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

Equilibrium Conditions for a Particle01:23

Equilibrium Conditions for a Particle

1.0K
When an object is in equilibrium, it is either at rest or moving with a constant velocity. There are two types of equilibrium: static and dynamic. Static equilibrium occurs when an object is at rest, while dynamic equilibrium occurs when an object is moving with a constant velocity. In both cases, there must be a balance of forces acting on the object.
To understand the concept of equilibrium, let us first consider the forces acting on an object. When different forces act on an object, they can...
1.0K
Thermodynamic Potentials01:26

Thermodynamic Potentials

758
Thermodynamic potentials are state functions that are extremely useful in analyzing a thermodynamic system. They have dimensions of energy. The four important thermodynamic potentials are internal energy, enthalpy, Helmholtz free energy, and Gibbs free energy. These thermodynamic potentials can be expressed using two of the following variables: pressure, volume, temperature, and entropy. These two variables are expressed as the rate of change of the thermodynamic potential with respect to other...
758
Principle of Moments: Problem Solving01:30

Principle of Moments: Problem Solving

800
The principle of moments is a fundamental concept in physics and engineering. It refers to the balancing of forces and moments around a point or axis, also known as the pivot. This principle is used in many real-life scenarios, including construction, sports, and daily activities like opening doors and pushing objects.
One such scenario involves a pole placed in a three-dimensional system with a cable attached. When a tension is applied to the cable, the moment about the z-axis passing through...
800
Maxwell-Boltzmann Distribution: Problem Solving01:20

Maxwell-Boltzmann Distribution: Problem Solving

1.4K
Individual molecules in a gas move in random directions, but a gas containing numerous molecules has a predictable distribution of molecular speeds, which is known as the Maxwell-Boltzmann distribution, f(v).
This distribution function f(v) is defined by saying that the expected number N (v1,v2) of particles with speeds between v1 and v2 is given by
1.4K
Thermal Sigmatropic Reactions: Overview01:16

Thermal Sigmatropic Reactions: Overview

2.0K
Sigmatropic rearrangements are a class of pericyclic reactions in which a σ bond migrates from one part of a π system to another. These are intramolecular rearrangements where the total number of σ and π bonds remain unchanged.
Sigmatropic shifts are classified based on an order term [i, j ], where i and j indicate the number of atoms across which each end of the σ bond migrates. Below are examples of a [3,3] sigmatropic shift in...
2.0K
Thermal expansion and Thermal stress: Problem Solving01:27

Thermal expansion and Thermal stress: Problem Solving

1.1K
San Francisco's Golden Gate Bridge is exposed to temperatures ranging from -15 °C to 40 °C. At its coldest, the main span of the bridge is 1275 m long. Assuming that the bridge is made entirely of steel, what is the change in its length between these temperatures?
To solve the problem, first, identify the known and unknown quantities. The initial length (L) of the bridge is 1275 m, the coefficient of linear expansion (α) for steel is 12 x 10-6/°C, and the change in...
1.1K

You might also read

Related Articles

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

Sort by
Same author

Nuclear Spin-Spin Coupling Constants from Auxiliary Density Functional Theory.

Journal of chemical theory and computation·2026
Same author

Constrained Structure Minimizations on Hyperspheres for Minimum Energy Path Following.

Journal of chemical information and modeling·2025
Same author

Automatic Generation of Even-Tempered Auxiliary Basis Sets with Shared Exponents for Density Fitting.

Journal of chemical theory and computation·2025
Same author

Active-learning for global optimization of Ni-Ceria nanoparticles: The case of Ce<sub>4-x</sub>Ni<sub>x</sub>O<sub>8-</sub> <sub>x</sub> (x = 1, 2, 3).

Journal of computational chemistry·2024
Same author

Pd<sub>8</sub> Cluster: Too Small to Melt? A BOMD Study.

The journal of physical chemistry. A·2024
Same author

How important is the amount of exact exchange for spin-state energy ordering in DFT? Case study of molybdenum carbide cluster, Mo4C2.

The Journal of chemical physics·2023
Same journal

How Do DICER1 Syndrome Mutations Disrupt Catalysis? Unveiling Dicer Metal Binding Architecture and Mechanism of Action Using MD Simulations and QM/MM Calculations.

Journal of computational chemistry·2026
Same journal

Quadruple Bonding of Alkaline Earth Atoms in AeCLi<sub>4</sub> (Ae = Be - Ba) Complexes.

