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 Concept Videos

Linear Approximation in Time Domain01:21

Linear Approximation in Time Domain

237
Nonlinear systems often require sophisticated approaches for accurate modeling and analysis, with state-space representation being particularly effective. This method is especially useful for systems where variables and parameters vary with time or operating conditions, such as in a simple pendulum or a translational mechanical system with nonlinear springs.
For a simple pendulum with a mass evenly distributed along its length and the center of mass located at half the pendulum's length,...
237
Stability of Equilibrium Configuration: Problem Solving01:13

Stability of Equilibrium Configuration: Problem Solving

847
The stability of equilibrium configurations is an important concept in physics, engineering, and other related fields. In simple terms, it refers to the tendency of an object or system to return to its equilibrium position after being disturbed. The stability of an equilibrium configuration can be analyzed by considering the potential energy function of the system and examining its behavior near the equilibrium point.
Problem-solving in the context of the stability of equilibrium configuration...
847
Mechanistic Models: Compartment Models in Algorithms for Numerical Problem Solving01:29

Mechanistic Models: Compartment Models in Algorithms for Numerical Problem Solving

200
Mechanistic models play a crucial role in algorithms for numerical problem-solving, particularly in nonlinear mixed effects modeling (NMEM). These models aim to minimize specific objective functions by evaluating various parameter estimates, leading to the development of systematic algorithms. In some cases, linearization techniques approximate the model using linear equations.
In individual population analyses, different algorithms are employed, such as Cauchy's method, which uses a...
200
Multimachine Stability01:25

Multimachine Stability

470
Multimachine stability analysis is crucial for understanding the dynamics and stability of power systems with multiple synchronous machines. The objective is to solve the swing equations for a network of M machines connected to an N-bus power system.
In analyzing the system, the nodal equations represent the relationship between bus voltages, machine voltages, and machine currents. The nodal equation is given by:
470
Constraints and Statical Determinacy01:26

Constraints and Statical Determinacy

874
In structural engineering, the equilibrium of a system is not only determined by its equations of equilibrium but also with the help of constraints. Constraints refer to restrictions on the motion of a system. The proper combinations of constraints can minimize the total number of constraints needed to maintain a system in mechanical equilibrium. When this happens, the system is said to be statically determinate. For such systems, the unknown reaction supports can be estimated using equilibrium...
874
Linear Approximation in Frequency Domain01:26

Linear Approximation in Frequency Domain

282
Linear systems are characterized by two main properties: superposition and homogeneity. Superposition allows the response to multiple inputs to be the sum of the responses to each individual input. Homogeneity ensures that scaling an input by a scalar results in the response being scaled by the same scalar.
In contrast, nonlinear systems do not inherently possess these properties. However, for small deviations around an operating point, a nonlinear system can often be approximated as linear....
282

You might also read

Related Articles

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

Sort by
Same author

AI-Enabled Mapping of Structure-Hazard Relationships for Emerging Contaminants.

Environment & health (Washington, D.C.)·2026
Same author

Machine-Learned Leftmost Hessian Eigenvectors for Robust Transition State Finding.

Journal of chemical theory and computation·2026
Same author

Energetics of Noncovalent Interactions of Protein-Ligand Complexes for Drug Discovery.

Journal of chemical information and modeling·2026
Same author

Predicting the progression of proliferative diabetic retinopathy: Pathophysiology, imaging phenotypes, and determinants of disease persistence despite therapy.

Survey of ophthalmology·2026
Same author

Pictilisib and nutrient stress synergize to induce methuosis via PI(4,5)P<sub>2</sub>-dependent macropinocytic dysregulation in cancer cells.

Cell death & disease·2026
Same author

Sensing the acidity of hydrogen bond networks.

Physical chemistry chemical physics : PCCP·2026
Same journal

Complementing Onsager's Conductivity Theory by Grotthuss Mechanism Mitigation via Ion-Induced Depletion of Hydrogen-Bond-Donating Water.

Journal of chemical theory and computation·2026
Same journal

Microscopic Stress in Biomembranes: A Perspective on Key Concepts, Methods, and Applications.

Journal of chemical theory and computation·2026
Same journal

Analytic Nuclear Gradients Including Oriented External Electric Fields in a Molecule-Fixed Frame.

Journal of chemical theory and computation·2026
Same journal

Knowledge Distillation of a Protein Language Model Yields a Foundational Implicit Solvent Model.

Journal of chemical theory and computation·2026
Same journal

Generalizable Protein Folding Pathway Exploration with DA2-GRASP: Extending Beyond Miniproteins.

Journal of chemical theory and computation·2026
Same journal

Improving PCM in Protic Media: Markov State Models for TD-DFT Calculations.

Journal of chemical theory and computation·2026
See all related articles

Related Experiment Video

Updated: Dec 8, 2025

Finite Element Modelling of a Cellular Electric Microenvironment
08:23

Finite Element Modelling of a Cellular Electric Microenvironment

Published on: May 18, 2021

3.8K

Stochastic Constrained Extended System Dynamics for Solving Charge Equilibration Models.

Songchen Tan1,2, Itai Leven2,3, Dong An4,5

  • 1College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.

Journal of Chemical Theory and Computation
|September 21, 2020
PubMed
Summary
This summary is machine-generated.

We developed a new molecular dynamics method to speed up charge calculations. This approach accurately models molecular properties and is available in LAMMPS for broader use.

More Related Videos

Modeling Fast-scan Cyclic Voltammetry Data from Electrically Stimulated Dopamine Neurotransmission Data Using QNsim1.0
07:41

Modeling Fast-scan Cyclic Voltammetry Data from Electrically Stimulated Dopamine Neurotransmission Data Using QNsim1.0

Published on: June 5, 2017

10.2K

Related Experiment Videos

Last Updated: Dec 8, 2025

Finite Element Modelling of a Cellular Electric Microenvironment
08:23

Finite Element Modelling of a Cellular Electric Microenvironment

Published on: May 18, 2021

3.8K
Modeling Fast-scan Cyclic Voltammetry Data from Electrically Stimulated Dopamine Neurotransmission Data Using QNsim1.0
07:41

Modeling Fast-scan Cyclic Voltammetry Data from Electrically Stimulated Dopamine Neurotransmission Data Using QNsim1.0

Published on: June 5, 2017

10.2K

Area of Science:

  • Computational Chemistry
  • Materials Science
  • Molecular Dynamics

Background:

  • Accurate charge distribution is crucial for molecular simulations.
  • Standard self-consistent field (SCF) methods present a computational bottleneck.
  • Existing methods struggle with computational efficiency for complex systems.

Purpose of the Study:

  • To introduce a novel stochastic extended Lagrangian molecular dynamics (SC-XLMD) method.
  • To eliminate the need for computationally expensive SCF calculations in charge equilibration.
  • To enable accurate and efficient simulations of molecular systems.

Main Methods:

  • Formulated charges and chemical potential as latent variables.
  • Introduced a holonomic constraint for charge conservation.
  • Applied the SC-XLMD method within the ReaxFF framework.

Main Results:

  • SC-XLMD accurately reproduced thermodynamic, dynamic, and structural properties.
  • Simulations included bulk water and high-temperature RDX molecules.
  • Demonstrated excellent computational performance compared to SCF methods.

Conclusions:

  • The SC-XLMD method offers a computationally efficient alternative to SCF solvers.
  • This new approach enhances the simulation of charge equilibration in molecular dynamics.
  • The method is publicly available in the LAMMPS package for widespread adoption.