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Chemical reaction networks (CRNs) provide a convenient language for modelling a broad variety of biological systems. These models are commonly studied with respect to the time series they generate in deterministic or stochastic simulations.…

Molecular Networks · Quantitative Biology 2019-07-11 Ozan Kahramanoğulları

To reduce training costs, several Deep neural networks (DNNs) that can learn from a small set of HF data and a sufficient number of low-fidelity (LF) data have been proposed. In these established neural networks, a parallel structure is…

Computational Physics · Physics 2024-05-08 Zhihui Li , Francesco Montomoli

Machine learning force fields (MLFFs) have revolutionized molecular simulations by providing quantum mechanical accuracy at the speed of molecular mechanical computations. However, a fundamental reliance of these models on fixed-cutoff…

Chemical Physics · Physics 2026-01-08 Chu Wang , Lin Huang , Xinran Wei , Tao Qin , Arthur Jiang , Lixue Cheng , Jia Zhang

Recurrent neural networks (RNNs) are widely used as a memory model for sequence-related problems. Many variants of RNN have been proposed to solve the gradient problems of training RNNs and process long sequences. Although some classical…

Neural and Evolutionary Computing · Computer Science 2020-05-29 Chenpeng Zhang , Shuai Li , Mao Ye , Ce Zhu , Xue Li

Binding energy is a fundamental thermodynamic property that governs molecular interactions, playing a crucial role in fields such as healthcare and the natural sciences. It is particularly relevant in drug development, vaccine design, and…

Quantum Physics · Physics 2025-08-06 Erico Souza Teixeira , Lucas Barros Fernandes , Yara Rodrigues Inácio

Relevant to broad applied fields and natural processes, interfacial ionic hydrates has been widely studied by ultrahigh-resolution atomic force microscopy (AFM). However, the complex relationship between AFM signal and the investigated…

Mesoscale and Nanoscale Physics · Physics 2023-04-25 Binze Tang , Yizhi Song , Mian Qin , Ye Tian , Duanyun Cao , Zhen Wei Wu , Ying Jiang , Limei Xu

Simulations of chemical reaction probabilities in gas surface dynamics require the calculation of ensemble averages over many tens of thousands of reaction events to predict dynamical observables that can be compared to experiments. At the…

Metasurfaces have shown promising potentials in shaping optical wavefronts while remaining compact compared to bulky geometric optics devices. Design of meta-atoms, the fundamental building blocks of metasurfaces, relies on trial-and-error…

Streamflow plays an essential role in the sustainable planning and management of national water resources. Traditional hydrologic modeling approaches simulate streamflow by establishing connections across multiple physical processes, such…

Machine Learning · Computer Science 2024-11-28 Shu Wan , Reepal Shah , Qi Deng , John Sabo , Huan Liu , K. Selçuk

Stochastic Reaction Networks (SRNs) are a fundamental modeling framework for systems ranging from chemical kinetics and epidemiology to ecological and synthetic biological processes. A central computational challenge is the estimation of…

Molecular Networks · Quantitative Biology 2025-12-09 Quentin Badolle , Arthur Theuer , Zhou Fang , Ankit Gupta , Mustafa Khammash

Machine learning advances chemistry and materials science by enabling large-scale exploration of chemical space based on quantum chemical calculations. While these models supply fast and accurate predictions of atomistic chemical…

Chemical Physics · Physics 2019-06-25 K. T. Schütt , M. Gastegger , A. Tkatchenko , K. -R. Müller , R. J. Maurer

Short-term memory is essential for cognitive processing, yet our understanding of its neural mechanisms remains unclear. Neuroscience has long focused on how sequential activity patterns, where neurons fire one after another within large…

The concept of SCN offers a fast framework with universal approximation guarantee for lifelong learning of non-stationary data streams. Its adaptive scope selection property enables for proper random generation of hidden unit parameters…

Machine Learning · Computer Science 2019-12-10 Mahardhika Pratama , Dianhui Wang

Deep learning architectures are showing great promise in various computer vision domains including image classification, object detection, event detection and action recognition. In this study, we investigate various aspects of…

Computer Vision and Pattern Recognition · Computer Science 2016-08-08 Hilal Ergun , Mustafa Sert

Machine learning of atomic-scale properties is revolutionizing molecular modelling, making it possible to evaluate inter-atomic potentials with first-principles accuracy, at a fraction of the costs. The accuracy, speed and reliability of…

Computational Physics · Physics 2018-10-16 Giulio Imbalzano , Andrea Anelli , Daniele Giofr é , Sinja Klees , J örg Behler , Michele Ceriotti

Recurrent neural networks have gained widespread use in modeling sequential data. Learning long-term dependencies using these models remains difficult though, due to exploding or vanishing gradients. In this paper, we draw connections…

Machine Learning · Statistics 2019-02-27 Bo Chang , Minmin Chen , Eldad Haber , Ed H. Chi

Machine learning techniques including neural networks are popular tools for materials and chemical scientists with applications that may provide viable alternative methods in the analysis of structure and energetics of systems ranging from…

Statistical Mechanics · Physics 2022-03-02 James Andrews , Olga Gkountouna , Estela Blaisten-Barojas

Reactive force fields for molecular dynamics have enabled a wide range of studies in numerous material classes. These force fields are computationally inexpensive as compared to electronic structure calculations and allow for simulations of…

Materials Science · Physics 2023-04-26 Brenden W. Hamilton , Pilsun Yoo , Michael N. Sakano , Md Mahbubul Islam , Alejandro Strachan

Crystal graph neural networks predict materials properties by propagating information through local atomic environments. In conventional crystal graph convolutional neural networks (CGCNNs), this propagation depth is increased by stacking…

Materials Science · Physics 2026-05-18 Satadeep Bhattacharjee

Despite a lot of research efforts devoted in recent years, how to efficiently learn long-term dependencies from sequences still remains a pretty challenging task. As one of the key models for sequence learning, recurrent neural network…

Computer Vision and Pattern Recognition · Computer Science 2017-03-21 Yemin Shi , Yonghong Tian , Yaowei Wang , Tiejun Huang