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Generation of molecules with desired chemical and biological properties such as high drug-likeness, high binding affinity to target proteins, is critical for drug discovery. In this paper, we propose a probabilistic generative model to…

Biomolecules · Quantitative Biology 2023-07-12 Deqian Kong , Bo Pang , Tian Han , Ying Nian Wu

With the advent of score-matching techniques for model training and Langevin dynamics for sample generation, energy-based models (EBMs) have gained renewed interest as generative models. Recent EBMs usually use neural networks to define…

Machine Learning · Computer Science 2025-05-05 Yukun Li , Li-Ping Liu

Electron density $\rho(\vec{r})$ is the fundamental variable in the calculation of ground state energy with density functional theory (DFT). Beyond total energy, features and changes in $\rho(\vec{r})$ distributions are often used to…

Computational Physics · Physics 2022-08-30 Peter Bjørn Jørgensen , Arghya Bhowmik

The electron density of a molecule or material has recently received major attention as a target quantity of machine-learning models. A natural choice to construct a model that yields transferable and linear-scaling predictions is to…

Chemical Physics · Physics 2022-06-29 Andrea Grisafi , Alan M. Lewis , Mariana Rossi , Michele Ceriotti

One of the fundamental problems in machine learning is the estimation of a probability distribution from data. Many techniques have been proposed to study the structure of data, most often building around the assumption that observations…

Machine Learning · Statistics 2013-02-22 Oren Rippel , Ryan Prescott Adams

Stein variational gradient decent (SVGD) has been shown to be a powerful approximate inference algorithm for complex distributions. However, the standard SVGD requires calculating the gradient of the target density and cannot be applied…

Machine Learning · Statistics 2018-06-08 Jun Han , Qiang Liu

This paper proposes the divergence triangle as a framework for joint training of generator model, energy-based model and inference model. The divergence triangle is a compact and symmetric (anti-symmetric) objective function that seamlessly…

Machine Learning · Statistics 2019-02-01 Tian Han , Erik Nijkamp , Xiaolin Fang , Mitch Hill , Song-Chun Zhu , Ying Nian Wu

This paper presents a physics-informed neural network approach for dynamic modeling of saturable synchronous machines, including cases with spatial harmonics. We introduce an architecture that incorporates gradient networks directly into…

Systems and Control · Electrical Eng. & Systems 2026-02-17 Junyi Li , Tim Foissner , Floran Martin , Antti Piippo , Marko Hinkkanen

Global Autoregressive Models (GAMs) are a recent proposal [Parshakova et al., CoNLL 2019] for exploiting global properties of sequences for data-efficient learning of seq2seq models. In the first phase of training, an Energy-Based model…

Machine Learning · Computer Science 2019-12-19 Tetiana Parshakova , Jean-Marc Andreoli , Marc Dymetman

We propose AEGD, a new algorithm for first-order gradient-based optimization of non-convex objective functions, based on a dynamically updated energy variable. The method is shown to be unconditionally energy stable, irrespective of the…

Optimization and Control · Mathematics 2021-10-04 Hailiang Liu , Xuping Tian

This paper introduces Distributed Stein Variational Gradient Descent (DSVGD), a non-parametric generalized Bayesian inference framework for federated learning. DSVGD maintains a number of non-random and interacting particles at a central…

Machine Learning · Computer Science 2021-03-31 Rahif Kassab , Osvaldo Simeone

Graph neural networks (GNNs) have shown promise in learning unstructured mesh-based simulations of physical systems, including fluid dynamics. In tandem, geometric deep learning principles have informed the development of equivariant…

Stein Variational Gradient Descent (SVGD) is an important alternative to the Langevin-type algorithms for sampling from probability distributions of the form $\pi(x) \propto \exp(-V(x))$. In the existing theory of Langevin-type algorithms…

Statistics Theory · Mathematics 2022-06-02 Lukang Sun , Avetik Karagulyan , Peter Richtarik

Stein Variational Gradient Descent (SVGD) is a deterministic interacting-particle method for sampling from a target probability measure given access to its score function. In the mean-field and continuous-time limit, it is known that the…

Machine Learning · Statistics 2026-05-12 Lénaïc Chizat , Maria Colombo , Roberto Colombo , Xavier Fernández-Real

The design of novel materials hinges on the understanding of structure-property relationships. However, in recent times, our capability to synthesize a large number of materials has outpaced our speed at characterizing them. While the…

Bayesian inference plays an important role in advancing machine learning, but faces computational challenges when applied to complex models such as deep neural networks. Variational inference circumvents these challenges by formulating…

Machine Learning · Statistics 2018-08-03 Mohammad Emtiyaz Khan , Didrik Nielsen

Deep convolutional neural networks achieve remarkable performance by exhaustively processing dense spatial feature maps, yet this brute-force strategy introduces significant computational redundancy and encourages reliance on spurious…

Computer Vision and Pattern Recognition · Computer Science 2026-04-15 Tom Devynck , Bilal Faye , Djamel Bouchaffra , Nadjib Lazaar , Hanane Azzag , Mustapha Lebbah

Given a collection of images, humans are able to discover landmarks by modeling the shared geometric structure across instances. This idea of geometric equivariance has been widely used for the unsupervised discovery of object landmark…

Computer Vision and Pattern Recognition · Computer Science 2021-04-06 Zezhou Cheng , Jong-Chyi Su , Subhransu Maji

Equivariant Graph Neural Networks (eGNNs) trained on density-functional theory (DFT) data can potentially perform electronic structure prediction at unprecedented scales, enabling investigation of the electronic properties of materials with…

Machine Learning · Computer Science 2025-07-08 Manasa Kaniselvan , Alexander Maeder , Chen Hao Xia , Alexandros Nikolaos Ziogas , Mathieu Luisier

Symmetry is ubiquitous in many real-world phenomena and tasks, such as physics, images, and molecular simulations. Empirical studies have demonstrated that incorporating symmetries into generative models can provide better generalization…

Machine Learning · Statistics 2026-05-12 Ziyu Chen , Markos A. Katsoulakis , Benjamin J. Zhang