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We investigate the impact of choosing regressors and molecular representations for the construction of fast machine learning (ML) models of thirteen electronic ground-state properties of organic molecules. The performance of each…

The tradeoff between precision and performance in molecular simulations can nowadays be addressed by machine-learned force fields (MLFF), which combine \textit{ab initio} accuracy with force field numerical efficiency. Different from…

Computational Physics · Physics 2024-03-08 Nianze Tao , Hiromi Morimoto , Stefano Leoni

Traditional atomistic machine learning (ML) models serve as surrogates for quantum mechanical (QM) properties, predicting quantities such as dipole moments and polarizabilities, directly from compositions and geometries of atomic…

Large Language Models (LLMs) have the potential to accelerate small molecule drug design due to their ability to reason about information from diverse sources and formats. However, their practical utility remains unclear due to the lack of…

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

Deep learning and Convolutional Neural Networks (CNNs) have driven major transformations in diverse research areas. However, their limitations in handling low-frequency information present obstacles in certain tasks like interpreting global…

Computer Vision and Pattern Recognition · Computer Science 2024-03-14 Fuzhi Wu , Jiasong Wu , Youyong Kong , Chunfeng Yang , Guanyu Yang , Huazhong Shu , Guy Carrault , Lotfi Senhadji

Chemists in search of structure-property relationships face great challenges due to limited high quality, concordant datasets. Machine learning (ML) has significantly advanced predictive capabilities in chemical sciences, but these modern…

Machine Learning · Computer Science 2025-09-18 Yulia Pimonova , Michael G. Taylor , Alice Allen , Ping Yang , Nicholas Lubbers

Rapid and accurate simulations of fluid dynamics around complicated geometric bodies are critical in a variety of engineering and scientific applications, including aerodynamics and biomedical flows. However, while scientific machine…

Machine learning force fields (MLFFs) are an attractive alternative to ab-initio methods for molecular dynamics (MD) simulations. However, they can produce unstable simulations, limiting their ability to model phenomena occurring over…

Machine Learning · Computer Science 2025-02-26 Sanjeev Raja , Ishan Amin , Fabian Pedregosa , Aditi S. Krishnapriyan

Understanding the relationship between molecular structure and chemical reactivity or properties is fundamental to rational molecular design. Linear free energy relationships (LFERs), particularly Hammett analysis, have long served as…

Chemical Physics · Physics 2026-01-21 Yu-Chien Huang , Dennis Chung-Yang Huang , Yun-Cheng Tsai

Biomolecular thermodynamics and spectroscopy depend on relative conformer energies, local curvatures, and collective dipole fluctuations on the potential-energy surface. Conventional molecular mechanics force fields enable large-scale…

Neural network force field (NNFF) is a method for performing regression on atomic structure-force relationships, bypassing expensive quantum mechanics calculation which prevents the execution of long ab-initio quality molecular dynamics…

Simulations with an explicit description of intermolecular forces using electronic structure methods are still not feasible for many systems of interest. As a result, empirical methods such as force fields (FF) have become an established…

Chemical Physics · Physics 2022-06-02 Moritz Thürlemann , Lennard Böselt , Sereina Riniker

Gaussian process (GP) emulator has been used as a surrogate model for predicting force field and molecular potential, to overcome the computational bottleneck of molecular dynamics simulation. Integrating both atomic force and energy in…

Chemical Physics · Physics 2022-05-13 Hao Li , Musen Zhou , Jessalyn Sebastian , Jianzhong Wu , Mengyang Gu

Machine learning plays an increasingly important role in computational chemistry and materials science, complementing computationally intensive ab initio and first-principles methods. Despite their utility, machine-learning models often…

Chemical Physics · Physics 2025-05-06 Makoto Takamoto , Viktor Zaverkin , Mathias Niepert

Atomic force microscopy (AFM) is a key tool for characterising nanoscale structures, with functionalised tips now offering detailed images of the atomic structure. In parallel, AFM simulations using the particle probe model provide a…

Materials Science · Physics 2025-09-03 Jie Huang , Niko Oinonen , Fabio Priante , Filippo Federici Canova , Lauri Kurki , Chen Xu , Adam S. Foster

Supernet training of LLMs is of great interest in industrial applications as it confers the ability to produce a palette of smaller models at constant cost, regardless of the number of models (of different size / latency) produced. We…

Machine Learning · Computer Science 2024-04-03 Achintya Kundu , Fabian Lim , Aaron Chew , Laura Wynter , Penny Chong , Rhui Dih Lee

The discovery of Metal-Organic Frameworks (MOFs) with application-specific properties remains a central challenge in materials chemistry, owing to the immense size and complexity of their structural design space. Conventional computational…

Machine Learning · Computer Science 2025-06-03 Srivathsan Badrinarayanan , Rishikesh Magar , Akshay Antony , Radheesh Sharma Meda , Amir Barati Farimani

Machine learning force fields possess unprecedented potential in achieving both accuracy and efficiency in molecular simulations. Nevertheless, their application in organic systems is often hindered by structural collapse during simulation…

Computational Physics · Physics 2026-02-03 Junbao Hu , Dingyu Hou , Jian Jiang

Metric learning algorithms aim to learn a distance function that brings the semantically similar data items together and keeps dissimilar ones at a distance. The traditional Mahalanobis distance learning is equivalent to find a linear…

Computer Vision and Pattern Recognition · Computer Science 2021-06-14 Karrar Al-Kaabi , Reza Monsefi , Davood Zabihzadeh