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This document attempts to clarify potential confusion regarding electrostatics calculations, specifically in the context of biomolecular structure and specifically as regards the units typically used to contour/visualize isopotential…

Biomolecules · Quantitative Biology 2016-06-14 Cameron Mura

This paper presents a comprehensive analysis of simple models useful to analyze the growth of nanostructures obtained by cluster deposition. After detailing the potential interest of nanostructures, I extensively study the first stages of…

Materials Science · Physics 2015-06-25 Pablo Jensen

The Super-Scaling Approach (SuSA) model, based on the analogies between electron and neutrino interactions with nuclei, is reviewed and its application to the description of neutrino-nucleus scattering is presented. The contribution of both…

High Energy Physics - Phenomenology · Physics 2021-11-10 J. E. Amaro , M. B. Barbaro , J. A. Caballero , T. W. Donnelly , R. Gonzalez-Jimenez , G. D. Megias , I. Ruiz Simo

A new repeated-slab calculation method is developed to simulate the electronic structures of charged surfaces by arranging density-variable charged sheets in vacuum regions to realize a constant potential on the charged sheets and maintain…

Materials Science · Physics 2007-05-23 Seiji Kajita , Takashi Nakayama , Maki Kawai

Optical cavities are of central importance in numerous areas of physics, including precision measurement, cavity optomechanics and cavity quantum electrodynamics. The miniaturisation and scaling to large numbers of sites is of interest for…

Quantum Physics · Physics 2014-10-23 C. Derntl , M. Schneider , J. Schalko , A. Bittner , J. Schmiedmayer , U. Schmid , M. Trupke

We suggest to include the density of electron charge explicitly in the electron potential of density functional theory, rather than implicitly via exchange-correlation functionals. The advantages of the approach are conceptual and…

Materials Science · Physics 2007-05-23 Werner A. Hofer , Krisztian Palotas

An approximate but straight forward projection method to molecular many alpha-particle states is proposed and the overlap to the shell model space is determined. The resulting space is in accordance with the shell model, but still contains…

Nuclear Theory · Physics 2021-10-13 J. R. M. Berriel-Aguayo , P. O. Hess

We present the advantages of a multiscale modelling strategy for the understanding of systems with charged interfaces. On the one hand, one can simulate a complex system at different levels, depending on the relevant length and time scales…

Chemical Physics · Physics 2018-11-26 Benjamin Rotenberg

We present a method which enables solid-state density functional theory calculations to be applied to systems of almost unlimited size. Computations of physical effects up to the micron length scale but which nevertheless depend on the…

Materials Science · Physics 2021-01-04 Tristan Müller , Sangeeta Sharma , E. K. U. Gross , J. K. Dewhurst

Based on recently introduced efficient quantum state tomography schemes, we propose a scalable method for the tomography of unitary processes and the reconstruction of one-dimensional local Hamiltonians. As opposed to the exponential…

Quantum Physics · Physics 2015-04-30 M. Holzäpfel , T. Baumgratz , M. Cramer , M. B. Plenio

The structure of silica-latex nanocomposites of three matrix chain masses (20, 50, and 160 kg/mol of poly(ethyl methacrylate)) are studied using a SAXS/TEM approach, coupled via Monte Carlo simulations of scattering of fully polydisperse…

We propose a new method to measure time-dependent linear susceptibilities in molecular simulations, which does not require the use of nonequilibrium simulations, subtraction techniques, or fluctuation-dissipation theorems. The main idea is…

Statistical Mechanics · Physics 2007-06-13 Ludovic Berthier

We present new atomistic models of amorphous silicon (a-Si) and hydrogenated amorphous silicon (a-Si:H) surfaces. The a-Si model included 4096 atoms and was obtained using local orbital density functional theory. By analyzing a slab model…

Materials Science · Physics 2025-06-24 Kishor Nepal , Aashish Gautam , Chinonso Ugwumadu , David Drabold

This paper presents a large-scale $ab$ $initio$ simulation study of amorphous silicon hydride ($a$-Si$_{\text{1-x}}$H$_{\text{x}}$) with an emphasis on the structure and properties of the material across a range of hydrogen concentration by…

Materials Science · Physics 2023-09-19 Raymond Atta-Fynn , Somilkumar J. Rathi , Harsh Arya , Parthapratim Biswas

Review paper on computer simulations of the structure of amorphous silica.

Statistical Mechanics · Physics 2007-05-23 Kurt Binder , Walter Kob

Models which allow an explicit application to structurally modulated substances are reviewed within the frame of a symmetry-based approach starting from discrete lattice theory. Focus is set on models formulated in terms of local variables…

Condensed Matter · Physics 2007-05-23 Boris Neubert , Michel Pleimling , Rolf Siems

We present a computational screening of experimental structural repositories for fast Li-ion conductors, with the goal of finding new candidate materials for application as solid-state electrolytes in next-generation batteries. We start…

Materials Science · Physics 2021-06-10 Leonid Kahle , Aris Marcolongo , Nicola Marzari

We propose an efficient way to calculate the electronic structure of large systems by combining a large-scale first-principles density functional theory code, Conquest, and an efficient interior eigenproblem solver, the Sakurai-Sugiura…

Materials Science · Physics 2017-04-12 Ayako Nakata , Yasunori Futamura , Tetsuya Sakurai , David R. Bowler , Tsuyoshi Miyazaki

Developing robust representations of chemical structures that enable models to learn topological inductive biases is challenging. In this manuscript, we present a representation of atomistic systems. We begin by proving that our…

Machine Learning · Computer Science 2024-09-27 Rahul Khorana , Marcus Noack , Jin Qian

In this paper, we extend and analyze a Bayesian hierarchical spatio-temporal model for physical systems. A novelty is to model the discrepancy between the output of a computer simulator for a physical process and the actual process values…

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