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Density based representations of atomic environments that are invariant under Euclidean symmetries have become a widely used tool in the machine learning of interatomic potentials, broader data-driven atomistic modelling and the…

Bayesian model reduction provides an efficient approach for comparing the performance of all nested sub-models of a model, without re-evaluating any of these sub-models. Until now, Bayesian model reduction has been applied mainly in the…

机器学习 · 计算机科学 2024-10-15 Jim Beckers , Bart van Erp , Ziyue Zhao , Kirill Kondrashov , Bert de Vries

Previous research on relation classification has verified the effectiveness of using dependency shortest paths or subtrees. In this paper, we further explore how to make full use of the combination of these dependency information. We first…

计算与语言 · 计算机科学 2015-07-17 Yang Liu , Furu Wei , Sujian Li , Heng Ji , Ming Zhou , Houfeng Wang

Link prediction is a very fundamental task on graphs. Inspired by traditional path-based methods, in this paper we propose a general and flexible representation learning framework based on paths for link prediction. Specifically, we define…

机器学习 · 计算机科学 2022-01-25 Zhaocheng Zhu , Zuobai Zhang , Louis-Pascal Xhonneux , Jian Tang

Machine learning methods have nowadays become easy-to-use tools for constructing high-dimensional interatomic potentials with ab initio accuracy. Although machine learned interatomic potentials are generally orders of magnitude faster than…

计算物理 · 物理学 2021-02-24 Yaolong Zhang , Ce Hu , Bin Jiang

Although electrostatics can be incorporated into machine-learned interatomic potentials, existing approaches are computationally very demanding, limiting large-scale, long-time simulations of electrostatics-driven phenomena such as…

Chemical kinetics plays an important role in governing the thermal evolution in reactive flows problems. The possible interactions between chemical species increase drastically with the number of species considered in the system. Various…

天体物理仪器与方法 · 物理学 2022-07-18 Kwok Sun Tang , Matthew Turk

Designing a neural network architecture for molecular representation is crucial for AI-driven drug discovery and molecule design. In this work, we propose a new framework for molecular representation learning. Our contribution is threefold:…

机器学习 · 计算机科学 2022-10-18 Jiye Kim , Seungbeom Lee , Dongwoo Kim , Sungsoo Ahn , Jaesik Park

Path loss prediction is a beneficial tool for efficient use of the radio frequency spectrum. Building on prior research on high-resolution map-based path loss models, this paper studies convolutional neural network input representations in…

机器学习 · 计算机科学 2026-02-05 Ryan G. Dempsey , Jonathan Ethier , Halim Yanikomeroglu

Is critical input information encoded in specific sparse pathways within the neural network? In this work, we discuss the problem of identifying these critical pathways and subsequently leverage them for interpreting the network's response…

计算机视觉与模式识别 · 计算机科学 2021-04-01 Ashkan Khakzar , Soroosh Baselizadeh , Saurabh Khanduja , Christian Rupprecht , Seong Tae Kim , Nassir Navab

Understanding and prediction of the chemical reactions are fundamental demanding in the study of many complex chemical systems. Reactive molecular dynamics (MD) simulation has been widely used for this purpose as it can offer atomic details…

化学物理 · 物理学 2020-11-12 Jinzhe Zeng , Liqun Cao , Mingyuan Xu , Tong Zhu , John ZH Zhang

Biochemical networks are used in computational biology, to model the static and dynamical details of systems involved in cell signaling, metabolism, and regulation of gene expression. Parametric and structural uncertainty, as well as…

分子网络 · 定量生物学 2014-10-15 Ovidiu Radulescu , Alexander N. Gorban , Andrei Zinovyev , Vincent Noel

Within a fully microscopic setting, we derive a variational principle for the non-equilibrium steady states of chemical reaction networks, valid for time-scales over which chemical potentials can be taken to be slowly varying: at…

分子网络 · 定量生物学 2015-06-05 Andrea De Martino , Daniele De Martino , Roberto Mulet , Guido Uguzzoni

Neural networks are powerful function estimators, leading to their status as a paradigm of choice for modeling structured data. However, unlike other structured representations that emphasize the modularity of the problem -- e.g., factor…

机器学习 · 计算机科学 2022-06-20 Tsvetomila Mihaylova , Vlad Niculae , André F. T. Martins

Bayesian optimization is an effective methodology for the global optimization of functions with expensive evaluations. It relies on querying a distribution over functions defined by a relatively cheap surrogate model. An accurate model for…

We propose an efficient residual minimization technique for the nonlinear model-order reduction of parameterized hyperbolic partial differential equations. Our nonlinear approximation space is a span of snapshots evaluated on a shifted…

数值分析 · 数学 2021-01-21 Neeraj Sarna , Sara Grundel

The implicit solvent approach offers a computationally efficient framework to model solvation effects in molecular simulations. However, its accuracy often falls short compared to explicit solvent models, limiting its use in precise…

In this paper, we present Neural Adaptive Tomography (NeAT), the first adaptive, hierarchical neural rendering pipeline for multi-view inverse rendering. Through a combination of neural features with an adaptive explicit representation, we…

计算机视觉与模式识别 · 计算机科学 2022-02-07 Darius Rückert , Yuanhao Wang , Rui Li , Ramzi Idoughi , Wolfgang Heidrich

Chemical kinetics mechanisms are essential for understanding, analyzing, and simulating complex combustion phenomena. In this study, a Neural Ordinary Differential Equation (Neural ODE) framework is employed to optimize kinetics parameters…

化学物理 · 物理学 2022-09-07 Xingyu Su , Weiqi Ji , Jian An , Zhuyin Ren , Sili Deng , Chung K. Law

The minimum energy path (MEP) is the most probable transition path that connects two equilibrium states of a potential energy landscape. It has been widely used to study transition mechanisms as well as transition rates in the fields of…

数值分析 · 数学 2022-07-01 Xuanyu Liu , Huajie Chen , Christoph Ortner