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Simulations of biological macromolecules play an important role in understanding the physical basis of a number of complex processes such as protein folding. Even with increasing computational power and evolution of specialized…

Distributed, Parallel, and Cluster Computing · Computer Science 2019-09-18 Hyungro Lee , Heng Ma , Matteo Turilli , Debsindhu Bhowmik , Shantenu Jha , Arvind Ramanathan

Machine-learning interatomic potentials (MLPs) are fast, data-driven surrogate models of atomistic systems' potential energy surfaces that can accelerate ab-initio molecular dynamics (MD) simulations by several orders of magnitude. The…

Materials Science · Physics 2024-09-23 Thomas Bischoff , Bastian Jäckl , Matthias Rupp

Molecular dynamics (MD) simulation is essential for various scientific domains but computationally expensive. Learning-based force fields have made significant progress in accelerating ab-initio MD simulation but are not fast enough for…

Machine Learning · Computer Science 2023-08-29 Xiang Fu , Tian Xie , Nathan J. Rebello , Bradley D. Olsen , Tommi Jaakkola

Machine learned potentials (MLPs) have been widely employed in molecular dynamics (MD) simulations to study thermal transport. However, literature results indicate that MLPs generally underestimate the lattice thermal conductivity (LTC) of…

Materials Science · Physics 2024-09-12 Xiguang Wu , Wenjiang Zhou , Haikuang Dong , Penghua Ying , Yanzhou Wang , Bai Song , Zheyong Fan , Shiyun Xiong

Simulating the dynamics of ions near polarizable nanoparticles (NPs) using coarse-grained models is extremely challenging due to the need to solve the Poisson equation at every simulation timestep. Recently, a molecular dynamics (MD) method…

Computational Physics · Physics 2019-11-01 JCS Kadupitiya , Geoffrey C. Fox , Vikram Jadhao

Silicon carbide (SiC) is an essential material for next generation semiconductors and components for nuclear plants. It's applications are strongly dependent on its thermal conductivity, which is highly sensitive to microstructures.…

Materials Science · Physics 2021-10-22 Baoqin Fu , Yandong Sun , Linfeng Zhang , Han Wang , Ben Xu

Ferroelectric materials with switchable spontaneous polarization underpin non-volatile memories, transistors, sensors, and emerging neuromorphic chips. Their performance and stability are governed by polarization dynamics and domain…

Materials Science · Physics 2026-03-20 Dongyu Bai , Ri He , Junxian Liu , Liangzhi Kou

Machine learning interatomic potentials (MLIPs) have become increasingly effective at approximating quantum mechanical calculations at a fraction of the computational cost. However, lower errors on held out test sets do not always translate…

Computational Physics · Physics 2025-04-24 Xiang Fu , Brandon M. Wood , Luis Barroso-Luque , Daniel S. Levine , Meng Gao , Misko Dzamba , C. Lawrence Zitnick

Heat conduction and radiation are two of the three fundamental modes of heat transfer, playing a critical role in a wide range of scientific and engineering applications ranging from energy systems to materials science. However, traditional…

Materials Science · Physics 2025-10-31 Ziqi Guo , Daniel Carne , Krutarth Khot , Dudong Feng , Guang Lin , Xiulin Ruan

We present a new deep learning-based machine learning potential (MLP) for molecular dynamics simulations of solid carbon monoxide (CO), capable of accurately describing CO vibrations both in the fundamental state and in highly excited…

Turning gold nanoparticles (AuNPs) into nanoscale heat sources via light irradiation has prompted significant research interest, particularly for biomedical applications over the past few decades. The AuNP's tunable photothermal effect,…

Machine Learning Potentials (MLPs) can enable simulations of ab initio accuracy at orders of magnitude lower computational cost. However, their effectiveness hinges on the availability of considerable datasets to ensure robust…

Machine Learning · Computer Science 2025-02-20 Sebastien Röcken , Julija Zavadlav

In drug discovery, molecular dynamics (MD) simulation for protein-ligand binding provides a powerful tool for predicting binding affinities, estimating transport properties, and exploring pocket sites. There has been a long history of…

We present a new approach for the two-temperature molecular dynamics (MD) model for coupled simulations of electronic and phonon heat conduction in nanoscale systems. The proposed method uses a master equation to perform heat conduction of…

Computational Physics · Physics 2019-09-04 Mohammad W. Ullah , Mauricio Ponga

Machine-learned interatomic potentials (MLIPs) are revolutionizing computational materials science and chemistry by offering an efficient alternative to {\em ab initio} molecular dynamics (MD) simulations. However, fitting high-quality…

Computational Physics · Physics 2025-12-12 Ilgar Baghishov , Jan Janssen , Graeme Henkelman , Danny Perez

Machine-learned interatomic potentials (MLIPs) have rapidly progressed in accuracy, speed, and data efficiency in recent years. However, training robust MLIPs in multicomponent systems still remains a challenge. In this work, we train a…

Liquid metals are central to energy-storage and nuclear technologies, yet quantitative knowledge of their thermophysical properties remains limited. While atomistic simulations offer a route to computing liquid properties directly from…

Materials Science · Physics 2026-01-09 Alex Tai , Jason Ogbebor , Rodrigo Freitas

The highly anisotropic thermal conductivity in layered materials is crucial for a broad range of applications such as thermal management of electronic devices, thermal insulation, and thermoelectrics. Understanding of anisotropic thermal…

Materials Science · Physics 2022-08-23 Jialin Tang , Qi Wang , Jiongzhi Zheng , Lin Cheng , Ruiqiang Guo

With the rapid advancement of computational techniques, Molecular Dynamics (MD) simulations have emerged as powerful tools in biomedical research, enabling in-depth investigations of biological systems at the atomic level. Among the diverse…

Biomolecules · Quantitative Biology 2024-09-05 Reza Bozorgpour

Machine-learned potentials (MLPs) have become a popular approach of modelling interatomic interactions in atomistic simulations, but to keep the computational cost under control, a relatively short cutoff must be imposed, which put serious…

Materials Science · Physics 2023-12-21 Penghua Ying , Zheyong Fan