Artificial intelligence for science in quantum, atomistic, and continuum systems

X Zhang, L Wang, J Helwig, Y Luo, C Fu, Y Xie… - arXiv preprint arXiv …, 2023 - arxiv.org
Advances in artificial intelligence (AI) are fueling a new paradigm of discoveries in natural
sciences. Today, AI has started to advance natural sciences by improving, accelerating, and …

Molecular quantum chemical data sets and databases for machine learning potentials

A Ullah, Y Chen, PO Dral - Machine Learning: Science and …, 2024 - iopscience.iop.org
The field of computational chemistry is increasingly leveraging machine learning (ML)
potentials to predict molecular properties with high accuracy and efficiency, providing a …

Score-based 3D molecule generation with neural fields

M Kirchmeyer, PO Pinheiro, S Saremi - arXiv preprint arXiv:2501.08508, 2025 - arxiv.org
We introduce a new representation for 3D molecules based on their continuous atomic
density fields. Using this representation, we propose a new model based on walk-jump …

Decipher Fundamental Atomic Interactions to Unify Generative Molecular Docking and Design

X Peng, R Guo, Y Xu, J Guan, Y Jia, Y Huang, M Zhang… - bioRxiv, 2024 - biorxiv.org
Atomic interactions are fundamental to molecular structures and functions. We constructed
PocketXMol, an all-atom AI model, to learn these interactions for general pocket-interacting …

Target-based de novo design of cyclic peptide binders

F Wang, T Zhang, J Zhu, X Zhang, C Zhang, L Lai - bioRxiv, 2025 - biorxiv.org
Cyclic peptides have become a new focus in drug discovery due to their ability to bind
challenging targets, including'undruggable'protein-protein interactions, with low toxicity …

Moltiverse: Molecular Conformer Generation Using Enhanced Sampling Methods

M Bedoya, F Adasme-Carreño, PA Peña-Martínez… - 2024 - chemrxiv.org
Accurately predicting the diverse bound-state conformations of small molecules is crucial for
successful drug discovery and design, particularly when detailed protein-ligand interactions …