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Chemical space is routinely explored by machine learning methods to discover interesting molecules, before time-consuming experimental synthesizing is attempted. However, these methods often rely on a graph representation, ignoring 3D…

The electronic structure of a material fundamentally determines its underlying physical, and by extension, its functional properties. Consequently, the ability to identify or generate materials with desired electronic properties would…

Materials Science · Physics 2025-04-09 Shuyi Jia , Panchapakesan Ganesh , Victor Fung

Generating molecular graphs is a challenging task due to their discrete nature and the competitive objectives involved. Diffusion models have emerged as SOTA approaches in data generation across various modalities. For molecular graphs,…

Machine Learning · Computer Science 2025-01-08 Prashanth Pombala , Gerrit Grossmann , Verena Wolf

We study unsupervised learning by developing introspective generative modeling (IGM) that attains a generator using progressively learned deep convolutional neural networks. The generator is itself a discriminator, capable of introspection:…

Computer Vision and Pattern Recognition · Computer Science 2017-04-26 Justin Lazarow , Long Jin , Zhuowen Tu

Molecules in equilibrium follow a Boltzmann distribution, making the underlying energy landscape a physically grounded modeling objective. However, such landscapes are difficult to learn from data and, once learned, hard to sample from.…

Machine Learning · Computer Science 2026-05-19 Christoph Griesbacher , Lea Bogensperger , Andreas Habring , Thomas Pock

Deep generative models have been applied with increasing success to the generation of two dimensional molecules as SMILES strings and molecular graphs. In this work we describe for the first time a deep generative model that can generate 3D…

Chemical Physics · Physics 2020-11-24 Tomohide Masuda , Matthew Ragoza , David Ryan Koes

We review recent studies dealing with the generation of machine learning models of molecular and solid properties. The models are trained and validated using standard quantum chemistry results obtained for organic molecules and materials…

Chemical Physics · Physics 2016-05-13 Raghunathan Ramakrishnan , O. Anatole von Lilienfeld

Global climate change has reduced crop resilience and pesticide efficacy, making reliance on synthetic pesticides inevitable, even though their widespread use poses significant health and environmental risks. While these pesticides remain a…

Machine Learning · Computer Science 2025-03-17 Taehan Kim , Wonduk Seo

Generative tasks about molecules, including but not limited to molecule generation, are crucial for drug discovery and material design, and have consistently attracted significant attention. In recent years, diffusion models have emerged as…

Machine Learning · Computer Science 2025-02-14 Liang Wang , Chao Song , Zhiyuan Liu , Yu Rong , Qiang Liu , Shu Wu , Liang Wang

Drug discovery using deep learning has attracted a lot of attention of late as it has obvious advantages like higher efficiency, less manual guessing and faster process time. In this paper, we present a novel neural network for generating…

Biomolecules · Quantitative Biology 2021-10-08 Abhinav Sagar

By pretraining to synthesize coherent images from perturbed inputs, generative models inherently learn to understand object boundaries and scene compositions. How can we repurpose these generative representations for general-purpose…

Computer Vision and Pattern Recognition · Computer Science 2026-04-06 Om Khangaonkar , Hamed Pirsiavash

Recent advances in generative modeling, namely Diffusion models, have revolutionized generative modeling, enabling high-quality image generation tailored to user needs. This paper proposes a framework for the generative design of structural…

Heralded by the initial success in speech recognition and image classification, learning-based approaches with neural networks, commonly referred to as deep learning, have spread across various fields. A primitive form of a neural network…

Robotics · Computer Science 2024-09-02 Takuma Yoneda

Molecule generation is a task made very difficult by the complex ways in which we represent molecules computationally. A common technique used in molecular generative modeling is to use SMILES strings with recurrent neural networks built…

Biomolecules · Quantitative Biology 2024-02-28 Divahar Sivanesan

Deep generative models have become ubiquitous due to their ability to learn and sample from complex distributions. Despite the proliferation of various frameworks, the relationships among these models remain largely unexplored, a gap that…

Machine Learning · Computer Science 2025-10-24 J. Quetzalcóatl Toledo-Marin , Anindita Maiti , Geoffrey C. Fox , Roger G. Melko

Conventional generative models for materials discovery are predominantly trained and validated using data from Density Functional Theory (DFT) with approximate exchange-correlation functionals. This creates a fundamental bottleneck: these…

Artificial Intelligence · Computer Science 2026-04-30 Mahule Roy

When designing new molecules with particular properties, it is not only important what to make but crucially how to make it. These instructions form a synthesis directed acyclic graph (DAG), describing how a large vocabulary of simple…

Machine Learning · Computer Science 2020-12-22 John Bradshaw , Brooks Paige , Matt J. Kusner , Marwin H. S. Segler , José Miguel Hernández-Lobato

The size and quality of chemical libraries to the drug discovery pipeline are crucial for developing new drugs or repurposing existing drugs. Existing techniques such as combinatorial organic synthesis and High-Throughput Screening usually…

Biomolecules · Quantitative Biology 2020-10-02 Brighter Agyemang , Wei-Ping Wu , Daniel Addo , Michael Y. Kpiebaareh , Ebenezer Nanor , Charles Roland Haruna

Development combines three basic processes asymmetric --- cell division, signaling and gene regulation --- in a multitude of ways to create an overwhelming diversity of multicellular life-forms. Here, we attempt to chart this diversity…

Molecular Networks · Quantitative Biology 2020-01-01 Somya Mani , Tsvi Tlusty

Deep generative models are increasingly used for molecular discovery, with most recent approaches relying on equivariant graph neural networks (GNNs) under the assumption that explicit equivariance is essential for generating high-quality…

Machine Learning · Computer Science 2025-07-15 Ewa M. Nowara , Joshua Rackers , Patricia Suriana , Pan Kessel , Max Shen , Andrew Martin Watkins , Michael Maser
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