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

Mechanistic Models: Compartment Models in Algorithms for Numerical Problem Solving01:29

Mechanistic Models: Compartment Models in Algorithms for Numerical Problem Solving

100
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...
100
SN2 Reaction: Transition State02:26

SN2 Reaction: Transition State

10.1K
An SN2 reaction of an alkyl halide is a single-step process in which bond formation between the nucleophile and the substrate and bond breaking between the substrate and the halide occurs simultaneously through a transition state without forming an intermediate.
When the nucleophile approaches the electrophilic carbon with its lone pairs, the halide acts as a leaving group and moves away with the electron-pair bonded to the carbon. Dotted partial bonds represent the bonds being formed or broken...
10.1K
Cooperative Allosteric Transitions01:58

Cooperative Allosteric Transitions

2.3K
2.3K
Double Resonance Techniques: Overview01:12

Double Resonance Techniques: Overview

286
Double resonance techniques in Nuclear Magnetic Resonance (NMR) spectroscopy involve the simultaneous application of two different frequencies or radiofrequency pulses to manipulate and observe two distinct nuclear spins. One important application of double resonance is spin decoupling, which selectively suppresses coupling with one type of nucleus while observing the NMR signal from another nucleus, simplifying the spectrum and enhancing resolution.
Spin decoupling is usually achieved by...
286
Nuclear Overhauser Enhancement (NOE)01:07

Nuclear Overhauser Enhancement (NOE)

824
Irradiation of a spin-active nucleus causes an increase or decrease in the signal intensity of neighboring nuclei that are not necessarily chemically bonded or involved in J-coupling.  This phenomenon, called the Nuclear Overhauser Enhancement (NOE), results from through-space interactions between the nuclear spins. The NOE effect decreases with increasing internuclear distance and is generally not observed beyond 4 angstroms. In NOE, dipole-dipole interactions between neighboring...
824
One-Compartment Open Model: Wagner-Nelson and Loo Riegelman Method for ka Estimation01:24

One-Compartment Open Model: Wagner-Nelson and Loo Riegelman Method for ka Estimation

706
This lesson introduces two critical methods in pharmacokinetics, the Wagner-Nelson and Loo-Riegelman methods, used for estimating the absorption rate constant (ka) for drugs administered via non-intravenous routes. The Wagner-Nelson method relates ka to the plasma concentration derived from the slope of a semilog percent unabsorbed time plot. However, it is limited to drugs with one-compartment kinetics and can be impacted by factors like gastrointestinal motility or enzymatic degradation.
On...
706

You might also read

Related Articles

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

Sort by
Same author

Dual-Quenching Charge Transfer Unlocks Record Nitrate-to-Ammonia Photocatalytic Conversion in Redox-Active Eosin Y Polymers.

Advanced materials (Deerfield Beach, Fla.)·2026
Same author

HiMac: High-Throughput Initialization of Multidentate Adsorption Configurations for Geometry Relaxation and Transition-State Searches.

Journal of chemical theory and computation·2026
Same author

Triphenylene-Derived Polyimide Covalent Organic Frameworks for Efficient Photosynthesis of Hydrogen Peroxide.

Journal of the American Chemical Society·2026
Same author

Synergizing Mass Transfer and Exciton Dissociation in Nanoscale COFs for Efficient H<sub>2</sub>O<sub>2</sub> Photosynthesis.

Angewandte Chemie (International ed. in English)·2026
Same author

Dynamic Potassium Segregation Drives Cu<sup>2+</sup> → Cu<sup>+</sup> Transition and Redefines Alkali-Metal Promotion in Selective Propylene Epoxidation.

JACS Au·2026
Same author

Photothermal CO<sub>2</sub> methanation over (NiO/Ru<sup>0</sup>)/TiO<sub>2</sub> catalysts via hydrogen spillover.

Nature communications·2026
Same journal

Nuclear Gradients from Auxiliary-Field Quantum Monte Carlo and Their Applications in ML-Driven Geometry Optimization and Transition State Search.

