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An in-depth insight into the chemistry and nature of the individual chemical bonds is essential for understanding materials. Bonding analysis is thus expected to provide important features for large-scale data analysis and machine learning…

Materials Science · Physics 2023-09-19 Aakash Ashok Naik , Christina Ertural , Nidal Dhamrait , Philipp Benner , Janine George

Protein-ligand binding affinity (PLBA) prediction is the fundamental task in drug discovery. Recently, various deep learning-based models predict binding affinity by incorporating the three-dimensional structure of protein-ligand complexes…

Biomolecules · Quantitative Biology 2023-12-21 Jiaxian Yan , Zhaofeng Ye , Ziyi Yang , Chengqiang Lu , Shengyu Zhang , Qi Liu , Jiezhong Qiu

We extend Expanded Wang-Landau (EWL) simulations beyond classical systems and develop the EWL method for systems modeled with a tight-binding Hamiltonian. We then apply the method to determine the partition function and thus all…

Statistical Mechanics · Physics 2021-08-25 Caroline Desgranges , Jerome Delhommelle

Data-driven molecular discovery leverages artificial intelligence/machine learning (AI/ML) and generative modeling to filter and design novel molecules. Discovering novel molecules requires accurate out-of-distribution (OOD) predictions,…

This study investigates the use of machine learning (ML) to correct the enthalpy of formation (Hf) from two separate DFT functionals, PBE and SCAN, to the experimental Hf across 1011 solid-state compounds. The ML model uses a set of 25…

Materials Science · Physics 2023-07-18 Santosh Adhikari , Christopher J. Bartel , Christopher Sutton

Molecular dynamics (MD) simulations employing classical force fields constitute the cornerstone of contemporary atomistic modeling in chemistry, biology, and materials science. However, the predictive power of these simulations is only as…

Chemical Physics · Physics 2018-09-26 Stefan Chmiela , Huziel E. Sauceda , Klaus-Robert Müller , Alexandre Tkatchenko

Machine-learning force fields (MLFFs) have emerged as a promising solution for speeding up ab initio molecular dynamics (MD) simulations, where accurate force predictions are critical but often computationally expensive. In this work, we…

Amorphous materials exhibit unique properties that make them suitable for various applications in science and technology, ranging from optical and electronic devices and solid-state batteries to protective coatings. However, data-driven…

Materials Science · Physics 2024-02-02 Hui Zheng , Eric Sivonxay , Max Gallant , Ziyao Luo , Matthew McDermott , Patrick Huck , Kristin A. Persson

Standard Bayesian Optimization (BO) assumes uniform smoothness across the search space an assumption violated in multi-regime problems such as molecular conformation search through distinct energy basins or drug discovery across…

Machine Learning · Computer Science 2026-01-29 Yan Zhang , Xuefeng Liu , Sipeng Chen , Sascha Ranftl , Chong Liu , Shibo Li

Biomass-derived hard carbon has become the most promising anode material for sodium-ion batteries (SIBs) due to its high capacity and excellent cycling stability. However, the effects of synthesis parameters and structural features on hard…

Chemical Physics · Physics 2025-10-16 Gang Chen , Zihan Yang , Peng Sun , Chenglong Wang , Jinliang Li , Guang Yang , Likun Pan

The evolution of fifth generation (5G) wireless communication networks has led to an increased need for wireless resource management solutions that provide higher data rates, wide coverage, low latency, and power efficiency. Yet, many of…

Information Theory · Computer Science 2024-06-13 Cemil Vahapoglu , Timothy J. O'Shea , Tamoghna Roy , Sennur Ulukus

Computational chemistry has come a long way over the course of several decades, enabling subatomic level calculations particularly with the development of Density Functional Theory (DFT). Recently, machine-learned potentials (MLP) have…

Predictive models that accurately emulate complex scientific processes can achieve exponential speed-ups over numerical simulators or experiments, and at the same time provide surrogates for improving the subsequent analysis. Consequently,…

Two types of approaches to modeling molecular systems have demonstrated high practical efficiency. Density functional theory (DFT), the most widely used quantum chemical method, is a physical approach predicting energies and electron…

Chemical Physics · Physics 2020-03-02 Anton V. Sinitskiy , Vijay S. Pande

Simulating liquid water to an accuracy that matches its wealth of available experimental data requires both precise electronic structure methods and reliable sampling of nuclear (quantum) motion. This is challenging because applying the…

Learning energy-based model (EBM) requires MCMC sampling of the learned model as an inner loop of the learning algorithm. However, MCMC sampling of EBMs in high-dimensional data space is generally not mixing, because the energy function,…

Machine Learning · Statistics 2022-03-17 Erik Nijkamp , Ruiqi Gao , Pavel Sountsov , Srinivas Vasudevan , Bo Pang , Song-Chun Zhu , Ying Nian Wu

The coarse-grained molecular dynamics (MD) or Brownian dynamics (BD) simulation is a particle-based approach that has been applied to a wide range of biological problems that involve interactions with surrounding fluid molecules or the…

Soft Condensed Matter · Physics 2014-11-20 Szu-Pei Fu , Yuan-Nan Young , Shidong Jiang

We study a generalization performance of the machine learning (ML) model to predict the atomic forces within the density functional theory (DFT). The targets are the Si and Ge single component systems in the liquid state. To train the…

Computational Physics · Physics 2019-03-27 Ryo Tamura , Jianbo Lin , Tsuyoshi Miyazaki

A rechargeable lithium metal battery (LMB), which uses metallic lithium at the anode, is among the most promising technologies for next generation electrochemical energy storage devices due to its high energy density, particularly when Li…

Materials Science · Physics 2016-04-15 Lin Ma , Mun Sek Kim , Lynden A. Archer

To realize efficient computational fluid dynamics (CFD) prediction of two-phase flow, a multi-scale framework was proposed in this paper by applying a physics-guided data-driven approach. Instrumental to this framework, Feature Similarity…

Computational Physics · Physics 2019-10-18 Han Bao , Jinyong Feng , Nam Dinh , Hongbin Zhang