[HTML][HTML] Multiscale biomolecular simulations in the exascale era

D Carrasco-Busturia, E Ippoliti, S Meloni… - Current opinion in …, 2024 - Elsevier
The complexity of biological systems and processes, spanning molecular to macroscopic
scales, necessitates the use of multiscale simulations to get a comprehensive …

Distributed Multi-GPU Ab Initio Density Matrix Renormalization Group Algorithm with Applications to the P-Cluster of Nitrogenase

C Xiang, W Jia, WH Fang, Z Li - Journal of Chemical Theory and …, 2024 - ACS Publications
The presence of many degenerate d/f orbitals makes polynuclear transition-metal
compounds, such as iron–sulfur clusters in nitrogenase, challenging for state-of-the-art …

Accelerating coupled-cluster calculations with GPUs: An implementation of the density-fitted CCSD (T) approach for heterogeneous computing architectures using …

D Datta, MS Gordon - Journal of Chemical Theory and …, 2023 - ACS Publications
An algorithm is presented for the coupled-cluster singles, doubles, and perturbative triples
correction [CCSD (T)] method based on the density fitting or the resolution-of-the-identity (RI) …

Nonadiabatic Exciton Dynamics and Energy Gradients in the Framework of FMO-LC-TDDFTB

R Einsele, R Mitrić - Journal of Chemical Theory and Computation, 2024 - ACS Publications
We introduce a novel methodology for simulating the excited-state dynamics of extensive
molecular aggregates in the framework of the long-range corrected time-dependent density …

Advanced techniques for high-performance fock matrix construction on gpu clusters

E Palethorpe, R Stocks, GMJ Barca - arXiv preprint arXiv:2407.21445, 2024 - arxiv.org
This Article presents two optimized multi-GPU algorithms for Fock matrix construction,
building on the work of Ufimtsev et al. and Barca et al. The novel algorithms, opt-UM and opt …

Python-Based Quantum Chemistry Calculations with GPU Acceleration

X Wu, Q Sun, Z Pu, T Zheng, W Ma, W Yan… - arXiv preprint arXiv …, 2024 - arxiv.org
To meet the increasing demand of quantum chemistry calculations in data-driven chemical
research, the collaboration between industrial stakeholders and the quantum chemistry …

OpenQP: A Quantum Chemical Platform Featuring MRSF-TDDFT with an Emphasis on Open-Source Ecosystem

V Mironov, K Komarov, J Li, I Gerasimov… - Journal of Chemical …, 2024 - ACS Publications
The OpenQP (Open Quantum Platform) is a new open-source quantum chemistry library
developed to tackle sustainability and interoperability challenges in the field of …

A Merger of the Spin-Flip ORMAS Approach and the MC-PDFT Method

KN Ferreras, MS Gordon - Journal of Chemical Theory and …, 2024 - ACS Publications
The SF-ORMAS-PDFT (spin-flip occupation restricted multiple active space-pair density
functional theory) approach combines the SF-ORMAS-CI method with the MC-PDFT method …

Very-Large-Scale GPU-Accelerated Nuclear Gradient of Time-Dependent Density Functional Theory with Tamm–Dancoff Approximation and Range-Separated Hybrid …

I Kim, D Jeong, LP Weisburn, A Alexiu… - Journal of Chemical …, 2024 - ACS Publications
Modern graphics processing units (GPUs) provide an unprecedented level of computing
power. In this study, we present a high-performance, multi-GPU implementation of the …

Preparation of Light‐responsive Unnatural RNA Bases via a Chromogenic Morita‐Baylis‐Hillman Adduct Path

M Lami, L Barneschi, M Saletti, M Olivucci… - …, 2024 - Wiley Online Library
RNA‐based tools for biological and pharmacological research are raising an increasing
interest. Among these, RNA aptamers whose biological activity can be controlled via …