Nuclear quantum effects enter the mainstream

TE Markland, M Ceriotti - Nature Reviews Chemistry, 2018 - nature.com
Atomistic simulations of chemical, biological and materials systems have become
increasingly precise and predictive owing to the development of accurate and efficient …

[HTML][HTML] Prediction of lipid nanoparticles for mRNA vaccines by the machine learning algorithm

W Wang, S Feng, Z Ye, H Gao, J Lin… - Acta Pharmaceutica Sinica …, 2022 - Elsevier
Lipid nanoparticle (LNP) is commonly used to deliver mRNA vaccines. Currently, LNP
optimization primarily relies on screening ionizable lipids by traditional experiments which …

Antiemetic effects of sclareol, possibly through 5-HT3 and D2 receptor interaction pathways: in-vivo and in-silico studies

MH Bappi, AAS Prottay, K Al-Khafaji, MS Akbor… - Food and Chemical …, 2023 - Elsevier
Background Emesis is a complex physiological phenomenon that serves as a defense
against numerous toxins, stressful situations, adverse medication responses, chemotherapy …

Routine molecular dynamics simulations including nuclear quantum effects: From force fields to machine learning potentials

T Plé, N Mauger, O Adjoua, TJ Inizan… - Journal of Chemical …, 2023 - ACS Publications
We report the implementation of a multi-CPU and multi-GPU massively parallel platform
dedicated to the explicit inclusion of nuclear quantum effects (NQEs) in the Tinker-HP …

Unified efficient thermostat scheme for the canonical ensemble with holonomic or isokinetic constraints via molecular dynamics

Z Zhang, X Liu, K Yan, ME Tuckerman… - The Journal of Physical …, 2019 - ACS Publications
We have recently proposed a new unified theoretical scheme (the “middle” scheme) for
thermostat algorithms for efficient and accurate configurational sampling of the canonical …

Molecular Dynamics Simulations for Electrocatalytic CO2 Reduction: Bridging Macroscopic Experimental Observations and Microscopic Explanatory Mechanisms

Y He, M Wang, H Ji, Q Cheng, S Liu… - Advanced Functional …, 2025 - Wiley Online Library
Electrocatalytic carbon dioxide reduction reaction (CO2RR) has been recognized as a
promising route to convert carbon emissions to high‐value chemicals and fuels. Significant …

Automatized protocol and interface to simulate QM/MM time‐resolved transient absorption at TD‐DFT level with COBRAMM

D Avagliano, M Bonfanti, A Nenov… - Journal of …, 2022 - Wiley Online Library
We present a series of new implementations that we recently introduced in COBRAMM, the
open‐source academic software developed in our group. The goal of these implementations …

Gating mechanism of elongating β-ketoacyl-ACP synthases

JT Mindrebo, A Patel, WE Kim, TD Davis… - Nature …, 2020 - nature.com
Carbon-carbon bond forming reactions are essential transformations in natural product
biosynthesis. During de novo fatty acid and polyketide biosynthesis, β-ketoacyl-acyl carrier …

Potentiality of Moringa oleifera against SARS-CoV-2: identified by a rational computer aided drug design method

D Sen, S Bhaumik, P Debnath… - Journal of Biomolecular …, 2022 - Taylor & Francis
Abstract Coronavirus disease 2019 (COVID-19) has created a global human health crisis
and economic setbacks. Lack of specific therapeutics and limited treatment options against …

Harmonic Oscillator Staging Coordinates for Efficient Path Integral Simulations of Quantum Oscillators and Crystals

SG Moustafa, AJ Schultz - Journal of Chemical Theory and …, 2024 - ACS Publications
Imaginary-time path integral (PI) is a rigorous quantum mechanical tool to compute static
properties at finite temperatures. However, the stiff nature of the internal PI modes poses a …