Vibronic and environmental effects in simulations of optical spectroscopy
Including both environmental and vibronic effects is important for accurate simulation of
optical spectra, but combining these effects remains computationally challenging. We outline …
optical spectra, but combining these effects remains computationally challenging. We outline …
OpenMM 8: molecular dynamics simulation with machine learning potentials
P Eastman, R Galvelis, RP Peláez… - The Journal of …, 2023 - ACS Publications
Machine learning plays an important and growing role in molecular simulation. The newest
version of the OpenMM molecular dynamics toolkit introduces new features to support the …
version of the OpenMM molecular dynamics toolkit introduces new features to support the …
Quantum and semiclassical dynamical studies of nonadiabatic processes in solution: achievements and perspectives
We concisely review the main methodological approaches to model nonadiabatic dynamics
in isotropic solutions and their applications. Three general classes of models are identified …
in isotropic solutions and their applications. Three general classes of models are identified …
Adiabatic-molecular dynamics generalized vertical hessian approach: a mixed quantum classical method to compute electronic spectra of flexible molecules in the …
J Cerezo, D Aranda, FJ Avila Ferrer… - Journal of Chemical …, 2019 - ACS Publications
We present a general mixed quantum classical method that couples classical molecular
dynamics (MD) and vibronic models to compute the shape of electronic spectra of flexible …
dynamics (MD) and vibronic models to compute the shape of electronic spectra of flexible …
Elucidating the role of hydrogen bonding in the optical spectroscopy of the solvated green fluorescent protein chromophore: Using machine learning to establish the …
Hydrogen bonding interactions with chromophores in chemical and biological environments
play a key role in determining their electronic absorption and relaxation processes, which …
play a key role in determining their electronic absorption and relaxation processes, which …
[HTML][HTML] Optical spectra in the condensed phase: Capturing anharmonic and vibronic features using dynamic and static approaches
Simulating optical spectra in the condensed phase remains a challenge for theory due to the
need to capture spectral signatures arising from anharmonicity and dynamical effects, such …
need to capture spectral signatures arising from anharmonicity and dynamical effects, such …
Nonadiabatic molecular dynamics with extended density functional tight-binding: Application to nanocrystals and periodic solids
In this work, we report a new methodology for nonadiabatic molecular dynamics calculations
within the extended tight-binding (xTB) framework. We demonstrate the applicability of the …
within the extended tight-binding (xTB) framework. We demonstrate the applicability of the …
Cost-effective simulations of vibrationally-resolved absorption spectra of fluorophores with machine-learning-based inhomogeneous broadening
EF Petrusevich, MHE Bousquet… - Journal of Chemical …, 2023 - ACS Publications
The results of electronic and vibrational structure simulations are an invaluable support for
interpreting experimental absorption/emission spectra, which stimulates the development of …
interpreting experimental absorption/emission spectra, which stimulates the development of …
[HTML][HTML] Influence of non-adiabatic effects on linear absorption spectra in the condensed phase: Methylene blue
Modeling linear absorption spectra of solvated chromophores is highly challenging as
contributions are present both from coupling of the electronic states to nuclear vibrations and …
contributions are present both from coupling of the electronic states to nuclear vibrations and …
Nonadiabatic absorption spectra and ultrafast dynamics of DNA and RNA photoexcited nucleobases
We have recently proposed a protocol for Quantum Dynamics (QD) calculations, which is
based on a parameterisation of Linear Vibronic Coupling (LVC) Hamiltonians with Time …
based on a parameterisation of Linear Vibronic Coupling (LVC) Hamiltonians with Time …