Effectively leveraging prior knowledge of a system's physics is crucial for applications of machine learning to scientific domains. Previous approaches mostly focused on incorporating physical insights at the architectural level. In this paper, we propose a framework to leverage physical information directly into the loss function for prediction and generative modeling tasks on systems like molecules and spins. We derive energy loss functions assuming that each data sample is in thermal equilibrium with respect to an approximate energy landscape. By using the reverse KL divergence with a Boltzmann distribution around the data, we obtain the loss as an energy difference between the data and the model predictions.

Graph Neural Networks operate through bottom-up message-passing, fundamentally differing from human visual perception, which intuitively captures global structures first. We investigate the underappreciated potential of vision models for graph understanding, finding they achieve performance comparable to GNNs on established benchmarks while exhibiting distinctly different learning patterns. These divergent behaviors, combined with limitations of existing benchmarks that conflate domain features with topological understanding, motivate our introduction of GraphAbstract. This benchmark evaluates models' ability to perceive global graph properties as humans do: recognizing organizational archetypes, detecting symmetry, sensing connectivity strength, and identifying critical elements. Our results reveal that vision models significantly outperform GNNs on tasks requiring holistic structural understanding and maintain generalizability across varying graph scales, while GNNs struggle with global pattern abstraction and degrade with increasing graph size. This work demonstrates that vision models possess remarkable yet underutilized capabilities for graph structural understanding, particularly for problems requiring global topological awareness and scale-invariant reasoning. These findings open new avenues to leverage this underappreciated potential for developing more effective graph foundation models for tasks dominated by holistic pattern recognition.

We investigate the universal approximation property (UAP) of transformer-type architectures, providing a unified theoretical framework that extends prior results on residual networks to models incorporating attention mechanisms. Our work identifies token distinguishability as a fundamental requirement for UAP and introduces a general sufficient condition that applies to a broad class of architectures. Leveraging an analyticity assumption on the attention layer, we can significantly simplify the verification of this condition, providing a non-constructive approach in establishing UAP for such architectures. We demonstrate the applicability of our framework by proving UAP for transformers with various attention mechanisms, including kernel-based and sparse ones. The corollaries of our results either generalize prior works or establish UAP for architectures not previously covered. Furthermore, our framework offers a principled foundation for designing novel transformer architectures with inherent UAP guarantees, including those with specific functional symmetries. We propose examples to illustrate these insights.

Fast Fourier Transforms (FFT) are widely used to reduce memory and computational costs in deep learning. However, existing implementations, including standard FFT and real FFT (rFFT), cannot achieve true in-place computation.

In this work, we explore the trade-offs of explicit structural priors, particularly group-equivariance. We address this through theoretical analysis and a comprehensive empirical study focusing on point clouds. To enable controlled and fair comparisons, we introduce Rapidash, a unified group convolutional architecture that allows for different variants of equivariant and non-equivariant models. Our results suggest that more constrained equivariant models outperform less constrained alternatives when aligned with the geometry of the task, and increasing representation capacity does not fully eliminate performance gaps. We see improved performance of models with equivariance and symmetry-breaking through tasks like segmentation, regression, and generation across diverse datasets. Explicit symmetry breaking via geometric reference frames consistently improves performance, while breaking equivariance through geometric input features can be helpful when aligned with task geometry. Our results provide task-specific performance trends that offer a more nuanced way for model selection.

Learning dynamics is essential for model-based control and Reinforcement Learning in engineering systems, such as robotics and power systems.

In this paper, we examine the impact and significance of bias terms in Implicit Neural Representations (INRs). While bias terms are known to enhance nonlinear capacity by shifting activations in typical neural networks, we discover their functionality differs markedly in neural representation networks. Our analysis reveals that INR performance neither scales with increased number of bias terms nor shows substantial improvement through bias term gradient propagation. We demonstrate that bias terms in INRs primarily serve to eliminate spatial aliasing caused by symmetry from both coordinates and activation functions, with inputlayer bias terms yielding the most significant benefits. These findings challenge the conventional practice of implementing full-bias INR architecture. We propose using freezing bias terms exclusively in input layers, which consistently outperforms fully biased networks in signal fitting tasks. Furthermore, we introduce Feature-Biased INRs (Feat-Bias), which initialize input-layer bias with high-level features extracted from pre-trained models. This feature-biasing approach effectively addresses the limited performance in INR post-processing tasks due to neural parameter uninterpretability, achieving superior accuracy while reducing parameter count and improving reconstruction quality. Our code is available at this link.

Recently, equivariant neural networks for policy learning have shown promising improvements in sample efficiency and generalization, however, their wide adoption faces substantial barriers due to implementation complexity. Equivariant architectures typically require specialized mathematical formulations and custom network design, posing significant challenges when integrating with modern policy frameworks like diffusion-based models. In this paper, we explore a number of straightforward and practical approaches to incorporate symmetry benefits into diffusion policies without the overhead of full equivariant designs. Specifically, we investigate (i) invariant representations via relative trajectory actions and eye-inhand perception, (ii) integrating equivariant vision encoders, and (iii) symmetric feature extraction with pretrained encoders using Frame Averaging. We first prove that combining eye-in-hand perception with relative or delta action parameterization yields inherent SE(3)-invariance, thus improving policy generalization. We then perform a systematic experimental study on those design choices for integrating symmetry in diffusion policies, and conclude that an invariant representation with equivariant feature extraction significantly improves the policy performance. Our method achieves performance on par with or exceeding fully equivariant architectures while greatly simplifying implementation.

Molecular representation learning has emerged as a promising approach for modeling molecules with deep learning in chemistry and beyond. While 3D geometric models effectively capture molecular structure, they typically process single static conformers, overlooking the inherent flexibility and dynamics of molecules. In reality, many molecular properties depend on distributions of thermodynamically accessible conformations rather than single structures. Recent works show that learning from conformer ensembles can improve molecular representations, but existing approaches either produce unphysical structures through averaging or require restrictive molecular alignment. In this paper, we propose SymmetryPreserving Conformer Ensemble networks (SPiCE), which introduces two key innovations: (1) geometric mixture-of-experts for selective processing of scalar and vector features, and (2) hierarchical ensemble encoding that combines ensemblelevel representation with cross-conformer integration. Crucially, SPiCE ensures physically meaningful representations by maintaining joint equivariance to geometric transformations of individual conformers and conformer permutations. Extensive experiments demonstrate that SPiCE consistently outperforms existing conformer ensemble methods and state-of-the-art structural aggregation models across quantum mechanical and biological property prediction tasks.

With the rapid discovery of emergent phenomena in deep learning and large language models, understanding their cause has become an urgent need. Here, we propose a rigorous entropic-force theory for understanding the learning dynamics of neural networks trained with stochastic gradient descent (SGD) and its variants. Building on the theory of parameter symmetries and an entropic loss landscape, we show that representation learning is crucially governed by emergent entropic forces arising from stochasticity and discrete-time updates. These forces systematically break continuous parameter symmetries and preserve discrete ones, leading to a series of gradient balance phenomena that resemble the equipartition property of thermal systems. These phenomena, in turn, (a) explain the universal alignment of neural representations between AI models and lead to a proof of the Platonic Representation Hypothesis, and (b) reconcile the seemingly contradictory observations of sharpness-and flatness-seeking behavior of deep learning optimization. Our theory and experiments demonstrate that a combination of entropic forces and symmetry breaking is key to understanding emergent phenomena in deep learning.