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

42
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...
42

You might also read

Related Articles

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

Sort by
Same author

NN-xTB: density functional accuracy at semi empirical speed with neural network extended tight binding.

Nature communications·2026
Same author

Double-Hybrid, but Not Double-Cost: GPU-Accelerated DHDFT for the COMPAS-3 Data Set of Polybenzenoid Hydrocarbons.

Journal of chemical theory and computation·2026
Same author

Efficient Algorithms for GPU Accelerated Evaluation of the DFT Exchange-Correlation Functional.

Journal of chemical theory and computation·2025
Same author

High-Performance, High-Angular-Momentum J Engine on Graphics Processing Units.

Journal of chemical theory and computation·2025
Same author

Acceleration of Self-Consistent Field Calculations Using Basis Set Projection and Many-Body Expansion as Initial Guess Methods.

Journal of chemical theory and computation·2025
Same author

Advanced Techniques for High-Performance Fock Matrix Construction on GPU Clusters.

Journal of chemical theory and computation·2024
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: Jun 10, 2025

Author Spotlight: Enhancing Cryo-Electron Microscopy by Automated Data Collection and Analysis Techniques
07:52

Author Spotlight: Enhancing Cryo-Electron Microscopy by Automated Data Collection and Analysis Techniques

Published on: December 1, 2023

985

An Efficient RI-MP2 Algorithm for Distributed Many-GPU Architectures.

Calum Snowdon1, Giuseppe M J Barca2

  • 1School of Computing, Australian National University, Canberra 2600, Australia.

Journal of Chemical Theory and Computation
|October 18, 2024
PubMed
Summary
This summary is machine-generated.

We developed a new algorithm for calculating molecular energies using Resolution of the Identity, second-order Møller-Plesset perturbation theory (RI-MP2) on GPUs. This method significantly speeds up calculations and reduces energy consumption for large molecules.

More Related Videos

Positron Emission Tomography-based Dose Painting Radiation Therapy in a Glioblastoma Rat Model using the Small Animal Radiation Research Platform
07:57

Positron Emission Tomography-based Dose Painting Radiation Therapy in a Glioblastoma Rat Model using the Small Animal Radiation Research Platform

Published on: March 24, 2022

2.7K
A Protocol for Real-time 3D Single Particle Tracking
10:16

A Protocol for Real-time 3D Single Particle Tracking

Published on: January 3, 2018

14.8K

Related Experiment Videos

Last Updated: Jun 10, 2025

Author Spotlight: Enhancing Cryo-Electron Microscopy by Automated Data Collection and Analysis Techniques
07:52

Author Spotlight: Enhancing Cryo-Electron Microscopy by Automated Data Collection and Analysis Techniques

Published on: December 1, 2023

985
Positron Emission Tomography-based Dose Painting Radiation Therapy in a Glioblastoma Rat Model using the Small Animal Radiation Research Platform
07:57

Positron Emission Tomography-based Dose Painting Radiation Therapy in a Glioblastoma Rat Model using the Small Animal Radiation Research Platform

Published on: March 24, 2022

2.7K
A Protocol for Real-time 3D Single Particle Tracking
10:16

A Protocol for Real-time 3D Single Particle Tracking

Published on: January 3, 2018

14.8K

Area of Science:

  • Computational Chemistry
  • Quantum Chemistry
  • High-Performance Computing

Background:

  • Second-order Møller-Plesset perturbation theory (MP2) is crucial for accurate molecular energy calculations beyond the Hartree-Fock approximation.
  • Current RI-MP2 methods face computational cost and scalability challenges on modern supercomputing architectures.
  • Efficient algorithms are needed to apply RI-MP2 to larger, more complex molecular systems.

Purpose of the Study:

  • To present the first distributed-memory many-GPU algorithm for RI-MP2 calculations.
  • To optimize RI-MP2 computations for hundreds of GPU accelerators.
  • To enable efficient and scalable quantum chemistry simulations on modern hardware.

Main Methods:

  • Developed a novel distributed memory algorithm for forming RI-MP2 intermediate tensors with minimal communication.
  • Implemented a distributed memory algorithm for the energy reduction step, sustaining high performance on GPU clusters.
  • Utilized hundreds of GPU accelerators for all computational steps.

Main Results:

  • Achieved near-peak performance on GPU-based supercomputers.
  • Outperformed state-of-the-art quantum chemistry software by over 3.5 times in speed.
  • Reduced computational power consumption by 8-fold.
  • Demonstrated 11.8 PFLOP/s performance on the Perlmutter supercomputer for a large water cluster.

Conclusions:

  • The novel many-GPU RI-MP2 algorithm offers significant time-to-solution and power consumption benefits.
  • This work paves the way for applying advanced quantum chemistry methods to large molecules on GPU-accelerated systems.
  • Leveraging modern GPU computing environments is crucial for advancing computational chemistry.