • The method has broad applicability to various rare event and nonequilibrium processes in science.