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

Accurate sampling using Langevin dynamics.

Giovanni Bussi1, Michele Parrinello

  • 1Computational Science, Department of Chemistry and Applied Biosciences, ETH Zürich, USI Campus, Via Giuseppe Buffi 13, CH-6900 Lugano, Switzerland. gbussi@ethz.ch

Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics
|August 7, 2007
PubMed
Summary
This summary is machine-generated.

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

Enzyme Reset: Water-Mediated Tautomerization Restores the Catalytic Asparagine in Protein <i>O</i>-Fucosyltransferase 1.

Journal of chemical information and modeling·2026
Same author

Ceci n'est pas un committor, yet it samples like one: Efficient sampling via approximated committor functions.

The Journal of chemical physics·2026
Same author

Exploring Secondary Structure Predictions for RNA-Targeted Drug Discovery: Power and Challenges.

Journal of chemical information and modeling·2026
Same author

pH-dependent allosteric remodeling of a bacterial riboswitch couples alkaline activation to metal sensing.

bioRxiv : the preprint server for biology·2026
Same author

Making PLUMED Fly: A Tutorial on Optimizing Performance.

The journal of physical chemistry. B·2026
Same author

RNA Dynamics and Interactions Revealed Through Atomistic Simulations.

Annual review of physical chemistry·2026
Same journal

Tension on dsDNA bound to ssDNA-RecA filaments may play an important role in driving efficient and accurate homology recognition and strand exchange.

Physical review. E, Statistical, nonlinear, and soft matter physics·2016
Same journal

Publisher's Note: Amplitude-phase coupling drives chimera states in globally coupled laser networks [Phys. Rev. E 91, 040901(R) (2015)].

Physical review. E, Statistical, nonlinear, and soft matter physics·2016
Same journal

Erratum: Shapes of sedimenting soft elastic capsules in a viscous fluid [Phys. Rev. E 92, 033003 (2015)].

Physical review. E, Statistical, nonlinear, and soft matter physics·2016
Same journal

Erratum: Attenuation of excitation decay rate due to collective effect [Phys. Rev. E 90, 022142 (2014)].

Physical review. E, Statistical, nonlinear, and soft matter physics·2016
Same journal

Publisher's Note: Role of connectivity and fluctuations in the nucleation of calcium waves in cardiac cells [Phys. Rev. E 92, 052715 (2015)].

Physical review. E, Statistical, nonlinear, and soft matter physics·2016
Same journal

Publisher's Note: Lattice Boltzmann approach for complex nonequilibrium flows [Phys. Rev. E 92, 043308 (2015)].

Physical review. E, Statistical, nonlinear, and soft matter physics·2016
See all related articles

This study presents a simple Langevin equation integrator with on-the-fly accuracy checks using effective energy. It ensures correct sampling, even in high-friction scenarios, and demonstrates practical applications with a Lennard-Jones crystal.

Area of Science:

  • Computational physics
  • Statistical mechanics
  • Molecular dynamics

Background:

  • The Langevin equation is crucial for modeling systems with dissipation and random forces.
  • Accurate numerical integration is essential for reliable simulations.
  • The high-friction limit presents challenges for standard integrators.

Purpose of the Study:

  • To develop a simple and accurate integrator for the Langevin equation.
  • To introduce a method for on-the-fly verification of simulation accuracy.
  • To demonstrate the integrator's efficacy in challenging physical regimes and practical scenarios.

Main Methods:

  • Derivation of a novel integrator for the Langevin equation.
  • Utilization of the effective energy concept for accuracy assessment.

Related Experiment Videos

  • Application to simulations of a Lennard-Jones crystal.
  • Main Results:

    • The proposed integrator achieves correct sampling, particularly in the high-friction limit.
    • On-the-fly accuracy checks using effective energy are demonstrated.
    • Successful application to a Lennard-Jones crystal model system.

    Conclusions:

    • The developed integrator offers a reliable method for Langevin dynamics simulations.
    • Effective energy provides a practical tool for validating simulation accuracy.
    • The approach is suitable for complex systems and challenging physical conditions.