ChemNetworks: A complex network analysis tool for chemical systems

A Ozkanlar, AE Clark - Journal of computational chemistry, 2014 - Wiley Online Library
Many intermolecular chemical interactions persist across length and timescales and can be
considered to form a “network” or “graph.” Obvious examples include the hydrogen bond …

High-dimensional fluctuations in liquid water: Combining chemical intuition with unsupervised learning

A Offei-Danso, A Hassanali… - Journal of Chemical …, 2022 - ACS Publications
The microscopic description of the local structure of water remains an open challenge. Here,
we adopt an agnostic approach to understanding water's hydrogen bond network using data …

Hydrogen bonding and related properties in liquid water: A Car–Parrinello molecular dynamics simulation study

E Guardia, I Skarmoutsos, M Masia - The Journal of Physical …, 2015 - ACS Publications
The local hydrogen-bonding structure and dynamics of liquid water have been investigated
using the Car–Parrinello molecular dynamics simulation technique. The radial distribution …

Liquid–liquid phase separation produces fast H-bond dynamics in DMSO–water mixtures

KI Oh, X You, JC Flanagan, CR Baiz - The Journal of Physical …, 2020 - ACS Publications
Liquid–liquid phase separation is common in complex mixtures, but the behavior of
nanoconfined liquids is poorly understood from a physical perspective. Dimethyl sulfoxide …

The quest for self-consistency in hydrogen bond definitions

D Prada-Gracia, R Shevchuk, F Rao - The Journal of chemical physics, 2013 - pubs.aip.org
In the last decades several hydrogen-bond definitions were proposed by classical computer
simulations. Aiming at validating their self-consistency on a wide range of conditions, here …

[图书][B] Annual reports in computational chemistry

DA Dixon - 2015 - books.google.com
Annual Reports in Computational Chemistry provides timely and critical reviews of important
topics in computational chemistry as applied to all chemical disciplines. Topics covered …

Lagrangian formulation with dissipation of Born-Oppenheimer molecular dynamics using the density-functional tight-binding method

G Zheng, A Niklasson, M Karplus - The Journal of chemical physics, 2011 - pubs.aip.org
An important element determining the time requirements of Born-Oppenheimer molecular
dynamics (BOMD) is the convergence rate of the self-consistent solution of Roothaan …

Role of charge ordering in the dynamics of cluster formation in associated liquids

B Lovrinčević, M Požar, I Jukić… - The Journal of Physical …, 2023 - ACS Publications
Liquids are archetypes of disordered systems, yet liquids of polar molecules are locally more
ordered than nonpolar molecules, due to the Coulomb interaction based charge ordering …

Anisotropic structure and dynamics of water under static electric fields

M Shafiei, M von Domaros, D Bratko… - The Journal of Chemical …, 2019 - pubs.aip.org
We study the structure and dynamics of water subject to a range of static external electric
fields, using molecular dynamics simulations. In particular, we monitor the changes in …

Markov state model of the two-state behaviour of water

P Hamm - The Journal of chemical physics, 2016 - pubs.aip.org
With the help of a Markov State Model (MSM), two-state behaviour is resolved for two
computer models of water in a temperature range from 255 K to room temperature (295 K) …