Journal of chemical theory and computation·2026
Same journal

Correction to "Cluster-in-Molecule Local Correlation Method with an Accurate Distant Pair Correction for Large Systems".

Journal of chemical theory and computation·2026
Same journal

Machine-Learned Force Fields for Lattice Dynamics at Coupled-Cluster Level Accuracy.

Journal of chemical theory and computation·2026
Same journal

Systematic Molecularity-Dependent Entropy Errors in Continuum/RRHO Solution Thermochemistry: Origin and Correction.

Journal of chemical theory and computation·2026
Same journal

After 100 Years of Quantum Mechanics: Toward a Constructive Observation-Centered Perspective.

Journal of chemical theory and computation·2026
Same journal

Sample-Based Quantum Diagonalization Methods for Modeling the Photochemistry of Diazirine and Diazo Compounds.

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

Related Experiment Video

Updated: Sep 8, 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

8.3K

Cone-Shaped Constrained Quasi-Newton Method: Efficient and Robust Single-Ended Transition State Optimization

Yinkai Wu1, Haifeng Wang1

  • 1State Key Laboratory of Green Chemical Engineering and Industrial Catalysis, Center for Computational Chemistry and Research Institute of Industrial Catalysis, East China University of Science and Technology, Shanghai 200237, People's Republic of China.

Journal of Chemical Theory and Computation
|September 5, 2025
PubMed
Summary
This summary is machine-generated.

We developed a new Cone-shaped Constrained Quasi-Newton (CCQN) method for finding transition states in catalysis. This efficient approach improves accuracy and reduces reliance on initial guesses for complex reactions.

More Related Videos

Isotopic Effect in Double Proton Transfer Process of Porphycene Investigated by Enhanced QM/MM Method
05:51

Isotopic Effect in Double Proton Transfer Process of Porphycene Investigated by Enhanced QM/MM Method

Published on: July 19, 2019

6.3K
Single-Molecule Tracking Microscopy - A Tool for Determining the Diffusive States of Cytosolic Molecules
10:20

Single-Molecule Tracking Microscopy - A Tool for Determining the Diffusive States of Cytosolic Molecules

Published on: September 5, 2019

8.3K

Related Experiment Videos

Last Updated: Sep 8, 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

8.3K
Isotopic Effect in Double Proton Transfer Process of Porphycene Investigated by Enhanced QM/MM Method
05:51

Isotopic Effect in Double Proton Transfer Process of Porphycene Investigated by Enhanced QM/MM Method

Published on: July 19, 2019

6.3K
Single-Molecule Tracking Microscopy - A Tool for Determining the Diffusive States of Cytosolic Molecules
10:20

Single-Molecule Tracking Microscopy - A Tool for Determining the Diffusive States of Cytosolic Molecules

Published on: September 5, 2019

8.3K

Area of Science:

  • Computational Chemistry
  • Chemical Kinetics
  • Materials Science

Background:

  • Locating transition states is crucial for understanding catalytic reaction mechanisms.
  • Single-ended methods are efficient but sensitive to initial guesses.
  • Existing methods struggle with convergence for complex systems.

Purpose of the Study:

  • To develop a robust and efficient method for transition state (TS) location in heterogeneous catalysis.
  • To overcome the sensitivity of single-ended methods to initial guesses.
  • To provide a tool for high-throughput screening and mechanistic studies.

Main Methods:

  • Introduction of a Cone-shaped Constrained Quasi-Newton (CCQN) method.
  • Utilizing a cone-shaped constraint to guide searches towards saddle regions.
  • Employing partitioned rational function optimization for refinement after crossing inflection curves.

Main Results:

  • CCQN achieved a 93.3% success rate across 150 transition state optimization tasks.
  • The method required an average of approximately 50 energy-force evaluations.
  • Demonstrated strong robustness and convergence efficiency, even with poor initial guesses.

Conclusions:

  • The CCQN method offers a significant improvement for transition state searches.
  • It combines the efficiency of single-ended methods with reduced sensitivity to initial conditions.
  • Presents a valuable new tool for computational catalysis research and discovery.