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This paper introduces a geometric mechanics framework for constrained systems on principal bundles through \emph{compatible pairs} $(\mathcal{D}, \lambda)$, addressing fundamental challenges in gauge-constrained physical systems. We…

General Mathematics · Mathematics 2025-08-12 Dongzhe Zheng

The adatom arrays on surfaces offer an ideal playground to explore the mechanisms of chemical bonding via changes in the local electronic tunneling spectra. While this information is readily available in hyperspectral scanning tunneling…

LiDAR bundle adjustment (BA) is an effective approach to reduce the drifts in pose estimation from the front-end. Existing works on LiDAR BA usually rely on predefined geometric features for landmark representation. This reliance restricts…

Computer Vision and Pattern Recognition · Computer Science 2025-04-07 Xingyu Ji , Shenghai Yuan , Jianping Li , Pengyu Yin , Haozhi Cao , Lihua Xie

Many types of cells are able to accurately sense shallow gradients of chemicals across their diameters, allowing the cells to move towards or away from chemical sources. This chemotactic ability relies on the remarkable capacity of cells to…

Cell Behavior · Quantitative Biology 2015-05-13 Robert G. Endres , Ned S. Wingreen

The ammonia dimer (NH3)2 has been investigated using high--level ab initio quantum chemistry methods and density functional theory (DFT). The structure and energetics of important isomers is obtained to unprecedented accuracy without…

Chemical Physics · Physics 2009-09-29 A. Daniel Boese , Amalendu Chandra , Jan M. L. Martin , Dominik Marx

Background: Virtual Screening (VS) has become an essential tool in drug discovery, enabling the rapid and cost-effective identification of potential bioactive molecules. Among recent advancements, Graph Neural Networks (GNNs) have gained…

Quantitative Methods · Quantitative Biology 2025-10-27 Salvatore Contino , Paolo Sortino , Maria Rita Gulotta , Ugo Perricone , Roberto Pirrone

Generalized hydrodynamics (GHD) is a recent theoretical approach that is becoming a go-to tool for characterizing out-of-equilibrium phenomena in integrable and near-integrable quantum many-body systems. Here, we benchmark its performance…

Quantum Gases · Physics 2024-04-23 R. S. Watson , S. A. Simmons , K. V. Kheruntsyan

Computing the grain boundary (GB) counterparts to bulk phase diagrams represents an emerging research direction. Using a classical embrittlement model system Ga-doped Al alloy, this study demonstrates the feasibility of computing…

Materials Science · Physics 2022-01-20 Chongze Hu , Yanwen Li , Zhiyang Yu , Jian Luo

Molecular dynamics (MD) has long been the de facto choice for simulating complex atomistic systems from first principles. Recently deep learning models become a popular way to accelerate MD. Notwithstanding, existing models depend on…

Computational Engineering, Finance, and Science · Computer Science 2023-01-10 Fang Wu , Stan Z. Li

Gamma-ray bursts (GRBs) are challenging to identify due to their transient nature, complex temporal profiles, and limited observational datasets. We address this with a one-dimensional convolutional neural network integrated with an…

Higher bundles are homotopy coherent generalisations of classical fibre bundles. They appear in numerous contexts in geometry, topology and physics. In particular, higher principal bundles provide the geometric framework for higher-group…

Algebraic Topology · Mathematics 2023-08-09 Severin Bunk

Molecular dynamic simulations are important in computational physics, chemistry, material, and biology. Machine learning-based methods have shown strong abilities in predicting molecular energy and properties and are much faster than DFT…

Molecular Networks · Quantitative Biology 2023-02-03 Zheng Yuan , Yaoyun Zhang , Chuanqi Tan , Wei Wang , Fei Huang , Songfang Huang

The accurate calculation of the (differential) correlation energy is central to the quantum chemical description of bond-formation and bond-dissociation processes. In order to estimate the quality of single- and multi-reference approaches…

Chemical Physics · Physics 2013-07-16 Katharina Boguslawski , Pawel Tecmer , Gergely Barcza , Ors Legeza , Markus Reiher

A molecule's geometry, also known as conformation, is one of a molecule's most important properties, determining the reactions it participates in, the bonds it forms, and the interactions it has with other molecules. Conventional…

Machine Learning · Computer Science 2020-01-01 Elman Mansimov , Omar Mahmood , Seokho Kang , Kyunghyun Cho

Graphical models are popular tools for exploring relationships among a set of variables. The Gaussian graphical model (GGM) is an important class of graphical models, where the conditional dependence among variables is represented by nodes…

Methodology · Statistics 2025-05-30 José Á. Sánchez Gómez , Weibin Mo , Junlong Zhao , Yufeng Liu

Determining the aqueous solubility of molecules is a vital step in many pharmaceutical, environmental, and energy storage applications. Despite efforts made over decades, there are still challenges associated with developing a solubility…

Materials Science · Physics 2022-09-05 Gihan Panapitiya , Michael Girard , Aaron Hollas , Vijay Murugesan , Wei Wang , Emily Saldanha

The generalized Langevin mode analysis (GLMA) is applied to chemical reactions in biomolecules in solution. The theory sees a chemical reaction in solution as a barrier crossing process, similar to the Marcus theory. The barrier is defined…

Chemical Physics · Physics 2023-04-26 Fumio Hirata

We analyze the properties of the exact solution obtained by us recently for the extended Hetiler-London model for chemical bonding which has an analytic form. The emphasis is put on defining two-particle entanglement correlation as the…

Strongly Correlated Electrons · Physics 2024-06-11 Józef Spałek , Maciej Hendzel

In our previous paper (Phys. Rev. B {\bf 89}, 165430 (2014)) we have found that in graphene, in distinction to the four occupied bands, which can be described by the simple tight-binding model (TBM) with four atomic orbitals per atom, the…

Mesoscale and Nanoscale Physics · Physics 2017-09-26 E. Kogan , V. M. Silkin

Chemical bonds are considered in light of correlation of valence electrons that is strengthened when the bond is dissociated. In the framework of the unrestricted Hartree-Fock single-reference version of the configuration interaction…

Materials Science · Physics 2014-12-16 Elena Sheka