Explaining the explainers in graph neural networks: a comparative study

A Longa, S Azzolin, G Santin, G Cencetti, P Liò… - ACM Computing …, 2025 - dl.acm.org
Following a fast initial breakthrough in graph-based learning, Graph Neural Networks
(GNNs) have reached a widespread application in many science and engineering fields …

AbDiffuser: full-atom generation of in-vitro functioning antibodies

K Martinkus, J Ludwiczak, WC Liang… - Advances in …, 2024 - proceedings.neurips.cc
We introduce AbDiffuser, an equivariant and physics-informed diffusion model for the joint
generation of antibody 3D structures and sequences. AbDiffuser is built on top of a new …

Reducing SO (3) convolutions to SO (2) for efficient equivariant GNNs

S Passaro, CL Zitnick - International Conference on Machine …, 2023 - proceedings.mlr.press
Graph neural networks that model 3D data, such as point clouds or atoms, are typically
desired to be $ SO (3) $ equivariant, ie, equivariant to 3D rotations. Unfortunately …

Faenet: Frame averaging equivariant gnn for materials modeling

AA Duval, V Schmidt… - International …, 2023 - proceedings.mlr.press
Applications of machine learning techniques for materials modeling typically involve
functions that are known to be equivariant or invariant to specific symmetries. While graph …

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 …

Equivariance with learned canonicalization functions

SO Kaba, AK Mondal, Y Zhang… - International …, 2023 - proceedings.mlr.press
Symmetry-based neural networks often constrain the architecture in order to achieve
invariance or equivariance to a group of transformations. In this paper, we propose an …

Sign and basis invariant networks for spectral graph representation learning

D Lim, J Robinson, L Zhao, T Smidt, S Sra… - arxiv preprint arxiv …, 2022 - arxiv.org
We introduce SignNet and BasisNet--new neural architectures that are invariant to two key
symmetries displayed by eigenvectors:(i) sign flips, since if $ v $ is an eigenvector then so is …

Equivariant polynomials for graph neural networks

O Puny, D Lim, B Kiani, H Maron… - … on Machine Learning, 2023 - proceedings.mlr.press
Abstract Graph Neural Networks (GNN) are inherently limited in their expressive power.
Recent seminal works (Xu et al., 2019; Morris et al., 2019b) introduced the Weisfeiler …

Smooth, exact rotational symmetrization for deep learning on point clouds

S Pozdnyakov, M Ceriotti - Advances in Neural Information …, 2024 - proceedings.neurips.cc
Point clouds are versatile representations of 3D objects and have found widespread
application in science and engineering. Many successful deep-learning models have been …

Equivariant adaptation of large pretrained models

AK Mondal, SS Panigrahi, O Kaba… - Advances in …, 2023 - proceedings.neurips.cc
Equivariant networks are specifically designed to ensure consistent behavior with respect to
a set of input transformations, leading to higher sample efficiency and more accurate and …