Journal of computational chemistry·2026
Same journal

From SMILES Codes for Reactants and Products to Transition States With VeloxChem.

Journal of computational chemistry·2026
Same journal

Electric-Field Effects on Structure and Conductance in a Cytochrome b<sub>562</sub> Junction.

Journal of computational chemistry·2026
Same journal

Quantum Chemistry Study of Luminescence Quenching in the Eu<sup>3+</sup>@UiO-67 Sensor Induced by Ag<sup>+</sup> Ions.

Journal of computational chemistry·2026
Same journal

Projection-Modified Direct Inversion in the Iterative Subspace: A Memory-Efficient Convergence Method for the Extended Molecular Ornstein-Zernike Theory.

Journal of computational chemistry·2026
See all related articles

Related Experiment Video

Updated: May 26, 2025

Computation of Atmospheric Concentrations of Molecular Clusters from ab initio Thermochemistry
12:11

Computation of Atmospheric Concentrations of Molecular Clusters from ab initio Thermochemistry

Published on: April 8, 2020

8.1K

First Principles Global Optimization Method From Parallel Tempering Molecular Dynamics.

Gerald Geudtner1, Andreas M Köster1

  • 1Department of Chemistry, CINVESTAV, Ciudad de México, Mexico.

Journal of Computational Chemistry
|February 21, 2025
PubMed
Summary
This summary is machine-generated.

This study introduces a novel global optimization method using Parallel Tempering Born-Oppenheimer Molecular Dynamics (PT-BOMD) and Discrete Cosine Transformation (DCT) for unbiased structure selection in potential energy surface exploration.

Keywords:
auxiliary density functional theorydeMon2kdiscrete cosine transformationglobal minimizationparallel tempering molecular dynamics

More Related Videos

Exploring Caspase Mutations and Post-Translational Modification by Molecular Modeling Approaches
05:56

Exploring Caspase Mutations and Post-Translational Modification by Molecular Modeling Approaches

Published on: October 13, 2022

1.3K
Author Spotlight: In Silico Creation and Impact of Carbonylated Amino Acids on Protein Structure and Function
05:57

Author Spotlight: In Silico Creation and Impact of Carbonylated Amino Acids on Protein Structure and Function

Published on: April 26, 2024

309

Related Experiment Videos

Last Updated: May 26, 2025

Computation of Atmospheric Concentrations of Molecular Clusters from ab initio Thermochemistry
12:11

Computation of Atmospheric Concentrations of Molecular Clusters from ab initio Thermochemistry

Published on: April 8, 2020

8.1K
Exploring Caspase Mutations and Post-Translational Modification by Molecular Modeling Approaches
05:56

Exploring Caspase Mutations and Post-Translational Modification by Molecular Modeling Approaches

Published on: October 13, 2022

1.3K
Author Spotlight: In Silico Creation and Impact of Carbonylated Amino Acids on Protein Structure and Function
05:57

Author Spotlight: In Silico Creation and Impact of Carbonylated Amino Acids on Protein Structure and Function

Published on: April 26, 2024

309

Area of Science:

  • Computational Chemistry
  • Materials Science
  • Chemical Physics

Background:

  • Global optimization is crucial for exploring complex potential energy surfaces.
  • Stochastic methods are commonly employed but can be computationally intensive.
  • Automated structure selection can mitigate human bias in optimization processes.

Purpose of the Study:

  • To present a novel global optimization technique combining PT-BOMD and DCT.
  • To automate structure selection and reduce human bias in molecular simulations.
  • To investigate the impact of simulation parameters on optimization outcomes.

Main Methods:

  • Utilized Parallel Tempering Born-Oppenheimer Molecular Dynamics (PT-BOMD) for temperature-driven potential energy surface exploration.
  • Implemented a Discrete Cosine Transformation (DCT) based scheme for automated structure selection from simulation trajectories.
  • Analyzed the influence of DCT parameters and PT-BOMD simulation length on optimization results.

Main Results:

  • The combined PT-BOMD and DCT approach enables efficient and unbiased global optimization.
  • Automated structure selection via DCT effectively removes human bias from the optimization workflow.
  • Parameter sensitivity analyses provide insights into optimizing the simulation protocol.

Conclusions:

  • The developed PT-BOMD and DCT method offers a robust and automated strategy for global optimization.
  • This approach enhances the reliability and reproducibility of potential energy surface exploration.
  • Future work can focus on applying this method to diverse chemical and material systems.