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Molecular simulations of the forced unfolding and refolding of biomolecules or molecular complexes allow to gain important kinetic, structural and thermodynamic information about the folding process and the underlying energy landscape. In…

Soft Condensed Matter · Physics 2021-05-26 Marco Oestereich , Jürgen Gauss , Gregor Diezemann

The properties of constrained fluids have increasingly gained relevance for applications ranging from materials to biology. In this work, we propose a multiscale model using twin neural networks to investigate the properties of a fluid…

Chemical Physics · Physics 2024-08-07 Peiyuan Gao , George Em Karniadakis , Panos Stinis

We propose a new multi-scale molecular dynamics simulation method which can achieve high accuracy and high sampling efficiency simultaneously without aforehand knowledge of the coarse grained (CG) potential and test it for a biomolecular…

Biological Physics · Physics 2009-08-05 Wenfei Li , Shoji Takada

Molecular dynamics simulations use statistical mechanics at the atomistic scale to enable both the elucidation of fundamental mechanisms and the engineering of matter for desired tasks. The behavior of molecular systems at the microscale is…

Computational Physics · Physics 2020-12-25 Wujie Wang , Simon Axelrod , Rafael Gómez-Bombarelli

Stable partitioned techniques for simulating unsteady fluid-structure interaction (FSI) are known to be computationally expensive when high added-mass is involved. Multiple coupling strategies have been developed to accelerate these…

Computational Engineering, Finance, and Science · Computer Science 2025-02-18 Azzeddine Tiba , Thibault Dairay , Florian de Vuyst , Iraj Mortazavi , Juan-Pedro Berro Ramirez

Modelling the sudden depressurisation of superheated liquids through nozzles is a challenge because the pressure drop causes rapid flash boiling of the liquid. The resulting jet usually demonstrates a wide range of structures, including…

Fluid Dynamics · Physics 2021-12-15 David Schmidt , Romit Maulik , Konstantinos G. Lyras

Electrostatic forces play many important roles in molecular biology, but are hard to model due to the complicated interactions between biomolecules and the surrounding solvent, a fluid composed of water and dissolved ions. Continuum model…

Numerical Analysis · Mathematics 2015-12-29 Jaydeep P. Bardhan , Matthew G. Knepley

Understanding and predicting microstructure evolution is fundamental to materials science, as it governs the resulting properties and performance of materials. Traditional simulation methods, such as phase-field models, offer high-fidelity…

Machine Learning · Computer Science 2026-02-24 Michael Trimboli , Mohammed Alsubaie , Sirani M. Perera , Ke-Gang Wang , Xianqi Li

We simulate complex fluids by means of an on-the-fly coupling of the bulk rheology to the underlying microstructure dynamics. In particular, a macroscopic continuum model of polymeric fluids is constructed without a pre-specified…

Computational Physics · Physics 2020-05-13 Lifei Zhao , Zhen Li , Bruce Caswell , Jie Ouyang , George Em Karniadakis

Mirroring their role in electrical and optical physics, two-dimensional crystals are emerging as novel platforms for fluid separations and water desalination, which are hydrodynamic processes that occur in nanoscale environments. For…

Statistical Mechanics · Physics 2016-05-11 Steven E. Strong , Joel D. Eaves

Autonomous physical science is revolutionizing materials science. In these systems, machine learning controls experiment design, execution, and analysis in a closed loop. Active learning, the machine learning field of optimal experiment…

Materials Science · Physics 2022-04-13 Alex Wang , Haotong Liang , Austin McDannald , Ichiro Takeuchi , A. Gilad Kusne

This work presents a methodology to predict a near-optimal spacing function, which defines the element sizes, suitable to perform steady RANS turbulent viscous flow simulations. The strategy aims at utilising existing high fidelity…

Computational Engineering, Finance, and Science · Computer Science 2024-06-25 Sergi Sanchez-Gamero , Oubay Hassan , Ruben Sevilla

Accurate knowledge of the atomistic transition pathways in materials and material surfaces is crucial for many material science problems. However, conventional simulation techniques used to find these transitions are extremely…

Materials Science · Physics 2026-05-01 Henry Tischler , Wenting Li , Qi Tang , Danny Perez , Thomas Vogel

A mobility map, which provides maximum achievable speed on a given terrain, is essential for path planning of autonomous ground vehicles in off-road settings. While physics-based simulations play a central role in creating next-generation,…

Machine Learning · Computer Science 2020-03-10 Gary R. Marple , David Gorsich , Paramsothy Jayakumar , Shravan Veerapaneni

Self-driving vehicles must perceive and predict the future positions of nearby actors in order to avoid collisions and drive safely. A learned deep learning module is often responsible for this task, requiring large-scale, high-quality…

Computer Vision and Pattern Recognition · Computer Science 2021-04-09 Sean Segal , Nishanth Kumar , Sergio Casas , Wenyuan Zeng , Mengye Ren , Jingkang Wang , Raquel Urtasun

Hydrogen atom transfer (HAT) reactions are essential in many biological processes, such as radical migration in damaged proteins, but their mechanistic pathways remain incompletely understood. Simulating HAT is challenging due to the need…

Machine Learning · Computer Science 2025-11-25 Marlen Neubert , Patrick Reiser , Frauke Gräter , Pascal Friederich

A new computational framework for the simulation of turbulent flow through complex objects and along irregular boundaries is presented. This is motivated by the application of metal foams in compact heat-transfer devices, or as catalyst…

Fluid Dynamics · Physics 2015-06-26 Arkadiusz K. Kuczaj , Bernard J. Geurts

The conversion of $\mathrm{CO_2}$ into useful products such as methanol is a key strategy for abating climate change and our dependence on fossil fuels. Developing new catalysts for this process is costly and time-consuming and can thus…

Materials Science · Physics 2025-10-20 Luuk H. E. Kempen , Marius Juul Nielsen , Mie Andersen

Learning and reasoning about physical phenomena is still a challenge in robotics development, and computational sciences play a capital role in the search for accurate methods able to provide explanations for past events and rigorous…

Computer Vision and Pattern Recognition · Computer Science 2022-09-12 Beatriz Moya , Alberto Badias , David Gonzalez , Francisco Chinesta , Elias Cueto

We investigate finite-size effects on diffusion in confined fluids using molecular dynamics simulations and hydrodynamic calculations. Specifically, we consider a Lennard-Jones fluid in slit pores without slip at the interface and show that…

Computational Physics · Physics 2017-03-16 Pauline Simonnin , Benoit Noetinger , Carlos Nieto-Draghi , Virginie Marry , Benjamin Rotenberg
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