Multimodal learning with graphs

Y Ektefaie, G Dasoulas, A Noori, M Farhat… - Nature Machine …, 2023 - nature.com
Artificial intelligence for graphs has achieved remarkable success in modelling complex
systems, ranging from dynamic networks in biology to interacting particle systems in physics …

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

X Zhang, L Wang, J Helwig, Y Luo, C Fu, Y **e… - 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 …

Efficient and equivariant graph networks for predicting quantum Hamiltonian

H Yu, Z Xu, X Qian, X Qian, S Ji - … Conference on Machine …, 2023 - proceedings.mlr.press
We consider the prediction of the Hamiltonian matrix, which finds use in quantum chemistry
and condensed matter physics. Efficiency and equivariance are two important, but conflicting …

A latent diffusion model for protein structure generation

C Fu, K Yan, L Wang, WY Au… - Learning on Graphs …, 2024 - proceedings.mlr.press
Proteins are complex biomolecules that perform a variety of crucial functions within living
organisms. Designing and generating novel proteins can pave the way for many future …

Molecule3d: A benchmark for predicting 3d geometries from molecular graphs

Z Xu, Y Luo, X Zhang, X Xu, Y **e, M Liu… - arxiv preprint arxiv …, 2021 - arxiv.org
Graph neural networks are emerging as promising methods for modeling molecular graphs,
in which nodes and edges correspond to atoms and chemical bonds, respectively. Recent …

Complete and efficient graph transformers for crystal material property prediction

K Yan, C Fu, X Qian, X Qian, S Ji - arxiv preprint arxiv:2403.11857, 2024 - arxiv.org
Crystal structures are characterized by atomic bases within a primitive unit cell that repeats
along a regular lattice throughout 3D space. The periodic and infinite nature of crystals …

Semi-Supervised Learning for High-Fidelity Fluid Flow Reconstruction

C Fu, J Helwig, S Ji - Learning on Graphs Conference, 2024 - proceedings.mlr.press
Physical simulations of fluids are crucial for understanding fluid dynamics across many
applications, such as weather prediction and engineering design. While high-resolution …

PointGAT: A quantum chemical property prediction model integrating graph attention and 3D geometry

R Zhang, R Yuan, B Tian - Journal of Chemical Theory and …, 2024 - ACS Publications
Predicting quantum chemical properties is a fundamental challenge for computational
chemistry. While the development of graph neural networks has advanced molecular …

3D Molecular Geometry Analysis with 2D Graphs

Z Xu, Y **e, Y Luo, X Zhang, X Xu, M Liu… - Proceedings of the 2024 …, 2024 - SIAM
Ground-state 3D geometries of molecules are essential for many molecular analysis tasks.
Modern quantum mechanical methods can compute accurate 3D geometries but are …

Structure-Aware E (3)-Invariant Molecular Conformer Aggregation Networks

DMH Nguyen, N Lukashina, T Nguyen, AT Le… - arxiv preprint arxiv …, 2024 - arxiv.org
A molecule's 2D representation consists of its atoms, their attributes, and the molecule's
covalent bonds. A 3D (geometric) representation of a molecule is called a conformer and …