Diffusion models in bioinformatics and computational biology

Z Guo, J Liu, Y Wang, M Chen, D Wang, D Xu… - Nature reviews …, 2024 - nature.com
Denoising diffusion models embody a type of generative artificial intelligence that can be
applied in computer vision, natural language processing and bioinformatics. In this Review …

Machine learning interatomic potentials and long-range physics

DM Anstine, O Isayev - The Journal of Physical Chemistry A, 2023 - ACS Publications
Advances in machine learned interatomic potentials (MLIPs), such as those using neural
networks, have resulted in short-range models that can infer interaction energies with near …

Accurate global machine learning force fields for molecules with hundreds of atoms

S Chmiela, V Vassilev-Galindo, OT Unke… - Science …, 2023 - science.org
Global machine learning force fields, with the capacity to capture collective interactions in
molecular systems, now scale up to a few dozen atoms due to considerable growth of model …

Surface stratification determines the interfacial water structure of simple electrolyte solutions

Y Litman, KY Chiang, T Seki, Y Nagata, M Bonn - Nature Chemistry, 2024 - nature.com
The distribution of ions at the air/water interface plays a decisive role in many natural
processes. Several studies have reported that larger ions tend to be surface-active, implying …

Atomistic understanding of two-dimensional electrocatalysts from first principles

X Zhao, ZH Levell, S Yu, Y Liu - Chemical Reviews, 2022 - ACS Publications
Two-dimensional electrocatalysts have attracted great interest in recent years for renewable
energy applications. However, the atomistic mechanisms are still under debate. Here we …

[HTML][HTML] A deep potential model with long-range electrostatic interactions

L Zhang, H Wang, MC Muniz… - The Journal of …, 2022 - pubs.aip.org
Machine learning models for the potential energy of multi-atomic systems, such as the deep
potential (DP) model, make molecular simulations with the accuracy of quantum mechanical …

How machine learning can accelerate electrocatalysis discovery and optimization

SN Steinmann, Q Wang, ZW Seh - Materials Horizons, 2023 - pubs.rsc.org
Advances in machine learning (ML) provide the means to bypass bottlenecks in the
discovery of new electrocatalysts using traditional approaches. In this review, we highlight …

Incorporating long-range electrostatics in neural network potentials via variational charge equilibration from shortsighted ingredients

Y Shaidu, F Pellegrini, E Küçükbenli, R Lot… - npj Computational …, 2024 - nature.com
We present a new approach to construct machine-learned interatomic potentials including
long-range electrostatic interactions based on a charge equilibration scheme. This new …

Machine learning force fields for molecular liquids: Ethylene Carbonate/Ethyl Methyl Carbonate binary solvent

IB Magdău, DJ Arismendi-Arrieta, HE Smith… - npj Computational …, 2023 - nature.com
Highly accurate ab initio molecular dynamics (MD) methods are the gold standard for
studying molecular mechanisms in the condensed phase, however, they are too expensive …

Universal machine learning for the response of atomistic systems to external fields

Y Zhang, B Jiang - Nature Communications, 2023 - nature.com
Abstract Machine learned interatomic interaction potentials have enabled efficient and
accurate molecular simulations of closed systems. However, external fields, which can …