Maximally localized Wannier functions: Theory and applications

N Marzari, AA Mostofi, JR Yates, I Souza… - Reviews of Modern …, 2012 - APS
The electronic ground state of a periodic system is usually described in terms of extended
Bloch orbitals, but an alternative representation in terms of localized “Wannier functions” …

Ab initio molecular dynamics: Concepts, recent developments, and future trends

R Iftimie, P Minary… - Proceedings of the …, 2005 - National Acad Sciences
The methodology of ab initio molecular dynamics, wherein finite-temperature dynamical
trajectories are generated by using forces computed “on the fly” from electronic structure …

Computing vibrational spectra from ab initio molecular dynamics

M Thomas, M Brehm, R Fligg, P Vöhringer… - Physical Chemistry …, 2013 - pubs.rsc.org
We review several methods for the calculation of vibrational spectra from ab initio molecular
dynamics (AIMD) simulations and we present a new implementation in the trajectory …

Polarizable embedding QM/MM: the future gold standard for complex (bio) systems?

M Bondanza, M Nottoli, L Cupellini… - Physical Chemistry …, 2020 - pubs.rsc.org
Nowadays, hybrid QM/MM approaches are widely used to study (supra) molecular systems
embedded in complex biological matrices. However, in their common formulation, mutual …

The silica–water interface: how the silanols determine the surface acidity and modulate the water properties

M Sulpizi, MP Gaigeot, M Sprik - Journal of chemical theory and …, 2012 - ACS Publications
Silica is the most abundant metal oxide and the main component of the Earth's crust. Its
behavior in contact with water plays a critical role in a variety of geochemical and …

Collective vibrational strong coupling effects on molecular vibrational relaxation and energy transfer: Numerical insights via cavity molecular dynamics simulations

TE Li, A Nitzan, JE Subotnik - Angewandte Chemie, 2021 - Wiley Online Library
For a small fraction of hot CO2 molecules immersed in a liquid‐phase CO2 thermal bath,
classical cavity molecular dynamics simulations show that forming collective vibrational …

Dissecting the THz spectrum of liquid water from first principles via correlations in time and space

M Heyden, J Sun, S Funkner… - Proceedings of the …, 2010 - National Acad Sciences
Solvation of molecules in water is at the heart of a myriad of molecular phenomena and of
crucial importance to understanding such diverse issues as chemical reactivity or …

Cavity molecular dynamics simulations of liquid water under vibrational ultrastrong coupling

TE Li, JE Subotnik, A Nitzan - Proceedings of the National …, 2020 - National Acad Sciences
We simulate vibrational strong coupling (VSC) and vibrational ultrastrong coupling (V-USC)
for liquid water with classical molecular dynamics simulations. When the cavity modes are …

Predicting infrared spectra with message passing neural networks

C McGill, M Forsuelo, Y Guan… - Journal of Chemical …, 2021 - ACS Publications
Infrared (IR) spectroscopy remains an important tool for chemical characterization and
identification. Chemprop-IR has been developed as a software package for the prediction of …

Vibrational self-consistent field calculations for spectroscopy of biological molecules: new algorithmic developments and applications

TK Roy, RB Gerber - Physical Chemistry Chemical Physics, 2013 - pubs.rsc.org
This review describes the vibrational self-consistent field (VSCF) method and its other
variants for computing anharmonic vibrational spectroscopy of biological molecules. The …